Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 33 of 328
Found at i:9530574 original size:45 final size:45
Alignment explanation
Indices: 9530506--9530608 Score: 152
Period size: 45 Copynumber: 2.3 Consensus size: 45
9530496 CTCGTAACTT
* * *
9530506 TGGAGGTGGCGGCTATGGCGGTGGTGGCTACGGTGGTGGTGGCTA
1 TGGAGGTGGTGGCTACGGCGGTGGTGGCTACGGCGGTGGTGGCTA
* *
9530551 TGGCGGTGGTGGCTACGGTGGTGGTGGCTACGGCGGTGGTGGCTA
1 TGGAGGTGGTGGCTACGGCGGTGGTGGCTACGGCGGTGGTGGCTA
*
9530596 TGGAAGTGGTGGC
1 TGGAGGTGGTGGC
9530609 GGTGGCTATG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.09, C:0.14, G:0.53, T:0.24
Consensus pattern (45 bp):
TGGAGGTGGTGGCTACGGCGGTGGTGGCTACGGCGGTGGTGGCTA
Found at i:9530604 original size:15 final size:15
Alignment explanation
Indices: 9530510--9530608 Score: 126
Period size: 15 Copynumber: 6.6 Consensus size: 15
9530500 TAACTTTGGA
*
9530510 GGTGGCGGCTATGGC
1 GGTGGTGGCTATGGC
* *
9530525 GGTGGTGGCTACGGT
1 GGTGGTGGCTATGGC
9530540 GGTGGTGGCTATGGC
1 GGTGGTGGCTATGGC
* *
9530555 GGTGGTGGCTACGGT
1 GGTGGTGGCTATGGC
*
9530570 GGTGGTGGCTACGGC
1 GGTGGTGGCTATGGC
*
9530585 GGTGGTGGCTATGGA
1 GGTGGTGGCTATGGC
*
9530600 AGTGGTGGC
1 GGTGGTGGC
9530609 GGTGGCTATG
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 73 1.00
ACGTcount: A:0.08, C:0.14, G:0.54, T:0.24
Consensus pattern (15 bp):
GGTGGTGGCTATGGC
Found at i:9530605 original size:30 final size:30
Alignment explanation
Indices: 9530507--9530608 Score: 150
Period size: 30 Copynumber: 3.4 Consensus size: 30
9530497 TCGTAACTTT
*
9530507 GGAGGTGGCGGCTATGGCGGTGGTGGCTAC
1 GGAGGTGGTGGCTATGGCGGTGGTGGCTAC
*
9530537 GGTGGTGGTGGCTATGGCGGTGGTGGCTAC
1 GGAGGTGGTGGCTATGGCGGTGGTGGCTAC
* * *
9530567 GGTGGTGGTGGCTACGGCGGTGGTGGCTAT
1 GGAGGTGGTGGCTATGGCGGTGGTGGCTAC
*
9530597 GGAAGTGGTGGC
1 GGAGGTGGTGGC
9530609 GGTGGCTATG
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.09, C:0.14, G:0.54, T:0.24
Consensus pattern (30 bp):
GGAGGTGGTGGCTATGGCGGTGGTGGCTAC
Found at i:9538328 original size:34 final size:34
Alignment explanation
Indices: 9538289--9538357 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
9538279 GTGATCTTTG
9538289 TTTTATTTTTGCAAAAGAGATGAAATGAATGCCA
1 TTTTATTTTTGCAAAAGAGATGAAATGAATGCCA
9538323 TTTTATTTTTGCAAAAGAGATGAAATGAATGCCA
1 TTTTATTTTTGCAAAAGAGATGAAATGAATGCCA
9538357 T
1 T
9538358 CTTTTTTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (34 bp):
TTTTATTTTTGCAAAAGAGATGAAATGAATGCCA
Found at i:9541233 original size:97 final size:98
Alignment explanation
Indices: 9541067--9541263 Score: 369
Period size: 97 Copynumber: 2.0 Consensus size: 98
9541057 CCAAGTCCAA
9541067 GTAAACATACAAGTATAAGAAACCGTTTCTAAGGCAGTTTAACTCATTATAAAGATGGAGGAAAA
1 GTAAACATACAAGTATAAGAAACCGTTTCTAAGGCAGTTTAACTCATTATAAAGATGGAGGAAAA
*
9541132 GGTAATCAATTCAATATC-TATTCTCTTTCTAT
66 GGTAATCAATTCAACATCTTATTCTCTTTCTAT
*
9541164 GTAAATATACAAGTATAAGAAACCGTTTCTAAGGCAGTTTAACTCATTATAAAGATGGAGGAAAA
1 GTAAACATACAAGTATAAGAAACCGTTTCTAAGGCAGTTTAACTCATTATAAAGATGGAGGAAAA
9541229 GGTAATCAATTCAACATCTTATTCTCTTTCTAT
66 GGTAATCAATTCAACATCTTATTCTCTTTCTAT
9541262 GT
1 GT
9541264 TGAACTCTGA
Statistics
Matches: 97, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
97 81 0.84
98 16 0.16
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (98 bp):
GTAAACATACAAGTATAAGAAACCGTTTCTAAGGCAGTTTAACTCATTATAAAGATGGAGGAAAA
GGTAATCAATTCAACATCTTATTCTCTTTCTAT
Found at i:9543805 original size:32 final size:31
Alignment explanation
Indices: 9543773--9543845 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
9543763 TTAAAATTTA
* *
9543773 TTTACTTATCTCATAT-TTTT-ACT-TTTTT
1 TTTATTTATATCATATATTTTGACTATTTTT
*
9543801 TTTATGTTATATCATATATTTTGATTATTTTT
1 TTTAT-TTATATCATATATTTTGACTATTTTT
9543833 TTTATTTTATATC
1 TTTA-TTTATATC
9543846 CCACCTTGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 4 0.11
29 10 0.27
30 4 0.11
31 2 0.05
32 16 0.43
33 1 0.03
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.67
Consensus pattern (31 bp):
TTTATTTATATCATATATTTTGACTATTTTT
Found at i:9545542 original size:21 final size:21
Alignment explanation
Indices: 9545516--9545556 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9545506 GTGGATTTGA
9545516 AAAAAAAAAATCCAAAATTCT
1 AAAAAAAAAATCCAAAATTCT
* * *
9545537 AAAAAATATATCTAAAATTC
1 AAAAAAAAAATCCAAAATTC
9545557 AATTTGATGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAAAAAATCCAAAATTCT
Found at i:9559131 original size:16 final size:16
Alignment explanation
Indices: 9559110--9559141 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9559100 CGCACTTTAC
*
9559110 CGTATCAATGTGTACT
1 CGTATCAAGGTGTACT
9559126 CGTATCAAGGTGTACT
1 CGTATCAAGGTGTACT
9559142 TGATTGAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (16 bp):
CGTATCAAGGTGTACT
Found at i:9560865 original size:22 final size:22
Alignment explanation
Indices: 9560840--9560884 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9560830 ATCGAATATG
9560840 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
9560862 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
9560884 T
1 T
9560885 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:9562799 original size:15 final size:15
Alignment explanation
Indices: 9562779--9562812 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
9562769 AAAGAAAGTC
9562779 CAAACTTAATGTCCA
1 CAAACTTAATGTCCA
*
9562794 CAAACTTAATGTCCC
1 CAAACTTAATGTCCA
9562809 CAAA
1 CAAA
9562813 ACCAGTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.29, G:0.06, T:0.24
Consensus pattern (15 bp):
CAAACTTAATGTCCA
Found at i:9566038 original size:36 final size:36
Alignment explanation
Indices: 9565991--9566063 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
9565981 TTTTGCAACA
9565991 CTTAGAAAATTTTCACACTTTGGAGAGTCACACGCC
1 CTTAGAAAATTTTCACACTTTGGAGAGTCACACGCC
9566027 CTTAGAAAATTTTCACACTTTGGAGAGTCACACGCC
1 CTTAGAAAATTTTCACACTTTGGAGAGTCACACGCC
9566063 C
1 C
9566064 GTGTTTTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (36 bp):
CTTAGAAAATTTTCACACTTTGGAGAGTCACACGCC
Found at i:9568434 original size:40 final size:40
Alignment explanation
Indices: 9568333--9568465 Score: 232
Period size: 40 Copynumber: 3.4 Consensus size: 40
9568323 CTTATAATCT
* *
9568333 GCAGGCTTTGTGCTGGCAATAGATATCTGGGTTAAATCCC
1 GCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATCCC
*
9568373 GCAAGC-TTGTGCTGGTAATAGATATCCGGGTTAAATCCC
1 GCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATCCC
9568412 GCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATCCC
1 GCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATCCC
9568452 GCAGGCTTTGTGCT
1 GCAGGCTTTGTGCT
9568466 AGAAATTGGA
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
39 36 0.41
40 52 0.59
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (40 bp):
GCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATCCC
Found at i:9576470 original size:39 final size:40
Alignment explanation
Indices: 9576417--9576549 Score: 250
Period size: 40 Copynumber: 3.4 Consensus size: 40
9576407 CTTATAGTCT
*
9576417 GCAGGCTTTGTGCTGGCAATAGATATCCGGGTTAAATCCC
1 GCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATCCC
9576457 GCAGGC-TTGTGCTGGTAATAGATATCCGGGTTAAATCCC
1 GCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATCCC
9576496 GCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATCCC
1 GCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATCCC
9576536 GCAGGCTTTGTGCT
1 GCAGGCTTTGTGCT
9576550 AGAAATTGGA
Statistics
Matches: 91, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
39 38 0.42
40 53 0.58
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (40 bp):
GCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATCCC
Found at i:9578131 original size:42 final size:42
Alignment explanation
Indices: 9578082--9578195 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 42
9578072 CTTCGTTTTC
** * *
9578082 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
9578125 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
9578166 TCGATGCCATAGCCCAGTTATGGTCTTACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACA
9578196 TGAATCACAT
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.03
42 61 0.95
43 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:9578234 original size:46 final size:45
Alignment explanation
Indices: 9578169--9578286 Score: 128
Period size: 47 Copynumber: 2.6 Consensus size: 45
9578159 TCATATATCG
* * * * *
9578169 ATGCCATAGCCCAGTTATGGTCTTACATGAATCACATATCTCACTA
1 ATGCCATATCCCAGATATGGTCTTACA-GAAGCACATATCACACCA
* * * *
9578215 ATGCCATATCCTAGATATGGTCTTATACAGTAGCATATATCACACCG
1 ATGCCATATCCCAGATATGGTC-T-TACAGAAGCACATATCACACCA
9578262 ATGCCATATCCCAGATATGGTCTTA
1 ATGCCATATCCCAGATATGGTCTTA
9578287 TACGAAAATC
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.03
46 20 0.33
47 34 0.57
48 4 0.07
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (45 bp):
ATGCCATATCCCAGATATGGTCTTACAGAAGCACATATCACACCA
Found at i:9578307 original size:7 final size:7
Alignment explanation
Indices: 9578295--9578323 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
9578285 TATACGAAAA
9578295 TCACTTG
1 TCACTTG
9578302 TCACTTG
1 TCACTTG
9578309 TCACTTG
1 TCACTTG
9578316 TCACTTG
1 TCACTTG
9578323 T
1 T
9578324 AGCCGAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:9578357 original size:31 final size:31
Alignment explanation
Indices: 9578322--9578470 Score: 244
Period size: 31 Copynumber: 4.8 Consensus size: 31
9578312 CTTGTCACTT
*
9578322 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
9578353 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
9578384 GTAGCTGTAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
9578415 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
9578446 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
9578471 TGTCATTTGT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 109 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:9578555 original size:50 final size:50
Alignment explanation
Indices: 9578446--9578622 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
9578436 CACTGATCAG
* *
9578446 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
9578497 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
9578547 GTAACCGAAGCTATTACTTATCACTTTCATTTGTCTTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
9578597 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
9578623 GTTGCCATGG
Statistics
Matches: 117, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 93 0.79
51 24 0.21
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:9581843 original size:22 final size:22
Alignment explanation
Indices: 9581795--9581843 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 22
9581785 CATTCAAGAT
*
9581795 AAAATAATATATAAAACTTCTTTA
1 AAAATAATATATAAAAATTC--TA
9581819 AAAATAATATATAAACAATTC-A
1 AAAATAATATATAAA-AATTCTA
9581841 AAA
1 AAA
9581844 TATATAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
24 15 0.65
25 4 0.17
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAATATATAAAAATTCTA
Found at i:9581895 original size:25 final size:24
Alignment explanation
Indices: 9581867--9581914 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
9581857 CAAAAAAAGT
*
9581867 TTAAAATACATAATATATGAAAATA
1 TTAAAATAAATAATATAT-AAAATA
* *
9581892 TTAAAGTAAATAATGTATAAAAT
1 TTAAAATAAATAATATATAAAAT
9581915 TAAAATGAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.33
Consensus pattern (24 bp):
TTAAAATAAATAATATATAAAATA
Found at i:9582093 original size:23 final size:24
Alignment explanation
Indices: 9582026--9582140 Score: 83
Period size: 21 Copynumber: 5.2 Consensus size: 24
9582016 ATAAGGAAAA
*
9582026 AGTAAT-AAT-GAAA-ATAATATT
1 AGTAATAAATAGAAATATAATAAT
9582047 AGTATATAAATAGAAATA-AA-AAT
1 AGTA-ATAAATAGAAATATAATAAT
9582070 A-TAATAAATAGAAATATAATAAT
1 AGTAATAAATAGAAATATAATAAT
* * *
9582093 AGT-AGAAATATAAATA-GATAA-
1 AGTAATAAATAGAAATATAATAAT
9582114 A-TAA-AAACTAGATAA-ATAATAAT
1 AGTAATAAA-TAGA-AATATAATAAT
9582137 AGTA
1 AGTA
9582141 TTAGAATAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 23
0.72 0.06 0.22
Matches are distributed among these distances:
20 4 0.05
21 23 0.31
22 16 0.21
23 22 0.29
24 9 0.12
25 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.28
Consensus pattern (24 bp):
AGTAATAAATAGAAATATAATAAT
Found at i:9582100 original size:17 final size:15
Alignment explanation
Indices: 9582060--9582105 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
9582050 ATATAAATAG
*
9582060 AAATAAAAATATAAT
1 AAATAGAAATATAAT
9582075 AAATAGAAATATAAT
1 AAATAGAAATATAAT
9582090 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
9582106 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:9582108 original size:44 final size:44
Alignment explanation
Indices: 9582054--9582140 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
9582044 ATTAGTATAT
9582054 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
9582098 AAATATAAATAGATAAATAAAAACTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
9582141 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.01, G:0.08, T:0.25
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:9582125 original size:15 final size:14
Alignment explanation
Indices: 9582052--9582138 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
9582042 ATATTAGTAT
*
9582052 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
9582065 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
9582081 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
9582095 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
9582110 ATAAATAAAAACTAG
1 ATAAATAAAAA-TAG
*
9582125 ATAAATAATAATAG
1 ATAAATAAAAATAG
9582139 TATTAGAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.05
14 20 0.33
15 34 0.57
16 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.08, T:0.25
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:9583105 original size:58 final size:56
Alignment explanation
Indices: 9583012--9583123 Score: 134
Period size: 58 Copynumber: 2.0 Consensus size: 56
9583002 GTGTATTACA
* **
9583012 TAATTCTTTCATATATTATAAATTACTGAAGTTCTTAGAATCCATTTATTGTTTTAAG
1 TAATTCTTTCATATATTACAAATTACTGAAGTTCTT-GAA-AAATTTATTGTTTTAAG
* * ** *
9583070 TAATTCTTTCATATTTTACGAATTACTTTATTTCTTGAAAAATTTATTGTTTTA
1 TAATTCTTTCATATATTACAAATTACTGAAGTTCTTGAAAAATTTATTGTTTTA
9583124 TATCTTTTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
56 13 0.28
57 3 0.07
58 30 0.65
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (56 bp):
TAATTCTTTCATATATTACAAATTACTGAAGTTCTTGAAAAATTTATTGTTTTAAG
Found at i:9602409 original size:42 final size:42
Alignment explanation
Indices: 9602349--9602509 Score: 189
Period size: 42 Copynumber: 3.7 Consensus size: 42
9602339 CGTTTTCTCA
** *
9602349 ATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-G
1 ATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-ATCG
* *
9602391 ATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCG
1 ATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATATCG
9602433 ATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATCG
1 ATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATATCG
*
9602482 ATGCCATAGCCCAGTTATGGTCTTACAC
1 ATGCCATAGCCCAGCTATGGTCTTACAC
9602510 GAATCACATA
Statistics
Matches: 103, Mismatches: 8, Indels: 9
0.86 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 62 0.60
45 2 0.02
48 1 0.01
49 36 0.35
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATATCG
Found at i:9602489 original size:49 final size:48
Alignment explanation
Indices: 9602416--9602598 Score: 194
Period size: 49 Copynumber: 3.8 Consensus size: 48
9602406 TATGGTCTTA
* *
9602416 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGATATGGTCTTACACG-AAT
*
9602466 CACATATCACATATCGATGCCATAGCCCAGTTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGAAT
* * * * * *
9602514 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACAC-GAAT
* * * *
9602561 CATATATCAC--ACCGATGCCATATCTCAGATATGGTCTT
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTT
9602599 GTACGAAAAT
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
46 26 0.22
47 35 0.30
48 13 0.11
49 37 0.32
50 6 0.05
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGAAT
Found at i:9602583 original size:47 final size:46
Alignment explanation
Indices: 9602431--9602598 Score: 192
Period size: 47 Copynumber: 3.6 Consensus size: 46
9602421 ATTCATATAT
* *
9602431 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 CGATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCAC--AC
* * *
9602480 CGATGCCATAGCCCAGTTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
* * * * *
9602526 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCACAC
* *
9602573 CGATGCCATATCTCAGATATGGTCTT
1 CGATGCCATAGCCCAGATATGGTCTT
9602599 GTACGAAAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
46 27 0.26
47 36 0.35
48 11 0.11
49 30 0.29
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (46 bp):
CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
Found at i:9602611 original size:95 final size:94
Alignment explanation
Indices: 9602390--9602598 Score: 234
Period size: 95 Copynumber: 2.3 Consensus size: 94
9602380 TTCACATAAT
* * * *
9602390 GATGCCATAGCCCAGCTATGGTCTTACAC-ATAT-TCATATAT--C-GATGCCATAGCCCAGCTA
1 GATGCCATAGCCCAGATATGGTCTTACACGA-ATCACATATCTCACTGATGCCATAGCCCAGATA
* *
9602450 TGGTCTTACACGTAATCACATATCACATATC
65 TGGTCTTACACGTAAGCACATATCACA-ACC
* *
9602481 GATGCCATAGCCCAGTTATGGTCTTACACGAATCACATATCTCACTGATGCCATATCCCAGATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
* *
9602546 GGTCTTATACAGT-AGCATATATCAC-ACC
66 GGTCTTACAC-GTAAGCACATATCACAACC
* *
9602574 GATGCCATATCTCAGATATGGTCTT
1 GATGCCATAGCCCAGATATGGTCTT
9602599 GTACGAAAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
91 30 0.30
92 7 0.07
93 24 0.24
94 1 0.01
95 36 0.36
96 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (94 bp):
GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
GGTCTTACACGTAAGCACATATCACAACC
Found at i:9602656 original size:31 final size:31
Alignment explanation
Indices: 9602621--9602738 Score: 184
Period size: 31 Copynumber: 3.8 Consensus size: 31
9602611 CTTGTCACTT
*
9602621 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
9602652 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
9602683 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
9602714 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
9602739 TGTCATTTGT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
30 2 0.03
31 76 0.95
32 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:9602820 original size:50 final size:50
Alignment explanation
Indices: 9602714--9602890 Score: 284
Period size: 50 Copynumber: 3.5 Consensus size: 50
9602704 CACTGATCAG
* * * * *
9602714 GTAGCTGAAGCTACCACTTTTCACTTGTCA-TTTGTCATTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
9602765 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
9602815 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
9602865 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
9602891 GTTGCCATGG
Statistics
Matches: 120, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
50 94 0.78
51 26 0.22
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
Found at i:9605971 original size:22 final size:19
Alignment explanation
Indices: 9605939--9605986 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
9605929 TTGTTGAGAT
9605939 ATTGATGAATTAAGCTTGAA
1 ATTGATGAATTAAG-TTGAA
*
9605959 ATTGATAGAAATTAAGTTTAA
1 ATTGAT-G-AATTAAGTTGAA
9605980 ATT-ATGA
1 ATTGATGA
9605987 TAAGGACTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 1 0.04
20 8 0.32
21 8 0.32
22 7 0.28
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.38
Consensus pattern (19 bp):
ATTGATGAATTAAGTTGAA
Found at i:9608094 original size:16 final size:16
Alignment explanation
Indices: 9608073--9608105 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9608063 CTTTTTCCTT
9608073 TTTCTTTATATTT-TTA
1 TTTCTTT-TATTTATTA
9608089 TTTCTTTTATTTATTA
1 TTTCTTTTATTTATTA
9608105 T
1 T
9608106 AACTATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCTTTTATTTATTA
Found at i:9608122 original size:24 final size:23
Alignment explanation
Indices: 9608095--9608145 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
9608085 TTTATTTCTT
9608095 TTATTTATTATAACTATTAT-ATTA
1 TTATTTATTATAA--ATTATAATTA
*
9608119 TTA--TATTTTAAATTATAATTA
1 TTATTTATTATAAATTATAATTA
9608140 TTATTT
1 TTATTT
9608146 CTTAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
20 5 0.22
21 7 0.30
22 7 0.30
23 1 0.04
24 3 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTTATTATAAATTATAATTA
Found at i:9608142 original size:21 final size:21
Alignment explanation
Indices: 9608110--9608157 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
9608100 TATTATAACT
9608110 ATTAT-ATTATTATATT-TTAA
1 ATTATAATTATTAT-TTCTTAA
9608130 ATTATAATTATTATTTCTTAA
1 ATTATAATTATTATTTCTTAA
*
9608151 ATAATAA
1 ATTATAA
9608158 GTAAATACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATAATTATTATTTCTTAA
Found at i:9610221 original size:9 final size:9
Alignment explanation
Indices: 9610209--9610242 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
9610199 GAGAAAATTG
9610209 AGAGAGTTA
1 AGAGAGTTA
*
9610218 AGAGAGTTC
1 AGAGAGTTA
*
9610227 AGAGAATTA
1 AGAGAGTTA
9610236 AGAGAGT
1 AGAGAGT
9610243 AGGATTTGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.03, G:0.32, T:0.21
Consensus pattern (9 bp):
AGAGAGTTA
Found at i:9610831 original size:24 final size:22
Alignment explanation
Indices: 9610785--9610832 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
9610775 TTAAAGATAA
* *
9610785 TAAATATAATTTATCCTATTTT
1 TAAATATAATTTATCCAAATTT
9610807 TAAATATATATTTATCACAAATTT
1 TAAATATA-ATTTATC-CAAATTT
9610831 TA
1 TA
9610833 TTTTATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 7 0.32
24 7 0.32
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAATATAATTTATCCAAATTT
Found at i:9616612 original size:22 final size:22
Alignment explanation
Indices: 9616583--9616636 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
9616573 TAGCACGTTA
*
9616583 AGTGCTCTCTGTTTAGCACATCT
1 AGTGCTCTCTGTATAGCAC-TCT
*
9616606 -GTGCTCTCTGTATAGCACTTT
1 AGTGCTCTCTGTATAGCACTCT
9616627 AGTGCTCTCT
1 AGTGCTCTCT
9616637 ATTCGTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.41
Consensus pattern (22 bp):
AGTGCTCTCTGTATAGCACTCT
Found at i:9624447 original size:2 final size:2
Alignment explanation
Indices: 9624440--9624478 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
9624430 ATGGACAGGT
* * *
9624440 TC TC TC TC TC TG TC TC TT TC TC TC TC TT TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9624479 TGGCATTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.41, G:0.03, T:0.56
Consensus pattern (2 bp):
TC
Found at i:9627805 original size:13 final size:15
Alignment explanation
Indices: 9627775--9627813 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
9627765 TTTTTATACT
9627775 ATTTATATTTTTTGA
1 ATTTATATTTTTTGA
9627790 ATTTA-ATTTTTT-A
1 ATTTATATTTTTTGA
*
9627803 ATTTTTATTTT
1 ATTTATATTTT
9627814 CAAAAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 5 0.23
14 12 0.55
15 5 0.23
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
ATTTATATTTTTTGA
Found at i:9628802 original size:14 final size:13
Alignment explanation
Indices: 9628771--9628811 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
9628761 ATATATAACT
9628771 TTTAATATT--TA
1 TTTAATATTAATA
9628782 TTTAATATTAATA
1 TTTAATATTAATA
*
9628795 TATTAATATAAATA
1 T-TTAATATTAATA
9628809 TTT
1 TTT
9628812 TTCAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 9 0.35
13 5 0.19
14 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTAATATTAATA
Found at i:9629458 original size:18 final size:18
Alignment explanation
Indices: 9629411--9629459 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
9629401 AAATTATAAT
9629411 AAAATTAA-TATTTAAAA
1 AAAATTAATTATTTAAAA
9629428 AAAACTATAAATTATTTAAAA
1 AAAA-T-T-AATTATTTAAAA
*
9629449 ATAATTAATTA
1 AAAATTAATTA
9629460 AGATTAAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 2 0.07
20 3 0.11
21 12 0.44
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATTAATTATTTAAAA
Found at i:9634457 original size:21 final size:22
Alignment explanation
Indices: 9634426--9634472 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
9634416 ATATTTAGAC
* *
9634426 GAGTGATACTCCACAGCAGGTG
1 GAGTGATACTCCAAAACAGGTG
9634448 GAGTG-TACTCCAAAACAGGTG
1 GAGTGATACTCCAAAACAGGTG
9634469 GAGT
1 GAGT
9634473 TTGAGCAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.30, C:0.19, G:0.32, T:0.19
Consensus pattern (22 bp):
GAGTGATACTCCAAAACAGGTG
Found at i:9635936 original size:18 final size:15
Alignment explanation
Indices: 9635896--9635931 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
9635886 CTACCTTACA
9635896 GTCTACAGTAGCTGT
1 GTCTACAGTAGCTGT
9635911 GTCTACAGTAGCTGT
1 GTCTACAGTAGCTGT
9635926 GTCTAC
1 GTCTAC
9635932 TACAGAGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.33
Consensus pattern (15 bp):
GTCTACAGTAGCTGT
Found at i:9652366 original size:26 final size:26
Alignment explanation
Indices: 9652337--9652444 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
9652327 TGGTACAAAT
9652337 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9652363 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9652389 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9652415 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9652441 TGAT
1 TGAT
9652445 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9653649 original size:16 final size:15
Alignment explanation
Indices: 9653623--9653652 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9653613 ACTAGATTGG
9653623 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
9653638 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
9653653 TCGGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:9654109 original size:27 final size:27
Alignment explanation
Indices: 9654069--9654209 Score: 164
Period size: 27 Copynumber: 5.2 Consensus size: 27
9654059 AGGAAGCGTC
*
9654069 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
9654096 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
9654122 CCTGGCGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
9654150 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
9654177 CTGGTGGCTCTACCACAA-TATCTATAT
1 CTGGTGGCTCTGCCACAATTATCT-GAT
9654204 CTGGTG
1 CTGGTG
9654210 ACTTCGTCAC
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.10
27 84 0.86
28 4 0.04
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:9654148 original size:54 final size:54
Alignment explanation
Indices: 9654066--9654209 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
9654056 TGGAGGAAGC
9654066 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
9654120 GTCCTGGCGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * *
9654174 GTTCTGGTGGCTCTACCACAA-TATCTATATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCT-GATCTGGTG
9654210 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:9654221 original size:81 final size:80
Alignment explanation
Indices: 9654069--9654227 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 80
9654059 AGGAAGCGTC
* * *
9654069 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGCGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTATCCTGGCGACTAT
9654134 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * *
9654150 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTACCACA-ATATCTATATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTACCACATATATCTAT-CCTGGCGACT
*
9654213 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
9654228 GCAGCCTCGC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
80 16 0.24
81 51 0.76
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTATCCTGGCGACTAT
GCCACAATATCTGAT
Found at i:9657646 original size:16 final size:15
Alignment explanation
Indices: 9657625--9657669 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
9657615 TCATGATTAC
9657625 TATATATTAGTGTATA
1 TATATATTA-TGTATA
*
9657641 TATATATT-TTTATA
1 TATATATTATGTATA
9657655 TATATA-TATGTATA
1 TATATATTATGTATA
9657669 T
1 T
9657670 GTTTTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 17 0.65
16 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (15 bp):
TATATATTATGTATA
Found at i:9657680 original size:23 final size:24
Alignment explanation
Indices: 9657641--9657693 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
9657631 TTAGTGTATA
9657641 TATATATTTTTATATATATATATG
1 TATATATTTTTATATATATATATG
* *
9657665 TATATGTTTTTA-ATATATTTATG
1 TATATATTTTTATATATATATATG
9657688 TATATA
1 TATATA
9657694 CTTATGTAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (24 bp):
TATATATTTTTATATATATATATG
Found at i:9657785 original size:30 final size:30
Alignment explanation
Indices: 9657733--9657804 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
9657723 ATCCCTAATA
*
9657733 ATTATGTATTATGTAAATA-TTTTAATATTAT
1 ATTATGTA-TATCTAAATATTTTTAATA-TAT
* **
9657764 ATTATGTATATCTATATATTTTTCGTATAT
1 ATTATGTATATCTAAATATTTTTAATATAT
9657794 ATTATGTATAT
1 ATTATGTATAT
9657805 ATGTTTTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 22 0.61
31 14 0.39
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.56
Consensus pattern (30 bp):
ATTATGTATATCTAAATATTTTTAATATAT
Found at i:9657817 original size:24 final size:25
Alignment explanation
Indices: 9657776--9657831 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
9657766 TATGTATATC
*
9657776 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
9657800 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
9657825 TATATAT
1 TATATAT
9657832 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:9657912 original size:19 final size:19
Alignment explanation
Indices: 9657888--9657924 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9657878 CTATTTTATA
*
9657888 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
9657907 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
9657925 ATTATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:9658013 original size:9 final size:9
Alignment explanation
Indices: 9657995--9658030 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
9657985 TCATTTCTAA
9657995 TATATATAT
1 TATATATAT
*
9658004 TATATGTAT
1 TATATATAT
*
9658013 TTTATATAT
1 TATATATAT
9658022 TATATATAT
1 TATATATAT
9658031 ATTTTAATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (9 bp):
TATATATAT
Found at i:9658018 original size:20 final size:20
Alignment explanation
Indices: 9657994--9658036 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
9657984 ATCATTTCTA
*
9657994 ATATATATATTATATGTATTTT
1 ATATAT-TA-TATATATATTTT
9658016 ATATATTATATATATATTTT
1 ATATATTATATATATATTTT
9658036 A
1 A
9658037 ATGTTATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 2 0.10
22 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
ATATATTATATATATATTTT
Found at i:9658326 original size:37 final size:35
Alignment explanation
Indices: 9658261--9658330 Score: 81
Period size: 37 Copynumber: 1.9 Consensus size: 35
9658251 TTATATATAG
9658261 TATTATTTTCATACATTATCATATTTATTATTATACC
1 TATTATTTTCATA-ATTATCATATTTATT-TTATACC
9658298 TATTATTTTCACT-ATTATCACT-TATTATTTTAT
1 TATTATTTTCA-TAATTATCA-TAT-TTATTTTAT
9658331 TTTAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
36 12 0.40
37 17 0.57
38 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (35 bp):
TATTATTTTCATAATTATCATATTTATTTTATACC
Found at i:9662166 original size:46 final size:44
Alignment explanation
Indices: 9662062--9662169 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
9662052 TGTCTTTGAC
** * * *
9662062 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
9662106 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
9662152 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
9662170 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:9669530 original size:46 final size:44
Alignment explanation
Indices: 9669426--9669533 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
9669416 TGTCTTTGAC
** * * *
9669426 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
9669470 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
9669516 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
9669534 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:9679286 original size:46 final size:45
Alignment explanation
Indices: 9679235--9679401 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 45
9679225 GACGAGGGCT
9679235 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATGAGAGCC
* * *
9679281 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGAGAGCC
* * * * * *
9679327 AGTGTCAGACATGTCTGGGACATGCGTCGGCTAC-GA-GATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGA-GAGCC
* *
9679371 AGTGTAAGACATGTATGGGACATGCGTCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
9679402 ACGGTTACAT
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.02
44 32 0.30
46 70 0.66
47 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGAGAGCC
Found at i:9679331 original size:92 final size:90
Alignment explanation
Indices: 9679184--9679395 Score: 246
Period size: 92 Copynumber: 2.3 Consensus size: 90
9679174 AGATTTGTGT
* * * *
9679184 GCCAGTGTAAGACCATGTATGAGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTATGGGACAT-GCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGT
9679249 CTGGGACATGCATCAGCCAC-AGTATGAGA
64 CTGGGACATGCATCAGCCACGAG-AT--GA
* * * * *
9679278 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATAGCCAGTGTCAGACATGTCT
1 GCCAGTGTAAGACATGTATGGGACATGCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGTCT
* * * *
9679343 GGGACATGCGTCGGCTACGAGATGT
66 GGGACATGCATCAGCCACGAGATGA
*
9679368 GCTAGTGTAAGACATGTATGGGACATGC
1 GCCAGTGTAAGACATGTATGGGACATGC
9679396 GTCAGCACGG
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
90 27 0.26
92 49 0.48
93 14 0.14
94 12 0.12
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (90 bp):
GCCAGTGTAAGACATGTATGGGACATGCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGTCT
GGGACATGCATCAGCCACGAGATGA
Found at i:9679436 original size:46 final size:43
Alignment explanation
Indices: 9679235--9679438 Score: 162
Period size: 46 Copynumber: 4.5 Consensus size: 43
9679225 GACGAGGGCT
* * * *
9679235 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGA-CAT--GTG-C
* * *
9679281 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCGTCAG-CTACGACATG-T-G-C
* * *
9679327 AGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGTGC
1 AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTGC
*
9679370 TAGTGTAAGACATGTATGGGACATGCGTCAGC-ACGGTTACATGTGTC
1 -AGTGTAAGACATGTCTGGGACATGCGTCAGCTAC-G--ACATGTG-C
*
9679417 AGTGTAAGACCTGTCTGGGACA
1 AGTGTAAGACATGTCTGGGACA
9679439 CGGCATCGAC
Statistics
Matches: 136, Mismatches: 12, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
43 3 0.02
44 31 0.23
45 3 0.02
46 96 0.71
47 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTGC
Found at i:9689611 original size:74 final size:74
Alignment explanation
Indices: 9689533--9689826 Score: 317
Period size: 74 Copynumber: 3.9 Consensus size: 74
9689523 TTCTGTTTCA
*
9689533 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATC
9689598 TATTTTTTT
66 TATTTTTTT
**
9689607 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTT-AAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATT-TTCAAT
*
9689671 -T-TTTGTTT
65 CTATTTTTTT
* * ** * *
9689679 -CAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTCAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAA--
9689743 TCTGTTCAATTTATGTTTTT
64 TC---T--A--T-T-TTTTT
* ** * *
9689763 CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGATATTTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAAT
9689827 TAATGTTTTT
Statistics
Matches: 181, Mismatches: 23, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
70 2 0.01
71 51 0.28
72 6 0.03
73 2 0.01
74 58 0.32
75 2 0.01
77 1 0.01
82 1 0.01
83 2 0.01
84 4 0.02
85 52 0.29
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (74 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATC
TATTTTTTT
Found at i:9689724 original size:71 final size:72
Alignment explanation
Indices: 9689533--9689748 Score: 301
Period size: 71 Copynumber: 3.0 Consensus size: 72
9689523 TTCTGTTTCA
9689533 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAAT-
*
9689598 TATTTTTTT
65 T-TTTGTTT
** *
9689607 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTT-AAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATT-TTCAAT
9689671 TTTTGTTT
65 TTTTGTTT
* * ** *
9689679 -CAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTCAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
*
9689743 TCTGTT
66 TTTGTT
9689749 CAATTTATGT
Statistics
Matches: 127, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
70 2 0.02
71 58 0.46
72 6 0.05
73 1 0.01
74 58 0.46
75 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (72 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
TTTGTTT
Found at i:9689936 original size:14 final size:13
Alignment explanation
Indices: 9689910--9689945 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
9689900 TGCCGAGGTA
9689910 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
9689923 TTTTGCAAATTCTG
1 TTTT-CAAAATCTG
9689937 TTTTCAAAA
1 TTTTCAAAA
9689946 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:9689970 original size:88 final size:87
Alignment explanation
Indices: 9689676--9689978 Score: 312
Period size: 89 Copynumber: 3.5 Consensus size: 87
9689666 TTAATTTTTG
* * * *
9689676 TTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC-GTTC-AGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACTG-CCGAGGTATTTTC
** * *
9689739 AATTTCTG--TTCAATTTATGTT
65 AAAATCTGTTTTCAAATTATGCT
* * * * *
9689760 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC-GCTGAGATATTTTC
1 TTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACTGCCGAGGTATTTTC
* * *
9689824 AATTAATGTTTTTTTAAATTTATGCT
65 AA--AATCTGTTTTCAAA-TTATGCT
* * *
9689850 TTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACAC-TGCCGAGGTATTTTC
*
9689915 AAAATCTGTTTTGCAAATTCTG-T
65 AAAATCTGTTTT-CAAATTATGCT
*
9689938 TTTCAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCT
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
9689979 TTGCTCACGT
Statistics
Matches: 181, Mismatches: 28, Indels: 16
0.80 0.12 0.07
Matches are distributed among these distances:
84 4 0.02
85 51 0.28
87 2 0.01
88 39 0.22
89 58 0.32
90 13 0.07
91 14 0.08
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (87 bp):
TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACTGCCGAGGTATTTTCA
AAATCTGTTTTCAAATTATGCT
Found at i:9690001 original size:88 final size:89
Alignment explanation
Indices: 9689676--9689978 Score: 309
Period size: 85 Copynumber: 3.5 Consensus size: 89
9689666 TTAATTTTTG
* ** * * * * *
9689676 TTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC-GTTCAGGTATTTTCA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACTGCTGAGATATTTTCA
* * *
9689740 AT-TTC-TGTT-C-AATTTATGTT
66 ATAATCTTTTTGCAAATTTATGCT
* *
9689760 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC-GCTGAGATATTTTC
1 TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACTGCTGAGATATTTTC
* **
9689824 AATTAATGTTTTTTTAAATTTATGCT
65 AA-TAATCTTTTTGCAAATTTATGCT
* * *
9689850 TTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC-TGCTGAGATATTTTC
*
9689915 AA-AATCTGTTTTGCAAA-TTCTG-T
65 AATAATCT-TTTTGCAAATTTATGCT
* *
9689938 TTTCAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
9689979 TTGCTCACGT
Statistics
Matches: 184, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
84 4 0.02
85 52 0.28
86 1 0.01
87 1 0.01
88 42 0.23
89 50 0.27
90 20 0.11
91 14 0.08
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (89 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACTGCTGAGATATTTTCA
ATAATCTTTTTGCAAATTTATGCT
Found at i:9692017 original size:30 final size:30
Alignment explanation
Indices: 9691962--9692036 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
9691952 TTTATCCCTA
*
9691962 ATAT-TTATGTATTATGTAAATA-TTTTAAT
1 ATATATTATGTA-TATCTAAATATTTTTAAT
* **
9691991 ATTATATTATGTATATCTATATATTTTTCGT
1 A-TATATTATGTATATCTAAATATTTTTAAT
9692022 ATATATTATGTATAT
1 ATATATTATGTATAT
9692037 ATGTTTTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 25 0.64
31 13 0.33
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.56
Consensus pattern (30 bp):
ATATATTATGTATATCTAAATATTTTTAAT
Found at i:9692049 original size:24 final size:25
Alignment explanation
Indices: 9692008--9692063 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
9691998 TATGTATATC
*
9692008 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
9692032 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
9692057 TATATAT
1 TATATAT
9692064 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:9692144 original size:19 final size:19
Alignment explanation
Indices: 9692120--9692156 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9692110 CTATTTTATA
*
9692120 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
9692139 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
9692157 ATTATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:9692231 original size:2 final size:2
Alignment explanation
Indices: 9692224--9692275 Score: 72
Period size: 2 Copynumber: 27.0 Consensus size: 2
9692214 ATCATTTCTA
* *
9692224 AT AT AT AT AT AT AT AT GT AT -T TT AT AT AT -T 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
9692264 AT AT AT AT AT AT
1 AT AT AT AT AT AT
9692276 TAATGTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
AT
Found at i:9692251 original size:13 final size:13
Alignment explanation
Indices: 9692227--9692275 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
9692217 ATTTCTAATA
9692227 TATATATATATAT
1 TATATATATATAT
*
9692240 GTAT-TTTATATAT
1 -TATATATATATAT
9692253 TATATATATATA-
1 TATATATATATAT
9692265 TATATATATAT
1 TATATATATAT
9692276 TAATGTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 14 0.44
13 15 0.47
14 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
TATATATATATAT
Found at i:9692354 original size:24 final size:24
Alignment explanation
Indices: 9692327--9692372 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
9692317 ATATATTTTT
*
9692327 ATATCATCTTATGTACATATATAA
1 ATATCATCTTATATACATATATAA
* *
9692351 ATATTATGTTATATACATATAT
1 ATATCATCTTATATACATATAT
9692373 GTAATATGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (24 bp):
ATATCATCTTATATACATATATAA
Found at i:9692717 original size:18 final size:19
Alignment explanation
Indices: 9692668--9692718 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
9692658 TTCAAACACT
*
9692668 ATATATAGTATATTTCTAAC
1 ATATATA-TATATTTATAAC
9692688 A-ATAT-TACTATTTATAA-
1 ATATATATA-TATTTATAAC
9692705 ATATATATATATTT
1 ATATATATATATTT
9692719 TACATACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
17 3 0.11
18 17 0.63
19 6 0.22
20 1 0.04
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATATATATATTTATAAC
Found at i:9696795 original size:26 final size:26
Alignment explanation
Indices: 9696766--9696873 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9696756 TGGTACAAAT
9696766 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9696792 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9696818 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9696844 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9696870 TGAT
1 TGAT
9696874 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9698394 original size:27 final size:26
Alignment explanation
Indices: 9698317--9698390 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
9698307 AAAAGTAGCT
* * * *
9698317 AAATTACTATAATACCCCTATGTATGAA
1 AAATTACCATTATACCCCTA-G-GTGCA
*
9698345 AAATTACTATTATACCCCTAGGTGCA
1 AAATTACCATTATACCCCTAGGTGCA
*
9698371 AAATTACCGTTATACCCCTA
1 AAATTACCATTATACCCCTA
9698391 AGGTTAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 21 0.51
27 1 0.02
28 19 0.46
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (26 bp):
AAATTACCATTATACCCCTAGGTGCA
Found at i:9698576 original size:32 final size:27
Alignment explanation
Indices: 9698496--9698582 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
9698486 AGGAAGCGTC
* *
9698496 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
9698523 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
9698550 CTGGTGGCTCTGCCACA-ATATCTATAT
1 CTGGTGGCTCTGCCACATATATCT-GAT
9698577 CTGGTG
1 CTGGTG
9698583 ACTTCGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 6 0.11
27 48 0.89
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:9710972 original size:6 final size:6
Alignment explanation
Indices: 9710961--9710986 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9710951 GATATAATTC
9710961 TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TT
9710987 TAAGCTCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (6 bp):
TTAGGG
Found at i:9712724 original size:41 final size:41
Alignment explanation
Indices: 9712662--9712749 Score: 167
Period size: 41 Copynumber: 2.1 Consensus size: 41
9712652 TACTTCGAGA
*
9712662 AACCCTAATCAAAGTTAAACCTTAATTCCTCTCTTAAATCG
1 AACCATAATCAAAGTTAAACCTTAATTCCTCTCTTAAATCG
9712703 AACCATAATCAAAGTTAAACCTTAATTCCTCTCTTAAATCG
1 AACCATAATCAAAGTTAAACCTTAATTCCTCTCTTAAATCG
9712744 AACCAT
1 AACCAT
9712750 TCTTTCCCTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.31
Consensus pattern (41 bp):
AACCATAATCAAAGTTAAACCTTAATTCCTCTCTTAAATCG
Found at i:9714655 original size:21 final size:23
Alignment explanation
Indices: 9714625--9714679 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 23
9714615 TTAATGGTTC
9714625 AATATAAATATATATT-ATTATT-T
1 AATAT-AATATA-ATTAATTATTAT
*
9714648 AAT-TAATATAATTAATTTTTAT
1 AATATAATATAATTAATTATTAT
9714670 AATATAATAT
1 AATATAATAT
9714680 TTGAATTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 3 0.11
21 11 0.39
22 5 0.18
23 9 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATATAATATAATTAATTATTAT
Found at i:9720371 original size:31 final size:30
Alignment explanation
Indices: 9720280--9720373 Score: 107
Period size: 31 Copynumber: 3.1 Consensus size: 30
9720270 ATATTTATTT
*
9720280 TTTTAAATATATAATTAAATTAAAATAAAAA
1 TTTTAAATATATAATTAAACT-AAATAAAAA
** * *
9720311 TTTTATGTATATATTTAAACCATAATAAAAA
1 TTTTAAATATATAATTAAACTA-AATAAAAA
* *
9720342 TTTTAAATATATAATTACACTAAATTAAAA
1 TTTTAAATATATAATTAAACTAAATAAAAA
9720372 TT
1 TT
9720374 CATTACTATT
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
30 10 0.20
31 41 0.80
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (30 bp):
TTTTAAATATATAATTAAACTAAATAAAAA
Found at i:9732690 original size:12 final size:12
Alignment explanation
Indices: 9732673--9732698 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9732663 ACACCTGCAA
9732673 CAAATTAAATGC
1 CAAATTAAATGC
9732685 CAAATTAAATGC
1 CAAATTAAATGC
9732697 CA
1 CA
9732699 CAAAAGCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (12 bp):
CAAATTAAATGC
Found at i:9734489 original size:23 final size:23
Alignment explanation
Indices: 9734419--9734489 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 23
9734409 ACTTATTTTA
*
9734419 AATTTTCTTTTACATATATTCTATT
1 AATTTT-TTTTACAT-TATTATATT
9734444 --TTTTTTTGTACATTATTGATATT
1 AATTTTTTT-TACATTATT-ATATT
9734467 AATTTTTTTTCACATTATT-TATT
1 AATTTTTTTT-ACATTATTATATT
9734490 TTAAATTCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
22 7 0.17
23 17 0.43
24 1 0.03
25 15 0.38
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.63
Consensus pattern (23 bp):
AATTTTTTTTACATTATTATATT
Found at i:9734493 original size:25 final size:24
Alignment explanation
Indices: 9734411--9734493 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 24
9734401 TGTATCTTAC
9734411 TTATTTTAAATTTTCTTTTACATATAT
1 TTATTTT-AATTTT-TTTTACAT-TAT
*
9734438 TCTA-TTT--TTTTTTGTACATTAT
1 T-TATTTTAATTTTTTTTACATTAT
* *
9734460 TGATATTAATTTTTTTTCACATTAT
1 TTATTTTAATTTTTTTT-ACATTAT
9734485 TTATTTTAA
1 TTATTTTAA
9734494 ATTCATTTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
21 1 0.02
22 6 0.13
23 7 0.16
24 11 0.24
25 14 0.31
27 4 0.09
28 2 0.04
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (24 bp):
TTATTTTAATTTTTTTTACATTAT
Found at i:9742277 original size:7 final size:7
Alignment explanation
Indices: 9742259--9742291 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
9742249 AAATAGGAGA
9742259 TATTATTT
1 TATTA-TT
9742267 TATTATT
1 TATTATT
9742274 TATTATT
1 TATTATT
9742281 TATTATT
1 TATTATT
9742288 TATT
1 TATT
9742292 TTATTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TATTATT
Found at i:9747410 original size:26 final size:26
Alignment explanation
Indices: 9747381--9747447 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 26
9747371 GGCTCCAAAC
*
9747381 GAACTGCGCATAAAGTACTTGAATGT
1 GAACTGCGCATAAAGTACTTGAATAT
*
9747407 GAACTACGCATAAAGTACTTGAATAT
1 GAACTGCGCATAAAGTACTTGAATAT
*
9747433 GAACTGCGCAAAAAG
1 GAACTGCGCATAAAG
9747448 ACAAGATCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.22
Consensus pattern (26 bp):
GAACTGCGCATAAAGTACTTGAATAT
Found at i:9749732 original size:47 final size:46
Alignment explanation
Indices: 9749623--9749733 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 46
9749613 CCGGGATAAG
* *
9749623 CACATAGTGCTTCATCCGAACAAATCCGAAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAG-A
* * *
9749670 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCA-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-T-AGA
9749717 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
9749734 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 1 0.02
49 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (46 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGA
Found at i:9752568 original size:7 final size:7
Alignment explanation
Indices: 9752556--9752582 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9752546 ATTATTTTAT
9752556 TTTATTA
1 TTTATTA
9752563 TTTATTA
1 TTTATTA
9752570 TTTATTA
1 TTTATTA
9752577 TTTATT
1 TTTATT
9752583 TTATTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTA
Found at i:9769617 original size:40 final size:38
Alignment explanation
Indices: 9769500--9769627 Score: 160
Period size: 35 Copynumber: 3.5 Consensus size: 38
9769490 CATGGCAAAG
9769500 TGTGAAATGTAGGTAT-G-G-TATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTGTTATCATCCATACTGAGT
* *
9769535 TGTGAAATGTAGGTATGGTATTATC-T--ATACTGAGC
1 TGTGAAATGTAGGTATGGTGTTATCATCCATACTGAGT
9769570 TGTGAAATGTAGGTATGGTGTTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTGTTATC--ATCCATACTGAGT
**
9769610 TAAGAAATGTAGGTATGG
1 TGTGAAATGTAGGTATGG
9769628 CATTTCCCAT
Statistics
Matches: 79, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
35 48 0.61
36 1 0.01
37 1 0.01
38 5 0.06
40 24 0.30
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.34
Consensus pattern (38 bp):
TGTGAAATGTAGGTATGGTGTTATCATCCATACTGAGT
Found at i:9769653 original size:75 final size:72
Alignment explanation
Indices: 9769504--9769663 Score: 184
Period size: 75 Copynumber: 2.2 Consensus size: 72
9769494 GCAAAGTGTG
** * *
9769504 AAATGTAGGTAT-G-GTATCATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCTATACTG
1 AAATGTAGGTATGGTGTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATTATCCATACTG
**
9769567 AGCTGTG
66 AGCTGAA
9769574 AAATGTAGGTATGGTGTTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TCCCAT
1 AAATGTAGGTATGGTG-TATC--ATCCATACTGAGTTAAGAAATGTAGGTATGGCATTAT-CCAT
*
9769638 ACCT-AGTTGAA
62 A-CTGAGCTGAA
9769649 AAATGTAGGTATGGT
1 AAATGTAGGTATGGT
9769664 ATTTCAATGA
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
70 12 0.16
71 1 0.01
72 1 0.01
73 4 0.05
74 1 0.01
75 55 0.72
76 2 0.03
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (72 bp):
AAATGTAGGTATGGTGTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATTATCCATACTG
AGCTGAA
Found at i:9777090 original size:40 final size:38
Alignment explanation
Indices: 9776985--9777151 Score: 165
Period size: 35 Copynumber: 4.6 Consensus size: 38
9776975 CATGGCAAAG
*
9776985 TGTGAAATTTAGGTATGG---TATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCATCCATACTGAGT
*
9777020 TGTGAAATGTAGGTATGGTATTATC-T--ATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCATCCATACTGAGT
*
9777055 TGTGAAATATAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATC--ATCCATACTGAGT
** *
9777095 TAAGAAATGTAGGTATGGCATT-TC--CCATACCT-AGT
1 TGTGAAATGTAGGTATGGTATTATCATCCATA-CTGAGT
**
9777130 TGAAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
9777152 TCAATGAGGA
Statistics
Matches: 112, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
35 76 0.68
36 2 0.02
37 1 0.01
38 5 0.04
39 2 0.02
40 26 0.23
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (38 bp):
TGTGAAATGTAGGTATGGTATTATCATCCATACTGAGT
Found at i:9777143 original size:75 final size:74
Alignment explanation
Indices: 9777007--9777155 Score: 185
Period size: 75 Copynumber: 2.0 Consensus size: 74
9776997 GTATGGTATC
** * * **
9777007 ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCTATACTGAGCTGTGAAATATAGGTATG
1 ATCCATACTGAGTTAAGAAATGTAGGTATGGCATTATCCATACTGAGCTGAAAAATATAGGTATG
9777072 GTATTATCAA
66 GTATT-TCAA
* *
9777082 ATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TCCCATACCT-AGTTGAAAAATGTAGGTA
1 ATCCATACTGAGTTAAGAAATGTAGGTATGGCATTAT-CCATA-CTGAGCTGAAAAATATAGGTA
9777145 TGGTATTTCAA
64 TGGTATTTCAA
9777156 TGAGGAAAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
74 5 0.08
75 57 0.89
76 2 0.03
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (74 bp):
ATCCATACTGAGTTAAGAAATGTAGGTATGGCATTATCCATACTGAGCTGAAAAATATAGGTATG
GTATTTCAA
Found at i:9781055 original size:44 final size:44
Alignment explanation
Indices: 9780988--9781290 Score: 272
Period size: 44 Copynumber: 6.9 Consensus size: 44
9780978 TATCATGGTG
9780988 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC-A
*
9781033 AAT-TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
* * * ** *
9781076 AA-CCT-TCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
* * * *
9781118 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATAGAAACCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
* * ** * **
9781162 AGTCTCATCTCCCTGAAGTTGCAGTGGAGTGGACTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CA
* * * * * *** *
9781207 AATCTTATTTTCCTGAAGTTGCAGAGAAGAAGATTGAAAATACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
* * * *
9781251 AGTCTCATC-CCACTGAAGTTGCAGTGGAGTAGATCGAAGC
1 AATCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTGAAGC
9781291 TCCAAGTCTC
Statistics
Matches: 204, Mismatches: 49, Indels: 11
0.77 0.19 0.04
Matches are distributed among these distances:
42 33 0.16
43 7 0.03
44 128 0.63
45 36 0.18
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
Found at i:9781143 original size:86 final size:88
Alignment explanation
Indices: 9780994--9781190 Score: 256
Period size: 86 Copynumber: 2.3 Consensus size: 88
9780984 GGTGAATCTT
*
9780994 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAATTTATCTCCCTAAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAATTTATCTCCCTAAAGTTACAGTGG
* *
9781059 AGCAGATTGAAGCCAC-AAAC-C
66 AGCAGATAGAAACCACTAAACTC
* * * ** * *
9781080 TTCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTAC-GAATCTTATCTCCCTGAAGTTACAGTG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAAT-TTATCTCCCTAAAGTTACAGTG
**
9781144 GAGCAGATAGAAACCACTAGTCTC
65 GAGCAGATAGAAACCACTAAACTC
9781168 ATCTCCCTGAAGTTGCAGTGGAG
1 ATCTCCCTGAAGTTGCAGTGGAG
9781191 TGGACTGAAG
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
85 3 0.03
86 67 0.71
87 2 0.02
88 22 0.23
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (88 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAATTTATCTCCCTAAAGTTACAGTGG
AGCAGATAGAAACCACTAAACTC
Found at i:9781259 original size:89 final size:87
Alignment explanation
Indices: 9781081--9781280 Score: 222
Period size: 89 Copynumber: 2.3 Consensus size: 87
9781071 CCACAAACCT
* * * * * * *
9781081 TCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACGAATCTTATCTCCCTGAAGTTACAGTGGA
1 TCTCCCTGAAGTTGCAGTGGAG-TGGCTGAAGATACAAATCTTATCTCCCTGAAGTTACAGAGAA
* * *
9781146 GCAGATAGAAACCACTAGTCTCA
65 GAAGATAGAAAACACGAGTCTCA
* * *
9781169 TCTCCCTGAAGTTGCAGTGGAGTGGACTGAAGATAGCAAATCTTATTTTCCTGAAGTTGCAGAGA
1 TCTCCCTGAAGTTGCAGTGGAGTGG-CTGAAGATA-CAAATCTTATCTCCCTGAAGTTACAGAGA
* *
9781234 AGAAGATTGAAAATACGAGTCTCA
64 AGAAGATAGAAAACACGAGTCTCA
9781258 TC-CCACTGAAGTTGCAGTGGAGT
1 TCTCC-CTGAAGTTGCAGTGGAGT
9781281 AGATCGAAGC
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
87 2 0.02
88 30 0.32
89 62 0.66
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (87 bp):
TCTCCCTGAAGTTGCAGTGGAGTGGCTGAAGATACAAATCTTATCTCCCTGAAGTTACAGAGAAG
AAGATAGAAAACACGAGTCTCA
Found at i:9783122 original size:26 final size:24
Alignment explanation
Indices: 9783093--9783217 Score: 61
Period size: 28 Copynumber: 4.7 Consensus size: 24
9783083 TATATTTTTC
9783093 TATTTAAACAGTTTTTATACATTATT
1 TATTTAAA-A-TTTTTATACATTATT
* * *
9783119 TATTTCAAATTTCTTTTTTCATATTATT
1 TATTT-AAA-AT-TTTTAT-ACATTATT
* *
9783147 TATTCTAAATATTTTTTTACGTTATT
1 TATT-TAAA-ATTTTTATACATTATT
* *
9783173 TATGTTAAACCATTTTATATATATTATC
1 TAT-TTAAA--ATTTT-TATACATTATT
* *
9783201 TATTTTAAGTTTTTATA
1 TATTTAAAATTTTTATA
9783218 TGTTATTCTG
Statistics
Matches: 78, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
24 4 0.05
25 4 0.05
26 19 0.24
27 24 0.31
28 26 0.33
29 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.58
Consensus pattern (24 bp):
TATTTAAAATTTTTATACATTATT
Found at i:9783136 original size:28 final size:27
Alignment explanation
Indices: 9783104--9783175 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
9783094 ATTTAAACAG
* *
9783104 TTTTTATACATTATTTATTTC-AAATT
1 TTTTTTTACATTATTTATTTCTAAATA
*
9783130 TCTTTTTTCATATTATTTA-TTCTAAATA
1 T-TTTTTT-ACATTATTTATTTCTAAATA
*
9783158 TTTTTTTACGTTATTTAT
1 TTTTTTTACATTATTTAT
9783176 GTTAAACCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 9 0.24
27 14 0.38
28 14 0.38
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTTTTTACATTATTTATTTCTAAATA
Found at i:9783385 original size:15 final size:16
Alignment explanation
Indices: 9783343--9783393 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
9783333 TTTATATATT
*
9783343 TTTTATATATTATTTA
1 TTTTAAATATTATTTA
*
9783359 CTTTAAAT-TTATTT-
1 TTTTAAATATTATTTA
*
9783373 TTTTACATATTATTTA
1 TTTTAAATATTATTTA
9783389 TTTTA
1 TTTTA
9783394 GACTTTCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 6 0.21
15 12 0.41
16 11 0.38
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTAAATATTATTTA
Found at i:9783600 original size:22 final size:22
Alignment explanation
Indices: 9783555--9783601 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9783545 ATTTTTTATG
* *
9783555 TATTACTTATTTAAAATTGTTT
1 TATTACTTATTTAAAATGGCTT
* *
9783577 TATTATTTATTTTAAATGGCTT
1 TATTACTTATTTAAAATGGCTT
9783599 TAT
1 TAT
9783602 GTTATTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (22 bp):
TATTACTTATTTAAAATGGCTT
Found at i:9786226 original size:22 final size:22
Alignment explanation
Indices: 9786201--9786244 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9786191 TTAGTCAAAT
* **
9786201 TTTTAAATTTTTATTTTAATTA
1 TTTTAAATATTTAAATTAATTA
9786223 TTTTAAATATTTAAATTAATTA
1 TTTTAAATATTTAAATTAATTA
9786245 AATTTTCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTAAATATTTAAATTAATTA
Found at i:9786265 original size:17 final size:17
Alignment explanation
Indices: 9786240--9786276 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9786230 TATTTAAATT
9786240 AATTAAATTTTC-ATAA
1 AATTAAATTTTCTATAA
9786256 AATTATAATTTTCTATAA
1 AATTA-AATTTTCTATAA
9786274 AAT
1 AAT
9786277 ATTTTTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 7 0.37
18 7 0.37
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAAATTTTCTATAA
Found at i:9791539 original size:37 final size:37
Alignment explanation
Indices: 9791493--9791567 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
9791483 TAATAAAACG
* * *
9791493 CACCGAAGTGCTATGCCCGAAGGCCAAAACAATATCA
1 CACCAAAGTGATATGCCCAAAGGCCAAAACAATATCA
* *
9791530 CACCAAAGTGATATGCCCAAAGGCCAGAACAGTATCA
1 CACCAAAGTGATATGCCCAAAGGCCAAAACAATATCA
9791567 C
1 C
9791568 GTCAAATTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.39, C:0.29, G:0.19, T:0.13
Consensus pattern (37 bp):
CACCAAAGTGATATGCCCAAAGGCCAAAACAATATCA
Found at i:9794222 original size:25 final size:25
Alignment explanation
Indices: 9794193--9794244 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
9794183 AAGAATAATT
**
9794193 TGAATATTTGATATTGCCTAATAAA
1 TGAATATACGATATTGCCTAATAAA
* *
9794218 TGAATATACGATATTGCTTAGTAAA
1 TGAATATACGATATTGCCTAATAAA
9794243 TG
1 TG
9794245 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATACGATATTGCCTAATAAA
Found at i:9797767 original size:21 final size:21
Alignment explanation
Indices: 9797737--9797780 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
9797727 TTAAATAAAG
*
9797737 TATGGGTCAAATATGTGTAGA
1 TATGGATCAAATATGTGTAGA
9797758 TATGGATCAAATATGTGTAGA
1 TATGGATCAAATATGTGTAGA
9797779 TA
1 TA
9797781 CTTTAGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (21 bp):
TATGGATCAAATATGTGTAGA
Found at i:9807088 original size:29 final size:29
Alignment explanation
Indices: 9807046--9807101 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
9807036 TTTCTATCTC
9807046 TTTACATTTTTATAATGTTACTAATTAGT
1 TTTACATTTTTATAATGTTACTAATTAGT
*
9807075 TTTACATTTTTATAATGTTATTAATTA
1 TTTACATTTTTATAATGTTACTAATTA
9807102 ATTGAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (29 bp):
TTTACATTTTTATAATGTTACTAATTAGT
Found at i:9809708 original size:1 final size:1
Alignment explanation
Indices: 9809702--9809728 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
9809692 TCCAGAGCAG
9809702 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
9809729 CAACAACAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9812551 original size:19 final size:19
Alignment explanation
Indices: 9812515--9812551 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9812505 TAATTAGGCT
* *
9812515 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
9812534 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
9812552 GAAAAATGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:9813237 original size:14 final size:15
Alignment explanation
Indices: 9813220--9813248 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9813210 GAAATGAAAT
9813220 AAAGAAAGAA-AGCA
1 AAAGAAAGAATAGCA
9813234 AAAGAAAGAATAGCA
1 AAAGAAAGAATAGCA
9813249 GAAGCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAGAAAGAATAGCA
Found at i:9813565 original size:22 final size:24
Alignment explanation
Indices: 9813538--9813593 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
9813528 TATGGCTATT
9813538 GAAATTGAATGTGA-ATAAATTAA
1 GAAATTGAATGTGATATAAATTAA
* * *
9813561 -AAATTAAAAGTGATTTAAATTAA
1 GAAATTGAATGTGATATAAATTAA
*
9813584 GTAATTGAAT
1 GAAATTGAAT
9813594 TATGAATTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
22 11 0.44
23 8 0.32
24 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (24 bp):
GAAATTGAATGTGATATAAATTAA
Found at i:9813925 original size:16 final size:17
Alignment explanation
Indices: 9813898--9813931 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
9813888 ATATGGAAAA
9813898 GAGAATTTGAATTGAAT
1 GAGAATTTGAATTGAAT
9813915 GAGAA-TTGAATTGAAT
1 GAGAATTTGAATTGAAT
9813931 G
1 G
9813932 GTGAATGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.32
Consensus pattern (17 bp):
GAGAATTTGAATTGAAT
Found at i:9814552 original size:26 final size:25
Alignment explanation
Indices: 9814495--9814553 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
9814485 AAGTATGAGA
**
9814495 AAGTGAAATTATGAATTGAAATGTG
1 AAGTGAAATTATGAATTGAAATACG
*
9814520 AATTGAAATTGA-GATATTGAAATACG
1 AAGTGAAATT-ATGA-ATTGAAATACG
9814546 AAGTGAAA
1 AAGTGAAA
9814554 ATAGAATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.29
Consensus pattern (25 bp):
AAGTGAAATTATGAATTGAAATACG
Found at i:9816096 original size:11 final size:10
Alignment explanation
Indices: 9816068--9816105 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
9816058 ATATAAAGTA
9816068 AAAGAAATAA-
1 AAAGAAA-AAG
9816078 AAAGAAAAAG
1 AAAGAAAAAG
9816088 AATAGAAAAAG
1 AA-AGAAAAAG
9816099 AAAGAAA
1 AAAGAAA
9816106 GGATGAAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 14 0.54
11 10 0.38
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:9818316 original size:46 final size:46
Alignment explanation
Indices: 9818244--9818613 Score: 515
Period size: 46 Copynumber: 8.0 Consensus size: 46
9818234 AGTGTGCTCT
** *
9818244 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
9818290 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
9818336 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
9818382 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
9818428 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
9818474 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
9818520 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
9818566 ATGATAGGAAATGAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATGAAATG-A--A-TAAGACCATGGTTGAAAGATACCATGGCA
9818614 TCATGTCAAA
Statistics
Matches: 297, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
46 270 0.91
47 1 0.00
49 1 0.00
50 25 0.08
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:9825968 original size:125 final size:131
Alignment explanation
Indices: 9825612--9826013 Score: 355
Period size: 125 Copynumber: 3.1 Consensus size: 131
9825602 AATTGTACCA
* * * * * ** *
9825612 AATCGTGTTGGGTTTTGAT-TTTTTCGTTCAACTAAAGTACGGAATAT-CC--TTTGAAAATTTC
1 AATCGTGCTGGGTTTTCATATTTTTCATTCGACTAAAATACAAAATATCCCTTTTTGTAAATTTC
*
9825673 GTCCATGCT-TT-TTAAAATTAAAATGAGGCAATATTTCGTATTTGCGGAGTTTGAGAGATCGTG
66 ATCCATG-TGTTCTT-AAATTAAAATGAGGCAATATTTCGTATTTGCGGAGTTTGAGAGATCGTG
9825736 CCC
129 CCC
* * *** *
9825739 AATCGTGCTGGGTTTTGATTTTTTTTTCATTCGACTAAAATATGGAATATCCCTTTTTTTTAAAA
1 AATCGTGCTGGGTTTTCA--TATTTTTCATTCGACTAAAATACAAAATATCCC-TTTTTGT---A
* * * * * *
9825804 AATTTTATCCATGTTTTCTTAAACTAAAGTGATGCAATATTTCGTGTTT--GGAGGTTTGAGAGA
60 AATTTCATCCATGTGTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGCGGA-GTTTGAGAGA
9825867 TCGTGCCC
124 TCGTGCCC
* *
9825875 AATCGTGCTGGG-TTTCA-ATTTTTCATTCGACTAAGATACAAAATAT-CC-TTTTGT-CATTTC
1 AATCGTGCTGGGTTTTCATATTTTTCATTCGACTAAAATACAAAATATCCCTTTTTGTAAATTTC
* * * * *
9825935 ATCCATGTGTTCTTAAATTAAAATGAGGCAATATTTCGCATTTG-GGAATTCGATAAATCGTGCC
66 ATCCATGTGTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGCGGAGTTTGAGAGATCGTGCC
9825999 C
131 C
* *
9826000 AATTGTGTTGGGTT
1 AATCGTGCTGGGTT
9826014 GCGATTTACC
Statistics
Matches: 226, Mismatches: 34, Indels: 31
0.78 0.12 0.11
Matches are distributed among these distances:
125 65 0.29
126 4 0.02
127 17 0.08
129 6 0.03
130 24 0.11
131 4 0.02
132 24 0.11
134 3 0.01
135 7 0.03
136 31 0.14
137 39 0.17
138 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (131 bp):
AATCGTGCTGGGTTTTCATATTTTTCATTCGACTAAAATACAAAATATCCCTTTTTGTAAATTTC
ATCCATGTGTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGCGGAGTTTGAGAGATCGTGCC
C
Found at i:9827315 original size:24 final size:26
Alignment explanation
Indices: 9827264--9827316 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 26
9827254 TTGAAAGATA
9827264 TTTAAATATATTAAATGAATTAAATAAT
1 TTTAAATATA-TAAAT-AATTAAATAAT
*
9827292 TTTAAATATA-AAAT-ATTAATTAAT
1 TTTAAATATATAAATAATTAAATAAT
9827316 T
1 T
9827317 ATATAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 10 0.42
26 4 0.17
28 10 0.42
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
TTTAAATATATAAATAATTAAATAAT
Found at i:9830279 original size:12 final size:12
Alignment explanation
Indices: 9830261--9830292 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
9830251 ATAATTTTAA
9830261 AATTTTTAAAAT
1 AATTTTTAAAAT
*
9830273 TATTTTTAAAAT
1 AATTTTTAAAAT
9830285 AATTTTTA
1 AATTTTTA
9830293 TTTTTTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATTTTTAAAAT
Found at i:9830293 original size:50 final size:54
Alignment explanation
Indices: 9830237--9830336 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 54
9830227 TCTTAGAAAT
9830237 TTTTTATATTTTTAATAA-TTTTAAAATTTTT-AAAAT-TAT-TTTTAAAATAA
1 TTTTTATATTTTTAATAATTTTTAAAATTTTTAAAAATGTATATTTTAAAATAA
* * * *
9830287 TTTTTATTTTTTTCATAATTTTTGAATTTTTTAAAAATGTATATTTTAAA
1 TTTTTATATTTTTAATAATTTTTAAAATTTTTAAAAATGTATATTTTAAA
9830337 TTGTTATGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 16 0.38
51 11 0.26
52 5 0.12
53 3 0.07
54 7 0.17
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (54 bp):
TTTTTATATTTTTAATAATTTTTAAAATTTTTAAAAATGTATATTTTAAAATAA
Found at i:9830827 original size:22 final size:21
Alignment explanation
Indices: 9830799--9830842 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
9830789 AAATTGATAG
9830799 AATATATAAATATTAAAAATTA
1 AATATATAAATA-TAAAAATTA
* *
9830821 AATATATTAATATATAAATTA
1 AATATATAAATATAAAAATTA
9830842 A
1 A
9830843 GAAAAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AATATATAAATATAAAAATTA
Found at i:9835396 original size:29 final size:29
Alignment explanation
Indices: 9835362--9835466 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
9835352 TACTCGATTT
* * *
9835362 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
9835391 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
9835420 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
9835449 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
9835467 TATTTCCAGC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:9835467 original size:29 final size:29
Alignment explanation
Indices: 9835421--9835491 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
9835411 CTTCGAGCTC
9835421 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
9835450 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
9835479 GCACACTTAGTGC
1 GCACACTTAGTGC
9835492 TAATCTCGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Done.