Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 41 of 103
Found at i:15373394 original size:18 final size:20
Alignment explanation
Indices: 15373352--15373394 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
15373342 GGCAGTGAGC
*
15373352 TCTTAGTTGACTAACCGTGCT
1 TCTTAGTCGACTAA-CGTGCT
15373373 TCTTAGTCGACTAA-GT-CT
1 TCTTAGTCGACTAACGTGCT
15373391 TCTT
1 TCTT
15373395 TGTCTCACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 2 0.10
21 13 0.62
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (20 bp):
TCTTAGTCGACTAACGTGCT
Found at i:15374158 original size:23 final size:23
Alignment explanation
Indices: 15374128--15374177 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
15374118 TCCTAAATTA
15374128 CCCCTAAATTACTTATACTTTCT
1 CCCCTAAATTACTTATACTTTCT
15374151 CCCCTAAATTACTTATACTTTCT
1 CCCCTAAATTACTTATACTTTCT
15374174 CCCC
1 CCCC
15374178 CTTTTTGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.40
Consensus pattern (23 bp):
CCCCTAAATTACTTATACTTTCT
Found at i:15375359 original size:9 final size:9
Alignment explanation
Indices: 15375345--15375387 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
15375335 TATATATACC
15375345 CATCACCAT
1 CATCACCAT
*
15375354 CATCACCAG
1 CATCACCAT
*
15375363 C-TCATCAT
1 CATCACCAT
*
15375371 CATCATCAT
1 CATCACCAT
15375380 CATCACCA
1 CATCACCA
15375388 GCTCATGCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 6 0.21
9 23 0.79
ACGTcount: A:0.33, C:0.42, G:0.02, T:0.23
Consensus pattern (9 bp):
CATCACCAT
Found at i:15375440 original size:43 final size:43
Alignment explanation
Indices: 15375386--15375510 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
15375376 TCATCATCAC
* ** *
15375386 CAGCTCATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-
1 CAGCTTATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CT
* *
15375429 CGGGTTATGCGCACTCCCTACTCGCACATAACCGGGTCATCCT
1 CAGCTTATGCGCACTCCCTACTCGCACATAACCGGGTCATCCT
* * *
15375472 CAGCTTATGCGCACTCCCTATTCGCACATAGCCGAGTCA
1 CAGCTTATGCGCACTCCCTACTCGCACATAACCGGGTCA
15375511 ACATAATTAC
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 69 0.99
ACGTcount: A:0.20, C:0.38, G:0.20, T:0.22
Consensus pattern (43 bp):
CAGCTTATGCGCACTCCCTACTCGCACATAACCGGGTCATCCT
Found at i:15392114 original size:54 final size:54
Alignment explanation
Indices: 15392038--15392141 Score: 190
Period size: 54 Copynumber: 1.9 Consensus size: 54
15392028 CATCATGTGC
15392038 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCTT
1 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCTT
* *
15392092 ATCTCACCCAGCTCATGTGCATCCCACCATATCGTGCACATAGTCGGACA
1 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACA
15392142 GTATCACCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.25, C:0.38, G:0.15, T:0.22
Consensus pattern (54 bp):
ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCTT
Found at i:15393127 original size:20 final size:20
Alignment explanation
Indices: 15393102--15393153 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
15393092 AAGAAAAATT
*
15393102 TGCTGGAAGCTTGAAGAATC
1 TGCTGGAAACTTGAAGAATC
*
15393122 TGCTGGAAATTTGAAGAAGT-
1 TGCTGGAAACTTGAAGAA-TC
*
15393142 TGCTAGAAACTT
1 TGCTGGAAACTT
15393154 AGATATTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.29
Consensus pattern (20 bp):
TGCTGGAAACTTGAAGAATC
Found at i:15398714 original size:54 final size:54
Alignment explanation
Indices: 15398632--15398787 Score: 213
Period size: 54 Copynumber: 2.9 Consensus size: 54
15398622 AGCAATCATT
** *
15398632 CCATCTCACCCAGCTCATGTGCAGCCCACCACATCGTGCACATAGTTGGACATC
1 CCATCTCACCCAGCTCATGTGCAGCCCACCACATCGTGCACATAGCCGCACATC
* *
15398686 CCATCTCACCTAGCTCATGTGTAGCCCACCACATCGTGCACATAGCCGCACATC
1 CCATCTCACCCAGCTCATGTGCAGCCCACCACATCGTGCACATAGCCGCACATC
* * ** * *
15398740 CGATCTCACCCAACTCACATGCATCCCACCACATCATGCACATAGCCG
1 CCATCTCACCCAGCTCATGTGCAGCCCACCACATCGTGCACATAGCCG
15398788 GACAGTATCA
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.26, C:0.41, G:0.14, T:0.19
Consensus pattern (54 bp):
CCATCTCACCCAGCTCATGTGCAGCCCACCACATCGTGCACATAGCCGCACATC
Found at i:15402287 original size:40 final size:40
Alignment explanation
Indices: 15402228--15402313 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
15402218 AACGAGATTT
*
15402228 TTTCTCGCTGCAGCAAAATTCAAGTGGCCAAAACAGAATG
1 TTTCTCGCTACAGCAAAATTCAAGTGGCCAAAACAGAATG
*
15402268 TTTCTCGCTACAGCGAAATTCAAGTGGCCAAAACAGAATG
1 TTTCTCGCTACAGCAAAATTCAAGTGGCCAAAACAGAATG
15402308 TTTCTC
1 TTTCTC
15402314 ACTGCAACGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.26
Consensus pattern (40 bp):
TTTCTCGCTACAGCAAAATTCAAGTGGCCAAAACAGAATG
Found at i:15402329 original size:40 final size:40
Alignment explanation
Indices: 15402243--15402330 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
15402233 CGCTGCAGCA
* *
15402243 AAATTCAAGTGGCCAAAACAGAATGTTTCTCGCTACAGCG
1 AAATTCAAGTGGCCAAAACAGAATGTTTCTCACTACAACG
*
15402283 AAATTCAAGTGGCCAAAACAGAATGTTTCTCACTGCAACG
1 AAATTCAAGTGGCCAAAACAGAATGTTTCTCACTACAACG
*
15402323 ACATTCAA
1 AAATTCAA
15402331 TCTCGCTGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (40 bp):
AAATTCAAGTGGCCAAAACAGAATGTTTCTCACTACAACG
Found at i:15407456 original size:2 final size:2
Alignment explanation
Indices: 15407449--15407474 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15407439 ACCGAGGTAC
15407449 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15407475 GGATTCCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15408717 original size:10 final size:10
Alignment explanation
Indices: 15408698--15408727 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
15408688 TCTTTTCTCC
15408698 CTTTGTTCTT
1 CTTTGTTCTT
*
15408708 CTTTGCTCTT
1 CTTTGTTCTT
15408718 CTTTGTTCTT
1 CTTTGTTCTT
15408728 GGTTTGGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.10, T:0.67
Consensus pattern (10 bp):
CTTTGTTCTT
Found at i:15420848 original size:46 final size:46
Alignment explanation
Indices: 15420787--15420884 Score: 196
Period size: 46 Copynumber: 2.1 Consensus size: 46
15420777 TTTTAATTCG
15420787 GTTTTGGTGAATTTTATGAAAATGAGTTAAAATGGTAAATTTTTAT
1 GTTTTGGTGAATTTTATGAAAATGAGTTAAAATGGTAAATTTTTAT
15420833 GTTTTGGTGAATTTTATGAAAATGAGTTAAAATGGTAAATTTTTAT
1 GTTTTGGTGAATTTTATGAAAATGAGTTAAAATGGTAAATTTTTAT
15420879 GTTTTG
1 GTTTTG
15420885 TAAACAAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (46 bp):
GTTTTGGTGAATTTTATGAAAATGAGTTAAAATGGTAAATTTTTAT
Found at i:15421581 original size:2 final size:2
Alignment explanation
Indices: 15421574--15421619 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
15421564 CATGCACAAC
* **
15421574 AT AT AT AT CT AT AT AT CC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15421616 AT AT
1 AT AT
15421620 CAACATAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15428737 original size:293 final size:297
Alignment explanation
Indices: 15428206--15428796 Score: 1064
Period size: 293 Copynumber: 2.0 Consensus size: 297
15428196 TTGTCTAATT
15428206 CATCAATTTAAAGTGAAATTATAGCTATTCAAATTAAATAAAAATATTAAATAAAATATTCCATT
1 CATCAATTTAAAGTGAAATTATAGCTATTCAAATTAAATAAAAATATTAAATAAAATATTCCATT
*
15428271 TTTTTATAAAATAATATTTATAGAACTCTGTGTAAATAATTTTGTAGCGTAAAAGCAAAATAAAT
66 TTTTTATAAAATAATATTTATAGAACTCTGCGTAAATAATTTTGTAGCGTAAAAGCAAAATAAAT
15428336 TCATACATATAGTGGCACACGCAACCAGGTATACAAAATATTCTACAATGACATGTGGGCCCCCA
131 TCATACATATAGTGGCACACGCAACCAGGTATACAAAATATTCTACAATGACATGTGGGCCCCCA
* *
15428401 AAATAAACATATATGTACAAGACTATAGACTTGAGATTTCTAAGGGTGTAAACCCAAAAGTGAAC
196 AAATAAACATATATGTACAAGACTATAGACTTGAGATTTCTAAGGGTGCAAACCCAAAAGCGAAC
*
15428466 CCTCGACATAATCAGTGGTCTACAAACTGCTCTAAGC
261 CCTCGACATAATCAGCGGTCTACAAACTGCTCTAAGC
**
15428503 CATCAATTTAAAGTGAAATTATAGCTATTCAAATT-AA-AAAAA-ATTAAATAAAATATTTTATT
1 CATCAATTTAAAGTGAAATTATAGCTATTCAAATTAAATAAAAATATTAAATAAAATATTCCATT
*
15428565 TTTTTATAAAA-AATATTTATAGAACTCTGCGTAAATAATTTTGTAGCTTAAAAGCAAAATAAAT
66 TTTTTATAAAATAATATTTATAGAACTCTGCGTAAATAATTTTGTAGCGTAAAAGCAAAATAAAT
* *
15428629 TCATACATATAGTGGCACACGCAGCTAGGTATACAAAATATTCTACAATGACATGTGGGCCCCCA
131 TCATACATATAGTGGCACACGCAACCAGGTATACAAAATATTCTACAATGACATGTGGGCCCCCA
*
15428694 AAATAAACATATATGTACAAGACTATAGACTTGCGATTTCTAAGGGTGCAAACCCAAAAGCGAAC
196 AAATAAACATATATGTACAAGACTATAGACTTGAGATTTCTAAGGGTGCAAACCCAAAAGCGAAC
15428759 CCTCGACATAATCAGCGGTCTACAAACTGCTCTAAGC
261 CCTCGACATAATCAGCGGTCTACAAACTGCTCTAAGC
15428796 C
1 C
15428797 TAAAATGGGT
Statistics
Matches: 284, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
293 213 0.75
294 29 0.10
295 5 0.02
296 2 0.01
297 35 0.12
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (297 bp):
CATCAATTTAAAGTGAAATTATAGCTATTCAAATTAAATAAAAATATTAAATAAAATATTCCATT
TTTTTATAAAATAATATTTATAGAACTCTGCGTAAATAATTTTGTAGCGTAAAAGCAAAATAAAT
TCATACATATAGTGGCACACGCAACCAGGTATACAAAATATTCTACAATGACATGTGGGCCCCCA
AAATAAACATATATGTACAAGACTATAGACTTGAGATTTCTAAGGGTGCAAACCCAAAAGCGAAC
CCTCGACATAATCAGCGGTCTACAAACTGCTCTAAGC
Found at i:15447204 original size:40 final size:40
Alignment explanation
Indices: 15447160--15447238 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
15447150 TCATGAAAGA
* *
15447160 CACCAAT-TGTGGCGAGGTTGAAAACCCCACTAAGGTGAAT
1 CACCAATCT-TGGCAAGATTGAAAACCCCACTAAGGTGAAT
15447200 CACCAATCTTGGCAAGATTGAAAACCCCACTAAGGTGAA
1 CACCAATCTTGGCAAGATTGAAAACCCCACTAAGGTGAA
15447239 AAATAGCCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 35 0.97
41 1 0.03
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (40 bp):
CACCAATCTTGGCAAGATTGAAAACCCCACTAAGGTGAAT
Found at i:15447579 original size:29 final size:31
Alignment explanation
Indices: 15447546--15447607 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
15447536 TAAAAGTATT
*
15447546 AAAATAAAA-ATAAGAAAA-GAATCCT-AATC
1 AAAATAAAATA-AAGAAAATAAATCCTAAATC
15447575 AAAATAAAATAAAGAAAATAAATCCTAAATC
1 AAAATAAAATAAAGAAAATAAATCCTAAATC
15447606 AA
1 AA
15447608 CTAAATTAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 16 0.55
30 7 0.24
31 6 0.21
ACGTcount: A:0.68, C:0.10, G:0.05, T:0.18
Consensus pattern (31 bp):
AAAATAAAATAAAGAAAATAAATCCTAAATC
Found at i:15450515 original size:74 final size:74
Alignment explanation
Indices: 15450367--15450508 Score: 214
Period size: 74 Copynumber: 1.9 Consensus size: 74
15450357 CTTAGTCGAT
* * * * *
15450367 TATCTTTTAATTGAGATTTCTAGTAGTGAGCTTTTAGTTGACTAATCGTGCTGCTTAGTCAATTA
1 TATCTTGTAATTGAGATTTCTAGCAGTGAGCTCTTAGTTGACTAACCATGCTGCTTAGTCAATTA
15450432 AGTTCTCTC
66 AGTTCTCTC
*
15450441 TATCTTGTAATTGAGATTTCT-GACAGTGAGCTCTTAGTTGACTAACCATGCTTCTTAGTCAATT
1 TATCTTGTAATTGAGATTTCTAG-CAGTGAGCTCTTAGTTGACTAACCATGCTGCTTAGTCAATT
15450505 AAGT
65 AAGT
15450509 CTTCTCTGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 1 0.02
74 60 0.98
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (74 bp):
TATCTTGTAATTGAGATTTCTAGCAGTGAGCTCTTAGTTGACTAACCATGCTGCTTAGTCAATTA
AGTTCTCTC
Found at i:15451066 original size:171 final size:169
Alignment explanation
Indices: 15450796--15452347 Score: 1550
Period size: 171 Copynumber: 9.1 Consensus size: 169
15450786 AAGCGAATGA
* * * * * *
15450796 CATCCATTGATAAGAAAAGTCTATTTGTAGTAACTTATGCCTTTGAAGGACTAGTTACTCACTTT
1 CATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGACTAGTTACTCACTTT
* *
15450861 AAATGGTTTTATAATCTTGTAAATGATCTTAAGTTGAATTGTTTTTCATTTTTGGTTAAAACAGA
66 AAATGGTTTTATAATCTTGTAAATGATTTTAAGTTGAATT-TTTTTCATTTTTGGTTAAAATAGA
** * *
15450926 TCATAATTGGATGTTTGAATTATGAAACAAGAAACAAAAGC
130 TCATAATTGGATGTTTGCCTTA-GAAACATGAAGCAAAAGC
* * *
15450967 CATCCATTGACATGAAAAGTCCATTTATTA-TCACTGATGCCTTTGAAAGACTAGTTATTCACTT
1 CATCCATTGACAAGAAAAGTCCATTTA-TAGTCACTCATGCCTTTGAAAGACTAGTTACTCACTT
* * * * *
15451031 TAAATGGTTTTACAATCTTATCAATGATTTTAAGTTGAATTTTTTTTCATTTTTAGTTAAAACAG
65 TAAATGGTTTTATAATCTTGTAAATGATTTTAAGTTGAA-TTTTTTTCATTTTTGGTTAAAATAG
* * * **
15451096 ATCATAATTGAATGTTTGCC-TCGACAAGCACGAAGTGAAAGC
129 ATCATAATTGGATGTTTGCCTTAGA-AA-CATGAAGCAAAAGC
* * * * *
15451138 CATCCACTTG-CAAGCAAAGTCCATTTATATTCACCCATGCCTTTGAATGCCTAGTTACTCACTT
1 CATCCA-TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGACTAGTTACTCACTT
* * *
15451202 TAAGTGATTTTATAA-CTT-TAAAGATGATTTTAAGTTG-ATTTTTTTCA-TCTTGTGTTAAAAT
65 TAAATGGTTTTATAATCTTGT-AA-ATGATTTTAAGTTGAATTTTTTTCATTTTTG-GTTAAAAT
* * *
15451263 AGATCATAATTTGATGTTTTGCATTAGAAA-ATGAGAAGCTAAA-C
127 AGATCATAATTGGATG-TTTGCCTTAGAAACAT--GAAGCAAAAGC
* * ** * * * * *
15451307 CTATCAACTGACAAGAAAAGTTAATTTATAGTCACTTATTCC-TTCAAAGGACAAGTTACTCGCT
1 C-ATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAA-GACTAGTTACTCACT
* * * *
15451371 TTAAATGCTTTTATAATCTTGTAAATGATGTTATGTTGAATTTGTTTTCATTTTTGGCTAAAATA
64 TTAAATGGTTTTATAATCTTGTAAATGATTTTAAGTTGAATTT-TTTTCATTTTTGGTTAAAATA
* * * *
15451436 GATCATAATTGGTTGTTGGACTTGAGAAACGTGAAGCAAAAGC
128 GATCATAATTGGATGTTTGCCTT-AGAAACATGAAGCAAAAGC
* * * * * ** *
15451479 CATCCATGGACAAGAAATGTCCATATATAGGCAATCATGCCTTCAAAAGACTAGTTACTCGCTTT
1 CATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGACTAGTTACTCACTTT
* * * ** *
15451544 AAATGATTTTATAATCTTTTAAATGATTTTGAGTTGAATTTTTTTTCATTCCTGGCTAAAATAGA
66 AAATGGTTTTATAATCTTGTAAATGATTTTAAGTTGAA-TTTTTTTCATTTTTGGTTAAAATAGA
* * *
15451609 TTATAATTGGATGTTTACCTTAGGAAACGTGAAGCAAAAGC
130 TCATAATTGGATGTTTGCCTTA-GAAACATGAAGCAAAAGC
* * * * * *
15451650 CATCCATTGACATGAAAATTCCATTTATAGTCATTGATGCCTTCGAAAGACTAGTTACTCAATTT
1 CATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGACTAGTTACTCACTTT
* * * * * * * * *
15451715 AATTAGCTTTATAATCTTGTAAATGATCTTAAATTGATTTTTTTTTAATTTTTGGCTAAAACAGA
66 AAATGGTTTTATAATCTTGTAAATGATTTTAAGTTGA-ATTTTTTTCATTTTTGGTTAAAATAGA
* * * * *
15451780 TCATACTTGGTTCTTGGCCTTAGAAAACGTGAAGCAAAAGC
130 TCATAATTGGATGTTTGCCTTAG-AAACATGAAGCAAAAGC
* * * * * ** * *
15451821 CATCCATGGGCAAGAAATGTCCATTTATAGGCAGTCATGCCTTAAAAAGATTAGTTACACACTTT
1 CATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGACTAGTTACTCACTTT
* * * * ** * * *
15451886 CAATGG-TTTATAATCTTCTAAATGATTTTGAGTTCAATTTTTTTTCATTCCTAGCTAAAACAGA
66 AAATGGTTTTATAATCTTGTAAATGATTTTAAGTTGAA-TTTTTTTCATTTTTGGTTAAAATAGA
*
15451950 TCATAATTGGATGTTTGCCTCAAGAAACATGAA-CTAAAAGC
130 TCATAATTGGATGTTTGCCT-TAGAAACATGAAGC-AAAAGC
* * * * *
15451991 CATCCATTGACATGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGACTAGTTGCTCGCTTT
1 CATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGACTAGTTACTCACTTT
* * * ** *
15452056 AAATTGTTTTATAATCTTCTAAATGAATTTGGGTTG-ATTTTTTT--TTTTTGGTTAAAATAAAT
66 AAATGGTTTTATAATCTTGTAAATGATTTTAAGTTGAATTTTTTTCATTTTTGGTTAAAATAGAT
* *
15452118 CATAATTGGATGTTTGCCTCGAGAAACATGAAGCGAAAGC
131 CATAATTGGATGTTTGCCT-TAGAAACATGAAGCAAAAGC
* * * *
15452158 AATCCATTGACAAGAAAAGTCCATTTATAGTCAATAATGCCTTTGAAAGACTAGTTACTCACGTT
1 CATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGACTAGTTACTCACTTT
* * * * *
15452223 AAAGGGTTTTATAATCTTATAAATGATTTGAAGTTGAATTTGTTTCATTTTTAGTTAAAATAGAT
66 AAATGGTTTTATAATCTTGTAAATGATTTTAAGTTGAATTTTTTTCATTTTTGGTTAAAATAGAT
* * *
15452288 CATAATTGGATGTTTGCCTTGAGAAACGTGCAGCGAAAGC
131 CATAATTGGATGTTTGCCTT-AGAAACATGAAGCAAAAGC
*
15452328 TATCCATTGACAAGAAAAGT
1 CATCCATTGACAAGAAAAGT
15452348 GTAAAACTCG
Statistics
Matches: 1139, Mismatches: 204, Indels: 77
0.80 0.14 0.05
Matches are distributed among these distances:
167 135 0.12
168 12 0.01
169 49 0.04
170 297 0.26
171 592 0.52
172 49 0.04
173 5 0.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.37
Consensus pattern (169 bp):
CATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGACTAGTTACTCACTTT
AAATGGTTTTATAATCTTGTAAATGATTTTAAGTTGAATTTTTTTCATTTTTGGTTAAAATAGAT
CATAATTGGATGTTTGCCTTAGAAACATGAAGCAAAAGC
Found at i:15451480 original size:341 final size:339
Alignment explanation
Indices: 15450765--15452347 Score: 1528
Period size: 341 Copynumber: 4.6 Consensus size: 339
15450755 TGGAGCCAAC
* * * * * * * * * * * *
15450765 ATGTTTGCCTCGAGAAACGTTAAGCGAATGACATCCATTGATAAGAAAAGTCTATTTGTA-GTAA
1 ATGTTGGCCTCGAGAAACATGAAGCAAAAGCCATCCATGGACAAGAAATGTCCATTTATAGGCAA
* * * *
15450829 CTTATGCCTTTGAAGGACTAGTTACTCACTTTAAATGGTTTTATAATCTTGTAAATGATCTTAAG
66 -TCATGCCTTTGAAAGACTAGTTACTCACTTTAAATGATTTTATAATCTT-TAAATGATTTTAAG
* * *
15450894 TTGAATTGTTTTTCAT-TTTTGGTTAAAACAGATCATAATTGGATGTTTGAATTATGAAACA-AG
129 TTGAATT-TTTTTCATCTTGT-GTTAAAATAGATCATAATTGGATGTTTGCATTA-GAAACATAG
* * *
15450957 AAACAAAAGCCATCCATTGACATGAAAAGTCCATTTATTA-TCACTGATGCCTTTGAAAGACTAG
191 AAGCAAAAGCCATCCATTGACATGAAAAGTCCATTTA-TAGTCACTTATGCCTTCGAAAGACTAG
* * * * * *
15451021 TTATTCACTTTAAATGGTTTTACAATCTTATCAATGATTTTAAGTTGAATTTTTTTTCATTTTTA
255 TTACTCACTTTAAATGCTTTTATAATCTTGTAAATGA-TTTAAGTTGAATTTTTTTTCATTTTTG
* *
15451086 GTTAAAACAGATCATAATTGA
319 GCTAAAACAGATCATAATTGG
* * * * ** * **
15451107 ATGTTTGCCTCGACAAGCACGAAGTGAAAGCCATCCACTTG-CAAGCAAA-GTCCATTTATATTC
1 ATGTTGGCCTCGAGAAACATGAAGCAAAAGCCATCCA-TGGACAAG-AAATGTCCATTTATAGGC
** * * *
15451170 ACCCATGCCTTTGAATGCCTAGTTACTCACTTTAAGTGATTTTATAA-CTTTAAAGATGATTTTA
64 AATCATGCCTTTGAAAGACTAGTTACTCACTTTAAATGATTTTATAATCTTT-AA-ATGATTTTA
*
15451234 AGTTG-ATTTTTTTCATCTTGTGTTAAAATAGATCATAATTTGATGTTTTGCATTAGAAA-ATGA
127 AGTTGAATTTTTTTCATCTTGTGTTAAAATAGATCATAATTGGATG-TTTGCATTAGAAACAT-A
* * * * ** * *
15451297 GAAGCTAAA-CCTATCAACTGACAAGAAAAGTTAATTTATAGTCACTTATTCCTTC-AAAGGACA
190 GAAGCAAAAGCC-ATCCATTGACATGAAAAGTCCATTTATAGTCACTTATGCCTTCGAAA-GACT
* * *
15451360 AGTTACTCGCTTTAAATGCTTTTATAATCTTGTAAATGATGTTATGTTGAATTTGTTTTCATTTT
253 AGTTACTCACTTTAAATGCTTTTATAATCTTGTAAATGAT-TTAAGTTGAATTTTTTTTCATTTT
*
15451425 TGGCTAAAATAGATCATAATTGG
317 TGGCTAAAACAGATCATAATTGG
* * * * *
15451448 TTGTTGGACTTGAGAAACGTGAAGCAAAAGCCATCCATGGACAAGAAATGTCCATATATAGGCAA
1 ATGTTGGCCTCGAGAAACATGAAGCAAAAGCCATCCATGGACAAGAAATGTCCATTTATAGGCAA
** * *
15451513 TCATGCCTTCAAAAGACTAGTTACTCGCTTTAAATGATTTTATAATCTTTTAAATGATTTTGAGT
66 TCATGCCTTTGAAAGACTAGTTACTCACTTTAAATGATTTTATAATC-TTTAAATGATTTTAAGT
* * * * * *
15451578 TGAATTTTTTTTCATTCCTG-GCTAAAATAGATTATAATTGGATGTTTACCTTAGGAAACGT-GA
130 TGAA-TTTTTTTCA-TCTTGTGTTAAAATAGATCATAATTGGATGTTTGCATTA-GAAACATAGA
*
15451641 AGCAAAAGCCATCCATTGACATGAAAATTCCATTTATAGTCA-TTGATGCCTTCGAAAGACTAGT
192 AGCAAAAGCCATCCATTGACATGAAAAGTCCATTTATAGTCACTT-ATGCCTTCGAAAGACTAGT
* * * * *
15451705 TACTCAATTTAATTAGC-TTTATAATCTTGTAAATGATCTTAAATTGATTTTTTTTTAATTTTTG
256 TACTCACTTTAAAT-GCTTTTATAATCTTGTAAATGAT-TTAAGTTGAATTTTTTTTCATTTTTG
*
15451769 GCTAAAACAGATCATACTTGG
319 GCTAAAACAGATCATAATTGG
* * * * *
15451790 TTCTTGGCCT-TAGAAAACGTGAAGCAAAAGCCATCCATGGGCAAGAAATGTCCATTTATAGGCA
1 ATGTTGGCCTCGAG-AAACATGAAGCAAAAGCCATCCATGGACAAGAAATGTCCATTTATAGGCA
* ** * * * * *
15451854 GTCATGCCTTAAAAAGATTAGTTACACACTTTCAATG-GTTTATAATCTTCTAAATGATTTTGAG
65 ATCATGCCTTTGAAAGACTAGTTACTCACTTTAAATGATTTTATAATCTT-TAAATGATTTTAAG
* * * * * * *
15451918 TTCAATTTTTTTTCATTCCT-AGCTAAAACAGATCATAATTGGATGTTTGCCTCAAGAAACAT-G
129 TTGAA-TTTTTTTCA-TCTTGTGTTAAAATAGATCATAATTGGATGTTTGCAT-TAGAAACATAG
*
15451981 AA-CTAAAAGCCATCCATTGACATGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGACTAG
191 AAGC-AAAAGCCATCCATTGACATGAAAAGTCCATTTATAGTCACTTATGCCTTCGAAAGACTAG
* * * **
15452045 TTGCTCGCTTTAAATTG-TTTTATAATCTTCTAAATGAATTTGGGTTG-A-TTTTTTT--TTTTT
255 TTACTCACTTTAAA-TGCTTTTATAATCTTGTAAATG-ATTTAAGTTGAATTTTTTTTCATTTTT
* * *
15452105 GGTTAAAATAAATCATAATTGG
318 GGCTAAAACAGATCATAATTGG
* * * * * *
15452127 ATGTTTGCCTCGAGAAACATGAAGCGAAAGCAATCCATTGACAAGAAAAGTCCATTTATAGTCAA
1 ATGTTGGCCTCGAGAAACATGAAGCAAAAGCCATCCATGGACAAGAAATGTCCATTTATAGGCAA
* * * * *
15452192 TAATGCCTTTGAAAGACTAGTTACTCACGTTAAAGGGTTTTATAATCTTATAAATGATTTGAAGT
66 TCATGCCTTTGAAAGACTAGTTACTCACTTTAAATGATTTTATAATCTT-TAAATGATTTTAAGT
* * * * *
15452257 TGAATTTGTTTCAT-TTTTAGTTAAAATAGATCATAATTGGATGTTTGCCTTGAGAAACGT-GCA
130 TGAATTTTTTTCATCTTGT-GTTAAAATAGATCATAATTGGATGTTTGCATT-AGAAACATAGAA
* * *
15452320 GCGAAAGCTATCCATTGACAAGAAAAGT
193 GCAAAAGCCATCCATTGACATGAAAAGT
15452348 GTAAAACTCG
Statistics
Matches: 1033, Mismatches: 167, Indels: 87
0.80 0.13 0.07
Matches are distributed among these distances:
335 1 0.00
336 1 0.00
337 170 0.16
338 30 0.03
339 8 0.01
340 51 0.05
341 402 0.39
342 314 0.30
343 51 0.05
344 5 0.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (339 bp):
ATGTTGGCCTCGAGAAACATGAAGCAAAAGCCATCCATGGACAAGAAATGTCCATTTATAGGCAA
TCATGCCTTTGAAAGACTAGTTACTCACTTTAAATGATTTTATAATCTTTAAATGATTTTAAGTT
GAATTTTTTTCATCTTGTGTTAAAATAGATCATAATTGGATGTTTGCATTAGAAACATAGAAGCA
AAAGCCATCCATTGACATGAAAAGTCCATTTATAGTCACTTATGCCTTCGAAAGACTAGTTACTC
ACTTTAAATGCTTTTATAATCTTGTAAATGATTTAAGTTGAATTTTTTTTCATTTTTGGCTAAAA
CAGATCATAATTGG
Found at i:15451898 original size:512 final size:497
Alignment explanation
Indices: 15450796--15452347 Score: 1576
Period size: 512 Copynumber: 3.0 Consensus size: 497
15450786 AAGCGAATGA
* * * ** * ** *
15450796 CATCCATTGATAAGAAAAGTCTATTTGTAGTAACTTATGCCTTTGAAGGACTAGTTACTCACTTT
1 CATCCA-TGACAAGAAAAGTCAATTTATAGGCACTCATGCCTTAAAAAGACTAGTTACTCACTTT
*
15450861 AAATGGTTTTATAATCTTGTAAATGATCTTAAGTTGAA-TTGTTTTTCATTTTTGGTTAAAACAG
65 AAATGG-TTTATAATCTTGTAAATGATCTT-AGTTGAATTTG-TTTTCATTTTTGGCTAAAACAG
* *
15450925 ATCATAATTGGATGTTTGAATTATGAAACAAGAAACAAAAGCCATCCATTGACATGAAAAGTCCA
127 ATCATAATTGGATGTTTGACTTA-GAAACATG-AACAAAAGCCATCCATTGACATGAAAAGTCCA
* * * * * *
15450990 TTTATTA-TCACTGATGCCTTTGAAAGACTAGTTATTCACTTTAAATGGTTTTACAATCTTATCA
190 TTTA-TAGTCACTAATGCCTTCGAAAGACTAGTTACTCGCTTTAAAT-GTTTTATAATCTTATAA
* * * * *
15451054 ATGATTTTAAGTTGAATTTTTTTTCATTTTTAGTTAAAACAGATCATAATTGAATGTTTGCCTCG
253 ATGATTTTGAGTTGAATTTTTTTTCA-TTTTGGTTAAAATAGATCATAATTGGATGTTTGCCTGG
* * * * ***
15451119 ACAAGCACGAAGTGAAAGCCATCCACTTG-CAAGCAAAGTCCATTTATATTCACCCATGCCTTTG
317 A-AA-CATGAAGCGAAAGCCATCCA-TTGACAAGAAAAGTCCATTTATAGTCAATAATGCCTTTG
* * *
15451183 AATGCCTAGTTACTCACTTTAAGTGATTTTATAA-CTTTAAAGATGATTTTAAGTTGATTTTTTT
379 AAAGACTAGTTACTCACTTTAAATG-TTTTATAATCTTT-AA-ATGA-TTTAAGTTGATTTTTTT
* * * * *
15451247 CA-TCTTGTGTTAAAATAGATCATAATTTGATGTTTTGCATTAGAAAATGAGAAGCTAAA-C
440 CATTTTTG-GTTAAAATAGATCATAA-TTG--GTTTTGCCTTAGAAAACGTGAAGCAAAAGC
* * * * * * * * *
15451307 CTATCAACTGACAAGAAAAGTTAATTTATAGTCACTTATTCCTTCAAAGGACAAGTTACTCGCTT
1 C-ATCCA-TGACAAGAAAAGTCAATTTATAGGCACTCATGCCTTAAAAAGACTAGTTACTCACTT
* * *
15451372 TAAATGCTTTTATAATCTTGTAAATGATGTTATGTTGAATTTGTTTTCATTTTTGGCTAAAATAG
64 TAAATG-GTTTATAATCTTGTAAATGATCTTA-GTTGAATTTGTTTTCATTTTTGGCTAAAACAG
* * * * * *
15451437 ATCATAATTGGTTGTTGGACTTGAGAAACGTGAAGCAAAAGCCATCCATGGACAAGAAATGTCCA
127 ATCATAATTGGATGTTTGACTT-AGAAACATGAA-CAAAAGCCATCCATTGACATGAAAAGTCCA
* * * * * *
15451502 TATATAGGCAATCATGCCTTCAAAAGACTAGTTACTCGCTTTAAATGATTTTATAATCTTTTAAA
190 TTTATAGTCACTAATGCCTTCGAAAGACTAGTTACTCGCTTTAAATG-TTTTATAATCTTATAAA
* * * *
15451567 TGATTTTGAGTTGAATTTTTTTTCATTCCTGGCTAAAATAGATTATAATTGGATGTTTACCTTAG
254 TGATTTTGAGTTGAATTTTTTTTCATT-TTGGTTAAAATAGATCATAATTGGATGTTTGCC-T-G
* * * * * * *
15451632 GAAACGTGAAGCAAAAGCCATCCATTGACATGAAAATTCCATTTATAGTCATTGATGCCTTCGAA
316 GAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAATAATGCCTTTGAA
* * * * *
15451697 AGACTAGTTACTCAATTTAATTAGCTTTATAATCTTGTAAATGATCTTAAATTGATTTTTTTTTA
381 AGACTAGTTACTCACTTTAAAT-GTTTTATAATCTT-TAAATGAT-TTAAGTTGA--TTTTTTTC
* * *
15451762 ATTTTTGGCTAAAACAGATCATACTTGGTTCTTGGCCTTAGAAAACGTGAAGCAAAAGC
441 ATTTTTGGTTAAAATAGATCATAATTGGTT-TT-GCCTTAGAAAACGTGAAGCAAAAGC
* * * * * *
15451821 CATCCATGGGCAAGAAATGTCCATTTATAGGCAGTCATGCCTTAAAAAGATTAGTTACACACTTT
1 CATCCAT-GACAAGAAAAGTCAATTTATAGGCACTCATGCCTTAAAAAGACTAGTTACTCACTTT
* * * * * ** *
15451886 CAATGGTTTATAATCTTCTAAATGATTTTGAGTTCAATTTTTTTTCATTCCTAGCTAAAACAGAT
65 AAATGGTTTATAATCTTGTAAATGATCTT-AGTTGAATTTGTTTTCATTTTTGGCTAAAACAGAT
* *
15451951 CATAATTGGATGTTTGCCTCAAGAAACATGAACTAAAAGCCATCCATTGACATGAAAAGTCCATT
129 CATAATTGGATGTTTGACT-TAGAAACATGAAC-AAAAGCCATCCATTGACATGAAAAGTCCATT
* *
15452016 TATAGTCACTAATGCCTTCGAAAGACTAGTTGCTCGCTTTAAATTGTTTTATAATCTTCTAAATG
192 TATAGTCACTAATGCCTTCGAAAGACTAGTTACTCGCTTTAAA-TGTTTTATAATCTTATAAATG
* * *
15452081 AATTTGGGTTG-ATTTTTTTT--TTTTGGTTAAAATAAATCATAATTGGATGTTTGCCTCGAGAA
256 ATTTTGAGTTGAATTTTTTTTCATTTTGGTTAAAATAGATCATAATTGGATGTTTGCCT-G-GAA
*
15452143 ACATGAAGCGAAAGCAATCCATTGACAAGAAAAGTCCATTTATAGTCAATAATGCCTTTGAAAGA
319 ACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAATAATGCCTTTGAAAGA
* * *
15452208 CTAGTTACTCACGTTAAAGGGTTTTATAATCTTATAAATGATTTGAAGTTGAATTTGTTTCATTT
384 CTAGTTACTCACTTTAAA-TGTTTTATAATCTT-TAAATGATTT-AAGTTG-ATTTTTTTCATTT
* * *
15452273 TTAGTTAAAATAGATCATAATTGGATGTTTGCCTT-GAGAAACGTGCAGCGAAAGC
445 TTGGTTAAAATAGATCATAATTGG-T-TTTGCCTTAGA-AAACGTGAAGCAAAAGC
*
15452328 TATCCATTGACAAGAAAAGT
1 CATCCA-TGACAAGAAAAGT
15452348 GTAAAACTCG
Statistics
Matches: 861, Mismatches: 145, Indels: 74
0.80 0.13 0.07
Matches are distributed among these distances:
506 2 0.00
507 69 0.08
508 132 0.15
509 4 0.00
511 26 0.03
512 508 0.59
513 89 0.10
514 27 0.03
515 4 0.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.37
Consensus pattern (497 bp):
CATCCATGACAAGAAAAGTCAATTTATAGGCACTCATGCCTTAAAAAGACTAGTTACTCACTTTA
AATGGTTTATAATCTTGTAAATGATCTTAGTTGAATTTGTTTTCATTTTTGGCTAAAACAGATCA
TAATTGGATGTTTGACTTAGAAACATGAACAAAAGCCATCCATTGACATGAAAAGTCCATTTATA
GTCACTAATGCCTTCGAAAGACTAGTTACTCGCTTTAAATGTTTTATAATCTTATAAATGATTTT
GAGTTGAATTTTTTTTCATTTTGGTTAAAATAGATCATAATTGGATGTTTGCCTGGAAACATGAA
GCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAATAATGCCTTTGAAAGACTAGTTA
CTCACTTTAAATGTTTTATAATCTTTAAATGATTTAAGTTGATTTTTTTCATTTTTGGTTAAAAT
AGATCATAATTGGTTTTGCCTTAGAAAACGTGAAGCAAAAGC
Found at i:15452764 original size:28 final size:30
Alignment explanation
Indices: 15452723--15452782 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
15452713 GTCTATGGGC
* *
15452723 AATTTTTCAGTTTT-TTGG-GCAAAAATGT
1 AATTTTTCACTTTTACTGGAGCAAAAATGT
*
15452751 AATTTTTCACTTTTACTGGAGCAAAAGTGT
1 AATTTTTCACTTTTACTGGAGCAAAAATGT
15452781 AA
1 AA
15452783 ATTTCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 13 0.48
29 3 0.11
30 11 0.41
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTTTCACTTTTACTGGAGCAAAAATGT
Found at i:15456739 original size:43 final size:43
Alignment explanation
Indices: 15456664--15456773 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 43
15456654 TCACCAGCTC
** *
15456664 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATCACCGGG-TT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATC-CCGGGCTT
* * *
15456707 ATGCGTACTCCCTACTCGCACATAACCGGGTCATCCTGGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCCGGGCTT
* *
15456750 ATGCGCACTCCCTATTCACACATA
1 ATGCGCACTCCCTACTCGCACATA
15456774 TTTGAGTCAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 4 0.07
43 53 0.93
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCCGGGCTT
Found at i:15458602 original size:43 final size:41
Alignment explanation
Indices: 15458472--15458605 Score: 124
Period size: 43 Copynumber: 3.1 Consensus size: 41
15458462 TTGTGTGACA
* *
15458472 ATGATGGCCCAACTATGTGCGTGTGGGAATGCACATAAGTTG
1 ATGATGACCCAACTATGTGCG-GTGGGAGTGCACATAAGTTG
* * * * * **
15458514 ACGATGACCTAGCTATGTGAGGTGTGGGAGTGCACTTTTGTTG
1 ATGATGACCCAACTATGTG-CG-GTGGGAGTGCACATAAGTTG
* *
15458557 ATGATGACCCAACTATGTGCGAGTAGGGAGTGCACATGAGCTG
1 ATGATGACCCAACTATGTGCG-GT-GGGAGTGCACATAAGTTG
15458600 ATGATG
1 ATGATG
15458606 GTGGGATGAT
Statistics
Matches: 72, Mismatches: 18, Indels: 3
0.77 0.19 0.03
Matches are distributed among these distances:
42 18 0.25
43 54 0.75
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.27
Consensus pattern (41 bp):
ATGATGACCCAACTATGTGCGGTGGGAGTGCACATAAGTTG
Found at i:15459296 original size:28 final size:29
Alignment explanation
Indices: 15459255--15459319 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
15459245 GTCTATGGGC
* *
15459255 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAGGGGGCAAAAATGT
*
15459283 AATTTTTCACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGCAAAAATGT
*
15459313 AAATTTT
1 AATTTTT
15459320 AAAAATTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 13 0.42
30 18 0.58
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGCAAAAATGT
Found at i:15469657 original size:171 final size:173
Alignment explanation
Indices: 15469403--15469729 Score: 453
Period size: 171 Copynumber: 1.9 Consensus size: 173
15469393 AGCTAATTAC
* * ** *
15469403 TCGCTTTAAATGGTTTTACAATCTTCTCAATGATTTTGAGTTGTATTTTTTTTTCTTTCTTAGCT
1 TCGCTTTAAATGGTTTTACAATCTTATAAATGAAGTTAAGTTGTATTTTTTTTTCTTTCTTAGCT
* * * * * **
15469468 AAAACAGATCATAATTGGATGTTTGCTTTGAGAAACGTGAAGTTAAAGCCATCCATTAACAAGAA
66 AAAACAGATCATAATTGGATGATTGCCTCGAGAAACATAAAGCGAAAGCCATCCATTAACAAGAA
* * *
15469533 AAGTTCA-TTTATAGTCACTTATGCCTTTGGAAGGCTGGTCAT
131 AAGTCCATTTTATAGCCACTCATGCCTTTGGAAGGCTGGTCAT
*
15469575 TCGCTTTAAATGGTTTTATAATCTTATAAATGAAGTTAAGTTG-ATTTTTTTTTCATTT-TTAGC
1 TCGCTTTAAATGGTTTTACAATCTTATAAATGAAGTTAAGTTGTATTTTTTTTTC-TTTCTTAGC
* * *
15469638 TAAAATAGATCATAATTGGATGATTGCCTCGAGAAACATAAAGCGAAAGCCATCTATTGACAAGA
65 TAAAACAGATCATAATTGGATGATTGCCTCGAGAAACATAAAGCGAAAGCCATCCATTAACAAGA
15469703 AAAGTCCATTTTATAGCCACTCATGCC
130 AAAGTCCATTTTATAGCCACTCATGCC
15469730 CTTGAAAGCC
Statistics
Matches: 134, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
171 78 0.58
172 56 0.42
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (173 bp):
TCGCTTTAAATGGTTTTACAATCTTATAAATGAAGTTAAGTTGTATTTTTTTTTCTTTCTTAGCT
AAAACAGATCATAATTGGATGATTGCCTCGAGAAACATAAAGCGAAAGCCATCCATTAACAAGAA
AAGTCCATTTTATAGCCACTCATGCCTTTGGAAGGCTGGTCAT
Found at i:15475570 original size:33 final size:35
Alignment explanation
Indices: 15475530--15475595 Score: 93
Period size: 33 Copynumber: 1.9 Consensus size: 35
15475520 TACTCTCATT
*
15475530 TTCTTTCTTTCCTTT-CTTTTC-CTTT-CTCTTTTC
1 TTCTTTCTTT-CTTTCCCTTTCTCTTTCCTCTTTTC
15475563 TTCTTTCTTTCTTTCCCTTTCTCTTTCCTCTTT
1 TTCTTTCTTTCTTTCCCTTTCTCTTTCCTCTTT
15475596 GGCTATGGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 4 0.14
33 15 0.52
34 4 0.14
35 6 0.21
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (35 bp):
TTCTTTCTTTCTTTCCCTTTCTCTTTCCTCTTTTC
Found at i:15478040 original size:171 final size:169
Alignment explanation
Indices: 15476804--15478726 Score: 1827
Period size: 171 Copynumber: 11.3 Consensus size: 169
15476794 TTCCATCAAT
* * * * *
15476804 AAGAAAAGTCCATTTATAGTCACTTATGCCTTTGAAAAATTAGTTACTCACTTTAAATAGTTTTA
1 AAGAAAAGTCCATTTATAGTCACTCATGCCTTT-AAAGACTAGTTACTCGCTTTAAATGGTTTTA
** * * *
15476869 TAATAGTGTAAATGATTTTAAGTTG-ATTTTTTT--TTGTTT-TCTTAAAACAAATCATAATTTG
65 TAATCTTGTAAATGATTTTAAGTTGAATTTTTTTCATT-TTTGGC-TAAAACAGATCATAATTGG
* * *
15476930 ATGTTTTGCATTGGAAAACATGAAGCGAAAGCCA-ACATTTGAC
128 ATG-TTAGCCTTGGAAAACATGAAGCGAAAGCCATCCA-TTGAC
* * * * *
15476973 AAGAAAAGTTCATTTATAGTC-CTTCATGCCTTCGAAAGCCTAATTACTAGCTTTAAATGGTTTT
1 AAGAAAAGTCCATTTATAGTCAC-TCATGCCTT-TAAAGACTAGTTACTCGCTTTAAATGGTTTT
* * * *
15477037 ATAATCTTATAAATGATTTTAAGTTGAACCCTTTTTTCATTTTTGGCTAAAGCAAATCATAATTG
64 ATAATCTTGTAAATGATTTTAAGTTGAA--TTTTTTTCATTTTTGGCTAAAACAGATCATAATTG
* * * ** *
15477102 GATGTTTAGTC-TCGAGAAACGTGAAGAAAAAGCCATCCATTGGC
127 GATG-TTAGCCTTGGA-AAACATGAAGCGAAAGCCATCCATTGAC
*
15477146 AAGAAAAGTCCATTTATAGTCACTCATGCCTTTAAAGGACTAGTTACTCACTTTAAATGGTTTTA
1 AAGAAAAGTCCATTTATAGTCACTCATGCCTTTAAA-GACTAGTTACTCGCTTTAAATGGTTTTA
* * *
15477211 TAATCTTGTAAATGATCTTAAGTTGAATTTCGTTTT-ATTGTTGGCTAAAATAGATCATAATTGG
65 TAATCTTGTAAATGATTTTAAGTTGAATTT--TTTTCATTTTTGGCTAAAACAGATCATAATTGG
* * * *
15477275 ATGTTAGCCCTGGAAAACATGAGGTGAAAGCCATCCGTTGAC
128 ATGTTAGCCTTGGAAAACATGAAGCGAAAGCCATCCATTGAC
* * * * * *
15477317 AAG-AAAGTCCATTTATAGTGAGTAATGCCTTATAAAGACTAGTTACTCACGTTAAAT-GATTTA
1 AAGAAAAGTCCATTTATAGTCACTCATGCCTT-TAAAGACTAGTTACTCGCTTTAAATGGTTTTA
* * * ***
15477380 TAATCTTATAAATGATTTTAAGTTGACTTGTATTTCATTTTTTATTAAAACAGATCATAATTGGA
65 TAATCTTGTAAATGATTTTAAGTTGAATT-TTTTTCATTTTTGGCTAAAACAGATCATAATTGGA
* * * * * * * *
15477445 TAATTA-CC-TCGAGAAACGTGAAACAAAAGCCTTCCATCGAT
129 T-GTTAGCCTTGGA-AAACATGAAGCGAAAGCCATCCATTGAC
* * * *
15477486 AAGAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAGACTTGTTACTTGCTTTAAATGGTTTTA
1 AAGAAAAGTCCATTTATAGTCACTCATGCCTT-TAAAGACTAGTTACTCGCTTTAAATGGTTTTA
* * * * * * * *
15477551 CAATCGTGTAAAT-ATTTTAAGTTGAA-CTTTTTCCTTTCTT---AAAAAAAAATCATAATTTGA
65 TAATCTTGTAAATGATTTTAAGTTGAATTTTTTTCATTT-TTGGCTAAAACAGATCATAATTGGA
* * * * ** * *
15477611 TTTTTGCATTGGCAAATGTGAAGCGAAAGCCATCAATTGAT
129 TGTTAGCCTTGGAAAACATGAAGCGAAAGCCATCCATTGAC
* * * * * *
15477652 AAGAAAAGCCCATTTCTAGTCATTCATGCCTTTGAAAGCCTAATTACTTGCTTTAAATGGTTTTA
1 AAGAAAAGTCCATTTATAGTCACTCATGCCTTT-AAAGACTAGTTACTCGCTTTAAATGGTTTTA
* *
15477717 TAATCTTATAAATGATTTTAAGTTGAATATTTTTTTCATTTTTGGCTAAAACATATCATAATTGG
65 TAATCTTGTAAATGATTTTAAGTTG-A-ATTTTTTTCATTTTTGGCTAAAACAGATCATAATTGG
** * *
15477782 ATGTTTAGCC-TCAAGAAACATGAAGCAAAAGCCATCCATTGAG
128 ATG-TTAGCCTTGGA-AAACATGAAGCGAAAGCCATCCATTGAC
* * *
15477825 AAGAAAAGTCCCTTTATTGTCACTCATGCCTTTGAAGCACTAGTTACTCGCTTTAAATGGTTTTA
1 AAGAAAAGTCCATTTATAGTCACTCATGCCTTTAAAG-ACTAGTTACTCGCTTTAAATGGTTTTA
* * *
15477890 TAATCTTGTAAATGATCTTAAGTTGAATTTCTTTTCATTTTTGGCTAAAATAGATCGTAATTGGA
65 TAATCTTGTAAATGATTTTAAGTTGAATTT-TTTTCATTTTTGGCTAAAACAGATCATAATTGGA
* *
15477955 TGATAGCCTCT-GAAAACTTGAAGCGAAAGCCATCCATTGAC
129 TGTTAGCCT-TGGAAAACATGAAGCGAAAGCCATCCATTGAC
* * * *
15477996 AAGAAAAGTCCATTTATAGTCAATAATGGCTTCTAAAGACTAGTTACTC-ATGTTAAATGGTTTT
1 AAGAAAAGTCCATTTATAGTCACTCATGCCTT-TAAAGACTAGTTACTCGCT-TTAAATGGTTTT
* * * * * *
15478060 ATAATCTTATAAATGATTTTAAGTTGAATTATATTTCATTTTTTGTTAAAACATATCCTAATTGG
64 ATAATCTTGTAAATGATTTTAAGTTGAATT-TTTTTCATTTTTGGCTAAAACAGATCATAATTGG
* * * * *
15478125 ATAATTA-CCTT-GAGAAACATGAAAC-AATAGCCTTCCATCGAT
128 AT-GTTAGCCTTGGA-AAACATGAAGCGAA-AGCCATCCATTGAC
** * *
15478167 AAGAAAAGTCCATTTATAGTCTGTCATGCCTTTGAAAGACTTGTTACTCACTTTAAATGGTTTTA
1 AAGAAAAGTCCATTTATAGTCACTCATGCCTTT-AAAGACTAGTTACTCGCTTTAAATGGTTTTA
* * * *
15478232 TAATCGTGTAAATGATTTTAAGTTGAATTTTTTT-ATTTTT--TTAAAACAAATCATAATTTGAT
65 TAATCTTGTAAATGATTTTAAGTTGAATTTTTTTCATTTTTGGCTAAAACAGATCATAATTGGAT
* * * * * *
15478294 GTTTTGCATTAGAAAA-AGTAAAGCGAAAGCCATCAATTAAC
130 G-TTAGCCTTGGAAAACA-TGAAGCGAAAGCCATCCATTGAC
* * *
15478335 AAGAAAAGTCCATTTATAGTC-CTTCATGCGTTTGAAAGCCTAATTACTCGCTTTAAATGGTTTT
1 AAGAAAAGTCCATTTATAGTCAC-TCATGCCTTT-AAAGACTAGTTACTCGCTTTAAATGGTTTT
* * * * *
15478399 ATAGTCTTATAAATGATTTTAAGTTGAACCCTATTTTCATCTTTGGCTAAAACAGATCATAATTG
64 ATAATCTTGTAAATGATTTTAAGTTGAA--TTTTTTTCATTTTTGGCTAAAACAGATCATAATTG
* * * * * *
15478464 GATGTTTTGCCTTGGGAAACGTTAAGTGAAAGCCATCCATTGATA
127 GATG-TTAGCCTTGGAAAACATGAAGCGAAAGCCATCCATTGA-C
* * *
15478509 AAAAAAAGTCCACTTATAGTCACTCATGCCTTTGAAGGACTAGTTACTCGCTTTAAATGG-TTTA
1 AAGAAAAGTCCATTTATAGTCACTCATGCCTTT-AAAGACTAGTTACTCGCTTTAAATGGTTTTA
* *
15478573 TAATCTTGTAAATGATCTTAAGTTGAATTTCTTTTCATTTTTGGCTAAAATAGATCATAATTGGA
65 TAATCTTGTAAATGATTTTAAGTTGAATTT-TTTTCATTTTTGGCTAAAACAGATCATAATTGGA
* * * * *
15478638 TGTTAACCTTGGGAAACGTGAAGCGATAGCCATCCATTGAT
129 TGTTAGCCTTGGAAAACATGAAGCGAAAGCCATCCATTGAC
** * * *
15478679 AAGAAAAGTAAATTTATAGCCATTCATG-CTTTCGAAAGCCTAGTTACT
1 AAGAAAAGTCCATTTATAGTCACTCATGCCTTT--AAAGACTAGTTACT
15478727 AACTTTGAGT
Statistics
Matches: 1444, Mismatches: 247, Indels: 125
0.80 0.14 0.07
Matches are distributed among these distances:
165 2 0.00
166 106 0.07
167 35 0.02
168 117 0.08
169 173 0.12
170 166 0.11
171 336 0.23
172 140 0.10
173 310 0.21
174 58 0.04
175 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (169 bp):
AAGAAAAGTCCATTTATAGTCACTCATGCCTTTAAAGACTAGTTACTCGCTTTAAATGGTTTTAT
AATCTTGTAAATGATTTTAAGTTGAATTTTTTTCATTTTTGGCTAAAACAGATCATAATTGGATG
TTAGCCTTGGAAAACATGAAGCGAAAGCCATCCATTGAC
Found at i:15478582 original size:683 final size:683
Alignment explanation
Indices: 15476794--15478806 Score: 2837
Period size: 683 Copynumber: 3.0 Consensus size: 683
15476784 ACAGAAAGGT
* * *
15476794 TTCCATCAATAAGAAAAGTCCATTTATAGTCACTTATGCCTTTGAAA-AATTAGTTACTCACTTT
1 TTCCATCGATAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGACTT-GTTACTCACTTT
* * *
15476858 AAATAGTTTTATAATAGTGTAAATGATTTTAAGTTG-ATTTTTTTTTGTTTTCTTAAAACAAATC
65 AAATGGTTTTATAATCGTGTAAATGATTTTAAGTTGAATTTTTTTAT-TTTT-TTAAAACAAATC
* * *
15476922 ATAATTTGATGTTTTGCATTGGAAAACA-TGAAGCGAAAGCCAACATTTGACAAGAAAAGTTCAT
128 ATAATTTGATGTTTTGCATTGGAAAA-AGTGAAGCGAAAGCCATCAATTGACAAGAAAAGTCCAT
*
15476986 TTATAGTCCTTCATGCCTTCGAAAGCCTAATTACTAGCTTTAAATGGTTTTATAATCTTATAAAT
192 TTATAGTCCTTCATGCCTTTGAAAGCCTAATTACTAGCTTTAAATGGTTTTATAATCTTATAAAT
* *
15477051 GATTTTAAGTTGAACCCTTTTTTCATTTTTGGCTAAAGCAAATCATAATTGGATGTTTAGTCTCG
257 GATTTTAAGTTGAACCCTTTTTTCATTTTTGGCTAAAACAAATCATAATTGGATGTTTAGCCTCG
** * *
15477116 AGAAACGTGAAGAAAAAGCCATCCATTGGCAAGAAAAGTCCATTTATAGTCACTCATGCCTTTAA
322 AGAAACGTGAAGAAAAAGCCATCCATTGAAAAGAAAAGTCCACTTATAGTCACTCATGCCTTTGA
*
15477181 AGGACTAGTTACTCACTTTAAATGGTTTTATAATCTTGTAAATGATCTTAAGTTGAATTTCGTTT
387 AGGACTAGTTACTCGCTTTAAATGGTTTTATAATCTTGTAAATGATCTTAAGTTGAATTTC-TTT
* * *
15477246 T-ATTGTTGGCTAAAATAGATCATAATTGGATGTTAGCC-CTGGAAAACATGAGGTGAAAGCCAT
451 TCATTTTTGGCTAAAATAGATCATAATTGGATGTTAGCCTCTGGAAAACATGAAGCGAAAGCCAT
* * *
15477309 CCGTTGACAAG-AAAGTCCATTTATAGTGAGTAATGCCTTATAAAGACTAGTTACTCACGTTAAA
516 CCATTGACAAGAAAAGTCCATTTATAGTCAATAATGCCTTATAAAGACTAGTTACTCACGTTAAA
* *
15477373 TGATTTATAATCTTATAAATGATTTTAAGTTGACTTGTATTTCATTTTTTATTAAAACAGATCAT
581 TGATTTATAATCTTATAAATGATTTTAAGTTGAATTATATTTCATTTTTTATTAAAACAGATCAT
*
15477438 AATTGGATAATTACCTCGAGAAACGTGAAACAAAAGCC
646 AATTGGATAATTACCTCGAGAAACATGAAACAAAAGCC
* * **
15477476 TTCCATCGATAAGAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAGACTTGTTACTTGCTTTA
1 TTCCATCGATAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGACTTGTTACTCACTTTA
* * ** * * *
15477541 AATGGTTTTACAATCGTGTAAAT-ATTTTAAGTTGAACTTTTTCCTTTCTTAAAAAAAAATCATA
66 AATGGTTTTATAATCGTGTAAATGATTTTAAGTTGAATTTTTTTATTTTTTTAAAACAAATCATA
* * * * *
15477605 ATTTGAT-TTTTGCATTGGCAAATGTGAAGCGAAAGCCATCAATTGATAAGAAAAGCCCATTTCT
131 ATTTGATGTTTTGCATTGGAAAAAGTGAAGCGAAAGCCATCAATTGACAAGAAAAGTCCATTTAT
* *
15477669 AGTCATTCATGCCTTTGAAAGCCTAATTACTTGCTTTAAATGGTTTTATAATCTTATAAATGATT
196 AGTCCTTCATGCCTTTGAAAGCCTAATTACTAGCTTTAAATGGTTTTATAATCTTATAAATGATT
*** * *
15477734 TTAAGTTGAATATTTTTTTCATTTTTGGCTAAAACATATCATAATTGGATGTTTAGCCTCAAGAA
261 TTAAGTTGAACCCTTTTTTCATTTTTGGCTAAAACAAATCATAATTGGATGTTTAGCCTCGAGAA
* * * * *
15477799 ACATGAAGCAAAAGCCATCCATTGAGAAGAAAAGTCC-CTTTATTGTCACTCATGCCTTTGAAGC
326 ACGTGAAGAAAAAGCCATCCATTGAAAAGAAAAGTCCAC-TTATAGTCACTCATGCCTTTGAAGG
15477863 ACTAGTTACTCGCTTTAAATGGTTTTATAATCTTGTAAATGATCTTAAGTTGAATTTCTTTTCAT
390 ACTAGTTACTCGCTTTAAATGGTTTTATAATCTTGTAAATGATCTTAAGTTGAATTTCTTTTCAT
* * *
15477928 TTTTGGCTAAAATAGATCGTAATTGGATGATAGCCTCT-GAAAACTTGAAGCGAAAGCCATCCAT
455 TTTTGGCTAAAATAGATCATAATTGGATGTTAGCCTCTGGAAAACATGAAGCGAAAGCCATCCAT
* * * *
15477992 TGACAAGAAAAGTCCATTTATAGTCAATAATGGCTTCTAAAGACTAGTTACTCATGTTAAATGGT
520 TGACAAGAAAAGTCCATTTATAGTCAATAATGCCTTATAAAGACTAGTTACTCACGTTAAAT-GA
* * *
15478057 TTTATAATCTTATAAATGATTTTAAGTTGAATTATATTTCATTTTTTGTTAAAACATATCCTAAT
584 TTTATAATCTTATAAATGATTTTAAGTTGAATTATATTTCATTTTTTATTAAAACAGATCATAAT
* *
15478122 TGGATAATTACCTTGAGAAACATGAAACAATAGCC
649 TGGATAATTACCTCGAGAAACATGAAACAAAAGCC
**
15478157 TTCCATCGATAAGAAAAGTCCATTTATAGTCTGTCATGCCTTTGAAAGACTTGTTACTCACTTTA
1 TTCCATCGATAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGACTTGTTACTCACTTTA
15478222 AATGGTTTTATAATCGTGTAAATGATTTTAAGTTGAATTTTTTTATTTTTTTAAAACAAATCATA
66 AATGGTTTTATAATCGTGTAAATGATTTTAAGTTGAATTTTTTTATTTTTTTAAAACAAATCATA
* * *
15478287 ATTTGATGTTTTGCATTAGAAAAAGTAAAGCGAAAGCCATCAATTAACAAGAAAAGTCCATTTAT
131 ATTTGATGTTTTGCATTGGAAAAAGTGAAGCGAAAGCCATCAATTGACAAGAAAAGTCCATTTAT
* * *
15478352 AGTCCTTCATGCGTTTGAAAGCCTAATTACTCGCTTTAAATGGTTTTATAGTCTTATAAATGATT
196 AGTCCTTCATGCCTTTGAAAGCCTAATTACTAGCTTTAAATGGTTTTATAATCTTATAAATGATT
* * * * * *
15478417 TTAAGTTGAACCCTATTTTCATCTTTGGCTAAAACAGATCATAATTGGATGTTTTGCCTTGGGAA
261 TTAAGTTGAACCCTTTTTTCATTTTTGGCTAAAACAAATCATAATTGGATGTTTAGCCTCGAGAA
* ** *
15478482 ACGTTAAGTGAAAGCCATCCATTGATAAAAAAAAGTCCACTTATAGTCACTCATGCCTTTGAAGG
326 ACGTGAAGAAAAAGCCATCCATTGA-AAAGAAAAGTCCACTTATAGTCACTCATGCCTTTGAAGG
15478547 ACTAGTTACTCGCTTTAAATGG-TTTATAATCTTGTAAATGATCTTAAGTTGAATTTCTTTTCAT
390 ACTAGTTACTCGCTTTAAATGGTTTTATAATCTTGTAAATGATCTTAAGTTGAATTTCTTTTCAT
* * * *
15478611 TTTTGGCTAAAATAGATCATAATTGGATGTTAACCT-TGGGAAACGTGAAGCGATAGCCATCCAT
455 TTTTGGCTAAAATAGATCATAATTGGATGTTAGCCTCTGGAAAACATGAAGCGAAAGCCATCCAT
* ** * * * * ** * * * * *
15478675 TGATAAGAAAAGTAAATTTATAGCCATTCATGCTTTCGAAAGCCTAGTTACTAACTTTGAGTGAT
520 TGACAAGAAAAGTCCATTTATAGTCAATAATGCCTTATAAAGACTAGTTACTCACGTTAAATGAT
* * * * * * * * *
15478740 ATTATAA-CTTCAAAAAAGATTTTAAATTGAATTGTTTTTTCACTTTTCATTGAAACAAATCATA
585 -TTATAATCTT-ATAAATGATTTTAAGTTGAATT-ATATTTCATTTTTTATTAAAACAGATCATA
15478804 ATT
647 ATT
15478807 AGAAGTTTTC
Statistics
Matches: 1175, Mismatches: 140, Indels: 30
0.87 0.10 0.02
Matches are distributed among these distances:
678 4 0.00
679 343 0.29
680 71 0.06
681 188 0.16
682 129 0.11
683 359 0.31
684 80 0.07
685 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (683 bp):
TTCCATCGATAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGACTTGTTACTCACTTTA
AATGGTTTTATAATCGTGTAAATGATTTTAAGTTGAATTTTTTTATTTTTTTAAAACAAATCATA
ATTTGATGTTTTGCATTGGAAAAAGTGAAGCGAAAGCCATCAATTGACAAGAAAAGTCCATTTAT
AGTCCTTCATGCCTTTGAAAGCCTAATTACTAGCTTTAAATGGTTTTATAATCTTATAAATGATT
TTAAGTTGAACCCTTTTTTCATTTTTGGCTAAAACAAATCATAATTGGATGTTTAGCCTCGAGAA
ACGTGAAGAAAAAGCCATCCATTGAAAAGAAAAGTCCACTTATAGTCACTCATGCCTTTGAAGGA
CTAGTTACTCGCTTTAAATGGTTTTATAATCTTGTAAATGATCTTAAGTTGAATTTCTTTTCATT
TTTGGCTAAAATAGATCATAATTGGATGTTAGCCTCTGGAAAACATGAAGCGAAAGCCATCCATT
GACAAGAAAAGTCCATTTATAGTCAATAATGCCTTATAAAGACTAGTTACTCACGTTAAATGATT
TATAATCTTATAAATGATTTTAAGTTGAATTATATTTCATTTTTTATTAAAACAGATCATAATTG
GATAATTACCTCGAGAAACATGAAACAAAAGCC
Found at i:15481880 original size:172 final size:171
Alignment explanation
Indices: 15481594--15483816 Score: 2171
Period size: 171 Copynumber: 13.0 Consensus size: 171
15481584 GGTCGTGACA
* * * * * * *
15481594 GAAAGCCATTCATTGACAACAAAAGTCGATTTATAGTCACTTATACCTTCGAAGGACTAGTTACT
1 GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGACTAATTACT
* * * * * * *
15481659 CCCTTTAAATGCTTTTATAATATTGTAAATGATCTTAAGTTGATTTTTTTTTTCATTTTTGGCTA
66 CACTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGA-ATTTTTTTTCATTTTTGGTTA
** * *
15481724 AAACAGATCATAATTGGATGTTACCCTCAGGGAACGTGAAGC
130 AAACAGATCATAATTGGATGTTTGCCTTAGGAAACGTGAAGC
* * *
15481766 GAAAGCCATCTATTGACAAGAAAAGTCTATTTATAGGCACTCATG-CTTCGAAAGACTAATTACT
1 GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGACTAATTACT
* * * * * * * *
15481830 CGCTTTAAATAGTTTTATAATCTTCTAAATGATTTTGAGCTAAATTTTTTTTAATTTTTGGATAA
66 CACTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAA
* * * * *
15481895 AACATATCATAATTGAATGTTTGCCTTTGGAAACATAAAGC
131 AACAGATCATAATTGGATGTTTGCCTTAGGAAACGTGAAGC
* * * * *
15481936 AAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCATTAATGCCTTC-AGAAGGCTAATCAC
1 GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGA-AAGACTAATTAC
* * *
15482000 TCACCTTAAATGGTTTTATAATCTTATAAATGATGTTAAGTTGATTTTTTTTTCATTTTTGGTTA
65 TCACTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTA
* * *
15482065 AAACAGATCATAATTGGATGTTTTCCTTAAGAAACGTAAAGC
130 AAACAGATCATAATTGGATGTTTGCCTTAGGAAACGTGAAGC
* * * * *
15482107 GAAAAG-CATCCATTGGCAAGAAAAGTCAATTTATAGTCAGTTATGCCTTCAAAAGACTAATTAC
1 G-AAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGACTAATTAC
* * * * *
15482171 TCA-TGTTAAATGGTTTTATAGTCTTATAACTGATTTTAAGATGAATTTTATTTCATTTTAGGTT
65 TCACT-TTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTT
* * * *
15482235 ACAACAGATCATAATAGGATGTTTGCCTTGGGAAACATGAAGC
129 AAAACAGATCATAATTGGATGTTTGCCTTAGGAAACGTGAAGC
* * * * * * *
15482278 GAAAGTCATCCATTGATAAGGAAAGTCCATTTACAGTCACTCATGCCTTCAGAATG-CTAGTGAC
1 GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTC-GAAAGACTAATTAC
* * * *
15482342 TCACTTTAAATGGTTTTATAATCTTATAAATGATTTTGAGTTGAATTATTGTTCATTTTTGGCTA
65 TCACTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTA
* * * *
15482407 AAATAGAACATAATTGGATGTTTGCCTCAAGAAACGTGAAGC
130 AAACAGATCATAATTGGATGTTTGCCTTAGGAAACGTGAAGC
* * * * * * *
15482449 GAAAACCATCCATTGATAAGAAAAGTCCATTTATAGTCAATAATGCCGTCGAAAGACTACTTATT
1 GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGACTAATTACT
* * *
15482514 CA-TGTTAGATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTATGTCATTTTTGGTTA
66 CACT-TTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTA
* * * * *
15482578 AAATAGATCACACTTGGATGTTTGCCTTAGG-AACTTGAAAC
130 AAACAGATCATAATTGGATGTTTGCCTTAGGAAACGTGAAGC
* * ** * *
15482619 AAAAGCCATCCCTAAACAAGAAAAGTCCATTTATAGTCATTCATGCCTTCGAAAGACTAGTTACT
1 GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGACTAATTACT
* * * * ** *
15482684 TACTTTAAATGGCTTTATAAT-TGTGTAAATGATTTTAATTTGAATGGTTTTTCATTTTTGTTTA
66 CACTTTAAATGGTTTTATAATCT-TATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTA
* * * *
15482748 AAATAGGTCATAATTGGATGTTTGCATTAGGAAATGTGACA-C
130 AAACAGATCATAATTGGATGTTTGCCTTAGGAAACGTGA-AGC
* * * * * *
15482790 GAAAGCTATCCATTGACATGAAAAGTTCATTTATTA-TCACTGATGCCTTTGAAAGACTAGTTAC
1 GAAAGCCATCCATTGACAAGAAAAGTCCATTTA-TAGTCACTCATGCCTTCGAAAGACTAATTAC
* *
15482854 TCACTTTAAATGGTTTTACAATCCTATCAAA-GATTTTAAGTTGAATATTTTTTT-A------GT
65 TCACTTTAAATGGTTTTATAATCTTAT-AAATGATTTTAAGTTGAAT-TTTTTTTCATTTTTGGT
* * ** * *
15482911 TAAAACAGATCATAATTGGTTGTTTGGCTTAACAAAGGTGAAGT
128 TAAAACAGATCATAATTGGATGTTTGCCTTAGGAAACGTGAAGC
* * * * * * * * * * *
15482955 GAATGCCATCTATTTG-CAAGCAAAGTCTATTGATAGTCACTTATACCTTTGAACGTCAAATTAC
1 GAAAGCCATCCA-TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGACTAATTAC
* * * * * *
15483019 TCGCTTTAAGTGATTTTATAAAT-TTAAAAATAATTTTAAGTTGAA-TTTTTTTCATTTTTTTGT
65 TCACTTTAAATGGTTTTAT-AATCTTATAAATGATTTTAAGTTGAATTTTTTTTCA-TTTTTGGT
* * * * *
15483082 TAAAATAGATCATAATTTGATGTTTTGCATT-GGAAAATGTGAAGT
128 TAAAACAGATCATAATTGGATG-TTTGCCTTAGG-AAACGTGAAGC
* * ** * * *
15483127 AAAAGCCATCAATTGACATA-AAAAGTCTGTTTACAGTCATTCATGCCTTCGAAAGCCTAATTAC
1 GAAAGCCATCCATTGACA-AGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGACTAATTAC
** * * * *
15483191 TCACTTTAAATATTTTTATAATTTTATAAAAGATTTTAAGTTGAACCTTTTTTTCATTTTTAGTT
65 TCACTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAA-TTTTTTTTCATTTTTGGTT
* * ** * * * *
15483256 AAAACATATCATAAATGGACATTTGCCTTGGGGAACATGAAAC
129 AAAACAGATCATAATTGGATGTTTGCCTTAGGAAACGTGAAGC
* * * * * *
15483299 GAAAGCCATCCATTGACAAGCAAAGTCCATTTATAGTCA-TAATTCCTTCGAAAGATTAGTTATT
1 GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGACTAATTACT
* * *
15483363 CACTTTCAATGGTTTTATAATCTTATAAATGATTTTAAGTTGATTTTTTTTTCATTTTTAGTTAA
66 CACTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAA
* * * *
15483428 AACATATCATAATTGGATGTTTGCCTTGGGAAGCATGAAGC
131 AACAGATCATAATTGGATGTTTGCCTTAGGAAACGTGAAGC
* * **
15483469 GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCATTCATGCCTTTGAAATTCTAATTACT
1 GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGACTAATTACT
* * * * * * * * *
15483534 CACTTTAAATGGCTTTACACTATTATAAATGATTTTATGTTCAACCTTTTTTTCGTTTTTGGCTA
66 CACTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAA-TTTTTTTTCATTTTTGGTTA
* ** * * *
15483599 AAACAGATCATAATTGGAAGTTAACCTTGGGAGACATGAAGC
130 AAACAGATCATAATTGGATGTTTGCCTTAGGAAACGTGAAGC
* * * * *
15483641 -AAAACCTATCCATTGACAAGAAAAGTTCATTTATAGTCAGTAATGCCTTCGAAAGACTAGTTAC
1 GAAAGCC-ATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGACTAATTAC
* * * * * *
15483705 TCACTTTAAATGATTTTACAATCTTATCAATGATTTTAAGTTGAATTTTTTTGCATTCTTGG-TC
65 TCACTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTA
**
15483769 AAATTGAATCATAATTGGATGTTTGCCTT-GTGAAACGTGATA-C
130 AAACAG-ATCATAATTGGATGTTTGCCTTAG-GAAACGTGA-AGC
15483812 GAAAG
1 GAAAG
15483817 TTGTCACAGC
Statistics
Matches: 1676, Mismatches: 328, Indels: 94
0.80 0.16 0.04
Matches are distributed among these distances:
163 7 0.00
164 7 0.00
165 107 0.06
166 6 0.00
169 1 0.00
170 338 0.20
171 835 0.50
172 340 0.20
173 26 0.02
174 9 0.01
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (171 bp):
GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGACTAATTACT
CACTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAA
AACAGATCATAATTGGATGTTTGCCTTAGGAAACGTGAAGC
Found at i:15484768 original size:22 final size:22
Alignment explanation
Indices: 15484742--15484801 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
15484732 CGAGAGTTTC
15484742 TTGCTGCAGCGAGAATCCATTT
1 TTGCTGCAGCGAGAATCCATTT
*
15484764 TTGCTGCAACGAGAATCCATTT
1 TTGCTGCAGCGAGAATCCATTT
***
15484786 TCATTGCAGCGAGAAT
1 TTGCTGCAGCGAGAAT
15484802 TCTTTTTCAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (22 bp):
TTGCTGCAGCGAGAATCCATTT
Found at i:15484808 original size:22 final size:21
Alignment explanation
Indices: 15484746--15484810 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
15484736 AGTTTCTTGC
15484746 TGCAGCGAGAATCCATTTTTGC-
1 TGCAGCGAGAATCC-TTTTT-CA
* *
15484768 TGCAACGAGAATCCATTTTCA
1 TGCAGCGAGAATCCTTTTTCA
*
15484789 TTGCAGCGAGAATTCTTTTTCA
1 -TGCAGCGAGAATCCTTTTTCA
15484811 CTACAGTGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.03
21 4 0.11
22 31 0.86
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (21 bp):
TGCAGCGAGAATCCTTTTTCA
Found at i:15487749 original size:55 final size:55
Alignment explanation
Indices: 15487610--15487736 Score: 229
Period size: 55 Copynumber: 2.3 Consensus size: 55
15487600 AATGTGGAAG
15487610 AAAGGAAATTG-TGCATGAAAGCTTATTGGTTAGGAAAATGGCCAAATAAGAATA
1 AAAGGAAATTGATGCATGAAAGCTTATTGGTTAGGAAAATGGCCAAATAAGAATA
* *
15487664 AAAGGAAATTGGTGCATGAAAGCTTATTGGTTGGGAAAATGGCCAAATAAGAATA
1 AAAGGAAATTGATGCATGAAAGCTTATTGGTTAGGAAAATGGCCAAATAAGAATA
15487719 AAAGGAAATTGATGCATG
1 AAAGGAAATTGATGCATG
15487737 TATTTTGATT
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
54 11 0.16
55 59 0.84
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (55 bp):
AAAGGAAATTGATGCATGAAAGCTTATTGGTTAGGAAAATGGCCAAATAAGAATA
Found at i:15488031 original size:19 final size:20
Alignment explanation
Indices: 15488007--15488045 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
15487997 CGAGAACAAG
*
15488007 AAAAAGAGAGAAA-GAGAAA
1 AAAAAGAAAGAAAGGAGAAA
15488026 AAAAAGAAAGAAAGGAGAAA
1 AAAAAGAAAGAAAGGAGAAA
15488046 GGGGAGGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAGAAAGGAGAAA
Found at i:15494075 original size:172 final size:170
Alignment explanation
Indices: 15493554--15495694 Score: 1091
Period size: 171 Copynumber: 12.6 Consensus size: 170
15493544 AACGGTTGTT
* * * * *
15493554 ACAAGGAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGG-CTAGTTACACTCTTTAAATGGTT
1 ACAAGAAAAGTCCATTTATATTCACTTATGCCTTCG-AAGGACTAGTTACTCGCTTTAAATGG-T
*
15493618 TTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTTCATTGTTGGTTAAAACATATCATAAT
64 TTATAATCTTATAAATGATTTTAAGTTGAA-TTTTTTTTCATTTTTGGTTAAAACATATCATAAT
* * ** * *
15493683 TAGATGTTCGCCTCAAGCAACATGAAGCGAAAGCCATCCATTG
128 TGGATGTTAGCCTCGGGAAACATGAAGCAAAAGCCATCCATTG
* * * * * *
15493726 ACAAAAAAAGTTCATTTATAATCA-TTCATGCCTTCGAAGGCCTAATTACTCGCTTTAAATAGTT
1 ACAAGAAAAGTCCATTTATATTCACTT-ATGCCTTCGAAGGACTAGTTACTCGCTTTAAAT-GGT
* ** * * *
15493790 TTATAA-CTTCAAAAATGATTTTAAGTTGAATTTTTTTTCATTTTTCATTCAAGCAGATCATAAT
64 TTATAATCTT-ATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACATATCATAAT
* ** * ** *
15493854 TGGAAGTTAGTTTCGAGAAATGTGAAGCAAATGCCATCCATTG
128 TGGATGTTAGCCTCGGGAAACATGAAGCAAAAGCCATCCATTG
* *
15493897 ACAAGAAAAGTCCATTTATATTCACTTATACCTTCGAAGGACTAGTTACTCGCTTTAAGTGGTTT
1 ACAAGAAAAGTCCATTTATATTCACTTATGCCTTCGAAGGACTAGTTACTCGCTTTAAATGGTTT
* * * * * * *
15493962 ATACTCTTGTAAATAATCTTATGTTGAATTTGTTTTTTCATTTTTGGCTAAAACATAACATAATT
66 ATAATCTTATAAATGATTTTAAGTTGAA-TT-TTTTTTCATTTTTGGTTAAAACATATCATAATT
* * *
15494027 GGATGCTAGCCTCGGGAATCATGAAGCAAAAGCCATCCATTA
129 GGATGTTAGCCTCGGGAAACATGAAGCAAAAGCCATCCATTG
* * * * *
15494069 ACAAGAAAAATCCATTTAT-TGTCGCTAATACCTTCGGAAGG--TAGTTACTCGCTTTAAATGAT
1 ACAAGAAAAGTCCATTTATAT-TCACTTATGCCTTC-GAAGGACTAGTTACTCGCTTTAAATG-G
* * * * * *
15494131 TTTATAATCATATAAATGATTTTAGGTTGATTTGTTTTTTCAGTTTTGGCTAAAACATATTATAA
63 TTTATAATCTTATAAATGATTTTAAGTTGAATT-TTTTTTCATTTTTGGTTAAAACATATCATAA
* * * *
15494196 TTGGATGTTTGCCTTGAGAAACATGAAGCAAAACCCAAT-CATTG
127 TTGGATGTTAGCCTCGGGAAACATGAAGCAAAAGCC-ATCCATTG
* * * * *
15494240 ACAAGAAAAGTCCATTTATAGTT-AGTTATGCCTTCAAAAGACTAGTTACTC-ATGTTAAGTGGT
1 ACAAGAAAAGTCCATTTATA-TTCACTTATGCCTTCGAAGGACTAGTTACTCGCT-TTAAATGG-
* * * * * *
15494303 TTTATAATCTTATGACTAATTTTAAGTTGAATTTTATTTCA-TTTAGGTTAAAACAGATCATAAT
63 TTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACATATCATAAT
*** * * * * **
15494367 TGGATGTTTTTCTCGAGAAACGTGAAGCGAAAGCCATCAATCA
128 TGGATGTTAGCCTCGGGAAACATGAAGCAAAAGCCATCCATTG
* * * * * *
15494410 ACAAGAAAAGTTCATTTAT-TATC-GTTGATGCCTTTGAAAGACTAGTTACTCTCTCTAAATGGT
1 ACAAGAAAAGTCCATTTATAT-TCACTT-ATGCCTTCGAAGGACTAGTTACTCGCTTTAAATGGT
* * * * *
15494473 TTCACAATCTTATCAATGATTTTAAGTTGAATTTTTTTTCATTTCTGATTAAAACATACCATAAT
64 TT-ATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACATATCATAAT
* * * ** * * *
15494538 TGGATGTTTGCC-CTGAGAAACGTGAAGTGAATGTCATCCATTT
128 TGGATGTTAGCCTC-GGGAAACATGAAGCAAAAGCCATCCATTG
* * * * * * * *** * * * *
15494581 TCAAGCAAAGTTCATTTATAGTCACTCACGCCTTCAAAACCCTAG-TACACACTTTAAGTGATAT
1 ACAAGAAAAGTCCATTTATATTCACTTATGCCTTCGAAGGACTAGTTACTCGCTTTAAATGGT-T
*** * ** * * *
15494645 TAAATTGAAT-TT-TTTTTCATTTTTTGTTAGAACATATAATATTTTGATGTTTGGCATTGGAAA
65 T--A-T-AATCTTATAAATGATTTTAAGTT-G-A-AT-T--TTTTTTCATTTTTGG--TT--AAA
* * * **
15494708 AC--A-CA-AA--GCGA---AAGCCATC----AA-TTG-A-CAAGAA-CAATAAAAGTT-
116 ACATATCATAATTG-GATGTTAGCC-TCGGGAAACATGAAGCAA-AAGCCAT-CCA-TTG
*** * * * * * ** * * * *
15494750 -CATTTATAGT-CATTCATGCCTTCA--GAAGCC-T--AATTACTCGCTTTAAATGGTTTTATAA
1 ACAAGAAAAGTCCATTTAT--ATTCACTTATGCCTTCGAAGGACTAG--TT-ACTCGCTTTA-AA
* * * ** * * *
15494808 T-CTTTCATATGAT-TT-T-AA-G--TTGAACCTT-TTT-----TTCATTTTTGGCTAAAAAAGA
60 TGGTTT-ATA--ATCTTATAAATGATTTTAA-GTTGAATTTTTTTTCATTTTTGGTTAAAACATA
* * ** **
15494860 TCATAATTGGACGTTAGCCTTGGGAAATGTGAAGTGAAAGCCATCCATTG
121 TCATAATTGGATGTTAGCCTCGGGAAACATGAAGCAAAAGCCATCCATTG
* * * * *
15494910 ACAAGAAAAGTCCATTTAT-TGTCAGC-AATGCCTTCGAAAGACTAGTTACTCACGTTAAAGGGT
1 ACAAGAAAAGTCCATTTATAT-TCA-CTTATGCCTTCGAAGGACTAGTTACTCGCTTTAAATGG-
* * * *
15494973 TTTATAATCTTATAAATGATTCTAAGTTGATTTTTTTTTCATTTTTTGTTAAAACAAATCATAAT
63 TTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACATATCATAAT
* * * * *
15495038 TAGATGTTTGCCTTC-AGAAACGTGAAGCAAAAGCCATCTATTG
128 TGGATGTTAGCC-TCGGGAAACATGAAGCAAAAGCCATCCATTG
** * * * * * * *
15495081 ACAAGAAAAGTCCATTTATGGTCACTTATGCTTTCAAAAGCCTAGTTACTCACTTTAAGTGATTT
1 ACAAGAAAAGTCCATTTATATTCACTTATGCCTTCGAAGGACTAGTTACTCGCTTTAAATGGTTT
* * * * * * * * *
15495146 -TACAACTTCAAAAAGGATTTTCATTTGAA-TTTTTTTCATTGTTGGCTAAAATAGATCATAATT
66 ATA-ATCTT-ATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACATATCATAATT
* * * ** *
15495209 GGATGTTTGTCTTGGGAAACATGAAGTGAAAGCCATCTATTG
129 GGATGTTAGCCTCGGGAAACATGAAGCAAAAGCCATCCATTG
* * * * *
15495251 ACAAGAAAAGTCCATTTATAGTCACTCATACCTTCAGAAGG-CTAGTCACTCCCTTTAAATGGTT
1 ACAAGAAAAGTCCATTTATATTCACTTATGCCTTC-GAAGGACTAGTTACTCGCTTTAAATGG-T
* * * * *
15495315 TTATAATCCTATAAATGATTTTAAGTTAAATTTTATTTT-A-GTTTGTGTTAAAACAGATCGTAA
64 TTATAATCTTATAAATGATTTTAAGTTGAATTTT-TTTTCATTTTTG-GTTAAAACATATCATAA
* ** * * * *
15495378 TTGGATAATT-GCCTCAAGAAACATGAAACGAAAGCCTTCCATCG
127 TTGGAT-GTTAGCCTCGGGAAACATGAAGCAAAAGCCATCCATTG
* * * ** ** * * * *
15495422 ACAAGTAAAGTCCATTTACATTTACTTACACCTTTAAAAGACTGGTTACTTGTTTTAAATGGTTT
1 ACAAGAAAAGTCCATTTATATTCACTTATGCCTTCGAAGGACTAGTTACTCGCTTTAAATGG-TT
* * *
15495487 TATAAT-TGTGTAAATGATTTTAAGTTGAATTTTTATTT-ATTTTTGGTTAAAACAGATCATAAA
65 TATAATCT-TATAAATGATTTTAAGTTGAATTTTT-TTTCATTTTTGGTTAAAACATATCATAAT
** * ** **
15495550 TGGATGTTTTCATTAGGAAATGTGAAGCAAAAGCCATCCATTG
128 TGGATGTTAGCCTCGGGAAACATGAAGCAAAAGCCATCCATTG
* * * * * * * *
15495593 ACAAGAAAGGTCTATTTATAGTCACTCATACCTTCGAAGGACTAATTACTCGTTTTAAATGCTTT
1 ACAAGAAAAGTCCATTTATATTCACTTATGCCTTCGAAGGACTAGTTACTCGCTTTAAATG-GTT
* *
15495658 TATCATCTTATCAATGATTTTAAGTTGAATTTTTTTT
65 TATAATCTTATAAATGATTTTAAGTTGAATTTTTTTT
15495695 TGAGAAAATA
Statistics
Matches: 1494, Mismatches: 357, Indels: 238
0.72 0.17 0.11
Matches are distributed among these distances:
147 4 0.00
149 2 0.00
150 2 0.00
151 11 0.01
152 2 0.00
153 1 0.00
154 1 0.00
155 4 0.00
158 2 0.00
159 6 0.00
160 9 0.01
161 14 0.01
162 21 0.01
163 10 0.01
164 7 0.00
165 9 0.01
166 12 0.01
167 13 0.01
168 16 0.01
169 20 0.01
170 316 0.21
171 710 0.48
172 256 0.17
173 10 0.01
174 7 0.00
175 2 0.00
176 3 0.00
177 2 0.00
178 12 0.01
179 2 0.00
180 3 0.00
182 5 0.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (170 bp):
ACAAGAAAAGTCCATTTATATTCACTTATGCCTTCGAAGGACTAGTTACTCGCTTTAAATGGTTT
ATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAACATATCATAATTGG
ATGTTAGCCTCGGGAAACATGAAGCAAAAGCCATCCATTG
Found at i:15494198 original size:343 final size:339
Alignment explanation
Indices: 15493554--15495695 Score: 1286
Period size: 341 Copynumber: 6.3 Consensus size: 339
15493544 AACGGTTGTT
* * * * *
15493554 ACAAGGAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGG-CTAGTTACACTCTTTAAATGGTT
1 ACAAGAAAAGTCCATTTATATTCACTTATGCCTTCG-AAGGACTAGTTACTC-CTTTAAGTGGTT
* *
15493618 TTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTTCATTGTTGGTTAAAACATATCATAAT
64 TTATAATCTTATAAATAATTTTAAGTTGAATTTTTTTTTCATTTTTGGTTAAAACATATCATAAT
* * * * * *
15493683 TAGATGTTCGCCTCAAGCAACATGAAGCGAAAGCCATCCATTGACAA-AAAAAGTTCATTTATAA
129 TGGATGTTAGCCTC-GGGAACATGAAGCGAAAGCCATCCATTAACAAGAAAAA-TTCATTTATTA
* * *
15493747 TCATTCATGCCTTC-GAAGGCCTAATTACTCGCTTTAAAT-AGTTTTATAACTTCA-A-AAATGA
192 TCGTTAATGCCTTCGGAAGG--TAGTTACTCGCTTTAAATGA-TTTTATAA--TCATATAAATGA
* * * * *
15493808 TTTTAAGTTGAATTTTTTTTCATTTTTCATTCAAGCAGATCATAATTGGAAGTTAG-TTTCGAGA
252 TTTTAAGTTGAATTTTTTTTCA-TTTTGATTAAAACATATCATAATTGGAAGTTAGCCTT-GAGA
** **
15493872 AATGTGAAGCAAATGCC-ATCCATTG
315 AACATGAAGCAAAACCCAAT-CATTG
*
15493897 ACAAGAAAAGTCCATTTATATTCACTTATACCTTCGAAGGACTAGTTACTCGCTTTAAGTGG-TT
1 ACAAGAAAAGTCCATTTATATTCACTTATGCCTTCGAAGGACTAGTTACTC-CTTTAAGTGGTTT
* * * * * *
15493961 TATACTCTTGTAAATAATCTTATGTTGAATTTGTTTTTTCATTTTTGGCTAAAACATAACATAAT
65 TATAATCTTATAAATAATTTTAAGTTGAATTT-TTTTTTCATTTTTGGTTAAAACATATCATAAT
* * * *
15494026 TGGATGCTAGCCTCGGGAATCATGAAGCAAAAGCCATCCATTAACAAGAAAAATCCATTTATTGT
129 TGGATGTTAGCCTCGGGAA-CATGAAGCGAAAGCCATCCATTAACAAGAAAAATTCATTTATTAT
* * *
15494091 CGCTAATACCTTCGGAAGGTAGTTACTCGCTTTAAATGATTTTATAATCATATAAATGATTTTAG
193 CGTTAATGCCTTCGGAAGGTAGTTACTCGCTTTAAATGATTTTATAATCATATAAATGATTTTAA
* ** * * *
15494156 GTTGATTTGTTTTTTCAGTTTTGGCTAAAACATATTATAATTGGATGTTTGCCTTGAGAAACATG
258 GTTGAATT-TTTTTTCA-TTTTGATTAAAACATATCATAATTGGAAGTTAGCCTTGAGAAACATG
15494221 AAGCAAAACCCAATCATTG
321 AAGCAAAACCCAATCATTG
* * * *
15494240 ACAAGAAAAGTCCATTTATAGTT-AGTTATGCCTTCAAAAGACTAGTTACTCATGTTAAGTGGTT
1 ACAAGAAAAGTCCATTTATA-TTCACTTATGCCTTCGAAGGACTAGTTACTCCT-TTAAGTGGTT
* * * * *
15494304 TTATAATCTTATGACTAATTTTAAGTTGAA-TTTTATTTCA-TTTAGGTTAAAACAGATCATAAT
64 TTATAATCTTATAAATAATTTTAAGTTGAATTTTTTTTTCATTTTTGGTTAAAACATATCATAAT
*** * * * * *
15494367 TGGATGTTTTTCTCGAGAAACGTGAAGCGAAAGCCATCAATCAACAAGAAAAGTTCATTTATTAT
129 TGGATGTTAGCCTCG-GGAACATGAAGCGAAAGCCATCCATTAACAAGAAAAATTCATTTATTAT
* * * * * * * * * * *
15494432 CGTTGATGCCTTTGAAAGACTAGTTACTCTCTCTAAATGGTTTCACAATCTTATCAATGATTTTA
193 CGTTAATGCCTTCGGAAG-GTAGTTACTCGCTTTAAATGATTTTATAATCATATAAATGATTTTA
* * * * *
15494497 AGTTGAATTTTTTTTCATTTCTGATTAAAACATACCATAATTGGATGTTTGCCCTGAGAAACGTG
257 AGTTGAATTTTTTTTCATTT-TGATTAAAACATATCATAATTGGAAGTTAGCCTTGAGAAACATG
** *** *
15494562 AAGTGAATGTC-ATCCATTT
321 AAGCAAAACCCAAT-CATTG
* * * * * *
15494581 TCAAGCAAAGTTCATTTATAGTCACTCACGCCTTC--A--A--A---AC-CC--T-A---G---T
1 ACAAGAAAAGTCCATTTATATTCACTTATGCCTTCGAAGGACTAGTTACTCCTTTAAGTGGTTTT
* * * * * * * * *
15494627 ACACA-CTT-TAAGTGATATTAAATTGAA-TTTTTTTTCATTTTTTGTTAGAACATATAATATTT
66 ATA-ATCTTATAAATAATTTTAAGTTGAATTTTTTTTTCATTTTTGGTTAAAACATATCATAATT
* * * * * ** * *
15494689 TGATGTTTGGCATTGGAAAACACAAAGCGAAAGCCATCAATTGACAAGAACAATAAAAGTTCATT
130 GGATG-TTAGCCTCGG-GAACATGAAGCGAAAGCCATCCATTAACAAG----A-AAAA-TTCATT
* * * * * * * *
15494754 TA-TAGTCATTCATGCCTTCAGAAGCCTAATTACTCGCTTTAAATGGTTTTATAATC-TTTCATA
187 TATTA-TCGTTAATGCCTTCGGAAG-GTAGTTACTCGCTTTAAATGATTTTATAATCATAT-AAA
* ** * * *
15494817 TGATTTTAAGTTGAACCTTTTTTTCATTTTTGGCTAAAAAAGATCATAATTGGACGTTAGCCTTG
249 TGATTTTAAGTTGAA-TTTTTTTTCA-TTTTGATTAAAACATATCATAATTGGAAGTTAGCCTTG
* ** ** *
15494882 GGAAATGTGAAGTGAAAGCC-ATCCATTG
312 AGAAACATGAAGCAAAACCCAAT-CATTG
* * *
15494910 ACAAGAAAAGTCCATTTAT-TGTCAGC-AATGCCTTCGAAAGACTAGTTACTCACGTTAAAG-GG
1 ACAAGAAAAGTCCATTTATAT-TCA-CTTATGCCTTCGAAGGACTAGTTACTC-C-TTTAAGTGG
* * * *
15494972 TTTTATAATCTTATAAATGATTCTAAGTTG-ATTTTTTTTTCATTTTTTGTTAAAACAAATCATA
62 TTTTATAATCTTATAAATAATTTTAAGTTGAATTTTTTTTTCATTTTTGGTTAAAACATATCATA
* * * * * * * * * * *
15495036 ATTAGATGTTTGCCTTCAGAAACGTGAAGCAAAAGCCATCTATTGACAAGAAAAGTCCATTTATG
127 ATTGGATGTTAGCC-TCGGGAACATGAAGCGAAAGCCATCCATTAACAAGAAAAATTCATTTATT
* * * ** * * * * *
15495101 GTCACTT-ATGCTTTCAAAAGCCTAGTTACTCACTTTAAGTGATTTTACAACTTCA-A-AAAGGA
191 ATC-GTTAATGCCTTCGGAAG-GTAGTTACTCGCTTTAAATGATTTTATAA--TCATATAAATGA
* * ** * * * * * *
15495163 TTTTCATTTGAA-TTTTTTTCATTGTTGGCTAAAATAGATCATAATTGGATGTTTGTCTTGGGAA
252 TTTTAAGTTGAATTTTTTTTCATT-TTGATTAAAACATATCATAATTGGAAGTTAGCCTTGAGAA
** *
15495227 ACATGAAGTGAAAGCC-ATCTATTG
316 ACATGAAGCAAAACCCAATC-ATTG
* * * * *
15495251 ACAAGAAAAGTCCATTTATAGTCACTCATACCTTCAGAAGG-CTAGTCACTCCCTTTAAATGGTT
1 ACAAGAAAAGTCCATTTATATTCACTTATGCCTTC-GAAGGACTAGTTACT-CCTTTAAGTGGTT
* * * * * * *
15495315 TTATAATCCTATAAATGATTTTAAGTTAAATTTTATTTT-A-GTTTGTGTTAAAACAGATCGTAA
64 TTATAATCTTATAAATAATTTTAAGTTGAATTTTTTTTTCATTTTTG-GTTAAAACATATCATAA
* * * * * ** * * *
15495378 TTGGATAATT-GCCTCAAGAAACATGAAACGAAAGCCTTCCATCGACAAGTAAAGTCCATTTACA
128 TTGGAT-GTTAGCCTC-GGGAACATGAAGCGAAAGCCATCCATTAACAAGAAAAATTCATTT--A
*** * * * * * ** *
15495442 TT-TAC-TTACA--CCTTTAAAAGACTGGTTACTTGTTTTAAATGGTTTTATAATTGTGTAAATG
189 TTAT-CGTTA-ATGCCTTCGGAAG-GTAGTTACTCGCTTTAAATGATTTTATAATCATATAAATG
* * * * ** *
15495503 ATTTTAAGTTGAATTTTTATTT-ATTTTTGGTTAAAACAGATCATAAATGGATGTTTTCATT-AG
251 ATTTTAAGTTGAATTTTT-TTTCA-TTTTGATTAAAACATATCATAATTGGAAGTTAGCCTTGA-
** *
15495566 GAAATGTGAAGCAAAAGCC-ATCCATTG
313 GAAACATGAAGCAAAACCCAAT-CATTG
* * * * * * * * *
15495593 ACAAGAAAGGTCTATTTATAGTCACTCATACCTTCGAAGGACTAATTACTCGTTTTAAATGCTTT
1 ACAAGAAAAGTCCATTTATATTCACTTATGCCTTCGAAGGACTAGTTACTC-CTTTAAGTGGTTT
* * *
15495658 TATCATCTTATCAATGATTTTAAGTTGAATTTTTTTTT
65 TATAATCTTATAAATAATTTTAAGTTGAATTTTTTTTT
15495696 GAGAAAATAT
Statistics
Matches: 1435, Mismatches: 275, Indels: 179
0.76 0.15 0.09
Matches are distributed among these distances:
320 23 0.02
321 29 0.02
322 31 0.02
324 1 0.00
326 1 0.00
327 8 0.01
328 65 0.05
329 85 0.06
330 4 0.00
331 2 0.00
332 2 0.00
333 1 0.00
335 2 0.00
337 1 0.00
338 2 0.00
339 3 0.00
340 23 0.02
341 411 0.29
342 291 0.20
343 311 0.22
344 47 0.03
345 3 0.00
346 1 0.00
348 1 0.00
349 37 0.03
350 50 0.03
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (339 bp):
ACAAGAAAAGTCCATTTATATTCACTTATGCCTTCGAAGGACTAGTTACTCCTTTAAGTGGTTTT
ATAATCTTATAAATAATTTTAAGTTGAATTTTTTTTTCATTTTTGGTTAAAACATATCATAATTG
GATGTTAGCCTCGGGAACATGAAGCGAAAGCCATCCATTAACAAGAAAAATTCATTTATTATCGT
TAATGCCTTCGGAAGGTAGTTACTCGCTTTAAATGATTTTATAATCATATAAATGATTTTAAGTT
GAATTTTTTTTCATTTTGATTAAAACATATCATAATTGGAAGTTAGCCTTGAGAAACATGAAGCA
AAACCCAATCATTG
Found at i:15494951 original size:500 final size:499
Alignment explanation
Indices: 15494240--15495143 Score: 1151
Period size: 500 Copynumber: 1.8 Consensus size: 499
15494230 CCAATCATTG
* * *
15494240 ACAAGAAAAGTCCATTTATAGTTAGTTATGCCTTCAAAAGACTAGTTACTCATGTTAAGTGGTTT
1 ACAAGAAAAGTCCATTTATAGTCAGTTATGCCTTCAAAAGACTAATTACTCATGTTAAATGGTTT
* *
15494305 TATAATCTTATGACTAATTTTAAGTTGAATTTTATTTCATTTAGGTTAAAACAGATCATAATTGG
66 TATAATCTTATGACTAATTTTAAGTTGAATTTTATTTCATTTAGGCTAAAAAAGATCATAATTGG
* *** *
15494370 ATGTTTTTCTCGAGAAACGTGAAGCGAAAGCCATCAATCAACAAGAAAAGTTCATTTATTATCGT
131 ACGTTAGCCTCGAGAAACGTGAAGCGAAAGCCATCAATCAACAAGAAAAGTCCATTTATTATCGT
** * * * * *
15494435 TGATGCCTTTGAAAGACTAGTTACTCTC-TCTAAATGGTTTCACAATCTTATCAATGATTTTAAG
196 CAATGCCTTCGAAAGACTAGTTACTCACGT-TAAAGGGTTTCACAATCTTATAAATGATTCTAAG
* * *
15494499 TTGAATTTTTTTTCA-TTTCTGATTAAAACATACCATAATTGGATGTTTGCCCTGAGAAACGTGA
260 TTGAATTTTTTTTCATTTTCTG-TTAAAACAAACCATAATTAGATGTTTGCCCTCAGAAACGTGA
** * * ** * *
15494563 AGTGAATGTCATCCATTTTCAAGCAAAGTTCATTTATAGTCACTCACGCCTTCAAAACCCTAG-T
324 AGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCACGCCTTCAAAACCCTAGTT
15494627 ACACACTTTAAGTGATATTAAATTGAATTTTTTTTCATTTTTTGTTAGAACATATAATATTTTGA
389 ACACACTTTAAGTGATATTAAATTGAATTTTTTTTCATTTTTTGTTAGAACATATAATATTTTGA
15494692 TGTTTGGCATTGGAAAACACAAAGCGAAAGCCATCAATTGACAAGA
454 TGTTTGGCATTGGAAAACACAAAGCGAAAGCCATCAATTGACAAGA
* * * * *
15494738 ACAATAAAAGTTCATTTATAGTCA-TTCATGCCTTCAGAAGCCTAATTACTCGCT-TTAAATGGT
1 ACAAGAAAAGTCCATTTATAGTCAGTT-ATGCCTTCAAAAGACTAATTACTC-ATGTTAAATGGT
* *
15494801 TTTATAATCTTTCAT-A-TGATTTTAAGTTGAACCTTTT-TTTCATTTTTGGCTAAAAAAGATCA
64 TTTATAATC-TT-ATGACTAATTTTAAGTTGAA--TTTTATTTCA-TTTAGGCTAAAAAAGATCA
* * * * * **
15494863 TAATTGGACGTTAGCCTTGGGAAATGTGAAGTGAAAGCCATCCATTGACAAGAAAAGTCCATTTA
124 TAATTGGACGTTAGCCTCGAGAAACGTGAAGCGAAAGCCATCAATCAACAAGAAAAGTCCATTTA
* * *
15494928 TTGTCAG-CAATGCCTTCGAAAGACTAGTTACTCACGTTAAAGGGTTTTATAATCTTATAAATGA
189 TTATC-GTCAATGCCTTCGAAAGACTAGTTACTCACGTTAAAGGGTTTCACAATCTTATAAATGA
* * * *
15494992 TTCTAAGTTGATTTTTTTTTCATTTTTTGTTAAAACAAATCATAATTAGATGTTTGCCTTCAGAA
253 TTCTAAGTTGAATTTTTTTTCATTTTCTGTTAAAACAAACCATAATTAGATGTTTGCCCTCAGAA
* * * * * *
15495057 ACGTGAAGCAAAAGCCATCTATTGACAAGAAAAGTCCATTTATGGTCACTTATGCTTTCAAAAGC
318 ACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCACGCCTTCAAAACC
*
15495122 CTAGTTACTCACTTTAAGTGAT
383 CTAGTTACACACTTTAAGTGAT
15495144 TTTACAACTT
Statistics
Matches: 339, Mismatches: 56, Indels: 19
0.82 0.14 0.05
Matches are distributed among these distances:
497 2 0.01
498 73 0.22
499 9 0.03
500 232 0.68
501 23 0.07
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (499 bp):
ACAAGAAAAGTCCATTTATAGTCAGTTATGCCTTCAAAAGACTAATTACTCATGTTAAATGGTTT
TATAATCTTATGACTAATTTTAAGTTGAATTTTATTTCATTTAGGCTAAAAAAGATCATAATTGG
ACGTTAGCCTCGAGAAACGTGAAGCGAAAGCCATCAATCAACAAGAAAAGTCCATTTATTATCGT
CAATGCCTTCGAAAGACTAGTTACTCACGTTAAAGGGTTTCACAATCTTATAAATGATTCTAAGT
TGAATTTTTTTTCATTTTCTGTTAAAACAAACCATAATTAGATGTTTGCCCTCAGAAACGTGAAG
CAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCACGCCTTCAAAACCCTAGTTAC
ACACTTTAAGTGATATTAAATTGAATTTTTTTTCATTTTTTGTTAGAACATATAATATTTTGATG
TTTGGCATTGGAAAACACAAAGCGAAAGCCATCAATTGACAAGA
Found at i:15503881 original size:20 final size:20
Alignment explanation
Indices: 15503856--15503901 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
15503846 TTTTGACCCC
15503856 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
15503876 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
15503896 ATTTGA
1 ATTTGA
15503902 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:15506820 original size:13 final size:13
Alignment explanation
Indices: 15506796--15506829 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15506786 TAATTGCCAA
*
15506796 TTAATCAAATAAT
1 TTAATTAAATAAT
*
15506809 TTGATTAAATAAT
1 TTAATTAAATAAT
15506822 TTAATTAA
1 TTAATTAA
15506830 GTCCTTAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (13 bp):
TTAATTAAATAAT
Found at i:15506891 original size:35 final size:35
Alignment explanation
Indices: 15506841--15507075 Score: 244
Period size: 35 Copynumber: 6.7 Consensus size: 35
15506831 TCCTTAAGAA
*
15506841 GCCCAATTAACTTAATTAAACAATTTAATTAATTAA
1 GCCCAA-TAACTTAATTAAACAATTTAATTAATTAG
* * * * *
15506877 GCCGAACAATTTAATTAAACAATTTTAATCAACTAG
1 GCCCAATAACTTAATTAAACAA-TTTAATTAATTAG
* * * *
15506913 GCCTAATGACTTAATTAAACAAATTTAGTCAATTAG
1 GCCCAATAACTTAATTAAAC-AATTTAATTAATTAG
****
15506949 GCCCAATAACTTAATTGTTTAATTTAATTAATTAG
1 GCCCAATAACTTAATTAAACAATTTAATTAATTAG
* *
15506984 GCCCAATGACTTAATTAAACAAATTAATTAATTAG
1 GCCCAATAACTTAATTAAACAATTTAATTAATTAG
* *
15507019 GCCCAATGA-TTCAATTAAACAATTTAGTTAATTAG
1 GCCCAATAACTT-AATTAAACAATTTAATTAATTAG
15507054 GCCC---AACTTAATTAAACAATTT
1 GCCCAATAACTTAATTAAACAATTT
15507076 TAATCAAGTG
Statistics
Matches: 166, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
32 14 0.08
33 2 0.01
34 2 0.01
35 90 0.54
36 56 0.34
37 2 0.01
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (35 bp):
GCCCAATAACTTAATTAAACAATTTAATTAATTAG
Found at i:15506999 original size:18 final size:18
Alignment explanation
Indices: 15506974--15507027 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
15506964 TGTTTAATTT
15506974 AATTAATTAGGCCCAATG
1 AATTAATTAGGCCCAATG
* ** * *
15506992 ACTTAATTA-AACAAATT
1 AATTAATTAGGCCCAATG
15507009 AATTAATTAGGCCCAATG
1 AATTAATTAGGCCCAATG
15507027 A
1 A
15507028 TTCAATTAAA
Statistics
Matches: 25, Mismatches: 10, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (18 bp):
AATTAATTAGGCCCAATG
Found at i:15510687 original size:35 final size:35
Alignment explanation
Indices: 15510639--15510886 Score: 243
Period size: 35 Copynumber: 7.1 Consensus size: 35
15510629 CTTAATTGTT
*
15510639 AATTTAATCAATTAGGCCTAATAACTTAATTAAAC
1 AATTTAATTAATTAGGCCTAATAACTTAATTAAAC
* * * *
15510674 AATTTAATTAATTAAGCCGAACAATTTAATTAAAC
1 AATTTAATTAATTAGGCCTAATAACTTAATTAAAC
* * *
15510709 AATTTTAATCAATTAGGCCCAATGACTTAATTAAAC
1 AA-TTTAATTAATTAGGCCTAATAACTTAATTAAAC
* * ****
15510745 AAATTTAATCAATTAGGCCCAATAACTTAATTGTTT
1 -AATTTAATTAATTAGGCCTAATAACTTAATTAAAC
* *
15510781 AATTTAATT-ATTAGGCTTAATGACTTAATTAAAC
1 AATTTAATTAATTAGGCCTAATAACTTAATTAAAC
* * * * *
15510815 AATCTAATTAATTAGACCTAATGATTTAATTAAAT
1 AATTTAATTAATTAGGCCTAATAACTTAATTAAAC
*
15510850 AATTTAATTAATTAGG-C--ACAACTTAATTAAAC
1 AATTTAATTAATTAGGCCTAATAACTTAATTAAAC
*
15510882 CATTT
1 AATTT
15510887 TAATCAAGTG
Statistics
Matches: 174, Mismatches: 36, Indels: 9
0.79 0.16 0.04
Matches are distributed among these distances:
32 15 0.09
34 27 0.16
35 75 0.43
36 55 0.32
37 2 0.01
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (35 bp):
AATTTAATTAATTAGGCCTAATAACTTAATTAAAC
Found at i:15510778 original size:141 final size:138
Alignment explanation
Indices: 15510619--15510893 Score: 367
Period size: 141 Copynumber: 2.0 Consensus size: 138
15510609 TCCTTAAGAA
*
15510619 GCCCAATTAACTTAATTG-TTAATTTAATCAATTAGGCCTAATAACTTAATTAAACAATTTAATT
1 GCCCAATTAACTTAATTGTTTAATTTAAT-AATTAGGCCTAATAACTTAATTAAACAATCTAATT
*
15510683 AATTA-AGCCGAACAATTTAATTAAACAATTTTAATCAATTAGGCCCAATGACTTAATTAAACAA
65 AATTAGA-CCGAACAATTTAATTAAACAA-TTTAATCAATTAGGCAC-A--ACTTAATTAAACAA
15510747 ATTTAATCAATTAG
125 ATTTAATCAATTAG
* * *
15510761 GCCCAA-TAACTTAATTGTTTAATTTAATTATTAGGCTTAATGACTTAATTAAACAATCTAATTA
1 GCCCAATTAACTTAATTGTTTAATTTAATAATTAGGCCTAATAACTTAATTAAACAATCTAATTA
* ** * * * *
15510825 ATTAGACCTAATGATTTAATTAAATAATTTAATTAATTAGGCACAACTTAATTAAACCATTTTAA
66 ATTAGACCGAACAATTTAATTAAACAATTTAATCAATTAGGCACAACTTAATTAAACAAATTTAA
15510890 TCAA
131 TCAA
15510894 GTGCTTGAGA
Statistics
Matches: 119, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
137 22 0.18
139 1 0.01
140 15 0.13
141 64 0.54
142 17 0.14
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (138 bp):
GCCCAATTAACTTAATTGTTTAATTTAATAATTAGGCCTAATAACTTAATTAAACAATCTAATTA
ATTAGACCGAACAATTTAATTAAACAATTTAATCAATTAGGCACAACTTAATTAAACAAATTTAA
TCAATTAG
Found at i:15513724 original size:35 final size:35
Alignment explanation
Indices: 15513685--15513828 Score: 173
Period size: 35 Copynumber: 4.1 Consensus size: 35
15513675 CTTACTCAGC
*
15513685 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
1 TCATGTGCACTCCCTACACACACAAGGCAATATCA
15513720 TCATGTGCACTCCCTACACACACAAGGCAATATCA
1 TCATGTGCACTCCCTACACACACAAGGCAATATCA
* ***
15513755 TCATGTGCACT-TCTACACACACATTTCAATATATCA
1 TCATGTGCACTCCCTACACACACAAGGC-A-ATATCA
* * ***
15513791 TCATGTGCACTCGCTACACGCACATTTCAATATCA
1 TCATGTGCACTCCCTACACACACAAGGCAATATCA
15513826 TCA
1 TCA
15513829 CAGGCACTCC
Statistics
Matches: 99, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
34 12 0.12
35 55 0.56
36 18 0.18
37 14 0.14
ACGTcount: A:0.32, C:0.32, G:0.10, T:0.26
Consensus pattern (35 bp):
TCATGTGCACTCCCTACACACACAAGGCAATATCA
Found at i:15520485 original size:35 final size:35
Alignment explanation
Indices: 15520419--15520528 Score: 121
Period size: 35 Copynumber: 3.1 Consensus size: 35
15520409 CTTACTCAGC
* ***
15520419 TCATGTGCACTCCTTACACGCACAAGGCAATAACA
1 TCATGTGCACTCCCTACACGCACATTTCAATAACA
*
15520454 TCATGTGCACTCCCTACACCCACATTTCAATATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATA-A-CA
* * * *
15520491 TCATGTGCATTACCTACATGCACATTTCAATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATAACA
15520526 TCA
1 TCA
15520529 CACGCACTCC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
35 32 0.51
36 1 0.02
37 30 0.48
ACGTcount: A:0.32, C:0.31, G:0.09, T:0.28
Consensus pattern (35 bp):
TCATGTGCACTCCCTACACGCACATTTCAATAACA
Found at i:15520507 original size:37 final size:38
Alignment explanation
Indices: 15520452--15520528 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 38
15520442 AAGGCAATAA
*
15520452 CATCATGTGCACTCCCTACACCCACATTTCAATAT-AT
1 CATCATGTGCACTACCTACACCCACATTTCAATATCAT
* **
15520489 CATCATGTGCATTACCTACATGCACATTTCAATATCAT
1 CATCATGTGCACTACCTACACCCACATTTCAATATCAT
15520527 CA
1 CA
15520529 CACGCACTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
37 31 0.89
38 4 0.11
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (38 bp):
CATCATGTGCACTACCTACACCCACATTTCAATATCAT
Found at i:15521706 original size:13 final size:11
Alignment explanation
Indices: 15521664--15521738 Score: 54
Period size: 11 Copynumber: 7.2 Consensus size: 11
15521654 AACCAAGCTT
15521664 TTTCATCCTTTC
1 TTTC-TCCTTTC
* *
15521676 TCTCT-TTTTC
1 TTTCTCCTTTC
15521686 TTTCTCCTTTC
1 TTTCTCCTTTC
* *
15521697 TTTCT--ATCC
1 TTTCTCCTTTC
15521706 TTTCTCCTTTC
1 TTTCTCCTTTC
15521717 -TT-T-CTTTC
1 TTTCTCCTTTC
15521725 TTTTCTCCTTTC
1 -TTTCTCCTTTC
15521737 TT
1 TT
15521739 CCAACTGATC
Statistics
Matches: 48, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
8 5 0.10
9 8 0.17
10 12 0.25
11 15 0.31
12 8 0.17
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTCTCCTTTC
Found at i:15521710 original size:20 final size:20
Alignment explanation
Indices: 15521685--15521738 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
15521675 CTCTCTTTTT
15521685 CTTTCTCCTTTCTTTCTATC
1 CTTTCTCCTTTCTTTCTATC
*
15521705 CTTTCTCCTTTCTTTCTTTC
1 CTTTCTCCTTTCTTTCTATC
*
15521725 TTTTCTCCTTTCTT
1 CTTTCTCCTTTCTT
15521739 CCAACTGATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (20 bp):
CTTTCTCCTTTCTTTCTATC
Found at i:15526595 original size:19 final size:19
Alignment explanation
Indices: 15526546--15526595 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
15526536 GCTATAAATA
* *
15526546 TCTTCTCCTTCCAGCAGCT
1 TCTTCTTCTTCCAGCAACT
*
15526565 TCTTCAAT-TTCCAGCAACT
1 TCTTC-TTCTTCCAGCAACT
15526584 TCTTCTTCTTCC
1 TCTTCTTCTTCC
15526596 TCCTTCCATC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.14, C:0.38, G:0.06, T:0.42
Consensus pattern (19 bp):
TCTTCTTCTTCCAGCAACT
Found at i:15527412 original size:12 final size:14
Alignment explanation
Indices: 15527367--15527414 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
15527357 ACATATATAT
*
15527367 ATATATATATA-TA
1 ATATATATATACGA
15527380 TATATATATATACGA
1 -ATATATATATACGA
15527395 ATATATATATACGA
1 ATATATATATACGA
15527409 ATATAT
1 ATATAT
15527415 GTTGTACATG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 31 0.97
15 1 0.03
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (14 bp):
ATATATATATACGA
Found at i:15527414 original size:2 final size:2
Alignment explanation
Indices: 15527349--15527405 Score: 71
Period size: 2 Copynumber: 28.5 Consensus size: 2
15527339 CGTTATGTTG
* *
15527349 AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
15527391 ACG A- AT AT AT AT AT A
1 A-T AT AT AT AT AT AT A
15527406 CGAATATATG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
1 1 0.02
2 46 0.96
3 1 0.02
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:15527513 original size:42 final size:41
Alignment explanation
Indices: 15527450--15527611 Score: 207
Period size: 42 Copynumber: 3.9 Consensus size: 41
15527440 ATGATGATAT
* *
15527450 TGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGTCGATGC
1 TGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAG-CGATGC
** * *
15527492 TGACCCCCCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGC
1 TGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAG-CGATGC
* * *
15527534 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCATTGC
1 TGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAGCGA-TGC
*
15527576 TGACCTAGCTATGTGCGAGTAGGAGTGCGCATAAGC
1 TGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAGC
15527612 TGTTGCATAT
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 1 0.01
42 103 0.99
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.22
Consensus pattern (41 bp):
TGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAGCGATGC
Found at i:15527591 original size:84 final size:84
Alignment explanation
Indices: 15527450--15527617 Score: 248
Period size: 84 Copynumber: 2.0 Consensus size: 84
15527440 ATGATGATAT
* *
15527450 TGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGTCGATGCTGACCCCCCTATGTGCGAGTAGG
1 TGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGTCCATGCTGACCCACCTATGTGCGAGTAGG
15527515 AGTGCACATAAGCCGTTGC
66 AGTGCACATAAGCCGTTGC
* * * *
15527534 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAG-CCATTGCTGACCTAGCTATGTGCGAGTAG
1 TGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGTCCA-TGCTGACCCACCTATGTGCGAGTAG
* *
15527598 GAGTGCGCATAAGCTGTTGC
65 GAGTGCACATAAGCCGTTGC
15527618 ATATGAGCTG
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
83 2 0.03
84 73 0.97
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (84 bp):
TGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGTCCATGCTGACCCACCTATGTGCGAGTAGG
AGTGCACATAAGCCGTTGC
Found at i:15541257 original size:54 final size:54
Alignment explanation
Indices: 15541175--15541321 Score: 195
Period size: 54 Copynumber: 2.7 Consensus size: 54
15541165 ACACGATGAT
* * * *
15541175 TCCGGCTATGTGCATGATGTGGCGGGATGCACATAAGCTAGTTAAGATGGGGTG
1 TCCGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTAGGTAAGATGGGGTG
* * *
15541229 TCCGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGTTG
1 TCCGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTAGGTAAGATGGGGTG
* * * *
15541283 TCTGGCTGTGTGCACTATGTGGGGGAATGCACATGAGCT
1 TCCGGCTATGTGCACGATGTGGGGGGATGCACATGAGCT
15541322 GGATGAGATG
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.19, C:0.16, G:0.39, T:0.26
Consensus pattern (54 bp):
TCCGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTAGGTAAGATGGGGTG
Found at i:15544215 original size:68 final size:68
Alignment explanation
Indices: 15544085--15544229 Score: 186
Period size: 68 Copynumber: 2.1 Consensus size: 68
15544075 TTTGGCTACT
* * * *
15544085 GAAAATT-GAGCTGTTTGTTGCCAATTTGTGTAGAAAAATTGGAGCTGTTTGCTACCAATTTGTG
1 GAAAATTGGAGCTGTTTGCTGCCAATATGTGCAGAAAAATTGGAGCTATTTGCTACCAATTTGTG
15544149 C-A
66 CAA
*** *
15544151 GAAAAATTGGAGCTGTTTGCTGCCAATATGTGCAGAAAAATTGGAGCTATTTGCTGGTAGTTTGT
1 G-AAAATTGGAGCTGTTTGCTGCCAATATGTGCAGAAAAATTGGAGCTATTTGCTACCAATTTGT
*
15544216 GTAA
65 GCAA
15544220 GAAAATTGGA
1 GAAAATTGGA
15544230 CAGCATTGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
66 1 0.01
67 6 0.09
68 58 0.87
69 2 0.03
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (68 bp):
GAAAATTGGAGCTGTTTGCTGCCAATATGTGCAGAAAAATTGGAGCTATTTGCTACCAATTTGTG
CAA
Found at i:15544229 original size:34 final size:34
Alignment explanation
Indices: 15544086--15544206 Score: 190
Period size: 34 Copynumber: 3.6 Consensus size: 34
15544076 TTGGCTACTG
* *
15544086 AAAATT-GAGCTGTTTGTTGCCAATTTGTGTAGA
1 AAAATTGGAGCTGTTTGCTGCCAATTTGTGCAGA
*
15544119 AAAATTGGAGCTGTTTGCTACCAATTTGTGCAGA
1 AAAATTGGAGCTGTTTGCTGCCAATTTGTGCAGA
*
15544153 AAAATTGGAGCTGTTTGCTGCCAATATGTGCAGA
1 AAAATTGGAGCTGTTTGCTGCCAATTTGTGCAGA
*
15544187 AAAATTGGAGCTATTTGCTG
1 AAAATTGGAGCTGTTTGCTG
15544207 GTAGTTTGTG
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
33 6 0.07
34 75 0.93
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (34 bp):
AAAATTGGAGCTGTTTGCTGCCAATTTGTGCAGA
Found at i:15544372 original size:6 final size:6
Alignment explanation
Indices: 15544361--15544392 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
15544351 TGGATGAGAG
*
15544361 AAAGAA AAAGAA AAAGAA AAAGAA ATAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AA
15544393 TAAATGGGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (6 bp):
AAAGAA
Found at i:15544414 original size:25 final size:25
Alignment explanation
Indices: 15544384--15544446 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
15544374 AAGAAAAAGA
*
15544384 AATAGAAAATAAATGGGCATGACCT
1 AATAGAAAATAAATGGGCATGACCC
* *
15544409 AATAGAAAATAAGTGGGCATGGCCC
1 AATAGAAAATAAATGGGCATGACCC
*
15544434 AATAGGAAATAAA
1 AATAGAAAATAAA
15544447 AATAAATGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.17
Consensus pattern (25 bp):
AATAGAAAATAAATGGGCATGACCC
Found at i:15547395 original size:36 final size:36
Alignment explanation
Indices: 15547355--15547427 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
15547345 GTATATGCTT
*
15547355 TAACACCCTAGGAGGCCCAAACATCCAATGTAGTGG
1 TAACACCCTAGGAGGCCCAAACATCCAATGCAGTGG
15547391 TAACACCCTAGGAGGCCCAAACATCCAATGCAGTGG
1 TAACACCCTAGGAGGCCCAAACATCCAATGCAGTGG
15547427 T
1 T
15547428 TTCAGGTACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (36 bp):
TAACACCCTAGGAGGCCCAAACATCCAATGCAGTGG
Found at i:15553250 original size:43 final size:43
Alignment explanation
Indices: 15553176--15553294 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 43
15553166 TCACCAACTC
* ** *
15553176 ATGCGCACTCCCTACTCGCACAT-GGCTGAGTCATCACCGGGTT
1 ATGCACACTCCCTACTCGCACATAATC-GAGTCATCACCGGCTT
*** ***
15553219 ATGCACACTTTTTACTCGCACATAATCGAGTCATCTTTGGCTT
1 ATGCACACTCCCTACTCGCACATAATCGAGTCATCACCGGCTT
* *
15553262 ATGCGCACTCCCTACTCGCACATAGTCGAGTCA
1 ATGCACACTCCCTACTCGCACATAATCGAGTCA
15553295 ATGTCATTAC
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
43 59 0.98
44 1 0.02
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCACACTCCCTACTCGCACATAATCGAGTCATCACCGGCTT
Found at i:15554606 original size:40 final size:39
Alignment explanation
Indices: 15554561--15554665 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 39
15554551 TGGCATTAAC
*
15554561 TGTGCACGATGTGGAGGGATGCACACAATGATTCCGACTA
1 TGTGCACGATGTGG-GGGATGCACACAATGATTACGACTA
* *
15554601 TGTGCACGATGTGGGGAGATGCACACGATGATTACGGCTA
1 TGTGCACGATGTGGGG-GATGCACACAATGATTACGACTA
* *
15554641 TCTGCTCGATGTGGGGGGATGCACA
1 TGTGCACGATGT-GGGGGATGCACA
15554666 TGAGTTGGTT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
39 2 0.03
40 52 0.90
41 4 0.07
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGATGCACACAATGATTACGACTA
Found at i:15554713 original size:54 final size:52
Alignment explanation
Indices: 15554638--15554797 Score: 167
Period size: 54 Copynumber: 3.0 Consensus size: 52
15554628 ATGATTACGG
* *
15554638 CTATCTGCTCGATGTGGGGGGATGCACATGAGTTGGTTGAGATGGGGTGTCCGA
1 CTATGTGCACGATGT-GGGGGATGCACATGAGTTGG-TGAGATGGGGTGTCCGA
* * * *
15554692 CTATGTGCATGATGTAGGGGGATGCACATGAGCTAGGTGAGATGGGATGTCCAA
1 CTATGTGCACGATGT-GGGGGATGCACATGAG-TTGGTGAGATGGGGTGTCCGA
* * * * * *
15554746 CTATGTGCACGATATGGGAGATGCACATAAGCTGGGTGATATAGGGTGTCCG
1 CTATGTGCACGATGTGGGGGATGCACATGAG-TTGGTGAGATGGGGTGTCCG
15554798 GTTGTGTGTG
Statistics
Matches: 89, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
53 30 0.34
54 56 0.63
55 3 0.03
ACGTcount: A:0.23, C:0.14, G:0.38, T:0.26
Consensus pattern (52 bp):
CTATGTGCACGATGTGGGGGATGCACATGAGTTGGTGAGATGGGGTGTCCGA
Found at i:15567119 original size:43 final size:43
Alignment explanation
Indices: 15567071--15567193 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
15567061 GTGTGATAAC
*
15567071 GATGACTCAGCTATGTGCGATGT-GGGAGTGCACATGAG-CTAAT
1 GATGACTCGGCTATGTGCGA-GTAGGGAGTGCACATGAGTC-AAT
* * * *
15567114 GATGACTTGGCGATGTGCGAGTAGGGAGTGCGCATAAGTCAAT
1 GATGACTCGGCTATGTGCGAGTAGGGAGTGCACATGAGTCAAT
* * * *
15567157 GATGACCCGGTTAGGTGCGGGTAGGGAGTGCACATGA
1 GATGACTCGGCTATGTGCGAGTAGGGAGTGCACATGA
15567194 CGATGAATGA
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 2 0.03
43 62 0.95
44 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.23
Consensus pattern (43 bp):
GATGACTCGGCTATGTGCGAGTAGGGAGTGCACATGAGTCAAT
Found at i:15569639 original size:42 final size:42
Alignment explanation
Indices: 15569592--15569685 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
15569582 CTCCCCACTA
* * * *
15569592 GCACATGGCTGGGTCATCATCGGCT-TATGCACACTTCTACTC
1 GCACATAGCTGGGTCATAATCGG-TGTATGCACACTACGACTC
*
15569634 GCACATAGCTGGGTCATAATCGGTGTATGCGCACTACGACTC
1 GCACATAGCTGGGTCATAATCGGTGTATGCACACTACGACTC
15569676 GCACATAGCT
1 GCACATAGCT
15569686 AAGTCCACAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 45 0.98
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (42 bp):
GCACATAGCTGGGTCATAATCGGTGTATGCACACTACGACTC
Found at i:15578491 original size:28 final size:28
Alignment explanation
Indices: 15578460--15578612 Score: 132
Period size: 28 Copynumber: 5.3 Consensus size: 28
15578450 TAAGACAAAA
*
15578460 AAATAT-TTTATCTTGTCTAAATTGAGAC
1 AAATATGTTT-TCTTGTCTAAATTAAGAC
**
15578488 AAATATGTTTTCTTAACTAAATTAAGAC
1 AAATATGTTTTCTTGTCTAAATTAAGAC
* *
15578516 AAAAAATAT-TTTTCTT-ACATTAAATTAAGGC
1 ---AAATATGTTTTCTTGTC--TAAATTAAGAC
* *
15578547 AAACATATTTTCTTGTCTAAATTAAGACC
1 AAATATGTTTTCTTGTCTAAATTAAGA-C
* *
15578576 GAACATGTTTTCTTGTCTAAATTAAGAC
1 AAATATGTTTTCTTGTCTAAATTAAGAC
*
15578604 AAACATGTT
1 AAATATGTT
15578613 GATGCTGCTA
Statistics
Matches: 106, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
28 44 0.42
29 38 0.36
30 8 0.08
31 16 0.15
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (28 bp):
AAATATGTTTTCTTGTCTAAATTAAGAC
Found at i:15578540 original size:59 final size:60
Alignment explanation
Indices: 15578447--15578609 Score: 158
Period size: 59 Copynumber: 2.8 Consensus size: 60
15578437 TCTTATCTGT
* * * *
15578447 AATTAAGACAAAAAAATATTTTATCTTGTCTAAATTGAGACAAATATGTTTTCTTAACTA
1 AATTAAGACAAAAAAATATTTTATCTTATCTAAATTAAGACAAACATATTTTCTTAACTA
* **
15578507 AATTAAGAC-AAAAAATATTTT-TCTTA-CATTAAATTAAGGCAAACATATTTTCTTGTCTA
1 AATTAAGACAAAAAAATATTTTATCTTATC--TAAATTAAGACAAACATATTTTCTTAACTA
** * * *
15578566 AATTAAGAC-CGAACAT-GTTT-TCTTGTCTAAATTAAGACAAACAT
1 AATTAAGACAAAAAAATATTTTATCTTATCTAAATTAAGACAAACAT
15578610 GTTGATGCTG
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
57 17 0.20
58 11 0.13
59 50 0.57
60 9 0.10
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (60 bp):
AATTAAGACAAAAAAATATTTTATCTTATCTAAATTAAGACAAACATATTTTCTTAACTA
Found at i:15578580 original size:29 final size:29
Alignment explanation
Indices: 15578447--15578609 Score: 127
Period size: 29 Copynumber: 5.6 Consensus size: 29
15578437 TCTTATCTGT
* *
15578447 AATTAAGACAAAAAAATATTTTATCTTGTCTA
1 AATTAAGAC-CAAACATA-TTT-TCTTGTCTA
* * * **
15578479 AATTGAGA-CAAATATGTTTTCTTAACTA
1 AATTAAGACCAAACATATTTTCTTGTCTA
* * *
15578507 AATTAAGACAAAAAATATTTTTCTT-ACATTA
1 AATTAAGACCAAACATA-TTTTCTTGTC--TA
*
15578538 AATTAAG-GCAAACATATTTTCTTGTCTA
1 AATTAAGACCAAACATATTTTCTTGTCTA
* *
15578566 AATTAAGACCGAACATGTTTTCTTGTCTA
1 AATTAAGACCAAACATATTTTCTTGTCTA
15578595 AATTAAGA-CAAACAT
1 AATTAAGACCAAACAT
15578610 GTTGATGCTG
Statistics
Matches: 107, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
28 29 0.27
29 43 0.40
30 19 0.18
31 9 0.08
32 7 0.07
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (29 bp):
AATTAAGACCAAACATATTTTCTTGTCTA
Found at i:15582840 original size:2 final size:2
Alignment explanation
Indices: 15582835--15582866 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
15582825 ATGTGCAAAC
*
15582835 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15582867 CCATCACCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15582983 original size:42 final size:42
Alignment explanation
Indices: 15582920--15583018 Score: 108
Period size: 42 Copynumber: 2.4 Consensus size: 42
15582910 CTACCCACTA
* * ** * *
15582920 GCACATGGCTGGGTCAGCATCGGCTTATGCGTACTCTTACTC
1 GCACATAGCCGGGTCAGCATCGGAGTATGCGCACTCCTACTC
* * *
15582962 GCACATAGCCGGGTCATCATCGGAGTATGCGCACTCCTATTT
1 GCACATAGCCGGGTCAGCATCGGAGTATGCGCACTCCTACTC
*
15583004 GCACATAGTCGGGTC
1 GCACATAGCCGGGTC
15583019 CACATCAACA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (42 bp):
GCACATAGCCGGGTCAGCATCGGAGTATGCGCACTCCTACTC
Found at i:15591269 original size:38 final size:40
Alignment explanation
Indices: 15591227--15591329 Score: 133
Period size: 38 Copynumber: 2.6 Consensus size: 40
15591217 ATAGTGCCCG
15591227 TGTGCACGATGTGGGGGGATGTACACGAT-G-G-CA-CTGA
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGCCAGCT-A
* *
15591264 TTGTGCACAATGTGGGGGGATGCACACGATGGTGCCAGCTA
1 -TGTGCACGATGTGGGGGGATGTACACGATGGTGCCAGCTA
*
15591305 TGTGCATGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
15591330 TGAGTCGGGT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
38 27 0.48
39 1 0.02
40 23 0.41
41 3 0.05
42 2 0.04
ACGTcount: A:0.21, C:0.16, G:0.40, T:0.23
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGTGCCAGCTA
Found at i:15602631 original size:11 final size:12
Alignment explanation
Indices: 15602602--15602636 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
15602592 GTTCCACCCG
*
15602602 AGAGGAAGAAAA
1 AGAGAAAGAAAA
15602614 AGAGAAAGAAAA
1 AGAGAAAGAAAA
15602626 AG-GAAAGAAAA
1 AGAGAAAGAAAA
15602637 GTGGGAAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
AGAGAAAGAAAA
Found at i:15603700 original size:36 final size:36
Alignment explanation
Indices: 15603628--15603801 Score: 107
Period size: 36 Copynumber: 5.0 Consensus size: 36
15603618 GCTCATCAGC
* ****
15603628 TCATGTGCACTCCCACACCTCACATAGTTGGA-ATCA
1 TCATGTGCACTCCCACACCGCACAT-GGCAAATATCA
15603664 TCATGTGCACTCCCACACCGCACATGGCAAATATCA
1 TCATGTGCACTCCCACACCGCACATGGCAAATATCA
* ** * * ** *
15603700 T-GTACGCA-T-GCA-A-C-CAC-CGGCTCATCAGC-
1 TCATGTGCACTCCCACACCGCACATGGCAAAT-ATCA
* **
15603729 TCATGTGCACTCCCACACCGCACATAGCTCGA-ATCA
1 TCATGTGCACTCCCACACCGCACATGGC-AAATATCA
15603765 TCATGTGCACTCCCACACCGCACATGGCAAATATCA
1 TCATGTGCACTCCCACACCGCACATGGCAAATATCA
15603801 T
1 T
15603802 GTACACTCCC
Statistics
Matches: 101, Mismatches: 25, Indels: 24
0.67 0.17 0.16
Matches are distributed among these distances:
29 6 0.06
30 9 0.09
31 2 0.02
32 3 0.03
33 3 0.03
34 2 0.02
35 12 0.12
36 63 0.62
37 1 0.01
ACGTcount: A:0.28, C:0.36, G:0.15, T:0.21
Consensus pattern (36 bp):
TCATGTGCACTCCCACACCGCACATGGCAAATATCA
Found at i:15603738 original size:101 final size:101
Alignment explanation
Indices: 15603604--15603805 Score: 359
Period size: 101 Copynumber: 2.0 Consensus size: 101
15603594 ATGGCTCAAT
* * * *
15603604 GCATACAACCATCGGCTCATCAGCTCATGTGCACTCCCACACCTCACATAGTTGGAATCATCATG
1 GCATACAACCACCGGCTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTCGAATCATCATG
15603669 TGCACTCCCACACCGCACATGGCAAATATCATGTAC
66 TGCACTCCCACACCGCACATGGCAAATATCATGTAC
*
15603705 GCATGCAACCACCGGCTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTCGAATCATCATG
1 GCATACAACCACCGGCTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTCGAATCATCATG
15603770 TGCACTCCCACACCGCACATGGCAAATATCATGTAC
66 TGCACTCCCACACCGCACATGGCAAATATCATGTAC
15603806 ACTCCCATAC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 96 1.00
ACGTcount: A:0.28, C:0.36, G:0.15, T:0.20
Consensus pattern (101 bp):
GCATACAACCACCGGCTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTCGAATCATCATG
TGCACTCCCACACCGCACATGGCAAATATCATGTAC
Found at i:15606355 original size:111 final size:109
Alignment explanation
Indices: 15606161--15606380 Score: 395
Period size: 111 Copynumber: 2.0 Consensus size: 109
15606151 GCAGACTATA
15606161 TATACACCTATGTACAGTGTTTTAGAAACTGGGAAACAAGCCCTTTTGCACTGTTTTGCATTAAA
1 TATACACCTATGTACAGTGTTTTAGAAACTGGGAAACAAGCCCTTTTGCACTGTTTTGCATTAAA
*
15606226 AAAATCCGTGCCTTGTATCTTTTGTGTGATACGCATAGTTAAATG
66 AAAATCCGTGCCTTGTATC-TTTGTGTGACACGCATAGTTAAATG
15606271 NTATACACCTATGTACAGTGTTTTAGAAACTGGGAAACAAGCCCTTTTGCACTGTTTTGCATTAA
1 -TATACACCTATGTACAGTGTTTTAGAAACTGGGAAACAAGCCCTTTTGCACTGTTTTGCATTAA
**
15606336 AAAAATCCGTGCCTTGTATCTTTGTGTGACGTGCATAGTTAAATG
65 AAAAATCCGTGCCTTGTATCTTTGTGTGACACGCATAGTTAAATG
15606381 ATTTAAATGC
Statistics
Matches: 106, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
110 22 0.21
111 84 0.79
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (109 bp):
TATACACCTATGTACAGTGTTTTAGAAACTGGGAAACAAGCCCTTTTGCACTGTTTTGCATTAAA
AAAATCCGTGCCTTGTATCTTTGTGTGACACGCATAGTTAAATG
Found at i:15606716 original size:25 final size:25
Alignment explanation
Indices: 15606683--15606741 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
15606673 GTTTATGATT
**
15606683 TATACGTGGCAAGGCCACGGGTTGA
1 TATACGTGGCAAGGCCACAAGTTGA
* *
15606708 TATATGTGGCTAGGCCACAAGTTGA
1 TATACGTGGCAAGGCCACAAGTTGA
15606733 TATACGTGG
1 TATACGTGG
15606742 TTACGACCAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.25
Consensus pattern (25 bp):
TATACGTGGCAAGGCCACAAGTTGA
Found at i:15609277 original size:2 final size:2
Alignment explanation
Indices: 15609231--15609265 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15609221 TTTGTTTTGA
15609231 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15609266 AAAGCTATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15609701 original size:25 final size:25
Alignment explanation
Indices: 15609667--15609726 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
15609657 TATATGATAT
* **
15609667 ATATACGTGGCAAGCCCACGGGTTG
1 ATATATGTGGCAAGCCCACAAGTTG
* *
15609692 ATATATGTGGCTAGGCCACAAGTTG
1 ATATATGTGGCAAGCCCACAAGTTG
15609717 ATATATGTGG
1 ATATATGTGG
15609727 TTGTGACCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (25 bp):
ATATATGTGGCAAGCCCACAAGTTG
Found at i:15612501 original size:32 final size:34
Alignment explanation
Indices: 15612464--15612532 Score: 90
Period size: 32 Copynumber: 2.1 Consensus size: 34
15612454 CACTTGATTA
*
15612464 AAATTGTTTAATTAAGCT-A-T-GCCTAATTAATT
1 AAATTGATTAATTAA-CTCAGTGGCCTAATTAATT
15612496 AAATTGATTAATTAACTCAGTGGGCCTAATTAATT
1 AAATTGATTAATTAACTCAGT-GGCCTAATTAATT
15612531 AA
1 AA
15612533 GTTATTTGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 2 0.06
32 15 0.47
33 1 0.03
35 14 0.44
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (34 bp):
AAATTGATTAATTAACTCAGTGGCCTAATTAATT
Found at i:15612530 original size:22 final size:22
Alignment explanation
Indices: 15612502--15612554 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
15612492 AATTAAATTG
15612502 ATTAATTAACTCAGTGGGCCTA
1 ATTAATTAACTCAGTGGGCCTA
* * * *
15612524 ATTAATTAAGTTATTTGGCCTA
1 ATTAATTAACTCAGTGGGCCTA
15612546 ATTAATTAA
1 ATTAATTAA
15612555 ATTAAACAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
ATTAATTAACTCAGTGGGCCTA
Found at i:15612607 original size:71 final size:71
Alignment explanation
Indices: 15612525--15612718 Score: 257
Period size: 71 Copynumber: 2.7 Consensus size: 71
15612515 GTGGGCCTAA
* * * *
15612525 TTAATTAAGTTATTTGGCCTAATTAATTAAATTAAACAATTAAGTTATTAGGTC-TAATTGATTA
1 TTAATTAAGTTATTGGGCCTAATTGATTAAATTAAACAATTAAGTTATTAGGGCTTAATTAATTA
15612589 AATTTGT
66 AA-TTGT
**** * *
15612596 TTAATTAAGTTATTGGGCCTAATTGATTAACATTGTTTAATTAAATTATT-GGGCTTGATTAATT
1 TTAATTAAGTTATTGGGCCTAATTGATTAA-ATTAAACAATTAAGTTATTAGGGCTTAATTAATT
15612660 AAATTGT
65 AAATTGT
15612667 TTAATTAAGTTATTGGGCCTAATTGATTAAATTAAACAATTAAGTTAATTAG
1 TTAATTAAGTTATTGGGCCTAATTGATTAAATTAAACAATTAAGTT-ATTAG
15612719 ACTTCTTAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
70 11 0.11
71 68 0.65
72 25 0.24
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (71 bp):
TTAATTAAGTTATTGGGCCTAATTGATTAAATTAAACAATTAAGTTATTAGGGCTTAATTAATTA
AATTGT
Found at i:15612713 original size:35 final size:35
Alignment explanation
Indices: 15612525--15612699 Score: 224
Period size: 35 Copynumber: 4.9 Consensus size: 35
15612515 GTGGGCCTAA
* * **
15612525 TTAATTAAGTTATTTGGCCTAATTAATTAAATTAA
1 TTAATTAAGTTATTGGGCCTAATTGATTAAATTGT
** * *
15612560 ACAATTAAGTTATTAGGTCTAATTGATTAAATTTGT
1 TTAATTAAGTTATTGGGCCTAATTGATTAAA-TTGT
15612596 TTAATTAAGTTATTGGGCCTAATTGATTAACATTGT
1 TTAATTAAGTTATTGGGCCTAATTGATTAA-ATTGT
* * * *
15612632 TTAATTAAATTATTGGGCTTGATTAATTAAATTGT
1 TTAATTAAGTTATTGGGCCTAATTGATTAAATTGT
15612667 TTAATTAAGTTATTGGGCCTAATTGATTAAATT
1 TTAATTAAGTTATTGGGCCTAATTGATTAAATT
15612700 AAACAATTAA
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
35 60 0.50
36 58 0.49
37 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.46
Consensus pattern (35 bp):
TTAATTAAGTTATTGGGCCTAATTGATTAAATTGT
Found at i:15614321 original size:37 final size:37
Alignment explanation
Indices: 15614272--15614385 Score: 169
Period size: 37 Copynumber: 3.1 Consensus size: 37
15614262 ACATACATGG
15614272 TCATCATGTGTGCACTCCCTACTCGCACACTCTAAT-A
1 TCATCATGTGTGCACTCCCTACTCGCACACTC-AATCA
* *
15614309 TCATCATCTGTGCACTCCCTACTCGCACACTCCATCA
1 TCATCATGTGTGCACTCCCTACTCGCACACTCAATCA
*
15614346 TCATCATGTGTGCACTCCCTACTTGCACACTTCAA-CA
1 TCATCATGTGTGCACTCCCTACTCGCACAC-TCAATCA
15614383 TCA
1 TCA
15614386 CCACCCAACA
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
36 2 0.03
37 65 0.93
38 3 0.04
ACGTcount: A:0.24, C:0.38, G:0.10, T:0.29
Consensus pattern (37 bp):
TCATCATGTGTGCACTCCCTACTCGCACACTCAATCA
Found at i:15619318 original size:22 final size:22
Alignment explanation
Indices: 15619290--15619355 Score: 123
Period size: 22 Copynumber: 3.0 Consensus size: 22
15619280 TTAGAGTGGT
*
15619290 ATTAGAGCTTTTGGTTTTAAAG
1 ATTAGAGCTTTTGGGTTTAAAG
15619312 ATTAGAGCTTTTGGGTTTAAAG
1 ATTAGAGCTTTTGGGTTTAAAG
15619334 ATTAGAGCTTTTGGGTTTAAAG
1 ATTAGAGCTTTTGGGTTTAAAG
15619356 TTATTTTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.27, C:0.05, G:0.26, T:0.42
Consensus pattern (22 bp):
ATTAGAGCTTTTGGGTTTAAAG
Found at i:15629405 original size:43 final size:43
Alignment explanation
Indices: 15629318--15629407 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 43
15629308 GTAATTATAT
* * * **
15629318 TGACTCGGCTATGTGCGAGTAGGGAGTGGGCATAGGCCGATGA
1 TGACCCGGCTATGTGAGAGTAGGGAGTGCGCATAACCCGATGA
* *
15629361 TGACCCGGTTATGTGAGAGTAGGGAGTGCGCATAACCCGTTGA
1 TGACCCGGCTATGTGAGAGTAGGGAGTGCGCATAACCCGATGA
15629404 TGAC
1 TGAC
15629408 GTAGCCATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.22, C:0.18, G:0.38, T:0.22
Consensus pattern (43 bp):
TGACCCGGCTATGTGAGAGTAGGGAGTGCGCATAACCCGATGA
Found at i:15636384 original size:2 final size:2
Alignment explanation
Indices: 15636377--15636403 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15636367 TGAGAGTTTT
15636377 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
15636404 ATTACACCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15637124 original size:23 final size:23
Alignment explanation
Indices: 15637094--15637149 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
15637084 CATGAGTTGG
15637094 TGATGATGAGACGATGTGCATGA
1 TGATGATGAGACGATGTGCATGA
* * *
15637117 TGATGATGGGATGGTGTGCATGA
1 TGATGATGAGACGATGTGCATGA
15637140 TGATGATGAG
1 TGATGATGAG
15637150 TATATGTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.27, C:0.05, G:0.39, T:0.29
Consensus pattern (23 bp):
TGATGATGAGACGATGTGCATGA
Found at i:15645101 original size:20 final size:20
Alignment explanation
Indices: 15645076--15645114 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15645066 AGAACCATGG
15645076 ATAGATGAG-CAAATCTATCC
1 ATAGAT-AGCCAAATCTATCC
*
15645096 ATAGATAGCCAGATCTATC
1 ATAGATAGCCAAATCTATC
15645115 GATAAATGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (20 bp):
ATAGATAGCCAAATCTATCC
Found at i:15650907 original size:63 final size:63
Alignment explanation
Indices: 15650803--15650921 Score: 202
Period size: 63 Copynumber: 1.9 Consensus size: 63
15650793 TCGCCGTACC
15650803 CACAACCTTTATCATTAAACCGGCATTGCACTTCCCACTCCGCACATGCACGGTTGTAATTAT
1 CACAACCTTTATCATTAAACCGGCATTGCACTTCCCACTCCGCACATGCACGGTTGTAATTAT
* * * *
15650866 CACATCCTTTGTCATTCAACTGGCATTGCACTTCCCACTCCGCACATGCACGGTTG
1 CACAACCTTTATCATTAAACCGGCATTGCACTTCCCACTCCGCACATGCACGGTTG
15650922 CATCAATTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.29
Consensus pattern (63 bp):
CACAACCTTTATCATTAAACCGGCATTGCACTTCCCACTCCGCACATGCACGGTTGTAATTAT
Found at i:15652888 original size:39 final size:39
Alignment explanation
Indices: 15652799--15652975 Score: 173
Period size: 39 Copynumber: 4.6 Consensus size: 39
15652789 CTCACACAGC
* * *
15652799 TCATGTGCACTCCCACGCCGCACATAGG-TAATATC--C-
1 TCATGTGCTCTCCCACACCGCACAT-GGCAAATATCATCA
*
15652835 TCATGTGCACTCCCACACCGCACATGGCAAATATCATCA
1 TCATGTGCTCTCCCACACCGCACATGGCAAATATCATCA
** * *
15652874 TCATGTGCTCTCCCACACTACGCATGGCATATATCATCA
1 TCATGTGCTCTCCCACACCGCACATGGCAAATATCATCA
* * * *
15652913 TCATGTACTCTCCCACACCACACATGGCATATATCATCG
1 TCATGTGCTCTCCCACACCGCACATGGCAAATATCATCA
* * * *
15652952 GCGTGTGCTCTCCCGCACGGCACA
1 TCATGTGCTCTCCCACACCGCACA
15652976 CTACCGACAC
Statistics
Matches: 120, Mismatches: 17, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
35 2 0.02
36 30 0.25
38 1 0.01
39 87 0.73
ACGTcount: A:0.25, C:0.36, G:0.15, T:0.23
Consensus pattern (39 bp):
TCATGTGCTCTCCCACACCGCACATGGCAAATATCATCA
Found at i:15657058 original size:35 final size:36
Alignment explanation
Indices: 15656969--15657065 Score: 142
Period size: 36 Copynumber: 2.7 Consensus size: 36
15656959 TAGCTGGAGT
* *
15656969 CATCATGTGCACCCCCACATCGCACATAGCTAATAC
1 CATCGTGTGCACCCCCACATCGTACATAGCTAATAC
* *
15657005 CATCGTGTGCACCCCCACATCGTGCATAGCTAATGC
1 CATCGTGTGCACCCCCACATCGTACATAGCTAATAC
*
15657041 CATCG-GTGCACCTCCACATCGTACA
1 CATCGTGTGCACCCCCACATCGTACA
15657066 CAAGCAATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
35 18 0.33
36 37 0.67
ACGTcount: A:0.26, C:0.38, G:0.15, T:0.21
Consensus pattern (36 bp):
CATCGTGTGCACCCCCACATCGTACATAGCTAATAC
Found at i:15657185 original size:2 final size:2
Alignment explanation
Indices: 15657178--15657207 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15657168 AATACACGAC
15657178 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15657208 CAACATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15657635 original size:18 final size:18
Alignment explanation
Indices: 15657612--15657647 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15657602 CATTAAGAAT
*
15657612 AAATAAACAACCCTCAAC
1 AAATAAACAACCCACAAC
15657630 AAATAAACAACCCACAAC
1 AAATAAACAACCCACAAC
15657648 TCTAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.33, G:0.00, T:0.08
Consensus pattern (18 bp):
AAATAAACAACCCACAAC
Found at i:15665324 original size:12 final size:12
Alignment explanation
Indices: 15665307--15665331 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15665297 CTAATCAAAC
15665307 TAAATAAAATAT
1 TAAATAAAATAT
15665319 TAAATAAAATAT
1 TAAATAAAATAT
15665331 T
1 T
15665332 CCATTTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:15667331 original size:22 final size:22
Alignment explanation
Indices: 15667304--15667354 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
15667294 TCAAATCATT
15667304 TTTGATTTATC-CCAATACTTAA
1 TTTGATTTA-CACCAATACTTAA
*
15667326 TTTGATTTACACCAATATTTAA
1 TTTGATTTACACCAATACTTAA
*
15667348 TTAGATT
1 TTTGATT
15667355 AAGCCTCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (22 bp):
TTTGATTTACACCAATACTTAA
Found at i:15669827 original size:24 final size:23
Alignment explanation
Indices: 15669800--15669857 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
15669790 GAGATCAGTT
15669800 GGAAGAAAGGAGAAAGGAAAGAAA
1 GGAAGAAAGGAGAAA-GAAAGAAA
*
15669824 GGAATGAGAAAG-GAAAGAAAGAAA
1 GGAA-GA-AAGGAGAAAGAAAGAAA
15669848 GGAA-AAAGGA
1 GGAAGAAAGGA
15669858 TGTTAAGCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
21 3 0.10
22 1 0.03
24 16 0.55
25 6 0.21
26 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (23 bp):
GGAAGAAAGGAGAAAGAAAGAAA
Found at i:15669855 original size:20 final size:20
Alignment explanation
Indices: 15669802--15669857 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
15669792 GATCAGTTGG
15669802 AAGAAAGGAGAAAGGAAAGA
1 AAGAAAGGAGAAAGGAAAGA
* *
15669822 AAGGAATGAGAAAGGAAAGA
1 AAGAAAGGAGAAAGGAAAGA
*
15669842 AAGAAAGGAAAAAGGA
1 AAGAAAGGAGAAAGGA
15669858 TGTTAAGCCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (20 bp):
AAGAAAGGAGAAAGGAAAGA
Found at i:15672034 original size:20 final size:20
Alignment explanation
Indices: 15672009--15672049 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
15671999 ATAAGCCTTG
*
15672009 TTGATTTTTATGAAATGAAA
1 TTGATTTATATGAAATGAAA
15672029 TTGATTTATATGAAATGAAA
1 TTGATTTATATGAAATGAAA
15672049 T
1 T
15672050 GAGATTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (20 bp):
TTGATTTATATGAAATGAAA
Found at i:15672065 original size:25 final size:25
Alignment explanation
Indices: 15672018--15672067 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
15672008 GTTGATTTTT
*
15672018 ATGAAATGAAATTGATTTATATGAA
1 ATGAAATGAAATTGATGTATATGAA
*
15672043 ATGAAATGAGATTTGATGT-TATGAA
1 ATGAAATGA-AATTGATGTATATGAA
15672068 TCATATTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (25 bp):
ATGAAATGAAATTGATGTATATGAA
Found at i:15688361 original size:2 final size:2
Alignment explanation
Indices: 15688354--15688391 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
15688344 ATACTGTGTT
15688354 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15688392 CGAATAATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15688467 original size:42 final size:42
Alignment explanation
Indices: 15688420--15688502 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
15688410 GATATTGGCC
*
15688420 CGGCTATGTGTGAGTGGGAATGTGCATAAACCAATGCTGACT
1 CGGCTATGTGTGAGTGGGAATGCGCATAAACCAATGCTGACT
* *
15688462 CGGCTATGTGTGAGTGGGAGTGCGCATAAGCCAATGCTGAC
1 CGGCTATGTGTGAGTGGGAATGCGCATAAACCAATGCTGAC
15688503 CCAGCCATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.24
Consensus pattern (42 bp):
CGGCTATGTGTGAGTGGGAATGCGCATAAACCAATGCTGACT
Found at i:15688520 original size:42 final size:42
Alignment explanation
Indices: 15688428--15688526 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
15688418 CCCGGCTATG
* * * * * *
15688428 TGTGAGTGGGAATGTGCATAAACCAATGCTGACTCGGCTATG
1 TGTGAGTGGGAGTGCGCATAAACCAATGCTGACCCAGCCATA
*
15688470 TGTGAGTGGGAGTGCGCATAAGCCAATGCTGACCCAGCCATA
1 TGTGAGTGGGAGTGCGCATAAACCAATGCTGACCCAGCCATA
15688512 TGCT-AGTGGGAGTGC
1 TG-TGAGTGGGAGTGC
15688527 ATATGAGCTG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 48 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.23
Consensus pattern (42 bp):
TGTGAGTGGGAGTGCGCATAAACCAATGCTGACCCAGCCATA
Found at i:15688574 original size:2 final size:2
Alignment explanation
Indices: 15688567--15688596 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15688557 ATGATGATTG
15688567 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15688597 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15696168 original size:43 final size:43
Alignment explanation
Indices: 15696115--15696269 Score: 204
Period size: 43 Copynumber: 3.6 Consensus size: 43
15696105 CATCACCAGC
** ** *
15696115 TTATGCGCACTCCCTACTTGCACATGGCTAGGTCATCACTGGG
1 TTATGCGCACTCCCTACTCACACATAACTGGGTCATCACTGGG
*
15696158 TTATGTGCACTCCCTACTCACACATAACTGGGTCATCACTGGG
1 TTATGCGCACTCCCTACTCACACATAACTGGGTCATCACTGGG
* * *
15696201 TTATGTGCACTCCCTACTCACACACAACTGGGTCATC-CTCGGC
1 TTATGCGCACTCCCTACTCACACATAACTGGGTCATCACT-GGG
*
15696244 TTATGCGCACTCCCTACTCGCACATA
1 TTATGCGCACTCCCTACTCACACATA
15696270 GCCGACTCAA
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 2 0.02
43 98 0.98
ACGTcount: A:0.21, C:0.34, G:0.18, T:0.27
Consensus pattern (43 bp):
TTATGCGCACTCCCTACTCACACATAACTGGGTCATCACTGGG
Found at i:15697433 original size:19 final size:20
Alignment explanation
Indices: 15697409--15697447 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
15697399 CCTATAAATA
15697409 TCTTGAAA-TTCTAGCAGCT
1 TCTTGAAATTTCTAGCAGCT
15697428 TCTTGAAATTTCTAGCAGCT
1 TCTTGAAATTTCTAGCAGCT
15697448 GTTTTCTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (20 bp):
TCTTGAAATTTCTAGCAGCT
Found at i:15699832 original size:19 final size:20
Alignment explanation
Indices: 15699794--15699833 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
15699784 AGAAGAAGAC
15699794 AAGCTGCTGGAAATTTCAAG
1 AAGCTGCTGGAAATTTCAAG
15699814 AAGCTGCTGGAAA-TTCAAG
1 AAGCTGCTGGAAATTTCAAG
15699833 A
1 A
15699834 TATTTAGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (20 bp):
AAGCTGCTGGAAATTTCAAG
Found at i:15701565 original size:10 final size:10
Alignment explanation
Indices: 15701550--15701593 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
15701540 TAACTATTCT
**
15701550 TAAAGTAATC
1 TAAAGTAAAA
15701560 TAAAGTAAAA
1 TAAAGTAAAA
15701570 TAAAGTAAAA
1 TAAAGTAAAA
*
15701580 TTAAACTAAAA
1 -TAAAGTAAAA
15701591 TAA
1 TAA
15701594 CTTAAATTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (10 bp):
TAAAGTAAAA
Found at i:15707523 original size:16 final size:16
Alignment explanation
Indices: 15707487--15707527 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
15707477 TAAAACAATA
15707487 TTAAAA-TCAAAAGCT
1 TTAAAACTCAAAAGCT
*
15707502 TT-AAACTCCAAAGCT
1 TTAAAACTCAAAAGCT
15707517 TTAAAAC-CAAA
1 TTAAAACTCAAA
15707528 TTCTTTGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.14
15 15 0.68
16 4 0.18
ACGTcount: A:0.51, C:0.20, G:0.05, T:0.24
Consensus pattern (16 bp):
TTAAAACTCAAAAGCT
Found at i:15711463 original size:20 final size:20
Alignment explanation
Indices: 15711438--15711495 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
15711428 GTGAGGAAGA
*
15711438 TGAAAAAGTTGCTGAAAGCT
1 TGAAAAAGTTGCTGAAAACT
* *
15711458 TGAAAAA-TCTGCTAAAAATT
1 TGAAAAAGT-TGCTGAAAACT
*
15711478 TGAAGAAGTTGCTAGAAA
1 TGAAAAAGTTGCT-GAAA
15711496 CTTAGATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 1 0.03
20 25 0.83
21 4 0.13
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.26
Consensus pattern (20 bp):
TGAAAAAGTTGCTGAAAACT
Found at i:15722631 original size:20 final size:20
Alignment explanation
Indices: 15722607--15722650 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
15722597 TATATAAATA
15722607 AAAAATATACATTT-CATATCT
1 AAAAATA-A-ATTTACATATCT
*
15722628 AAAAATAAATTTAGATATCT
1 AAAAATAAATTTACATATCT
15722648 AAA
1 AAA
15722651 TCATCCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 10 0.48
21 7 0.33
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAATAAATTTACATATCT
Found at i:15726326 original size:15 final size:16
Alignment explanation
Indices: 15726298--15726329 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15726288 ATTATTAATG
15726298 TTTAAAAATAAAATAA
1 TTTAAAAATAAAATAA
15726314 TTTAAAAAT-AAATAA
1 TTTAAAAATAAAATAA
15726329 T
1 T
15726330 CATTATAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TTTAAAAATAAAATAA
Found at i:15726473 original size:14 final size:15
Alignment explanation
Indices: 15726454--15726482 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15726444 TAATAAAGGG
15726454 TATTTTTA-TCTTTT
1 TATTTTTATTCTTTT
15726468 TATTTTTATTCTTTT
1 TATTTTTATTCTTTT
15726483 CTTATTCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (15 bp):
TATTTTTATTCTTTT
Found at i:15729866 original size:58 final size:57
Alignment explanation
Indices: 15729776--15729895 Score: 161
Period size: 58 Copynumber: 2.1 Consensus size: 57
15729766 CATAATTATC
* *
15729776 CAAAGTAGTTTGCATGTGATATATTTATTTTATCCAATTTAATAAATGCTATGCAATG
1 CAAAGTAGTTTGCATGTGATAGATTTATTTTATCCAATTTAATAAATACTATGC-ATG
* ***
15729834 CAAAGTA-TTATGCCTGTGATAGATTTATTTTATGTGATTTAATAAATACTATGCATG
1 CAAAGTAGTT-TGCATGTGATAGATTTATTTTATCCAATTTAATAAATACTATGCATG
15729891 CAAAG
1 CAAAG
15729896 ATGAAACCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 10 0.18
58 45 0.82
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (57 bp):
CAAAGTAGTTTGCATGTGATAGATTTATTTTATCCAATTTAATAAATACTATGCATG
Found at i:15731274 original size:56 final size:56
Alignment explanation
Indices: 15731134--15731352 Score: 271
Period size: 56 Copynumber: 3.9 Consensus size: 56
15731124 TACTACCACA
* * * ***
15731134 TCTCATCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGA--CACCCCA
1 TCTCACCCAACTCATGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCATCATG
*
15731188 TCTCACCCAACTCATGTGCATCCCCCCACATCGTGCACATAGCTGGAGTCATCATG
1 TCTCACCCAACTCATGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCATCATG
* * * *
15731244 TCTCACCCAACTCATGTGCATCCCCCCACATCATGCACACAGCTGGAGTCATCGTG
1 TCTCACCCAACTCATGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCATCATG
* *** * *
15731300 TCTCACCCAGCTCATGTGCATCTTTCCACATCTTGCACATAGCCGGAATCATC
1 TCTCACCCAACTCATGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCATC
15731353 GTGTGCATCC
Statistics
Matches: 145, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 44 0.30
56 101 0.70
ACGTcount: A:0.23, C:0.39, G:0.15, T:0.23
Consensus pattern (56 bp):
TCTCACCCAACTCATGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCATCATG
Found at i:15731515 original size:2 final size:2
Alignment explanation
Indices: 15731510--15731548 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
15731500 CACACAATAG
15731510 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15731549 CTACATTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15732391 original size:42 final size:43
Alignment explanation
Indices: 15732342--15732468 Score: 195
Period size: 43 Copynumber: 3.0 Consensus size: 43
15732332 TTTTGTGTGA
*
15732342 TAATGATGACCTAGCTATGTGC-ATGTGGGAGTGCACATGAGC
1 TAATGATGACCCAGCTATGTGCGATGTGGGAGTGCACATGAGC
* *
15732384 TGATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGC
1 TAATGATGACCCAGCTATGTGCGATGTGGGAGTGCACATGAGC
*
15732427 TAATGATGACCCAACTATGTGCGA-GTAGGGAGTGCACATGAG
1 TAATGATGACCCAGCTATGTGCGATGT-GGGAGTGCACATGAG
15732469 AGGAGTGTGG
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
42 22 0.29
43 55 0.71
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (43 bp):
TAATGATGACCCAGCTATGTGCGATGTGGGAGTGCACATGAGC
Found at i:15732939 original size:19 final size:19
Alignment explanation
Indices: 15732911--15732949 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
15732901 GGTTTTGGTA
*
15732911 AGAAACCCTCGGCCAGTTG
1 AGAAAACCTCGGCCAGTTG
* *
15732930 AGAAAACCTCTGCTAGTTG
1 AGAAAACCTCGGCCAGTTG
15732949 A
1 A
15732950 TAATTTGAGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.21
Consensus pattern (19 bp):
AGAAAACCTCGGCCAGTTG
Found at i:15736802 original size:19 final size:19
Alignment explanation
Indices: 15736778--15736815 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15736768 CCATTTGACT
15736778 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
15736797 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
15736816 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:15739188 original size:15 final size:15
Alignment explanation
Indices: 15739149--15739194 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
15739139 AGATCAGAGA
15739149 TTTTGGTTTTAAAG-
1 TTTTGGTTTTAAAGT
* *
15739163 CTTTGAATTTTAAAGT
1 TTTTG-GTTTTAAAGT
15739179 TTTTGGTTTTAAAGT
1 TTTTGGTTTTAAAGT
15739194 T
1 T
15739195 GTTTTAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.57
Consensus pattern (15 bp):
TTTTGGTTTTAAAGT
Found at i:15751402 original size:2 final size:2
Alignment explanation
Indices: 15751395--15751435 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
15751385 TGGAAATTTT
*
15751395 AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
15751436 CTTTCCATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15752069 original size:42 final size:42
Alignment explanation
Indices: 15752014--15752145 Score: 158
Period size: 42 Copynumber: 3.1 Consensus size: 42
15752004 GTAATGATAT
* * * *
15752014 TGACCCGGCTATGTGTGAGTAAGAGTGCGCATAAGCCAATGA
1 TGACCCGACTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
* * *
15752056 TGACCCGATTATGTGCGAGTGGGAGTGTGCATAAGCCGATGA
1 TGACCCGACTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
* * *
15752098 TGA-CCTAGCTATGTACGAGTAGGAGTGCGCATAAGCTGATGA
1 TGACCCGA-CTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
15752140 TGACCC
1 TGACCC
15752146 AGCCATGTGC
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
41 3 0.04
42 70 0.93
43 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.23
Consensus pattern (42 bp):
TGACCCGACTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
Found at i:15752216 original size:2 final size:2
Alignment explanation
Indices: 15752209--15752233 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15752199 ATGATGATGG
15752209 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
15752234 CATACATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.