Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 62 of 187
Found at i:18375291 original size:18 final size:17
Alignment explanation
Indices: 18375270--18375304 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18375260 TTATTATTAA
*
18375270 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18375288 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18375305 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18375472 original size:101 final size:93
Alignment explanation
Indices: 18375366--18375648 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
18375356 ACTATAAAAG
* * * *
18375366 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
18375430 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
18375467 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
18375530 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
18375558 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
18375621 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
18375649 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:18375495 original size:26 final size:28
Alignment explanation
Indices: 18375466--18375526 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
18375456 TATGAATTTG
*
18375466 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
18375492 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
18375520 TAAAATT
1 TATAATT
18375527 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:18375524 original size:47 final size:46
Alignment explanation
Indices: 18375473--18375616 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
18375463 TTGTATAATT
18375473 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
18375520 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
18375564 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
18375611 TAAAAT
1 TAAAAT
18375617 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:18375536 original size:91 final size:90
Alignment explanation
Indices: 18375441--18375648 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
18375431 TAATTATAAC
* * * *
18375441 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
18375506 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
18375532 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
18375597 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
18375623 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
18375649 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:18375608 original size:44 final size:43
Alignment explanation
Indices: 18375466--18375608 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
18375456 TATGAATTTG
* *
18375466 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
18375510 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
18375557 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
18375601 TATAATTT
1 TATAATTT
18375609 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:18375623 original size:47 final size:47
Alignment explanation
Indices: 18375491--18375629 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
18375481 TTATTATTAC
* *
18375491 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
18375538 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
18375582 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
18375629 A
1 A
18375630 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:18380555 original size:20 final size:20
Alignment explanation
Indices: 18380530--18380568 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
18380520 TTGTACGAGA
18380530 TTGCACTTCAGTGCCTCTGT
1 TTGCACTTCAGTGCCTCTGT
*
18380550 TTGCACTTCAGTTCCTCTG
1 TTGCACTTCAGTGCCTCTG
18380569 AGTACACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.31, G:0.18, T:0.41
Consensus pattern (20 bp):
TTGCACTTCAGTGCCTCTGT
Found at i:18380594 original size:20 final size:20
Alignment explanation
Indices: 18380571--18380609 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18380561 TTCCTCTGAG
*
18380571 TACACATTT-GTGCCTCTGTC
1 TACAC-TTTGGTGCCGCTGTC
18380591 TACACTTTGGTGCCGCTGT
1 TACACTTTGGTGCCGCTGT
18380610 TACGCATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.13, C:0.28, G:0.21, T:0.38
Consensus pattern (20 bp):
TACACTTTGGTGCCGCTGTC
Found at i:18383629 original size:139 final size:134
Alignment explanation
Indices: 18383444--18383765 Score: 360
Period size: 139 Copynumber: 2.4 Consensus size: 134
18383434 ACAAATACTC
* * * *
18383444 CTTTCTCGACTTCACTCCCCGATTTCGACGTTATATGGAACAAATACTCGTGTAAATATTTTGTT
1 CTTTCTCGACTTCA-TTCCCGA-TTCGGCGTTATATGGAACAAATACTCGTGTAAATATTTCGCT
* * * * * *
18383509 TGTTTGTCTCAAAACAACCTCGCTGGGTTCAACAGTGGTGGATGAAGAAGAAGGGTTATTGTTTT
64 TGTTTGTCTCAAAACAACCCCACTAGGTT---CA-TGATGAATGAAGAAGAAGGGTTATTATTTT
18383574 -CTGCTAACTA
125 AC-GCTAACTA
*
18383584 CTTTCTCGACTTCATTCCCGATTCCGGCGTTA-ATTGGAACAAATACTCGTGTAAATCTTTCGCT
1 CTTTCTCGACTTCATTCCCGATT-CGGCGTTATA-TGGAACAAATACTCGTGTAAATATTTCGCT
* * * *
18383648 TGTTTGTTTGAAAACAACCCCACTAGGTTCANGATGAATGAAGAAGAAGGGTTATTATTTTACGT
64 TGTTTGTCTCAAAACAACCCCACTAGGTTCATGATGAATGAAGAAGAAGGGTTATTATTTTACGC
18383713 TAACTA
129 TAACTA
* * * * * *
18383719 TTTTCTTGACTTCACTCCCAATTTGGCGTTATATGGAATAAATACTC
1 CTTTCTCGACTTCATTCCCGATTCGGCGTTATATGGAACAAATACTC
18383766 CTTGATTCAC
Statistics
Matches: 157, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
134 20 0.13
135 53 0.34
136 3 0.02
138 3 0.02
139 64 0.41
140 14 0.09
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (134 bp):
CTTTCTCGACTTCATTCCCGATTCGGCGTTATATGGAACAAATACTCGTGTAAATATTTCGCTTG
TTTGTCTCAAAACAACCCCACTAGGTTCATGATGAATGAAGAAGAAGGGTTATTATTTTACGCTA
ACTA
Found at i:18384831 original size:20 final size:20
Alignment explanation
Indices: 18384791--18384831 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18384781 ATTACAGTTA
*
18384791 CATTTCCCAATTCCCCTCCC
1 CATTTCCCAATTCCCCACCC
* *
18384811 CATTTCCCATTTCCCGACCC
1 CATTTCCCAATTCCCCACCC
18384831 C
1 C
18384832 GTGTATCTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.54, G:0.02, T:0.29
Consensus pattern (20 bp):
CATTTCCCAATTCCCCACCC
Found at i:18386111 original size:13 final size:13
Alignment explanation
Indices: 18386090--18386193 Score: 127
Period size: 13 Copynumber: 7.8 Consensus size: 13
18386080 AAATAACTAG
* *
18386090 TTTATTATATTGT
1 TTTAATATACTGT
*
18386103 TTTAATATATTGT
1 TTTAATATACTGT
18386116 TTTAATATACTGT
1 TTTAATATACTGT
*
18386129 TTTAGTATACTGT
1 TTTAATATACTGT
*
18386142 TATAAATATACTGT
1 T-TTAATATACTGT
*
18386156 TTTAATATAATGT
1 TTTAATATACTGT
18386169 TTTAATATACTGT
1 TTTAATATACTGT
*
18386182 TATAAATATACT
1 T-TTAATATACT
18386194 ATTATTGTGA
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
13 60 0.75
14 20 0.25
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.54
Consensus pattern (13 bp):
TTTAATATACTGT
Found at i:18386150 original size:40 final size:40
Alignment explanation
Indices: 18386106--18386193 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
18386096 ATATTGTTTT
* * *
18386106 AATATATTGTTTTAATATACTGTTTTAGTATACTGTTATA
1 AATATACTGTTTTAATATAATGTTTTAATATACTGTTATA
18386146 AATATACTGTTTTAATATAATGTTTTAATATACTGTTATA
1 AATATACTGTTTTAATATAATGTTTTAATATACTGTTATA
18386186 AATATACT
1 AATATACT
18386194 ATTATTGTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (40 bp):
AATATACTGTTTTAATATAATGTTTTAATATACTGTTATA
Found at i:18387523 original size:43 final size:41
Alignment explanation
Indices: 18387463--18387619 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 41
18387453 TATGTATTTT
18387463 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGTGTATA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTGTG-ATA
* * *
18387506 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATT-TGATT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTGTGATA
* *
18387547 TGTGTAAGACC-CTGTTTGGGACAG-TGGCATCGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TGTGA-TA
*
18387590 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
18387620 TGTACGAGCC
Statistics
Matches: 95, Mismatches: 12, Indels: 14
0.79 0.10 0.12
Matches are distributed among these distances:
40 2 0.02
41 29 0.31
42 6 0.06
43 57 0.60
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (41 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTGTGATA
Found at i:18387607 original size:84 final size:84
Alignment explanation
Indices: 18387464--18387619 Score: 212
Period size: 84 Copynumber: 1.9 Consensus size: 84
18387454 ATGTATTTTC
* *
18387464 GTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGTGTATACGTGTAAGACCATGTCTGGGACA
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGTGTATACATGTAAGACCACGTCTGGGACA
18387529 TTGGCATCGTATTTGATTT
66 TTGGCATCGTATTTGATTT
*
18387548 GTGTAAGACC-CTGTTTGGGACAG-TGGCATCG-ATATGTG-ATTACATGTAAGACCACGTCTGG
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAAT-TGTGTA-TACATGTAAGACCACGTCTGG
*
18387609 GACGTTGGCAT
62 GACATTGGCAT
18387620 TGTACGAGCC
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
83 4 0.06
84 59 0.92
85 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (84 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGTGTATACATGTAAGACCACGTCTGGGACA
TTGGCATCGTATTTGATTT
Found at i:18390129 original size:35 final size:35
Alignment explanation
Indices: 18390085--18390151 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
18390075 TAATTATTAA
* *
18390085 TGTAATATACTGGTTTAATATATTGTTATAAAATT
1 TGTAATATACTAGTTTAATATACTGTTATAAAATT
*
18390120 TGTAATATACTATTTTAATATACTGTTATAAA
1 TGTAATATACTAGTTTAATATACTGTTATAAA
18390152 TTATCACAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (35 bp):
TGTAATATACTAGTTTAATATACTGTTATAAAATT
Found at i:18394565 original size:28 final size:28
Alignment explanation
Indices: 18394502--18394567 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
18394492 ATACAACATG
* *
18394502 CAGTAGCAGTCTGGGCCTGAGCCCTATA
1 CAGTAACAGTCTGGGCCTGAGCCCAATA
** * *
18394530 CAACAACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTCTGGGCCTGAGCCCAATA
18394558 CAGTAACAGT
1 CAGTAACAGT
18394568 ACAATGCAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTGAGCCCAATA
Found at i:18394694 original size:23 final size:26
Alignment explanation
Indices: 18394675--18394737 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
18394665 ACCAATATCT
18394675 CAGCAAAGCTGCCAGTAATAGTGATG
1 CAGCAAAGCTGCCAGTAATAGTGATG
* *
18394701 CAGCAAAGCTGCCAGTAACAGT-AAG
1 CAGCAAAGCTGCCAGTAATAGTGATG
18394726 CAGCAAAGCTGC
1 CAGCAAAGCTGC
18394738 TACTAACAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 14 0.40
26 21 0.60
ACGTcount: A:0.37, C:0.24, G:0.25, T:0.14
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAATAGTGATG
Found at i:18394734 original size:25 final size:25
Alignment explanation
Indices: 18394675--18394748 Score: 103
Period size: 25 Copynumber: 2.9 Consensus size: 25
18394665 ACCAATATCT
* *
18394675 CAGCAAAGCTGCCAGTAATAGTGATG
1 CAGCAAAGCTGCCAGTAACAGT-AAG
18394701 CAGCAAAGCTGCCAGTAACAGTAAG
1 CAGCAAAGCTGCCAGTAACAGTAAG
* *
18394726 CAGCAAAGCTGCTACTAACAGTA
1 CAGCAAAGCTGCCAGTAACAGTA
18394749 TATGTGGCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 23 0.52
26 21 0.48
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (25 bp):
CAGCAAAGCTGCCAGTAACAGTAAG
Found at i:18394953 original size:27 final size:27
Alignment explanation
Indices: 18394940--18395147 Score: 235
Period size: 27 Copynumber: 7.7 Consensus size: 27
18394930 TATCCTACGG
18394940 GGGTATTTCGATCATTTTACCCTTCGAA
1 GGGTATTTCGATCATTTTACCCTTC-AA
* *
18394968 -GGTATTTC-AGTCATTTTACCTTTCAG
1 GGGTATTTCGA-TCATTTTACCCTTCAA
**
18394994 GGGTATTTTAATCATTTTACCCTTCAA
1 GGGTATTTCGATCATTTTACCCTTCAA
18395021 GGGTATTTCGATCATTTTACCCTTCAA
1 GGGTATTTCGATCATTTTACCCTTCAA
* *
18395048 GGGTATCTC-AGTCATTTTACCCTTCGA
1 GGGTATTTCGA-TCATTTTACCCTTCAA
**
18395075 GGGTATTTCGGCCATTTTACCCTTCAA
1 GGGTATTTCGATCATTTTACCCTTCAA
* * * *
18395102 GGGTATTTTGGTCACTTTACCCTTCGA
1 GGGTATTTCGATCATTTTACCCTTCAA
*
18395129 GGGCATTTCTG-TCATTTTA
1 GGGTATTTC-GATCATTTTA
18395148 GGCTCATTAC
Statistics
Matches: 154, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.02
27 149 0.97
28 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGATCATTTTACCCTTCAA
Found at i:18395053 original size:81 final size:81
Alignment explanation
Indices: 18394912--18395147 Score: 278
Period size: 81 Copynumber: 2.9 Consensus size: 81
18394902 TCAATTCCTA
** * * **
18394912 AGGGTATAACAATCATTTTATCCTACGGGGGTATTTCGATCATTTTACCCTTCGAA-GGTATTTC
1 AGGGTATTTCAATCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTC-AAGGGTATTTC
*
18394976 AGTCATTTTACCTTTC-
65 AGTCATTTTACCCTTCG
* *
18394992 AGGGGTATTTTAATCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTCAAGGGTATCTC
1 A-GGGTATTTCAATCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTC
18395057 AGTCATTTTACCCTTCG
65 AGTCATTTTACCCTTCG
*** * * * * * *
18395074 AGGGTATTTCGGCCATTTTACCCTTCAAGGGTATTTTGGTCACTTTACCCTTCGAGGGCATTTCT
1 AGGGTATTTCAATCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCA
18395139 GTCATTTTA
66 GTCATTTTA
18395148 GGCTCATTAC
Statistics
Matches: 133, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
80 3 0.02
81 129 0.97
82 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (81 bp):
AGGGTATTTCAATCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCA
GTCATTTTACCCTTCG
Found at i:18396200 original size:44 final size:43
Alignment explanation
Indices: 18396089--18396217 Score: 122
Period size: 44 Copynumber: 3.0 Consensus size: 43
18396079 TCCAACATGT
* * *
18396089 AATC-CAATATCGATGCCA-CTATCCCAGATAGGGTCTTACACGA
1 AATCTCAA-ATCGATGCCAGC-GTCCCAGACAAGGTCTTACACGA
* * * *
18396132 AATCTTATA-CGATG-CAGATGTCCCAGACATGGTCTTACACGTA
1 AATCTCAAATCGATGCCAG-CGTCCCAGACAAGGTCTTACACG-A
*
18396175 AATCTCAAATCGATGCCAGCGTCCCAAACAAGGTCTTACACGA
1 AATCTCAAATCGATGCCAGCGTCCCAGACAAGGTCTTACACGA
18396218 TATCATATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
41 2 0.03
42 24 0.35
43 14 0.20
44 26 0.38
45 3 0.04
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
AATCTCAAATCGATGCCAGCGTCCCAGACAAGGTCTTACACGA
Found at i:18409891 original size:238 final size:238
Alignment explanation
Indices: 18409473--18409942 Score: 845
Period size: 238 Copynumber: 2.0 Consensus size: 238
18409463 ATGAGCCACT
*
18409473 AAACCCATCTAGCCGAAGGTTGTCAAAAATCCCCAAAAGGGTTATTGAGGCTTAGAATCCGTACT
1 AAACCCATCTAGCCGAAGGTTGTCAAAAATCCCCAAAAGAGTTATTGAGGCTTAGAATCCGTACT
*
18409538 TAGCCTTCTCAACGAGTATTCATCGTTTCTCCGCACTACGGGGCTGACGCTTCCGTCCATGTCTC
66 TAGCCTCCTCAACGAGTATTCATCGTTTCTCCGCACTACGGGGCTGACGCTTCCGTCCATGTCTC
18409603 TAAAGAAGTAAGCTTTTCAACGTATGTAAAGGCGGCCGCTTTGTATGTTTTGGGAAGGTTGCACA
131 TAAAGAAGTAAGCTTTTCAACGTATGTAAAGGCGGCCGCTTTGTATGTTTTGGGAAGGTTGCACA
18409668 GTCAGTTCGTTAGCTTACTGCGTCAGAGGTTGGCGAGGTCACG
196 GTCAGTTCGTTAGCTTACTGCGTCAGAGGTTGGCGAGGTCACG
* *
18409711 AAACCCATCTAGCCGAAGGTTGTCAAAAATCTCCAAAAGAGTTCA-TGAGGCTTAGAATTCGTAC
1 AAACCCATCTAGCCGAAGGTTGTCAAAAATCCCCAAAAGAGTT-ATTGAGGCTTAGAATCCGTAC
* * *
18409775 TTAGCCTCCTC-GCTGAGTATTCATCGTTTCTCTGCATTACGGGGCTGACGCTTCCGTCCATGTC
65 TTAGCCTCCTCAAC-GAGTATTCATCGTTTCTCCGCACTACGGGGCTGACGCTTCCGTCCATGTC
18409839 TCTAAAGAAGTAAGCTTTTCAACGTATGTAAAGGCGGCCGCTTTGTATGTTTTGGGAAGGTTGCA
129 TCTAAAGAAGTAAGCTTTTCAACGTATGTAAAGGCGGCCGCTTTGTATGTTTTGGGAAGGTTGCA
18409904 CAGTCAGTTCGTTAGCTTACTGCGTCAGAGGTTGGCGAG
194 CAGTCAGTTCGTTAGCTTACTGCGTCAGAGGTTGGCGAG
18409943 CCCAAGAGAC
Statistics
Matches: 223, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
237 1 0.00
238 221 0.99
239 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (238 bp):
AAACCCATCTAGCCGAAGGTTGTCAAAAATCCCCAAAAGAGTTATTGAGGCTTAGAATCCGTACT
TAGCCTCCTCAACGAGTATTCATCGTTTCTCCGCACTACGGGGCTGACGCTTCCGTCCATGTCTC
TAAAGAAGTAAGCTTTTCAACGTATGTAAAGGCGGCCGCTTTGTATGTTTTGGGAAGGTTGCACA
GTCAGTTCGTTAGCTTACTGCGTCAGAGGTTGGCGAGGTCACG
Found at i:18410755 original size:45 final size:45
Alignment explanation
Indices: 18410684--18410792 Score: 191
Period size: 45 Copynumber: 2.4 Consensus size: 45
18410674 ATATATATAT
*
18410684 ATTACATAGTTTGTTCCAAGTTTGTTCCAACACATCTCATTTAAA
1 ATTACAAAGTTTGTTCCAAGTTTGTTCCAACACATCTCATTTAAA
**
18410729 ATTGGAAAGTTTGTTCCAAGTTTGTTCCAACACATCTCATTTAAA
1 ATTACAAAGTTTGTTCCAAGTTTGTTCCAACACATCTCATTTAAA
18410774 ATTACAAAGTTTGTTCCAA
1 ATTACAAAGTTTGTTCCAA
18410793 TACATCTCAT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (45 bp):
ATTACAAAGTTTGTTCCAAGTTTGTTCCAACACATCTCATTTAAA
Found at i:18410815 original size:33 final size:34
Alignment explanation
Indices: 18410746--18410821 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
18410736 AGTTTGTTCC
18410746 AAGTTTGTTCCAACACATCTCATTTAAAATTACA
1 AAGTTTGTTCCAACACATCTCATTTAAAATTACA
* *
18410780 AAGTTTGTTCCAATACATCTCATTT-AAATTTCA
1 AAGTTTGTTCCAACACATCTCATTTAAAATTACA
18410813 AAGTTTGTT
1 AAGTTTGTT
18410822 ATTTTTGCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 16 0.40
34 24 0.60
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (34 bp):
AAGTTTGTTCCAACACATCTCATTTAAAATTACA
Found at i:18413280 original size:26 final size:28
Alignment explanation
Indices: 18413251--18413309 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
18413241 TCAAAACACC
*
18413251 TAAATGTAATACAATAA-AT-ATTACAA
1 TAAATATAATACAATAATATCATTACAA
*
18413277 TAAATATAGTACAATAATATCATTACAA
1 TAAATATAATACAATAATATCATTACAA
18413305 -AAATA
1 TAAATA
18413310 CTAAACAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 15 0.52
27 7 0.24
28 7 0.24
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (28 bp):
TAAATATAATACAATAATATCATTACAA
Found at i:18413291 original size:14 final size:12
Alignment explanation
Indices: 18413260--18413309 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
18413250 CTAAATGTAA
18413260 TACAATAAATAT
1 TACAATAAATAT
18413272 TACAATAAATAT
1 TACAATAAATAT
18413284 AGTACAATAATATCAT
1 --TACAATAA-AT-AT
18413300 TACAA-AAATA
1 TACAATAAATA
18413310 CTAAACAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.03
12 14 0.41
13 2 0.06
14 13 0.38
15 2 0.06
16 2 0.06
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (12 bp):
TACAATAAATAT
Found at i:18413784 original size:32 final size:32
Alignment explanation
Indices: 18413748--18413814 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
18413738 ATCCTTTTTG
*
18413748 ATCTTTTTTTAAACCTTAAACAAAACCCTCTA
1 ATCTTTTTTTAAACCCTAAACAAAACCCTCTA
*
18413780 ATCTTTTTTTAAACCCTAAACAAAGCCCTCTA
1 ATCTTTTTTTAAACCCTAAACAAAACCCTCTA
18413812 ATC
1 ATC
18413815 CCTATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.01, T:0.36
Consensus pattern (32 bp):
ATCTTTTTTTAAACCCTAAACAAAACCCTCTA
Found at i:18414263 original size:19 final size:20
Alignment explanation
Indices: 18414221--18414263 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
18414211 TTTAACATAT
* * *
18414221 TTTTTTCGATTTTCCTTTTT
1 TTTTTTCGATTTTACATTTG
18414241 TTTTTTC-ATTTTACATTTG
1 TTTTTTCGATTTTACATTTG
18414260 TTTT
1 TTTT
18414264 GTATTTGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.09, C:0.12, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTTTCGATTTTACATTTG
Found at i:18414263 original size:20 final size:20
Alignment explanation
Indices: 18414220--18414263 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
18414210 CTTTAACATA
* *
18414220 TTTTTTTCGATTTTCCTTTT
1 TTTTTTTCGATTTTCATTTG
18414240 TTTTTTTC-ATTTTACATTTG
1 TTTTTTTCGATTTT-CATTTG
18414260 TTTT
1 TTTT
18414264 GTATTTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.09, C:0.11, G:0.05, T:0.75
Consensus pattern (20 bp):
TTTTTTTCGATTTTCATTTG
Found at i:18422739 original size:22 final size:22
Alignment explanation
Indices: 18422711--18422755 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
18422701 CAAGTAGAAA
18422711 TTCGTAGCTTTGCAGCATTCTT
1 TTCGTAGCTTTGCAGCATTCTT
18422733 TTCGTAGCTTTGCAGCATTCTT
1 TTCGTAGCTTTGCAGCATTCTT
18422755 T
1 T
18422756 CTCATTCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (22 bp):
TTCGTAGCTTTGCAGCATTCTT
Found at i:18436045 original size:15 final size:15
Alignment explanation
Indices: 18436015--18436053 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
18436005 TATGTTAACT
18436015 TAATATATATAAGTTA
1 TAATA-ATATAAGTTA
*
18436031 TAATAATATATGTTA
1 TAATAATATAAGTTA
18436046 TAATAATA
1 TAATAATA
18436054 AAAATTAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
TAATAATATAAGTTA
Found at i:18436867 original size:25 final size:25
Alignment explanation
Indices: 18436819--18436867 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
18436809 CATAACTGAA
* *
18436819 ATGAAATAAATTGATTTTGTATATT
1 ATGAAATAAATTGATTATGAATATT
*
18436844 ATGAAATATATTGATTATGAATAT
1 ATGAAATAAATTGATTATGAATAT
18436868 ATGTGTATCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (25 bp):
ATGAAATAAATTGATTATGAATATT
Found at i:18437312 original size:43 final size:43
Alignment explanation
Indices: 18437264--18437348 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
18437254 ATATGATTGG
18437264 TATTGAAATGGA-AAAGATGAGAAATGAATATGAGATGAGAAAA
1 TATTGAAAT-GACAAAGATGAGAAATGAATATGAGATGAGAAAA
* * *
18437307 TATTGAAATGACAAATATGAGAAATGATTATGAGGTGAGAAA
1 TATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
18437349 TGAGACATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.51, C:0.01, G:0.25, T:0.24
Consensus pattern (43 bp):
TATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAAA
Found at i:18465722 original size:68 final size:68
Alignment explanation
Indices: 18465625--18465824 Score: 226
Period size: 68 Copynumber: 2.9 Consensus size: 68
18465615 TTGGATCTGT
* *
18465625 GAGCTTAGCTCCT-CGAGCTCTTAGAGTATCAGTTGAGAGCGTAGGTCTGCTAGTTTTGTTGGAG
1 GAGCTTAACT-CTACGAGCTCTTAGAGTATCAGTTGAGAGTGTAGGTCTGCTAGTTTTGTTGGAG
18465689 CTAC
65 CTAC
* ** * ** *
18465693 GAGCTTAAGTCTGTGAGCTCTTAGAGTATCAGCT-AGGAGTGTAGGTCCACTAGTTGTGTTGGAG
1 GAGCTTAACTCTACGAGCTCTTAGAGTATCAGTTGA-GAGTGTAGGTCTGCTAGTTTTGTTGGAG
* **
18465757 TTGT
65 CTAC
* *
18465761 GAGCTTAACTCTACGAGCTCTTAGAGTATCAGTTGGGGGTGTAGGTCTGCTAGTTGTT-TTGGAG
1 GAGCTTAACTCTACGAGCTCTTAGAGTATCAGTTGAGAGTGTAGGTCTGCTAGTT-TTGTTGGAG
18465825 GTTGAGATAA
Statistics
Matches: 108, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
67 3 0.03
68 104 0.96
69 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.32, T:0.34
Consensus pattern (68 bp):
GAGCTTAACTCTACGAGCTCTTAGAGTATCAGTTGAGAGTGTAGGTCTGCTAGTTTTGTTGGAGC
TAC
Found at i:18465882 original size:69 final size:69
Alignment explanation
Indices: 18465788--18465962 Score: 208
Period size: 69 Copynumber: 2.5 Consensus size: 69
18465778 CTCTTAGAGT
* * * * ** *
18465788 ATCAGTTGGGGGTGTAGGTCTGCTAGTTGTTTTGGAGGTTG-AGATAATAAATTGGAAAACCTTT
1 ATCAGCTGGGAGTGTAGGTCCGCTAGCTGTTTTGGAGGTTGTA-ATAATAAACCGAAAAACCTTT
18465852 GTAAC
65 GTAAC
* * *
18465857 ATTAGCTGGGAGTGTAGGTCCGCTAGCTGTTTTGGAGTTTGTAATCATAAACCGAAAAACCTTTG
1 ATCAGCTGGGAGTGTAGGTCCGCTAGCTGTTTTGGAGGTTGTAATAATAAACCGAAAAACCTTTG
18465922 TAAC
66 TAAC
** * *
18465926 ATCATTTGGGAGTGTAGGTCCGCTAGCCGTGTTGGAG
1 ATCAGCTGGGAGTGTAGGTCCGCTAGCTGTTTTGGAG
18465963 TTGCAAGCTT
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
69 89 0.99
70 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.33
Consensus pattern (69 bp):
ATCAGCTGGGAGTGTAGGTCCGCTAGCTGTTTTGGAGGTTGTAATAATAAACCGAAAAACCTTTG
TAAC
Found at i:18479424 original size:50 final size:50
Alignment explanation
Indices: 18479288--18479477 Score: 173
Period size: 50 Copynumber: 3.7 Consensus size: 50
18479278 CCTATATTGT
* * * ** * *
18479288 CAATTCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCGGTGC
* * * ** *
18479338 CCATGCCATGTCCTAGACATAGTCTTACGGGGGACCTCTTATCTCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCGGTGC
* * *
18479388 CAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCACAATCTCAATGATGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT---AATCTC---GGTGC
*
18479444 CAATGCCATGTCCTAGACATGGTCTTACATGGGA
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGA
18479478 TCTATTTACC
Statistics
Matches: 110, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
50 70 0.64
53 5 0.05
56 35 0.32
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCGGTGC
Found at i:18481779 original size:21 final size:22
Alignment explanation
Indices: 18481741--18481781 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
18481731 ATCGACTTCC
*
18481741 GACCGAATTAGATCAATTAACT
1 GACCGAATTAAATCAATTAACT
*
18481763 GACCG-ATTAAATGAATTAA
1 GACCGAATTAAATCAATTAA
18481782 ATTAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (22 bp):
GACCGAATTAAATCAATTAACT
Found at i:18487928 original size:33 final size:33
Alignment explanation
Indices: 18487883--18487970 Score: 113
Period size: 33 Copynumber: 2.7 Consensus size: 33
18487873 GAGCCTTTAG
* *
18487883 CTTCACCTTCTATACCTGTTACCTCTATATCTC
1 CTTCACCTTCTATACCTGTTACCCCTATATCAC
* * *
18487916 CTTCACCCTCTATACCGGTTACCCCTATTTCAC
1 CTTCACCTTCTATACCTGTTACCCCTATATCAC
* *
18487949 CTTCATCTTCTATACATGTTAC
1 CTTCACCTTCTATACCTGTTAC
18487971 TCCTTCTTCA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.19, C:0.36, G:0.05, T:0.40
Consensus pattern (33 bp):
CTTCACCTTCTATACCTGTTACCCCTATATCAC
Found at i:18497689 original size:21 final size:21
Alignment explanation
Indices: 18497663--18497730 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
18497653 GGCATTGTAC
*
18497663 TGATACTTGTTCATGAGGTAT
1 TGATACATGTTCATGAGGTAT
*
18497684 TGATACATGCTC-TAGAGGTAT
1 TGATACATGTTCAT-GAGGTAT
*
18497705 TAATACATGCTTCA--AGGTAT
1 TGATACATG-TTCATGAGGTAT
18497725 TGATAC
1 TGATAC
18497731 CTAGGTCTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 12 0.31
21 25 0.64
22 2 0.05
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (21 bp):
TGATACATGTTCATGAGGTAT
Found at i:18497724 original size:20 final size:21
Alignment explanation
Indices: 18497677--18497730 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
18497667 ACTTGTTCAT
18497677 GAGGTATTGATACATGCTCTA
1 GAGGTATTGATACATGCTCTA
*
18497698 GAGGTATTAATACATGCT-TCA
1 GAGGTATTGATACATGCTCT-A
18497719 -AGGTATTGATAC
1 GAGGTATTGATAC
18497731 CTAGGTCTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.33
Consensus pattern (21 bp):
GAGGTATTGATACATGCTCTA
Found at i:18499722 original size:39 final size:39
Alignment explanation
Indices: 18499605--18499745 Score: 201
Period size: 39 Copynumber: 3.6 Consensus size: 39
18499595 AACATGTCTT
* *
18499605 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTAATTATA
** * *
18499644 CAAGTGTTGTGATATATGCTTGAATGTTATGTAATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTAATTATA
18499683 TGAGTATTGTGATATATGCTTAAATGTTATGTAATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTAATTATA
* * *
18499722 TGTGTAATGTGACATATGCTTAAA
1 TGAGTATTGTGATATATGCTTAAA
18499746 AGTGAATATG
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 91 1.00
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTAATTATA
Found at i:18502729 original size:21 final size:21
Alignment explanation
Indices: 18502703--18502750 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
18502693 ACAAGTGCTT
18502703 ATTAAATTGAATAAAAATTAA
1 ATTAAATTGAATAAAAATTAA
* * *
18502724 ATTAAATTTAATTACAATTAA
1 ATTAAATTGAATAAAAATTAA
18502745 AGTTAA
1 A-TTAA
18502751 TAAAATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
ATTAAATTGAATAAAAATTAA
Found at i:18502742 original size:16 final size:15
Alignment explanation
Indices: 18502718--18502756 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
18502708 ATTGAATAAA
*
18502718 AATTAAATTAAATTT
1 AATTAAATTAAAGTT
18502733 AATTACAATTAAAGTT
1 AATTA-AATTAAAGTT
*
18502749 AATAAAAT
1 AATTAAAT
18502757 AATATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (15 bp):
AATTAAATTAAAGTT
Found at i:18504285 original size:17 final size:17
Alignment explanation
Indices: 18504258--18504292 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18504248 TATTCATTTC
18504258 TCAAGTCACAT-TTCAT
1 TCAAGTCACATCTTCAT
18504274 TCAAGCTCACATCTTCAT
1 TCAAG-TCACATCTTCAT
18504292 T
1 T
18504293 TACCATTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 6 0.35
18 6 0.35
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.37
Consensus pattern (17 bp):
TCAAGTCACATCTTCAT
Found at i:18509455 original size:15 final size:17
Alignment explanation
Indices: 18509424--18509456 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
18509414 TTCTTTCATA
18509424 TTTTATTATTGATTTAT
1 TTTTATTATTGATTTAT
18509441 TTTTA-TATT-ATTTAT
1 TTTTATTATTGATTTAT
18509456 T
1 T
18509457 ATAAAATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTATTATTGATTTAT
Found at i:18509498 original size:22 final size:22
Alignment explanation
Indices: 18509446--18509490 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
18509436 TTTATTTTTA
18509446 TATTATTTATTATAAAATTTCT
1 TATTATTTATTATAAAATTTCT
18509468 TATTATTTATTATAAAATTTCT
1 TATTATTTATTATAAAATTTCT
18509490 T
1 T
18509491 TCTTTTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTATTTATTATAAAATTTCT
Found at i:18512523 original size:13 final size:13
Alignment explanation
Indices: 18512505--18512529 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18512495 CCCTTATTAG
18512505 TAATTAAAAATTT
1 TAATTAAAAATTT
18512518 TAATTAAAAATT
1 TAATTAAAAATT
18512530 GTCCATAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATTAAAAATTT
Found at i:18514705 original size:24 final size:25
Alignment explanation
Indices: 18514666--18514734 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 25
18514656 CTTACCGCTA
* *
18514666 ATCAGCTCG-AAGGAGCTTATCGATT
1 ATCAGCTCGTAA-GAGCATACCGATT
18514691 A-CAGCTCGTAAGAGCATACCGATT
1 ATCAGCTCGTAAGAGCATACCGATT
* *
18514715 ATGAGCTCGTATGAGCATAC
1 ATCAGCTCGTAAGAGCATAC
18514735 ATGTATAGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 19 0.50
25 19 0.50
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (25 bp):
ATCAGCTCGTAAGAGCATACCGATT
Found at i:18524013 original size:19 final size:20
Alignment explanation
Indices: 18523971--18524013 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
18523961 TAAAGTATCG
*
18523971 TACTTTACATCAGGGTATCAA
1 TACTTTACA-CAGGGTACCAA
*
18523992 TACTTTACA-AGGGTACCGA
1 TACTTTACACAGGGTACCAA
18524011 TAC
1 TAC
18524014 ATTTTTATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
21 9 0.45
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (20 bp):
TACTTTACACAGGGTACCAA
Found at i:18526095 original size:27 final size:28
Alignment explanation
Indices: 18526051--18526105 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
18526041 ATTGCAGCTC
*
18526051 TCATGAGCATCCCGATTAA-AGGCTCTT
1 TCATGAGCATCCCAATTAATAGGCTCTT
* * *
18526078 TCATGAGCTTTCCAATTAATTGGCTCTT
1 TCATGAGCATCCCAATTAATAGGCTCTT
18526106 CGAAGGTTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (28 bp):
TCATGAGCATCCCAATTAATAGGCTCTT
Found at i:18526174 original size:24 final size:24
Alignment explanation
Indices: 18526147--18526217 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
18526137 TTCCCAATAT
18526147 TGGCTAGTATGAGCTTCCCGTTA-A
1 TGGCTA-TATGAGCTTCCCGTTACA
* *
18526171 TGGCTCT-TCGGAGCTTCTCGTTACA
1 TGGCTATAT--GAGCTTCCCGTTACA
18526196 TGGCTCATATGAGCTTCCCGTT
1 TGGCT-ATATGAGCTTCCCGTT
18526218 TATGTGTCCG
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
22 1 0.03
23 1 0.03
24 17 0.45
25 17 0.45
26 1 0.03
27 1 0.03
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.35
Consensus pattern (24 bp):
TGGCTATATGAGCTTCCCGTTACA
Found at i:18526209 original size:25 final size:24
Alignment explanation
Indices: 18526154--18526217 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
18526144 TATTGGCTAG
*
18526154 TATGAGCTTCCCGTTAATGGCTCT
1 TATGAGCTTCCCGTTAATGGCTCA
** *
18526178 TCGGAGCTTCTCGTTACATGGCTCA
1 TATGAGCTTCCCGTTA-ATGGCTCA
18526203 TATGAGCTTCCCGTT
1 TATGAGCTTCCCGTT
18526218 TATGTGTCCG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 13 0.41
25 19 0.59
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.36
Consensus pattern (24 bp):
TATGAGCTTCCCGTTAATGGCTCA
Found at i:18526881 original size:18 final size:18
Alignment explanation
Indices: 18526858--18526895 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
18526848 TTTAATAAGT
18526858 ATATGTATG-TGTGTCTTA
1 ATATGTATGTTGTGT-TTA
*
18526876 ATATGTTTGTTGTGTTTA
1 ATATGTATGTTGTGTTTA
18526894 AT
1 AT
18526896 GTGGTTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.21, C:0.03, G:0.21, T:0.55
Consensus pattern (18 bp):
ATATGTATGTTGTGTTTA
Found at i:18527264 original size:9 final size:9
Alignment explanation
Indices: 18527235--18527271 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
18527225 TGAGTTTTTG
18527235 AATTCGAAT
1 AATTCGAAT
*
18527244 AACTCGAAT
1 AATTCGAAT
18527253 AATTCGAAT
1 AATTCGAAT
*
18527262 AATTTGAAT
1 AATTCGAAT
18527271 A
1 A
18527272 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:18536976 original size:40 final size:41
Alignment explanation
Indices: 18536921--18537002 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
18536911 AAAGTAAAGA
18536921 AGAACTTATATTCTTTA-TTTTTTTATTACCTTCCTCGCGT
1 AGAACTTATATTCTTTATTTTTTTTATTACCTTCCTCGCGT
18536961 AGAACTTATATTCTTTATTTTTTTTATTACCTTCCTCGCGT
1 AGAACTTATATTCTTTATTTTTTTTATTACCTTCCTCGCGT
18537002 A
1 A
18537003 TGTATAAGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 17 0.41
41 24 0.59
ACGTcount: A:0.21, C:0.20, G:0.07, T:0.52
Consensus pattern (41 bp):
AGAACTTATATTCTTTATTTTTTTTATTACCTTCCTCGCGT
Found at i:18538564 original size:57 final size:57
Alignment explanation
Indices: 18538500--18538632 Score: 185
Period size: 57 Copynumber: 2.3 Consensus size: 57
18538490 ATATTTCTAC
** *
18538500 ATTTATGTTGTCTTAATGTAATTTATAGTTGCTGTCAAAATGTCTATTAATATGCAT
1 ATTTATGTTGTCCAAATGTAATTTATAGTTGCTGTCAAAATGTCTATTAATACGCAT
* * * * *
18538557 ATTTATGTTGTCCAAATGTAATTTATAGTTGTTGTCATAATGTCTCTTAATGCGTAT
1 ATTTATGTTGTCCAAATGTAATTTATAGTTGCTGTCAAAATGTCTATTAATACGCAT
*
18538614 ATTTATGTTGTCAAAATGT
1 ATTTATGTTGTCCAAATGT
18538633 GAATAATGGC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 67 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (57 bp):
ATTTATGTTGTCCAAATGTAATTTATAGTTGCTGTCAAAATGTCTATTAATACGCAT
Found at i:18543760 original size:21 final size:21
Alignment explanation
Indices: 18543683--18543749 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
18543673 GTGTCTCCTC
*
18543683 CACACGGGCGTGTGCTTCTTG
1 CACACAGGCGTGTGCTTCTTG
*
18543704 TACACAGGCGTGTGCTTCTTG
1 CACACAGGCGTGTGCTTCTTG
18543725 CACACAGGCGTGTGCTTCTTG
1 CACACAGGCGTGTGCTTCTTG
18543746 CACA
1 CACA
18543750 TGGGTGTGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.28
Consensus pattern (21 bp):
CACACAGGCGTGTGCTTCTTG
Found at i:18546466 original size:14 final size:14
Alignment explanation
Indices: 18546386--18546496 Score: 60
Period size: 14 Copynumber: 8.2 Consensus size: 14
18546376 ATCGGGTGAA
18546386 AAAAATGATATATG
1 AAAAATGATATATG
*
18546400 --AAATGGTTATATG
1 AAAAAT-GATATATG
*
18546413 -AAAATAAATATATG
1 AAAAAT-GATATATG
18546427 --AAATGAT-TAT-
1 AAAAATGATATATG
**
18546437 ACGAATCGATTATATG
1 AAAAAT-GA-TATATG
*
18546453 AAAAATAATATATG
1 AAAAATGATATATG
*
18546467 --AAATGGTTATATG
1 AAAAAT-GATATATG
18546480 AAAAATGATATATG
1 AAAAATGATATATG
18546494 AAA
1 AAA
18546497 TGGTTATATG
Statistics
Matches: 74, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
11 3 0.04
12 13 0.18
13 19 0.26
14 27 0.36
15 8 0.11
16 4 0.05
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.32
Consensus pattern (14 bp):
AAAAATGATATATG
Found at i:18546476 original size:27 final size:27
Alignment explanation
Indices: 18546446--18546508 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
18546436 TACGAATCGA
18546446 TTATATGAAAAATAATATATGAAATGG
1 TTATATGAAAAATAATATATGAAATGG
*
18546473 TTATATGAAAAATGATATATGAAATGG
1 TTATATGAAAAATAATATATGAAATGG
18546500 TTATATGAA
1 TTATATGAA
18546509 TCGGTTATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.35
Consensus pattern (27 bp):
TTATATGAAAAATAATATATGAAATGG
Found at i:18546494 original size:67 final size:67
Alignment explanation
Indices: 18546386--18546536 Score: 209
Period size: 67 Copynumber: 2.3 Consensus size: 67
18546376 ATCGGGTGAA
*
18546386 AAAAATGATATATGAAATGGTTATATGAAAATAAATATATGAAATGATTATACGAATCGATTATA
1 AAAAATAATATATGAAATGGTTATATGAAAATAAATATATGAAATGATTATACGAATCGATTATA
18546451 TG
66 TG
* * * *
18546453 AAAAATAATATATGAAATGGTTATATGAAAA-ATGATATATGAAATGGTTATATGAATCGGTTAT
1 AAAAATAATATATGAAATGGTTATATGAAAATA-AATATATGAAATGATTATACGAATCGATTAT
18546517 ATG
65 ATG
*
18546520 -GAAATAGAT-TATGAAAT
1 AAAAATA-ATATATGAAAT
18546537 AGAACATTGG
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
66 14 0.18
67 62 0.82
ACGTcount: A:0.48, C:0.02, G:0.17, T:0.33
Consensus pattern (67 bp):
AAAAATAATATATGAAATGGTTATATGAAAATAAATATATGAAATGATTATACGAATCGATTATA
TG
Found at i:18546505 original size:40 final size:39
Alignment explanation
Indices: 18546461--18546536 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
18546451 TGAAAAATAA
18546461 TATATGAAAT-GGTTATATGAAAA-ATGATATATGAAATGGT
1 TATATG-AATCGGTTATATGAAAATA-GAT-TATGAAATGGT
*
18546501 TATATGAATCGGTTATATGGAAATAGATTATGAAAT
1 TATATGAATCGGTTATATGAAAATAGATTATGAAAT
18546537 AGAACATTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
39 11 0.33
40 21 0.64
41 1 0.03
ACGTcount: A:0.43, C:0.01, G:0.20, T:0.36
Consensus pattern (39 bp):
TATATGAATCGGTTATATGAAAATAGATTATGAAATGGT
Found at i:18553437 original size:6 final size:6
Alignment explanation
Indices: 18553426--18553460 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
18553416 ATGACAAAGA
18553426 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGG
1 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGG
18553461 AAGACAAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
AGAGGG
Found at i:18554683 original size:24 final size:24
Alignment explanation
Indices: 18554633--18554684 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
18554623 TTTCTAGAAG
* * * *
18554633 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTGATTAGCACAATAT
*
18554657 ATTTAGCATTGATTAGCACAATTT
1 ATTTAGCATTGATTAGCACAATAT
18554681 ATTT
1 ATTT
18554685 GACCTACGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTGATTAGCACAATAT
Found at i:18556474 original size:13 final size:15
Alignment explanation
Indices: 18556445--18556477 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
18556435 ATGTGGAGAA
18556445 ATAAATATTTGATAT
1 ATAAATATTTGATAT
18556460 ATAAATA-TT-ATAT
1 ATAAATATTTGATAT
18556473 ATAAA
1 ATAAA
18556478 GAAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 2 0.11
15 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAATATTTGATAT
Found at i:18556797 original size:22 final size:22
Alignment explanation
Indices: 18556772--18556817 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
18556762 TTATTTAGCC
18556772 CTCATGGTCACATTTCTTTTTA
1 CTCATGGTCACATTTCTTTTTA
18556794 CTCATGGTCACATTTCTTTTTA
1 CTCATGGTCACATTTCTTTTTA
18556816 CT
1 CT
18556818 AGTATGTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.24, G:0.09, T:0.50
Consensus pattern (22 bp):
CTCATGGTCACATTTCTTTTTA
Found at i:18561458 original size:18 final size:19
Alignment explanation
Indices: 18561428--18561464 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
18561418 CACGAGCATA
18561428 TGTATCACAACA-TTCATT
1 TGTATCACAACATTTCATT
18561446 TGTAT-ACATACATTTCATT
1 TGTATCACA-ACATTTCATT
18561465 CAATGTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 8 0.47
19 6 0.35
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.43
Consensus pattern (19 bp):
TGTATCACAACATTTCATT
Found at i:18573577 original size:27 final size:27
Alignment explanation
Indices: 18573547--18573730 Score: 206
Period size: 27 Copynumber: 6.8 Consensus size: 27
18573537 GTATAATAAT
* *
18573547 CGTAATACCCTTATCGGGTAAAATGAC
1 CGTAATGCCCTTATAGGGTAAAATGAC
* *
18573574 CGTAATGCCCTTGTAGGGTAAAATAAC
1 CGTAATGCCCTTATAGGGTAAAATGAC
* * *
18573601 TGTGATGCCCTTGTAGGGTAAAATGAC
1 CGTAATGCCCTTATAGGGTAAAATGAC
* **
18573628 CGTAATACCCCCATAGGGTAAAATGAC
1 CGTAATGCCCTTATAGGGTAAAATGAC
* * * *
18573655 CATAATGCCATCATAGGGTAAAATGAT
1 CGTAATGCCCTTATAGGGTAAAATGAC
* *
18573682 CGTAATGCCCCTGTAGGGTAAAATGAC
1 CGTAATGCCCTTATAGGGTAAAATGAC
* *
18573709 CGTAATGCCCCTAGAGGGTAAA
1 CGTAATGCCCTTATAGGGTAAA
18573731 TGATTATTTT
Statistics
Matches: 131, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (27 bp):
CGTAATGCCCTTATAGGGTAAAATGAC
Found at i:18573690 original size:81 final size:81
Alignment explanation
Indices: 18573547--18573730 Score: 244
Period size: 81 Copynumber: 2.3 Consensus size: 81
18573537 GTATAATAAT
* * * * ** * *
18573547 CGTAATACCCTTATCGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATAACTGTGATGCCCT
1 CGTAATACCCCTATAGGGTAAAATGACCATAATGCCATCATAGGGTAAAATAACTGTAATGCCCC
18573612 TGTAGGGTAAAATGAC
66 TGTAGGGTAAAATGAC
* *
18573628 CGTAATACCCCCATAGGGTAAAATGACCATAATGCCATCATAGGGTAAAATGA-TCGTAATGCCC
1 CGTAATACCCCTATAGGGTAAAATGACCATAATGCCATCATAGGGTAAAATAACT-GTAATGCCC
18573692 CTGTAGGGTAAAATGAC
65 CTGTAGGGTAAAATGAC
* *
18573709 CGTAATGCCCCTAGAGGGTAAA
1 CGTAATACCCCTATAGGGTAAA
18573731 TGATTATTTT
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 88 0.99
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (81 bp):
CGTAATACCCCTATAGGGTAAAATGACCATAATGCCATCATAGGGTAAAATAACTGTAATGCCCC
TGTAGGGTAAAATGAC
Found at i:18573743 original size:26 final size:27
Alignment explanation
Indices: 18573714--18573766 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
18573704 ATGACCGTAA
18573714 TGCCCCTAGAGGGTAAATGATT-ATTT
1 TGCCCCTAGAGGGTAAATGATTGATTT
* **
18573740 TGCCCCTCGATTGTAAATGATTGATTT
1 TGCCCCTAGAGGGTAAATGATTGATTT
18573767 GTCCGTGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (27 bp):
TGCCCCTAGAGGGTAAATGATTGATTT
Found at i:18573767 original size:26 final size:24
Alignment explanation
Indices: 18573726--18573791 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 24
18573716 CCCCTAGAGG
18573726 GTAAATGATT-ATTTTGCCCCTCGATT
1 GTAAATGATTGA-TTTGCCCCT-GA-T
* *
18573752 GTAAATGATTGATTTGTCCGTGAT
1 GTAAATGATTGATTTGCCCCTGAT
*
18573776 GTAAATGACTGATTTG
1 GTAAATGATTGATTTG
18573792 TTTGTGATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 16 0.44
25 2 0.06
26 17 0.47
27 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (24 bp):
GTAAATGATTGATTTGCCCCTGAT
Found at i:18576730 original size:23 final size:22
Alignment explanation
Indices: 18576704--18576757 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
18576694 ATCTCTTAGA
*
18576704 GGATACATCAACATTTCCTTATG
1 GGATACATC-ACATTTCCTTAAG
*
18576727 GGATACAATCTCATTTCCTTAAG
1 GGATAC-ATCACATTTCCTTAAG
18576750 GGATACAT
1 GGATACAT
18576758 TTTTCACGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 23 0.82
24 3 0.11
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (22 bp):
GGATACATCACATTTCCTTAAG
Found at i:18576853 original size:23 final size:23
Alignment explanation
Indices: 18576827--18576905 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
18576817 ATTCCCTTGG
*
18576827 GGGATACATTCTCATTCATTTAA
1 GGGATACATTCTCACTCATTTAA
* * *
18576850 GGGATCCATTCTCACTCCTTTAT
1 GGGATACATTCTCACTCATTTAA
* * * *
18576873 GGTACACATTCTCACAC-TCTCAA
1 GGGATACATTCTCACTCAT-TTAA
18576896 GGGATACATT
1 GGGATACATT
18576906 ATCTTTCCCT
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
22 1 0.02
23 42 0.98
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (23 bp):
GGGATACATTCTCACTCATTTAA
Found at i:18581128 original size:101 final size:101
Alignment explanation
Indices: 18581003--18581187 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
18580993 AAAGTGATGG
* *
18581003 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAA-GTCGCATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCAACTACGTGTACCGG-ATGATAAGGTCACATGTGTAGTA
18581067 CTATGTGCAGGCTACTATGCGTACCGAATAGTTTCGA
65 CTATGTGCAGGCTACTATGCGTACCGAATAGTTTCGA
* * *
18581104 TCACGTGTGTAGTACTATGTGCAGGCAACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCAACTACGTGTACCGGATGATAA-GGTCACATGTGTAGTA
18581169 CTATGTGCAGGCTACTATG
65 CTATGTGCAGGCTACTATG
18581188 TGAACCGGAC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 6 0.08
101 38 0.49
102 33 0.43
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACATGTGTAGTACTATGTGCAGGCAACTACGTGTACCGGATGATAAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGAATAGTTTCGA
Found at i:18581164 original size:51 final size:51
Alignment explanation
Indices: 18580999--18581196 Score: 240
Period size: 51 Copynumber: 3.9 Consensus size: 51
18580989 AGTGAAAGTG
*
18580999 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGGTA
* * * * *
18581051 A--GTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGT-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGTA
* * * * *
18581099 TTCGATCACGTGTGTAGTACTATGTGCAGGCAACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGTA
* *
18581151 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGGA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA
18581197 CATCGTTGAT
Statistics
Matches: 119, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
49 3 0.03
50 38 0.32
51 76 0.64
52 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGTA
Found at i:18588389 original size:8 final size:8
Alignment explanation
Indices: 18588378--18588492 Score: 115
Period size: 8 Copynumber: 13.8 Consensus size: 8
18588368 TTTTTAATTC
18588378 TTTATTAT
1 TTTATTAT
*
18588386 TTTATCAT
1 TTTATTAT
18588394 TTTATTAT
1 TTTATTAT
18588402 TTTATTAT
1 TTTATTAT
*
18588410 TTTAATAT
1 TTTATTAT
18588418 TTTATTAT
1 TTTATTAT
18588426 TTTATTAT
1 TTTATTAT
* *
18588434 TTTCTTTAA
1 TTT-ATTAT
18588443 TTTATT-T
1 TTTATTAT
18588450 ATTTATTTAT
1 -TTTA-TTAT
*
18588460 TTTCTTAT
1 TTTATTAT
*
18588468 TCTACTTATT
1 TTTA-TTA-T
18588478 TTTATTTAT
1 TTTA-TTAT
18588487 TTTATT
1 TTTATT
18588493 TATTCCATTT
Statistics
Matches: 88, Mismatches: 13, Indels: 12
0.78 0.12 0.11
Matches are distributed among these distances:
8 61 0.69
9 19 0.22
10 8 0.09
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (8 bp):
TTTATTAT
Found at i:18588451 original size:4 final size:4
Alignment explanation
Indices: 18588442--18588496 Score: 53
Period size: 4 Copynumber: 13.8 Consensus size: 4
18588432 ATTTTCTTTA
*
18588442 ATTT ATTT ATTT ATTT ATTT -TCTT ATTCT ACTT A-TT -TTT ATTT ATTTT
1 ATTT ATTT ATTT ATTT ATTT AT-TT ATT-T ATTT ATTT ATTT ATTT A-TTT
18588490 ATTT ATT
1 ATTT ATT
18588497 CCATTTAGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
3 5 0.11
4 31 0.70
5 8 0.18
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:18588725 original size:6 final size:6
Alignment explanation
Indices: 18588716--18588773 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
18588706 GATTTTATTT
* * * * *
18588716 TTTTTC TTTTTA GTTTTA TTTTTC TTTTTA -TTTTA TGTTTA TGTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
18588763 TTTTTA TTTTT
1 TTTTTA TTTTT
18588774 TTTAGTTGTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
5 5 0.11
6 39 0.89
ACGTcount: A:0.12, C:0.03, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:18588739 original size:18 final size:17
Alignment explanation
Indices: 18588708--18588773 Score: 73
Period size: 18 Copynumber: 3.9 Consensus size: 17
18588698 GGATCATTGA
18588708 TTTTA-TTT-TTTTTCT
1 TTTTATTTTATTTTTCT
18588723 TTTTAGTTTTATTTTTCT
1 TTTTA-TTTTATTTTTCT
* *
18588741 TTTTATTTTATGTTTAT
1 TTTTATTTTATTTTTCT
*
18588758 GTTTATTTTTATTTTT
1 TTTTA-TTTTATTTTT
18588774 TTTAGTTGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
15 5 0.12
17 17 0.40
18 21 0.49
ACGTcount: A:0.12, C:0.03, G:0.05, T:0.80
Consensus pattern (17 bp):
TTTTATTTTATTTTTCT
Found at i:18588749 original size:23 final size:21
Alignment explanation
Indices: 18588707--18588796 Score: 76
Period size: 23 Copynumber: 4.0 Consensus size: 21
18588697 AGGATCATTG
*
18588707 ATTTTATTTTTTTTCT-TTTT
1 ATTTTATTTTTTTTTTATTTT
18588727 AGTTTTATTTTTCTTTTTATTTT
1 A-TTTTATTTTT-TTTTTATTTT
*
18588750 ATGTTTATGTTTATTTTTATTTT
1 AT-TTTAT-TTTTTTTTTATTTT
18588773 -TTTTAGTTGTTTAATTTTTATTTT
1 ATTTTA-TT-TTT--TTTTTATTTT
18588797 CTTAGACTTC
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
20 1 0.02
21 15 0.26
22 9 0.16
23 20 0.34
24 13 0.22
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.78
Consensus pattern (21 bp):
ATTTTATTTTTTTTTTATTTT
Found at i:18588783 original size:29 final size:27
Alignment explanation
Indices: 18588708--18588796 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 27
18588698 GGATCATTGA
18588708 TTTTATTTTTTTTCTT-TTTA-GTTTTAT
1 TTTTATTTTTTTT-TTGTTTATG-TTTAT
*
18588735 TTTTCTTTTTATTTTATGTTTATGTTTAT
1 TTTTATTTTT-TTTT-TGTTTATGTTTAT
*
18588764 TTTTATTTTTTTTAGTTGTTTAATTTTTAT
1 TTTTATTTTTTTT--TTGTTT-ATGTTTAT
18588794 TTT
1 TTT
18588797 CTTAGACTTC
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
27 10 0.19
28 7 0.13
29 23 0.44
30 12 0.23
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.79
Consensus pattern (27 bp):
TTTTATTTTTTTTTTGTTTATGTTTAT
Found at i:18588801 original size:23 final size:23
Alignment explanation
Indices: 18588757--18588801 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18588747 TTTATGTTTA
*
18588757 TGTTTATTTTTATTTTTTTTAGT
1 TGTTTATTTTTATTTTTCTTAGT
18588780 TGTTTAATTTTTA-TTTTCTTAG
1 TGTTT-ATTTTTATTTTTCTTAG
18588802 ACTTCTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (23 bp):
TGTTTATTTTTATTTTTCTTAGT
Found at i:18591691 original size:16 final size:16
Alignment explanation
Indices: 18591670--18591728 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
18591660 GTATCTCCTG
18591670 ACTAGCTCACCACTCT
1 ACTAGCTCACCACTCT
*
18591686 ACTAGCTCCCCACTCT
1 ACTAGCTCACCACTCT
* **
18591702 GCTAGCTCGTCACTCT
1 ACTAGCTCACCACTCT
18591718 ACTAGCTCACC
1 ACTAGCTCACC
18591729 TCCTCGCTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.20, C:0.44, G:0.10, T:0.25
Consensus pattern (16 bp):
ACTAGCTCACCACTCT
Found at i:18591716 original size:32 final size:32
Alignment explanation
Indices: 18591671--18591743 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
18591661 TATCTCCTGA
18591671 CTAGCTCACCACTCTACTAGCTC-CC-CACTCTG
1 CTAGCTCACCACTCTACTAGCTCACCTC-CTC-G
**
18591703 CTAGCTCGTCACTCTACTAGCTCACCTCCTCG
1 CTAGCTCACCACTCTACTAGCTCACCTCCTCG
18591735 CTAGCTCAC
1 CTAGCTCAC
18591744 TACCTCATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
32 29 0.83
33 5 0.14
34 1 0.03
ACGTcount: A:0.18, C:0.45, G:0.11, T:0.26
Consensus pattern (32 bp):
CTAGCTCACCACTCTACTAGCTCACCTCCTCG
Found at i:18591802 original size:33 final size:33
Alignment explanation
Indices: 18591765--18591835 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
18591755 ATCTTAGCAG
* *
18591765 GGGTAACTCTAAGGATTCATGTTAAGCCTAAGA
1 GGGTAACTCTAAGAATACATGTTAAGCCTAAGA
* *
18591798 GGGTAACTCTAAGAATACGTGTTGAGCCTAAGA
1 GGGTAACTCTAAGAATACATGTTAAGCCTAAGA
18591831 GGGTA
1 GGGTA
18591836 TGCATGATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.25
Consensus pattern (33 bp):
GGGTAACTCTAAGAATACATGTTAAGCCTAAGA
Found at i:18598450 original size:17 final size:17
Alignment explanation
Indices: 18598416--18598453 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
18598406 CTGAGTTTTA
*
18598416 TTATTTTTTAATACTTT
1 TTATTTTTTAATAATTT
18598433 TTATTGTTTTAA-AATTT
1 TTATT-TTTTAATAATTT
18598450 TTAT
1 TTAT
18598454 AATTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TTATTTTTTAATAATTT
Found at i:18643017 original size:12 final size:12
Alignment explanation
Indices: 18643000--18643027 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
18642990 ATTTTAATAT
18643000 AATAAAATAAGA
1 AATAAAATAAGA
18643012 AATAAAATAAGA
1 AATAAAATAAGA
18643024 AATA
1 AATA
18643028 GAGCCAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (12 bp):
AATAAAATAAGA
Found at i:18646578 original size:20 final size:20
Alignment explanation
Indices: 18646555--18646595 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18646545 CTATTCAAAC
* *
18646555 AATATTACTTGAATAATTAT
1 AATATTACATGAATAAATAT
*
18646575 AATATTAGATGAATAAATAT
1 AATATTACATGAATAAATAT
18646595 A
1 A
18646596 TGCCTTTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.39
Consensus pattern (20 bp):
AATATTACATGAATAAATAT
Found at i:18652687 original size:21 final size:21
Alignment explanation
Indices: 18652661--18652725 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
18652651 GTATATCTAT
18652661 ATATATGCATTATGCTTGTAC
1 ATATATGCATTATGCTTGTAC
** **
18652682 ATATAT-TTTTATAATT-T--
1 ATATATGCATTATGCTTGTAC
*
18652699 ATTTATGCATTATGCTTGTAC
1 ATATATGCATTATGCTTGTAC
18652720 ATATAT
1 ATATAT
18652726 TTTTATAATT
Statistics
Matches: 30, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
17 5 0.17
18 6 0.20
19 2 0.07
20 6 0.20
21 11 0.37
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (21 bp):
ATATATGCATTATGCTTGTAC
Found at i:18652707 original size:38 final size:38
Alignment explanation
Indices: 18652664--18652746 Score: 166
Period size: 38 Copynumber: 2.2 Consensus size: 38
18652654 TATCTATATA
18652664 TATGCATTATGCTTGTACATATATTTTTATAATTTATT
1 TATGCATTATGCTTGTACATATATTTTTATAATTTATT
18652702 TATGCATTATGCTTGTACATATATTTTTATAATTTATT
1 TATGCATTATGCTTGTACATATATTTTTATAATTTATT
18652740 TATGCAT
1 TATGCAT
18652747 ACATACAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.54
Consensus pattern (38 bp):
TATGCATTATGCTTGTACATATATTTTTATAATTTATT
Found at i:18657042 original size:13 final size:15
Alignment explanation
Indices: 18657023--18657059 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
18657013 ATTTTATTTC
18657023 AATAATA-AATTTTA
1 AATAATATAATTTTA
18657037 AA-AATAATAATTTTA
1 AATAAT-ATAATTTTA
18657052 AATAATAT
1 AATAATAT
18657060 TCTTCGCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
13 3 0.15
14 3 0.15
15 11 0.55
16 3 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATAATATAATTTTA
Found at i:18657044 original size:16 final size:16
Alignment explanation
Indices: 18657023--18657058 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
18657013 ATTTTATTTC
18657023 AATAATAAATTTTAAA-
1 AATAAT-AATTTTAAAT
18657039 AATAATAATTTTAAAT
1 AATAATAATTTTAAAT
18657055 AATA
1 AATA
18657059 TTCTTCGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAATTTTAAAT
Found at i:18667073 original size:201 final size:201
Alignment explanation
Indices: 18666728--18667121 Score: 734
Period size: 201 Copynumber: 2.0 Consensus size: 201
18666718 ATGTCATATG
18666728 CAAATATTAATCATAGAACAAGTAAAACGTTCCAAAAGAATAGCAGAATTCACAAATTATACAGA
1 CAAATATTAATCATAGAACAAGTAAAACGTTCCAAAAGAATAGCAGAATTCACAAATTATACAGA
18666793 ATGAAAAGCAAAGTACCAGCTGTTGACATTGAAAATTTTTCATAATAAAGAGGCATTGTAGTGGA
66 ATGAAAAGCAAAGTACCAGCTGTTGACATTGAAAATTTTTCATAATAAAGAGGCATTGTAGTGGA
18666858 ATTTATAACAACTGTAGCCATCCTGGGTTTTATTCTATTGATGCTTTACTTAAAAGGTAAATGGT
131 ATTTATAACAACTGTAGCCATCCTGGGTTTTATTCTATTGATGCTTTACTTAAAAGGTAAATGGT
18666923 CATACA
196 CATACA
*
18666929 CAAATATTAATCATAGAACAAGTAAAGCGTTCCAAAAGAATAGCAGAATTCACAAATTATACAGA
1 CAAATATTAATCATAGAACAAGTAAAACGTTCCAAAAGAATAGCAGAATTCACAAATTATACAGA
* * * *
18666994 ATGACAAGCAGAGTACCAGCTGTTGACATTGAAAATTTTTCATAATAACGAGGTATTGTAGTGGA
66 ATGAAAAGCAAAGTACCAGCTGTTGACATTGAAAATTTTTCATAATAAAGAGGCATTGTAGTGGA
*
18667059 ATTTATAACAACTGTAGCTATCCTGGGTTTTATTCTATTGATGCTTTACTTAAAAGGTAAATG
131 ATTTATAACAACTGTAGCCATCCTGGGTTTTATTCTATTGATGCTTTACTTAAAAGGTAAATG
18667122 CTGAGAAAAT
Statistics
Matches: 187, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
201 187 1.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (201 bp):
CAAATATTAATCATAGAACAAGTAAAACGTTCCAAAAGAATAGCAGAATTCACAAATTATACAGA
ATGAAAAGCAAAGTACCAGCTGTTGACATTGAAAATTTTTCATAATAAAGAGGCATTGTAGTGGA
ATTTATAACAACTGTAGCCATCCTGGGTTTTATTCTATTGATGCTTTACTTAAAAGGTAAATGGT
CATACA
Found at i:18670569 original size:18 final size:17
Alignment explanation
Indices: 18670548--18670582 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18670538 TTATTATTAA
*
18670548 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18670566 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18670583 TCTCAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18670689 original size:18 final size:17
Alignment explanation
Indices: 18670668--18670702 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18670658 TTATTATTAA
*
18670668 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18670686 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18670703 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18670714 original size:15 final size:16
Alignment explanation
Indices: 18670694--18670723 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18670684 ATATATAATT
18670694 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
18670709 TAATAAATATTCTTA
1 TAATAAATATTCTTA
18670724 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:18670722 original size:120 final size:120
Alignment explanation
Indices: 18670537--18670919 Score: 694
Period size: 120 Copynumber: 3.2 Consensus size: 120
18670527 TTTTATCATC
* *
18670537 ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTCAATAATAAGTATTCT
1 ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCT
* *
18670602 TATATGAATTTACTAAAATCATAGTATATAATACTATAAAATATAATTTAAAACA
66 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATA
18670657 ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCT
1 ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCT
18670722 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATA
66 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATA
18670777 ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCT
1 ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCT
*
18670842 TATATGAATTTACTAAAATCATAATTTATAATACTATAAAATATAAATTTTAAAATA
66 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATAT-AA-TTTAAAATA
*
18670899 ATAATTATTAAATATATTTTA
1 ATTATTATTAAATATATTTTA
18670920 TATTCTACTT
Statistics
Matches: 255, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
120 224 0.88
121 2 0.01
122 29 0.11
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (120 bp):
ATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCT
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATA
Found at i:18670807 original size:16 final size:16
Alignment explanation
Indices: 18670769--18670822 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
18670759 AAAATATAAT
18670769 TTAAAATA-ATTATT-A
1 TTAAAATATATT-TTAA
18670784 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
18670799 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
18670817 -TAAAAT
1 TTAAAAT
18670823 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.21
15 8 0.24
16 8 0.24
17 6 0.18
18 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:18670809 original size:18 final size:17
Alignment explanation
Indices: 18670788--18670822 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18670778 TTATTATTAA
*
18670788 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18670806 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18670823 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18670834 original size:15 final size:16
Alignment explanation
Indices: 18670814--18670843 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18670804 ATATATAATT
18670814 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
18670829 TAATAAATATTCTTA
1 TAATAAATATTCTTA
18670844 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:18670881 original size:61 final size:61
Alignment explanation
Indices: 18670563--18670883 Score: 258
Period size: 61 Copynumber: 5.3 Consensus size: 61
18670553 TTTTAATTAA
* * *
18670563 AATATATAAT-TTAATAAAATTCTCAATAATAAGTATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATACT-ATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
* * * * * * * *
18670624 AGTATATAATACTATAAAATATAATTTAA-AACAATTATTATTAAAT-ATATTT--T--AATTAA
1 AATATATAATACTATAAAAT-T--CTTAATAATAAATATTCTTATATGA-ATTTACTAAAATCAT
*
18670683 AATATATAAT-TTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATACT-ATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
* * * * * *
18670744 AATATATAATACTATAAAATATAATTTAA-AATAATTATTATTAAAT-ATATTT--T--AATTAA
1 AATATATAATACTATAAAAT-T--CTTAATAATAAATATTCTTATATGA-ATTTACTAAAATCAT
*
18670803 AATATATAAT-TTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATACT-ATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
*
18670864 AATTTATAATACTATAAAAT
1 AATATATAATACTATAAAAT
18670884 ATAAATTTTA
Statistics
Matches: 200, Mismatches: 35, Indels: 50
0.70 0.12 0.18
Matches are distributed among these distances:
56 8 0.04
57 35 0.17
58 6 0.03
59 43 0.22
61 59 0.29
62 7 0.04
63 35 0.17
64 7 0.04
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATACTATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
Found at i:18672413 original size:49 final size:49
Alignment explanation
Indices: 18672304--18672406 Score: 170
Period size: 49 Copynumber: 2.1 Consensus size: 49
18672294 GAAAAAAAAC
* * * *
18672304 AATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATAA
1 AATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATAA
18672353 AATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATAA
1 AATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATAA
18672402 AATTA
1 AATTA
18672407 TTATTAAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.31
Consensus pattern (49 bp):
AATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATAA
Found at i:18674194 original size:324 final size:323
Alignment explanation
Indices: 18673605--18674253 Score: 1226
Period size: 324 Copynumber: 2.0 Consensus size: 323
18673595 TTATTTTTGC
*
18673605 AAATCGATCTTAAAAATAATCAACAACAAAAAAGAAAGGAAAAGAAACTACCTGAATCGGCCCTT
1 AAATCGATCTTAAAAATAATCAACAACAAAAAAGAAAGGAAAAAAAACTACCTGAATCGGCCCTT
*
18673670 AGGCCTGTCGTCGATGGTACTCCACCGTCGCCGGTCGTGGGTTTAGGGAGGGGCCAAAGCTTTTC
66 AGGCCCGTCGTCGATGGTACTCCACCGTCGCCGGTCGTGGGTTTAGGGAGGGGCCAAAGCTTTTC
*
18673735 TCTTTCACTTTGTTTCCCCGTTCCATGGCCTCGACCTCTGAACGCGCTTCAATGCGCCGATAGAA
131 TCTTTCACTTTGTTTCCCCGTTCCATGGCCTCGACCTCTAAACGCGCTTCAATGCGCCGATAGAA
* *
18673800 GGCGCCCTCGCATGGCTCCGGCCACCGGGAAGTGGGGAGGTGTGATGGCGGCGGGGTTCCTAGCC
196 GGCGCCCTCGCATGGCTCCGGCCACCGGAAAGTGGGGAGGCGTGATGGCGGCGGGGTTCCTAGCC
18673865 TTGGAACCCTAGCTAAGAAAAGGGAACCCCCCTTTTTATTTTTTGTGATCCTTTGCAAAAAAAA
261 TTGGAACCCTAGCTAAGAAAAGGGAACCCCCCTTTTTATTTTTTGTGATCCTTTG-AAAAAAAA
18673929 AAATCGATCTTAAAAATAATCAACAACAAAAAAGAAAGGAAAAAAAACTACCTGAATCGGCCCTT
1 AAATCGATCTTAAAAATAATCAACAACAAAAAAGAAAGGAAAAAAAACTACCTGAATCGGCCCTT
18673994 AGGCCCGTCGTCGATGGTACTCCACCGTCGCCGGTCGTGGGTTTAGGGAGGGGCCAAAGCTTTTC
66 AGGCCCGTCGTCGATGGTACTCCACCGTCGCCGGTCGTGGGTTTAGGGAGGGGCCAAAGCTTTTC
18674059 TCTTTCACTTTGTTTCCCCGTTCCATGGCCTCGACCTCTAAACGCGCTTCAATGCGCCGATAGAA
131 TCTTTCACTTTGTTTCCCCGTTCCATGGCCTCGACCTCTAAACGCGCTTCAATGCGCCGATAGAA
*
18674124 GGCGCCCTCGCATGGCTCTGGCCACCGGAAAGTGGGGAGGCGTGATGGCGGCGGGGTTCCTAGCC
196 GGCGCCCTCGCATGGCTCCGGCCACCGGAAAGTGGGGAGGCGTGATGGCGGCGGGGTTCCTAGCC
*
18674189 TTGGAACCCTAGCTGAGAAAAGGGAACCCCCCTTTTTATTTTTTGTGATCCTTTGAAAAAAAA
261 TTGGAACCCTAGCTAAGAAAAGGGAACCCCCCTTTTTATTTTTTGTGATCCTTTGAAAAAAAA
18674252 AA
1 AA
18674254 TGAAACTACA
Statistics
Matches: 318, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
323 10 0.03
324 308 0.97
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.24
Consensus pattern (323 bp):
AAATCGATCTTAAAAATAATCAACAACAAAAAAGAAAGGAAAAAAAACTACCTGAATCGGCCCTT
AGGCCCGTCGTCGATGGTACTCCACCGTCGCCGGTCGTGGGTTTAGGGAGGGGCCAAAGCTTTTC
TCTTTCACTTTGTTTCCCCGTTCCATGGCCTCGACCTCTAAACGCGCTTCAATGCGCCGATAGAA
GGCGCCCTCGCATGGCTCCGGCCACCGGAAAGTGGGGAGGCGTGATGGCGGCGGGGTTCCTAGCC
TTGGAACCCTAGCTAAGAAAAGGGAACCCCCCTTTTTATTTTTTGTGATCCTTTGAAAAAAAA
Found at i:18681230 original size:41 final size:41
Alignment explanation
Indices: 18681127--18681230 Score: 172
Period size: 41 Copynumber: 2.5 Consensus size: 41
18681117 TTTAACATAT
* * *
18681127 TCACCGGCACTTAACCTGCTAAGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
18681168 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
18681209 TCACCGGCACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
18681231 ACGTAAAGTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:18681265 original size:40 final size:40
Alignment explanation
Indices: 18681209--18681321 Score: 115
Period size: 40 Copynumber: 2.8 Consensus size: 40
18681199 CTGATTCAGA
18681209 TCACCGGCACTT-AGCCTGCTAGACGTAAAGTCTGAAAAAT
1 TCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGAAAAAT
* * * *
18681249 TCACCGGCATTAAGCCTGCTAGGCGCT-TAGCCTGAAAATT
1 TCACCGGCATTAAGCCTGCTAGACG-TAAAGTCTGAAAAAT
* *
18681289 TCAATCGGTATTAAGCCTGCTAGAC-TGAAAGTC
1 TC-ACCGGCATTAAGCCTGCTAGACGT-AAAGTC
18681322 CGAAGCCTGC
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
39 3 0.05
40 33 0.56
41 23 0.39
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAAAAT
Found at i:18681880 original size:114 final size:114
Alignment explanation
Indices: 18681762--18682004 Score: 411
Period size: 114 Copynumber: 2.1 Consensus size: 114
18681752 CTCAAGATCT
18681762 TATACATATTCATATATAC-ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAAC
1 TATACATATT-ATATATACAATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAAC
*
18681826 TAATTTCAATTTATATACTTTCAATTATAGCTCATCAAATATACAATAGA
65 TAATTTCAATTCATATACTTTCAATTATAGCTCATCAAATATACAATAGA
*
18681876 TATACATA-TATATTTACATATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAAC
1 TATACATATTATATATACA-ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAAC
* *
18681940 TAATTTCAATTCATATATTTTTAATTATAGCTCATCAAATATACAATAGA
65 TAATTTCAATTCATATACTTTCAATTATAGCTCATCAAATATACAATAGA
18681990 TATACATA-TATATAT
1 TATACATATTATATAT
18682005 GCTGATTTAA
Statistics
Matches: 122, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
112 7 0.06
113 1 0.01
114 114 0.93
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.42
Consensus pattern (114 bp):
TATACATATTATATATACAATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACT
AATTTCAATTCATATACTTTCAATTATAGCTCATCAAATATACAATAGA
Found at i:18689393 original size:13 final size:13
Alignment explanation
Indices: 18689375--18689399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18689365 CAATCAAATG
18689375 CACACAAAATAAA
1 CACACAAAATAAA
18689388 CACACAAAATAA
1 CACACAAAATAA
18689400 TATAAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:18690460 original size:31 final size:31
Alignment explanation
Indices: 18690422--18690495 Score: 139
Period size: 31 Copynumber: 2.4 Consensus size: 31
18690412 CCGTATGAAA
18690422 ACACGCGGATCCCTGGATCCGGGTCGGGTCG
1 ACACGCGGATCCCTGGATCCGGGTCGGGTCG
*
18690453 ACGCGCGGATCCCTGGATCCGGGTCGGGTCG
1 ACACGCGGATCCCTGGATCCGGGTCGGGTCG
18690484 ACACGCGGATCC
1 ACACGCGGATCC
18690496 TCCCTTCAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.14, C:0.34, G:0.38, T:0.15
Consensus pattern (31 bp):
ACACGCGGATCCCTGGATCCGGGTCGGGTCG
Found at i:18692057 original size:44 final size:43
Alignment explanation
Indices: 18691767--18692058 Score: 183
Period size: 44 Copynumber: 6.8 Consensus size: 43
18691757 CCATCTTCGA
* * * * *
18691767 TCTGCTCCGCTACTACTT-AGGGAGATAAGATTTTCTTACTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTTGTTACTTAG
* * * * *
18691810 TCTGCT-CTCTGCAACTTCAGAGAGATAATACTAG--ACGT-G
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTACTTAG
* * * *
18691849 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGAGATT--TTAA
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TG-TTACTTAG
* * ** *
18691893 TCCGCTCCACTGCAACTTCAGGGAGAT-AGAATTGTCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-TAC-TTAG
* * *
18691937 TCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTA-CTT-AG
* *
18691982 TCTAC-CTCACTGCAAC-TCCGGGAGGATAAGACTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTG-TTACTTAG
18692026 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
18692059 AGATGCGATC
Statistics
Matches: 199, Mismatches: 29, Indels: 41
0.74 0.11 0.15
Matches are distributed among these distances:
39 1 0.01
40 33 0.17
41 3 0.02
42 12 0.06
43 25 0.13
44 80 0.40
45 43 0.22
46 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTACTTAG
Found at i:18692213 original size:141 final size:141
Alignment explanation
Indices: 18692022--18692301 Score: 472
Period size: 141 Copynumber: 2.0 Consensus size: 141
18692012 ACTTGCTTAC
18692022 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCA-
* * * * *
18692087 AA-AGGTAAGATCTGAGATTTTAATCCGCTCCACCGCAACTTCAGGGAGATAGGATTGTTGGTTT
65 AAGAGATAAGATCTGAGATTTCAATCCGCGCCACCGCAACTTCAGGGAGATAGGATTGTCGGCTT
18692151 TAATCTGCTCCA
130 TAATCTGCTCCA
18692163 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAA
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAA
* * *
18692228 AGAGATAAGATCTGAGATTTCGATCCGCGCCACTGCAGCTTCAGGGAGATAGGATTGTCGGCTTT
66 AGAGATAAGATCTGAGATTTCAATCCGCGCCACCGCAACTTCAGGGAGATAGGATTGTCGGCTTT
18692293 AATCTGCTC
131 AATCTGCTC
18692302 TACTGCAACT
Statistics
Matches: 130, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
140 2 0.02
141 128 0.98
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (141 bp):
TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAA
AGAGATAAGATCTGAGATTTCAATCCGCGCCACCGCAACTTCAGGGAGATAGGATTGTCGGCTTT
AATCTGCTCCA
Found at i:18692277 original size:44 final size:40
Alignment explanation
Indices: 18692173--18692278 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 40
18692163 TTAGTCTGCT
*
18692173 CCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGC
1 CCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCCGC
* * ** *
18692213 TCTCTGCAACTTCAAAGAGATAAGATCTGAGATTTCGATCCGC
1 CCACTGCAACTTCAGGGAGATAAGA-CT-AGA-TGCGATCCGC
*
18692256 GCCACTGCAGCTTCAGGGAGATA
1 -CCACTGCAACTTCAGGGAGATA
18692279 GGATTGTCGG
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
40 21 0.41
41 2 0.04
42 3 0.06
43 8 0.16
44 17 0.33
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.23
Consensus pattern (40 bp):
CCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCCGC
Found at i:18692352 original size:45 final size:43
Alignment explanation
Indices: 18692258--18692413 Score: 140
Period size: 44 Copynumber: 3.5 Consensus size: 43
18692248 CGATCCGCGC
* ** *
18692258 CACTGCAGCTTCAGGGAGAT-AGGATTGTCGGCTTTAATCTGCT
1 CACTGCAACTTCAGGGAGATAAGGATTGTCATC-TTAGTCTGCT
*
18692301 CTACTGCAACTTCAGGGAGATAAGGTTTGTCATCTTCAGTCTGCCT
1 C-ACTGCAACTTCAGGGAGATAAGGATTGTCATCTT-AGTCTG-CT
* *
18692347 CACTGCAACTTTA-GGAGGATAA-GACTTG-CTTACTTAGTCTGCT
1 CACTGCAACTTCAGGGA-GATAAGGA-TTGTCAT-CTTAGTCTGCT
*
18692390 CCACTGCAACTTCAAGGAGATAAG
1 -CACTGCAACTTCAGGGAGATAAG
18692414 ACTAGATGTG
Statistics
Matches: 94, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
43 3 0.03
44 49 0.52
45 39 0.41
46 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.29
Consensus pattern (43 bp):
CACTGCAACTTCAGGGAGATAAGGATTGTCATCTTAGTCTGCT
Found at i:18692399 original size:44 final size:45
Alignment explanation
Indices: 18692295--18692416 Score: 119
Period size: 45 Copynumber: 2.7 Consensus size: 45
18692285 TCGGCTTTAA
* * **
18692295 TCTGCTCTACTGCAACTTCAGG-GAGATAAGGTTTGTCATCTTCAG
1 TCTGCTCCACTGCAACTTAAGGAG-GATAAGACTTGTCATCTTCAG
* *
18692340 TCTGC-CTCACTGCAACTTTAGGAGGATAAGACTTG-CTTACTT-AG
1 TCTGCTC-CACTGCAACTTAAGGAGGATAAGACTTGTCAT-CTTCAG
18692384 TCTGCTCCACTGCAACTTCAAGGA-GATAAGACT
1 TCTGCTCCACTGCAACTT-AAGGAGGATAAGACT
18692417 AGATGTGATT
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
44 30 0.45
45 35 0.53
46 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTAAGGAGGATAAGACTTGTCATCTTCAG
Found at i:18692475 original size:358 final size:357
Alignment explanation
Indices: 18691806--18692499 Score: 1138
Period size: 358 Copynumber: 1.9 Consensus size: 357
18691796 ATTTTCTTAC
* * * *
18691806 TTAGTCTGCTCTCTGCAACTTCAGAGAGATAATACTAGACGTGATCTGCTCTCTGCAACTTCAGA
1 TTAGTCTGCTCACTGCAACTTCAGAGAGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAAA
* *
18691871 GAGATAAGATCTGAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGAATTGTCGGCTTTA
66 GAGATAAGATCTGAGATTTCAATCCGCGCCACTGCAACTTCAGGGAGATAGAATTGTCGGCTTTA
18691936 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTACCTCACTGCAACTCC
131 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTACCTCACTGCAACTCC
* *
18692001 GGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
196 AGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCG
*
18692066 ATCTGCTCTCTGCAACTTCAGAAAGGTAAGATCTGAGATTTTAATCCGCTCCACCGCAACTTCAG
261 ATCTGCTCTCTGCAACTTCAGAAAGATAAGATCTGAGATTTTAATCCGCTCCACCGCAACTTCAG
18692131 GGAGATAGGATTGTTGGTTTTAATCTGCTCCA
326 GGAGATAGGATTGTTGGTTTTAATCTGCTCCA
* *
18692163 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAA
1 TTAGTCTGCT-CACTGCAACTTCAGAGAGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAA
* * *
18692228 AGAGATAAGATCTGAGATTTCGATCCGCGCCACTGCAGCTTCAGGGAGATAGGATTGTCGGCTTT
65 AGAGATAAGATCTGAGATTTCAATCCGCGCCACTGCAACTTCAGGGAGATAGAATTGTCGGCTTT
* * * * *
18692293 AATCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTCATCTTCAGTCTGCCTCACTGCAACTT
130 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTACCTCACTGCAACTC
* *
18692358 TAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGT
195 CAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGC
* * **
18692423 GATTTGCTCTCTGCAACTTCA-AAGAGATAAGATCTGAGATTTTAATCCGCTCCACTGCCTCTTC
260 GATCTGCTCTCTGCAACTTCAGAA-AGATAAGATCTGAGATTTTAATCCGCTCCACCGCAACTTC
18692487 AGGGAGATAGGAT
324 AGGGAGATAGGAT
18692500 GCCTAGTGAT
Statistics
Matches: 310, Mismatches: 25, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
357 12 0.04
358 298 0.96
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (357 bp):
TTAGTCTGCTCACTGCAACTTCAGAGAGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAAA
GAGATAAGATCTGAGATTTCAATCCGCGCCACTGCAACTTCAGGGAGATAGAATTGTCGGCTTTA
ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTACCTCACTGCAACTCC
AGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCG
ATCTGCTCTCTGCAACTTCAGAAAGATAAGATCTGAGATTTTAATCCGCTCCACCGCAACTTCAG
GGAGATAGGATTGTTGGTTTTAATCTGCTCCA
Found at i:18709759 original size:27 final size:28
Alignment explanation
Indices: 18709720--18709790 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 28
18709710 TCAATAATAA
*
18709720 ATGTAATTAAATTATAAGTATTT-TTAAAT
1 ATGTAA-T-AATTATAAATATTTGTTAAAT
18709749 ATGTAATAATTATCACAATATTTGTTAAAT
1 ATGTAATAATTAT-A-AATATTTGTTAAAT
18709779 -T-T-ATAATTATAA
1 ATGTAATAATTATAA
18709791 CAAGTATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 1 0.03
26 1 0.03
27 14 0.37
28 3 0.08
29 13 0.34
30 6 0.16
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (28 bp):
ATGTAATAATTATAAATATTTGTTAAAT
Found at i:18710501 original size:26 final size:26
Alignment explanation
Indices: 18710472--18710521 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
18710462 TAAACTAAGG
18710472 TAAAATCGAAA-AAATCAATTTAAAAT
1 TAAAATCGAAATAAAT-AATTTAAAAT
*
18710498 TAAAATCGAAATAAATATTTTAAA
1 TAAAATCGAAATAAATAATTTAAA
18710522 TAAAACCGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (26 bp):
TAAAATCGAAATAAATAATTTAAAAT
Found at i:18712466 original size:31 final size:31
Alignment explanation
Indices: 18712430--18712491 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
18712420 AGATAATTTT
*
18712430 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGATTTATTAGGATTCAATTACTCTTG
18712461 AAAGAGATTTATTAGGATTCAATTACTCTTG
1 AAAGAGATTTATTAGGATTCAATTACTCTTG
18712492 TAATTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (31 bp):
AAAGAGATTTATTAGGATTCAATTACTCTTG
Found at i:18715271 original size:16 final size:16
Alignment explanation
Indices: 18715250--18715281 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18715240 TTTCCTTAAC
18715250 CAATATACCTTTGTGT
1 CAATATACCTTTGTGT
18715266 CAATATACCTTTGTGT
1 CAATATACCTTTGTGT
18715282 TCCTTAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (16 bp):
CAATATACCTTTGTGT
Found at i:18718798 original size:15 final size:14
Alignment explanation
Indices: 18718778--18718808 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
18718768 GGGAATAAAC
18718778 AAATAAAATGATGAA
1 AAATAAAATGAT-AA
18718793 AAATAAAATGATAA
1 AAATAAAATGATAA
18718807 AA
1 AA
18718809 TTAATCATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (14 bp):
AAATAAAATGATAA
Found at i:18719257 original size:19 final size:19
Alignment explanation
Indices: 18719233--18719269 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
18719223 TGCAACTGGT
18719233 GGTGGCCAGAGGAGGGAAA
1 GGTGGCCAGAGGAGGGAAA
*
18719252 GGTGGCTAGAGGAGGGAA
1 GGTGGCCAGAGGAGGGAA
18719270 CAAGTAGGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.08, G:0.54, T:0.08
Consensus pattern (19 bp):
GGTGGCCAGAGGAGGGAAA
Done.