Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 25 of 150
Found at i:6543503 original size:18 final size:19
Alignment explanation
Indices: 6543480--6543520 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
6543470 GGGGCTAGGG
6543480 TTTTAG-TTT-GTTTATGTT
1 TTTTAGCTTTAGTTTAT-TT
6543498 TTTTAGCTTTAGTTTATTT
1 TTTTAGCTTTAGTTTATTT
6543517 TTTT
1 TTTT
6543521 TTTAGTTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 9 0.43
20 6 0.29
ACGTcount: A:0.12, C:0.02, G:0.12, T:0.73
Consensus pattern (19 bp):
TTTTAGCTTTAGTTTATTT
Found at i:6544171 original size:21 final size:21
Alignment explanation
Indices: 6544120--6544171 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
6544110 AGTGGTCGTG
*
6544120 CATAT-TTATTTTTTAATCTAT
1 CATATATTA-TTTTAAATCTAT
* *
6544141 CAT-TAATATTTTAAATGTAT
1 CATATATTATTTTAAATCTAT
6544161 CATATATTATT
1 CATATATTATT
6544172 ATTTCAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.56
Consensus pattern (21 bp):
CATATATTATTTTAAATCTAT
Found at i:6544302 original size:17 final size:16
Alignment explanation
Indices: 6544271--6544304 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6544261 TATTTATTGA
*
6544271 TTTTGTTTTTTTTTTC
1 TTTTCTTTTTTTTTTC
6544287 TTTTCTTTTCTTTTTTC
1 TTTTCTTTT-TTTTTTC
6544304 T
1 T
6544305 CTCCTTGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (16 bp):
TTTTCTTTTTTTTTTC
Found at i:6545701 original size:5 final size:5
Alignment explanation
Indices: 6545691--6545730 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
6545681 TGCCTAAGAT
* *
6545691 TTGAA TTGAA TTGAA TTGAA TATGAA TTGTA TTAAA TTGA
1 TTGAA TTGAA TTGAA TTGAA T-TGAA TTGAA TTGAA TTGA
6545731 GTTAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (5 bp):
TTGAA
Found at i:6546315 original size:24 final size:24
Alignment explanation
Indices: 6546288--6546343 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
6546278 TTCGGAGTTA
6546288 CCCGTTATTGGCTCGCATGAGCTT
1 CCCGTTATTGGCTCGCATGAGCTT
**
6546312 CCCGATTA-TGGCTCTTATGAGCTT
1 CCCG-TTATTGGCTCGCATGAGCTT
6546336 CCCGTTAT
1 CCCGTTAT
6546344 ACAACCCGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 3 0.11
24 22 0.79
25 3 0.11
ACGTcount: A:0.14, C:0.29, G:0.21, T:0.36
Consensus pattern (24 bp):
CCCGTTATTGGCTCGCATGAGCTT
Found at i:6554475 original size:14 final size:13
Alignment explanation
Indices: 6554456--6554495 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
6554446 TTCCTTCTAA
6554456 AAAAAATAAGTAAG
1 AAAAAA-AAGTAAG
*
6554470 AAAAAAAAATAAG
1 AAAAAAAAGTAAG
6554483 AATAAAAAAGTAA
1 AA-AAAAAAGTAA
6554496 ACGAGATCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (13 bp):
AAAAAAAAGTAAG
Found at i:6554476 original size:17 final size:16
Alignment explanation
Indices: 6554454--6554491 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
6554444 GTTTCCTTCT
6554454 AAAAAAAATAAGTAAGA
1 AAAAAAAATAAG-AAGA
*
6554471 AAAAAAAATAAGAATA
1 AAAAAAAATAAGAAGA
6554487 AAAAA
1 AAAAA
6554492 GTAAACGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.11
Consensus pattern (16 bp):
AAAAAAAATAAGAAGA
Found at i:6554482 original size:13 final size:14
Alignment explanation
Indices: 6554455--6554495 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
6554445 TTTCCTTCTA
6554455 AAAAAAATAAGTAAG
1 AAAAAAA-AAGTAAG
6554470 AAAAAAAAA-TAAG
1 AAAAAAAAAGTAAG
*
6554483 AATAAAAAAGTAA
1 AAAAAAAAAGTAA
6554496 ACGAGATCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 12 0.50
14 5 0.21
15 7 0.29
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (14 bp):
AAAAAAAAAGTAAG
Found at i:6554945 original size:28 final size:30
Alignment explanation
Indices: 6554914--6554975 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 30
6554904 AAAAAAATTG
*
6554914 AATTAAGCCCT-AATTGAAAACT-GCAATC
1 AATTAAGCCCTGAATAGAAAACTGGCAATC
* **
6554942 AATTAAGTCCTGAATAGAAAGTTGGCAATC
1 AATTAAGCCCTGAATAGAAAACTGGCAATC
6554972 AATT
1 AATT
6554976 GGGCCCTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 10 0.36
29 8 0.29
30 10 0.36
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (30 bp):
AATTAAGCCCTGAATAGAAAACTGGCAATC
Found at i:6559776 original size:21 final size:23
Alignment explanation
Indices: 6559740--6559785 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
6559730 TCAGTTTAAA
6559740 ATGCATTATAACAATTT-ATTTC
1 ATGCATTATAACAATTTAATTTC
*
6559762 ATGCA-TATGACAATTTAATTTC
1 ATGCATTATAACAATTTAATTTC
6559784 AT
1 AT
6559786 TTTATAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (23 bp):
ATGCATTATAACAATTTAATTTC
Found at i:6574221 original size:16 final size:16
Alignment explanation
Indices: 6574202--6574252 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
6574192 GAACATTTGG
6574202 TATGAAGATTAGTCAT
1 TATGAAGATTAGTCAT
* **
6574218 TATGAACATT--T-GG
1 TATGAAGATTAGTCAT
6574231 TATGAAGATTAGTCAT
1 TATGAAGATTAGTCAT
6574247 TATGAA
1 TATGAA
6574253 CATTTGGTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
13 9 0.35
14 1 0.04
15 1 0.04
16 15 0.58
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (16 bp):
TATGAAGATTAGTCAT
Found at i:6574231 original size:29 final size:29
Alignment explanation
Indices: 6574189--6574276 Score: 176
Period size: 29 Copynumber: 3.0 Consensus size: 29
6574179 ATATTGGTTG
6574189 TATGAACATTTGGTATGAAGATTAGTCAT
1 TATGAACATTTGGTATGAAGATTAGTCAT
6574218 TATGAACATTTGGTATGAAGATTAGTCAT
1 TATGAACATTTGGTATGAAGATTAGTCAT
6574247 TATGAACATTTGGTATGAAGATTAGTCAT
1 TATGAACATTTGGTATGAAGATTAGTCAT
6574276 T
1 T
6574277 CTTTGCATAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (29 bp):
TATGAACATTTGGTATGAAGATTAGTCAT
Found at i:6576469 original size:31 final size:31
Alignment explanation
Indices: 6576410--6576469 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
6576400 ATTTACTCTT
* * *
6576410 TTAAAAATCATATTTGACTTGCTGTTTGAAA
1 TTAAAAATCAAATTTAACTTGCTCTTTGAAA
6576441 TTAAAAATCAAATTTAACTT-CATCTTTGA
1 TTAAAAATCAAATTTAACTTGC-TCTTTGA
6576470 TCTTCCTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (31 bp):
TTAAAAATCAAATTTAACTTGCTCTTTGAAA
Found at i:6577856 original size:6 final size:6
Alignment explanation
Indices: 6577845--6577870 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6577835 ATATAAAAAA
6577845 ATATTT ATATTT ATATTT ATATTT AT
1 ATATTT ATATTT ATATTT ATATTT AT
6577871 GTAAAACACC
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATATTT
Found at i:6590656 original size:9 final size:9
Alignment explanation
Indices: 6590642--6590671 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6590632 GGTTTTTGGA
6590642 TTTTAGGGT
1 TTTTAGGGT
*
6590651 TTTTAGGAT
1 TTTTAGGGT
6590660 TTTTAGGGT
1 TTTTAGGGT
6590669 TTT
1 TTT
6590672 AAAGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:6590659 original size:17 final size:17
Alignment explanation
Indices: 6590632--6590671 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
6590622 CTGACTTGTA
6590632 GGTTTTTGGA-TTTTAG
1 GGTTTTTGGATTTTTAG
6590648 GGTTTTTAGGATTTTTAG
1 GGTTTTT-GGATTTTTAG
6590666 GGTTTT
1 GGTTTT
6590672 AAAGAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.32
17 3 0.14
18 12 0.55
ACGTcount: A:0.12, C:0.00, G:0.30, T:0.57
Consensus pattern (17 bp):
GGTTTTTGGATTTTTAG
Found at i:6590672 original size:17 final size:16
Alignment explanation
Indices: 6590632--6590672 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
6590622 CTGACTTGTA
*
6590632 GGTTTTTGGATTTTAG
1 GGTTTTAGGATTTTAG
6590648 GGTTTTTAGGATTTTTAG
1 GG-TTTTAGGA-TTTTAG
6590666 GGTTTTA
1 GGTTTTA
6590673 AAGAAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 12 0.55
18 8 0.36
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (16 bp):
GGTTTTAGGATTTTAG
Found at i:6592420 original size:20 final size:22
Alignment explanation
Indices: 6592378--6592420 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6592368 TTTTTTTCTC
*
6592378 TCATTTTCTCTCTTGCCAAACA
1 TCATTTTCTCTCTTGCAAAACA
6592400 TCATTTTCT-TCTT-CAAAACA
1 TCATTTTCTCTCTTGCAAAACA
6592420 T
1 T
6592421 ATAGTTGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 4 0.20
22 9 0.45
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.44
Consensus pattern (22 bp):
TCATTTTCTCTCTTGCAAAACA
Found at i:6592976 original size:21 final size:22
Alignment explanation
Indices: 6592933--6592977 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
6592923 ACACCAAAAC
*
6592933 AGGCTTTTAGCGGCGCATTTTT
1 AGGCCTTTAGCGGCGCATTTTT
*
6592955 AGGCCTTTAGCGTCGC-TTTTT
1 AGGCCTTTAGCGGCGCATTTTT
6592976 AG
1 AG
6592978 TGCCGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCATTTTT
Found at i:6593117 original size:43 final size:43
Alignment explanation
Indices: 6593069--6593175 Score: 151
Period size: 43 Copynumber: 2.5 Consensus size: 43
6593059 TATTAGAAAT
6593069 AAACGCCGCTAAAGACCATGACATTTAGCAGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCATGACATTTAGCAGCGCTTCTCCCAC
* * * *
6593112 AAACGCCGTTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACATTTAGCAGCGCTTCTCCCAC
* * *
6593155 AAATGTCGCTAAAGACTATGA
1 AAACGCCGCTAAAGACCATGA
6593176 TCTTTAGTGG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACATTTAGCAGCGCTTCTCCCAC
Found at i:6593181 original size:43 final size:42
Alignment explanation
Indices: 6593069--6593187 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
6593059 TATTAGAAAT
*
6593069 AAACGCCGCTAAAGACCATGACATTTAGCAGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCATGAC-TTTAGCGGCGCTTCTCCCAC
* *
6593112 AAACGCCGTTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGA-CTTTAGCGGCGCTTCTCCCAC
* * * *
6593155 AAATGTCGCTAAAGACTATGATCTTTAGTGGCG
1 AAACGCCGCTAAAGACCATGA-CTTTAGCGGCG
6593188 TTGTTTTAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
43 65 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAGACCATGACTTTAGCGGCGCTTCTCCCAC
Found at i:6593660 original size:66 final size:66
Alignment explanation
Indices: 6593554--6593695 Score: 189
Period size: 66 Copynumber: 2.2 Consensus size: 66
6593544 TGCAGCGTCT
* *
6593554 GCTTCTCTTGCTGTCGCATCTGCTTTAAGCTGCAGGTGGAGTTCTTCATA-CTTTCGTTAAACCT
1 GCTTCTCTCGCTGTCGCATCTGCTTTAAGCTGCAGCTGGAGTTCTTCATATCTTT-GTTAAACCT
6593618 CA
65 CA
* * * * *
6593620 GCTTCTCTCGCTG-CTGCATCTGTTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCT
1 GCTTCTCTCGCTGTC-GCATCTGCTTTAAGCTGCAGCTGGAGTTCTTCATATCTTTGTTAAACCT
6593684 CA
65 CA
6593686 GCTTCTCTCG
1 GCTTCTCTCG
6593696 ACACTGCCTC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
65 1 0.01
66 62 0.93
67 4 0.06
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.41
Consensus pattern (66 bp):
GCTTCTCTCGCTGTCGCATCTGCTTTAAGCTGCAGCTGGAGTTCTTCATATCTTTGTTAAACCTC
A
Found at i:6593713 original size:66 final size:66
Alignment explanation
Indices: 6593569--6593718 Score: 178
Period size: 66 Copynumber: 2.3 Consensus size: 66
6593559 TCTTGCTGTC
* * * * *
6593569 GCATCTGCTTTAAGCTGCAGGTGGAGTTCTTCATACTTTCGTTAAACCTCAGCTTCTCTCGCTGC
1 GCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTAAACCTCAGCTTCTCTCGCTAC
6593634 T
66 T
* * * *
6593635 GCATCTGTTTTAAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGAC-
1 GCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTAAACCTCAGCTTCTCTCG-CT
6593698 ACT
64 ACT
*
6593701 GCCTCCGCTTTAAGTTGT
1 GCATCCGCTTTAAGTTGT
6593719 GTAATTTGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
66 67 0.93
67 5 0.07
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (66 bp):
GCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTAAACCTCAGCTTCTCTCGCTAC
T
Found at i:6600752 original size:42 final size:42
Alignment explanation
Indices: 6600688--6600772 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
6600678 GCTTCTCCAT
* *
6600688 AAGATCTAACTCATCAACGATAAAATCTGTTAAAAATTCTTG
1 AAGATCAAACTCAGCAACGATAAAATCTGTTAAAAATTCTTG
* *
6600730 AAGATCAAACTCAGCAATGATAAAATCTGTTGAAAATTCTTG
1 AAGATCAAACTCAGCAACGATAAAATCTGTTAAAAATTCTTG
6600772 A
1 A
6600773 GCTATTTCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (42 bp):
AAGATCAAACTCAGCAACGATAAAATCTGTTAAAAATTCTTG
Found at i:6602362 original size:66 final size:65
Alignment explanation
Indices: 6602276--6602454 Score: 202
Period size: 66 Copynumber: 2.7 Consensus size: 65
6602266 ATTCAAGAAC
* * * * *
6602276 TTGAGAATACATGATATCTCGTTCAGGAGCTTGGGAAAA-CTCGATATCTCGTTCAAGATA-TTG
1 TTGAGAAGACCTGATATCTCGTTCAGGAGCTTAGGAAAATC-CAATATCGCGTTC-AGA-ACTTG
6602339 GAA
63 GAA
* * *
6602342 TTGAGAAGACCTGATATCTCGTTCAAGAGCTTAGGAAGATCCAATATCGCGTTCAGAAGCTTGGT
1 TTGAGAAGACCTGATATCTCGTTCAGGAGCTTAGGAAAATCCAATATCGCGTTCAGAA-CTTGGA
6602407 A
65 A
* *
6602408 TTGAGAAGACCTAATATCTTGTTCAGGAGCTTA-GAAAGATCCAATAT
1 TTGAGAAGACCTGATATCTCGTTCAGGAGCTTAGGAAA-ATCCAATAT
6602455 TTGAGTTTTC
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
64 1 0.01
65 6 0.06
66 89 0.92
67 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (65 bp):
TTGAGAAGACCTGATATCTCGTTCAGGAGCTTAGGAAAATCCAATATCGCGTTCAGAACTTGGAA
Found at i:6602389 original size:30 final size:30
Alignment explanation
Indices: 6602355--6602454 Score: 78
Period size: 30 Copynumber: 3.1 Consensus size: 30
6602345 AGAAGACCTG
6602355 ATATCTCGTTCAAGAGCTTAGGAAGATCCA
1 ATATCTCGTTCAAGAGCTTAGGAAGATCCA
*
6602385 ATATCGCGTTC-AGAAGCTTGGTATTGAGAAGA-CCTA
1 ATATCTCGTTCAAG-AGC-T--TA--G-GAAGATCC-A
* * *
6602421 ATATCTTGTTCAGGAGCTTAGAAAGATCCA
1 ATATCTCGTTCAAGAGCTTAGGAAGATCCA
6602451 ATAT
1 ATAT
6602455 TTGAGTTTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
29 2 0.04
30 22 0.40
31 4 0.07
33 4 0.07
35 4 0.07
36 18 0.33
37 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (30 bp):
ATATCTCGTTCAAGAGCTTAGGAAGATCCA
Found at i:6603978 original size:39 final size:39
Alignment explanation
Indices: 6603924--6604053 Score: 235
Period size: 39 Copynumber: 3.4 Consensus size: 39
6603914 TTTAGTTTGA
6603924 GTCTTTAATTATGTCTTAGTTTGAACATCATTAATATGT
1 GTCTTTAATTATGTCTTAGTTTGAACATCATTAATATGT
*
6603963 GTCTTTAATTATGTCTTAGTTTGAACACCATTAATATGT
1 GTCTTTAATTATGTCTTAGTTTGAACATCATTAATATGT
*
6604002 GTCTTTAATTATGTCTTAGTTTGAACATTATTAATATGT
1 GTCTTTAATTATGTCTTAGTTTGAACATCATTAATATGT
6604041 GT-TTTAATTATGT
1 GTCTTTAATTATGT
6604054 GTCTTAATTC
Statistics
Matches: 88, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 11 0.12
39 77 0.88
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (39 bp):
GTCTTTAATTATGTCTTAGTTTGAACATCATTAATATGT
Found at i:6604129 original size:24 final size:24
Alignment explanation
Indices: 6604108--6604173 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
6604098 ATAAATTGTG
*
6604108 TTTAAACCTTGTTTTAATATTGCA
1 TTTAAACCGTGTTTTAATATTGCA
6604132 TTTAAACCGTGTTTTAATATTGCA
1 TTTAAACCGTGTTTTAATATTGCA
6604156 TTTAAACCGTGTTTTAAT
1 TTTAAACCGTGTTTTAAT
6604174 GTGTACCAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (24 bp):
TTTAAACCGTGTTTTAATATTGCA
Found at i:6609492 original size:18 final size:18
Alignment explanation
Indices: 6609436--6609508 Score: 64
Period size: 18 Copynumber: 4.1 Consensus size: 18
6609426 AGCTAAAAAT
6609436 AAAAGAAATTGAGAGAAGAAA
1 AAAAGAAATT--GA-AAGAAA
6609457 AAAAGAAATGTG--AG--A
1 AAAAGAAAT-TGAAAGAAA
6609472 AAAAGAAATTGAAAGAAA
1 AAAAGAAATTGAAAGAAA
**
6609490 AAAAGAGCTTGAAAGAAA
1 AAAAGAAATTGAAAGAAA
6609508 A
1 A
6609509 GAGAAAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
14 2 0.04
15 10 0.22
16 2 0.04
17 2 0.04
18 18 0.40
20 1 0.02
21 9 0.20
22 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.22, T:0.11
Consensus pattern (18 bp):
AAAAGAAATTGAAAGAAA
Found at i:6609597 original size:21 final size:21
Alignment explanation
Indices: 6609556--6609603 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6609546 AAAAAGAGTT
*
6609556 TGAGAATGAAAAAGAGGAAAA
1 TGAGAATGAAAAAGAAGAAAA
*
6609577 TGAGAATGAAAGAA-AATAAAA
1 TGAGAATGAAA-AAGAAGAAAA
6609598 TGAGAA
1 TGAGAA
6609604 AGATGAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (21 bp):
TGAGAATGAAAAAGAAGAAAA
Found at i:6611637 original size:39 final size:39
Alignment explanation
Indices: 6611583--6611711 Score: 242
Period size: 39 Copynumber: 3.3 Consensus size: 39
6611573 TTAGTTTGAT
*
6611583 TCTTTAATTATGTCTTAGTTTAAACATCATTAATATGTG
1 TCTTTAATTATGTCTTAGTTTGAACATCATTAATATGTG
6611622 TCTTTAATTATGTCTTAGTTTGAACATCATTAATATGTG
1 TCTTTAATTATGTCTTAGTTTGAACATCATTAATATGTG
6611661 TCTTTAATTATGTCTTAGTTTGAACATCATTAATATGTG
1 TCTTTAATTATGTCTTAGTTTGAACATCATTAATATGTG
6611700 T-TTTAATTATGT
1 TCTTTAATTATGT
6611712 GTCTTAATTT
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
38 11 0.12
39 78 0.88
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (39 bp):
TCTTTAATTATGTCTTAGTTTGAACATCATTAATATGTG
Found at i:6613736 original size:101 final size:101
Alignment explanation
Indices: 6613561--6613772 Score: 273
Period size: 101 Copynumber: 2.1 Consensus size: 101
6613551 AATTGATGAA
* * * *
6613561 TAAGATCATGGTTGGACCATGACAACGTTTACATGTAAGACCATAGCTGGGCTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGACAACATTTACAAGTAAGACCATAGCTGGGATATGGCATTTTAA
* **
6613626 TAAAAAGACCATAACTA-GGTTATGACATTTTGAACG
66 TAAAAAGACCATAA-TAGGGTTATGACACTACGAACG
** * * *
6613662 TAAGACCATGGTTGGACCATGACAGTATTTATAAGTAAGACCATAGTTGGGATATGGCATTTTGA
1 TAAGACCATGGTTGGACCATGACAACATTTACAAGTAAGACCATAGCTGGGATATGGCATTTTAA
* * *
6613727 TGATAAGACCATAATAGGGTTATGACACTACGAATG
66 TAAAAAGACCATAATAGGGTTATGACACTACGAACG
6613763 TAAGACCATG
1 TAAGACCATG
6613773 ACAGGGCCAT
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
100 2 0.02
101 93 0.98
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAACATTTACAAGTAAGACCATAGCTGGGATATGGCATTTTAA
TAAAAAGACCATAATAGGGTTATGACACTACGAACG
Found at i:6613739 original size:33 final size:33
Alignment explanation
Indices: 6613596--6613739 Score: 96
Period size: 33 Copynumber: 4.3 Consensus size: 33
6613586 CGTTTACATG
* * *
6613596 TAAGACCATAGCTGGGCTATGGCATTTTAATAA
1 TAAGACCATAGCTGGGATATGACATTTTGATAA
* * * * *
6613629 AAAGACCATAACTAGGTTATGACATTTTGA-ACG
1 TAAGACCATAGCTGGGATATGACATTTTGATA-A
* * *
6613662 TAAGACCAT-GGTTGGACCATGACAGTATTT-ATAA
1 TAAGACCATAGCTGGGA-TATGACA-T-TTTGATAA
* * *
6613696 GTAAGACCATAGTTGGGATATGGCATTTTGATGA
1 -TAAGACCATAGCTGGGATATGACATTTTGATAA
6613730 TAAGACCATA
1 TAAGACCATA
6613740 ATAGGGTTAT
Statistics
Matches: 84, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
32 4 0.05
33 51 0.61
34 6 0.07
35 18 0.21
36 5 0.06
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (33 bp):
TAAGACCATAGCTGGGATATGACATTTTGATAA
Found at i:6613783 original size:101 final size:99
Alignment explanation
Indices: 6613595--6613819 Score: 247
Period size: 101 Copynumber: 2.3 Consensus size: 99
6613585 ACGTTTACAT
* * * **
6613595 GTAAGACCATAGCTGGGCTATGGCATTTTAATAAAAAGACCATAACTAGGTTATGACATTTTGAA
1 GTAAGACCATAGTTGGGATATGGCATTTTAATAAAAAGACCATAACTAGGTTATGACACTACGAA
*** **
6613660 CGTAAGACCATGGTTGGACCATGACAGTATTTATAA
66 CGTAAGACCATGACAGGACCATGACA--ATGCATAA
* * *
6613696 GTAAGACCATAGTTGGGATATGGCATTTTGATGATAAGACCATAA-TAGGGTTATGACACTACGA
1 GTAAGACCATAGTTGGGATATGGCATTTTAATAAAAAGACCATAACTA-GGTTATGACACTACGA
* * **
6613760 ATGTAAGACCATGACAGGGCCATGACAATGCATGT
65 ACGTAAGACCATGACAGGACCATGACAATGCATAA
6613795 GTAAGACCATAGTT-GGACTATGGCA
1 GTAAGACCATAGTTGGGA-TATGGCA
6613820 CAAAAAAAAA
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
98 3 0.03
99 25 0.24
100 2 0.02
101 75 0.71
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (99 bp):
GTAAGACCATAGTTGGGATATGGCATTTTAATAAAAAGACCATAACTAGGTTATGACACTACGAA
CGTAAGACCATGACAGGACCATGACAATGCATAA
Found at i:6615682 original size:17 final size:17
Alignment explanation
Indices: 6615657--6615696 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
6615647 CTCATGCATA
* * *
6615657 TATATATATATATATAT
1 TATAGATATATAGAGAT
6615674 TATAGATATATAGAGAT
1 TATAGATATATAGAGAT
6615691 TATAGA
1 TATAGA
6615697 AAGAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (17 bp):
TATAGATATATAGAGAT
Found at i:6622087 original size:41 final size:40
Alignment explanation
Indices: 6621965--6622100 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 40
6621955 ACCAGTTTGG
* * *
6621965 CACCCAGTGCCTCATTGGATAAT-TCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAATAATCT-GAAGTAGTAAATTGA
* * ** * * *
6622005 CACCCAATGTCTCATCGGCTAAACCGAAGT-G--AATTGG
1 CACCCAGTGCCTCATCGAATAATCTGAAGTAGTAAATTGA
6622042 CACCCAGTGCCTCATCGAATTAATCTGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCTGAAGTAGTAAATTGA
*
6622083 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
6622101 CTCGAAGTCG
Statistics
Matches: 75, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
37 20 0.27
38 9 0.12
39 1 0.01
40 23 0.31
41 22 0.29
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATAATCTGAAGTAGTAAATTGA
Found at i:6622987 original size:9 final size:9
Alignment explanation
Indices: 6622973--6622997 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6622963 AAACCCTAAG
6622973 CCTTCTTCT
1 CCTTCTTCT
6622982 CCTTCTTCT
1 CCTTCTTCT
6622991 CCTTCTT
1 CCTTCTT
6622998 TCTTTCTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (9 bp):
CCTTCTTCT
Found at i:6623002 original size:4 final size:4
Alignment explanation
Indices: 6622993--6623024 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
6622983 CTTCTTCTCC
6622993 TTCT TTCT TTCT TTCTT TTCT TTCT TTCT TTC
1 TTCT TTCT TTCT TTC-T TTCT TTCT TTCT TTC
6623025 CCTTTGTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTCT
Found at i:6623012 original size:13 final size:13
Alignment explanation
Indices: 6622996--6623023 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6622986 CTTCTCCTTC
6622996 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
6623009 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
6623022 TT
1 TT
6623024 CCCTTTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTCTTTCTTTCT
Found at i:6623013 original size:17 final size:17
Alignment explanation
Indices: 6622996--6623080 Score: 82
Period size: 20 Copynumber: 4.6 Consensus size: 17
6622986 CTTCTCCTTC
*
6622996 TTTCTTTCTTTCTTTTC
1 TTTCTTTCTTTCTTTTG
6623013 TTTCTTTCTTTCCCTTTGTG
1 TTTCTTTCTTT--CTTT-TG
*
6623033 TTTCGTTT-TTGCTTTTG
1 TTTC-TTTCTTTCTTTTG
6623050 TTTCTTTCTATTTCTTTTTG
1 TTTCTTTC--TTTC-TTTTG
6623070 TTTCTTTCTTT
1 TTTCTTTCTTT
6623081 ATTATAATAT
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
16 3 0.05
17 17 0.30
18 7 0.12
19 7 0.12
20 20 0.35
21 3 0.05
ACGTcount: A:0.01, C:0.19, G:0.07, T:0.73
Consensus pattern (17 bp):
TTTCTTTCTTTCTTTTG
Found at i:6623099 original size:7 final size:7
Alignment explanation
Indices: 6623087--6623162 Score: 68
Period size: 7 Copynumber: 10.7 Consensus size: 7
6623077 CTTTATTATA
6623087 ATATAAT
1 ATATAAT
6623094 ATATAAT
1 ATATAAT
6623101 ATATAAT
1 ATATAAT
6623108 ATATAAT
1 ATATAAT
6623115 ATAT-AT
1 ATATAAT
*
6623121 ACT-TAAC
1 A-TATAAT
*
6623128 ATTTAAGT
1 ATATAA-T
*
6623136 -TTTAAT
1 ATATAAT
6623142 ATTATAAT
1 A-TATAAT
6623150 ATTATAAT
1 A-TATAAT
6623158 ATATA
1 ATATA
6623163 TATTTTAACT
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
6 6 0.10
7 40 0.67
8 14 0.23
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (7 bp):
ATATAAT
Found at i:6623176 original size:43 final size:41
Alignment explanation
Indices: 6623097--6623193 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 41
6623087 ATATAATATA
6623097 TAATATATAATATATAATATATATACTTAACATTTAAGTTT
1 TAATATATAATATATAATATATATACTTAACATTTAAGTTT
* *
6623138 TAATATTATAATATTATAATATATATATTTTAAC-TTTAAAATTT
1 TAATA-TATAATA-TATAATATATATA-CTTAACATTT-AAGTTT
6623182 T-ATA-ATAATATA
1 TAATATATAATATA
6623194 CTTATGCCGC
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
40 2 0.04
41 11 0.22
42 7 0.14
43 19 0.38
44 11 0.22
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.48
Consensus pattern (41 bp):
TAATATATAATATATAATATATATACTTAACATTTAAGTTT
Found at i:6624426 original size:15 final size:15
Alignment explanation
Indices: 6624403--6624432 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6624393 AATGGATTAT
6624403 CAAAAAATTAAAAAC
1 CAAAAAATTAAAAAC
*
6624418 CAAATAATTAAAAAC
1 CAAAAAATTAAAAAC
6624433 ATTAAGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (15 bp):
CAAAAAATTAAAAAC
Found at i:6632725 original size:3 final size:3
Alignment explanation
Indices: 6632717--6632744 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6632707 ATATACCAAA
6632717 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
6632745 TAGATTCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6637142 original size:2 final size:2
Alignment explanation
Indices: 6637137--6637169 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6637127 AAATATATGA
6637137 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6637170 GTAGATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6640783 original size:68 final size:69
Alignment explanation
Indices: 6640641--6640792 Score: 184
Period size: 68 Copynumber: 2.2 Consensus size: 69
6640631 TTTAATTACT
* *
6640641 ATAATATTAAATTAATATAACACTTATCAAGATAAATGATAGATTAAATTAAATATTAAGATAAT
1 ATAATATTAAATTAATAAAACACTTATCAAGATAAATGATAAATTAAATTAAATATTAAGATAAT
*
6640706 CAAT
66 CAAA
* * * *
6640710 TTAATATTAAATTAATAAAATAC-TATTAAGATAAGT-ATTAAATTAAATTAAATATTAA-ATAT
1 ATAATATTAAATTAATAAAACACTTATCAAGATAAATGA-TAAATTAAATTAAATATTAAGATA-
*
6640772 ATTAAA
64 ATCAAA
*
6640778 ATAATATTAATTTAA
1 ATAATATTAAATTAA
6640793 ATAGTTAGTT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
67 4 0.06
68 47 0.66
69 20 0.28
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (69 bp):
ATAATATTAAATTAATAAAACACTTATCAAGATAAATGATAAATTAAATTAAATATTAAGATAAT
CAAA
Found at i:6643763 original size:20 final size:21
Alignment explanation
Indices: 6643725--6643764 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6643715 GGTCTGAACG
6643725 AAACCTCCATTACCCAAAATT
1 AAACCTCCATTACCCAAAATT
*
6643746 AAACCTCCATT-TCCAAAAT
1 AAACCTCCATTACCCAAAAT
6643765 AGTTGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (21 bp):
AAACCTCCATTACCCAAAATT
Found at i:6648031 original size:102 final size:102
Alignment explanation
Indices: 6647855--6648048 Score: 284
Period size: 102 Copynumber: 1.9 Consensus size: 102
6647845 TTAAATAAAA
* * * *
6647855 AATAAATTAAGAGTGTGTTGGGCTGGCTAACCAGGGTGGGGTGCTTGGGTTGTCATTCCACTTTG
1 AATAAATTAAGAGTGTGTTGGGCTAGCTAACCAGGGTGGGGTGCTTGGATAGTCATTCCACTTCG
6647920 CATCAAAAAGGCCAATACATTCTTAAACAACAATAAT
66 CATCAAAAAGGCCAATACATTCTTAAACAACAATAAT
* *
6647957 AATAAATT-AGGGATGTGTTGGGCTAAG-TAACTAGGGTGGGGTGCTTGGATAGTCATTCCACTT
1 AATAAATTAAGAG-TGTGTTGGGCT-AGCTAACCAGGGTGGGGTGCTTGGATAGTCATTCCACTT
**
6648020 CGGGTCAAAAAGGCCAATACATTCTTAAA
64 CGCATCAAAAAGGCCAATACATTCTTAAA
6648049 TAATATATAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
101 3 0.04
102 78 0.95
103 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (102 bp):
AATAAATTAAGAGTGTGTTGGGCTAGCTAACCAGGGTGGGGTGCTTGGATAGTCATTCCACTTCG
CATCAAAAAGGCCAATACATTCTTAAACAACAATAAT
Found at i:6649161 original size:27 final size:27
Alignment explanation
Indices: 6649112--6649193 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
6649102 ACAATCATAC
* *
6649112 ATAACATA-AAGCAT-ACAAACATTTT
1 ATAACATAGGAGCATAACAATCATTTT
* *
6649137 ATAACATAGGGGTATAACAATCATTTT
1 ATAACATAGGAGCATAACAATCATTTT
6649164 -TAAACATAGGAGCATAACAATCATTTT
1 AT-AACATAGGAGCATAACAATCATTTT
6649191 ATA
1 ATA
6649194 TCAGTTTAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
25 8 0.17
26 4 0.09
27 34 0.72
28 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.30
Consensus pattern (27 bp):
ATAACATAGGAGCATAACAATCATTTT
Found at i:6649336 original size:18 final size:18
Alignment explanation
Indices: 6649310--6649350 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6649300 CAAAATGCGG
6649310 GCCCATGTGGGCCCACAT-
1 GCCCATGT-GGCCCACATA
*
6649328 GCCCGTGTGGCCCACATA
1 GCCCATGTGGCCCACATA
6649346 GCCCA
1 GCCCA
6649351 AAATTGGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.17, C:0.41, G:0.27, T:0.15
Consensus pattern (18 bp):
GCCCATGTGGCCCACATA
Found at i:6656341 original size:34 final size:32
Alignment explanation
Indices: 6656288--6656362 Score: 132
Period size: 34 Copynumber: 2.3 Consensus size: 32
6656278 CAATAATAGT
6656288 TCAGTTCAGTTGGGCCTTAGCCCATTACAGTA
1 TCAGTTCAGTTGGGCCTTAGCCCATTACAGTA
6656320 TCAGTATCAGTGTGGGCCTTAGCCCATTACAGTA
1 TCAGT-TCAGT-TGGGCCTTAGCCCATTACAGTA
6656354 TCAGTTCAG
1 TCAGTTCAG
6656363 ACATGCAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
32 5 0.12
33 9 0.22
34 27 0.66
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (32 bp):
TCAGTTCAGTTGGGCCTTAGCCCATTACAGTA
Found at i:6656658 original size:27 final size:27
Alignment explanation
Indices: 6656626--6656693 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
6656616 ACAAAAATAT
*
6656626 ACAGTCATTTTATAACATAGAGGCATA
1 ACAGTCATTTTATAACATAGAGGCACA
*
6656653 ACAGTCATTTTATAACATAGGGGCACA
1 ACAGTCATTTTATAACATAGAGGCACA
6656680 ACAGTCATTTTATA
1 ACAGTCATTTTATA
6656694 TCAGTTTGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (27 bp):
ACAGTCATTTTATAACATAGAGGCACA
Found at i:6658659 original size:33 final size:31
Alignment explanation
Indices: 6658605--6658673 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 31
6658595 CAATTCAATA
6658605 ACAGTTCAGTTCAGTTGGGCCTTAGCCCATT
1 ACAGTTCAGTTCAGTTGGGCCTTAGCCCATT
6658636 ACAGTATCAGTATCAG-TGTGGCCTTAGCCCATT
1 ACAGT-TCAGT-TCAGTTG-GGCCTTAGCCCATT
6658669 ACAGT
1 ACAGT
6658674 GACAGTAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
31 5 0.14
32 7 0.20
33 23 0.66
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (31 bp):
ACAGTTCAGTTCAGTTGGGCCTTAGCCCATT
Found at i:6658680 original size:33 final size:33
Alignment explanation
Indices: 6658622--6658685 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
6658612 AGTTCAGTTG
*
6658622 GGCCTTAGCCCATTACAGTATCAGTATCAGTGT
1 GGCCTTAGCCCATTACAGTATCAGTAACAGTGT
6658655 GGCCTTAGCCCATTACAGTGA-CAGTAACAGT
1 GGCCTTAGCCCATTACAGT-ATCAGTAACAGT
6658686 TTAGACATGC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (33 bp):
GGCCTTAGCCCATTACAGTATCAGTAACAGTGT
Found at i:6658990 original size:27 final size:27
Alignment explanation
Indices: 6658954--6659020 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
6658944 ATAGAGTATG
6658954 CAGTCATTTTATAACATAAGGGCATAA
1 CAGTCATTTTATAACATAAGGGCATAA
* ** * **
6658981 CTGTCATTTTACCACGTGGGGGCATAA
1 CAGTCATTTTATAACATAAGGGCATAA
6659008 CAGTCATTTTATA
1 CAGTCATTTTATA
6659021 TCAGTTTGGG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (27 bp):
CAGTCATTTTATAACATAAGGGCATAA
Found at i:6665283 original size:16 final size:16
Alignment explanation
Indices: 6665262--6665296 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6665252 GTGTAAAAAA
6665262 AAACAT-AAATATAAAT
1 AAACATGAAA-ATAAAT
6665278 AAACATGAAAATAAAT
1 AAACATGAAAATAAAT
6665294 AAA
1 AAA
6665297 GACGAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (16 bp):
AAACATGAAAATAAAT
Found at i:6665303 original size:16 final size:17
Alignment explanation
Indices: 6665268--6665313 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
6665258 AAAAAAACAT
*
6665268 AAATATAAATAAACATG
1 AAATATAAATAAACACG
*
6665285 AAA-ATAAATAAAGACG
1 AAATATAAATAAACACG
*
6665301 AAATAAAAATAAA
1 AAATATAAATAAA
6665314 TAAAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.17
Consensus pattern (17 bp):
AAATATAAATAAACACG
Found at i:6666132 original size:157 final size:153
Alignment explanation
Indices: 6665860--6666161 Score: 348
Period size: 157 Copynumber: 1.9 Consensus size: 153
6665850 AGTTTTTTTT
* * * *
6665860 AAATCACTATTTTTCTTAAAAATCAAAGCTTTATTTTGAAATAGTTAAAAAAGATCAAAACTTTA
1 AAATCACAACTTTTCTTAAAAATCAAAGCTTTATTTCGAAATAGTTAAAAAAAATC-AAACTTTA
* * *
6665925 TTTTAAAATTTTAAACTTTTCCTTTTAACTGACTTCAAAAAACAGATTTTTATTTTTAA-AAATC
65 TTTTAAAATTTTAAACATTTCCTTTTAAATGACTTCAAAAAACAGATTTTTA----AAAGAAATC
6665989 TAAAATTTCTCTTTTTTTTTCTTTTAAA
126 TAAAATTTCTCTTTTTTTTTCTTTTAAA
*
6666017 AAATCACAACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAAAAAAATC-AA-TT
1 AAATCACAACTTTTCTTAAAAATCAAAGC-TTTATTTCGAAATAGTT--AAAAAAAATCAAACTT
* *
6666080 TTTTTTAAAATTTTAAA-ATTT-CTTTTAAAATGGC-T-AAAAAACAGATTTTTTTTAAAAGAAA
63 TATTTTAAAATTTTAAACATTTCCTTTT-AAATGACTTCAAAAAACAGA---TTTTTAAAAGAAA
*
6666141 TCTAAACTTTCTCTTTTTTTT
124 TCTAAAATTTCTCTTTTTTTT
6666162 CATCTAAACT
Statistics
Matches: 126, Mismatches: 11, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
153 2 0.02
154 33 0.26
155 6 0.05
156 8 0.06
157 50 0.40
158 18 0.14
160 9 0.07
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (153 bp):
AAATCACAACTTTTCTTAAAAATCAAAGCTTTATTTCGAAATAGTTAAAAAAAATCAAACTTTAT
TTTAAAATTTTAAACATTTCCTTTTAAATGACTTCAAAAAACAGATTTTTAAAAGAAATCTAAAA
TTTCTCTTTTTTTTTCTTTTAAA
Found at i:6666285 original size:17 final size:17
Alignment explanation
Indices: 6666265--6666298 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6666255 TTAAAATTTA
6666265 AAATTTTCCTTTAAAAT
1 AAATTTTCCTTTAAAAT
6666282 AAATTTTCCTTTAAAAT
1 AAATTTTCCTTTAAAAT
6666299 GGCTAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTTTCCTTTAAAAT
Found at i:6666735 original size:2 final size:2
Alignment explanation
Indices: 6666730--6666767 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6666720 TACCTTTTTA
6666730 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6666768 GAGGAGCATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6667808 original size:12 final size:13
Alignment explanation
Indices: 6667777--6667811 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
6667767 GCTCTCTCTC
6667777 TATTTTTTTGGTT
1 TATTTTTTTGGTT
*
6667790 TATTTTTTTGTTT
1 TATTTTTTTGGTT
*
6667803 TGTTTTTTT
1 TATTTTTTT
6667812 TCTTTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.00, G:0.11, T:0.83
Consensus pattern (13 bp):
TATTTTTTTGGTT
Found at i:6667818 original size:10 final size:10
Alignment explanation
Indices: 6667805--6667835 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
6667795 TTTTGTTTTG
6667805 TTTTTTTTCT
1 TTTTTTTTCT
*
6667815 TTTTTCTTCT
1 TTTTTTTTCT
6667825 TTTTTTTTCT
1 TTTTTTTTCT
6667835 T
1 T
6667836 GATTTAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:6670081 original size:19 final size:20
Alignment explanation
Indices: 6670057--6670114 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 20
6670047 TCAAATTTTG
6670057 AAAATAATTTTTAAAATT-C
1 AAAATAATTTTTAAAATTCC
*
6670076 AAAAT-ATTTATAGAAATTCC
1 AAAATAATTTTTA-AAATTCC
6670096 AAAATTTATATTTTTAAAA
1 AAAA--TA-ATTTTTAAAA
6670115 AAATTATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 6 0.19
19 10 0.32
20 5 0.16
22 1 0.03
23 3 0.10
24 6 0.19
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAATAATTTTTAAAATTCC
Found at i:6670134 original size:19 final size:19
Alignment explanation
Indices: 6670106--6670142 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6670096 AAAATTTATA
*
6670106 TTTTTAAAAAAATTATAAT
1 TTTTTAAAAAAAATATAAT
*
6670125 TTTTTTAAAAAAATATAA
1 TTTTTAAAAAAAATATAA
6670143 AAGATATATA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTTTAAAAAAAATATAAT
Found at i:6670153 original size:11 final size:11
Alignment explanation
Indices: 6670130--6670170 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
6670120 ATAATTTTTT
6670130 TAAAAAA-ATA
1 TAAAAAATATA
*
6670140 TAAAAGATATA
1 TAAAAAATATA
6670151 TAAAAAATA-A
1 TAAAAAATATA
6670161 TAAAATAATA
1 TAAAA-AATA
6670171 ATTTTGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 12 0.44
11 15 0.56
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
TAAAAAATATA
Found at i:6679949 original size:25 final size:23
Alignment explanation
Indices: 6679871--6679974 Score: 106
Period size: 22 Copynumber: 4.4 Consensus size: 23
6679861 TGCACTAATG
*
6679871 AACAGAGAGCACTAAAGTGCTAT
1 AACAGAGAGCACTAACGTGCTAT
* *
6679894 -ACAGAGAGCACAAATGTGCTA-
1 AACAGAGAGCACTAACGTGCTAT
*
6679915 AACGGAGAGCACTAACGTGCTAGT
1 AACAGAGAGCACTAACGTGCTA-T
6679939 AATCAGAGAGCA-TCAACGTGCTAAT
1 AA-CAGAGAGCACT-AACGTGCT-AT
6679964 AATCAGAGAGC
1 AA-CAGAGAGC
6679975 GCGCTAAAGT
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
22 37 0.54
24 3 0.04
25 28 0.41
26 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.16
Consensus pattern (23 bp):
AACAGAGAGCACTAACGTGCTAT
Found at i:6680129 original size:2 final size:2
Alignment explanation
Indices: 6680122--6680208 Score: 105
Period size: 2 Copynumber: 45.0 Consensus size: 2
6680112 TGTATTCATA
6680122 AT AT AT AT AT AT AT AT -T CAT A- AT AT AT AT AT AT AT AT -T CAT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT -AT
6680163 A- AT AT AT AT AT AT AT AT AT AT AT AT AT -T CAT A- 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
6680203 AT AT AT
1 AT AT AT
6680209 TCCAATTCAA
Statistics
Matches: 76, Mismatches: 0, Indels: 18
0.81 0.00 0.19
Matches are distributed among these distances:
1 6 0.08
2 67 0.88
3 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6680178 original size:31 final size:31
Alignment explanation
Indices: 6680143--6680208 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
6680133 TATATTCATA
6680143 ATATATATATATATATTCATAATATATATAT
1 ATATATATATATATATTCATAATATATATAT
6680174 ATATATATATATATATTCATAATATATATAT
1 ATATATATATATATATTCATAATATATATAT
6680205 ATAT
1 ATAT
6680209 TCCAATTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
ATATATATATATATATTCATAATATATATAT
Found at i:6680208 original size:21 final size:21
Alignment explanation
Indices: 6680109--6680179 Score: 133
Period size: 21 Copynumber: 3.4 Consensus size: 21
6680099 ACATTTACAC
*
6680109 ATATGTATTCATAATATATAT
1 ATATATATTCATAATATATAT
6680130 ATATATATTCATAATATATAT
1 ATATATATTCATAATATATAT
6680151 ATATATATTCATAATATATAT
1 ATATATATTCATAATATATAT
6680172 ATATATAT
1 ATATATAT
6680180 ATATATATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (21 bp):
ATATATATTCATAATATATAT
Found at i:6680997 original size:19 final size:19
Alignment explanation
Indices: 6680973--6681011 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6680963 CGTTTTGCTA
6680973 TTCTAT-TTCTATTCTCTTT
1 TTCTATCTTCTATT-TCTTT
*
6680992 TTCTATCTTTTATTTCTTT
1 TTCTATCTTCTATTTCTTT
6681011 T
1 T
6681012 ATTTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (19 bp):
TTCTATCTTCTATTTCTTT
Found at i:6681111 original size:23 final size:23
Alignment explanation
Indices: 6681067--6681113 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6681057 AATAAGTATG
*
6681067 TACATATATTAATTACAAATGTA
1 TACATATATTAATAACAAATGTA
** *
6681090 TACATATATTTCTAACACATGTA
1 TACATATATTAATAACAAATGTA
6681113 T
1 T
6681114 TTATAATTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (23 bp):
TACATATATTAATAACAAATGTA
Found at i:6683055 original size:27 final size:26
Alignment explanation
Indices: 6682985--6683072 Score: 83
Period size: 25 Copynumber: 3.4 Consensus size: 26
6682975 TAGGTTAATT
* *
6682985 TTAAAATAAGTAA-TATGTAAAATAAC
1 TTAAAATAA-TAATTATATAAAGTAAC
6683011 TTAAAATAA-AATGATATATAAAGTAAC
1 TTAAAATAATAAT--TATATAAAGTAAC
* * *
6683038 TTAAAATAATAA-TCTATAAAGCAAG
1 TTAAAATAATAATTATATAAAGTAAC
6683063 TTAAAATAAT
1 TTAAAATAAT
6683073 CATATACGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
24 2 0.04
25 20 0.38
26 9 0.17
27 20 0.38
28 2 0.04
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.31
Consensus pattern (26 bp):
TTAAAATAATAATTATATAAAGTAAC
Found at i:6686033 original size:23 final size:23
Alignment explanation
Indices: 6686007--6686053 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
6685997 TTTTTGTTGT
6686007 AAAATCA-AAGTTTTCTTTAAAAA
1 AAAATCACAA-TTTTCTTTAAAAA
*
6686030 AAAATCACTAATTTTTTTTAAAAA
1 AAAATCAC-AATTTTCTTTAAAAA
6686054 TCAAAGCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 12 0.57
25 2 0.10
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (23 bp):
AAAATCACAATTTTCTTTAAAAA
Found at i:6686352 original size:143 final size:145
Alignment explanation
Indices: 6686018--6686430 Score: 404
Period size: 144 Copynumber: 2.8 Consensus size: 145
6686008 AAATCAAAGT
* * * * * *
6686018 TTTCTTTAAAAAAAAATCACTAATTTTTTTTAAAAATCAAAGCTTTATTTCCAAATAGTTGAAAA
1 TTTCTTT--AAAAAAATCACT-ACTTTTCTTAAAGATCAAAAC-TTATTTCGAAATAGTGGAAAA
* * * * * ****
6686083 AGATCAAAACTTTATTTT-AAATTTTAAACTTTTCCTTTAAAGTGACTACAAAAAACAGATTTTT
62 AAACCAAAACTCTGTTTTAAAATTTTAAAC-TTTCCTTTAAAATGACT------AATTTTTTTTT
* *
6686147 ATTTTTAAAAATCTAAAATTTCCCCTTTT
120 ATTTTTAAAAATCTAAAACTT---CTTTC
* *
6686176 TTTCTTTTAAAAAATCACTACTTTTCTTAAAGATCAAAGC-TATTTCGAAATAGTGGAAAAAAAA
1 TTTCTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAACTTATTTCGAAATAGTGG--AAAAAA
*
6686240 ACCAAAACTCTGTTTTAAAATTTTAAACTTTCCTTTAAAATGGCTAATTTTTTTTTATTTTTAAA
64 ACCAAAACTCTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAATTTTTTTTTATTTTTAAA
6686305 AATCT-AAACTT-TTTC
129 AATCTAAAACTTCTTTC
*
6686320 TTT-TTTAAAAAAATCACTACTTTTCTTAAAGATCAAAACTATTATTTCGAAATAGTTGAAAAAA
1 TTTCTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAAC--TTATTTCGAAATAGTGGAAAAAA
* * * *
6686384 ATCAAAATTTTGTTTTAAAATTTTAAATTTTCCTTTAAAATGACTAA
64 ACCAAAACTCTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAA
6686431 AAACCATATT
Statistics
Matches: 223, Mismatches: 26, Indels: 26
0.81 0.09 0.09
Matches are distributed among these distances:
143 34 0.15
144 54 0.24
146 15 0.07
148 5 0.02
149 21 0.09
153 14 0.06
155 51 0.23
156 22 0.10
158 7 0.03
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.42
Consensus pattern (145 bp):
TTTCTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAACTTATTTCGAAATAGTGGAAAAAAAC
CAAAACTCTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAATTTTTTTTTATTTTTAAAAA
TCTAAAACTTCTTTC
Found at i:6686531 original size:148 final size:144
Alignment explanation
Indices: 6686195--6686503 Score: 311
Period size: 148 Copynumber: 2.1 Consensus size: 144
6686185 AAAAATCACT
* * * *
6686195 ACTTTTCTTAAAGATCAAAGC---TATTTCGAAATAGTGGAAAAAAAAACCAAAACTCTGTTTTA
1 ACTTTTCTCAAAGATCAAAACTATTATTTAGAAATAG-GG-GAAAAAAACCAAAACTCTGTTTTA
* ** * * * * *
6686257 AAATTTTAAACTTTCCTTTAAAATGGCTAATTTTTTTTTATTTTTAAAAATCTAAACTTTTTCTT
64 AAATTTTAAACTTTCCTTTAAAATGACTAACATATTTTTATTTTTAAAAATATAAAATTTCTCCT
* * **
6686322 TTTTAAAAAAATCACT
129 TTTAAAAAAAACCAAA
* * ** * * *
6686338 ACTTTTCTTAAAGATCAAAACTATTATTTCGAAATAGTTGAAAAAAATCAAAATTTTGTTTTAAA
1 ACTTTTCTCAAAGATCAAAACTATTATTTAGAAATAGGGGAAAAAAACCAAAACTCTGTTTTAAA
*
6686403 ATTTTAAATTTTCCTTTAAAATGACTAAAAACCATATTTTTATTTTTAAAAATATAAAATTTCTC
66 ATTTTAAACTTTCCTTTAAAATGACT---AA-CATATTTTTATTTTTAAAAATATAAAATTTCTC
6686468 CTTTTAAAAAAAACCAAA
127 CTTTTAAAAAAAACCAAA
*
6686486 ACTTTTC-CCAAGATCAAA
1 ACTTTTCTCAAAGATCAAA
6686504 CCCTTTATTT
Statistics
Matches: 137, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
143 20 0.15
144 46 0.34
146 13 0.09
147 11 0.08
148 47 0.34
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (144 bp):
ACTTTTCTCAAAGATCAAAACTATTATTTAGAAATAGGGGAAAAAAACCAAAACTCTGTTTTAAA
ATTTTAAACTTTCCTTTAAAATGACTAACATATTTTTATTTTTAAAAATATAAAATTTCTCCTTT
TAAAAAAAACCAAA
Found at i:6688745 original size:17 final size:18
Alignment explanation
Indices: 6688723--6688756 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6688713 TTTGGGCTAA
6688723 GTGGGCC-ACACGGGCAT
1 GTGGGCCTACACGGGCAT
6688740 GTGGGCCTACACGGGCA
1 GTGGGCCTACACGGGCA
6688757 GACCACATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.18, C:0.29, G:0.41, T:0.12
Consensus pattern (18 bp):
GTGGGCCTACACGGGCAT
Found at i:6689502 original size:24 final size:24
Alignment explanation
Indices: 6689475--6689522 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6689465 CGGTGACCAC
6689475 GGTTTTGGACTTTCATGGTTTTTA
1 GGTTTTGGACTTTCATGGTTTTTA
6689499 GGTTTTGGACTTTCATGGTTTTTA
1 GGTTTTGGACTTTCATGGTTTTTA
6689523 ACTCATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.08, G:0.25, T:0.54
Consensus pattern (24 bp):
GGTTTTGGACTTTCATGGTTTTTA
Found at i:6693412 original size:24 final size:24
Alignment explanation
Indices: 6693380--6693468 Score: 110
Period size: 24 Copynumber: 3.7 Consensus size: 24
6693370 GGTAAAAAGT
*
6693380 AAAGGATGAATTGACGATATATGG
1 AAAGGATGAATTGACGATATATGC
* *
6693404 AAAGGATGAATTGAAG-TAAAATGC
1 AAAGGATGAATTGACGAT-ATATGC
*
6693428 AAATGATGAATTGAC-AGTATATGC
1 AAAGGATGAATTGACGA-TATATGC
6693452 AAAGGATGAATTGACGA
1 AAAGGATGAATTGACGA
6693469 CAAATGTACC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
23 1 0.02
24 51 0.94
25 2 0.04
ACGTcount: A:0.45, C:0.06, G:0.26, T:0.24
Consensus pattern (24 bp):
AAAGGATGAATTGACGATATATGC
Found at i:6693474 original size:48 final size:48
Alignment explanation
Indices: 6693358--6693467 Score: 150
Period size: 48 Copynumber: 2.3 Consensus size: 48
6693348 TGTGAAAAAG
* * *
6693358 GGATGAATTGACGGTAAAAAGTAAAGGATGAATTGACGATATATGGAAA
1 GGATGAATTGAC-GTAAAATGCAAAGGATGAATTGACGATATATGCAAA
* *
6693407 GGATGAATTGAAGTAAAATGCAAATGATGAATTGAC-AGTATATGCAAA
1 GGATGAATTGACGTAAAATGCAAAGGATGAATTGACGA-TATATGCAAA
6693455 GGATGAATTGACG
1 GGATGAATTGACG
6693468 ACAAATGTAC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
47 1 0.02
48 42 0.78
49 11 0.20
ACGTcount: A:0.44, C:0.05, G:0.27, T:0.24
Consensus pattern (48 bp):
GGATGAATTGACGTAAAATGCAAAGGATGAATTGACGATATATGCAAA
Found at i:6693674 original size:21 final size:21
Alignment explanation
Indices: 6693612--6693679 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
6693602 TTGAGCTTCA
* *
6693612 GTTTAACCCTTATAGGTTTCC
1 GTTTAACCTTTATGGGTTTCC
* * * *
6693633 GTTCAA-CTCTTACGAGCTTCC
1 GTTTAACCT-TTATGGGTTTCC
6693654 GTTTAACCTTTATGGGTTTCC
1 GTTTAACCTTTATGGGTTTCC
6693675 GTTTA
1 GTTTA
6693680 GCTTTCATGA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
20 1 0.03
21 32 0.91
22 2 0.06
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.43
Consensus pattern (21 bp):
GTTTAACCTTTATGGGTTTCC
Found at i:6693676 original size:42 final size:42
Alignment explanation
Indices: 6693581--6693677 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
6693571 TTAAACCATA
* * * **
6693581 ATGGGTTTCTGATCAGCTCTTTTGAGCTTCAGTTTAACCCTT
1 ATGGGTTTCCGTTCAACTCTTACGAGCTTCAGTTTAACCCTT
* * *
6693623 ATAGGTTTCCGTTCAACTCTTACGAGCTTCCGTTTAACCTTT
1 ATGGGTTTCCGTTCAACTCTTACGAGCTTCAGTTTAACCCTT
6693665 ATGGGTTTCCGTT
1 ATGGGTTTCCGTT
6693678 TAGCTTTCAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (42 bp):
ATGGGTTTCCGTTCAACTCTTACGAGCTTCAGTTTAACCCTT
Found at i:6693692 original size:42 final size:42
Alignment explanation
Indices: 6693597--6693705 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
6693587 TTCTGATCAG
* *
6693597 CTCTTTTGAGCTTCAGTTTAACCCTTATAGGTTTCCGTTCAA
1 CTCTTATGAGCTTCAGTTTAACCTTTATAGGTTTCCGTTCAA
* * * * *
6693639 CTCTTACGAGCTTCCGTTTAACCTTTATGGGTTTCCGTTTAG
1 CTCTTATGAGCTTCAGTTTAACCTTTATAGGTTTCCGTTCAA
* *
6693681 CT-TTCATGAGCTTCTGTTCAACCTT
1 CTCTT-ATGAGCTTCAGTTTAACCTT
6693706 CGGGCTTCTG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 2 0.04
42 54 0.96
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.43
Consensus pattern (42 bp):
CTCTTATGAGCTTCAGTTTAACCTTTATAGGTTTCCGTTCAA
Found at i:6700570 original size:30 final size:30
Alignment explanation
Indices: 6700527--6700923 Score: 519
Period size: 30 Copynumber: 13.2 Consensus size: 30
6700517 GGCAATATAT
* *
6700527 ATGTATA--CATATACACATCAATTCAGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
6700555 ATGTATATCCATATACAAATCAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
6700585 ATGTATATCCGTATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
6700615 ATGTTTATCCATATAAAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
6700645 ATTTATATCCATATACAAATCAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
* ** *
6700675 ATATATAAAACATATACAAATCAATTCGACA
1 ATGTAT-ATCCATATACAAATCAATTCGGCA
*
6700706 AAGTATATCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
6700736 ATGTATGTCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
6700766 ATTTATATCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* * * *
6700796 ATATATGTCCATATACAAATTAATTCAGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* **
6700826 ATATATAAAACATATACAAATCAATTCGGCA
1 ATGTAT-ATCCATATACAAATCAATTCGGCA
* *
6700857 ATGTATACCCATATACAAATCAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
6700887 ATGTTTATCCATATACAAATCAATTCGGAA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
6700917 ATATATA
1 ATGTATA
6700924 AAACATATAC
Statistics
Matches: 322, Mismatches: 43, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
28 7 0.02
30 265 0.82
31 50 0.16
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (30 bp):
ATGTATATCCATATACAAATCAATTCGGCA
Found at i:6700704 original size:121 final size:121
Alignment explanation
Indices: 6700506--6700934 Score: 537
Period size: 121 Copynumber: 3.5 Consensus size: 121
6700496 ATCTAATGAT
* * * * **
6700506 CAAATCAATTTGGCAATATATATGTATACATATACACATCAATTC-AGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATAT-TA--TATCCATATACAAATCAATTCGA-CAATATATAAACATATA
* *
6700570 CAAATCAATTCGACAATGTATATCCGTATACAAATCAATTCGGCAATGTTTATCCATATA
62 CAAATCAATTCGACAATGTATATCCATATACAAATCAATTCGGCAATGTATATCCATATA
*
6700630 AAAATCAATTCGGCAAT-TTATATCCATATACAAATCAATTCGACAATATATAAAACATATACAA
1 CAAATCAATTCGGCAATATTATATCCATATACAAATCAATTCGACAATATAT-AAACATATACAA
* *
6700694 ATCAATTCGACAAAGTATATCCATATACAAATCAATTCGGCAATGTATGTCCATATA
65 ATCAATTCGACAATGTATATCCATATACAAATCAATTCGGCAATGTATATCCATATA
* ***
6700751 CAAATCAATTCGGCAAT-TTATATCCATATACAAATCAATTCGGCAATATATGTCCATATACAAA
1 CAAATCAATTCGGCAATATTATATCCATATACAAATCAATTCGACAATATATAAACATATACAAA
* * ** *
6700815 TTAATTC-AGCAATATATAAAACATATACAAATCAATTCGGCAATGTATACCCATATA
66 TCAATTCGA-CAATGTAT-ATCCATATACAAATCAATTCGGCAATGTATATCCATATA
* *
6700872 CAAATCAATTCGACAATGTT-TATCCATATACAAATCAATTCGGA-AATATATAAAACATATACA
1 CAAATCAATTCGGCAATATTATATCCATATACAAATCAATTC-GACAATATAT-AAACATATACA
6700935 TTTGAATTCA
Statistics
Matches: 270, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
119 1 0.00
120 48 0.18
121 192 0.71
122 13 0.05
123 1 0.00
124 15 0.06
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (121 bp):
CAAATCAATTCGGCAATATTATATCCATATACAAATCAATTCGACAATATATAAACATATACAAA
TCAATTCGACAATGTATATCCATATACAAATCAATTCGGCAATGTATATCCATATA
Found at i:6700712 original size:151 final size:151
Alignment explanation
Indices: 6700506--6700923 Score: 608
Period size: 151 Copynumber: 2.7 Consensus size: 151
6700496 ATCTAATGAT
* * * *
6700506 CAAATCAATTTGGCAATATATATGTATACATATACACATCAATTC-AGCAATGTATATCCATATA
1 CAAATCAATTCGACAATATATA---AAACATATACAAATCAATTCGA-CAATGTATATCCATATA
*
6700570 CAAATCAATTCGACAATGTATATCCGTATACAAATCAATTCGGCAATGTT-TATCCATATAAAAA
62 CAAATCAATTCGACAATGTATATCCATATACAAATCAATTCGGCAAT-TTATATCCATATAAAAA
*
6700634 TCAATTCGGCAATTTATATCCATATA
126 TCAATTCGGCAATATATATCCATATA
*
6700660 CAAATCAATTCGACAATATATAAAACATATACAAATCAATTCGACAAAGTATATCCATATACAAA
1 CAAATCAATTCGACAATATATAAAACATATACAAATCAATTCGACAATGTATATCCATATACAAA
* * *
6700725 TCAATTCGGCAATGTATGTCCATATACAAATCAATTCGGCAATTTATATCCATATACAAATCAAT
66 TCAATTCGACAATGTATATCCATATACAAATCAATTCGGCAATTTATATCCATATAAAAATCAAT
*
6700790 TCGGCAATATATGTCCATATA
131 TCGGCAATATATATCCATATA
* * *
6700811 CAAATTAATTC-AGCAATATATAAAACATATACAAATCAATTCGGCAATGTATACCCATATACAA
1 CAAATCAATTCGA-CAATATATAAAACATATACAAATCAATTCGACAATGTATATCCATATACAA
* * *
6700875 ATCAATTCGACAATGTTTATCCATATACAAATCAATTCGGAAATATATA
65 ATCAATTCGACAATGTATATCCATATACAAATCAATTCGGCAATTTATA
6700924 AAACATATAC
Statistics
Matches: 241, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
150 3 0.01
151 217 0.90
152 1 0.00
154 20 0.08
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.30
Consensus pattern (151 bp):
CAAATCAATTCGACAATATATAAAACATATACAAATCAATTCGACAATGTATATCCATATACAAA
TCAATTCGACAATGTATATCCATATACAAATCAATTCGGCAATTTATATCCATATAAAAATCAAT
TCGGCAATATATATCCATATA
Found at i:6708631 original size:30 final size:30
Alignment explanation
Indices: 6707922--6708621 Score: 927
Period size: 30 Copynumber: 23.2 Consensus size: 30
6707912 GGCAATATAT
*
6707922 ATGTATA--CATATACACATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
6707950 ATGTATATCCATATACAAATCAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
6707980 ATGTATATCCGTATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* **
6708010 ATATATAAAACATATACAAATCAATTCGGCA
1 ATGTAT-ATCCATATACAAATCAATTCGGCA
*
6708041 ATGTATATCCATATAAAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
6708071 ATTTATATCCATATACAAATCAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
* ** *
6708101 ATATATAAAACATATACAAATCAATTCGACA
1 ATGTAT-ATCCATATACAAATCAATTCGGCA
*
6708132 AAGTATATCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
6708162 ATGTATGTCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
6708192 ATGTATGTCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* **
6708222 ATGTATGTCCATATACAAATCAATTCCACA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
6708252 ATGTATGTCCATATACAAATCAATTCTGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
6708282 ATGTATGTCCATATACAAATCAATTCCGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
6708312 ATGTATGTCCATATACAAATCAATTCAGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* ** * *
6708342 ATATATAAAACAGATACAAATCAATTTGGCA
1 ATGTAT-ATCCATATACAAATCAATTCGGCA
*
6708373 ATGTATATCCATATAGAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
6708403 ATGTATATCCATATATAAATCAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
6708433 ATGTATGTCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* **
6708463 ATATATAAAACATATACAAATCAATTCGGCA
1 ATGTAT-ATCCATATACAAATCAATTCGGCA
* *
6708494 ATGTATATCCATATATAAATCAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
6708524 ATGTATGTCCATATACAAATCAATTCAGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* **
6708554 ATATATAAAACATATACAAATCAATTCGGCA
1 ATGTAT-ATCCATATACAAATCAATTCGGCA
*
6708585 ATGTATATCCATATACAAATCAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
6708615 ATATATA
1 ATGTATA
6708622 AAAATATACA
Statistics
Matches: 593, Mismatches: 72, Indels: 12
0.88 0.11 0.02
Matches are distributed among these distances:
28 7 0.01
30 460 0.78
31 126 0.21
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (30 bp):
ATGTATATCCATATACAAATCAATTCGGCA
Found at i:6708640 original size:121 final size:121
Alignment explanation
Indices: 6707929--6708621 Score: 926
Period size: 121 Copynumber: 5.7 Consensus size: 121
6707919 TATATGTATA
* * * ** *
6707929 CATATACACATCAATTCGGCAATGTATATCCATATACAAATCAATTCGACAATGTAT-ATCCGTA
1 CATATACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTCGGCAATATATAAAACATA
* ** *
6707993 TACAAATCAATTCGGCAATATATAAAACATATACAAATCAATTCGGCAATGTATATC
66 TACAAATCAATTCGACAATATAT-ATCCATATACAAATCAATTCGGCAATGTATGTC
* * *
6708050 CATATAAAAATCAATTCGGCAATTTATATCCATATACAAATCAATTCGACAATATATAAAACATA
1 CATATACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTCGGCAATATATAAAACATA
6708115 TACAAATCAATTCGACAA-AGTATATCCATATACAAATCAATTCGGCAATGTATGTC
66 TACAAATCAATTCGACAATA-TATATCCATATACAAATCAATTCGGCAATGTATGTC
* * ***
6708171 CATATACAAATCAATTCGGCAATGTATGTCCATATACAAATCAATTCGGCAATGTAT-GTCCATA
1 CATATACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTCGGCAATATATAAAACATA
* * * *
6708235 TACAAATCAATTCCACAATGTATGTCCATATACAAATCAATTCTGCAATGTATGTC
66 TACAAATCAATTCGACAATATATATCCATATACAAATCAATTCGGCAATGTATGTC
* * * *
6708291 CATATACAAATCAATTCCGCAATGTATGTCCATATACAAATCAATTCAGCAATATATAAAACAGA
1 CATATACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTCGGCAATATATAAAACATA
* * * * *
6708356 TACAAATCAATTTGGCAATGTATATCCATATAGAAATCAATTCGGCAATGTATATC
66 TACAAATCAATTCGACAATATATATCCATATACAAATCAATTCGGCAATGTATGTC
* * *
6708412 CATATATAAATCAATTCGACAATGTATGTCCATATACAAATCAATTCGGCAATATATAAAACATA
1 CATATACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTCGGCAATATATAAAACATA
* * * *
6708477 TACAAATCAATTCGGCAATGTATATCCATATATAAATCAATTCGACAATGTATGTC
66 TACAAATCAATTCGACAATATATATCCATATACAAATCAATTCGGCAATGTATGTC
* * ** * **
6708533 CATATACAAATCAATTCAGCAATATATAAAACATATACAAATCAATTCGGCAATGTAT-ATCCAT
1 CATATACAAATCAATTCGGCAATGTAT-ATCCATATACAAATCAATTCGGCAATATATAAAACAT
6708597 ATACAAATCAATTCGACAATATATA
65 ATACAAATCAATTCGACAATATATA
6708622 AAAATATACA
Statistics
Matches: 509, Mismatches: 58, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
120 109 0.21
121 350 0.69
122 50 0.10
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (121 bp):
CATATACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTCGGCAATATATAAAACATA
TACAAATCAATTCGACAATATATATCCATATACAAATCAATTCGGCAATGTATGTC
Found at i:6708641 original size:91 final size:91
Alignment explanation
Indices: 6707901--6708621 Score: 1000
Period size: 91 Copynumber: 7.9 Consensus size: 91
6707891 ATCTAATGCT
* * *
6707901 CAAATCAATTTGGCAATATATATGTATACATATACACATCAATTCGGCAATGTATATCCATATAC
1 CAAATCAATTCGGCAATATATA---AAACATATACAAATCAATTCGGCAATGTATATCCATATAC
*
6707966 AAATCAATTCGACAATGTATATCCGTATA
63 AAATCAATTCGACAATGTATATCCATATA
*
6707995 CAAATCAATTCGGCAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATAAAAA
1 CAAATCAATTCGGCAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATACAAA
* *
6708060 TCAATTCGGCAATTTATATCCATATA
66 TCAATTCGACAATGTATATCCATATA
* * *
6708086 CAAATCAATTCGACAATATATAAAACATATACAAATCAATTCGACAAAGTATATCCATATACAAA
1 CAAATCAATTCGGCAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATACAAA
* *
6708151 TCAATTCGGCAATGTATGTCCATATA
66 TCAATTCGACAATGTATATCCATATA
* *** *
6708177 CAAATCAATTCGGCAATGTAT-GTCCATATACAAATCAATTCGGCAATGTATGTCCATATACAAA
1 CAAATCAATTCGGCAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATACAAA
* *
6708241 TCAATTCCACAATGTATGTCCATATA
66 TCAATTCGACAATGTATATCCATATA
* * *** * *
6708267 CAAATCAATTCTGCAATGTAT-GTCCATATACAAATCAATTCCGCAATGTATGTCCATATACAAA
1 CAAATCAATTCGGCAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATACAAA
* ** *
6708331 TCAATTC-AGCAATATATAAAACAGATA
66 TCAATTCGA-CAATGTAT-ATCCATATA
* * ** * *
6708358 CAAATCAATTTGGCAATGTAT-ATCCATATAGAAATCAATTCGGCAATGTATATCCATATATAAA
1 CAAATCAATTCGGCAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATACAAA
*
6708422 TCAATTCGACAATGTATGTCCATATA
66 TCAATTCGACAATGTATATCCATATA
*
6708448 CAAATCAATTCGGCAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATATAAA
1 CAAATCAATTCGGCAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATACAAA
*
6708513 TCAATTCGACAATGTATGTCCATATA
66 TCAATTCGACAATGTATATCCATATA
*
6708539 CAAATCAATTCAGCAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATACAAA
1 CAAATCAATTCGGCAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATACAAA
*
6708604 TCAATTCGACAATATATA
66 TCAATTCGACAATGTATA
6708622 AAAATATACA
Statistics
Matches: 572, Mismatches: 51, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
89 1 0.00
90 161 0.28
91 388 0.68
92 1 0.00
94 21 0.04
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (91 bp):
CAAATCAATTCGGCAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATACAAA
TCAATTCGACAATGTATATCCATATA
Found at i:6713048 original size:58 final size:60
Alignment explanation
Indices: 6712920--6713053 Score: 150
Period size: 58 Copynumber: 2.2 Consensus size: 60
6712910 TGATTACCTT
* * * *
6712920 AATATTAAATTTAATTTAATATTTATCTAGTAGATAAATATTCTAGTAATTTAATATATTT
1 AATATTAAATTTAATGTAATATTTATCTA-TAGATAAATATTATAGTAATATAATATATTA
* * *
6712981 AATATTAAATTTAATGTAATATTTATCT-T-GATAAGTGTTATATTAATAT-A-ATATTA
1 AATATTAAATTTAATGTAATATTTATCTATAGATAAATATTATAGTAATATAATATATTA
6713037 AAGTGATTAAATTTAAT
1 AA-T-ATTAAATTTAAT
6713054 CAAAGTTAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
56 7 0.11
57 2 0.03
58 27 0.42
59 1 0.02
61 27 0.42
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (60 bp):
AATATTAAATTTAATGTAATATTTATCTATAGATAAATATTATAGTAATATAATATATTA
Found at i:6714926 original size:30 final size:29
Alignment explanation
Indices: 6714873--6714945 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
6714863 CGGAGTTTTT
*
6714873 CCATAAAGG-TTTTCTTGCCCAGAGTTAT-G
1 CCATAAAGGCTTTTCTTGCACAGAG--ATCG
6714902 CCATAAAGGCTTTTCTTTG-ACAGAGATCG
1 CCATAAAGGCTTTTC-TTGCACAGAGATCG
*
6714931 CCACAAAGGCTTTTC
1 CCATAAAGGCTTTTC
6714946 CTTTCCTGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 2 0.05
29 24 0.62
30 10 0.26
31 3 0.08
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (29 bp):
CCATAAAGGCTTTTCTTGCACAGAGATCG
Found at i:6715141 original size:53 final size:54
Alignment explanation
Indices: 6715064--6715213 Score: 225
Period size: 53 Copynumber: 2.8 Consensus size: 54
6715054 TTAAATTTTT
* * *
6715064 CCATATGATGCAATAA-CTCACCAATTACGGTCTTACATGATATGGTT-TTCTTC
1 CCATATGATGCCATAACCT-ACCAATTACGGTCTTACACGATATGGTTCTTCTTA
*
6715117 CCATATGATGCCATAACCTGCCAATTACGGTCTTACACGATAT-GTTCTTCTTA
1 CCATATGATGCCATAACCTACCAATTACGGTCTTACACGATATGGTTCTTCTTA
*
6715170 CCATATGATGCCATAACCCACCAATTACGGTCTTACACGATATG
1 CCATATGATGCCATAACCTACCAATTACGGTCTTACACGATATG
6715214 ATCTTTTAGT
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
52 3 0.03
53 83 0.94
54 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (54 bp):
CCATATGATGCCATAACCTACCAATTACGGTCTTACACGATATGGTTCTTCTTA
Found at i:6717861 original size:22 final size:21
Alignment explanation
Indices: 6717835--6718213 Score: 416
Period size: 22 Copynumber: 17.2 Consensus size: 21
6717825 AGCAATTATC
*
6717835 CAACATTCAGACAGCATTTAAT
1 CAACATT-GGACAGCATTTAAT
* *
6717857 TAACATTTAGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
*
6717879 CAACAATTGGACAGCATTAAAT
1 CAAC-ATTGGACAGCATTTAAT
* *
6717901 CAACATTTGAACAACATTTAAT
1 CAACA-TTGGACAGCATTTAAT
*
6717923 AAACATTTGGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
* *
6717945 CAACAATTGGACAACATTAAAT
1 CAAC-ATTGGACAGCATTTAAT
6717967 CAACATTTGGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
*
6717989 CAACATTTGGACAGCATTCAAT
1 CAACA-TTGGACAGCATTTAAT
*
6718011 CAATATTTGGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
* * *
6718033 CAATAATTTGACAGCATTAAAT
1 CAA-CATTGGACAGCATTTAAT
6718055 CAACATTTGGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
* *
6718077 CAACAATTAGACAGCATTCAAT
1 CAAC-ATTGGACAGCATTTAAT
* *
6718099 CAATAATTGGACAGCATTTAGT
1 CAA-CATTGGACAGCATTTAAT
*
6718121 CAACAATTGGACAGCATTAAAT
1 CAAC-ATTGGACAGCATTTAAT
6718143 CAACATTTGGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
*
6718165 CAACAATTGGACAGCATTCAAT
1 CAAC-ATTGGACAGCATTTAAT
*
6718187 CAATATTTGGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
6718209 CAACA
1 CAACA
6718214 ATTTTTTACT
Statistics
Matches: 306, Mismatches: 38, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.02
22 294 0.96
23 7 0.02
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (21 bp):
CAACATTGGACAGCATTTAAT
Found at i:6717892 original size:44 final size:44
Alignment explanation
Indices: 6717835--6718216 Score: 530
Period size: 44 Copynumber: 8.7 Consensus size: 44
6717825 AGCAATTATC
** * * * *
6717835 CAACATTCAGACAGCATTTAATTAACATTTAGACAGCATTTAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* * * * * *
6717879 CAACAATTGGACAGCATTAAATCAACATTTGAACAACATTTAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* *
6717923 AAACATTTGGACAGCATTTAATCAACAATTGGACAACATTAAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* *
6717967 CAACATTTGGACAGCATTTAATCAACATTTGGACAGCATTCAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* * *
6718011 CAATATTTGGACAGCATTTAATCAATAATTTGACAGCATTAAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* *
6718055 CAACATTTGGACAGCATTTAATCAACAATTAGACAGCATTCAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* * *
6718099 CAATAATTGGACAGCATTTAGTCAACAATTGGACAGCATTAAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
*
6718143 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTCAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
*
6718187 CAATATTTGGACAGCATTTAATCAACAATT
1 CAACATTTGGACAGCATTTAATCAACAATT
6718217 TTTTACTTCA
Statistics
Matches: 301, Mismatches: 37, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 301 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (44 bp):
CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
Found at i:6717915 original size:11 final size:12
Alignment explanation
Indices: 6717898--6717997 Score: 72
Period size: 11 Copynumber: 9.0 Consensus size: 12
6717888 GACAGCATTA
6717898 AATCAACATTTG
1 AATCAACATTTG
6717910 AA-CAACATTT-
1 AATCAACATTTG
*
6717920 AATAAACATTTG
1 AATCAACATTTG
* *
6717932 GA-CAGCATTT-
1 AATCAACATTTG
*
6717942 AATCAACAATTG
1 AATCAACATTTG
* *
6717954 GA-CAACA-TTA
1 AATCAACATTTG
6717964 AATCAACATTTG
1 AATCAACATTTG
* *
6717976 GA-CAGCATTT-
1 AATCAACATTTG
6717986 AATCAACATTTG
1 AATCAACATTTG
6717998 GACAGCATTC
Statistics
Matches: 65, Mismatches: 15, Indels: 16
0.68 0.16 0.17
Matches are distributed among these distances:
10 7 0.11
11 51 0.78
12 7 0.11
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (12 bp):
AATCAACATTTG
Found at i:6718403 original size:2 final size:2
Alignment explanation
Indices: 6718396--6718431 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6718386 TAATCATACC
6718396 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6718432 CTTTGCATCA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6719988 original size:27 final size:27
Alignment explanation
Indices: 6719952--6720006 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
6719942 AAGTGCCGAA
6719952 TACCTAAAAGCTCAAAAGCTTATTTTC
1 TACCTAAAAGCTCAAAAGCTTATTTTC
*
6719979 TACCTTAAAGCTCAAAAGCTTATTTTC
1 TACCTAAAAGCTCAAAAGCTTATTTTC
6720006 T
1 T
6720007 TTCTCAACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (27 bp):
TACCTAAAAGCTCAAAAGCTTATTTTC
Found at i:6723708 original size:26 final size:26
Alignment explanation
Indices: 6723679--6723741 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
6723669 CTACCTACAA
6723679 CAGTTTTAGAATATCATAACATATAT
1 CAGTTTTAGAATATCATAACATATAT
* *
6723705 CAGTTTTAGAATATCATAGCATGTAT
1 CAGTTTTAGAATATCATAACATATAT
* *
6723731 GAGTTTCAGAA
1 CAGTTTTAGAA
6723742 CACTTATAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (26 bp):
CAGTTTTAGAATATCATAACATATAT
Found at i:6726620 original size:22 final size:22
Alignment explanation
Indices: 6726592--6726708 Score: 162
Period size: 22 Copynumber: 5.3 Consensus size: 22
6726582 AGTAGATACA
6726592 CATGTTTAACGTACTAAGCTCT
1 CATGTTTAACGTACTAAGCTCT
* * *
6726614 CATGTTTAACGAACTAAACCCT
1 CATGTTTAACGTACTAAGCTCT
**
6726636 CATGGCTAACGTACTAAGCTCT
1 CATGTTTAACGTACTAAGCTCT
**
6726658 CATGGCTAACGTACTAAGCTCT
1 CATGTTTAACGTACTAAGCTCT
*
6726680 CATGTTTCACGTACTAAGCTCT
1 CATGTTTAACGTACTAAGCTCT
6726702 CATGTTT
1 CATGTTT
6726709 GAACAATAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 84 1.00
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (22 bp):
CATGTTTAACGTACTAAGCTCT
Found at i:6728848 original size:13 final size:14
Alignment explanation
Indices: 6728827--6728870 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
6728817 AGGGTAGGAT
*
6728827 TCTGTATATCT-TA
1 TCTGCATATCTATA
6728840 TCTGCATATCTATA
1 TCTGCATATCTATA
*
6728854 TCTGC-TATCTGTA
1 TCTGCATATCTATA
6728867 TCTG
1 TCTG
6728871 AAATGGATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 21 0.75
14 7 0.25
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.48
Consensus pattern (14 bp):
TCTGCATATCTATA
Found at i:6739749 original size:110 final size:107
Alignment explanation
Indices: 6739569--6739987 Score: 556
Period size: 110 Copynumber: 3.8 Consensus size: 107
6739559 ATATTTGTCA
* * *
6739569 ATTTGGTT-AGACGAGAAATCGAAACCCAGCACCTTAGAGCACGTTCCTTGAATTTCCAAACGCA
1 ATTTGGTTGA-ACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCA
6739633 AAACATTGCCTTATTTTGAAATTTTTGAAAAGGATACTTAGCT
65 AAACATTGCCTTATTTTGAAATTTTTGAAAAGGATACTTAGCT
* * *
6739676 ATTTGGTTGAACGAGAAAAATCGACACCCAGTACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAG--AAATCGAAACCCAGTACCTTAGGGCACG-TTCCTCGAATTTCCAAACG
6739741 CAAAACATTGCCTTATTTTGAAATTTTTGAAAAGGATACTTAGCT
63 CAAAACATTGCCTTATTTTGAAATTTTTGAAAAGGATACTTAGCT
* * *
6739786 ATTTGGTTGAACGAGAAAAATCGACACCCAGTACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAG--AAATCGAAACCCAGTACCTTAGGGCACG-TTCCTCGAATTTCCAAACG
* *
6739851 CAAAACATTGCTTTATTATGAAAATTTTTGAAAAGGATA-TTAAG-T
63 CAAAACATTGCCTTATTTTG-AAATTTTTGAAAAGGATACTT-AGCT
* ** * *
6739896 CATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGATACGTTCCTCGAATTTCTAAACACA
1 -ATTTGGTTGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCA
* *
6739961 AAATATTACCTTATTTTGAAATATTTT
65 AAACATTGCCTTATTTTGAAAT-TTTT
6739988 CTTTTTTTGA
Statistics
Matches: 284, Mismatches: 20, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
107 17 0.06
108 37 0.13
109 48 0.17
110 148 0.52
111 34 0.12
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (107 bp):
ATTTGGTTGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
AACATTGCCTTATTTTGAAATTTTTGAAAAGGATACTTAGCT
Found at i:6739984 original size:18 final size:18
Alignment explanation
Indices: 6739961--6740002 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6739951 TCTAAACACA
6739961 AAATATTACCTTATTTTG
1 AAATATTACCTTATTTTG
** *
6739979 AAATATTTTCTTTTTTTG
1 AAATATTACCTTATTTTG
6739997 AAATAT
1 AAATAT
6740003 GAAGTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (18 bp):
AAATATTACCTTATTTTG
Found at i:6740158 original size:24 final size:27
Alignment explanation
Indices: 6740111--6740162 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 27
6740101 AAATAAATAA
6740111 ATAAACTAAAAACATAAGAATGAACAT
1 ATAAACTAAAAACATAAGAATGAACAT
*
6740138 ATAAAC-AAATACAT-A-AATGAACAT
1 ATAAACTAAAAACATAAGAATGAACAT
6740162 A
1 A
6740163 AAAAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 10 0.42
25 1 0.04
26 7 0.29
27 6 0.25
ACGTcount: A:0.63, C:0.12, G:0.06, T:0.19
Consensus pattern (27 bp):
ATAAACTAAAAACATAAGAATGAACAT
Found at i:6742242 original size:27 final size:27
Alignment explanation
Indices: 6742204--6742258 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
6742194 TAGAATAATA
6742204 TATATAACACTCTAAGATTGTACCATG
1 TATATAACACTCTAAGATTGTACCATG
6742231 TATATAACACTCTAAGATTGTACCATG
1 TATATAACACTCTAAGATTGTACCATG
6742258 T
1 T
6742259 CATAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (27 bp):
TATATAACACTCTAAGATTGTACCATG
Found at i:6742601 original size:16 final size:15
Alignment explanation
Indices: 6742582--6742634 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
6742572 AATAAAAGAA
6742582 AAAAAATAATGCTAAT
1 AAAAAATAATG-TAAT
*
6742598 AAAAGATACATGTATAT
1 AAAAAATA-ATGTA-AT
*
6742615 AATAAATAATG-AAT
1 AAAAAATAATGTAAT
6742629 AAAAAA
1 AAAAAA
6742635 ATGAGCGGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 7 0.23
15 1 0.03
16 12 0.39
17 11 0.35
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.25
Consensus pattern (15 bp):
AAAAAATAATGTAAT
Found at i:6745455 original size:25 final size:25
Alignment explanation
Indices: 6745425--6745537 Score: 120
Period size: 25 Copynumber: 4.5 Consensus size: 25
6745415 TGAGCGTCCT
6745425 GATATTTGGCTCTCACAAGCTTCCC
1 GATATTTGGCTCTCACAAGCTTCCC
* *
6745450 GTTATTTGGCTCTCA-AGAGCTTCCT
1 GATATTTGGCTCTCACA-AGCTTCCC
* * *
6745475 GATAATTGGCTCTCACGAGCTTCCT
1 GATATTTGGCTCTCACAAGCTTCCC
* * ** *
6745500 GATAATTGGCTCGCATGAGCTTCGC
1 GATATTTGGCTCTCACAAGCTTCCC
6745525 GATATTTGGCTCT
1 GATATTTGGCTCT
6745538 TTTGAGCTTC
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
24 1 0.01
25 74 0.99
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.35
Consensus pattern (25 bp):
GATATTTGGCTCTCACAAGCTTCCC
Found at i:6745496 original size:50 final size:50
Alignment explanation
Indices: 6745416--6745560 Score: 159
Period size: 50 Copynumber: 2.9 Consensus size: 50
6745406 CAACTCTTAT
* * *
6745416 GAGCGTCCTGATATTTGGCTCTCACAAGCTTCCCGTTATTTGGCTCTCAA
1 GAGCTTCCTGATATTTGGCTCTCACGAGCTTCCCGTTATTTGGCTCGCAA
* * * * *
6745466 GAGCTTCCTGATAATTGGCTCTCACGAGCTTCCTGATAATTGGCTCGCAT
1 GAGCTTCCTGATATTTGGCTCTCACGAGCTTCCCGTTATTTGGCTCGCAA
*** *
6745516 GAGCTTCGC-GATATTTGGCTCTTTTGAGCTTCCCGTT-TATGGCTC
1 GAGCTTC-CTGATATTTGGCTCTCACGAGCTTCCCGTTATTTGGCTC
6745561 ATATGAGCTT
Statistics
Matches: 78, Mismatches: 16, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
49 6 0.08
50 71 0.91
51 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (50 bp):
GAGCTTCCTGATATTTGGCTCTCACGAGCTTCCCGTTATTTGGCTCGCAA
Found at i:6745567 original size:24 final size:24
Alignment explanation
Indices: 6745514--6745599 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 24
6745504 ATTGGCTCGC
* *
6745514 ATGAGCTTCGCGATATT-TGGCTCTT
1 ATGAGCTTCCCG-T-TTATGGCTCAT
*
6745539 TTGAGCTTCCCGTTTATGGCTCAT
1 ATGAGCTTCCCGTTTATGGCTCAT
*
6745563 ATGAGCTTCCCGTTACATGGCTCGA-
1 ATGAGCTTCCCGTT-TATGGCTC-AT
*
6745588 AAGAGCTTCCCG
1 ATGAGCTTCCCG
6745600 ATTACATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.04
24 21 0.40
25 28 0.54
26 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (24 bp):
ATGAGCTTCCCGTTTATGGCTCAT
Found at i:6745593 original size:25 final size:26
Alignment explanation
Indices: 6745541--6745611 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 26
6745531 TGGCTCTTTT
* *
6745541 GAGCTTCCCGTT-TATGGCTC-ATAT
1 GAGCTTCCCGTTACATGGCTCGATAA
6745565 GAGCTTCCCGTTACATGGCTCGA-AA
1 GAGCTTCCCGTTACATGGCTCGATAA
6745590 GAGCTTCCCGATTACAT-GCTCG
1 GAGCTTCCCG-TTACATGGCTCG
6745612 TGTGAGCATA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 12 0.29
25 23 0.55
26 7 0.17
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.30
Consensus pattern (26 bp):
GAGCTTCCCGTTACATGGCTCGATAA
Found at i:6746597 original size:41 final size:41
Alignment explanation
Indices: 6746550--6746634 Score: 134
Period size: 41 Copynumber: 2.1 Consensus size: 41
6746540 CACGGACGCA
* *
6746550 TGTCTCAACCGTGTGTGACACACGGCCATGTGACATGGTCG
1 TGTCTCAACCGTGTGTGACACAAGGCCATGTGACACGGTCG
* *
6746591 TGTCTCAATCGTGTGTGACACAAGGCCATGTGGCACGGTCG
1 TGTCTCAACCGTGTGTGACACAAGGCCATGTGACACGGTCG
6746632 TGT
1 TGT
6746635 GTCCCTTGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.26
Consensus pattern (41 bp):
TGTCTCAACCGTGTGTGACACAAGGCCATGTGACACGGTCG
Found at i:6749470 original size:3 final size:3
Alignment explanation
Indices: 6749462--6749515 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
6749452 ATTATTTTGC
6749462 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6749510 AAT AAT
1 AAT AAT
6749516 TCTATTTCAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6750378 original size:13 final size:13
Alignment explanation
Indices: 6750341--6750386 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
6750331 TTAAAAAATG
6750341 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
* *
6750354 CTGTGGAAAAGTA
1 CTTTTGAAAAGTA
* *
6750367 CTTTTGATAAGTG
1 CTTTTGAAAAGTA
6750380 CTTTTGA
1 CTTTTGA
6750387 GAATTTTGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:6752935 original size:343 final size:343
Alignment explanation
Indices: 6752309--6752984 Score: 1280
Period size: 343 Copynumber: 2.0 Consensus size: 343
6752299 TTCATTCGGC
*
6752309 TACTCCATTTGATTGATGAGAGTATAGTGGTGTTACTTCATGAATAATGTCATGTTGTGTATAGT
1 TACTCCATTTGATTGATGAGAGTATAGTGGTGTTACTTCATGAATAATGTCATGTTGTGTACAGT
*
6752374 ATTCATCAAATGGTTCAACATATTTACCACCACGATTACTTCTCACGATCTTAATCTTTTTATTA
66 ATTCATCAAATGGTTCAACATATTTACCACCACGATTACTTCTCACAATCTTAATCTTTTTATTA
* * *
6752439 AGTTAGTTTTCAACTTCTTGCTTATATAGAATAAATTTCTCTATAGCTTCATCTTTGCTCTTAAG
131 AGTTAGTTTTCAACTTCCTACTTATATAGAATAAATTTCTCTATAGCTTCATCTTTACTCTTAAG
6752504 CAAATATACGTAGAAATATTTTGTGATATCATCAATGAAGACAATAAATTATTTATTACCTCCTC
196 CAAATATACGTAGAAATATTTTGTGATATCATCAATGAAGACAATAAATTATTTATTACCTCCTC
*
6752569 TCATTTGAACAAACTTTAAGTCACAAACATCGCTATGTATTAGATCAAGTGGTTCTGTGCTTCTT
261 TCATTTGAACAAACTTTAAGTCACAAACATCGCTATGTATTAGATCAAGTGGTTCTATGCTTCTT
6752634 TCAACAGTATAGTGGTGT
326 TCAACAGTATAGTGGTGT
6752652 TACTCCATTTGATTGATGAGAGTATAGTGGTGTTACTTCATGAATAATGTCATGTTGTGTACAGT
1 TACTCCATTTGATTGATGAGAGTATAGTGGTGTTACTTCATGAATAATGTCATGTTGTGTACAGT
6752717 ATTCATCAAATGGTTCAACATATTTACCACCACGATTACTTCTCACAATCTTAATCTTTTTATTA
66 ATTCATCAAATGGTTCAACATATTTACCACCACGATTACTTCTCACAATCTTAATCTTTTTATTA
6752782 AGTTAGTTTTCAACTTCCTACTTATATAGAATAAATTTCTCTATAGCTTCATCTTTACTCTTAAG
131 AGTTAGTTTTCAACTTCCTACTTATATAGAATAAATTTCTCTATAGCTTCATCTTTACTCTTAAG
* *
6752847 CAAATATACGTAGAAATATTTTGTGATATCATCAATGAAGATAATAAATTATTTATTCCCTCCTC
196 CAAATATACGTAGAAATATTTTGTGATATCATCAATGAAGACAATAAATTATTTATTACCTCCTC
6752912 TCATTTGAACAAACTTTAAGTCACAAACATCGCTATGTATTAGATCAAGTGGTTCTATGCTTCTT
261 TCATTTGAACAAACTTTAAGTCACAAACATCGCTATGTATTAGATCAAGTGGTTCTATGCTTCTT
6752977 TCAACAGT
326 TCAACAGT
6752985 TTGAAATGAA
Statistics
Matches: 325, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
343 325 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (343 bp):
TACTCCATTTGATTGATGAGAGTATAGTGGTGTTACTTCATGAATAATGTCATGTTGTGTACAGT
ATTCATCAAATGGTTCAACATATTTACCACCACGATTACTTCTCACAATCTTAATCTTTTTATTA
AGTTAGTTTTCAACTTCCTACTTATATAGAATAAATTTCTCTATAGCTTCATCTTTACTCTTAAG
CAAATATACGTAGAAATATTTTGTGATATCATCAATGAAGACAATAAATTATTTATTACCTCCTC
TCATTTGAACAAACTTTAAGTCACAAACATCGCTATGTATTAGATCAAGTGGTTCTATGCTTCTT
TCAACAGTATAGTGGTGT
Found at i:6754257 original size:162 final size:162
Alignment explanation
Indices: 6754005--6754400 Score: 500
Period size: 162 Copynumber: 2.5 Consensus size: 162
6753995 CAGAATTAAA
* * * * * *
6754005 ATTTTGAAACAAAATCAAAATC-AAT----TCTATTGAACGACAGGATTGAATCTCGAAACAAAA
1 ATTTGGAAACAAAATCAAAATCGAATAAAATCTATT-AA-GACGGGAATAAATCCCGAAACAGAA
* * * * **
6754065 TTATTTAATTAAATCTTATTTGGAAACAAAATCAAAATCAAATAAAATATGTTAAATGGCGGGAA
64 TTATTTAATTAAATATCATCTGGAAACAAAATAAAAATCAAATAAAATATGTTAAATGGCAAGAA
*
6754130 T-AATCCCGGAACAGAATTATTCAATTAATTCTC
129 TAAATCCCGAAACAGAATTATTCAATTAATTCTC
6754163 ATTTGGAAACAAAATCAAAATCGAATAAAATCTATTAATGACGGGAATAAATCCCGAAACAGAAT
1 ATTTGGAAACAAAATCAAAATCGAATAAAATCTATTAA-GACGGGAATAAATCCCGAAACAGAAT
* *
6754228 TATTCAATTAATTATCATCTGGAAACAAAATAAAAATCAAATAAAATATGTTAAATGGCAAGAAT
65 TATTTAATTAAATATCATCTGGAAACAAAATAAAAATCAAATAAAATATGTTAAATGGCAAGAAT
* *
6754293 AAATCCTGAAATAGAATTATTCAATTAATTCTC
130 AAATCCCGAAACAGAATTATTCAATTAATTCTC
* * * *
6754326 GTTTGGAAACAAAATCAAAAT-GAAACAAAATCTGTTAAGCAGCGGGAATAAACCCCGAAACAGA
1 ATTTGGAAACAAAATCAAAATCG-AATAAAATCTATTAAG-A-CGGGAATAAATCCCGAAACAGA
6754390 ATTATTTAATT
63 ATTATTTAATT
6754401 TTAACTTTTT
Statistics
Matches: 206, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
158 21 0.10
159 3 0.01
162 82 0.40
163 69 0.33
164 31 0.15
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (162 bp):
ATTTGGAAACAAAATCAAAATCGAATAAAATCTATTAAGACGGGAATAAATCCCGAAACAGAATT
ATTTAATTAAATATCATCTGGAAACAAAATAAAAATCAAATAAAATATGTTAAATGGCAAGAATA
AATCCCGAAACAGAATTATTCAATTAATTCTC
Found at i:6754321 original size:82 final size:82
Alignment explanation
Indices: 6754050--6754400 Score: 454
Period size: 81 Copynumber: 4.3 Consensus size: 82
6754040 GACAGGATTG
* * * * *
6754050 AATCTCGAAACAAAATTATTTAATTAAATCTTATTTGGAAACAAAATCAAAATCAAATAAAATAT
1 AATCCCGAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCAAATAAAATAT
6754115 GTTAAATGGCGGGAAT-
66 GTTAAATGGCGGGAATA
* * *
6754131 AATCCCGGAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCGAATAAAATCT
1 AATCCCGAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCAAATAAAATAT
* *
6754196 ATT-AATGACGGGAATA
66 GTTAAATGGCGGGAATA
* * *
6754212 AATCCCGAAACAGAATTATTCAATTAATTATCATCTGGAAACAAAATAAAAATCAAATAAAATAT
1 AATCCCGAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCAAATAAAATAT
**
6754277 GTTAAATGGCAAGAATA
66 GTTAAATGGCGGGAATA
* * * * * *
6754294 AATCCTGAAATAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATGAAACAAAATCT
1 AATCCCGAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCAAATAAAATAT
***
6754359 GTTAAGCAGCGGGAATA
66 GTTAAATGGCGGGAATA
* *
6754376 AACCCCGAAACAGAATTATTTAATT
1 AATCCCGAAACAGAATTATTCAATT
6754401 TTAACTTTTT
Statistics
Matches: 230, Mismatches: 38, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
80 11 0.05
81 120 0.52
82 99 0.43
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (82 bp):
AATCCCGAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCAAATAAAATAT
GTTAAATGGCGGGAATA
Found at i:6754652 original size:51 final size:48
Alignment explanation
Indices: 6754529--6754652 Score: 151
Period size: 51 Copynumber: 2.5 Consensus size: 48
6754519 GCGAACAAAT
* * *
6754529 ATAAATATTTATATTTATATTAAATACAATATCTGAACAAATAATATAA
1 ATAAATATTTATATTTAT-TTAAAAACAATATCTAAACAAAAAATATAA
* *
6754578 ACAAATATTTATATTTATGTAAAAACACCATATCTAAACAAAACAA-ATTAA
1 ATAAATATTTATATTTATTTAAAAACA--ATATCTAAACAAAA-AATA-TAA
6754629 ATAAATATTTATATTTATTTAAAA
1 ATAAATATTTATATTTATTTAAAA
6754653 TATCATATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
48 7 0.11
49 17 0.27
50 13 0.20
51 27 0.42
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (48 bp):
ATAAATATTTATATTTATTTAAAAACAATATCTAAACAAAAAATATAA
Found at i:6754660 original size:50 final size:49
Alignment explanation
Indices: 6754529--6754660 Score: 144
Period size: 50 Copynumber: 2.7 Consensus size: 49
6754519 GCGAACAAAT
* *
6754529 ATAAATATTTATATTTATATT-AAATACAATATCTGAACAAATAATATAA
1 ATAAATATTTATATTTATATTAAAATAC-ATATCTAAACAAAAAATATAA
* * * *
6754578 ACAAATATTTATATTTATGTAAAAACACCATATCTAAACAAAACAA-ATTAA
1 ATAAATATTTATATTTATATTAAAATA-CATATCTAAACAAAA-AATA-TAA
6754629 ATAAATATTTATATTTAT-TTAAAATATCATAT
1 ATAAATATTTATATTTATATTAAAATA-CATAT
6754661 TTGAAAACAA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
49 18 0.26
50 28 0.41
51 23 0.33
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (49 bp):
ATAAATATTTATATTTATATTAAAATACATATCTAAACAAAAAATATAA
Found at i:6767969 original size:40 final size:41
Alignment explanation
Indices: 6767868--6767976 Score: 134
Period size: 40 Copynumber: 2.7 Consensus size: 41
6767858 TGTTTCTGAA
* *
6767868 TAGCAGGCCTTGAGCTGGTGTTATCTATCAAGCTTTATGCC
1 TAGCAGGCTTTGTGCTGGTGTTATCTATCAAGCTTTATGCC
* * *
6767909 TAGTAGGCTTTGTGAC-GGTGTGT-T-TATCAGGCTTTGTGCC
1 TAGCAGGCTTTGTG-CTGGTGT-TATCTATCAAGCTTTATGCC
6767949 TAGCAGGCTTTGTGCTGGTGTTATCTAT
1 TAGCAGGCTTTGTGCTGGTGTTATCTAT
6767977 TTGGCGTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
39 2 0.04
40 33 0.58
41 20 0.35
42 2 0.04
ACGTcount: A:0.16, C:0.17, G:0.28, T:0.39
Consensus pattern (41 bp):
TAGCAGGCTTTGTGCTGGTGTTATCTATCAAGCTTTATGCC
Found at i:6769992 original size:18 final size:18
Alignment explanation
Indices: 6769949--6769984 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6769939 AGACTTTGTT
6769949 ATTTTTCTGGTGAGTTCC
1 ATTTTTCTGGTGAGTTCC
6769967 ATTTTTCTGGTGAGTTCC
1 ATTTTTCTGGTGAGTTCC
6769985 TTCTTTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.22, T:0.50
Consensus pattern (18 bp):
ATTTTTCTGGTGAGTTCC
Found at i:6774785 original size:32 final size:31
Alignment explanation
Indices: 6774740--6774835 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
6774730 CTTAGATAAT
6774740 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
6774771 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
6774803 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
6774834 TT
1 TT
6774836 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:6776675 original size:18 final size:18
Alignment explanation
Indices: 6776652--6776694 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
6776642 ACCATAACAA
*
6776652 TAGAAATAAGATATTGAG
1 TAGAAATAAGAAATTGAG
6776670 TAGAAATAAGAAATTGAG
1 TAGAAATAAGAAATTGAG
6776688 -AGAAATA
1 TAGAAATA
6776695 TCCAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.23
Consensus pattern (18 bp):
TAGAAATAAGAAATTGAG
Done.