Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 35 of 318
Found at i:13126287 original size:48 final size:48
Alignment explanation
Indices: 13126213--13126305 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
13126203 CTTAAATAAA
* *
13126213 TTACATAACTTACATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTCACATAACTCACATAACTTACATAATTTACATAACAAC
13126261 TTACATAACTCACATAACTCACATAACTTACATAATTTACATAAC
1 TTACATAACTCACATAACTCACATAACTTACATAATTTACATAAC
13126306 TCACATAACG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (48 bp):
TTACATAACTCACATAACTCACATAACTTACATAATTTACATAACAAC
Found at i:13126338 original size:48 final size:46
Alignment explanation
Indices: 13126215--13126323 Score: 150
Period size: 48 Copynumber: 2.3 Consensus size: 46
13126205 TAAATAAATT
* * *
13126215 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTT
1 ACATAACTCACATAACTCACATAACTTACATAATTTACAT-A-AACTC
13126263 ACATAACTCACATAACTCACATAACTTACATAATTTACAT-AACTC
1 ACATAACTCACATAACTCACATAACTTACATAATTTACATAAACTC
13126308 ACATAACGT-ACATAAC
1 ACATAAC-TCACATAAC
13126324 AACTTACATA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 18 0.32
46 1 0.02
48 38 0.67
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (46 bp):
ACATAACTCACATAACTCACATAACTTACATAATTTACATAAACTC
Found at i:13132386 original size:43 final size:41
Alignment explanation
Indices: 13132339--13132471 Score: 167
Period size: 43 Copynumber: 3.1 Consensus size: 41
13132329 TCTGCCAAAA
** *
13132339 TTAGCGGCGTTTGTAGAAAAAGCGGCGCTAAAAGCCTTGACCT
1 TTAGCGGCGTTT-TCCAAAAA-CGCCGCTAAAAGCCTTGACCT
*
13132382 TTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCT
1 TTAGCGGCG-TTTT-CCAAAAACGCCGCTAAAAGCCTTGACCT
*
13132425 TTAGCGGCGTTTTTCCAACAAACGCCGCTAAAAGTCTTGACCT
1 TTAGCGGCG-TTTTCCAA-AAACGCCGCTAAAAGCCTTGACCT
13132468 TTAG
1 TTAG
13132472 AAGCCTTGAC
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
42 3 0.04
43 70 0.88
44 7 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
TTAGCGGCGTTTTCCAAAAACGCCGCTAAAAGCCTTGACCT
Found at i:13133329 original size:23 final size:24
Alignment explanation
Indices: 13133295--13133345 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
13133285 ATCTTTTATC
* *
13133295 ATAATT-ATTTAAAGTCTATTTTA
1 ATAATTAATTAAAAATCTATTTTA
13133318 ATAATTAATTAAAAAATCTATTTTA
1 ATAATTAATT-AAAAATCTATTTTA
13133343 ATA
1 ATA
13133346 TCTATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.25
24 3 0.12
25 15 0.62
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
ATAATTAATTAAAAATCTATTTTA
Found at i:13134962 original size:28 final size:26
Alignment explanation
Indices: 13134919--13134973 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
13134909 AAAACAATAT
*
13134919 AAAATATAAAAATTTACTGTTTTTAA
1 AAAATATAAAAATTTAATGTTTTTAA
*
13134945 AAAATATTAGAAATTTTAATGTTTTTAA
1 AAAATA-TA-AAAATTTAATGTTTTTAA
13134973 A
1 A
13134974 TTTTTAGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.24
27 2 0.08
28 17 0.68
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (26 bp):
AAAATATAAAAATTTAATGTTTTTAA
Found at i:13135132 original size:25 final size:26
Alignment explanation
Indices: 13135090--13135141 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
13135080 TTAAACTTTG
* *
13135090 ATTTATAAAATTTTAAAAATATTAAA
1 ATTTATAAAATTTAAAAAATAGTAAA
13135116 ATTTAT-AAATTTAAAAAATAGTAAA
1 ATTTATAAAATTTAAAAAATAGTAAA
13135141 A
1 A
13135142 ATTTGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
ATTTATAAAATTTAAAAAATAGTAAA
Found at i:13135142 original size:26 final size:26
Alignment explanation
Indices: 13135090--13135145 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
13135080 TTAAACTTTG
* *
13135090 ATTTATAAAATTTTAAAAATATTAAA
1 ATTTATAAAATTTAAAAAATATAAAA
13135116 ATTTAT-AAATTTAAAAAATAGTAAAA
1 ATTTATAAAATTTAAAAAATA-TAAAA
13135142 ATTT
1 ATTT
13135146 GTTTTTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
ATTTATAAAATTTAAAAAATATAAAA
Found at i:13139670 original size:7 final size:7
Alignment explanation
Indices: 13139658--13139684 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
13139648 CGACATTGAC
13139658 TTTAAAA
1 TTTAAAA
13139665 TTTAAAA
1 TTTAAAA
13139672 TTTAAAA
1 TTTAAAA
13139679 TTTAAA
1 TTTAAA
13139685 CACGTGTTTA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TTTAAAA
Found at i:13140688 original size:18 final size:18
Alignment explanation
Indices: 13140667--13140701 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13140657 GTAATATTCA
*
13140667 TTTATTCAGTATCAGTCG
1 TTTATTCAGTAACAGTCG
*
13140685 TTTATTCTGTAACAGTC
1 TTTATTCAGTAACAGTC
13140702 AATTATTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (18 bp):
TTTATTCAGTAACAGTCG
Found at i:13143743 original size:47 final size:47
Alignment explanation
Indices: 13143636--13143826 Score: 186
Period size: 47 Copynumber: 3.9 Consensus size: 47
13143626 AATGTGATTT
* * * *
13143636 CCGTATAAGACCATAGCTGGGCTATGGCTTCGGACAAATGTGATATGTGCTT
1 CCGTATAAGACCATATCTGGGATATGGCATCGG-----TGTGATATGTGCTA
*
13143688 CCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTA
1 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
* * * *
13143735 CTGTATAAGACCATATTTGGGATATGGCATCAGTGTGATATGTGAT-
1 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
* ** * *
13143781 CCGTGTAAGACCATGGCTGGGTTATGGCCTCGGTATGTGATATGTG
1 CCGTATAAGACCATATCTGGGATATGGCATCGG--TGTGATATGTG
13143827 ACTATGTGCA
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 25 0.21
47 54 0.45
48 11 0.09
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (47 bp):
CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
Found at i:13143859 original size:95 final size:93
Alignment explanation
Indices: 13143674--13143844 Score: 211
Period size: 93 Copynumber: 1.8 Consensus size: 93
13143664 TTCGGACAAA
* *
13143674 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTACTGT
1 TGTGATATGTGCATCCGTATAAGACCATAGCCGGGATATGGCATCGGTGTGATATGTGCTACTGT
*
13143739 ATAAGACCATATTTGGGATATGGCATCAG
66 ACAAGACCATATTT-GGATATGGCATCAG
* * * * *
13143768 TGTGATATGTG-ATCCGTGTAAGACCATGGCTGGGTTATGGCCTCGGTATGTGATATGTGACTA-
1 TGTGATATGTGCATCCGTATAAGACCATAGCCGGGATATGGCATCGG--TGTGATATGTG-CTAC
*
13143831 TGTGCAAGACCATA
63 TGTACAAGACCATA
13143845 GTTTTACTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
93 28 0.43
94 11 0.17
95 23 0.35
96 3 0.05
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (93 bp):
TGTGATATGTGCATCCGTATAAGACCATAGCCGGGATATGGCATCGGTGTGATATGTGCTACTGT
ACAAGACCATATTTGGATATGGCATCAG
Found at i:13152671 original size:3 final size:3
Alignment explanation
Indices: 13152663--13152688 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13152653 TGATTGGTAC
13152663 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
13152689 GACAACAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:13155619 original size:47 final size:47
Alignment explanation
Indices: 13155510--13155620 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
13155500 CCGGGATAAG
* * *
13155510 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * * *
13155557 CATAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
13155604 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
13155621 ACTCAATGTC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
46 1 0.02
47 49 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:13157123 original size:25 final size:25
Alignment explanation
Indices: 13157083--13157134 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
13157073 ATATTTTATT
*
13157083 AAATAAAAAAATTT-AAAATATAAA
1 AAATAAAAAAATTTAAAAACATAAA
*
13157107 AAATCAAATAAATTTAAAAACATAAA
1 AAAT-AAAAAAATTTAAAAACATAAA
13157133 AA
1 AA
13157135 CAAATATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.17
25 9 0.38
26 11 0.46
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (25 bp):
AAATAAAAAAATTTAAAAACATAAA
Found at i:13161616 original size:21 final size:22
Alignment explanation
Indices: 13161576--13161617 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
13161566 AATTTCATAA
*
13161576 ATTTTAAATAAATCACAATATT
1 ATTTTAAATAAATCAAAATATT
*
13161598 ATTTTAAA-AAATTAAAATAT
1 ATTTTAAATAAATCAAAATAT
13161618 AATCTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTTTAAATAAATCAAAATATT
Found at i:13164097 original size:24 final size:23
Alignment explanation
Indices: 13164050--13164098 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
13164040 TATATAAGTT
*
13164050 TTAATTTTATATAATTATACATA
1 TTAATTTTATATAAGTATACATA
*
13164073 TTAATTTTAATTTAAGTATACATA
1 TTAATTTT-ATATAAGTATACATA
13164097 TT
1 TT
13164099 TAAAGAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (23 bp):
TTAATTTTATATAAGTATACATA
Found at i:13172999 original size:21 final size:21
Alignment explanation
Indices: 13172960--13172999 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13172950 CGCCCCTCGG
* *
13172960 TTTTTTTTTCCATTGTTTTTC
1 TTTTTCTTTCCATTATTTTTC
*
13172981 TTTTTCTTTCCTTTATTTT
1 TTTTTCTTTCCATTATTTT
13173000 ACTTGCTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTTTCTTTCCATTATTTTTC
Found at i:13184245 original size:10 final size:11
Alignment explanation
Indices: 13184223--13184247 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13184213 ATTAGTTTTT
13184223 AAATTTAAAAA
1 AAATTTAAAAA
13184234 AAATTTAAAAA
1 AAATTTAAAAA
13184245 AAA
1 AAA
13184248 GTTTGTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATTTAAAAA
Found at i:13184254 original size:139 final size:136
Alignment explanation
Indices: 13184067--13184335 Score: 475
Period size: 139 Copynumber: 2.0 Consensus size: 136
13184057 AGATGACACA
13184067 TTAGCTTTTAATTATTTTTAAATTTAAAAAAATTAAAAAAAAGTTTGTAATTTTTAAATAAATTT
1 TTAGCTTTTAATTATTTTTAAATTTAAAAAAATTAAAAAAAAGTTTGTAATTTTTAAATAAATTT
*
13184132 AATTCTTTCTCATTTTTAAAAATAGTTTTCATATTTTTTGAATTTTTAAATTTTAAAAAATTAAT
66 AATTCTTTCTCATTTTTAAAAATAGTTTTCATATTTTCTGAATTTTTAAATTTTAAAAAATTAAT
13184197 CCCACG
131 CCCACG
*
13184203 TTAGCTTTTTATTAGTTTTTAAATTTAAAAAAAATTTAAAAAAAAGTTTGTAATTTTTAAATAAA
1 TTAGCTTTTAATTA-TTTTTAAATTT-AAAAAAA-TTAAAAAAAAGTTTGTAATTTTTAAATAAA
* *
13184268 TTTAATTCTTTTTCATTTTTTAAAATAGTTTTCATATTTTCTGAATTTTTAAATTTTAAAAAATT
63 TTTAATTCTTTCTCATTTTTAAAAATAGTTTTCATATTTTCTGAATTTTTAAATTTTAAAAAATT
13184333 AAT
128 AAT
13184336 TGCTTATGTG
Statistics
Matches: 126, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
136 13 0.10
137 11 0.09
138 7 0.06
139 95 0.75
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.50
Consensus pattern (136 bp):
TTAGCTTTTAATTATTTTTAAATTTAAAAAAATTAAAAAAAAGTTTGTAATTTTTAAATAAATTT
AATTCTTTCTCATTTTTAAAAATAGTTTTCATATTTTCTGAATTTTTAAATTTTAAAAAATTAAT
CCCACG
Found at i:13185635 original size:14 final size:14
Alignment explanation
Indices: 13185616--13185643 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13185606 AAATCCTACT
13185616 TAATATGATCGACA
1 TAATATGATCGACA
13185630 TAATATGATCGACA
1 TAATATGATCGACA
13185644 GATGAGATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
TAATATGATCGACA
Found at i:13189526 original size:22 final size:22
Alignment explanation
Indices: 13189501--13189553 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
13189491 AAGTTAATTA
13189501 TATTTTTACAAAAATACTTATG
1 TATTTTTACAAAAATACTTATG
13189523 TATTTTTACAAAAATACTTATG
1 TATTTTTACAAAAATACTTATG
13189545 TATTTTTAC
1 TATTTTTAC
13189554 CATTTCTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (22 bp):
TATTTTTACAAAAATACTTATG
Found at i:13194532 original size:10 final size:10
Alignment explanation
Indices: 13194517--13194559 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
13194507 GGACTGAATG
13194517 TTATAAATAA
1 TTATAAATAA
13194527 TTATAAATAA
1 TTATAAATAA
*
13194537 -TACAAATAA
1 TTATAAATAA
13194546 TTATATAA-AA
1 TTATA-AATAA
13194556 TTAT
1 TTAT
13194560 GTATGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.28
10 19 0.66
11 2 0.07
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
TTATAAATAA
Found at i:13200734 original size:13 final size:13
Alignment explanation
Indices: 13200662--13200733 Score: 101
Period size: 13 Copynumber: 5.5 Consensus size: 13
13200652 TTTAGCAATA
13200662 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
13200675 CTTTTGAAAAATG
1 CTTTTGAAAAGTG
13200688 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
13200701 C-TGTGCAAAAGTG
1 CTTTTG-AAAAGTG
*
13200714 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
13200727 CTTTTGA
1 CTTTTGA
13200734 GTGTTTAGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
12 3 0.06
13 46 0.88
14 3 0.06
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:13205209 original size:21 final size:21
Alignment explanation
Indices: 13205166--13205210 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
13205156 TATTTACATA
*
13205166 TTTAAATATAAATATATGATT
1 TTTAAATATAAATATAAGATT
*
13205187 TTTAAATATGAAATA-AAGTTT
1 TTTAAATAT-AAATATAAGATT
13205208 TTT
1 TTT
13205211 TAAGAGGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (21 bp):
TTTAAATATAAATATAAGATT
Found at i:13206457 original size:31 final size:31
Alignment explanation
Indices: 13206404--13206466 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
13206394 AACAAAAAAG
* *
13206404 CCATTTCCCCTCCCCCATTTTCTTTCTTTTT
1 CCATTTCCCCTCCCCCATTTTCTCTCTCTTT
* *
13206435 CCATTT-CCTTCCCCCTTCTTTCTCTCTCTTT
1 CCATTTCCCCTCCCCCAT-TTTCTCTCTCTTT
13206466 C
1 C
13206467 TCTCTCAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.05, C:0.44, G:0.00, T:0.51
Consensus pattern (31 bp):
CCATTTCCCCTCCCCCATTTTCTCTCTCTTT
Found at i:13213735 original size:63 final size:63
Alignment explanation
Indices: 13213636--13213761 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
13213626 TTCAAACGAC
13213636 TTGATCAATTATAGAAAAGATGATAGCCATTCCTATGAGATTCTTAACAGCCATGAACAGCAT
1 TTGATCAATTATAGAAAAGATGATAGCCATTCCTATGAGATTCTTAACAGCCATGAACAGCAT
*
13213699 TTGATCAATTATAGAAAAGATGATAGCCATTTCTATGAGATTCTTAACAGCCATGAACAGCAT
1 TTGATCAATTATAGAAAAGATGATAGCCATTCCTATGAGATTCTTAACAGCCATGAACAGCAT
13213762 ACCTTCATCC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (63 bp):
TTGATCAATTATAGAAAAGATGATAGCCATTCCTATGAGATTCTTAACAGCCATGAACAGCAT
Found at i:13222534 original size:18 final size:21
Alignment explanation
Indices: 13222511--13222550 Score: 59
Period size: 18 Copynumber: 2.0 Consensus size: 21
13222501 TTTTTTATAA
13222511 AATTAATT-CA-AAA-AATTT
1 AATTAATTACATAAATAATTT
13222529 AATTAATTACATAAATAATTT
1 AATTAATTACATAAATAATTT
13222550 A
1 A
13222551 TTTTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 2 0.11
20 3 0.16
21 6 0.32
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTAATTACATAAATAATTT
Found at i:13222959 original size:17 final size:18
Alignment explanation
Indices: 13222916--13222961 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
13222906 TTAACATTTT
13222916 TATATTTAAAATTTTTAAA
1 TATA-TTAAAATTTTTAAA
* *
13222935 TTTTTTAAAA-TTTTAAA
1 TATATTAAAATTTTTAAA
13222952 TATATTAAAA
1 TATATTAAAA
13222962 ATATTTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 15 0.65
18 6 0.26
19 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TATATTAAAATTTTTAAA
Found at i:13223021 original size:17 final size:17
Alignment explanation
Indices: 13222995--13223040 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
13222985 AAATAGATTA
*
13222995 AATATA-TTAAAATTTT
1 AATATATTTAAAATTTC
*
13223011 AATTTATTTAAAATTTC
1 AATATATTTAAAATTTC
13223028 AATATATTTAAAA
1 AATATATTTAAAA
13223041 AATATATTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 5 0.19
17 21 0.81
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
AATATATTTAAAATTTC
Found at i:13223161 original size:79 final size:78
Alignment explanation
Indices: 13223041--13223190 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 78
13223031 ATATTTAAAA
* * **
13223041 AATATATTGAATATATTAAAATTTTAAAATGTTAAAGAAAATGT-TGAGTATAACTAATTTTAAA
1 AATATATTAAATATATTAAAATTTTAAAATATTAAAGAAAAT-TAAAAGTATAACTAATTTTAAA
*
13223105 TTTTTAATATACTT
65 ATTTTAATATACTT
*
13223119 AATATATTTAAATATATTAAAATTTTGAACATATTAAA-AAAATTAAAAGTATAACTAATTTTAA
1 AATATA-TTAAATATATTAAAATTTT-AAAATATTAAAGAAAATTAAAAGTATAACTAATTTTAA
13223183 AATTTTAA
64 AATTTTAA
13223191 AATATTTTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
78 7 0.11
79 47 0.75
80 9 0.14
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (78 bp):
AATATATTAAATATATTAAAATTTTAAAATATTAAAGAAAATTAAAAGTATAACTAATTTTAAAA
TTTTAATATACTT
Found at i:13223880 original size:36 final size:36
Alignment explanation
Indices: 13223833--13223905 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
13223823 CAAATAAAAG
13223833 AGTAGCATTCCACGCTCAAGCAGAAGGAAGCAACAA
1 AGTAGCATTCCACGCTCAAGCAGAAGGAAGCAACAA
13223869 AGTAGCATTCCACGCTCAAGCAGAAGGAAGCAACAA
1 AGTAGCATTCCACGCTCAAGCAGAAGGAAGCAACAA
13223905 A
1 A
13223906 CATTTTGGTA
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:0.42, C:0.25, G:0.22, T:0.11
Consensus pattern (36 bp):
AGTAGCATTCCACGCTCAAGCAGAAGGAAGCAACAA
Found at i:13224833 original size:17 final size:17
Alignment explanation
Indices: 13224797--13224832 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
13224787 ATACATTTTC
13224797 TTTAACATATTTAAAAT
1 TTTAACATATTTAAAAT
*
13224814 TTTAATATATTT-AAAT
1 TTTAACATATTTAAAAT
13224830 TTT
1 TTT
13224833 TTTAAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAACATATTTAAAAT
Found at i:13225036 original size:34 final size:35
Alignment explanation
Indices: 13224998--13225065 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
13224988 TTATACTTAA
13224998 AATTTTTTAA-TATATTTAAAATTTT-AATATATTT
1 AATTTTTTAAGT-TATTTAAAATTTTAAATATATTT
*
13225032 AATTTTTTAAGTTTTTTAAAATTTTAAATATATT
1 AATTTTTTAAGTTATTTAAAATTTTAAATATATT
13225066 AAGAAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
34 22 0.71
35 9 0.29
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (35 bp):
AATTTTTTAAGTTATTTAAAATTTTAAATATATTT
Found at i:13225067 original size:17 final size:18
Alignment explanation
Indices: 13224952--13225065 Score: 90
Period size: 17 Copynumber: 6.1 Consensus size: 18
13224942 ATTTAGTTTT
*
13224952 TTTAAATATATTAAATATA
1 TTTAAA-ATTTTAAATATA
13224971 -TTAAAATTTTAAATTAGTTA
1 TTTAAAATTTTAAA-TA--TA
*
13224991 TACTTAAAATTTTTTAATATA
1 T--TTAAAA-TTTTAAATATA
13225012 TTTAAAATTTT-AATATA
1 TTTAAAATTTTAAATATA
** * *
13225029 TTTAATTTTTTAAGT-TT
1 TTTAAAATTTTAAATATA
13225046 TTTAAAATTTTAAATATA
1 TTTAAAATTTTAAATATA
13225064 TT
1 TT
13225066 AAGAAAATTT
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
17 35 0.46
18 16 0.21
19 6 0.08
20 2 0.03
21 3 0.04
23 8 0.11
24 6 0.08
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (18 bp):
TTTAAAATTTTAAATATA
Found at i:13225159 original size:19 final size:20
Alignment explanation
Indices: 13225127--13225165 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
13225117 AATTTTAAAA
*
13225127 TTAATTATACTTAACATTTT
1 TTAATTATACTTAAAATTTT
*
13225147 TTAA-TATATTTAAAATTTT
1 TTAATTATACTTAAAATTTT
13225166 AAAAAAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAATTATACTTAAAATTTT
Found at i:13227775 original size:6 final size:6
Alignment explanation
Indices: 13227761--13227790 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
13227751 ATTCTTTTCA
*
13227761 AAGTTG AAGTAG AAGTAG AAGTAG AAGTAG
1 AAGTAG AAGTAG AAGTAG AAGTAG AAGTAG
13227791 GACAACGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.20
Consensus pattern (6 bp):
AAGTAG
Found at i:13228372 original size:23 final size:21
Alignment explanation
Indices: 13228335--13228420 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 21
13228325 ATTATTTTTT
*
13228335 TATTGAAATT-TAT-TTTAAA
1 TATTAAAATTATATATTTAAA
13228354 TATATAAAATTATATATTTAAA
1 TAT-TAAAATTATATATTTAAA
*
13228376 T-TTATAATGATTATAT-TTTAAT
1 TATTA-AA--ATTATATATTTAAA
*
13228398 TATTATAGATTATATATTTAAA
1 TATTA-AAATTATATATTTAAA
13228420 T
1 T
13228421 TAAATAATTG
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
19 3 0.05
20 8 0.15
21 13 0.24
22 19 0.35
23 12 0.22
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (21 bp):
TATTAAAATTATATATTTAAA
Found at i:13228392 original size:21 final size:24
Alignment explanation
Indices: 13228348--13228421 Score: 88
Period size: 22 Copynumber: 3.3 Consensus size: 24
13228338 TGAAATTTAT
*
13228348 TTTAAATATATAA-A-ATTATATA
1 TTTAAATTTATAATAGATTATATA
13228370 TTTAAATTTATAAT-GATTATAT-
1 TTTAAATTTATAATAGATTATATA
*
13228392 TTT-AA-TTATTATAGATTATATA
1 TTTAAATTTATAATAGATTATATA
13228414 TTTAAATT
1 TTTAAATT
13228422 AAATAATTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
20 6 0.14
21 10 0.23
22 18 0.41
23 9 0.20
24 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (24 bp):
TTTAAATTTATAATAGATTATATA
Found at i:13230068 original size:18 final size:17
Alignment explanation
Indices: 13230035--13230073 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
13230025 TTTTATAAAT
13230035 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
13230053 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
13230070 TGTG
1 TGTG
13230074 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:13230330 original size:23 final size:23
Alignment explanation
Indices: 13230299--13230374 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
13230289 AGTGTTATTG
*
13230299 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
13230322 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
13230345 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13230368 ATCAGTG
1 ATCAGTG
13230375 TTGCACTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:13233533 original size:20 final size:20
Alignment explanation
Indices: 13233501--13233538 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13233491 TGTTTCACAT
13233501 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
13233521 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
13233539 ACTTAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:13234237 original size:39 final size:38
Alignment explanation
Indices: 13234170--13234245 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
13234160 ACCAATATGG
*
13234170 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGCAA-AGTTGA
* *
13234209 CACCCAGTGTCTCATCGGCATAG-CCGAAGTAAAGTTG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGCAAAGTTG
13234246 GTACGCAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 5 0.15
39 24 0.73
40 4 0.12
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGCAAAGTTGA
Found at i:13235444 original size:5 final size:5
Alignment explanation
Indices: 13235434--13235476 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
13235424 AATTATGTTT
13235434 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TTAT
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTAT
13235477 TATATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 26 0.74
6 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:13235556 original size:40 final size:40
Alignment explanation
Indices: 13235496--13235591 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 40
13235486 ATGACAAAGA
*
13235496 AAGAAAGAAAAGAAATAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
13235537 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
13235577 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
13235592 GAAAGAAAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 32 0.65
41 17 0.35
ACGTcount: A:0.64, C:0.07, G:0.28, T:0.01
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:13237003 original size:41 final size:39
Alignment explanation
Indices: 13236955--13237066 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 39
13236945 TCGACCTTGA
13236955 GTCGATGAGACACTGGGTGTCATACTATTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-ACTATTACTTCGGATAG
* ** ** * *
13236995 ATTCGATGAGGTACTGGGTACCAAC--TTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
* *
13237033 GCCGATGAGACACTGGGTGTCAACTATTGCTTCG
1 GTCGATGAGACACTGGGTGTCAACTATTACTTCG
13237067 AACTATCCGA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
37 18 0.33
38 11 0.20
39 7 0.13
40 2 0.04
41 17 0.31
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (39 bp):
GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
Found at i:13238980 original size:15 final size:14
Alignment explanation
Indices: 13238962--13238992 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
13238952 TTAATTTATT
13238962 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
13238977 TAATAATAATCTAA
1 TAATAATAATCTAA
13238991 TA
1 TA
13238993 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:13239003 original size:21 final size:20
Alignment explanation
Indices: 13238979--13239047 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
13238969 AATGCTAATA
13238979 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
** **
13239000 ATAA-CGTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
13239019 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
13239040 ATAATAAT
1 ATAATAAT
13239048 AATCATTATA
Statistics
Matches: 36, Mismatches: 8, Indels: 9
0.68 0.15 0.17
Matches are distributed among these distances:
18 3 0.08
19 10 0.28
20 2 0.06
21 18 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.35
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:13248773 original size:2 final size:2
Alignment explanation
Indices: 13248766--13248796 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13248756 AATATAAAAA
13248766 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
13248797 GGGTTTCTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:13250833 original size:18 final size:18
Alignment explanation
Indices: 13250810--13250848 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13250800 TATTGTTTTC
* *
13250810 TTAAAAAAATGAAAAATA
1 TTAAAAAAATAAAAAAAA
*
13250828 TTAAAATAATAAAAAAAA
1 TTAAAAAAATAAAAAAAA
13250846 TTA
1 TTA
13250849 TTTTTATTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
TTAAAAAAATAAAAAAAA
Found at i:13253540 original size:50 final size:50
Alignment explanation
Indices: 13253418--13253656 Score: 273
Period size: 50 Copynumber: 4.6 Consensus size: 50
13253408 GATAATAACA
* * ** * *
13253418 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* * *
13253469 TGCCCATGCCATGTCCTAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
13253519 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
13253569 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
13253624 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACA
13253657 TGGCATCTCT
Statistics
Matches: 160, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.57
51 32 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 31 0.19
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:13253597 original size:100 final size:105
Alignment explanation
Indices: 13253417--13253659 Score: 345
Period size: 100 Copynumber: 2.3 Consensus size: 105
13253407 TGATAATAAC
**
13253417 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATGGTGCCCATGCCATG
* * *
13253482 TCCTAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
66 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
13253519 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGGTGCCCATGCCAT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGAT-GGTGCCCATGCCAT
13253581 GTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 GTCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
*
13253624 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGG
13253660 CATCTCTTTA
Statistics
Matches: 126, Mismatches: 8, Indels: 10
0.88 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.39
101 36 0.29
103 3 0.02
104 1 0.01
105 2 0.02
106 34 0.27
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (105 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATGGTGCCCATGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:13253782 original size:13 final size:13
Alignment explanation
Indices: 13253761--13253792 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13253751 GCTTAGATCA
*
13253761 TCATCAAATAAAT
1 TCATAAAATAAAT
13253774 TCATAAAATAAAT
1 TCATAAAATAAAT
13253787 TCATAA
1 TCATAA
13253793 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:13254040 original size:30 final size:30
Alignment explanation
Indices: 13254004--13254061 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
13253994 CCTCGACTCT
*
13254004 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
13254034 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
13254062 AAAGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:13254556 original size:4 final size:4
Alignment explanation
Indices: 13254547--13254574 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
13254537 CCTTTTTCTT
13254547 TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC
13254575 CTTCCTTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:13254652 original size:15 final size:15
Alignment explanation
Indices: 13254624--13254665 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
13254614 GTTTCGTCTC
* *
13254624 TTCTATTCTGTTTCTT
1 TTCT-TTCTTTTTCTA
13254640 TTCTTTCTTTTTCTA
1 TTCTTTCTTTTTCTA
13254655 TTCTTTCTTTT
1 TTCTTTCTTTT
13254666 GTTTTATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (15 bp):
TTCTTTCTTTTTCTA
Found at i:13254687 original size:5 final size:5
Alignment explanation
Indices: 13254674--13254718 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
13254664 TTGTTTTATG
13254674 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA
13254719 GAACATAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
3 1 0.03
4 4 0.11
5 23 0.64
6 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:13254699 original size:19 final size:19
Alignment explanation
Indices: 13254675--13254717 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
13254665 TGTTTTATGT
13254675 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
13254694 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
13254713 ATATA
1 ATATA
13254718 AGAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:13254727 original size:24 final size:25
Alignment explanation
Indices: 13254681--13254743 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
13254671 ATGTATATAT
* *
13254681 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAAGATAATAATCA
13254705 ATAATATAATATAAGA-ACATAATCA
1 ATAATATAATATAAGATA-ATAATCA
* *
13254730 TTACTATAATATAA
1 ATAATATAATATAA
13254744 TAATATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.03
24 19 0.58
25 13 0.39
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (25 bp):
ATAATATAATATAAGATAATAATCA
Found at i:13257874 original size:2 final size:2
Alignment explanation
Indices: 13257867--13257902 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13257857 TCTTAATTAA
13257867 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13257903 AGATTATAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:13260269 original size:17 final size:17
Alignment explanation
Indices: 13260247--13260279 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13260237 CGAAACCCTG
13260247 AGTTTGTTCTGTTTTCT
1 AGTTTGTTCTGTTTTCT
*
13260264 AGTTTGTTCTTTTTTC
1 AGTTTGTTCTGTTTTC
13260280 CTTCTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.15, T:0.67
Consensus pattern (17 bp):
AGTTTGTTCTGTTTTCT
Found at i:13279579 original size:6 final size:6
Alignment explanation
Indices: 13279570--13279616 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
13279560 AATATATGGT
*
13279570 TTTGGA TTTGGA TTTGGA TTTGGA TTTGAA TTTGGA TTTGGA TTTGG
1 TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA TTTGG
13279617 GAATATTTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (6 bp):
TTTGGA
Found at i:13282343 original size:12 final size:12
Alignment explanation
Indices: 13282326--13282350 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13282316 TTTTTATGGT
13282326 ATTCTTATTTTC
1 ATTCTTATTTTC
13282338 ATTCTTATTTTC
1 ATTCTTATTTTC
13282350 A
1 A
13282351 AACATAGAAT
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:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTCTTATTTTC
Found at i:13289111 original size:13 final size:13
Alignment explanation
Indices: 13289094--13289160 Score: 82
Period size: 13 Copynumber: 5.2 Consensus size: 13
13289084 TTAAACTAAA
13289094 ATTTTTT-AAAAT
1 ATTTTTTAAAAAT
13289106 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
* * *
13289119 ATTTTTTCACAAC
1 ATTTTTTAAAAAT
* *
13289132 ATTTTTCAAAAAC
1 ATTTTTTAAAAAT
13289145 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
13289158 ATT
1 ATT
13289161 GTCATACTAG
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
12 7 0.15
13 39 0.85
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTTTTTAAAAAT
Found at i:13290874 original size:12 final size:12
Alignment explanation
Indices: 13290842--13290882 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
13290832 TGTTAAAATA
*
13290842 TATATATTAAAT
1 TATATATTATAT
13290854 TAT-TATTATAT
1 TATATATTATAT
13290865 TATATATTATAT
1 TATATATTATAT
13290877 TATATA
1 TATATA
13290883 AATAAGTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATATATTATAT
Found at i:13292226 original size:18 final size:19
Alignment explanation
Indices: 13292203--13292241 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
13292193 ATATATAGAT
13292203 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
13292221 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
13292240 AT
1 AT
13292242 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:13292591 original size:39 final size:39
Alignment explanation
Indices: 13292481--13292615 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
13292471 GACCTCGAGT
* * * *
13292481 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
13292522 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
13292560 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
13292599 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
13292616 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:13292759 original size:18 final size:19
Alignment explanation
Indices: 13292738--13292778 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
13292728 AATGAAATGA
13292738 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
13292756 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
13292775 GAAA
1 GAAA
13292779 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:13294335 original size:39 final size:39
Alignment explanation
Indices: 13294290--13294368 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
13294280 TGATCCAATA
* *
13294290 ATTAATTAGATTCGAATTAATTATAATTAAAATAGATTT
1 ATTAATTAAATCCGAATTAATTATAATTAAAATAGATTT
13294329 ATTAATTAAATCCGAATTAATTATAATTAAAATAGATTT
1 ATTAATTAAATCCGAATTAATTATAATTAAAATAGATTT
13294368 A
1 A
13294369 AAGAAAAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (39 bp):
ATTAATTAAATCCGAATTAATTATAATTAAAATAGATTT
Found at i:13294358 original size:21 final size:20
Alignment explanation
Indices: 13294301--13294359 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
13294291 TTAATTAGAT
13294301 TCGAATTAATTATAATTAAAA
1 TCGAATTAATTATAATT-AAA
* *
13294322 TAG-ATTTA-T-TAATTAAA
1 TCGAATTAATTATAATTAAA
13294339 TCCGAATTAATTATAATTAAA
1 T-CGAATTAATTATAATTAAA
13294360 ATAGATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
17 4 0.13
18 6 0.20
19 5 0.17
20 5 0.17
21 10 0.33
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (20 bp):
TCGAATTAATTATAATTAAA
Found at i:13307782 original size:23 final size:22
Alignment explanation
Indices: 13307743--13307788 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
13307733 TAAATGTTAC
13307743 AACATAATAATATAAATATAAT
1 AACATAATAATATAAATATAAT
13307765 AACATAAATAAT-TAAAATATAAT
1 AACAT-AATAATAT-AAATATAAT
13307788 A
1 A
13307789 TTTTAAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (22 bp):
AACATAATAATATAAATATAAT
Found at i:13307785 original size:29 final size:29
Alignment explanation
Indices: 13307751--13307810 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
13307741 ACAACATAAT
13307751 AATATAAATATAATAA-CATAAATAATTAA
1 AATAT-AATATAATAAGCATAAATAATTAA
**
13307780 AATATAATATTTTAAGCATAAATAATTAA
1 AATATAATATAATAAGCATAAATAATTAA
13307809 AA
1 AA
13307811 GAAACGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (29 bp):
AATATAATATAATAAGCATAAATAATTAA
Found at i:13318009 original size:294 final size:294
Alignment explanation
Indices: 13317480--13318069 Score: 1153
Period size: 294 Copynumber: 2.0 Consensus size: 294
13317470 GTCACATAAA
13317480 AACATTAATACTAGCAAACCCCTTCATGAGCTTAGTGTTTAGGATGTTATTTTCGGAACTTAGGC
1 AACATTAATACTAGCAAACCCCTTCATGAGCTTAGTGTTTAGGATGTTATTTTCGGAACTTAGGC
13317545 TATGTTTTCCCTTTCTTTAGTCACTTCATGGAGTTAAATATCTGTCAATTTCTATAGCATGTGCA
66 TATGTTTTCCCTTTCTTTAGTCACTTCATGGAGTTAAATATCTGTCAATTTCTATAGCATGTGCA
13317610 AGGTTTTAGTTCTACTTTGTTTTAAGTGAGTCAATATCATTCAAACTTTGGGTTTCTTTTGAAGA
131 AGGTTTTAGTTCTACTTTGTTTTAAGTGAGTCAATATCATTCAAACTTTGGGTTTCTTTTGAAGA
13317675 GTTCCAATGTAGAAATTTACCTTCTATTGCATCTTCATAAATAGAACAGAATATTTTCACTCATT
196 GTTCCAATGTAGAAATTTACCTTCTATTGCATCTTCATAAATAGAACAGAATATTTTCACTCATT
13317740 GTAGTGGCACCGTAAATGAAATTTCTTCTTTTGC
261 GTAGTGGCACCGTAAATGAAATTTCTTCTTTTGC
13317774 AACATTAATACTAGCAAACCCCTTCATGAGCTTAGTGTTTAGGATGTTATTTTCGGAACTTAGGC
1 AACATTAATACTAGCAAACCCCTTCATGAGCTTAGTGTTTAGGATGTTATTTTCGGAACTTAGGC
* *
13317839 TATGTTTTCCCTTTCTTTAGTCACTTCATGGAGTTAAATGTTTGTCAATTTCTATAGCATGTGCA
66 TATGTTTTCCCTTTCTTTAGTCACTTCATGGAGTTAAATATCTGTCAATTTCTATAGCATGTGCA
13317904 AGGTTTTAGTTCTACTTTGTTTTAAGTGAGTCAATATCATTCAAACTTTGGGTTTCTTTTGAAGA
131 AGGTTTTAGTTCTACTTTGTTTTAAGTGAGTCAATATCATTCAAACTTTGGGTTTCTTTTGAAGA
13317969 GTTCCAATGTAGAAATTTACCTTCTATTGCATCTTCATAAATAGAACAGAATATTTTCACTCATT
196 GTTCCAATGTAGAAATTTACCTTCTATTGCATCTTCATAAATAGAACAGAATATTTTCACTCATT
*
13318034 GTAGTGGCACCGTAAATTAAATTTCTTCTTTTGC
261 GTAGTGGCACCGTAAATGAAATTTCTTCTTTTGC
13318068 AA
1 AA
13318070 TATCTGTTTT
Statistics
Matches: 293, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
294 293 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (294 bp):
AACATTAATACTAGCAAACCCCTTCATGAGCTTAGTGTTTAGGATGTTATTTTCGGAACTTAGGC
TATGTTTTCCCTTTCTTTAGTCACTTCATGGAGTTAAATATCTGTCAATTTCTATAGCATGTGCA
AGGTTTTAGTTCTACTTTGTTTTAAGTGAGTCAATATCATTCAAACTTTGGGTTTCTTTTGAAGA
GTTCCAATGTAGAAATTTACCTTCTATTGCATCTTCATAAATAGAACAGAATATTTTCACTCATT
GTAGTGGCACCGTAAATGAAATTTCTTCTTTTGC
Found at i:13330057 original size:21 final size:21
Alignment explanation
Indices: 13330031--13330078 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
13330021 GTATGAACAT
13330031 ATTGAACCGGCTAAAAAATCA
1 ATTGAACCGGCTAAAAAATCA
*
13330052 ATTGAACTGGCTAAAAAATCA
1 ATTGAACCGGCTAAAAAATCA
*
13330073 GTTGAA
1 ATTGAA
13330079 TCGAGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.23
Consensus pattern (21 bp):
ATTGAACCGGCTAAAAAATCA
Found at i:13343156 original size:29 final size:30
Alignment explanation
Indices: 13343110--13343171 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
13343100 TCAATTTTAT
*
13343110 TTTATGATTTATATATATTTTACAT-ATTA
1 TTTATGATTTATACATATTTTACATAATTA
*
13343139 TTTATG-TTTAATACATATTTTTCATAATTA
1 TTTATGATTT-ATACATATTTTACATAATTA
13343169 TTT
1 TTT
13343172 TAAACAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 3 0.10
29 19 0.66
30 7 0.24
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (30 bp):
TTTATGATTTATACATATTTTACATAATTA
Found at i:13346481 original size:22 final size:24
Alignment explanation
Indices: 13346444--13346491 Score: 82
Period size: 22 Copynumber: 2.1 Consensus size: 24
13346434 AACATAGATG
13346444 AAATGATTAATTTAGCTATGCAGA
1 AAATGATTAATTTAGCTATGCAGA
13346468 AAAT-ATT-ATTTAGCTATGCAGA
1 AAATGATTAATTTAGCTATGCAGA
13346490 AA
1 AA
13346492 TTGGACAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 17 0.71
23 3 0.12
24 4 0.17
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (24 bp):
AAATGATTAATTTAGCTATGCAGA
Found at i:13357685 original size:6 final size:6
Alignment explanation
Indices: 13357674--13357700 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13357664 ATCCAATTCT
13357674 ATCTCC ATCTCC ATCTCC ATCTCC ATC
1 ATCTCC ATCTCC ATCTCC ATCTCC ATC
13357701 CATCACGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.48, G:0.00, T:0.33
Consensus pattern (6 bp):
ATCTCC
Found at i:13358929 original size:3 final size:3
Alignment explanation
Indices: 13358921--13359120 Score: 118
Period size: 3 Copynumber: 66.7 Consensus size: 3
13358911 AGTTGTTTCT
*
13358921 TGC TGC TGC TGC TGC TGC TG- TGGC TGC TGC TGC TG- TAAC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC T-GC TGC TGC TGC TGC T-GC TGC TGC
* * * * * ** ** **
13358966 TGC TGC AGC TGT TGT TGC TGA TGA TGC AAC TGC TGC TGC AAC TGC AAC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
* * * * **
13359014 TGC TGC TGT TGT TGT TGC TGC TGC TGC TGC TGC AAG- TGC AAC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC -TGC TGC TGC TGC
* * *** **
13359059 TGC TGT TGT TGC TGC TGC TGC TGC AAT TGC AAC TGC TGC TGC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
*
13359107 TGC TGT TGC TGC TG
1 TGC TGC TGC TGC TG
13359121 GTTCATGTAA
Statistics
Matches: 149, Mismatches: 42, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
2 3 0.02
3 143 0.96
4 3 0.02
ACGTcount: A:0.10, C:0.26, G:0.30, T:0.34
Consensus pattern (3 bp):
TGC
Found at i:13359021 original size:36 final size:36
Alignment explanation
Indices: 13358981--13359118 Score: 132
Period size: 36 Copynumber: 3.7 Consensus size: 36
13358971 CAGCTGTTGT
* **
13358981 TGCTGATGATGCAACTGCTGCTGCAACTGCAACTGC
1 TGCTGTTGATGCTGCTGCTGCTGCAACTGCAACTGC
* *
13359017 TGCTGTTGTTGTTGCTGCTGCTGCTGCTGCAAGTGCAACTGC
1 TGC------TGTTGATGCTGCTGCTGCTGCAACTGCAACTGC
* *
13359059 TGCTGTTGTTGCTGCTGCTGCTGCAATTGCAACTGC
1 TGCTGTTGATGCTGCTGCTGCTGCAACTGCAACTGC
* * *
13359095 TGCTGCTGCTGCTGCTGTTGCTGC
1 TGCTGTTGATGCTGCTGCTGCTGC
13359119 TGGTTCATGT
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
36 55 0.64
42 31 0.36
ACGTcount: A:0.12, C:0.26, G:0.29, T:0.33
Consensus pattern (36 bp):
TGCTGTTGATGCTGCTGCTGCTGCAACTGCAACTGC
Found at i:13359042 original size:42 final size:42
Alignment explanation
Indices: 13358995--13359120 Score: 171
Period size: 42 Copynumber: 3.0 Consensus size: 42
13358985 GATGATGCAA
13358995 CTGCTGCTGCAACTGCAACTGCTGCTGTTGTTGTTGCTGCTG
1 CTGCTGCTGCAACTGCAACTGCTGCTGTTGTTGTTGCTGCTG
* *
13359037 CTGCTGCTGCAAGTGCAACTGCTGCTGTTGTTGCTGCTGCTG
1 CTGCTGCTGCAACTGCAACTGCTGCTGTTGTTGTTGCTGCTG
*** ** * *
13359079 CTGCAATTGCAACTGCTGCTGCTGCTGCTGCTGTTGCTGCTG
1 CTGCTGCTGCAACTGCAACTGCTGCTGTTGTTGTTGCTGCTG
13359121 GTTCATGTAA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.10, C:0.27, G:0.29, T:0.34
Consensus pattern (42 bp):
CTGCTGCTGCAACTGCAACTGCTGCTGTTGTTGTTGCTGCTG
Found at i:13359619 original size:21 final size:21
Alignment explanation
Indices: 13359586--13359649 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
13359576 TCATTTTCCT
*
13359586 CTGCATTTGCTGCTGCTGCTG
1 CTGCAATTGCTGCTGCTGCTG
*
13359607 -TG--GTTGCTGCTGCTGCTG
1 CTGCAATTGCTGCTGCTGCTG
* *
13359625 TTGCAATTGCCGCTGCTGCTG
1 CTGCAATTGCTGCTGCTGCTG
13359646 CTGC
1 CTGC
13359650 TGTTGCATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 15 0.42
19 2 0.06
20 2 0.06
21 17 0.47
ACGTcount: A:0.05, C:0.28, G:0.31, T:0.36
Consensus pattern (21 bp):
CTGCAATTGCTGCTGCTGCTG
Found at i:13359627 original size:15 final size:15
Alignment explanation
Indices: 13359596--13359651 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
13359586 CTGCATTTGC
13359596 TGCTGCTGCTG-TGGT
1 TGCTGCTGCTGCT-GT
13359611 TGCTGCTGCTGCTGT
1 TGCTGCTGCTGCTGT
* *
13359626 TGCAATTGCCGCTGCTGC
1 TGC---TGCTGCTGCTGT
13359644 TGCTGCTG
1 TGCTGCTG
13359652 TTGCATCATC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 20 0.59
16 1 0.03
18 13 0.38
ACGTcount: A:0.04, C:0.27, G:0.34, T:0.36
Consensus pattern (15 bp):
TGCTGCTGCTGCTGT
Found at i:13359655 original size:21 final size:21
Alignment explanation
Indices: 13359594--13359655 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
13359584 CTCTGCATTT
*
13359594 GCTGCTGCTGCTG-TGGTTGCT
1 GCTGCTGCTGCTGCT-GTTGCC
* **
13359615 GCTGCTGCTGTTGCAATTGCC
1 GCTGCTGCTGCTGCTGTTGCC
13359636 GCTGCTGCTGCTGCTGTTGC
1 GCTGCTGCTGCTGCTGTTGC
13359656 ATCATCTGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.03, C:0.27, G:0.34, T:0.35
Consensus pattern (21 bp):
GCTGCTGCTGCTGCTGTTGCC
Found at i:13367182 original size:40 final size:39
Alignment explanation
Indices: 13367126--13367201 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
13367116 AACATTATAC
13367126 ATATTTCATATATTATTATGAT-TAATTATTTTTAAACTAT
1 ATATTTCATATATTATTAT-ATGTAATT-TTTTTAAACTAT
*
13367166 ATATTTCAT-TATTTATTATATGTTATTTTTTTAAAC
1 ATATTTCATATA-TTATTATATGTAATTTTTTTAAAC
13367202 ACGCATCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
39 13 0.39
40 20 0.61
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (39 bp):
ATATTTCATATATTATTATATGTAATTTTTTTAAACTAT
Found at i:13379359 original size:20 final size:20
Alignment explanation
Indices: 13379292--13379363 Score: 51
Period size: 20 Copynumber: 3.6 Consensus size: 20
13379282 AACTTCTAAA
*
13379292 TTTTATTCT-TTTAAAAATAT
1 TTTTATT-TATTTTAAAATAT
*
13379312 TTTGT-TATTATTTTAAAAAAT
1 TTT-TAT-TTATTTTAAAATAT
***
13379333 CAATATTTATTTTAAAATAT
1 TTTTATTTATTTTAAAATAT
13379353 TTTTA-TTATTT
1 TTTTATTTATTT
13379364 GATTATTTTC
Statistics
Matches: 39, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
19 6 0.15
20 21 0.54
21 12 0.31
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (20 bp):
TTTTATTTATTTTAAAATAT
Found at i:13379398 original size:29 final size:27
Alignment explanation
Indices: 13379336--13379399 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
13379326 AAAAAATCAA
13379336 TATTTATTTTAAAATATTTTTATTATT
1 TATTTATTTTAAAATATTTTTATTATT
* * *
13379363 TGA-TTATTTTCATAATTTTTTTCGTTATT
1 T-ATTTATTTT-AAAATATTTTT-ATTATT
13379392 TATTTATT
1 TATTTATT
13379400 GCTGATAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 8 0.27
28 11 0.37
29 11 0.37
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (27 bp):
TATTTATTTTAAAATATTTTTATTATT
Found at i:13386325 original size:25 final size:25
Alignment explanation
Indices: 13386261--13386325 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
13386251 AAAAAATTAA
* *
13386261 AATTTTAAAATATTTTATAAATTTT
1 AATTTTAAAATAATTCATAAATTTT
* *
13386286 AATTTTTAAGA-AATTCATATATTTT
1 AA-TTTTAAAATAATTCATAAATTTT
* *
13386311 TATTTTCAAATAATT
1 AATTTTAAAATAATT
13386326 AATTAAAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
24 6 0.19
25 18 0.58
26 7 0.23
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (25 bp):
AATTTTAAAATAATTCATAAATTTT
Found at i:13386583 original size:39 final size:39
Alignment explanation
Indices: 13386528--13386614 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
13386518 ATGGAAGTAG
*
13386528 TTTTT-AA-CACCGTTCAATTTCGACTAACAAACATTAT
1 TTTTTGAACCACCATTCAATTTCGACTAACAAACATTAT
13386565 TTTTTGAACCACCATTCAATTTCGACTAACAAACATTAT
1 TTTTTGAACCACCATTCAATTTCGACTAACAAACATTAT
13386604 TTTTTGAACCA
1 TTTTTGAACCA
13386615 TAATTACATT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
37 5 0.11
38 2 0.04
39 40 0.85
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (39 bp):
TTTTTGAACCACCATTCAATTTCGACTAACAAACATTAT
Found at i:13386601 original size:21 final size:21
Alignment explanation
Indices: 13386540--13386601 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
13386530 TTTAACACCG
13386540 TTCAATTTCGACTAACAAACA
1 TTCAATTTCGACTAACAAACA
** * *
13386561 TT--ATTT--TTTGAACCACCA
1 TTCAATTTCGACT-AACAAACA
13386579 TTCAATTTCGACTAACAAACA
1 TTCAATTTCGACTAACAAACA
13386600 TT
1 TT
13386602 ATTTTTTGAA
Statistics
Matches: 28, Mismatches: 8, Indels: 10
0.61 0.17 0.22
Matches are distributed among these distances:
17 1 0.04
18 8 0.29
19 4 0.14
20 4 0.14
21 10 0.36
22 1 0.04
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (21 bp):
TTCAATTTCGACTAACAAACA
Found at i:13396250 original size:11 final size:11
Alignment explanation
Indices: 13396236--13396280 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
13396226 AGATAAATAT
13396236 TATTTTATTAA
1 TATTTTATTAA
*
13396247 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
13396260 TATTTTATTAT
1 TATTTTATTAA
13396271 TATTTTATTA
1 TATTTTATTA
13396281 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:13398465 original size:46 final size:46
Alignment explanation
Indices: 13398413--13398589 Score: 230
Period size: 46 Copynumber: 3.8 Consensus size: 46
13398403 GCTCTCTGAT
**
13398413 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
13398459 ATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
13398505 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAA-GATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG-TGAC
** * * * * *
13398551 AAAAAATGAGTAAGACCATAGTTGAGAGACACTATGGCA
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
13398590 TCATGTCAAA
Statistics
Matches: 116, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 115 0.99
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:13404144 original size:37 final size:37
Alignment explanation
Indices: 13404103--13404177 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
13404093 AGACATCTCA
13404103 AGTTGCCAAGTTTTACCTTTATTAACGATCAGGAAAT
1 AGTTGCCAAGTTTTACCTTTATTAACGATCAGGAAAT
13404140 AGTTGCCAAGTTTTACCTTTATTAACGATCAGGAAAT
1 AGTTGCCAAGTTTTACCTTTATTAACGATCAGGAAAT
13404177 A
1 A
13404178 TATTAAACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (37 bp):
AGTTGCCAAGTTTTACCTTTATTAACGATCAGGAAAT
Found at i:13410950 original size:30 final size:30
Alignment explanation
Indices: 13410890--13410950 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
13410880 ATCATTTTAA
*
13410890 TTTTAATTTTAAAAATTCAATAAATTTAAT
1 TTTTAATTTTAAAAATTCAATAAATCTAAT
* **
13410920 TTTTAATATTTACAAATTTTAT-AATCTAAT
1 TTTTAAT-TTTAAAAATTCAATAAATCTAAT
13410950 T
1 T
13410951 ATAAAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (30 bp):
TTTTAATTTTAAAAATTCAATAAATCTAAT
Found at i:13423897 original size:29 final size:28
Alignment explanation
Indices: 13423862--13423918 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
13423852 AATTTAACAA
*
13423862 AAAAATTTAATAATATTA-AAAATTAAAATT
1 AAAATTTTAA-AAT-TTATAAAA-TAAAATT
13423892 AAAATTTTAAAATTTATAAAATAAAAT
1 AAAATTTTAAAATTTATAAAATAAAAT
13423919 ATTTAAATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 9 0.36
29 7 0.28
30 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAATTTTAAAATTTATAAAATAAAATT
Found at i:13423901 original size:30 final size:31
Alignment explanation
Indices: 13423862--13423934 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
13423852 AATTTAACAA
* *
13423862 AAAAATTTAATAATATTA-AAAATTAAA-ATT
1 AAAATTTTAA-AATATTATAAAATAAAATATT
13423892 AAAATTTTAAAAT-TTATAAAATAAAATATT
1 AAAATTTTAAAATATTATAAAATAAAATATT
*
13423922 TAAATTCTTAAAA
1 AAAATT-TTAAAA
13423935 ATAAAAGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 3 0.08
29 11 0.30
30 17 0.46
31 6 0.16
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (31 bp):
AAAATTTTAAAATATTATAAAATAAAATATT
Found at i:13423935 original size:23 final size:21
Alignment explanation
Indices: 13423877--13423940 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 21
13423867 TTTAATAATA
* *
13423877 TTAAAAATTAAAATTAAAATT
1 TTAAAATTTAAAAATAAAATT
13423898 TTAAAATTTATAAAATAAAATAT
1 TTAAAATTTA-AAAATAAAAT-T
*
13423921 TTAAATTCTTAAAAATAAAA
1 TTAAAAT-TTAAAAATAAAA
13423941 GTAAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 9 0.24
22 9 0.24
23 16 0.43
24 3 0.08
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAAAATTTAAAAATAAAATT
Found at i:13424911 original size:4 final size:4
Alignment explanation
Indices: 13424904--13424938 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
13424894 TGTTTTACCC
*
13424904 AATA AATA AATA AATA AATA AATA AACA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AAT
13424939 CAAAATCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:13438466 original size:21 final size:21
Alignment explanation
Indices: 13438440--13438480 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
13438430 AAAGGGAACG
13438440 AATATGATATTTTTCACTAAA
1 AATATGATATTTTTCACTAAA
13438461 AATATGATATTTTTCACTAA
1 AATATGATATTTTTCACTAA
13438481 TCATAAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (21 bp):
AATATGATATTTTTCACTAAA
Found at i:13439287 original size:18 final size:19
Alignment explanation
Indices: 13439243--13439289 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
13439233 TCATACCTAA
*
13439243 ATATAA-ATATTTTAAAAT
1 ATATAACATATGTTAAAAT
* *
13439261 TTATTACATATGTT-AAAT
1 ATATAACATATGTTAAAAT
13439279 ATATAACATAT
1 ATATAACATAT
13439290 ATATTATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (19 bp):
ATATAACATATGTTAAAAT
Found at i:13447459 original size:20 final size:21
Alignment explanation
Indices: 13447416--13447459 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
13447406 TTTAGTCCTT
13447416 TAGGTTGACTCCAGCTATGCCC
1 TAGGTTGACTCCA-CTATGCCC
13447438 TAGGTTGACATCCA-TA-GCCC
1 TAGGTTGAC-TCCACTATGCCC
13447458 TA
1 TA
13447460 TCACGACACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
22 9 0.43
23 4 0.19
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (21 bp):
TAGGTTGACTCCACTATGCCC
Found at i:13458975 original size:17 final size:19
Alignment explanation
Indices: 13458953--13458990 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
13458943 AATTTTTATC
13458953 TTAAATT-ATC-AAAAATA
1 TTAAATTAATCAAAAAATA
13458970 TTAAATTAATCAAAAAATA
1 TTAAATTAATCAAAAAATA
13458989 TT
1 TT
13458991 TTTCAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 3 0.16
19 9 0.47
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TTAAATTAATCAAAAAATA
Found at i:13463147 original size:25 final size:28
Alignment explanation
Indices: 13463115--13463166 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 28
13463105 AAAATTAGAA
13463115 AAAATTAAATTT-AT-TAA-ATATTTAC
1 AAAATTAAATTTGATATAACATATTTAC
13463140 AAAATTAAATTTGATATAACATATTTA
1 AAAATTAAATTTGATATAACATATTTA
13463167 AACTATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 12 0.50
26 2 0.08
27 3 0.12
28 7 0.29
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (28 bp):
AAAATTAAATTTGATATAACATATTTAC
Found at i:13463201 original size:20 final size:19
Alignment explanation
Indices: 13463176--13463240 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
13463166 AAACTATTTA
13463176 AAAATTTATAAAAACGTATT
1 AAAATTTATAAAAA-GTATT
*
13463196 AAAATTCTATAAAAA-TCATG
1 AAAATT-TATAAAAAGT-ATT
*
13463216 AAAA-TTATACAAAGGTATT
1 AAAATTTATA-AAAAGTATT
13463235 AAAATT
1 AAAATT
13463241 GATATACACT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
18 4 0.11
19 11 0.30
20 14 0.38
21 8 0.22
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (19 bp):
AAAATTTATAAAAAGTATT
Found at i:13463760 original size:21 final size:20
Alignment explanation
Indices: 13463711--13463768 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
13463701 AGTTGATATC
13463711 AATTTTAATATTTTTTTTAA
1 AATTTTAATATTTTTTTTAA
*
13463731 TATTTTAATATTTTTTTTAA
1 AATTTTAATATTTTTTTTAA
*
13463751 GAATTCTAATACTTTTTT
1 -AATTTTAATA-TTTTTT
13463769 AGAAAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 19 0.58
21 8 0.24
22 6 0.18
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (20 bp):
AATTTTAATATTTTTTTTAA
Found at i:13472500 original size:29 final size:29
Alignment explanation
Indices: 13472429--13472501 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 29
13472419 TTAACAGTGC
* *
13472429 AATTTAATTTTAAAATCTGAAAAATATAG
1 AATTAAATTTTAAAATATGAAAAATATAG
13472458 AGATTAAATTTTTAAAA-AT-AAAAAGTATAAG
1 A-ATTAAA-TTTTAAAATATGAAAAA-TAT-AG
13472489 AATTAAATTTTAA
1 AATTAAATTTTAA
13472502 TTTTATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 12 0.32
30 15 0.39
31 11 0.29
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.37
Consensus pattern (29 bp):
AATTAAATTTTAAAATATGAAAAATATAG
Found at i:13473178 original size:58 final size:58
Alignment explanation
Indices: 13473113--13473228 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
13473103 TTGATACTAT
13473113 GGTGCGTTGGGCCAAACACCAAGCTAATTTCTGTTCATCAAGGTATTTGAAGCCTTTG
1 GGTGCGTTGGGCCAAACACCAAGCTAATTTCTGTTCATCAAGGTATTTGAAGCCTTTG
*
13473171 GGTGCGTTGGGCCAAACACTAAGCTAATTTCTGTTCATCAAGGTATTTGAAGCCTTTG
1 GGTGCGTTGGGCCAAACACCAAGCTAATTTCTGTTCATCAAGGTATTTGAAGCCTTTG
13473229 AGAGATGGGA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (58 bp):
GGTGCGTTGGGCCAAACACCAAGCTAATTTCTGTTCATCAAGGTATTTGAAGCCTTTG
Found at i:13475616 original size:64 final size:64
Alignment explanation
Indices: 13475532--13475685 Score: 249
Period size: 64 Copynumber: 2.4 Consensus size: 64
13475522 ATATATATTT
*
13475532 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCAAATATAGGTTAC
*
13475596 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACTTACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACTTACATATGTGGTTCAAATATAGGTTAC
13475660 AAA-TTCTTTGAGCTGAATTTTAATGT
1 AAAGTTC-TTGAGCTGAA-TTTAATGT
13475686 TGTAAATTAT
Statistics
Matches: 85, Mismatches: 2, Indels: 5
0.92 0.02 0.05
Matches are distributed among these distances:
63 3 0.04
64 73 0.86
65 9 0.11
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACTTACATATGTGGTTCAAATATAGGTTAC
Found at i:13475887 original size:41 final size:41
Alignment explanation
Indices: 13475828--13475985 Score: 187
Period size: 41 Copynumber: 3.9 Consensus size: 41
13475818 ATATGAGATT
* * * *
13475828 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
13475869 TTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
13475910 TTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTG-AATTAA
* * *
13475952 -TC-GAGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTCAGA-CTTTATGTCTAGCAGGCTTGATGCCGGTG
13475986 TTTTATATAG
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
40 4 0.04
41 91 0.88
42 8 0.08
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
Found at i:13476674 original size:14 final size:15
Alignment explanation
Indices: 13476650--13476684 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
13476640 TACTTTAATC
13476650 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
13476665 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
13476680 ATGGT
1 ATGGT
13476685 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:13482511 original size:64 final size:64
Alignment explanation
Indices: 13482427--13482603 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
13482417 ATATATATTT
*
13482427 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
13482491 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
13482555 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
13482604 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:13482782 original size:41 final size:41
Alignment explanation
Indices: 13482723--13482880 Score: 187
Period size: 41 Copynumber: 3.9 Consensus size: 41
13482713 ATATGAGATT
* * * *
13482723 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
13482764 TTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
13482805 TTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTG-AATTAA
* * *
13482847 -TC-GAGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTCAGA-CTTTATGTCTAGCAGGCTTGATGCCGGTG
13482881 TTTTATATAG
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
40 4 0.04
41 91 0.88
42 8 0.08
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
Found at i:13483568 original size:14 final size:15
Alignment explanation
Indices: 13483544--13483578 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
13483534 ATACTTAATC
13483544 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
13483559 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
13483574 ATGGT
1 ATGGT
13483579 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:13494754 original size:16 final size:16
Alignment explanation
Indices: 13494721--13494754 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13494711 AAAGAATGTT
* *
13494721 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
13494737 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
13494753 AA
1 AA
13494755 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:13499344 original size:16 final size:16
Alignment explanation
Indices: 13499311--13499344 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13499301 GGAGATTGTT
* *
13499311 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
13499327 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
13499343 AA
1 AA
13499345 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:13503851 original size:20 final size:21
Alignment explanation
Indices: 13503828--13503871 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
13503818 AGTGTCGTGA
13503828 TAGGGC-TA-TGGATGTCAACC
1 TAGGGCATACTGGA-GTCAACC
13503848 TAGGGCATAGCTGGAGTCAACC
1 TAGGGCATA-CTGGAGTCAACC
13503870 TA
1 TA
13503872 AAGGGACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
22 9 0.43
23 4 0.19
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (21 bp):
TAGGGCATACTGGAGTCAACC
Found at i:13512024 original size:18 final size:19
Alignment explanation
Indices: 13512001--13512047 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
13511991 ATAATAATAT
*
13512001 ATATGTTATATA-TTTAAC
1 ATATGTTATATATTTTAAA
* *
13512019 ATATGTAATAAATTTTAAA
1 ATATGTTATATATTTTAAA
13512038 ATAT-TTATAT
1 ATATGTTATAT
13512048 TTAGGTATGA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (19 bp):
ATATGTTATATATTTTAAA
Found at i:13512835 original size:21 final size:21
Alignment explanation
Indices: 13512809--13512849 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
13512799 AACTTTATGA
13512809 TTAGTGAAAAATATCATATTT
1 TTAGTGAAAAATATCATATTT
13512830 TTAGTGAAAAATATCATATT
1 TTAGTGAAAAATATCATATT
13512850 CGTTCCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (21 bp):
TTAGTGAAAAATATCATATTT
Found at i:13525574 original size:42 final size:40
Alignment explanation
Indices: 13525496--13525574 Score: 95
Period size: 42 Copynumber: 1.9 Consensus size: 40
13525486 TGATTTAGTA
* * *
13525496 ACAATTACATGCTTTACATGCAATCATTATACAGTAACAG
1 ACAATGACATGCTTTACATGCAATCATAACACAGTAACAG
* *
13525536 ACAATGACATGCTTTTTTCATGCAATCATAACATAGTAA
1 ACAATGACATGC--TTTACATGCAATCATAACACAGTAA
13525575 TAATCATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 11 0.34
42 21 0.66
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (40 bp):
ACAATGACATGCTTTACATGCAATCATAACACAGTAACAG
Found at i:13529598 original size:64 final size:64
Alignment explanation
Indices: 13529514--13529690 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
13529504 ATATATATTT
*
13529514 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
13529578 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
13529642 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
13529691 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:13529869 original size:41 final size:41
Alignment explanation
Indices: 13529810--13529967 Score: 185
Period size: 41 Copynumber: 3.9 Consensus size: 41
13529800 ATATGAGATT
* * * *
13529810 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
13529851 TTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
13529892 TTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTG-AATTAA
* * * * *
13529934 -TCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTG
13529968 TTTTATATAG
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.02
41 92 0.90
42 8 0.08
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
Found at i:13530656 original size:14 final size:15
Alignment explanation
Indices: 13530632--13530666 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
13530622 TACTTTAATC
13530632 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
13530647 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
13530662 ATGGT
1 ATGGT
13530667 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Done.