Mercurial > repos > jjohnson > pileup_to_vcf

annotate test-data/test.pileup @ 3:aa76c8dd97e6

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Reference skips have a base quality score
author Jim Johnson <jj@umn.edu>
date Tue, 19 Mar 2013 12:49:45 -0500
parents bb0ac51f1b02
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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1 seq1 272 T 24 ,.$.....,,.,.,...,,,.,..^+. <<<+;<<<<<<<<<<<=<;<;7<&
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2 seq1 273 T 23 ,.....,,.,.,...,,,.,..A <<<;<<<<<<<<<3<=<<<;<<+
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3 seq1 274 T 23 ,.$....,,.,.,...,,,.,... 7<7;<;<<<<<<<<<=<;<;<<6
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4 seq1 275 A 23 ,$....,,.,.,...,,,.,...^l. <+;9*<<<<<<<<<=<<:;<<<<
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5 seq1 276 G 22 ...T,,.,.,...,,,.,.... 33;+<<7=7<<7<&<<1;<<6<
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6 seq1 277 T 22 ....,,.,.,.C.,,,.,..G. +7<;<<<<<<<&<=<<:;<<&<
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7 seq1 278 G 23 ....,,.,.,...,,,.,....^k. %38*<<;<7<<7<=<<<;<<<<<
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8 seq1 279 C 23 A..T,,.,.,...,,,.,..... ;75&<<<<<<<<<=<<<9<<:<<
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9 seq2 156 A 11 .$......+2AG.+2AG.+2AGGG <975;:<<<<<
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10 seq3 200 A 20 ,,,,,..,.-4CACC.-4CACC....,.,,.^~. ==<<<<<<<<<<<::<;2<<
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bb0ac51f1b02 Handle delection char: *
Jim Johnson <jj@umn.edu>
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11 chr1 44520828 C 35 *********************************** !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
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12 chr1 95935183 G 34 .,.,,,+1c,+1c.+1C,+1c,+1c.+1C.+1C.+1C,+1c.+1C,+1c,+1c.+1C,+1c,+1c.+1C,+1c.+1C.+1C,+1c,+1c,+1c.+1C.+1C.+1C.+1C.+1C^~c^~c IFEGIHIBIIIBAGIDI@IHCIIGHIHHEIIG!!
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13 chr1 158571283 A 8 <,.c.c^~t^~c GIC#I#'!
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14 chr6 125070485 C 216 <><<>>>>>>><<>>>><<<><<<<<>>>>><>>>>>><>>>>>>><><><>><><><>><>><<><<<>>>><<<>>>><<>>>><<<<<<<<<<<><<<<<<<><><<<<<><<<>><<<<<<<<>>>><<<<<<><><>>>>>>>>>>><<<<<<>><<<<>><><>>>>><>...,,,,,,,GGGGGGggggggGGGGggggggggg^~G^~g^~g^~g^~g IHHH:GFDH<H@IHCEIIIIHIIIDI#EACGGIEHB#HDHEBHGGDI?BHIEIIIGHBHIEDIIHHHIGHFIIDI<IIIIEEIIIIGAHIHEGGIBHBIHE;@CFIBHGGCDBGDGGGIIDC@GEAGDIHIIEEHBIIGIEGHIHHIHHHH2@G#>EBHICD@#GHHHFI9HII#I##AIIIE5@G!!!!!!!!!#!!!!!!!!$$!!$!$!#!!!