[galaxy-dev] [hg] galaxy 3240: Modification of pileup filter behavior, bases ...

22 Jan 2010

details:   http://www.bx.psu.edu/hg/galaxy/rev/be8f54671d56
changeset: 3240:be8f54671d56
user:      Anton Nekrutenko <anton@bx.psu.edu>
date:      Thu Jan 14 14:07:05 2010 -0500
description:
Modification of pileup filter behavior, bases not different from the references are included in the report as well. Also changed the image for closing screencast panels. A new icon is urgently needed.

diffstat:

 static/scripts/galaxy.panels.js                       |     2 +-
 static/welcome.html                                   |   158 ++-
 test-data/pileup_parser.10col.20-3-yes-yes.pileup.out |   162 +-
 test-data/pileup_parser.6col.20-3-no-no.pileup.out    |  1174 ++++++++--------
 test-data/pileup_parser.6col.20-3-yes-no.pileup.out   |     2 +-
 test-data/pileup_parser.6col.20-3-yes-yes.pileup.out  |     2 +-
 tools/samtools/pileup_parser.pl                       |     4 +-
 tools/samtools/pileup_parser.xml                      |     6 +-
 8 files changed, 822 insertions(+), 688 deletions(-)

diffs (1586 lines):

diff -r 517bd810a6b2 -r be8f54671d56 static/scripts/galaxy.panels.js

--- a/static/scripts/galaxy.panels.js	Thu Jan 14 11:26:08 2010 -0500
+++ b/static/scripts/galaxy.panels.js	Thu Jan 14 14:07:05 2010 -0500
@@ -210,7 +210,7 @@
         hide_modal();
         $("#overlay-background").unbind( "click.overlay" );
     });
-    show_modal( null, $("<div style='margin: -5px;'><img id='close_button' style='position:absolute;right:3px;top:3px;' src='../images/icon_error_sml.gif'><iframe style='margin: 0; padding: 0;' src='" + options.url + "' width='" + width + "' height='" + height + "' scrolling='" + scroll + "' frameborder='0'></iframe></div>" ) );
+    show_modal( null, $("<div style='margin: -5px;'><img id='close_button' style='position:absolute;right:-12px;top:-12px;' src='../images/delete_icon.png'><iframe style='margin: 0; padding: 0;' src='" + options.url + "' width='" + width + "' height='" + height + "' scrolling='" + scroll + "' frameborder='0'></iframe></div>" ) );
     $("#close_button").bind( "click", function() { hide_modal() } );
 }
     
diff -r 517bd810a6b2 -r be8f54671d56 static/welcome.html
--- a/static/welcome.html	Thu Jan 14 11:26:08 2010 -0500
+++ b/static/welcome.html	Thu Jan 14 14:07:05 2010 -0500
@@ -2,20 +2,152 @@
 <!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
 <html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
 <head>
-    <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
-    <link rel="stylesheet" href="style/base.css" type="text/css" />
+<meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
+<meta name="generator" content="Docutils 0.3.9: http://docutils.sourceforge.net/" />
+<link rel="stylesheet" href="style/base.css" type="text/css" />
+<style type="text/css">
+
+      .quickie {
+	    text-align: center;
+	    background: black;
+	    margin: 10px;
+      }
+
+      .current-quickie {
+	    width: 300px;
+	    background: white;
+	    margin: auto;
+      }
+      
+      .current-quickie img { 
+        padding: 15px; 
+        border: 1px solid #ccc; 
+        margin: auto; 
+        background-color: white; 
+        	-moz-border-radius:4px;
+	-webkit-border-radius:4px;
+
+       }
+      
+      .previous {
+	    width: 100%;
+	    overflow: auto;
+	    border: solid #ccc 1px;
+	    	-moz-border-radius:4px;
+	-webkit-border-radius:4px;
+
+      }
+      .previous .quickie {
+	    padding-top: 10px;
+	    min-height: 90px;
+	    min-width: 150px;
+      }
+      #screencasts {
+	    max-width: 50em;
+	    margin-left: auto;
+	    margin-right: auto;
+      }
+
+</style>
+<script type="text/javascript" src="http://galaxy.psu.edu/welcome_img/jquery.min.js"></script>
+<script type="text/javascript" src="http://galaxy.psu.edu/welcome_img/jquery.cycle.all.2.72.js"></script>
+<script type="text/javascript">
+
+$(document).ready(function() {
+    $('.current-quickie').cycle({
+		fx: 'fade', 
+		pause: 1,
+		speed: 100
+	});
+});
+</script>
 </head>
 <body>
-    <div class="document">
-        <div class="warningmessagelarge">
-            <strong>Hello world! It's running...</strong>
-            <hr>
-            To customize this page edit <code>static/welcome.html</code>
-        </div>
-        <br/>
-        <img src="images/noodles.png" alt="WWFSMD?" style="display: block; margin-left: auto; margin-right: auto;" />
-        <hr/>
-        This project is supported in part by <a target="_blank" class="reference" href="http://www.nsf.gov">NSF</a>, <a target="_blank" class="reference" href="http://www.genome.gov">NHGRI</a>, and <a target="_blank" class="reference" href="http://www.huck.psu.edu">the Huck Institutes of the Life Sciences</a>.
-    </div>
+<div class="document">
+<h3 align="center">Galaxy in 2010...</h3>
+<div align="center" class="current-quickie">
+		<a target="_blank" href="http://galaxy.psu.edu/dev2010/"><img src="http://galaxy.psu.edu/welcome_img/welcome_images.001.png" width="300" height="200"/></a>
+		<a target="_blank" href="http://www.iscb.org/ismb2010"><img src="http://galaxy.psu.edu/welcome_img/welcome_images.002.png" width="300" height="200" /></a>
+		<img src="http://galaxy.psu.edu/welcome_img/welcome_images.003.png" width="300" height="200" />
+		<img src="http://galaxy.psu.edu/welcome_img/welcome_images.004.png" width="300" height="200" />
+		<a target="_blank" href="http://main.g2.bx.psu.edu/u/aun1/p/windshield-splatter"><img src="http://galaxy.psu.edu/welcome_img/welcome_images.005.png" width="300" height="200" /></a>
+</div>
+<br>
+<hr>
+
+<h3 align="center">Galaxy Quickies</h3>
+
+<div class="previous" id="previous">
+        <table border="0" cellpadding="0" cellspacing="0" width="100%">
+            <tr>
+                <td>
+                    <a href="javascript:parent.show_in_overlay({url:'http://screencast.g2.bx.psu.edu/galaxy/quickie1_TabSeq/flow.html',width:640,height:480,scroll:'no'})">
+	                   <div class="quickie">
+                        <img src="images/qk/quickie1_small.png" border="0">
+	                   </div>
+                    </a>
+                </td>
+                <td>
+                    <a href="javascript:parent.show_in_overlay({url:'http://screencast.g2.bx.psu.edu/galaxy/quickie2_Grouping/flow.html',width:640,height:480,scroll:'no'})">
+	                   <div class="quickie">
+                        <img src="images/qk/quickie2_small.png" border="0">
+	                   </div>
+                    </a>
+                </td>
+                <td>
+                    <a href="javascript:parent.show_in_overlay({url:'http://screencast.g2.bx.psu.edu/galaxy/quickie3_Intervals/flow.html',width:640,height:480,scroll:'no'})">
+	                   <div class="quickie">
+                        <img src="images/qk/quickie3_small.png" border="0">
+	                   </div>
+                    </a>
+                </td>
+                <td>
+                    <a href="javascript:parent.show_in_overlay({url:'http://screencast.g2.bx.psu.edu/galaxy/quickie4_whatsNew/flow.html',width:640,height:480,scroll:'no'})">
+	                   <div class="quickie">
+                        <img src="images/qk/quickie4_small.png" border="0">
+	                   </div>
+                    </a>
+                </td>
+                <td>
+                    <a href="javascript:parent.show_in_overlay({url:'http://screencast.g2.bx.psu.edu/galaxy/quickie5_join/flow.html',width:640,height:480,scroll:'no'})">
+	                   <div class="quickie">
+                        <img src="images/qk/quickie5_small.png" border="0">
+	                   </div>
+                    </a>
+                </td>
+                <td>
+                    <a href="javascript:parent.show_in_overlay({url:'http://screencast.g2.bx.psu.edu/galaxy/quickie6_share/flow.html',width:640,height:480,scroll:'no'})">
+	                   <div class="quickie">
+                        <img src="images/qk/quickie6_small.png" border="0">
+	                   </div>
+                    </a>
+                </td>
+                <td>
+                    <a href="javascript:parent.show_in_overlay({url:'http://screencast.g2.bx.psu.edu/galaxy/quickie7_sr_beta/flow.html',width:640,height:480,scroll:'no'})">
+	                   <div class="quickie">
+                        <img src="images/qk/quickie7_small.png" border="0">
+	                   </div>
+                    </a>
+                </td>
+            </tr>
+      </table>
+</div>
+
+<script type="text/javascript">
+      // Scroll to last quickie in box
+      document.getElementById("previous").scrollLeft = 100000000;
+</script>
+
+<br/>
+<br/>
+<br/>
+<hr/>
+
+<p><a target="_blank" class="reference" href="http://g2.trac.bx.psu.edu/wiki/GalaxyTeam">The Galaxy team</a> is a part of <a target="_blank" class="reference" href="http://www.bx.psu.edu">BX</a> at <a target="_blank" class="reference" href="http://www.psu.edu">Penn State</a>.</p>
+
+This project is supported in part by <a target="_blank" class="reference" href="http://www.nsf.gov">NSF</a>, <a target="_blank" class="reference" href="http://www.genome.gov">NHGRI</a>, and <a target="_blank" class="reference" href="http://www.huck.psu.edu">the Huck Institutes of the Life Sciences</a>.
+<p><small>Galaxy build: <b>$Rev 1733:a4214de3752e$</b></small></p>
+</div>
+</div>
 </body>
 </html>
diff -r 517bd810a6b2 -r be8f54671d56 test-data/pileup_parser.10col.20-3-yes-yes.pileup.out
--- a/test-data/pileup_parser.10col.20-3-yes-yes.pileup.out	Thu Jan 14 11:26:08 2010 -0500
+++ b/test-data/pileup_parser.10col.20-3-yes-yes.pileup.out	Thu Jan 14 14:07:05 2010 -0500
@@ -1,86 +1,86 @@
-chrM	13	14	A	A	56	0	25	18	.......G.........^:.	BIIIIIII+IIIIIIIII	0	0	1	0	17
-chrM	18	19	T	T	55	0	25	20	..................GG	IIIIIIIIIIIIIIIIII'A	0	0	1	0	19
-chrM	35	36	A	A	103	0	25	30	.$..N...G.....C...............^:.	7:>"EIIIEI5><$C7B?B=IIIIIIIIII	0	0	1	0	28
-chrM	58	59	A	A	50	0	24	16	...............C	IB20III:<DIII#II	0	1	0	0	13
-chrM	59	60	C	C	50	0	24	16	.$.............A.	I?>=IIIIIIIIIIBI	1	0	0	0	16
+chrM	13	14	A	A	56	0	25	18	.......G.........^:.	BIIIIIII+IIIIIIIII	16	0	1	0	17
+chrM	18	19	T	T	55	0	25	20	..................GG	IIIIIIIIIIIIIIIIII'A	0	0	1	18	19
+chrM	35	36	A	A	103	0	25	30	.$..N...G.....C...............^:.	7:>"EIIIEI5><$C7B?B=IIIIIIIIII	27	0	1	0	28
+chrM	58	59	A	A	50	0	24	16	...............C	IB20III:<DIII#II	12	1	0	0	13
+chrM	59	60	C	C	50	0	24	16	.$.............A.	I?>=IIIIIIIIIIBI	1	15	0	0	16
 chrM	157	158	A	G	117	117	19	62	GGGGGGGGGGGGGGGGGGGNNNGGGGGG.GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGg^:g	II6IIII<4I+IIIIIIII"""IIIIII$IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII>	0	0	56	0	56
-chrM	170	171	T	T	141	0	21	46	.$.$.$.$.$.....................................,,.^:G	IIIII=>IIIIIIIIIIIIIIDDII7IGIIIIIHIIIIIIIIIBI8	0	0	1	0	46
-chrM	172	173	A	A	130	0	20	42	.$.$...C...............................,,...	914HG841?IA0III:IB@>;@FIIIIIIIEIIBII;IIIII	0	1	0	0	37
-chrM	173	174	A	A	122	0	21	40	.$.$..........C......................,,...	?DCI?@I7C5I*I9C9IIIE?C>::I8IIIIIIIIIIIII	0	1	0	0	39
-chrM	187	188	A	A	36	0	21	13	G$.$.$....,,....	II5II5,IIIIII	0	0	1	0	12
-chrM	195	196	T	T	17	0	19	5	G....	<IIII	0	0	1	0	5
-chrM	284	285	G	G	34	0	15	11	....T....^!.^!.	IIIIIIIIIII	0	0	0	1	11
-chrM	285	286	T	T	33	0	15	11	..C..N.A...	AI&II"II(II	1	0	0	0	8
-chrM	303	304	G	G	41	0	18	13	...A....,.,.,	IIIIIIIIIIII*	1	0	0	0	12
-chrM	310	311	T	T	41	0	18	13	.$...C...,.,.,	IIIIIIIIIIII*	0	1	0	0	12
-chrM	347	348	T	T	4	0	20	3	,$.$A	IIA	1	0	0	0	3
-chrM	354	355	A	C	14	36	25	4	.ccc	IIII	0	3	0	0	4
+chrM	170	171	T	T	141	0	21	46	.$.$.$.$.$.....................................,,.^:G	IIIII=>IIIIIIIIIIIIIIDDII7IGIIIIIHIIIIIIIIIBI8	0	0	1	45	46
+chrM	172	173	A	A	130	0	20	42	.$.$...C...............................,,...	914HG841?IA0III:IB@>;@FIIIIIIIEIIBII;IIIII	36	1	0	0	37
+chrM	173	174	A	A	122	0	21	40	.$.$..........C......................,,...	?DCI?@I7C5I*I9C9IIIE?C>::I8IIIIIIIIIIIII	38	1	0	0	39
+chrM	187	188	A	A	36	0	21	13	G$.$.$....,,....	II5II5,IIIIII	11	0	1	0	12
+chrM	195	196	T	T	17	0	19	5	G....	<IIII	0	0	1	4	5
+chrM	284	285	G	G	34	0	15	11	....T....^!.^!.	IIIIIIIIIII	0	0	10	1	11
+chrM	285	286	T	T	33	0	15	11	..C..N.A...	AI&II"II(II	1	0	0	7	8
+chrM	303	304	G	G	41	0	18	13	...A....,.,.,	IIIIIIIIIIII*	1	0	11	0	12
+chrM	310	311	T	T	41	0	18	13	.$...C...,.,.,	IIIIIIIIIIII*	0	1	0	11	12
+chrM	347	348	T	T	4	0	20	3	,$.$A	IIA	1	0	0	2	3
+chrM	354	355	A	C	14	36	25	4	.ccc	IIII	1	3	0	0	4
 chrM	355	356	T	C	39	39	25	4	Cccc	IIII	0	4	0	0	4
 chrM	380	381	C	T	77	108	25	28	tttttttTttttgttttttttttt^:t^:t^:t^:t	IIIIIIIIIIII&I7CI>BCA296+IA1	0	0	0	24	24
-chrM	383	384	A	A	76	0	25	30	,,,,,,,.,c,,g,,,,,,,g,,,,,,g,.	IIIIIIIIIIII$IIIIIII$IIIIF,4II	0	1	0	0	26
+chrM	383	384	A	A	76	0	25	30	,,,,,,,.,c,,g,,,,,,,g,,,,,,g,.	IIIIIIIIIIII$IIIIIII$IIIIF,4II	25	1	0	0	26
 chrM	385	386	A	G	88	120	25	32	gggggggGggnggggggggggggggggggGgg	III>IIIIII"I&IIIIIIIIIIII?IIDI94	0	0	29	0	29
 chrM	414	415	C	T	75	75	25	16	t$t$tttttTttttTTTT	IIIIIII>II93IIII	0	0	0	15	15
-chrM	464	465	C	C	169	0	25	65	,.............,,.....A.,......,..............,,,..........,a...,^:A	IIIIBI>H1IIIIB$)IIIII$IIIIIIIIII0IIIII6IIIIIIHIIIIIIIIIIIII&IIICI	1	0	0	0	59
-chrM	468	469	T	T	207	0	25	66	.$.$.$.........,,.......,......,..............,n,..........,,...,G...	III>I44EIIICI@IIEDC$IBIIII(IIIIDIIII@IIIIII1"0IIII%IIIIII1III7IIII	0	0	1	0	57
-chrM	471	472	C	C	187	0	25	72	.$.$.....,t.......,....A.,..............,a,..........,a...,A.......,,^:.^:.^:.^:.^:.	I@IIIIII&IIIFG6IIIIII$IIIIIIIII$IIFIIII:IIIIIIIIIIII%IIII,IIIIII/I-IIIII	1	0	0	0	65
-chrM	490	491	C	C	212	0	23	79	..n,,....A.....,,...,........t,.....,....,..........,....,.,,...,.....,,..,.,.,	II"IIIIII&II:IIIIIIII(II@HIII;IIIIIIIIIIIIIIIIII?IIIIIIIIIIFIIIIIIIIIII+IIII3II	0	0	0	1	74
-chrM	506	507	A	A	150	0	21	76	.$.$.$.$C$,....,..........c....,.,,...,.....,,..,.,.,,,,...,,,..,,....,,.,....^:.^:,^:,	/I:3&I33.;I,./<G=I?IIIAIIIIIIIDI*IIIIIIIIIIIHDIIIIIIII=DIIIICIIII@IIIIII(I@6	0	1	0	0	65
-chrM	510	511	C	C	213	0	21	72	.$.$.$....,....,.,,...,.....,,..,.,.,,,,...,,,..,,....,,.,...A.,,..,,,,,,,^:,	III@/IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIGHIIIIIICIIEII6II/562I	1	0	0	0	69
-chrM	526	527	A	A	164	0	22	58	,,,...,,,..,,....,,.,.....,,..,,,,,,,,,..,,,..C,,,,,.,,,,,	III3I=III;/II7I24II3I'II9IIIFIIIIIIIIIIIIIIIIIIIIIIIIIIIII	0	1	0	0	52
-chrM	527	528	A	A	164	0	22	58	g$,$,...,,,..,,....,,.,.....,,..,,,,,,,,,..,,,...,,,,,.,,,,,	IIIF$9IIIIIII0A6(II4I+FI%:II4=IIIII'IIIIIIIIIIIIIIII3IIIII	0	0	1	0	49
-chrM	536	537	A	A	138	0	23	49	.c,.,.....,,..,,,,,,,,,..,,,...,,,,,.,,,,,.,,,,,,	7II+I$0I8III/@IIIIIIIIIIIIIIIIIIIIIIIIIIIIII4I46I	0	1	0	0	43
-chrM	557	558	T	T	83	0	23	27	,$,$,$.,,,,,.,,,,,,.,.,....G.^:.	III+IIIIIII>IHDIG4I4IIIIIII	0	0	1	0	24
-chrM	606	607	G	G	105	0	24	43	..............,....T..T..................^:.^!,	BI-&*1&6IIIGIIII%;9I.;>IIIIIIIIIIIIIIIIIII3	0	0	0	2	35
-chrM	618	619	T	T	117	0	24	48	,.........C..C..............,...........N..,...^:.	I2&-+)(4I+>CI$&I15@IIIIIIIII,IIIIIIIIIII"II5IIII	0	1	0	0	35
-chrM	627	628	G	G	108	0	22	57	.$...........A........,..............,................A^!.^!.^:.	5GI<=4;>G=I<%IIIIII.IIII'IIIIIIII$IIIIIIIIIIIIIIIIIIIIIII	1	0	0	0	52
-chrM	659	660	C	C	166	0	19	58	.$.$.............,...n,.,,......,......................a,...	/CII>9@II277IIII9II"IIIIIIFIIIIIIBIIIIIIIIIIIIIIII$II7IIII	1	0	0	0	54
-chrM	668	669	C	C	135	0	19	42	.$,$,$......,.....................Ga,......,^:.	IIIIIII@IIFI@IIIIIIIII;IIIIHIII56IIIIIIIAI	1	0	1	0	42
-chrM	713	714	A	A	127	0	23	96	...,..C.....................,......................,............................C...........^:.^:.^:.^:.	67'II>(IIIAFI<IIIII?I$EI>GAGII4III8IIDIIIDIIIFIIIIG$IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII	0	1	0	0	91
-chrM	719	720	T	T	130	0	24	96	.....C...........,...C.....G............,............G....................A...................^:.^:.	D?76/$I'@'<,I7;I<I5GI'H+B.3%;=<3II1CGIIB@FII8@II0II4II$IIIII537IIIIIIIIIII#IIIIIIIII=III$IIIIIII	0	0	1	0	78
-chrM	736	737	A	A	98	0	24	98	.$.$.$..............................C................T.......................C..................^:.^:.^:.^:.^:.	AI709I4I>IDII.7IIC+938AEC5?IDIC5I*IIII7I21?5B1AIII#IIIIIIIIIIAIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII	0	1	0	0	88
-chrM	747	748	A	A	97	0	25	86	.$.$C$.$.$.$.$.$.$.........................................................................^:.^:.^:.^:.	?DIIIII<I8I@>B2IIFB%IIIIIIHIII;4III3IIIEEIIIIIIIIIIIIIIIIIIIIIIIIII$IIIIIIIIIIII@IIIII	0	1	0	0	81
-chrM	749	750	A	A	93	0	25	77	.$.$............................C......C......................................^:.	I2GII,II%@IAIIIII9IIIIIIIIIDII>I>II=IIIIIIIIIIIIIIIIIIIIIIIII8IIIII.IIIIIIIII	0	2	0	0	73
-chrM	759	760	T	T	106	0	25	86	A$.....A..............G........................A........G........................^:.^:.^:.^:.^:.^:.	#6<EF9$330.II4*;EII7+$I;II:3IICB4073I6;IEIIII5+II@IIIII:I+IIIIIIIIIIIIIIIIIIIIIIIIIIII	0	0	1	0	70
-chrM	762	763	A	A	99	0	25	83	N........................................................................C.........	"IC:6,1III=CIIIIB6GIII7G<DI>IIIIII8IIII$IHIII=I&IIIIIIIIIIIIIIIIIIIIIIII39IIIIIIIII	0	1	0	0	77
-chrM	763	764	G	G	107	0	25	86	.$.$.$.$.$.$.$.$T$.....NN......................................AN...........................^:.^:.^:.	9I9I@8I4-I7IC&""=&=I+II=>I>IIIIIIIIIIIII@IIII+IIIIIIIII"II%IIIII@IIIIIIIIIIIIIIIIIIIII	1	0	0	0	76
-chrM	764	765	G	G	88	0	25	77	.$.$.$.$.$.T..T.T............................................N....................	:,I;&I7D.%I'III<HD7IIIII*CIIIIIIIIII%IIIIIIIIIIIIIIIHIII"IIIIIIIIIIIIIIIIIIII	0	0	0	1	69
-chrM	767	768	T	T	102	0	25	71	.$.$................................A....................................	&IBGII@5ICF>0?BII2IIIIII@+II;IEIII7I,III8IIIIIIIIIIIE@IIIIIIII8IIIIIIII	1	0	0	0	66
-chrM	777	778	G	G	108	0	25	63	.$.$...T.....C......T...................T.......................^:.	AG(II$IIIII&6BIII:'IIIII9IIIII=IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII	0	0	0	1	59
-chrM	784	785	A	A	99	0	25	63	.$.........................................................C...^:.	II/+III%I.4IE:6..;8+I$B@II2IIIIDI@0IIIEGIFIIIIIIIIIIIIIIIICIIII	0	1	0	0	52
-chrM	790	791	G	G	155	0	25	60	.......T.............................................,..,.^:T^:,	7III5II$IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII%4II/	0	0	0	1	56
-chrM	794	795	T	T	212	0	25	74	.$.$.$.$.$.$...A....................................N.,..,..,.,,,,,,,.,,,^:.^:,^:,^!.^:.^:,^:,	II$IIIIII9I9@IIDIIIIIIIIIIIIIIIIIIIIIIIIIIIIII"IIIIIII*IB$I#%#II$2$II:II4I	1	0	0	0	63
-chrM	807	808	C	C	226	0	22	132	.$..............NN........N,..,..,.,,,,,,,.,aa.,,..,,a,,,.....,..,,.,.,,,.,,,.,,,,....,.,,,..a.,,,,,N..,.,..,.....,...,.....^:,^:,^:,^!.^!.^:,^!.^!.^:,	IIIII;AIIIIIII.""I?IIIIII"=IIIII%II$I'I+II$)7I=IGIII%;IIIIIIIIIIAIIII=IIIII+I43IIIIIIII%IIII/IIII5;"IIII1IIIIIIII7III/IIIIID46II4II:	1	0	0	0	111
-chrM	808	809	T	T	242	0	22	134	.$.......................N,..,..,.,,,g,,,.,,,.,,..,,,,,,.....,..,,.,.,,n.,,,.,,,,....,.,,,..,.,,,,,...,.,..,.....,C..,.....,,,..,..,^:,^:,^!.	IIIIII:IIIIIII01II8I1'II"EI,III3IIII&I$II(.(IIFIIIIII+IIIIIIIII1,IIIBI"III5I34ICIIIIII/IIII?IICC53IIIHII>I2IIIIII:IIIIIIII91III1II5I4I	0	1	0	0	110
-chrM	809	810	A	A	243	0	22	144	.$.$......................,.C,..,.,,,,,,,.,,,.,,..,,,,,,.....,..,,C,.,,,.,,,.,,g,....,.,,,..,.,,,,,...,.,..,.....,...,.....,,,..,..,,,.^:,^:.^:g^:,^:,^:,^!N^!N^:,^:,^:,	HIII28IIIGII;III*I,II>IB62$2IIDDIIIIIIII&IIIIIIIIIIIIIII*IIIIIII$IIIII>IIIIIIIIIIIIII#IIIIIIIIIIIIIIIII>IIIIIHEI.IIIIIIIIIIIIIIIIIIII(I#III""GI9	0	0	1	0	129
-chrM	814	815	C	C	246	0	22	160	.$.$..............,..,..,.,,,,,,,.,,a.,,..,,,,,,.....,..,,.,.,,t.,,,.,,,,....,.,,,..,.,,,,,...,.,..,.....,...,.....,,,..,..,,,.,.,,,,..,,,...,,,,,a....,,....,a^:.^:.^:,	IIIIIIIIIIIIII:IIIIIII8IHIII$III*6=IIIIIII@I*IIIEI8IIIIIIIIII-IIIII:IIIIIIIII$IIII<IIIIIIIIIII2IIIIIIICIEIIIIIIII/I2IIIIIAIII*I#I2$IIII*III8C5$9$IIII9/IIII<&II8	1	0	0	0	143
-chrM	815	816	A	A	255	0	22	169	..............,.C,..,.,,,,,,,.,,,.,,..,,,,,,.....,..,,.,.,,,.,,,.,,,,....,.,,,..,.,,,,,...,.,..,.....,...,.....,,,..,..,,,.,.,,,,..,,,.NN,,,g,,....,,....,,..,^:,^:,^:.^:,^:,^:.^:.^:,^:,^:,^!.	IHEF8II?+GI:I@I7%IIIIAIIII+IIA'II>II@IIIIIII3IIIII/III7IIIII5IIIIIIIIIIIIII+IIIIIIIIIIIIIIIAI6IIIIII;I8IIIIIIIIIIFIIIIIIIIIIIIIIIIIIIII""IIIAIIIIIIIIIIIIIIIIIIIIIIIIIIII	0	0	1	0	160
-chrM	816	817	A	A	254	0	22	171	.$.C.......T..Nn..,..,.,,,,,,,.,,,.,,..,,,,,,.....,..,,.,.,n,N,,,.,,,,....,.,,,..,.,,,,,...,.,..,.....,...,.....,,,..,..,,,.,.,,,,..,,,...,,,,,,....,,....,,..,,,.,,..,,,.^:.^!.	IDIII?9=<0$I2"":I*III1IIIIIIII.I@FII5IIIIIIII322+IIIII3III"I"IIIGIIII2>IIIIIIIIIIIIIIIIIF4IIIIIIIII)-I>IIIIII>IIIIIIIIIIIIIIIIIIIIIII6IIIIII$IIIIIII?IIIIIIIIIIIIIIIIIIIIII	0	1	0	0	151
-chrM	819	820	A	A	255	0	22	183	.$.......,..,..,.,,,,,,,.,,,.,,..,,,,,,....C,..,,.,.,,,.,,,.,,,,....,.,,,..,.,,,,,...,.,..,...C.,...t.....,,,..,..,,,.,.,,,,..,,,...,,,,,,....,,....,,..,,,.g,..,,,...,g.,..,,,..^!.^:.^:.^:.^:,^:,^:,	I3/I+:DII7&I&I*<III$$(II;II@II2IIIIIIIIIII&IIIIE2IHIII)IIIDIIIIDCI>/BIHIIIIIIIIIIII'III6IGIII+7IIII@IIIIIIEIIIDIIFI9IIIIII9II1,+III.I(83IIIII4GIIIIIIIIIIBI,BIIIIIIIII$IIII<5@IIIIIII9I	0	0	0	1	158
-chrM	822	823	T	T	252	0	22	192	.$,$..,..,.,,,,,,,.,,,.,,..,,,,,,.....,..,,.,.,,,.,,,.,,,,....,.,c,..,.,,,,,...,.,..,.....,...,.....,,,..,..,,,.,.,n,,..,,,...,,,g,,....,,....,,..,,,.,,..,,,...,,.,..,,,......,,,,.,,,.,^:.^!.^:,^:,^:,^:,^:,^:,^:,	IIIIIII79I0IIIIII$&>IIIEIIIIIAIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIEII$IIIIEEIIIIIIII4IIIIIIII'IIIIIIII(;III;IICI@I+II"<CII>=/III6:B#0IIIII0FIIIIDIII5E6I@8IIIIGIII9II=II.$)IIIIII9>0:I59BIIII/E2?BA/	0	1	0	0	172
-chrM	825	826	A	A	255	0	22	198	.$,$.,,,,,,,.,,,.,,..,c,,,,....C,..,,.,.,,,.,,,.,,,,....,.,,,..,.,,,,,...,.,C.,.....,...,.....,,,..,..,,,.,.,,,,..,,,...,,,,,,....,,....,,..,,,.,,..,,,...,,.,..,,,......,,,,.,,,.g..,,,,,,,.,.,.,,,g^!.^:.^:,	IIIIIIIIIIIIII=II4II#IIIIIIII'IAIIIFIIIIIIIIIFIIII40IIIIIII/IIIIIIII8IIIII'I@III4II/IIIIIIIIIIIIIIIIIICI#IIIIF%#II)IIIIADIGIIIIIIIIIIIIIIIIIII%AIIIIIIIIIIIII/337II@IIII/I:IFIII#II/BI9I;EIIIEIIII@III	0	0	1	0	178
-chrM	829	830	G	G	255	0	22	198	.$,$a$.$.$,$,$,,,,.NNNN,..,,.,.,,,.,,,.,,,,....,.,,,..,.,,,,,...,.,..,.....,C..,...C.,,,..,..,,,.,.,,,,..,,,...,,,,,,....,,....,,..,,,.,,..,,,...,,.,..,,,......,,,,.,,,.,..,,,,,,,.,.,.,,,,..,....,,,,^:.^!.^:c^!.^:,^:,	<II1IIIIIIIA""""I0III;IIIIIIIII=IIIIC<IIIIIIIIIIIIIIIIII.III3<IIIIIII)IIIIIF%)IIIIIIIIIIIIDIIIIIIIIIIIIIIIIIIIIIHIIIIIIIIIIIIIIIIHIIIIIIIII9III=IFIIIIIIIIBIIIIIIIIII:IIIIIIIII:III8III9IIIIIII7II#IBI	1	0	0	0	186
-chrM	837	838	G	G	255	0	22	169	.$.$.$,$.$,$..,.....,A..,.....,,,..,..,,,.,.,,,,..,,t...,,,,,,....,,....,,..,,,.,,..,,,.C.,,.,..,,,......,,,,.,,,.,..,,,,,,,.,.,.,n,,..,....,,,,..a.,,......,..,,,..,,.,.,,,..^!.	AIEIII;>IIFI<?I,FIII8I)IIII*1IIIIIIIIIIIIIIIII9IIIIIIIIIGDG;IIIIIIIIIIIIIIIIIIIIII%IIIEIE6IIIIIIIIIIIIIIAIIIIIIIIIIIIIIIIHII"@IIIIIIIIDI%@II#IIIIIIIIIGIIIIIIIIII5IIF:III	0	0	0	1	161
-chrM	841	842	C	C	239	0	22	173	.$.$.$.$,,,..,..,,,.,.,,,,..,,,...,,,,,,....,,....,,..,,,.,,..,,,.T.,,.,..,,,......,,,,.,,,.,..,,,,,,,.,.,.,,,,..,....aa,,..,.,,......,..,,,..,,.,.,,,..A...,..,....,,..N.....^:a^:.^!.	IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIC5CIIIIIIIIIIIIIIIIIIIIIII#II%+II5IIIIIIIIII-IIIIIII<IIIIIEIII4IIIII:IIIIIIIII-II>II$I*IIIIIIIIIIIIIII10$7I<BDII&III>IIIIIII0'II"IIIII&II	1	0	0	0	157
-chrM	856	857	C	C	254	0	23	124	,$..,,,,,,,.,.,.,,,,..,....,,g,..,.,,......,..,,,..,,.,.,,,......,..,....,,........a.......,....,....,..,..,...........,...^:.^:.	I06IIIIIIIIICIIIIIIIIIIIIIII#IHIIIIII3IDI9IHI+$IIIII#IIIII>IIIIIIIIIIIII#=IIII8I5IFIIIIIIIIIIIIDIIII/IIDII>IIIIIIIIIII1IIIII	1	0	0	0	115
-chrM	858	859	A	A	250	0	23	118	.$,$.$,$.$,$,,g..,....,,,,..,.,,......,..,,,..,,T,.,,,......,..,....,,........,.......,....,....,..g..,...........,.......^:.^:.	II9IIIIII@DIC=.EIIIIE@IIIII*CI8-IB8IIIIIII$IHIIIIIIIIIIICIHIIIIIIIIIII@IIIIIHIIIFIIIIIIFI-III*III)IIIIIIIIIIIIIIIIIIII	0	0	1	0	111
-chrM	859	860	A	A	255	0	23	115	,$,$,$..,....,,,,..,.,,......,..,,,..,,.,.,,,......,..,....c,........,.......,N.N.,....,..,..,..G........,........C^:.^:.^:.	IIII2IEA(IIIIIHAIIIIG,=G1,IIIIII:EIIII6IIIIIII@IIIIIIIIIEIC@43:I,I@IIIIIIII"I"IIIIIIAIIIIIII*4IIIIEEIIIIIIIIIII%III	0	1	0	0	102
-chrM	864	865	G	G	255	0	23	115	.$.$,$.$,$,$......,..,,,..,,.,.,,,......,..,....,,........,......N,....,...T,..,..,..........A,..............,.........^:.^!,	IDIIIII6IIIIIIIIIIIIII9IAIIIIIIIIIIIIIIIII7IIIIIIIIIIIIIIII"IIIIIII,I1IIIIIIII+IEIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII3	1	0	0	0	110
-chrM	866	867	A	A	224	0	23	105	.$.$,$..,,,..,,T,.,,,......,..,....,,........,......N,....,....c.N,..,.CC........,..............,..........,	.'IG4III/III$IFIII3III&;I@CII160II99II.G%GIFI:)ID"IHIIIIF,F*II"II;II$%+B0I/-A.IHIIIIIIIIIIIIIIIIIIIIIIIII	0	1	0	0	82
-chrM	872	873	C	C	206	0	23	94	.$...,..,....,,........,.......,N.N.a....,..,..,...........,..............,....N.....,.g....T..	II9EII9IFIIIIIIII/EIBIIII?GIIII"I"III/I-IIIIIIIIBIIIIIIIIIIHIIIIIIIIIIIIIIIIII"IIIII?+$IIII$II	1	0	0	0	85
-chrM	873	874	A	A	208	0	23	94	.$.$.$,$.$.$,$....,,......C.,.......,....,....c..,..,...........,.....N........,..........,.g.......^:.	II<IA&IIEIIII9DII(I&IIGI63IIIIIIIIII.I/II&IIIIIBII@5I3.II)IIIII"IIIFIGIIIIIIIIIIII1II)IIIIIIII	0	1	0	0	81
-chrM	931	932	C	C	53	0	23	22	,,.,,.,,,a,a,,,,,,,,,^:,	II*IIII.I7I6III@9<::<I	2	0	0	0	20
-chrM	936	937	C	C	98	0	24	31	.,,.,,,,,,,t,a,,,,,,,,.,,,.,,a^:,	IIGII/IIHI'#15I4IIGII.IIIII-I$1	1	0	0	0	22
-chrM	950	951	C	C	191	0	23	76	,$,.,,,,,,,,,a,,,,,a,,.,,,.,,,,,,,,,,,,,,,.a..,.,..,........,,,.,,.,,,,,^:.^!.^:,^:a^!.	IIIIIIIIIIII:IIIII%II5IIIIIIIIII?0B1I<IIGI)II1IDII*IIIIIIII)&III&I4>%5*II4(I	1	0	0	0	62
-chrM	951	952	A	A	223	0	24	81	c.,,,,,,,,,,,,,,,c,,.,,,.,,,,,,,,,,,,,,,.,..,.,..,........,,,.,,.,,,,,..,,.^:.^:.^:.^:,^:,^:,	IBIIIIIIIIIIIIIIIIIIIIIIIIGIIIIIIIII8IIIIIIIIIIIIIIIIIIIIICIIII4IGIIIIIIIIIIIIII?	0	2	0	0	80
-chrM	952	953	C	C	179	0	24	86	,.,,,,,,,,,,,,,,,,,,.n,,.,,a,,,,,,a,,,,,.,..,.,..,........a,,.,,.,,,,,..,a....,,a^:.^!.^!.^:a^:a	IIIIIIIIIIIIIIIIIIIII"IIIII)III6I1)I4II(I7II?I9II(IIIIIIII+1III0I+214%II79IIIIBB0III%I	2	0	0	0	69
-chrM	956	957	T	T	237	0	23	110	,.,,,,,,,,,,,,,,,,,,N,,,N,,,,,,,,,,,,,,,G,..,.,..,........,,,.,,.,,,,,..,,....,,,...,,.......,..,..,NN,^:.^:,^:,^:,^:.^:.^:.	I/IIIIIIIIIIIIIIIIII"III"III4IIIII)I6GHI63II86III0IIIIIIII8BII6+II56I.II71IIII;/+IIIDDIIIIIIIIII;II,""2I@03III	0	0	1	0	92
-chrM	957	958	C	C	251	0	23	117	,.,,,t,t,,,,,,,,,,,,.,,,.,,,,,,,,,,,,,,,.,..,.,..,........,,,.,,.,,,,,..,a....,a,...,,.......,..,..,..,.,,,...^:,^:,^:.^!.^:,^:,^:,	I9III(I&IIIIIIIIIIIIIIIIIIIIIIIIII>I3III*III3IIII:IIIIIIII(/IIIBIII(&$IIIIIIII<+%III>@IIIIIIIIIIIII,II,I%(6IIII1II(-/	1	0	0	0	97
-chrM	966	967	A	A	246	0	23	125	,$c,G,,,.,,,,,,,,,,,,,n,.,..,.,..,........,,,.,,.,,,,,..,,....,,,...,,.......,..,..,..,.,,,...,,..,,,......g...,,,.,,,,,,,.,.^:,	I5I#IIIIIIIIIIIIIIIBI"IIIIII;IIIIIIIIIIII;2IIIIIIIIIIIII@IIIIIIIIIIIIIIIIIII6IIIIIIIIIIIIIIIIIIIIIIIIII/II#IIIIIIIIIIIII>IIII	0	1	0	0	120
-chrM	974	975	C	C	255	0	23	125	,,,,,,,.,..,.,..,........,,,.,,.,,,,,..,,....,,,...,,.......,..,..,..,.,,,...,,..,,,......,...,,n.,,aa,,,N,.,.,,.gg,,,,....^:n^:,	IIIIIII4IIIIIIEII/I?IIIIIIII7II<IIIIIIIIIIEIIIIIIIIIIII2IIIIIIIIIIIIIIGIIIIIIIIIIIIIIII%II3IIIII"III%IIII"IIII@.IB*BIDIIIII",	1	0	1	0	113
-chrM	980	981	C	C	247	0	23	123	.$.$,........,,,.,,.,,,,,..,,....,,,...,,.......,..,..,..,.,,,...,,..,,,......,...,,,.,,a,,,,.,.,.,,.gt,,,,....,,,..,.,,,,^:.^:,^:,	IIIII6IIIIIIII;IIAIIIIIIIIICI5III&IIIIIII<IIIEIIIIIIIIIIIIII=IIIIIIIIII5I&IIIIIIHIIIII'III9IIIII92I6#9II3IIIIII+II>I&71'I45	0	0	1	0	112
-chrM	981	982	C	C	255	0	23	122	,$.$.$......,,,.,,.,,,,,..,,....,,,...,,.......,..,..,..,.,,,...,,..,,,......,...,,,.,,,,,,a.,.,.,,.g,,,,,....a,,..,.,,,a.,,^!,	IIFBIEIIIIII?II@IIIIIIIIIIIIIII6II9IIIIIIIIIIIIIIIIIIIIIII5IIIIIIIIIIII&IIIFIIDIIII0$III<IIIII2II%9,?&IIIIII*/II+I59I)I1-)	2	0	0	0	108
-chrM	982	983	C	C	252	0	23	122	.$.$.$...,,,.,,.,,,,,..,,....,,,...,,.......,..,..,..,.,,,...,,..,,,......,...,,,.,,,,,,a.,.,.,a.,,,,,,....,,,..,.a,,a.,,,^!,^!,^!,	:IIIIIIIICIIIIIIIIIIIIIIIIIIIIIIIIIIAIIIIIIIIIBIIII?III2I5IIIIIIIIAI#IIIIIIIIIII&)IIIIIIIIII+II&9F8IIIIIII2II)I')I$I++)I(+	1	0	0	0	106
-chrM	983	984	A	A	250	0	23	119	.$.$.$,$,$,$.$,$,$.$,$,,,,..,,....,,,...,,.......,..,..,..,.,,,...c,..,,,......,...,,,.,,,,,,,C,.,.,,.,,,,,,....,,,..,.,,,,.,,,,,,	C:IIII5II3IIIII95II/1.IIII>A5II4IA=)-)I>HIIDIIII-IIIII,III;IIII?:$III6=IIII8IIIIIII)IIIIII4I@IIIIII@=IIIIIIIIIDIIIIIID=	0	1	0	0	106
-chrM	987	988	A	A	243	0	23	94	.$.$C$,$,$.......,..,..,..,.,,,...,,..,,,......,...,,,.,,,,,,,.,.,.,,.,c,,,,....,,,..,.,,,,.,,,,,,^!,	I<%II,C21-@,IIGIIII==I+III%A2II<.IIIC/C$II$6EIIII9IIIIIIIIIIIIII3I6IIIII7@AIIIIIIIIIIIIGIIIIDI	0	1	0	0	80
-chrM	1005	1006	C	C	138	0	18	49	.$,$,$,,,,....,,,..,.,,,,.,,,,,,,,,,,,,.,,,,,,a,,,,^!,	6IIIIII00@<III<IIIIIIIIIIIIIIIFI*I8IIIIII?IGII<&2	1	0	0	0	44
-chrM	1025	1026	G	G	19	0	8	33	,$t.,,,,,,,,,,,,,,,,,,,,,,,,,,,..,	II.IIIIIIIIIIIIIIIIIIIIIB=@HIIIII	0	0	0	1	32
+chrM	464	465	C	C	169	0	25	65	,.............,,.....A.,......,..............,,,..........,a...,^:A	IIIIBI>H1IIIIB$)IIIII$IIIIIIIIII0IIIII6IIIIIIHIIIIIIIIIIIII&IIICI	1	58	0	0	59
+chrM	468	469	T	T	207	0	25	66	.$.$.$.........,,.......,......,..............,n,..........,,...,G...	III>I44EIIICI@IIEDC$IBIIII(IIIIDIIII@IIIIII1"0IIII%IIIIII1III7IIII	0	0	1	56	57
+chrM	471	472	C	C	187	0	25	72	.$.$.....,t.......,....A.,..............,a,..........,a...,A.......,,^:.^:.^:.^:.^:.	I@IIIIII&IIIFG6IIIIII$IIIIIIIII$IIFIIII:IIIIIIIIIIII%IIII,IIIIII/I-IIIII	1	64	0	0	65
+chrM	490	491	C	C	212	0	23	79	..n,,....A.....,,...,........t,.....,....,..........,....,.,,...,.....,,..,.,.,	II"IIIIII&II:IIIIIIII(II@HIII;IIIIIIIIIIIIIIIIII?IIIIIIIIIIFIIIIIIIIIII+IIII3II	0	73	0	1	74
+chrM	506	507	A	A	150	0	21	76	.$.$.$.$C$,....,..........c....,.,,...,.....,,..,.,.,,,,...,,,..,,....,,.,....^:.^:,^:,	/I:3&I33.;I,./<G=I?IIIAIIIIIIIDI*IIIIIIIIIIIHDIIIIIIII=DIIIICIIII@IIIIII(I@6	64	1	0	0	65
+chrM	510	511	C	C	213	0	21	72	.$.$.$....,....,.,,...,.....,,..,.,.,,,,...,,,..,,....,,.,...A.,,..,,,,,,,^:,	III@/IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIGHIIIIIICIIEII6II/562I	1	68	0	0	69
+chrM	526	527	A	A	164	0	22	58	,,,...,,,..,,....,,.,.....,,..,,,,,,,,,..,,,..C,,,,,.,,,,,	III3I=III;/II7I24II3I'II9IIIFIIIIIIIIIIIIIIIIIIIIIIIIIIIII	51	1	0	0	52
+chrM	527	528	A	A	164	0	22	58	g$,$,...,,,..,,....,,.,.....,,..,,,,,,,,,..,,,...,,,,,.,,,,,	IIIF$9IIIIIII0A6(II4I+FI%:II4=IIIII'IIIIIIIIIIIIIIII3IIIII	48	0	1	0	49
+chrM	536	537	A	A	138	0	23	49	.c,.,.....,,..,,,,,,,,,..,,,...,,,,,.,,,,,.,,,,,,	7II+I$0I8III/@IIIIIIIIIIIIIIIIIIIIIIIIIIIIII4I46I	42	1	0	0	43
+chrM	557	558	T	T	83	0	23	27	,$,$,$.,,,,,.,,,,,,.,.,....G.^:.	III+IIIIIII>IHDIG4I4IIIIIII	0	0	1	23	24
+chrM	606	607	G	G	105	0	24	43	..............,....T..T..................^:.^!,	BI-&*1&6IIIGIIII%;9I.;>IIIIIIIIIIIIIIIIIII3	0	0	33	2	35
+chrM	618	619	T	T	117	0	24	48	,.........C..C..............,...........N..,...^:.	I2&-+)(4I+>CI$&I15@IIIIIIIII,IIIIIIIIIII"II5IIII	0	1	0	34	35
+chrM	627	628	G	G	108	0	22	57	.$...........A........,..............,................A^!.^!.^:.	5GI<=4;>G=I<%IIIIII.IIII'IIIIIIII$IIIIIIIIIIIIIIIIIIIIIII	1	0	51	0	52
+chrM	659	660	C	C	166	0	19	58	.$.$.............,...n,.,,......,......................a,...	/CII>9@II277IIII9II"IIIIIIFIIIIIIBIIIIIIIIIIIIIIII$II7IIII	1	53	0	0	54
+chrM	668	669	C	C	135	0	19	42	.$,$,$......,.....................Ga,......,^:.	IIIIIII@IIFI@IIIIIIIII;IIIIHIII56IIIIIIIAI	1	40	1	0	42
+chrM	713	714	A	A	127	0	23	96	...,..C.....................,......................,............................C...........^:.^:.^:.^:.	67'II>(IIIAFI<IIIII?I$EI>GAGII4III8IIDIIIDIIIFIIIIG$IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII	90	1	0	0	91
+chrM	719	720	T	T	130	0	24	96	.....C...........,...C.....G............,............G....................A...................^:.^:.	D?76/$I'@'<,I7;I<I5GI'H+B.3%;=<3II1CGIIB@FII8@II0II4II$IIIII537IIIIIIIIIII#IIIIIIIII=III$IIIIIII	0	0	1	77	78
+chrM	736	737	A	A	98	0	24	98	.$.$.$..............................C................T.......................C..................^:.^:.^:.^:.^:.	AI709I4I>IDII.7IIC+938AEC5?IDIC5I*IIII7I21?5B1AIII#IIIIIIIIIIAIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII	87	1	0	0	88
+chrM	747	748	A	A	97	0	25	86	.$.$C$.$.$.$.$.$.$.........................................................................^:.^:.^:.^:.	?DIIIII<I8I@>B2IIFB%IIIIIIHIII;4III3IIIEEIIIIIIIIIIIIIIIIIIIIIIIIII$IIIIIIIIIIII@IIIII	80	1	0	0	81
+chrM	749	750	A	A	93	0	25	77	.$.$............................C......C......................................^:.	I2GII,II%@IAIIIII9IIIIIIIIIDII>I>II=IIIIIIIIIIIIIIIIIIIIIIIII8IIIII.IIIIIIIII	71	2	0	0	73
+chrM	759	760	T	T	106	0	25	86	A$.....A..............G........................A........G........................^:.^:.^:.^:.^:.^:.	#6<EF9$330.II4*;EII7+$I;II:3IICB4073I6;IEIIII5+II@IIIII:I+IIIIIIIIIIIIIIIIIIIIIIIIIIII	0	0	1	69	70
+chrM	762	763	A	A	99	0	25	83	N........................................................................C.........	"IC:6,1III=CIIIIB6GIII7G<DI>IIIIII8IIII$IHIII=I&IIIIIIIIIIIIIIIIIIIIIIII39IIIIIIIII	76	1	0	0	77
+chrM	763	764	G	G	107	0	25	86	.$.$.$.$.$.$.$.$T$.....NN......................................AN...........................^:.^:.^:.	9I9I@8I4-I7IC&""=&=I+II=>I>IIIIIIIIIIIII@IIII+IIIIIIIII"II%IIIII@IIIIIIIIIIIIIIIIIIIII	1	0	75	0	76
+chrM	764	765	G	G	88	0	25	77	.$.$.$.$.$.T..T.T............................................N....................	:,I;&I7D.%I'III<HD7IIIII*CIIIIIIIIII%IIIIIIIIIIIIIIIHIII"IIIIIIIIIIIIIIIIIIII	0	0	68	1	69
+chrM	767	768	T	T	102	0	25	71	.$.$................................A....................................	&IBGII@5ICF>0?BII2IIIIII@+II;IEIII7I,III8IIIIIIIIIIIE@IIIIIIII8IIIIIIII	1	0	0	65	66
+chrM	777	778	G	G	108	0	25	63	.$.$...T.....C......T...................T.......................^:.	AG(II$IIIII&6BIII:'IIIII9IIIII=IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII	0	0	58	1	59
+chrM	784	785	A	A	99	0	25	63	.$.........................................................C...^:.	II/+III%I.4IE:6..;8+I$B@II2IIIIDI@0IIIEGIFIIIIIIIIIIIIIIIICIIII	51	1	0	0	52
+chrM	790	791	G	G	155	0	25	60	.......T.............................................,..,.^:T^:,	7III5II$IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII%4II/	0	0	55	1	56
+chrM	794	795	T	T	212	0	25	74	.$.$.$.$.$.$...A....................................N.,..,..,.,,,,,,,.,,,^:.^:,^:,^!.^:.^:,^:,	II$IIIIII9I9@IIDIIIIIIIIIIIIIIIIIIIIIIIIIIIIII"IIIIIII*IB$I#%#II$2$II:II4I	1	0	0	62	63
+chrM	807	808	C	C	226	0	22	132	.$..............NN........N,..,..,.,,,,,,,.,aa.,,..,,a,,,.....,..,,.,.,,,.,,,.,,,,....,.,,,..a.,,,,,N..,.,..,.....,...,.....^:,^:,^:,^!.^!.^:,^!.^!.^:,	IIIII;AIIIIIII.""I?IIIIII"=IIIII%II$I'I+II$)7I=IGIII%;IIIIIIIIIIAIIII=IIIII+I43IIIIIIII%IIII/IIII5;"IIII1IIIIIIII7III/IIIIID46II4II:	1	110	0	0	111
+chrM	808	809	T	T	242	0	22	134	.$.......................N,..,..,.,,,g,,,.,,,.,,..,,,,,,.....,..,,.,.,,n.,,,.,,,,....,.,,,..,.,,,,,...,.,..,.....,C..,.....,,,..,..,^:,^:,^!.	IIIIII:IIIIIII01II8I1'II"EI,III3IIII&I$II(.(IIFIIIIII+IIIIIIIII1,IIIBI"III5I34ICIIIIII/IIII?IICC53IIIHII>I2IIIIII:IIIIIIII91III1II5I4I	0	1	0	109	110
+chrM	809	810	A	A	243	0	22	144	.$.$......................,.C,..,.,,,,,,,.,,,.,,..,,,,,,.....,..,,C,.,,,.,,,.,,g,....,.,,,..,.,,,,,...,.,..,.....,...,.....,,,..,..,,,.^:,^:.^:g^:,^:,^:,^!N^!N^:,^:,^:,	HIII28IIIGII;III*I,II>IB62$2IIDDIIIIIIII&IIIIIIIIIIIIIII*IIIIIII$IIIII>IIIIIIIIIIIIII#IIIIIIIIIIIIIIIII>IIIIIHEI.IIIIIIIIIIIIIIIIIIII(I#III""GI9	128	0	1	0	129
+chrM	814	815	C	C	246	0	22	160	.$.$..............,..,..,.,,,,,,,.,,a.,,..,,,,,,.....,..,,.,.,,t.,,,.,,,,....,.,,,..,.,,,,,...,.,..,.....,...,.....,,,..,..,,,.,.,,,,..,,,...,,,,,a....,,....,a^:.^:.^:,	IIIIIIIIIIIIII:IIIIIII8IHIII$III*6=IIIIIII@I*IIIEI8IIIIIIIIII-IIIII:IIIIIIIII$IIII<IIIIIIIIIII2IIIIIIICIEIIIIIIII/I2IIIIIAIII*I#I2$IIII*III8C5$9$IIII9/IIII<&II8	1	142	0	0	143
+chrM	815	816	A	A	255	0	22	169	..............,.C,..,.,,,,,,,.,,,.,,..,,,,,,.....,..,,.,.,,,.,,,.,,,,....,.,,,..,.,,,,,...,.,..,.....,...,.....,,,..,..,,,.,.,,,,..,,,.NN,,,g,,....,,....,,..,^:,^:,^:.^:,^:,^:.^:.^:,^:,^:,^!.	IHEF8II?+GI:I@I7%IIIIAIIII+IIA'II>II@IIIIIII3IIIII/III7IIIII5IIIIIIIIIIIIII+IIIIIIIIIIIIIIIAI6IIIIII;I8IIIIIIIIIIFIIIIIIIIIIIIIIIIIIIII""IIIAIIIIIIIIIIIIIIIIIIIIIIIIIIII	159	0	1	0	160
+chrM	816	817	A	A	254	0	22	171	.$.C.......T..Nn..,..,.,,,,,,,.,,,.,,..,,,,,,.....,..,,.,.,n,N,,,.,,,,....,.,,,..,.,,,,,...,.,..,.....,...,.....,,,..,..,,,.,.,,,,..,,,...,,,,,,....,,....,,..,,,.,,..,,,.^:.^!.	IDIII?9=<0$I2"":I*III1IIIIIIII.I@FII5IIIIIIII322+IIIII3III"I"IIIGIIII2>IIIIIIIIIIIIIIIIIF4IIIIIIIII)-I>IIIIII>IIIIIIIIIIIIIIIIIIIIIII6IIIIII$IIIIIII?IIIIIIIIIIIIIIIIIIIIII	150	1	0	0	151
+chrM	819	820	A	A	255	0	22	183	.$.......,..,..,.,,,,,,,.,,,.,,..,,,,,,....C,..,,.,.,,,.,,,.,,,,....,.,,,..,.,,,,,...,.,..,...C.,...t.....,,,..,..,,,.,.,,,,..,,,...,,,,,,....,,....,,..,,,.g,..,,,...,g.,..,,,..^!.^:.^:.^:.^:,^:,^:,	I3/I+:DII7&I&I*<III$$(II;II@II2IIIIIIIIIII&IIIIE2IHIII)IIIDIIIIDCI>/BIHIIIIIIIIIIII'III6IGIII+7IIII@IIIIIIEIIIDIIFI9IIIIII9II1,+III.I(83IIIII4GIIIIIIIIIIBI,BIIIIIIIII$IIII<5@IIIIIII9I	157	0	0	1	158
+chrM	822	823	T	T	252	0	22	192	.$,$..,..,.,,,,,,,.,,,.,,..,,,,,,.....,..,,.,.,,,.,,,.,,,,....,.,c,..,.,,,,,...,.,..,.....,...,.....,,,..,..,,,.,.,n,,..,,,...,,,g,,....,,....,,..,,,.,,..,,,...,,.,..,,,......,,,,.,,,.,^:.^!.^:,^:,^:,^:,^:,^:,^:,	IIIIIII79I0IIIIII$&>IIIEIIIIIAIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIEII$IIIIEEIIIIIIII4IIIIIIII'IIIIIIII(;III;IICI@I+II"<CII>=/III6:B#0IIIII0FIIIIDIII5E6I@8IIIIGIII9II=II.$)IIIIII9>0:I59BIIII/E2?BA/	0	1	0	171	172
+chrM	825	826	A	A	255	0	22	198	.$,$.,,,,,,,.,,,.,,..,c,,,,....C,..,,.,.,,,.,,,.,,,,....,.,,,..,.,,,,,...,.,C.,.....,...,.....,,,..,..,,,.,.,,,,..,,,...,,,,,,....,,....,,..,,,.,,..,,,...,,.,..,,,......,,,,.,,,.g..,,,,,,,.,.,.,,,g^!.^:.^:,	IIIIIIIIIIIIII=II4II#IIIIIIII'IAIIIFIIIIIIIIIFIIII40IIIIIII/IIIIIIII8IIIII'I@III4II/IIIIIIIIIIIIIIIIIICI#IIIIF%#II)IIIIADIGIIIIIIIIIIIIIIIIIII%AIIIIIIIIIIIII/337II@IIII/I:IFIII#II/BI9I;EIIIEIIII@III	177	0	1	0	178
+chrM	829	830	G	G	255	0	22	198	.$,$a$.$.$,$,$,,,,.NNNN,..,,.,.,,,.,,,.,,,,....,.,,,..,.,,,,,...,.,..,.....,C..,...C.,,,..,..,,,.,.,,,,..,,,...,,,,,,....,,....,,..,,,.,,..,,,...,,.,..,,,......,,,,.,,,.,..,,,,,,,.,.,.,,,,..,....,,,,^:.^!.^:c^!.^:,^:,	<II1IIIIIIIA""""I0III;IIIIIIIII=IIIIC<IIIIIIIIIIIIIIIIII.III3<IIIIIII)IIIIIF%)IIIIIIIIIIIIDIIIIIIIIIIIIIIIIIIIIIHIIIIIIIIIIIIIIIIHIIIIIIIII9III=IFIIIIIIIIBIIIIIIIIII:IIIIIIIII:III8III9IIIIIII7II#IBI	1	0	185	0	186
+chrM	837	838	G	G	255	0	22	169	.$.$.$,$.$,$..,.....,A..,.....,,,..,..,,,.,.,,,,..,,t...,,,,,,....,,....,,..,,,.,,..,,,.C.,,.,..,,,......,,,,.,,,.,..,,,,,,,.,.,.,n,,..,....,,,,..a.,,......,..,,,..,,.,.,,,..^!.	AIEIII;>IIFI<?I,FIII8I)IIII*1IIIIIIIIIIIIIIIII9IIIIIIIIIGDG;IIIIIIIIIIIIIIIIIIIIII%IIIEIE6IIIIIIIIIIIIIIAIIIIIIIIIIIIIIIIHII"@IIIIIIIIDI%@II#IIIIIIIIIGIIIIIIIIII5IIF:III	0	0	160	1	161
+chrM	841	842	C	C	239	0	22	173	.$.$.$.$,,,..,..,,,.,.,,,,..,,,...,,,,,,....,,....,,..,,,.,,..,,,.T.,,.,..,,,......,,,,.,,,.,..,,,,,,,.,.,.,,,,..,....aa,,..,.,,......,..,,,..,,.,.,,,..A...,..,....,,..N.....^:a^:.^!.	IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIC5CIIIIIIIIIIIIIIIIIIIIIII#II%+II5IIIIIIIIII-IIIIIII<IIIIIEIII4IIIII:IIIIIIIII-II>II$I*IIIIIIIIIIIIIII10$7I<BDII&III>IIIIIII0'II"IIIII&II	1	156	0	0	157
+chrM	856	857	C	C	254	0	23	124	,$..,,,,,,,.,.,.,,,,..,....,,g,..,.,,......,..,,,..,,.,.,,,......,..,....,,........a.......,....,....,..,..,...........,...^:.^:.	I06IIIIIIIIICIIIIIIIIIIIIIII#IHIIIIII3IDI9IHI+$IIIII#IIIII>IIIIIIIIIIIII#=IIII8I5IFIIIIIIIIIIIIDIIII/IIDII>IIIIIIIIIII1IIIII	1	114	0	0	115
+chrM	858	859	A	A	250	0	23	118	.$,$.$,$.$,$,,g..,....,,,,..,.,,......,..,,,..,,T,.,,,......,..,....,,........,.......,....,....,..g..,...........,.......^:.^:.	II9IIIIII@DIC=.EIIIIE@IIIII*CI8-IB8IIIIIII$IHIIIIIIIIIIICIHIIIIIIIIIII@IIIIIHIIIFIIIIIIFI-III*III)IIIIIIIIIIIIIIIIIIII	110	0	1	0	111
+chrM	859	860	A	A	255	0	23	115	,$,$,$..,....,,,,..,.,,......,..,,,..,,.,.,,,......,..,....c,........,.......,N.N.,....,..,..,..G........,........C^:.^:.^:.	IIII2IEA(IIIIIHAIIIIG,=G1,IIIIII:EIIII6IIIIIII@IIIIIIIIIEIC@43:I,I@IIIIIIII"I"IIIIIIAIIIIIII*4IIIIEEIIIIIIIIIII%III	101	1	0	0	102
+chrM	864	865	G	G	255	0	23	115	.$.$,$.$,$,$......,..,,,..,,.,.,,,......,..,....,,........,......N,....,...T,..,..,..........A,..............,.........^:.^!,	IDIIIII6IIIIIIIIIIIIII9IAIIIIIIIIIIIIIIIII7IIIIIIIIIIIIIIII"IIIIIII,I1IIIIIIII+IEIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII3	1	0	109	0	110
+chrM	866	867	A	A	224	0	23	105	.$.$,$..,,,..,,T,.,,,......,..,....,,........,......N,....,....c.N,..,.CC........,..............,..........,	.'IG4III/III$IFIII3III&;I@CII160II99II.G%GIFI:)ID"IHIIIIF,F*II"II;II$%+B0I/-A.IHIIIIIIIIIIIIIIIIIIIIIIIII	81	1	0	0	82
+chrM	872	873	C	C	206	0	23	94	.$...,..,....,,........,.......,N.N.a....,..,..,...........,..............,....N.....,.g....T..	II9EII9IFIIIIIIII/EIBIIII?GIIII"I"III/I-IIIIIIIIBIIIIIIIIIIHIIIIIIIIIIIIIIIIII"IIIII?+$IIII$II	1	84	0	0	85
+chrM	873	874	A	A	208	0	23	94	.$.$.$,$.$.$,$....,,......C.,.......,....,....c..,..,...........,.....N........,..........,.g.......^:.	II<IA&IIEIIII9DII(I&IIGI63IIIIIIIIII.I/II&IIIIIBII@5I3.II)IIIII"IIIFIGIIIIIIIIIIII1II)IIIIIIII	80	1	0	0	81
+chrM	931	932	C	C	53	0	23	22	,,.,,.,,,a,a,,,,,,,,,^:,	II*IIII.I7I6III@9<::<I	2	18	0	0	20
+chrM	936	937	C	C	98	0	24	31	.,,.,,,,,,,t,a,,,,,,,,.,,,.,,a^:,	IIGII/IIHI'#15I4IIGII.IIIII-I$1	1	21	0	0	22
+chrM	950	951	C	C	191	0	23	76	,$,.,,,,,,,,,a,,,,,a,,.,,,.,,,,,,,,,,,,,,,.a..,.,..,........,,,.,,.,,,,,^:.^!.^:,^:a^!.	IIIIIIIIIIII:IIIII%II5IIIIIIIIII?0B1I<IIGI)II1IDII*IIIIIIII)&III&I4>%5*II4(I	1	61	0	0	62
+chrM	951	952	A	A	223	0	24	81	c.,,,,,,,,,,,,,,,c,,.,,,.,,,,,,,,,,,,,,,.,..,.,..,........,,,.,,.,,,,,..,,.^:.^:.^:.^:,^:,^:,	IBIIIIIIIIIIIIIIIIIIIIIIIIGIIIIIIIII8IIIIIIIIIIIIIIIIIIIIICIIII4IGIIIIIIIIIIIIII?	78	2	0	0	80
+chrM	952	953	C	C	179	0	24	86	,.,,,,,,,,,,,,,,,,,,.n,,.,,a,,,,,,a,,,,,.,..,.,..,........a,,.,,.,,,,,..,a....,,a^:.^!.^!.^:a^:a	IIIIIIIIIIIIIIIIIIIII"IIIII)III6I1)I4II(I7II?I9II(IIIIIIII+1III0I+214%II79IIIIBB0III%I	2	67	0	0	69
+chrM	956	957	T	T	237	0	23	110	,.,,,,,,,,,,,,,,,,,,N,,,N,,,,,,,,,,,,,,,G,..,.,..,........,,,.,,.,,,,,..,,....,,,...,,.......,..,..,NN,^:.^:,^:,^:,^:.^:.^:.	I/IIIIIIIIIIIIIIIIII"III"III4IIIII)I6GHI63II86III0IIIIIIII8BII6+II56I.II71IIII;/+IIIDDIIIIIIIIII;II,""2I@03III	0	0	1	91	92
+chrM	957	958	C	C	251	0	23	117	,.,,,t,t,,,,,,,,,,,,.,,,.,,,,,,,,,,,,,,,.,..,.,..,........,,,.,,.,,,,,..,a....,a,...,,.......,..,..,..,.,,,...^:,^:,^:.^!.^:,^:,^:,	I9III(I&IIIIIIIIIIIIIIIIIIIIIIIIII>I3III*III3IIII:IIIIIIII(/IIIBIII(&$IIIIIIII<+%III>@IIIIIIIIIIIII,II,I%(6IIII1II(-/	1	96	0	0	97
+chrM	966	967	A	A	246	0	23	125	,$c,G,,,.,,,,,,,,,,,,,n,.,..,.,..,........,,,.,,.,,,,,..,,....,,,...,,.......,..,..,..,.,,,...,,..,,,......g...,,,.,,,,,,,.,.^:,	I5I#IIIIIIIIIIIIIIIBI"IIIIII;IIIIIIIIIIII;2IIIIIIIIIIIII@IIIIIIIIIIIIIIIIIII6IIIIIIIIIIIIIIIIIIIIIIIIII/II#IIIIIIIIIIIII>IIII	119	1	0	0	120
+chrM	974	975	C	C	255	0	23	125	,,,,,,,.,..,.,..,........,,,.,,.,,,,,..,,....,,,...,,.......,..,..,..,.,,,...,,..,,,......,...,,n.,,aa,,,N,.,.,,.gg,,,,....^:n^:,	IIIIIII4IIIIIIEII/I?IIIIIIII7II<IIIIIIIIIIEIIIIIIIIIIII2IIIIIIIIIIIIIIGIIIIIIIIIIIIIIII%II3IIIII"III%IIII"IIII@.IB*BIDIIIII",	1	111	1	0	113
+chrM	980	981	C	C	247	0	23	123	.$.$,........,,,.,,.,,,,,..,,....,,,...,,.......,..,..,..,.,,,...,,..,,,......,...,,,.,,a,,,,.,.,.,,.gt,,,,....,,,..,.,,,,^:.^:,^:,	IIIII6IIIIIIII;IIAIIIIIIIIICI5III&IIIIIII<IIIEIIIIIIIIIIIIII=IIIIIIIIII5I&IIIIIIHIIIII'III9IIIII92I6#9II3IIIIII+II>I&71'I45	0	111	1	0	112
+chrM	981	982	C	C	255	0	23	122	,$.$.$......,,,.,,.,,,,,..,,....,,,...,,.......,..,..,..,.,,,...,,..,,,......,...,,,.,,,,,,a.,.,.,,.g,,,,,....a,,..,.,,,a.,,^!,	IIFBIEIIIIII?II@IIIIIIIIIIIIIII6II9IIIIIIIIIIIIIIIIIIIIIII5IIIIIIIIIIII&IIIFIIDIIII0$III<IIIII2II%9,?&IIIIII*/II+I59I)I1-)	2	106	0	0	108
+chrM	982	983	C	C	252	0	23	122	.$.$.$...,,,.,,.,,,,,..,,....,,,...,,.......,..,..,..,.,,,...,,..,,,......,...,,,.,,,,,,a.,.,.,a.,,,,,,....,,,..,.a,,a.,,,^!,^!,^!,	:IIIIIIIICIIIIIIIIIIIIIIIIIIIIIIIIIIAIIIIIIIIIBIIII?III2I5IIIIIIIIAI#IIIIIIIIIII&)IIIIIIIIII+II&9F8IIIIIII2II)I')I$I++)I(+	1	105	0	0	106
+chrM	983	984	A	A	250	0	23	119	.$.$.$,$,$,$.$,$,$.$,$,,,,..,,....,,,...,,.......,..,..,..,.,,,...c,..,,,......,...,,,.,,,,,,,C,.,.,,.,,,,,,....,,,..,.,,,,.,,,,,,	C:IIII5II3IIIII95II/1.IIII>A5II4IA=)-)I>HIIDIIII-IIIII,III;IIII?:$III6=IIII8IIIIIII)IIIIII4I@IIIIII@=IIIIIIIIIDIIIIIID=	105	1	0	0	106
+chrM	987	988	A	A	243	0	23	94	.$.$C$,$,$.......,..,..,..,.,,,...,,..,,,......,...,,,.,,,,,,,.,.,.,,.,c,,,,....,,,..,.,,,,.,,,,,,^!,	I<%II,C21-@,IIGIIII==I+III%A2II<.IIIC/C$II$6EIIII9IIIIIIIIIIIIII3I6IIIII7@AIIIIIIIIIIIIGIIIIDI	79	1	0	0	80
+chrM	1005	1006	C	C	138	0	18	49	.$,$,$,,,,....,,,..,.,,,,.,,,,,,,,,,,,,.,,,,,,a,,,,^!,	6IIIIII00@<III<IIIIIIIIIIIIIIIFI*I8IIIIII?IGII<&2	1	43	0	0	44
+chrM	1025	1026	G	G	19	0	8	33	,$t.,,,,,,,,,,,,,,,,,,,,,,,,,,,..,	II.IIIIIIIIIIIIIIIIIIIIIB=@HIIIII	0	0	31	1	32
diff -r 517bd810a6b2 -r be8f54671d56 test-data/pileup_parser.6col.20-3-no-no.pileup.out
--- a/test-data/pileup_parser.6col.20-3-no-no.pileup.out	Thu Jan 14 11:26:08 2010 -0500
+++ b/test-data/pileup_parser.6col.20-3-no-no.pileup.out	Thu Jan 14 14:07:05 2010 -0500
@@ -1,588 +1,588 @@
-chrM	45	A	3	..^:.	III	0	0	0	0	3
-chrM	46	G	4	...^:.	IIII	0	0	0	0	4
-chrM	47	A	5	....^:,	IIIII	0	0	0	0	5
-chrM	48	T	5	....,	IIIII	0	0	0	0	5
-chrM	49	G	5	....,	IIIII	0	0	0	0	5
-chrM	50	A	5	....,	IIIII	0	0	0	0	5
-chrM	51	G	5	....,	IIIII	0	0	0	0	5
-chrM	52	T	5	....,	IIIII	0	0	0	0	5
-chrM	53	A	5	....,	IIIII	0	0	0	0	5
-chrM	54	T	5	....,	IIIII	0	0	0	0	5
-chrM	55	T	5	....,	IIIII	0	0	0	0	5
-chrM	56	C	5	....,	IIIII	0	0	0	0	5
-chrM	57	T	5	....,	IIIII	0	0	0	0	5
-chrM	58	T	5	....,	IIIII	0	0	0	0	5
-chrM	59	A	5	....,	IIIII	0	0	0	0	5
-chrM	60	C	5	....,	IIIII	0	0	0	0	5
-chrM	61	T	5	....,	IIIII	0	0	0	0	5
-chrM	62	C	5	....,	IIIII	0	0	0	0	5
-chrM	63	C	5	....,	IIIII	0	0	0	0	5
-chrM	64	A	5	....,	IIIII	0	0	0	0	5
-chrM	65	T	5	....,	IIIII	0	0	0	0	5
-chrM	66	A	5	....,	IIIII	0	0	0	0	5
-chrM	67	A	5	....,	IIIII	0	0	0	0	5
-chrM	68	A	5	....,	IIICI	0	0	0	0	5
-chrM	69	C	5	....,	IIIII	0	0	0	0	5
-chrM	70	A	5	....,	IIIII	0	0	0	0	5
-chrM	71	C	5	....,	IIIII	0	0	0	0	5
-chrM	72	A	5	....,	IAIII	0	0	0	0	5
-chrM	73	T	5	....,	IIIII	0	0	0	0	5
-chrM	74	A	5	....,	IIIII	0	0	0	0	5
-chrM	75	G	5	....,	%IIII	0	0	0	0	4
-chrM	76	G	5	T...,	*IIII	0	0	0	0	4
-chrM	77	C	5	.$...,	GIIII	0	0	0	0	5
-chrM	78	T	4	.$..,	IIII	0	0	0	0	4
-chrM	79	T	3	..,	III	0	0	0	0	3
-chrM	80	G	3	.$.,	I1I	0	0	0	0	2
-chrM	181	A	3	,,^:,	III	0	0	0	0	3
-chrM	182	G	3	,,,	III	0	0	0	0	3
-chrM	183	G	3	,,,	III	0	0	0	0	3
-chrM	184	T	3	,,,	III	0	0	0	0	3
-chrM	185	A	3	,,,	III	0	0	0	0	3
-chrM	186	T	3	,,,	III	0	0	0	0	3
-chrM	187	C	3	,,,	III	0	0	0	0	3
-chrM	188	A	3	,,,	III	0	0	0	0	3
-chrM	189	A	3	,,,	III	0	0	0	0	3
-chrM	190	G	3	,,,	III	0	0	0	0	3
-chrM	191	C	3	,$,,	III	0	0	0	0	3
-chrM	229	A	3	.^:,^:,	%II	0	0	0	0	2
-chrM	230	C	3	.,,	8II	0	0	0	0	3
-chrM	231	C	3	.,,	9II	0	0	0	0	3
-chrM	232	C	3	.,,	III	0	0	0	0	3
-chrM	233	C	3	.,,	AI'	0	0	0	0	2
-chrM	234	C	3	.,,	DI+	0	0	0	0	2
-chrM	235	A	3	.,,	&I@	0	0	0	0	2
-chrM	236	C	3	.$,a	+I$	0	0	0	0	1
-chrM	244	A	3	,,^:,	II;	0	0	0	0	3
-chrM	245	G	3	,,,	II*	0	0	0	0	2
-chrM	246	C	3	,,n	II"	0	0	0	0	2
-chrM	247	A	3	,,,	III	0	0	0	0	3
-chrM	248	G	4	,,,^:.	IIII	0	0	0	0	4
-chrM	249	T	4	,,,.	II)I	0	0	0	0	3
-chrM	250	G	4	,,,.	II2I	0	0	0	0	3
-chrM	251	A	4	,,,.	II(I	0	0	0	0	3
-chrM	252	T	4	,,,.	II*I	0	0	0	0	3
-chrM	253	A	4	,,,.	II7I	0	0	0	0	4
-chrM	254	A	4	,,,.	II1I	0	0	0	0	3
-chrM	255	A	4	,,,.	II?I	0	0	0	0	4
-chrM	256	A	4	,,,.	II9I	0	0	0	0	4
-chrM	257	A	4	,,,.	II?I	0	0	0	0	4
-chrM	258	T	4	,,,.	II$I	0	0	0	0	3
-chrM	259	T	5	,,,.^:.	II&II	0	0	0	0	4
-chrM	260	A	5	,,,..	II,II	0	0	0	0	4
-chrM	261	A	5	,,,..	II/II	0	0	0	0	4
-chrM	262	G	5	,,,..	II5II	0	0	0	0	5
-chrM	263	C	5	,,a..	II%II	0	0	0	0	4
-chrM	264	T	5	,$,$,..	II%II	0	0	0	0	4
-chrM	265	A	3	,..	)II	0	0	0	0	2
-chrM	266	T	3	,..	+II	0	0	0	0	2
-chrM	267	G	4	,..^:.	*III	0	0	0	0	3
-chrM	268	A	4	,...	EIII	0	0	0	0	4
-chrM	269	A	4	,...	=III	0	0	0	0	4
-chrM	270	C	4	a...	;III	1	0	0	0	4
-chrM	271	G	4	,...	;III	0	0	0	0	4
-chrM	272	A	4	,...	8@II	0	0	0	0	4
-chrM	273	A	4	,...	1III	0	0	0	0	3
-chrM	274	A	4	,...	ICII	0	0	0	0	4
-chrM	275	G	4	,...	IIII	0	0	0	0	4
-chrM	276	T	4	,...	IIII	0	0	0	0	4
-chrM	277	T	4	,...	IIII	0	0	0	0	4
-chrM	278	C	4	,...	IIII	0	0	0	0	4
-chrM	279	G	4	,$...	IIII	0	0	0	0	4
-chrM	280	A	3	...	III	0	0	0	0	3
-chrM	281	C	3	...	GII	0	0	0	0	3
-chrM	282	T	3	...	III	0	0	0	0	3
-chrM	283	A	3	.$..	IFI	0	0	0	0	3
-chrM	284	A	3	..^:,	IAI	0	0	0	0	3
-chrM	285	G	3	..,	;II	0	0	0	0	3
-chrM	286	T	4	..,^:.	IIII	0	0	0	0	4
-chrM	287	C	4	..,.	II4I	0	0	0	0	3
-chrM	288	A	4	..,.	@III	0	0	0	0	4
-chrM	289	T	4	..,.	IIII	0	0	0	0	4
-chrM	290	A	4	..,.	@:II	0	0	0	0	4
-chrM	291	T	4	..,.	IIAI	0	0	0	0	4
-chrM	292	T	4	..,.	IIII	0	0	0	0	4
-chrM	293	A	4	..,.	8;II	0	0	0	0	4
-chrM	294	A	4	.$.,.	I<II	0	0	0	0	4
-chrM	295	A	3	.,.	4II	0	0	0	0	2
-chrM	296	T	3	.,.	III	0	0	0	0	3
-chrM	297	A	3	.,.	BII	0	0	0	0	3
-chrM	298	A	3	.,.	CII	0	0	0	0	3
-chrM	299	G	3	.,.	III	0	0	0	0	3
-chrM	300	G	3	.,.	;II	0	0	0	0	3
-chrM	301	G	3	.,.	III	0	0	0	0	3
-chrM	302	T	3	.$,.	III	0	0	0	0	3
-chrM	312	T	3	,.^:.	III	0	0	0	0	3
-chrM	313	C	3	,..	III	0	0	0	0	3
-chrM	314	G	3	,..	III	0	0	0	0	3
-chrM	315	T	3	,..	III	0	0	0	0	3
-chrM	316	G	3	,..	III	0	0	0	0	3
-chrM	317	C	3	,..	III	0	0	0	0	3
-chrM	318	C	3	,..	III	0	0	0	0	3
-chrM	319	A	3	,$..	III	0	0	0	0	3
-chrM	390	A	3	..^:.	III	0	0	0	0	3
-chrM	391	A	3	...	>II	0	0	0	0	3
-chrM	392	A	3	...	III	0	0	0	0	3
-chrM	393	T	3	...	III	0	0	0	0	3
-chrM	394	A	3	...	III	0	0	0	0	3
-chrM	395	A	3	.$..	III	0	0	0	0	3
-chrM	400	A	3	..^:.	III	0	0	0	0	3
-chrM	401	A	3	...	III	0	0	0	0	3
-chrM	402	A	3	...	III	0	0	0	0	3
-chrM	403	A	3	...	III	0	0	0	0	3
-chrM	404	C	3	...	III	0	0	0	0	3
-chrM	405	C	3	...	III	0	0	0	0	3
-chrM	406	C	3	...	EII	0	0	0	0	3
-chrM	407	A	3	...	III	0	0	0	0	3
-chrM	408	G	3	...	III	0	0	0	0	3
-chrM	409	T	3	...	0II	0	0	0	0	2
-chrM	410	T	3	...	III	0	0	0	0	3
-chrM	411	A	4	...^:,	IIII	0	0	0	0	4
-chrM	412	A	4	...,	FIII	0	0	0	0	4
-chrM	413	G	4	...,	IIIH	0	0	0	0	4
-chrM	414	C	4	...a	III2	0	0	0	0	3
+chrM	45	A	3	..^:.	III	3	0	0	0	3
+chrM	46	G	4	...^:.	IIII	0	0	4	0	4
+chrM	47	A	5	....^:,	IIIII	5	0	0	0	5
+chrM	48	T	5	....,	IIIII	0	0	0	5	5
+chrM	49	G	5	....,	IIIII	0	0	5	0	5
+chrM	50	A	5	....,	IIIII	5	0	0	0	5
+chrM	51	G	5	....,	IIIII	0	0	5	0	5
+chrM	52	T	5	....,	IIIII	0	0	0	5	5
+chrM	53	A	5	....,	IIIII	5	0	0	0	5
+chrM	54	T	5	....,	IIIII	0	0	0	5	5
+chrM	55	T	5	....,	IIIII	0	0	0	5	5
+chrM	56	C	5	....,	IIIII	0	5	0	0	5
+chrM	57	T	5	....,	IIIII	0	0	0	5	5
+chrM	58	T	5	....,	IIIII	0	0	0	5	5
+chrM	59	A	5	....,	IIIII	5	0	0	0	5
+chrM	60	C	5	....,	IIIII	0	5	0	0	5
+chrM	61	T	5	....,	IIIII	0	0	0	5	5
+chrM	62	C	5	....,	IIIII	0	5	0	0	5
+chrM	63	C	5	....,	IIIII	0	5	0	0	5
+chrM	64	A	5	....,	IIIII	5	0	0	0	5
+chrM	65	T	5	....,	IIIII	0	0	0	5	5
+chrM	66	A	5	....,	IIIII	5	0	0	0	5
+chrM	67	A	5	....,	IIIII	5	0	0	0	5
+chrM	68	A	5	....,	IIICI	5	0	0	0	5
+chrM	69	C	5	....,	IIIII	0	5	0	0	5
+chrM	70	A	5	....,	IIIII	5	0	0	0	5
+chrM	71	C	5	....,	IIIII	0	5	0	0	5
+chrM	72	A	5	....,	IAIII	5	0	0	0	5
+chrM	73	T	5	....,	IIIII	0	0	0	5	5
+chrM	74	A	5	....,	IIIII	5	0	0	0	5
+chrM	75	G	5	....,	%IIII	0	0	4	0	4
+chrM	76	G	5	T...,	*IIII	0	0	4	0	4
+chrM	77	C	5	.$...,	GIIII	0	5	0	0	5
+chrM	78	T	4	.$..,	IIII	0	0	0	4	4
+chrM	79	T	3	..,	III	0	0	0	3	3
+chrM	80	G	3	.$.,	I1I	0	0	2	0	2
+chrM	181	A	3	,,^:,	III	3	0	0	0	3
+chrM	182	G	3	,,,	III	0	0	3	0	3
+chrM	183	G	3	,,,	III	0	0	3	0	3
+chrM	184	T	3	,,,	III	0	0	0	3	3
+chrM	185	A	3	,,,	III	3	0	0	0	3
+chrM	186	T	3	,,,	III	0	0	0	3	3
+chrM	187	C	3	,,,	III	0	3	0	0	3
+chrM	188	A	3	,,,	III	3	0	0	0	3
+chrM	189	A	3	,,,	III	3	0	0	0	3
+chrM	190	G	3	,,,	III	0	0	3	0	3
+chrM	191	C	3	,$,,	III	0	3	0	0	3
+chrM	229	A	3	.^:,^:,	%II	2	0	0	0	2
+chrM	230	C	3	.,,	8II	0	3	0	0	3
+chrM	231	C	3	.,,	9II	0	3	0	0	3
+chrM	232	C	3	.,,	III	0	3	0	0	3
+chrM	233	C	3	.,,	AI'	0	2	0	0	2
+chrM	234	C	3	.,,	DI+	0	2	0	0	2
+chrM	235	A	3	.,,	&I@	2	0	0	0	2
+chrM	236	C	3	.$,a	+I$	0	1	0	0	1
+chrM	244	A	3	,,^:,	II;	3	0	0	0	3
+chrM	245	G	3	,,,	II*	0	0	2	0	2
+chrM	246	C	3	,,n	II"	0	2	0	0	2
+chrM	247	A	3	,,,	III	3	0	0	0	3
+chrM	248	G	4	,,,^:.	IIII	0	0	4	0	4
+chrM	249	T	4	,,,.	II)I	0	0	0	3	3
+chrM	250	G	4	,,,.	II2I	0	0	3	0	3
+chrM	251	A	4	,,,.	II(I	3	0	0	0	3
+chrM	252	T	4	,,,.	II*I	0	0	0	3	3
+chrM	253	A	4	,,,.	II7I	4	0	0	0	4
+chrM	254	A	4	,,,.	II1I	3	0	0	0	3
+chrM	255	A	4	,,,.	II?I	4	0	0	0	4
+chrM	256	A	4	,,,.	II9I	4	0	0	0	4
+chrM	257	A	4	,,,.	II?I	4	0	0	0	4
+chrM	258	T	4	,,,.	II$I	0	0	0	3	3
+chrM	259	T	5	,,,.^:.	II&II	0	0	0	4	4
+chrM	260	A	5	,,,..	II,II	4	0	0	0	4
+chrM	261	A	5	,,,..	II/II	4	0	0	0	4
+chrM	262	G	5	,,,..	II5II	0	0	5	0	5
+chrM	263	C	5	,,a..	II%II	0	4	0	0	4
+chrM	264	T	5	,$,$,..	II%II	0	0	0	4	4
+chrM	265	A	3	,..	)II	2	0	0	0	2
+chrM	266	T	3	,..	+II	0	0	0	2	2
+chrM	267	G	4	,..^:.	*III	0	0	3	0	3
+chrM	268	A	4	,...	EIII	4	0	0	0	4
+chrM	269	A	4	,...	=III	4	0	0	0	4
+chrM	270	C	4	a...	;III	1	3	0	0	4
+chrM	271	G	4	,...	;III	0	0	4	0	4
+chrM	272	A	4	,...	8@II	4	0	0	0	4
+chrM	273	A	4	,...	1III	3	0	0	0	3
+chrM	274	A	4	,...	ICII	4	0	0	0	4
+chrM	275	G	4	,...	IIII	0	0	4	0	4
+chrM	276	T	4	,...	IIII	0	0	0	4	4
+chrM	277	T	4	,...	IIII	0	0	0	4	4
+chrM	278	C	4	,...	IIII	0	4	0	0	4
+chrM	279	G	4	,$...	IIII	0	0	4	0	4
+chrM	280	A	3	...	III	3	0	0	0	3
+chrM	281	C	3	...	GII	0	3	0	0	3
+chrM	282	T	3	...	III	0	0	0	3	3
+chrM	283	A	3	.$..	IFI	3	0	0	0	3
+chrM	284	A	3	..^:,	IAI	3	0	0	0	3
+chrM	285	G	3	..,	;II	0	0	3	0	3
+chrM	286	T	4	..,^:.	IIII	0	0	0	4	4
+chrM	287	C	4	..,.	II4I	0	3	0	0	3
+chrM	288	A	4	..,.	@III	4	0	0	0	4
+chrM	289	T	4	..,.	IIII	0	0	0	4	4
+chrM	290	A	4	..,.	@:II	4	0	0	0	4
+chrM	291	T	4	..,.	IIAI	0	0	0	4	4
+chrM	292	T	4	..,.	IIII	0	0	0	4	4
+chrM	293	A	4	..,.	8;II	4	0	0	0	4
+chrM	294	A	4	.$.,.	I<II	4	0	0	0	4
+chrM	295	A	3	.,.	4II	2	0	0	0	2
+chrM	296	T	3	.,.	III	0	0	0	3	3
+chrM	297	A	3	.,.	BII	3	0	0	0	3
+chrM	298	A	3	.,.	CII	3	0	0	0	3
+chrM	299	G	3	.,.	III	0	0	3	0	3
+chrM	300	G	3	.,.	;II	0	0	3	0	3
+chrM	301	G	3	.,.	III	0	0	3	0	3
+chrM	302	T	3	.$,.	III	0	0	0	3	3
+chrM	312	T	3	,.^:.	III	0	0	0	3	3
+chrM	313	C	3	,..	III	0	3	0	0	3
+chrM	314	G	3	,..	III	0	0	3	0	3
+chrM	315	T	3	,..	III	0	0	0	3	3
+chrM	316	G	3	,..	III	0	0	3	0	3
+chrM	317	C	3	,..	III	0	3	0	0	3
+chrM	318	C	3	,..	III	0	3	0	0	3
+chrM	319	A	3	,$..	III	3	0	0	0	3
+chrM	390	A	3	..^:.	III	3	0	0	0	3
+chrM	391	A	3	...	>II	3	0	0	0	3
+chrM	392	A	3	...	III	3	0	0	0	3
+chrM	393	T	3	...	III	0	0	0	3	3
+chrM	394	A	3	...	III	3	0	0	0	3
+chrM	395	A	3	.$..	III	3	0	0	0	3
+chrM	400	A	3	..^:.	III	3	0	0	0	3
+chrM	401	A	3	...	III	3	0	0	0	3
+chrM	402	A	3	...	III	3	0	0	0	3
+chrM	403	A	3	...	III	3	0	0	0	3
+chrM	404	C	3	...	III	0	3	0	0	3
+chrM	405	C	3	...	III	0	3	0	0	3
+chrM	406	C	3	...	EII	0	3	0	0	3
+chrM	407	A	3	...	III	3	0	0	0	3
+chrM	408	G	3	...	III	0	0	3	0	3
+chrM	409	T	3	...	0II	0	0	0	2	2
+chrM	410	T	3	...	III	0	0	0	3	3
+chrM	411	A	4	...^:,	IIII	4	0	0	0	4
+chrM	412	A	4	...,	FIII	4	0	0	0	4
+chrM	413	G	4	...,	IIIH	0	0	4	0	4
+chrM	414	C	4	...a	III2	0	3	0	0	3
 chrM	415	C	4	TTTt	III7	0	0	0	4	4
-chrM	416	G	5	...,^:,	II?7:	0	0	0	0	5
-chrM	417	T	5	...,,	;IIE@	0	0	0	0	5
-chrM	418	A	5	...,,	IIIII	0	0	0	0	5
-chrM	419	A	5	...,,	IIIII	0	0	0	0	5
-chrM	420	A	5	...,,	FIIII	0	0	0	0	5
-chrM	421	A	5	...,,	IIIII	0	0	0	0	5
-chrM	422	A	5	...,,	>IIII	0	0	0	0	5
-chrM	423	G	6	...,,^:,	HII/I,	0	0	0	0	4
-chrM	424	C	6	.$..a,,	;II-I:	0	0	0	0	5
-chrM	425	T	5	.$.,,,	IIIIF	0	0	0	0	5
-chrM	426	A	5	.,,,^:,	III@I	0	0	0	0	5
-chrM	427	C	5	.,,,,	III$I	0	0	0	0	4
-chrM	428	A	5	.,,,,	IIIII	0	0	0	0	5
-chrM	429	A	5	.,,,,	IIII.	0	0	0	0	4
-chrM	430	C	5	.,,,a	I%I5'	0	0	0	0	3
-chrM	431	C	5	.,,,,	I(I5<	0	0	0	0	4
-chrM	432	A	5	.,,,,	IIIII	0	0	0	0	5
-chrM	433	A	5	.,,,,	0IIII	0	0	0	0	4
-chrM	434	A	5	.,,,,	=IIII	0	0	0	0	5
-chrM	435	G	5	.$,,,,	EIIII	0	0	0	0	5
-chrM	436	T	4	,,,,	III5	0	0	0	0	4
-chrM	437	A	4	,,,,	IIII	0	0	0	0	4
-chrM	438	A	4	,,,,	IIII	0	0	0	0	4
-chrM	439	A	4	,,,,	IIII	0	0	0	0	4
-chrM	440	A	4	,,,,	IIIF	0	0	0	0	4
-chrM	441	T	6	,,,,^:.^:.	III;II	0	0	0	0	6
-chrM	442	A	6	,,,,..	IIIIII	0	0	0	0	6
-chrM	443	G	6	,,,,..	IIIIII	0	0	0	0	6
-chrM	444	A	6	,,,,..	IIIIII	0	0	0	0	6
-chrM	445	C	6	,,,,..	IIIIII	0	0	0	0	6
-chrM	446	T	6	,$,,,..	IIIIII	0	0	0	0	6
-chrM	447	A	5	,,,..	IIIII	0	0	0	0	5
-chrM	448	C	5	,,,..	IIIII	0	0	0	0	5
-chrM	449	G	6	,,,..^:,	IIIII6	0	0	0	0	6
-chrM	450	A	6	,,,..,	IIIIII	0	0	0	0	6
-chrM	451	A	6	,$,,..,	IIIIII	0	0	0	0	6
-chrM	452	A	5	,,..,	IIIII	0	0	0	0	5
-chrM	453	G	5	,,..,	IIIII	0	0	0	0	5
-chrM	454	T	6	,,..,^:,	IIIIII	0	0	0	0	6
-chrM	455	G	6	,,..,,	IIIIII	0	0	0	0	6
-chrM	456	A	6	,,..,,	IIIIII	0	0	0	0	6
-chrM	457	C	6	,,..,,	IIIII=	0	0	0	0	6
-chrM	458	T	6	,$,..,,	IIIIII	0	0	0	0	6
-chrM	459	T	5	,..,,	IIIII	0	0	0	0	5
-chrM	460	T	5	,..,,	IIIII	0	0	0	0	5
-chrM	461	A	5	,$..,,	IIIII	0	0	0	0	5
-chrM	462	A	4	..,,	IIII	0	0	0	0	4
-chrM	463	T	4	..,,	IIIC	0	0	0	0	4
-chrM	464	A	4	..,,	IIII	0	0	0	0	4
-chrM	465	C	4	..,,	IIII	0	0	0	0	4
-chrM	466	C	4	..,,	IIII	0	0	0	0	4
-chrM	467	T	4	..,,	II>?	0	0	0	0	4
-chrM	468	C	4	..,,	IIII	0	0	0	0	4
-chrM	469	T	4	..,,	IIIG	0	0	0	0	4
-chrM	470	G	4	..,,	%III	0	0	0	0	3
-chrM	471	A	4	..,,	4;II	0	0	0	0	3
-chrM	472	C	4	..,,	II3I	0	0	0	0	3
-chrM	473	T	4	..,,	IIII	0	0	0	0	4
-chrM	474	A	4	..,,	;III	0	0	0	0	4
-chrM	475	C	4	..,,	IIII	0	0	0	0	4
-chrM	476	A	4	.$.$,,	32II	0	0	0	0	2
-chrM	480	T	3	,,^:.	III	0	0	0	0	3
-chrM	481	A	3	,,.	III	0	0	0	0	3
-chrM	482	G	3	,,.	III	0	0	0	0	3
-chrM	483	C	4	,,.^:,	IIIE	0	0	0	0	4
-chrM	484	T	4	,$,.,	III9	0	0	0	0	4
-chrM	485	A	3	,.,	III	0	0	0	0	3
-chrM	486	A	3	,.,	III	0	0	0	0	3
-chrM	487	G	3	,.,	III	0	0	0	0	3
-chrM	488	A	3	,.,	III	0	0	0	0	3
-chrM	489	C	3	,$.,	III	0	0	0	0	3
-chrM	510	C	3	.,^:.	III	0	0	0	0	3
-chrM	511	C	3	.,.	III	0	0	0	0	3
-chrM	512	A	3	.,.	6II	0	0	0	0	3
-chrM	513	C	3	.,.	III	0	0	0	0	3
-chrM	514	T	3	.,.	III	0	0	0	0	3
-chrM	515	A	3	.$,.	III	0	0	0	0	3
-chrM	518	C	3	,$.^:.	III	0	0	0	0	3
-chrM	520	T	3	..^:,	III	0	0	0	0	3
-chrM	521	A	3	..,	III	0	0	0	0	3
-chrM	522	G	3	..,	II,	0	0	0	0	2
-chrM	523	C	3	..,	III	0	0	0	0	3
-chrM	524	C	3	..,	II7	0	0	0	0	3
-chrM	525	C	3	..,	III	0	0	0	0	3
-chrM	526	T	3	..,	II?	0	0	0	0	3
-chrM	527	A	3	..,	III	0	0	0	0	3
-chrM	528	A	3	..,	III	0	0	0	0	3
-chrM	529	A	3	..,	FII	0	0	0	0	3
-chrM	530	C	3	..,	II+	0	0	0	0	2
-chrM	531	T	3	..,	III	0	0	0	0	3
-chrM	532	A	3	..,	:II	0	0	0	0	3
-chrM	533	A	3	..,	DGI	0	0	0	0	3
-chrM	534	A	3	..,	III	0	0	0	0	3
-chrM	535	A	3	..,	?CI	0	0	0	0	3
-chrM	536	T	3	..,	III	0	0	0	0	3
-chrM	537	A	3	..,	9II	0	0	0	0	3
-chrM	538	G	3	..,	III	0	0	0	0	3
-chrM	539	C	3	..,	III	0	0	0	0	3
-chrM	540	T	3	..,	III	0	0	0	0	3
-chrM	541	T	3	..,	III	0	0	0	0	3
-chrM	542	A	4	..,^:.	IIII	0	0	0	0	4
-chrM	543	C	4	..,.	IIII	0	0	0	0	4
-chrM	544	C	4	..,.	IIII	0	0	0	0	4
-chrM	545	A	4	N$.,.	"III	0	0	0	0	3
-chrM	546	C	3	.,.	III	0	0	0	0	3
-chrM	547	A	3	.,.	DII	0	0	0	0	3
-chrM	548	A	3	.,.	EII	0	0	0	0	3
-chrM	549	C	3	.,.	III	0	0	0	0	3
-chrM	550	A	3	.,.	III	0	0	0	0	3
-chrM	551	A	3	.,.	6II	0	0	0	0	3
-chrM	552	A	3	.,.	GII	0	0	0	0	3
-chrM	553	G	3	.$,.	?II	0	0	0	0	3
-chrM	577	A	3	.$.^:.	III	0	0	0	0	3
-chrM	580	A	3	..^:,	III	0	0	0	0	3
-chrM	581	G	3	..,	III	0	0	0	0	3
-chrM	582	C	3	..,	II?	0	0	0	0	3
-chrM	583	C	3	..a	II-	0	0	0	0	2
-chrM	584	T	3	..,	IIH	0	0	0	0	3
-chrM	585	A	3	..,	III	0	0	0	0	3
-chrM	586	A	3	..,	III	0	0	0	0	3
-chrM	587	A	4	..,^:,	IIII	0	0	0	0	4
-chrM	588	A	4	..,,	IIII	0	0	0	0	4
-chrM	589	C	4	..,,	IIII	0	0	0	0	4
-chrM	590	T	4	..,,	II.5	0	0	0	0	3
-chrM	591	C	4	.$.,,	II<I	0	0	0	0	4
-chrM	592	A	3	.,,	III	0	0	0	0	3
-chrM	593	A	3	.,,	III	0	0	0	0	3
-chrM	594	A	3	.,,	III	0	0	0	0	3
-chrM	595	G	3	.,,	III	0	0	0	0	3
-chrM	596	G	3	.,,	III	0	0	0	0	3
-chrM	597	A	3	.,,	:EI	0	0	0	0	3
-chrM	598	C	3	.,,	III	0	0	0	0	3
-chrM	599	T	4	.,,^:.	II@I	0	0	0	0	4
-chrM	600	T	4	.,,.	IIII	0	0	0	0	4
-chrM	601	G	4	.,,.	IIII	0	0	0	0	4
-chrM	602	G	4	.,,.	IIII	0	0	0	0	4
-chrM	603	C	4	.,,.	IIII	0	0	0	0	4
-chrM	604	G	4	.,,.	IIII	0	0	0	0	4
-chrM	605	G	4	.,,.	IIII	0	0	0	0	4
-chrM	606	T	4	.,,.	5III	0	0	0	0	4
-chrM	607	G	4	.,,.	IIII	0	0	0	0	4
-chrM	608	C	4	.,,.	*III	0	0	0	0	3
-chrM	609	T	5	.,,.^:,	?IIII	0	0	0	0	5
-chrM	610	T	5	.,,.,	IIII8	0	0	0	0	5
-chrM	611	T	5	.,,.,	IIIII	0	0	0	0	5
-chrM	612	A	5	T$,,.,	3IIII	0	0	0	0	4
-chrM	613	C	4	,,.,	III)	0	0	0	0	3
-chrM	614	A	4	,,.,	IIII	0	0	0	0	4
-chrM	615	T	4	,$,.,	IIII	0	0	0	0	4
-chrM	616	C	3	,.,	III	0	0	0	0	3
-chrM	617	C	3	,.,	III	0	0	0	0	3
-chrM	618	C	3	,.,	III	0	0	0	0	3
-chrM	619	T	3	,.,	IF9	0	0	0	0	3
-chrM	620	C	3	,.,	II7	0	0	0	0	3
-chrM	621	T	3	,.,	III	0	0	0	0	3
-chrM	622	A	3	,$.,	I7I	0	0	0	0	3
-chrM	652	C	3	.,^:,	II)	0	0	0	0	2
-chrM	653	G	3	.,,	II2	0	0	0	0	2
-chrM	654	A	3	.,,	III	0	0	0	0	3
-chrM	655	T	4	.,,^:.	II*I	0	0	0	0	3
-chrM	656	A	4	.,,.	IIII	0	0	0	0	4
-chrM	657	A	4	.,,.	IIII	0	0	0	0	4
-chrM	658	A	4	.,,.	IIII	0	0	0	0	4
-chrM	659	C	4	.,,.	IIII	0	0	0	0	4
-chrM	660	C	4	.,,.	IIII	0	0	0	0	4
-chrM	661	C	4	.,,.	IIII	0	0	0	0	4
-chrM	662	C	4	.,,.	IIFI	0	0	0	0	4
-chrM	663	A	4	.,,.	=IDI	0	0	0	0	4
-chrM	664	C	4	.,,.	II6I	0	0	0	0	4
-chrM	665	C	5	.,,.^:,	IIIII	0	0	0	0	5
-chrM	666	A	5	.,,.,	BIIII	0	0	0	0	5
-chrM	667	T	5	.,,.,	II5I+	0	0	0	0	4
-chrM	668	C	5	.,,.,	IIIII	0	0	0	0	5
-chrM	669	C	5	.,,.,	IIIII	0	0	0	0	5
-chrM	670	C	5	.,a.,	II.II	0	0	0	0	4
-chrM	671	T	5	.,,.,	IIIIA	0	0	0	0	5
-chrM	672	T	6	.,,.,^:.	FI9I.I	0	0	0	0	5
-chrM	673	G	6	.,,.,.	IIIIII	0	0	0	0	6
-chrM	674	C	6	.,,.,.	IIIIII	0	0	0	0	6
-chrM	675	T	6	.,,.,.	IIIIII	0	0	0	0	6
-chrM	676	A	6	.,,.,.	,IIEII	0	0	0	0	5
-chrM	677	A	7	.,,.,.^:.	3II;III	0	0	0	0	6
-chrM	678	T	7	.,,.,..	IIIIDII	0	0	0	0	7
-chrM	679	T	7	.,,.,..	CIIIIII	0	0	0	0	7
-chrM	680	C	7	.,,.,..	IIIIIII	0	0	0	0	7
-chrM	681	A	7	.$,,.,..	9IIIIII	0	0	0	0	7
-chrM	682	G	6	,,.,..	II$III	0	0	0	0	5
-chrM	683	C	6	,,.,..	IIIIII	0	0	0	0	6
-chrM	684	C	6	,$,.,..	IIIIII	0	0	0	0	6
-chrM	685	T	5	,.,..	IIIII	0	0	0	0	5
-chrM	686	A	5	,.,..	IIIII	0	0	0	0	5
-chrM	687	T	5	,$.,..	IIIII	0	0	0	0	5
-chrM	688	A	4	.,..	IIII	0	0	0	0	4
-chrM	689	T	4	.,..	IIII	0	0	0	0	4
-chrM	690	A	4	.$,..	IIII	0	0	0	0	4
-chrM	691	C	3	,..	III	0	0	0	0	3
-chrM	692	C	3	,..	III	0	0	0	0	3
-chrM	693	G	4	,..^:,	IIII	0	0	0	0	4
-chrM	694	C	4	,..,	IIII	0	0	0	0	4
-chrM	695	C	4	,..,	IIII	0	0	0	0	4
-chrM	696	A	4	,..,	IIII	0	0	0	0	4
-chrM	697	T	4	,..,	IIII	0	0	0	0	4
-chrM	698	C	4	,..,	IIII	0	0	0	0	4
-chrM	699	T	4	,..,	IIII	0	0	0	0	4
-chrM	700	T	4	,$..,	IIII	0	0	0	0	4
-chrM	701	C	3	..,	III	0	0	0	0	3
-chrM	702	A	3	..,	III	0	0	0	0	3
-chrM	703	G	3	..,	2II	0	0	0	0	2
-chrM	704	C	3	..,	III	0	0	0	0	3
-chrM	705	A	3	N.,	"II	0	0	0	0	2
-chrM	706	A	3	..,	I5I	0	0	0	0	3
-chrM	707	A	3	.$.,	GII	0	0	0	0	3
-chrM	726	A	3	,,^:.	III	0	0	0	0	3
-chrM	727	G	3	,,.	III	0	0	0	0	3
-chrM	728	T	3	,$,.	III	0	0	0	0	3
-chrM	732	C	3	a.^:.	$II	0	0	0	0	2
-chrM	733	A	3	,..	III	0	0	0	0	3
-chrM	734	C	3	,..	%II	0	0	0	0	2
-chrM	735	A	3	,..	III	0	0	0	0	3
-chrM	736	A	3	,..	*II	0	0	0	0	2
-chrM	737	A	3	,..	III	0	0	0	0	3
-chrM	738	T	3	,..	III	0	0	0	0	3
-chrM	739	A	3	,..	III	0	0	0	0	3
-chrM	740	T	3	,..	III	0	0	0	0	3
-chrM	741	C	3	,..	III	0	0	0	0	3
-chrM	742	C	3	,..	III	0	0	0	0	3
-chrM	743	A	3	,..	III	0	0	0	0	3
-chrM	744	A	3	,..	III	0	0	0	0	3
-chrM	745	C	3	,..	III	0	0	0	0	3
-chrM	746	A	3	,..	IIE	0	0	0	0	3
-chrM	747	T	3	,..	III	0	0	0	0	3
-chrM	748	A	3	,..	III	0	0	0	0	3
-chrM	749	A	3	,..	III	0	0	0	0	3
-chrM	750	A	3	,..	III	0	0	0	0	3
-chrM	751	A	3	,..	IAI	0	0	0	0	3
-chrM	752	A	3	,..	III	0	0	0	0	3
-chrM	753	C	3	,..	III	0	0	0	0	3
-chrM	754	G	3	,$..	III	0	0	0	0	3
-chrM	756	T	3	..^:,	III	0	0	0	0	3
-chrM	757	A	3	..,	III	0	0	0	0	3
-chrM	758	G	3	..,	III	0	0	0	0	3
-chrM	759	G	3	..,	III	0	0	0	0	3
-chrM	760	T	3	..,	=II	0	0	0	0	3
-chrM	761	C	3	.$.,	IID	0	0	0	0	3
-chrM	767	G	3	.$,^:,	III	0	0	0	0	3
-chrM	769	A	3	,,^:,	III	0	0	0	0	3
-chrM	770	G	3	,,,	III	0	0	0	0	3
-chrM	771	C	3	,,,	IHI	0	0	0	0	3
-chrM	772	C	3	,a,	I)/	0	0	0	0	1
-chrM	773	C	3	,,,	I7I	0	0	0	0	3
-chrM	774	A	4	,,,^:.	II:I	0	0	0	0	4
-chrM	775	T	4	,,,.	IH.I	0	0	0	0	3
-chrM	776	G	4	,,,.	IIII	0	0	0	0	4
-chrM	777	G	4	,,,.	IIII	0	0	0	0	4
-chrM	778	G	4	,,,.	IIII	0	0	0	0	4
-chrM	779	A	4	,,,.	IIAI	0	0	0	0	4
-chrM	780	T	4	,,,.	IIGI	0	0	0	0	4
-chrM	781	G	4	,,,.	IIII	0	0	0	0	4
-chrM	782	G	4	,,,.	IIII	0	0	0	0	4
-chrM	783	A	4	,,,.	IIII	0	0	0	0	4
-chrM	784	G	4	,,,.	IIII	0	0	0	0	4
-chrM	785	A	4	,,,.	IIII	0	0	0	0	4
-chrM	786	G	4	,,,.	IIII	0	0	0	0	4
-chrM	787	A	4	,,,.	IIII	0	0	0	0	4
-chrM	788	A	4	,,,.	IIII	0	0	0	0	4
-chrM	789	A	4	,,,.	IIII	0	0	0	0	4
-chrM	790	T	5	,,,.^:.	IIIII	0	0	0	0	5
-chrM	791	G	5	,$,,..	IIIII	0	0	0	0	5
-chrM	792	G	4	,,..	IIII	0	0	0	0	4
-chrM	793	G	4	,,..	IIII	0	0	0	0	4
-chrM	794	C	4	,,..	IIII	0	0	0	0	4
-chrM	795	T	4	,,..	IIII	0	0	0	0	4
-chrM	796	A	4	,,..	IIII	0	0	0	0	4
-chrM	797	C	4	,,..	IIII	0	0	0	0	4
-chrM	798	A	4	,,..	IIII	0	0	0	0	4
-chrM	799	T	4	,,..	IIII	0	0	0	0	4
-chrM	800	T	4	,,..	IIII	0	0	0	0	4
-chrM	801	T	4	,,..	IIII	0	0	0	0	4
-chrM	802	T	4	,$,..	IIII	0	0	0	0	4
-chrM	803	C	3	,..	III	0	0	0	0	3
-chrM	804	T	3	,$..	III	0	0	0	0	3
-chrM	806	C	3	..^:.	III	0	0	0	0	3
-chrM	807	C	3	...	III	0	0	0	0	3
-chrM	808	C	3	...	III	0	0	0	0	3
-chrM	809	T	3	.$..	III	0	0	0	0	3
-chrM	810	A	3	..^:,	III	0	0	0	0	3
-chrM	811	A	3	..,	III	0	0	0	0	3
-chrM	812	G	3	..,	II7	0	0	0	0	3
-chrM	813	A	3	..,	III	0	0	0	0	3
-chrM	814	A	3	..,	III	0	0	0	0	3
-chrM	815	C	3	..,	III	0	0	0	0	3
-chrM	816	A	3	..,	III	0	0	0	0	3
-chrM	817	A	3	..,	III	0	0	0	0	3
-chrM	818	G	3	..,	III	0	0	0	0	3
-chrM	819	A	3	..,	III	0	0	0	0	3
-chrM	820	A	3	..,	&II	0	0	0	0	2
-chrM	821	C	3	..,	III	0	0	0	0	3
-chrM	822	T	3	..,	III	0	0	0	0	3
-chrM	823	T	3	..n	II"	0	0	0	0	2
-chrM	824	T	3	..,	III	0	0	0	0	3
-chrM	825	A	3	.$.,	III	0	0	0	0	3
-chrM	826	A	3	.,^:.	III	0	0	0	0	3
-chrM	827	C	3	.,.	III	0	0	0	0	3
-chrM	828	C	3	.,.	III	0	0	0	0	3
-chrM	829	C	4	.,.^:,	IIII	0	0	0	0	4
-chrM	830	G	4	.,.,	IIII	0	0	0	0	4
-chrM	831	G	4	.,.,	IIII	0	0	0	0	4
-chrM	832	A	4	.,.,	IIII	0	0	0	0	4
-chrM	833	C	4	.,.,	IIII	0	0	0	0	4
-chrM	834	G	4	.,.,	IIII	0	0	0	0	4
-chrM	835	A	4	.,.,	IIII	0	0	0	0	4
-chrM	836	A	4	.,.,	8III	0	0	0	0	4
-chrM	837	A	4	.,.,	IIII	0	0	0	0	4
-chrM	838	G	4	.,.,	IIII	0	0	0	0	4
-chrM	839	T	5	.,.,^:,	4:IIG	0	0	0	0	4
-chrM	840	C	5	.,.,,	IIIII	0	0	0	0	5
-chrM	841	T	5	.$,.,,	IIIII	0	0	0	0	5
-chrM	842	C	4	,.,,	IIII	0	0	0	0	4
-chrM	843	C	4	,.,,	IIII	0	0	0	0	4
-chrM	844	A	4	,.,,	IIII	0	0	0	0	4
-chrM	845	T	4	,$.,,	IIII	0	0	0	0	4
-chrM	846	G	3	.,,	@II	0	0	0	0	3
-chrM	847	A	3	.,,	III	0	0	0	0	3
-chrM	848	A	3	.,,	III	0	0	0	0	3
-chrM	849	A	3	.,,	III	0	0	0	0	3
-chrM	850	C	3	.,,	III	0	0	0	0	3
-chrM	851	T	3	.,,	III	0	0	0	0	3
-chrM	852	G	3	.,,	III	0	0	0	0	3
-chrM	853	G	3	.,,	III	0	0	0	0	3
-chrM	854	A	3	.,,	EII	0	0	0	0	3
-chrM	855	G	3	.,,	DII	0	0	0	0	3
-chrM	856	A	3	.,,	III	0	0	0	0	3
-chrM	857	C	3	.,,	III	0	0	0	0	3
-chrM	858	T	4	.,,^:,	IIIA	0	0	0	0	4
-chrM	859	A	4	.,,,	@III	0	0	0	0	4
-chrM	860	A	4	.,,,	IIII	0	0	0	0	4
-chrM	861	A	4	.$,,,	EIII	0	0	0	0	4
-chrM	862	G	3	,,,	III	0	0	0	0	3
-chrM	863	G	3	,,,	III	0	0	0	0	3
-chrM	864	A	3	,$,,	III	0	0	0	0	3
-chrM	905	C	3	,.^:,	III	0	0	0	0	3
-chrM	906	A	3	,.,	III	0	0	0	0	3
-chrM	907	G	3	,.,	III	0	0	0	0	3
-chrM	908	G	3	,.,	III	0	0	0	0	3
-chrM	909	C	3	,.,	III	0	0	0	0	3
-chrM	910	C	3	,.,	III	0	0	0	0	3
-chrM	911	A	4	,.,^:,	IIII	0	0	0	0	4
-chrM	912	T	4	,.,,	IIEG	0	0	0	0	4
-chrM	913	G	4	,.,,	III:	0	0	0	0	4
-chrM	914	A	4	,.,,	IIII	0	0	0	0	4
-chrM	915	A	4	,.,,	IIII	0	0	0	0	4
-chrM	916	G	4	,.,,	III5	0	0	0	0	4
-chrM	917	C	4	,.,,	III5	0	0	0	0	4
-chrM	918	G	4	,.,,	IIII	0	0	0	0	4
-chrM	919	C	4	,.,,	III<	0	0	0	0	4
-chrM	920	G	4	,.,,	IIII	0	0	0	0	4
-chrM	921	C	4	,.,,	IIII	0	0	0	0	4
-chrM	922	A	4	,.,,	IIII	0	0	0	0	4
-chrM	923	C	4	,.,,	III8	0	0	0	0	4
-chrM	924	A	4	,.,,	IFII	0	0	0	0	4
-chrM	925	C	4	,.,,	IIII	0	0	0	0	4
-chrM	926	A	4	,.,,	IIII	0	0	0	0	4
-chrM	927	C	4	,.,,	IIII	0	0	0	0	4
-chrM	928	C	5	,.,,^:,	IIII:	0	0	0	0	5
-chrM	929	G	5	,.,,,	IIIE:	0	0	0	0	5
-chrM	930	C	5	,.,,,	IIIII	0	0	0	0	5
-chrM	931	C	5	,.,,,	IIIIF	0	0	0	0	5
-chrM	932	C	5	,.,,,	IIIIC	0	0	0	0	5
-chrM	933	G	5	,$.,,,	I?II:	0	0	0	0	5
-chrM	934	T	4	.$,,,	4II>	0	0	0	0	3
-chrM	935	C	3	,,,	III	0	0	0	0	3
-chrM	936	A	3	,,,	III	0	0	0	0	3
-chrM	937	C	3	,,,	II1	0	0	0	0	2
-chrM	938	C	3	,,,	III	0	0	0	0	3
-chrM	939	C	3	,,,	III	0	0	0	0	3
-chrM	940	T	3	,$,,	III	0	0	0	0	3
-chrM	958	C	3	,.^:.	III	0	0	0	0	3
-chrM	959	A	3	,..	III	0	0	0	0	3
-chrM	960	T	3	,..	III	0	0	0	0	3
-chrM	961	A	3	,..	III	0	0	0	0	3
-chrM	962	A	3	,..	III	0	0	0	0	3
-chrM	963	C	4	,$..^:.	IIII	0	0	0	0	4
-chrM	964	A	3	...	I(;	0	0	0	0	2
-chrM	965	T	3	...	III	0	0	0	0	3
-chrM	966	A	4	...^:.	IIII	0	0	0	0	4
-chrM	967	A	4	....	IIII	0	0	0	0	4
-chrM	968	C	4	....	IEII	0	0	0	0	4
-chrM	969	A	4	....	IIII	0	0	0	0	4
-chrM	970	T	4	....	IIII	0	0	0	0	4
-chrM	971	A	4	....	IIII	0	0	0	0	4
-chrM	972	A	4	....	IIII	0	0	0	0	4
-chrM	973	A	4	....	II0I	0	0	0	0	3
-chrM	974	A	5	....^:.	IIIII	0	0	0	0	5
-chrM	975	C	5	.....	IIIII	0	0	0	0	5
-chrM	976	C	5	.....	IIIII	0	0	0	0	5
-chrM	977	G	5	.....	IIIII	0	0	0	0	5
-chrM	978	T	5	.....	IIIII	0	0	0	0	5
-chrM	979	G	5	.....	I0III	0	0	0	0	4
-chrM	980	A	5	.....	IIII4	0	0	0	0	4
-chrM	981	C	5	.....	IIIII	0	0	0	0	5
-chrM	982	C	5	.....	IIIII	0	0	0	0	5
-chrM	983	C	5	.....	IIIII	0	0	0	0	5
-chrM	984	A	5	.....	-IGII	0	0	0	0	4
-chrM	985	A	5	.....	4GIII	0	0	0	0	4
-chrM	986	A	5	.....	BDGII	0	0	0	0	5
-chrM	987	C	5	.....	IDIII	0	0	0	0	5
-chrM	988	A	5	.....	@<III	0	0	0	0	5
-chrM	989	T	5	.....	IIIII	0	0	0	0	5
-chrM	990	A	5	.$....	I@III	0	0	0	0	5
-chrM	991	T	4	....	IICI	0	0	0	0	4
-chrM	992	G	4	T...	)III	0	0	0	0	3
-chrM	993	A	4	.$...	?ICI	0	0	0	0	4
-chrM	994	A	3	...	III	0	0	0	0	3
-chrM	995	A	3	...	III	0	0	0	0	3
-chrM	996	G	3	...	III	0	0	0	0	3
-chrM	997	G	3	...	III	0	0	0	0	3
-chrM	998	A	3	.$..	4II	0	0	0	0	2
-chrM	999	G	3	..^:.	III	0	0	0	0	3
-chrM	1000	A	3	...	III	0	0	0	0	3
-chrM	1001	C	3	.$..	III	0	0	0	0	3
-chrM	1043	A	3	..^:,	III	0	0	0	0	3
-chrM	1044	A	3	..,	III	0	0	0	0	3
-chrM	1045	C	3	..,	II7	0	0	0	0	3
-chrM	1046	C	3	..,	II-	0	0	0	0	2
-chrM	1047	A	3	..,	III	0	0	0	0	3
-chrM	1048	A	3	..,	III	0	0	0	0	3
-chrM	1049	A	3	..,	III	0	0	0	0	3
-chrM	1050	G	3	..,	III	0	0	0	0	3
-chrM	1051	T	3	..,	III	0	0	0	0	3
-chrM	1052	G	3	..,	III	0	0	0	0	3
-chrM	1053	T	3	..,	GII	0	0	0	0	3
-chrM	1054	A	3	..,	III	0	0	0	0	3
-chrM	1055	G	3	..,	:II	0	0	0	0	3
-chrM	1056	C	3	..a	HI%	0	0	0	0	2
-chrM	1057	T	3	..,	III	0	0	0	0	3
-chrM	1058	T	3	..,	III	0	0	0	0	3
-chrM	1059	A	3	..,	BII	0	0	0	0	3
-chrM	1060	A	3	..,	GII	0	0	0	0	3
-chrM	1061	A	3	..,	HII	0	0	0	0	3
-chrM	1062	C	3	..,	III	0	0	0	0	3
-chrM	1063	A	3	..,	DII	0	0	0	0	3
-chrM	1064	A	3	..,	BII	0	0	0	0	3
-chrM	1065	A	3	..,	1II	0	0	0	0	2
-chrM	1066	G	3	.$.,	&II	0	0	0	0	2
+chrM	416	G	5	...,^:,	II?7:	0	0	5	0	5
+chrM	417	T	5	...,,	;IIE@	0	0	0	5	5
+chrM	418	A	5	...,,	IIIII	5	0	0	0	5
+chrM	419	A	5	...,,	IIIII	5	0	0	0	5
+chrM	420	A	5	...,,	FIIII	5	0	0	0	5
+chrM	421	A	5	...,,	IIIII	5	0	0	0	5
+chrM	422	A	5	...,,	>IIII	5	0	0	0	5
+chrM	423	G	6	...,,^:,	HII/I,	0	0	4	0	4
+chrM	424	C	6	.$..a,,	;II-I:	0	5	0	0	5
+chrM	425	T	5	.$.,,,	IIIIF	0	0	0	5	5
+chrM	426	A	5	.,,,^:,	III@I	5	0	0	0	5
+chrM	427	C	5	.,,,,	III$I	0	4	0	0	4
+chrM	428	A	5	.,,,,	IIIII	5	0	0	0	5
+chrM	429	A	5	.,,,,	IIII.	4	0	0	0	4
+chrM	430	C	5	.,,,a	I%I5'	0	3	0	0	3
+chrM	431	C	5	.,,,,	I(I5<	0	4	0	0	4
+chrM	432	A	5	.,,,,	IIIII	5	0	0	0	5
+chrM	433	A	5	.,,,,	0IIII	4	0	0	0	4
+chrM	434	A	5	.,,,,	=IIII	5	0	0	0	5
+chrM	435	G	5	.$,,,,	EIIII	0	0	5	0	5
+chrM	436	T	4	,,,,	III5	0	0	0	4	4
+chrM	437	A	4	,,,,	IIII	4	0	0	0	4
+chrM	438	A	4	,,,,	IIII	4	0	0	0	4
+chrM	439	A	4	,,,,	IIII	4	0	0	0	4
+chrM	440	A	4	,,,,	IIIF	4	0	0	0	4
+chrM	441	T	6	,,,,^:.^:.	III;II	0	0	0	6	6
+chrM	442	A	6	,,,,..	IIIIII	6	0	0	0	6
+chrM	443	G	6	,,,,..	IIIIII	0	0	6	0	6
+chrM	444	A	6	,,,,..	IIIIII	6	0	0	0	6
+chrM	445	C	6	,,,,..	IIIIII	0	6	0	0	6
+chrM	446	T	6	,$,,,..	IIIIII	0	0	0	6	6
+chrM	447	A	5	,,,..	IIIII	5	0	0	0	5
+chrM	448	C	5	,,,..	IIIII	0	5	0	0	5
+chrM	449	G	6	,,,..^:,	IIIII6	0	0	6	0	6
+chrM	450	A	6	,,,..,	IIIIII	6	0	0	0	6
+chrM	451	A	6	,$,,..,	IIIIII	6	0	0	0	6
+chrM	452	A	5	,,..,	IIIII	5	0	0	0	5
+chrM	453	G	5	,,..,	IIIII	0	0	5	0	5
+chrM	454	T	6	,,..,^:,	IIIIII	0	0	0	6	6
+chrM	455	G	6	,,..,,	IIIIII	0	0	6	0	6
+chrM	456	A	6	,,..,,	IIIIII	6	0	0	0	6
+chrM	457	C	6	,,..,,	IIIII=	0	6	0	0	6
+chrM	458	T	6	,$,..,,	IIIIII	0	0	0	6	6
+chrM	459	T	5	,..,,	IIIII	0	0	0	5	5
+chrM	460	T	5	,..,,	IIIII	0	0	0	5	5
+chrM	461	A	5	,$..,,	IIIII	5	0	0	0	5
+chrM	462	A	4	..,,	IIII	4	0	0	0	4
+chrM	463	T	4	..,,	IIIC	0	0	0	4	4
+chrM	464	A	4	..,,	IIII	4	0	0	0	4
+chrM	465	C	4	..,,	IIII	0	4	0	0	4
+chrM	466	C	4	..,,	IIII	0	4	0	0	4
+chrM	467	T	4	..,,	II>?	0	0	0	4	4
+chrM	468	C	4	..,,	IIII	0	4	0	0	4
+chrM	469	T	4	..,,	IIIG	0	0	0	4	4
+chrM	470	G	4	..,,	%III	0	0	3	0	3
+chrM	471	A	4	..,,	4;II	3	0	0	0	3
+chrM	472	C	4	..,,	II3I	0	3	0	0	3
+chrM	473	T	4	..,,	IIII	0	0	0	4	4
+chrM	474	A	4	..,,	;III	4	0	0	0	4
+chrM	475	C	4	..,,	IIII	0	4	0	0	4
+chrM	476	A	4	.$.$,,	32II	2	0	0	0	2
+chrM	480	T	3	,,^:.	III	0	0	0	3	3
+chrM	481	A	3	,,.	III	3	0	0	0	3
+chrM	482	G	3	,,.	III	0	0	3	0	3
+chrM	483	C	4	,,.^:,	IIIE	0	4	0	0	4
+chrM	484	T	4	,$,.,	III9	0	0	0	4	4
+chrM	485	A	3	,.,	III	3	0	0	0	3
+chrM	486	A	3	,.,	III	3	0	0	0	3
+chrM	487	G	3	,.,	III	0	0	3	0	3
+chrM	488	A	3	,.,	III	3	0	0	0	3
+chrM	489	C	3	,$.,	III	0	3	0	0	3
+chrM	510	C	3	.,^:.	III	0	3	0	0	3
+chrM	511	C	3	.,.	III	0	3	0	0	3
+chrM	512	A	3	.,.	6II	3	0	0	0	3
+chrM	513	C	3	.,.	III	0	3	0	0	3
+chrM	514	T	3	.,.	III	0	0	0	3	3
+chrM	515	A	3	.$,.	III	3	0	0	0	3
+chrM	518	C	3	,$.^:.	III	0	3	0	0	3
+chrM	520	T	3	..^:,	III	0	0	0	3	3
+chrM	521	A	3	..,	III	3	0	0	0	3
+chrM	522	G	3	..,	II,	0	0	2	0	2
+chrM	523	C	3	..,	III	0	3	0	0	3
+chrM	524	C	3	..,	II7	0	3	0	0	3
+chrM	525	C	3	..,	III	0	3	0	0	3
+chrM	526	T	3	..,	II?	0	0	0	3	3
+chrM	527	A	3	..,	III	3	0	0	0	3
+chrM	528	A	3	..,	III	3	0	0	0	3
+chrM	529	A	3	..,	FII	3	0	0	0	3
+chrM	530	C	3	..,	II+	0	2	0	0	2
+chrM	531	T	3	..,	III	0	0	0	3	3
+chrM	532	A	3	..,	:II	3	0	0	0	3
+chrM	533	A	3	..,	DGI	3	0	0	0	3
+chrM	534	A	3	..,	III	3	0	0	0	3
+chrM	535	A	3	..,	?CI	3	0	0	0	3
+chrM	536	T	3	..,	III	0	0	0	3	3
+chrM	537	A	3	..,	9II	3	0	0	0	3
+chrM	538	G	3	..,	III	0	0	3	0	3
+chrM	539	C	3	..,	III	0	3	0	0	3
+chrM	540	T	3	..,	III	0	0	0	3	3
+chrM	541	T	3	..,	III	0	0	0	3	3
+chrM	542	A	4	..,^:.	IIII	4	0	0	0	4
+chrM	543	C	4	..,.	IIII	0	4	0	0	4
+chrM	544	C	4	..,.	IIII	0	4	0	0	4
+chrM	545	A	4	N$.,.	"III	3	0	0	0	3
+chrM	546	C	3	.,.	III	0	3	0	0	3
+chrM	547	A	3	.,.	DII	3	0	0	0	3
+chrM	548	A	3	.,.	EII	3	0	0	0	3
+chrM	549	C	3	.,.	III	0	3	0	0	3
+chrM	550	A	3	.,.	III	3	0	0	0	3
+chrM	551	A	3	.,.	6II	3	0	0	0	3
+chrM	552	A	3	.,.	GII	3	0	0	0	3
+chrM	553	G	3	.$,.	?II	0	0	3	0	3
+chrM	577	A	3	.$.^:.	III	3	0	0	0	3
+chrM	580	A	3	..^:,	III	3	0	0	0	3
+chrM	581	G	3	..,	III	0	0	3	0	3
+chrM	582	C	3	..,	II?	0	3	0	0	3
+chrM	583	C	3	..a	II-	0	2	0	0	2
+chrM	584	T	3	..,	IIH	0	0	0	3	3
+chrM	585	A	3	..,	III	3	0	0	0	3
+chrM	586	A	3	..,	III	3	0	0	0	3
+chrM	587	A	4	..,^:,	IIII	4	0	0	0	4
+chrM	588	A	4	..,,	IIII	4	0	0	0	4
+chrM	589	C	4	..,,	IIII	0	4	0	0	4
+chrM	590	T	4	..,,	II.5	0	0	0	3	3
+chrM	591	C	4	.$.,,	II<I	0	4	0	0	4
+chrM	592	A	3	.,,	III	3	0	0	0	3
+chrM	593	A	3	.,,	III	3	0	0	0	3
+chrM	594	A	3	.,,	III	3	0	0	0	3
+chrM	595	G	3	.,,	III	0	0	3	0	3
+chrM	596	G	3	.,,	III	0	0	3	0	3
+chrM	597	A	3	.,,	:EI	3	0	0	0	3
+chrM	598	C	3	.,,	III	0	3	0	0	3
+chrM	599	T	4	.,,^:.	II@I	0	0	0	4	4
+chrM	600	T	4	.,,.	IIII	0	0	0	4	4
+chrM	601	G	4	.,,.	IIII	0	0	4	0	4
+chrM	602	G	4	.,,.	IIII	0	0	4	0	4
+chrM	603	C	4	.,,.	IIII	0	4	0	0	4
+chrM	604	G	4	.,,.	IIII	0	0	4	0	4
+chrM	605	G	4	.,,.	IIII	0	0	4	0	4
+chrM	606	T	4	.,,.	5III	0	0	0	4	4
+chrM	607	G	4	.,,.	IIII	0	0	4	0	4
+chrM	608	C	4	.,,.	*III	0	3	0	0	3
+chrM	609	T	5	.,,.^:,	?IIII	0	0	0	5	5
+chrM	610	T	5	.,,.,	IIII8	0	0	0	5	5
+chrM	611	T	5	.,,.,	IIIII	0	0	0	5	5
+chrM	612	A	5	T$,,.,	3IIII	4	0	0	0	4
+chrM	613	C	4	,,.,	III)	0	3	0	0	3
+chrM	614	A	4	,,.,	IIII	4	0	0	0	4
+chrM	615	T	4	,$,.,	IIII	0	0	0	4	4
+chrM	616	C	3	,.,	III	0	3	0	0	3
+chrM	617	C	3	,.,	III	0	3	0	0	3
+chrM	618	C	3	,.,	III	0	3	0	0	3
+chrM	619	T	3	,.,	IF9	0	0	0	3	3
+chrM	620	C	3	,.,	II7	0	3	0	0	3
+chrM	621	T	3	,.,	III	0	0	0	3	3
+chrM	622	A	3	,$.,	I7I	3	0	0	0	3
+chrM	652	C	3	.,^:,	II)	0	2	0	0	2
+chrM	653	G	3	.,,	II2	0	0	2	0	2
+chrM	654	A	3	.,,	III	3	0	0	0	3
+chrM	655	T	4	.,,^:.	II*I	0	0	0	3	3
+chrM	656	A	4	.,,.	IIII	4	0	0	0	4
+chrM	657	A	4	.,,.	IIII	4	0	0	0	4
+chrM	658	A	4	.,,.	IIII	4	0	0	0	4
+chrM	659	C	4	.,,.	IIII	0	4	0	0	4
+chrM	660	C	4	.,,.	IIII	0	4	0	0	4
+chrM	661	C	4	.,,.	IIII	0	4	0	0	4
+chrM	662	C	4	.,,.	IIFI	0	4	0	0	4
+chrM	663	A	4	.,,.	=IDI	4	0	0	0	4
+chrM	664	C	4	.,,.	II6I	0	4	0	0	4
+chrM	665	C	5	.,,.^:,	IIIII	0	5	0	0	5
+chrM	666	A	5	.,,.,	BIIII	5	0	0	0	5
+chrM	667	T	5	.,,.,	II5I+	0	0	0	4	4
+chrM	668	C	5	.,,.,	IIIII	0	5	0	0	5
+chrM	669	C	5	.,,.,	IIIII	0	5	0	0	5
+chrM	670	C	5	.,a.,	II.II	0	4	0	0	4
+chrM	671	T	5	.,,.,	IIIIA	0	0	0	5	5
+chrM	672	T	6	.,,.,^:.	FI9I.I	0	0	0	5	5
+chrM	673	G	6	.,,.,.	IIIIII	0	0	6	0	6
+chrM	674	C	6	.,,.,.	IIIIII	0	6	0	0	6
+chrM	675	T	6	.,,.,.	IIIIII	0	0	0	6	6
+chrM	676	A	6	.,,.,.	,IIEII	5	0	0	0	5
+chrM	677	A	7	.,,.,.^:.	3II;III	6	0	0	0	6
+chrM	678	T	7	.,,.,..	IIIIDII	0	0	0	7	7
+chrM	679	T	7	.,,.,..	CIIIIII	0	0	0	7	7
+chrM	680	C	7	.,,.,..	IIIIIII	0	7	0	0	7
+chrM	681	A	7	.$,,.,..	9IIIIII	7	0	0	0	7
+chrM	682	G	6	,,.,..	II$III	0	0	5	0	5
+chrM	683	C	6	,,.,..	IIIIII	0	6	0	0	6
+chrM	684	C	6	,$,.,..	IIIIII	0	6	0	0	6
+chrM	685	T	5	,.,..	IIIII	0	0	0	5	5
+chrM	686	A	5	,.,..	IIIII	5	0	0	0	5
+chrM	687	T	5	,$.,..	IIIII	0	0	0	5	5
+chrM	688	A	4	.,..	IIII	4	0	0	0	4
+chrM	689	T	4	.,..	IIII	0	0	0	4	4
+chrM	690	A	4	.$,..	IIII	4	0	0	0	4
+chrM	691	C	3	,..	III	0	3	0	0	3
+chrM	692	C	3	,..	III	0	3	0	0	3
+chrM	693	G	4	,..^:,	IIII	0	0	4	0	4
+chrM	694	C	4	,..,	IIII	0	4	0	0	4
+chrM	695	C	4	,..,	IIII	0	4	0	0	4
+chrM	696	A	4	,..,	IIII	4	0	0	0	4
+chrM	697	T	4	,..,	IIII	0	0	0	4	4
+chrM	698	C	4	,..,	IIII	0	4	0	0	4
+chrM	699	T	4	,..,	IIII	0	0	0	4	4
+chrM	700	T	4	,$..,	IIII	0	0	0	4	4
+chrM	701	C	3	..,	III	0	3	0	0	3
+chrM	702	A	3	..,	III	3	0	0	0	3
+chrM	703	G	3	..,	2II	0	0	2	0	2
+chrM	704	C	3	..,	III	0	3	0	0	3
+chrM	705	A	3	N.,	"II	2	0	0	0	2
+chrM	706	A	3	..,	I5I	3	0	0	0	3
+chrM	707	A	3	.$.,	GII	3	0	0	0	3
+chrM	726	A	3	,,^:.	III	3	0	0	0	3
+chrM	727	G	3	,,.	III	0	0	3	0	3
+chrM	728	T	3	,$,.	III	0	0	0	3	3
+chrM	732	C	3	a.^:.	$II	0	2	0	0	2
+chrM	733	A	3	,..	III	3	0	0	0	3
+chrM	734	C	3	,..	%II	0	2	0	0	2
+chrM	735	A	3	,..	III	3	0	0	0	3
+chrM	736	A	3	,..	*II	2	0	0	0	2
+chrM	737	A	3	,..	III	3	0	0	0	3
+chrM	738	T	3	,..	III	0	0	0	3	3
+chrM	739	A	3	,..	III	3	0	0	0	3
+chrM	740	T	3	,..	III	0	0	0	3	3
+chrM	741	C	3	,..	III	0	3	0	0	3
+chrM	742	C	3	,..	III	0	3	0	0	3
+chrM	743	A	3	,..	III	3	0	0	0	3
+chrM	744	A	3	,..	III	3	0	0	0	3
+chrM	745	C	3	,..	III	0	3	0	0	3
+chrM	746	A	3	,..	IIE	3	0	0	0	3
+chrM	747	T	3	,..	III	0	0	0	3	3
+chrM	748	A	3	,..	III	3	0	0	0	3
+chrM	749	A	3	,..	III	3	0	0	0	3
+chrM	750	A	3	,..	III	3	0	0	0	3
+chrM	751	A	3	,..	IAI	3	0	0	0	3
+chrM	752	A	3	,..	III	3	0	0	0	3
+chrM	753	C	3	,..	III	0	3	0	0	3
+chrM	754	G	3	,$..	III	0	0	3	0	3
+chrM	756	T	3	..^:,	III	0	0	0	3	3
+chrM	757	A	3	..,	III	3	0	0	0	3
+chrM	758	G	3	..,	III	0	0	3	0	3
+chrM	759	G	3	..,	III	0	0	3	0	3
+chrM	760	T	3	..,	=II	0	0	0	3	3
+chrM	761	C	3	.$.,	IID	0	3	0	0	3
+chrM	767	G	3	.$,^:,	III	0	0	3	0	3
+chrM	769	A	3	,,^:,	III	3	0	0	0	3
+chrM	770	G	3	,,,	III	0	0	3	0	3
+chrM	771	C	3	,,,	IHI	0	3	0	0	3
+chrM	772	C	3	,a,	I)/	0	1	0	0	1
+chrM	773	C	3	,,,	I7I	0	3	0	0	3
+chrM	774	A	4	,,,^:.	II:I	4	0	0	0	4
+chrM	775	T	4	,,,.	IH.I	0	0	0	3	3
+chrM	776	G	4	,,,.	IIII	0	0	4	0	4
+chrM	777	G	4	,,,.	IIII	0	0	4	0	4
+chrM	778	G	4	,,,.	IIII	0	0	4	0	4
+chrM	779	A	4	,,,.	IIAI	4	0	0	0	4
+chrM	780	T	4	,,,.	IIGI	0	0	0	4	4
+chrM	781	G	4	,,,.	IIII	0	0	4	0	4
+chrM	782	G	4	,,,.	IIII	0	0	4	0	4
+chrM	783	A	4	,,,.	IIII	4	0	0	0	4
+chrM	784	G	4	,,,.	IIII	0	0	4	0	4
+chrM	785	A	4	,,,.	IIII	4	0	0	0	4
+chrM	786	G	4	,,,.	IIII	0	0	4	0	4
+chrM	787	A	4	,,,.	IIII	4	0	0	0	4
+chrM	788	A	4	,,,.	IIII	4	0	0	0	4
+chrM	789	A	4	,,,.	IIII	4	0	0	0	4
+chrM	790	T	5	,,,.^:.	IIIII	0	0	0	5	5
+chrM	791	G	5	,$,,..	IIIII	0	0	5	0	5
+chrM	792	G	4	,,..	IIII	0	0	4	0	4
+chrM	793	G	4	,,..	IIII	0	0	4	0	4
+chrM	794	C	4	,,..	IIII	0	4	0	0	4
+chrM	795	T	4	,,..	IIII	0	0	0	4	4
+chrM	796	A	4	,,..	IIII	4	0	0	0	4
+chrM	797	C	4	,,..	IIII	0	4	0	0	4
+chrM	798	A	4	,,..	IIII	4	0	0	0	4
+chrM	799	T	4	,,..	IIII	0	0	0	4	4
+chrM	800	T	4	,,..	IIII	0	0	0	4	4
+chrM	801	T	4	,,..	IIII	0	0	0	4	4
+chrM	802	T	4	,$,..	IIII	0	0	0	4	4
+chrM	803	C	3	,..	III	0	3	0	0	3
+chrM	804	T	3	,$..	III	0	0	0	3	3
+chrM	806	C	3	..^:.	III	0	3	0	0	3
+chrM	807	C	3	...	III	0	3	0	0	3
+chrM	808	C	3	...	III	0	3	0	0	3
+chrM	809	T	3	.$..	III	0	0	0	3	3
+chrM	810	A	3	..^:,	III	3	0	0	0	3
+chrM	811	A	3	..,	III	3	0	0	0	3
+chrM	812	G	3	..,	II7	0	0	3	0	3
+chrM	813	A	3	..,	III	3	0	0	0	3
+chrM	814	A	3	..,	III	3	0	0	0	3
+chrM	815	C	3	..,	III	0	3	0	0	3
+chrM	816	A	3	..,	III	3	0	0	0	3
+chrM	817	A	3	..,	III	3	0	0	0	3
+chrM	818	G	3	..,	III	0	0	3	0	3
+chrM	819	A	3	..,	III	3	0	0	0	3
+chrM	820	A	3	..,	&II	2	0	0	0	2
+chrM	821	C	3	..,	III	0	3	0	0	3
+chrM	822	T	3	..,	III	0	0	0	3	3
+chrM	823	T	3	..n	II"	0	0	0	2	2
+chrM	824	T	3	..,	III	0	0	0	3	3
+chrM	825	A	3	.$.,	III	3	0	0	0	3
+chrM	826	A	3	.,^:.	III	3	0	0	0	3
+chrM	827	C	3	.,.	III	0	3	0	0	3
+chrM	828	C	3	.,.	III	0	3	0	0	3
+chrM	829	C	4	.,.^:,	IIII	0	4	0	0	4
+chrM	830	G	4	.,.,	IIII	0	0	4	0	4
+chrM	831	G	4	.,.,	IIII	0	0	4	0	4
+chrM	832	A	4	.,.,	IIII	4	0	0	0	4
+chrM	833	C	4	.,.,	IIII	0	4	0	0	4
+chrM	834	G	4	.,.,	IIII	0	0	4	0	4
+chrM	835	A	4	.,.,	IIII	4	0	0	0	4
+chrM	836	A	4	.,.,	8III	4	0	0	0	4
+chrM	837	A	4	.,.,	IIII	4	0	0	0	4
+chrM	838	G	4	.,.,	IIII	0	0	4	0	4
+chrM	839	T	5	.,.,^:,	4:IIG	0	0	0	4	4
+chrM	840	C	5	.,.,,	IIIII	0	5	0	0	5
+chrM	841	T	5	.$,.,,	IIIII	0	0	0	5	5
+chrM	842	C	4	,.,,	IIII	0	4	0	0	4
+chrM	843	C	4	,.,,	IIII	0	4	0	0	4
+chrM	844	A	4	,.,,	IIII	4	0	0	0	4
+chrM	845	T	4	,$.,,	IIII	0	0	0	4	4
+chrM	846	G	3	.,,	@II	0	0	3	0	3
+chrM	847	A	3	.,,	III	3	0	0	0	3
+chrM	848	A	3	.,,	III	3	0	0	0	3
+chrM	849	A	3	.,,	III	3	0	0	0	3
+chrM	850	C	3	.,,	III	0	3	0	0	3
+chrM	851	T	3	.,,	III	0	0	0	3	3
+chrM	852	G	3	.,,	III	0	0	3	0	3
+chrM	853	G	3	.,,	III	0	0	3	0	3
+chrM	854	A	3	.,,	EII	3	0	0	0	3
+chrM	855	G	3	.,,	DII	0	0	3	0	3
+chrM	856	A	3	.,,	III	3	0	0	0	3
+chrM	857	C	3	.,,	III	0	3	0	0	3
+chrM	858	T	4	.,,^:,	IIIA	0	0	0	4	4
+chrM	859	A	4	.,,,	@III	4	0	0	0	4
+chrM	860	A	4	.,,,	IIII	4	0	0	0	4
+chrM	861	A	4	.$,,,	EIII	4	0	0	0	4
+chrM	862	G	3	,,,	III	0	0	3	0	3
+chrM	863	G	3	,,,	III	0	0	3	0	3
+chrM	864	A	3	,$,,	III	3	0	0	0	3
+chrM	905	C	3	,.^:,	III	0	3	0	0	3
+chrM	906	A	3	,.,	III	3	0	0	0	3
+chrM	907	G	3	,.,	III	0	0	3	0	3
+chrM	908	G	3	,.,	III	0	0	3	0	3
+chrM	909	C	3	,.,	III	0	3	0	0	3
+chrM	910	C	3	,.,	III	0	3	0	0	3
+chrM	911	A	4	,.,^:,	IIII	4	0	0	0	4
+chrM	912	T	4	,.,,	IIEG	0	0	0	4	4
+chrM	913	G	4	,.,,	III:	0	0	4	0	4
+chrM	914	A	4	,.,,	IIII	4	0	0	0	4
+chrM	915	A	4	,.,,	IIII	4	0	0	0	4
+chrM	916	G	4	,.,,	III5	0	0	4	0	4
+chrM	917	C	4	,.,,	III5	0	4	0	0	4
+chrM	918	G	4	,.,,	IIII	0	0	4	0	4
+chrM	919	C	4	,.,,	III<	0	4	0	0	4
+chrM	920	G	4	,.,,	IIII	0	0	4	0	4
+chrM	921	C	4	,.,,	IIII	0	4	0	0	4
+chrM	922	A	4	,.,,	IIII	4	0	0	0	4
+chrM	923	C	4	,.,,	III8	0	4	0	0	4
+chrM	924	A	4	,.,,	IFII	4	0	0	0	4
+chrM	925	C	4	,.,,	IIII	0	4	0	0	4
+chrM	926	A	4	,.,,	IIII	4	0	0	0	4
+chrM	927	C	4	,.,,	IIII	0	4	0	0	4
+chrM	928	C	5	,.,,^:,	IIII:	0	5	0	0	5
+chrM	929	G	5	,.,,,	IIIE:	0	0	5	0	5
+chrM	930	C	5	,.,,,	IIIII	0	5	0	0	5
+chrM	931	C	5	,.,,,	IIIIF	0	5	0	0	5
+chrM	932	C	5	,.,,,	IIIIC	0	5	0	0	5
+chrM	933	G	5	,$.,,,	I?II:	0	0	5	0	5
+chrM	934	T	4	.$,,,	4II>	0	0	0	3	3
+chrM	935	C	3	,,,	III	0	3	0	0	3
+chrM	936	A	3	,,,	III	3	0	0	0	3
+chrM	937	C	3	,,,	II1	0	2	0	0	2
+chrM	938	C	3	,,,	III	0	3	0	0	3
+chrM	939	C	3	,,,	III	0	3	0	0	3
+chrM	940	T	3	,$,,	III	0	0	0	3	3
+chrM	958	C	3	,.^:.	III	0	3	0	0	3
+chrM	959	A	3	,..	III	3	0	0	0	3
+chrM	960	T	3	,..	III	0	0	0	3	3
+chrM	961	A	3	,..	III	3	0	0	0	3
+chrM	962	A	3	,..	III	3	0	0	0	3
+chrM	963	C	4	,$..^:.	IIII	0	4	0	0	4
+chrM	964	A	3	...	I(;	2	0	0	0	2
+chrM	965	T	3	...	III	0	0	0	3	3
+chrM	966	A	4	...^:.	IIII	4	0	0	0	4
+chrM	967	A	4	....	IIII	4	0	0	0	4
+chrM	968	C	4	....	IEII	0	4	0	0	4
+chrM	969	A	4	....	IIII	4	0	0	0	4
+chrM	970	T	4	....	IIII	0	0	0	4	4
+chrM	971	A	4	....	IIII	4	0	0	0	4
+chrM	972	A	4	....	IIII	4	0	0	0	4
+chrM	973	A	4	....	II0I	3	0	0	0	3
+chrM	974	A	5	....^:.	IIIII	5	0	0	0	5
+chrM	975	C	5	.....	IIIII	0	5	0	0	5
+chrM	976	C	5	.....	IIIII	0	5	0	0	5
+chrM	977	G	5	.....	IIIII	0	0	5	0	5
+chrM	978	T	5	.....	IIIII	0	0	0	5	5
+chrM	979	G	5	.....	I0III	0	0	4	0	4
+chrM	980	A	5	.....	IIII4	4	0	0	0	4
+chrM	981	C	5	.....	IIIII	0	5	0	0	5
+chrM	982	C	5	.....	IIIII	0	5	0	0	5
+chrM	983	C	5	.....	IIIII	0	5	0	0	5
+chrM	984	A	5	.....	-IGII	4	0	0	0	4
+chrM	985	A	5	.....	4GIII	4	0	0	0	4
+chrM	986	A	5	.....	BDGII	5	0	0	0	5
+chrM	987	C	5	.....	IDIII	0	5	0	0	5
+chrM	988	A	5	.....	@<III	5	0	0	0	5
+chrM	989	T	5	.....	IIIII	0	0	0	5	5
+chrM	990	A	5	.$....	I@III	5	0	0	0	5
+chrM	991	T	4	....	IICI	0	0	0	4	4
+chrM	992	G	4	T...	)III	0	0	3	0	3
+chrM	993	A	4	.$...	?ICI	4	0	0	0	4
+chrM	994	A	3	...	III	3	0	0	0	3
+chrM	995	A	3	...	III	3	0	0	0	3
+chrM	996	G	3	...	III	0	0	3	0	3
+chrM	997	G	3	...	III	0	0	3	0	3
+chrM	998	A	3	.$..	4II	2	0	0	0	2
+chrM	999	G	3	..^:.	III	0	0	3	0	3
+chrM	1000	A	3	...	III	3	0	0	0	3
+chrM	1001	C	3	.$..	III	0	3	0	0	3
+chrM	1043	A	3	..^:,	III	3	0	0	0	3
+chrM	1044	A	3	..,	III	3	0	0	0	3
+chrM	1045	C	3	..,	II7	0	3	0	0	3
+chrM	1046	C	3	..,	II-	0	2	0	0	2
+chrM	1047	A	3	..,	III	3	0	0	0	3
+chrM	1048	A	3	..,	III	3	0	0	0	3
+chrM	1049	A	3	..,	III	3	0	0	0	3
+chrM	1050	G	3	..,	III	0	0	3	0	3
+chrM	1051	T	3	..,	III	0	0	0	3	3
+chrM	1052	G	3	..,	III	0	0	3	0	3
+chrM	1053	T	3	..,	GII	0	0	0	3	3
+chrM	1054	A	3	..,	III	3	0	0	0	3
+chrM	1055	G	3	..,	:II	0	0	3	0	3
+chrM	1056	C	3	..a	HI%	0	2	0	0	2
+chrM	1057	T	3	..,	III	0	0	0	3	3
+chrM	1058	T	3	..,	III	0	0	0	3	3
+chrM	1059	A	3	..,	BII	3	0	0	0	3
+chrM	1060	A	3	..,	GII	3	0	0	0	3
+chrM	1061	A	3	..,	HII	3	0	0	0	3
+chrM	1062	C	3	..,	III	0	3	0	0	3
+chrM	1063	A	3	..,	DII	3	0	0	0	3
+chrM	1064	A	3	..,	BII	3	0	0	0	3
+chrM	1065	A	3	..,	1II	2	0	0	0	2
+chrM	1066	G	3	.$.,	&II	0	0	2	0	2
diff -r 517bd810a6b2 -r be8f54671d56 test-data/pileup_parser.6col.20-3-yes-no.pileup.out
--- a/test-data/pileup_parser.6col.20-3-yes-no.pileup.out	Thu Jan 14 11:26:08 2010 -0500
+++ b/test-data/pileup_parser.6col.20-3-yes-no.pileup.out	Thu Jan 14 14:07:05 2010 -0500
@@ -1,2 +1,2 @@
-chrM	270	C	4	a...	;III	1	0	0	0	4
+chrM	270	C	4	a...	;III	1	3	0	0	4
 chrM	415	C	4	TTTt	III7	0	0	0	4	4
diff -r 517bd810a6b2 -r be8f54671d56 test-data/pileup_parser.6col.20-3-yes-yes.pileup.out
--- a/test-data/pileup_parser.6col.20-3-yes-yes.pileup.out	Thu Jan 14 11:26:08 2010 -0500
+++ b/test-data/pileup_parser.6col.20-3-yes-yes.pileup.out	Thu Jan 14 14:07:05 2010 -0500
@@ -1,2 +1,2 @@
-chrM	269	270	C	4	a...	;III	1	0	0	0	4
+chrM	269	270	C	4	a...	;III	1	3	0	0	4
 chrM	414	415	C	4	TTTt	III7	0	0	0	4	4
diff -r 517bd810a6b2 -r be8f54671d56 tools/samtools/pileup_parser.pl
--- a/tools/samtools/pileup_parser.pl	Thu Jan 14 11:26:08 2010 -0500
+++ b/tools/samtools/pileup_parser.pl	Thu Jan 14 14:07:05 2010 -0500
@@ -65,7 +65,9 @@
 			{
 				$SNPs_exist = 1;	
 				$SNPs{ uc( $bases[ $base ] ) } += 1;
-			}		 	
+			} elsif ( $bases[ $base ] =~ m/[\.,]/ ) {
+			    $SNPs{ uc( $fields[ $ref_base_column ] ) } += 1;
+		    }		 	
 		}
 	} 
 	
diff -r 517bd810a6b2 -r be8f54671d56 tools/samtools/pileup_parser.xml
--- a/tools/samtools/pileup_parser.xml	Thu Jan 14 11:26:08 2010 -0500
+++ b/tools/samtools/pileup_parser.xml	Thu Jan 14 14:07:05 2010 -0500
@@ -1,4 +1,4 @@
-<tool id="pileup_parser" name="Filter pileup">
+<tool id="pileup_parser" name="Filter pileup" version="1.0.1">>
   <description>on coverage and SNPs</description>
   <command interpreter="perl">
     #if   $pileup_type.type_select == "six"    #pileup_parser.pl $input "3" "5" "6" "4" $qv_cutoff $cvrg_cutoff $snps_only $interval "2" $out_file1
@@ -189,7 +189,7 @@
 
 you will get::
 
- chrM  413  G  4  ..t,  IIIH  0  0  0  1  3
+ chrM  413  G  4  ..t,  IIIH  0  0  2  1  3
  chrM  415  C  4  TTTt  III7  0  0  0  4  4
  
 where::
@@ -211,7 +211,7 @@
  
 and if **Convert coordinates to intervals?** is set to **Yes**, you will get one additional column::
  
- chrM  412 413  G  4  ..t,  III2  0  0  0  1  3
+ chrM  412 413  G  4  ..t,  III2  0  0  2  1  3
  chrM  414 415  C  4  TTTt  III7  0  0  0  4  4
  
 where::

    

[galaxy-dev] [hg] galaxy 3240: Modification of pileup filter behavior, bases ...

Greg Von Kuster