Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 274 of 438
Found at i:85279449 original size:93 final size:93
Alignment explanation
Indices: 85279290--85279461 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
85279280 ATGATGGTTG
*
85279290 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
85279355 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
85279383 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGA
85279447 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
85279462 ACCTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 74 0.99
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:85280931 original size:44 final size:44
Alignment explanation
Indices: 85280883--85280969 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
85280873 TGAAGGTTAG
* *
85280883 ATCTGCTATCTTCGA-TCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAACT-TGCTCCCTATAAACACAGGGATGCCAA
85280927 ATCTGCTATCTTCAACTTGCTCCCTATAAACACAGGGATGCCA
1 ATCTGCTATCTTCAACTTGCTCCCTATAAACACAGGGATGCCA
85280970 TGCTAAAATC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 39 0.98
45 1 0.03
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (44 bp):
ATCTGCTATCTTCAACTTGCTCCCTATAAACACAGGGATGCCAA
Found at i:85282526 original size:78 final size:81
Alignment explanation
Indices: 85282404--85282585 Score: 223
Period size: 78 Copynumber: 2.3 Consensus size: 81
85282394 TACTCGTTCA
* * *
85282404 AATGCCTTCGGGACATGGCCCGG-TTATAGTAACTCACACAAATGCCTTCAGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCCGG
*
85282467 ATTTAATAAC-TCGCAC
65 ATTTAATAACTTAGCAC
**
85282483 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACT-AGCACAAATGCCTTCGGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCA-CACAAATGCCTTCGGATCTTAACCCGG
* *
85282545 ATTTAGTCACTTAGCAC
65 ATTTAATAACTTAGCAC
*
85282562 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
85282586 CATCATTCGA
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
77 4 0.04
78 45 0.51
79 29 0.33
80 11 0.12
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGA
TTTAATAACTTAGCAC
Found at i:85282585 original size:40 final size:40
Alignment explanation
Indices: 85282402--85282585 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
85282392 GCTACTCGTT
* *
85282402 CAAATGCCTTCGGGACATGGCCCGG-TTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACT-AGCA
* * * *
85282442 CAAATGCCTTCAGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
*
85282482 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
* *
85282520 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TAGCA
85282561 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
85282586 CATCATTCGA
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
38 24 0.20
39 20 0.16
40 64 0.52
41 14 0.11
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
Found at i:85285328 original size:15 final size:15
Alignment explanation
Indices: 85285303--85285343 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
85285293 CCTCTCCATC
85285303 TTTTCTTTTTTCTCT
1 TTTTCTTTTTTCTCT
85285318 TTATT-TTTTTTCTCT
1 TT-TTCTTTTTTCTCT
85285333 TTTTCTTTTTT
1 TTTTCTTTTTT
85285344 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.08
15 20 0.83
16 2 0.08
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTCTTTTTTCTCT
Found at i:85285336 original size:12 final size:11
Alignment explanation
Indices: 85285303--85285360 Score: 55
Period size: 11 Copynumber: 5.0 Consensus size: 11
85285293 CCTCTCCATC
85285303 TTTTCTTTTTT
1 TTTTCTTTTTT
*
85285314 CTCTTTATTTTTT
1 -T-TTTCTTTTTT
*
85285327 TTCTCTTTTTCT
1 TTTTCTTTTT-T
85285339 TTTT-TTTTTT
1 TTTTCTTTTTT
85285349 CTTTTCTTTTTT
1 -TTTTCTTTTTT
85285361 ATGAAATAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 1 0.03
11 16 0.42
12 12 0.32
13 9 0.24
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:85285341 original size:17 final size:16
Alignment explanation
Indices: 85285308--85285360 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
85285298 CCATCTTTTC
* *
85285308 TTTTTTCTCTTTATTT
1 TTTTTTCTTTTTCTTT
85285324 TTTTTCTCTTTTTCTTT
1 TTTTT-TCTTTTTCTTT
*
85285341 TTTTTTTTCTTTTCTTT
1 TTTTTTCT-TTTTCTTT
85285358 TTT
1 TTT
85285361 ATGAAATAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.22
17 25 0.78
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTCTTTTTCTTT
Found at i:85285347 original size:23 final size:23
Alignment explanation
Indices: 85285303--85285359 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
85285293 CCTCTCCATC
85285303 TTTTCT-TTTTTCTCTTTATTTT
1 TTTTCTCTTTTTCTCTTTATTTT
*
85285325 TTTTCTCTTTTTCT-TTTTTTTT
1 TTTTCTCTTTTTCTCTTTATTTT
*
85285347 TTCTTTTCTTTTT
1 TT-TTCTCTTTTT
85285360 TATGAAATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTCTCTTTTTCTCTTTATTTT
Found at i:85291131 original size:17 final size:17
Alignment explanation
Indices: 85291100--85291156 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
85291090 TAATAAATTT
*
85291100 AAAATATAATATATAATA
1 AAAATAT-ATTTATAATA
*
85291118 AAAATATATTTATAAGA
1 AAAATATATTTATAATA
*
85291135 ATAATA-A-TTAT-ATA
1 AAAATATATTTATAATA
85291149 AAAATATA
1 AAAATATA
85291157 AAATATATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 7 0.21
15 5 0.15
16 1 0.03
17 13 0.39
18 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATATATTTATAATA
Found at i:85291692 original size:17 final size:17
Alignment explanation
Indices: 85291639--85291772 Score: 187
Period size: 17 Copynumber: 7.6 Consensus size: 17
85291629 AATCATATCT
85291639 TCTAAGATTGTATACTATA
1 TCTAAGATTGTAT-C-ATA
*
85291658 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
85291676 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
*
85291693 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
85291711 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
*
85291728 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
*
85291746 TTTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
85291763 TCTAAGATTG
1 TCTAAGATTG
85291773 CATATCATTG
Statistics
Matches: 104, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
17 47 0.45
18 44 0.42
19 11 0.11
20 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.39
Consensus pattern (17 bp):
TCTAAGATTGTATCATA
Found at i:85291701 original size:35 final size:35
Alignment explanation
Indices: 85291639--85291780 Score: 248
Period size: 35 Copynumber: 4.0 Consensus size: 35
85291629 AATCATATCT
85291639 TCTAAGATTGTATACTATATCTAAGATTGCAATCATA
1 TCTAAGATTGTAT-C-ATATCTAAGATTGCAATCATA
85291676 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
85291711 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
85291746 TTTAAGATTGTATCATATCTAAGATTGCATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
85291781 TGAAGATTAT
Statistics
Matches: 103, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
35 84 0.82
36 6 0.06
37 13 0.13
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:85294688 original size:24 final size:24
Alignment explanation
Indices: 85294636--85294690 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
85294626 GTGTACGGAT
*
85294636 TTTGAATGGCACTATGGGTGTGGA
1 TTTGAATAGCACTATGGGTGTGGA
* *
85294660 ATTGAATAGCACTATGTGTGCT-GA
1 TTTGAATAGCACTATGGGTG-TGGA
85294684 TTTGAAT
1 TTTGAAT
85294691 GTCAATACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.25, C:0.09, G:0.29, T:0.36
Consensus pattern (24 bp):
TTTGAATAGCACTATGGGTGTGGA
Found at i:85313251 original size:25 final size:25
Alignment explanation
Indices: 85313223--85313270 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
85313213 TTATACCATG
* * *
85313223 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
85313248 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
85313271 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:85313339 original size:20 final size:20
Alignment explanation
Indices: 85313314--85313352 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
85313304 TAAATATGGT
85313314 ATGTATGAGATGCACATGAC
1 ATGTATGAGATGCACATGAC
*
85313334 ATGTATGATATGCACATGA
1 ATGTATGAGATGCACATGA
85313353 TGTAATCATA
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:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (20 bp):
ATGTATGAGATGCACATGAC
Found at i:85313430 original size:24 final size:24
Alignment explanation
Indices: 85313403--85313545 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
85313393 GAGGAAGTGA
85313403 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
85313427 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
85313451 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
85313474 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
85313498 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
85313522 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
85313546 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:85313496 original size:47 final size:47
Alignment explanation
Indices: 85313403--85313545 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
85313393 GAGGAAGTGA
85313403 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
85313451 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
85313498 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
85313546 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:85313519 original size:71 final size:72
Alignment explanation
Indices: 85313403--85313546 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
85313393 GAGGAAGTGA
*
85313403 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
85313466 CCAGTTAT
65 CCAGTTAT
** * *
85313474 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
85313539 CAGTTAT
66 CAGTTAT
85313546 A
1 A
85313547 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:85313772 original size:31 final size:31
Alignment explanation
Indices: 85313737--85313800 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
85313727 CGTTTACAGT
85313737 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
85313768 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
85313799 AA
1 AA
85313801 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:85318295 original size:25 final size:25
Alignment explanation
Indices: 85318267--85318314 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
85318257 TTATACCATG
* * *
85318267 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
85318292 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
85318315 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:85318417 original size:20 final size:20
Alignment explanation
Indices: 85318357--85318417 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
85318347 ATAAATATGG
*
85318357 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
85318377 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
85318397 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
85318417 T
1 T
85318418 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:85318582 original size:25 final size:24
Alignment explanation
Indices: 85318467--85318586 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
85318457 GAGGAAGTGA
85318467 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
85318491 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
85318515 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
85318539 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
85318563 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
85318587 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
24 77 0.88
25 11 0.12
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:85318816 original size:31 final size:31
Alignment explanation
Indices: 85318778--85318841 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
85318768 CGTTTGCAGT
85318778 AAAGGCTTCGACCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
* ** *
85318809 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
85318840 AA
1 AA
85318842 CATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:85328156 original size:43 final size:42
Alignment explanation
Indices: 85328108--85328189 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
85328098 TCCTAGACTT
* * *
85328108 GGTCTTACATGTAATCAAACATCGATGCCACTGTCCCAGATAA
1 GGTCTTACACGAAATCAAACA-CGATGCCAATGTCCCAGATAA
* *
85328151 GGTCTTTCACGAAATCAAATACGATGCCAATGTCCCAGA
1 GGTCTTACACGAAATCAAACACGATGCCAATGTCCCAGA
85328190 CATCACCTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 17 0.50
43 17 0.50
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAACACGATGCCAATGTCCCAGATAA
Found at i:85332782 original size:46 final size:46
Alignment explanation
Indices: 85332717--85332811 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
85332707 ATAAATGTGT
*
85332717 GTGGTGAGCTTGGTTAAATAAGTCAGCTTGAATAATGGTCTAGTTG
1 GTGGTGAGCTTGGTTAAATAAGTCAGCTTGAATAATGCTCTAGTTG
85332763 GTGGTGAGCTTGGTTAAATAAGTCAGCTTGAATAATGCTCTAGTTG
1 GTGGTGAGCTTGGTTAAATAAGTCAGCTTGAATAATGCTCTAGTTG
85332809 GTG
1 GTG
85332812 TATGCGATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.25, C:0.09, G:0.31, T:0.35
Consensus pattern (46 bp):
GTGGTGAGCTTGGTTAAATAAGTCAGCTTGAATAATGCTCTAGTTG
Found at i:85341136 original size:43 final size:43
Alignment explanation
Indices: 85340981--85341137 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 43
85340971 TATGTGTTCT
* * *
85340981 CGTGTAAGACCATGTCTGGGACATTGGAATCTATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
* * *
85341024 CGTGTAAGACCATGTCTGGGACATTGACATCG-TATTTGATT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
* *
85341065 CGTGTAAGACC-CTATCTGGGACAGTGGCATCGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATGTGATTA
* * * *
85341108 CATGTAAGACCACGTTTGAGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
85341138 TGTACAATAT
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
41 27 0.28
42 16 0.17
43 51 0.54
44 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
Found at i:85341351 original size:19 final size:20
Alignment explanation
Indices: 85341306--85341344 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
85341296 TTATACTAAT
85341306 TATATATGATGTAAATGAAA
1 TATATATGATGTAAATGAAA
*
85341326 TATATATG-TGTATATGAAA
1 TATATATGATGTAAATGAAA
85341345 AGTATATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (20 bp):
TATATATGATGTAAATGAAA
Found at i:85344527 original size:56 final size:56
Alignment explanation
Indices: 85344440--85344551 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
85344430 GGAACTAAAG
* *
85344440 ACACAGCAGTTCGATCTGAGGCTCGTCCACCTGCCAGAGCTTATGCCATTCGCGCT
1 ACACAGCAGTTCAATCTGAGGCTCGTCCACCTGCCAGAGCTTATACCATTCGCGCT
*
85344496 ACACAGCAGTTCAATCTGAGGCTCGTGCACCTGCCAGAGCTTATACCATTCGCGCT
1 ACACAGCAGTTCAATCTGAGGCTCGTCCACCTGCCAGAGCTTATACCATTCGCGCT
85344552 CGCGAGGAGG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.23
Consensus pattern (56 bp):
ACACAGCAGTTCAATCTGAGGCTCGTCCACCTGCCAGAGCTTATACCATTCGCGCT
Found at i:85352064 original size:16 final size:16
Alignment explanation
Indices: 85352043--85352084 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
85352033 AACTACAAAG
85352043 GCTGAAAAGTC-GAAAA
1 GCTG-AAAGTCTGAAAA
*
85352059 GCTGAAAGGCTGAAAA
1 GCTGAAAGTCTGAAAA
85352075 GCTGGAAAGT
1 GCT-GAAAGT
85352085 GGGTTGTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 5 0.23
16 12 0.55
17 5 0.23
ACGTcount: A:0.43, C:0.12, G:0.31, T:0.14
Consensus pattern (16 bp):
GCTGAAAGTCTGAAAA
Found at i:85355397 original size:27 final size:27
Alignment explanation
Indices: 85355357--85355514 Score: 192
Period size: 27 Copynumber: 5.8 Consensus size: 27
85355347 GAATGTGATT
* * *
85355357 GAAATACCCTTATATGGTAAAATGGCC
1 GAAATACCCCTATAGGGTAAAATGACC
85355384 GAAATACCCCTATAGGGTAAAATGACC
1 GAAATACCCCTATAGGGTAAAATGACC
* *
85355411 GAAATACCCCCATAGGGAAAAATGACC
1 GAAATACCCCTATAGGGTAAAATGACC
* *
85355438 GAAATACCCCCATAGGGTAAAATGACA
1 GAAATACCCCTATAGGGTAAAATGACC
* *
85355465 GAAATA-CCCTAGTAGGATAAAATGACT
1 GAAATACCCCTA-TAGGGTAAAATGACC
* *
85355492 GTAATACCCCTATAAGGTGAAAA
1 GAAATACCCCTATAGGGT-AAAA
85355515 GACTATTTTA
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
26 4 0.03
27 102 0.89
28 9 0.08
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.19
Consensus pattern (27 bp):
GAAATACCCCTATAGGGTAAAATGACC
Found at i:85355545 original size:27 final size:27
Alignment explanation
Indices: 85355511--85355641 Score: 122
Period size: 27 Copynumber: 4.9 Consensus size: 27
85355501 CTATAAGGTG
*
85355511 AAAA-GACTATTTTACCCTTATGTGAT
1 AAAATGACTATTTTGCCCTTATGTGAT
* * *
85355537 AAACTGACTATTTTGCCCTCATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGAT
*
85355564 AAAATGAC-AGTTTTGCCCTTATGTGTT
1 AAAATGACTA-TTTTGCCCTTATGTGAT
* * * *
85355591 AAAATAACTAATTTGCCCTTAGGTGGT
1 AAAATGACTATTTTGCCCTTATGTGAT
* * * *
85355618 AAGATTACTGTTTTGCCCCTATGT
1 AAAATGACTATTTTGCCCTTATGT
85355642 CATGTATGTG
Statistics
Matches: 85, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
26 4 0.05
27 80 0.94
28 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (27 bp):
AAAATGACTATTTTGCCCTTATGTGAT
Found at i:85355583 original size:54 final size:54
Alignment explanation
Indices: 85355520--85355641 Score: 145
Period size: 54 Copynumber: 2.3 Consensus size: 54
85355510 GAAAAGACTA
* * * * *
85355520 TTTTACCCTTATGTGATAAACTGACTATTTTGCCCTCATGTGGTAAAATGACAG
1 TTTTGCCCTTATGTGATAAAATAACTAATTTGCCCTCAGGTGGTAAAATGACAG
* * * * *
85355574 TTTTGCCCTTATGTGTTAAAATAACTAATTTGCCCTTAGGTGGTAAGATTACTG
1 TTTTGCCCTTATGTGATAAAATAACTAATTTGCCCTCAGGTGGTAAAATGACAG
*
85355628 TTTTGCCCCTATGT
1 TTTTGCCCTTATGT
85355642 CATGTATGTG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (54 bp):
TTTTGCCCTTATGTGATAAAATAACTAATTTGCCCTCAGGTGGTAAAATGACAG
Found at i:85355909 original size:24 final size:24
Alignment explanation
Indices: 85355864--85355909 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
85355854 TTATTCCCAC
* *
85355864 ATGGTGTGTAGGGTTGGTATGGAG
1 ATGGTGTGTAGGGCTAGTATGGAG
85355888 ATGGTGTGTAGAGGCTAG-ATGG
1 ATGGTGTGTAG-GGCTAGTATGG
85355910 GTAGGACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.20, C:0.02, G:0.48, T:0.30
Consensus pattern (24 bp):
ATGGTGTGTAGGGCTAGTATGGAG
Found at i:85355961 original size:18 final size:18
Alignment explanation
Indices: 85355922--85355976 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
85355912 AGGACCTACA
85355922 TACTG-TTACT-TCTACTG
1 TACTGTTTACTGT-TACTG
* *
85355939 CACTGTTTACTGTTATTG
1 TACTGTTTACTGTTACTG
85355957 TACTGTTTACTGTTACTG
1 TACTGTTTACTGTTACTG
85355975 TA
1 TA
85355977 ATGGGCCAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 4 0.12
18 27 0.84
19 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (18 bp):
TACTGTTTACTGTTACTG
Found at i:85358406 original size:18 final size:18
Alignment explanation
Indices: 85358362--85358413 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
85358352 TGATGCCATA
*
85358362 ATAAACATAATCATAATC
1 ATAAGCATAATCATAATC
*
85358380 ATAATCATAATCATAATC
1 ATAAGCATAATCATAATC
* *
85358398 ATAGGCATAAACATAA
1 ATAAGCATAATCATAA
85358414 GTTTATTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.27
Consensus pattern (18 bp):
ATAAGCATAATCATAATC
Found at i:85358413 original size:6 final size:6
Alignment explanation
Indices: 85358362--85358400 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
85358352 TGATGCCATA
*
85358362 ATAAAC ATAATC ATAATC ATAATC ATAATC ATAATC ATA
1 ATAATC ATAATC ATAATC ATAATC ATAATC ATAATC ATA
85358401 GGCATAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (6 bp):
ATAATC
Found at i:85361886 original size:15 final size:15
Alignment explanation
Indices: 85361847--85361891 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
85361837 AAACCAGAAT
85361847 AAAGAAATCCAAGAC
1 AAAGAAATCCAAGAC
* *
85361862 AGAGGAAATCCAAGAG
1 A-AAGAAATCCAAGAC
85361878 AAAGAAATCCAAGA
1 AAAGAAATCCAAGA
85361892 TACCATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.58, C:0.16, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAGAAATCCAAGAC
Found at i:85368529 original size:18 final size:18
Alignment explanation
Indices: 85368503--85368542 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
85368493 TGATGCCATA
*
85368503 ATAAACATAATCATAAAC
1 ATAAACATAAGCATAAAC
* *
85368521 ATAATCATAGGCATAAAC
1 ATAAACATAAGCATAAAC
85368539 ATAA
1 ATAA
85368543 GTTTATTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.05, T:0.23
Consensus pattern (18 bp):
ATAAACATAAGCATAAAC
Found at i:85368536 original size:12 final size:12
Alignment explanation
Indices: 85368503--85368529 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
85368493 TGATGCCATA
85368503 ATAAACATAATC
1 ATAAACATAATC
85368515 ATAAACATAATC
1 ATAAACATAATC
85368527 ATA
1 ATA
85368530 GGCATAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (12 bp):
ATAAACATAATC
Found at i:85371251 original size:40 final size:40
Alignment explanation
Indices: 85371143--85371392 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
85371133 CGGGATTTAA
* * * * *
85371143 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
85371183 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
85371223 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
85371263 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
85371303 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
85371343 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
85371383 CCGGATATAT
1 CCGGATATAT
85371393 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:85379420 original size:40 final size:40
Alignment explanation
Indices: 85379297--85379545 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
85379287 CGGGATTTAA
* * * * *
85379297 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
85379337 CCGGATTTGGT-GACTTGCACAAAGGCCTTC-GGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
85379376 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
85379416 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
85379456 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
85379496 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
85379536 CCGGATATAT
1 CCGGATATAT
85379546 TTCCAATGTT
Statistics
Matches: 191, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 29 0.15
40 161 0.84
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:85382889 original size:40 final size:39
Alignment explanation
Indices: 85382724--85382907 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
85382714 AAATTGAATG
* * *
85382724 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
85382764 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
85382804 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
85382844 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
85382883 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
85382908 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:85382932 original size:80 final size:81
Alignment explanation
Indices: 85382764--85382952 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
85382754 GCTGGAAATT
* * * *
85382764 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
85382829 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
85382845 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
85382908 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
85382924 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
85382953 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:85390186 original size:40 final size:39
Alignment explanation
Indices: 85390021--85390204 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
85390011 AAATTGAATG
* * *
85390021 ATATCCGGGCTAAGCCCCGAAGACTATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * * *
85390061 ATAACCGGGTTAAGACCCAAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
85390101 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
85390141 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
85390180 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
85390205 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 102 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:85391544 original size:18 final size:18
Alignment explanation
Indices: 85391507--85391561 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
85391497 CTTGGCCCAT
* **
85391507 TGTAGTAACACTAAGTAG
1 TGTAGTAACAGTAAACAG
85391525 TGTAGTAACAGTAAACAG
1 TGTAGTAACAGTAAACAG
* *
85391543 TGCAATAACAGTAAACAG
1 TGTAGTAACAGTAAACAG
85391561 T
1 T
85391562 ATGAAAGTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.24
Consensus pattern (18 bp):
TGTAGTAACAGTAAACAG
Found at i:85392028 original size:81 final size:81
Alignment explanation
Indices: 85391874--85392194 Score: 403
Period size: 81 Copynumber: 4.0 Consensus size: 81
85391864 ACATACATCA
* * * ** * *
85391874 CATAGGGGTAAAATAGTCATCTTACCATAAAAGGGCAAAACAATCATTTTACCAT-ATAAGGGCA
1 CATAAGGGCAAAATAGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACC-TCATAAGGGCA
*
85391938 AAACAGTCATTTTACCT
65 AAACAGTCATTTTACCC
* * *
85391955 CATAAGGGCAAAATAGTCATTTCACCCCATAAGGGAAAAACAGTCATTTTACCTCATAAGGGAAA
1 CATAAGGGCAAAATAGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAA
**
85392020 AATGGTCATTTTACCC
66 AACAGTCATTTTACCC
* * * * *
85392036 CATAAGGGCAAAACAGTCATTTTACCCCACAAGGGCAAAATAGTTATTTTACCCCATAAGGGCAA
1 CATAAGGGCAAAATAGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAA
85392101 AACAGTCATTTTACCC
66 AACAGTCATTTTACCC
* * **
85392117 CATAAGGGC-AAATCAGTCATTTTACCTCATAAGGGCAAATCAGTCATTTTACCTCATAAATGCA
1 CATAAGGGCAAAAT-AGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCA
*
85392181 AAATAGTCATTTTA
65 AAACAGTCATTTTA
85392195 TCGATTAAGG
Statistics
Matches: 205, Mismatches: 33, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
80 4 0.02
81 201 0.98
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (81 bp):
CATAAGGGCAAAATAGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAA
AACAGTCATTTTACCC
Found at i:85392170 original size:27 final size:27
Alignment explanation
Indices: 85391904--85392194 Score: 338
Period size: 27 Copynumber: 10.8 Consensus size: 27
85391894 CTTACCATAA
* * **
85391904 AAGGGCAAAACAATCATTTTACCATAT
1 AAGGGCAAATCAGTCATTTTACCCCAT
* *
85391931 AAGGGCAAAACAGTCATTTTACCTCAT
1 AAGGGCAAATCAGTCATTTTACCCCAT
*
85391958 AAGGGCAAAAT-AGTCATTTCACCCCAT
1 AAGGGC-AAATCAGTCATTTTACCCCAT
* * *
85391985 AAGGGAAAAACAGTCATTTTACCTCAT
1 AAGGGCAAATCAGTCATTTTACCCCAT
* *
85392012 AAGGGAAAAAT-GGTCATTTTACCCCAT
1 AAGGG-CAAATCAGTCATTTTACCCCAT
* *
85392039 AAGGGCAAAACAGTCATTTTACCCCAC
1 AAGGGCAAATCAGTCATTTTACCCCAT
*
85392066 AAGGGCAAAAT-AGTTATTTTACCCCAT
1 AAGGGC-AAATCAGTCATTTTACCCCAT
*
85392093 AAGGGCAAAACAGTCATTTTACCCCAT
1 AAGGGCAAATCAGTCATTTTACCCCAT
*
85392120 AAGGGCAAATCAGTCATTTTACCTCAT
1 AAGGGCAAATCAGTCATTTTACCCCAT
*
85392147 AAGGGCAAATCAGTCATTTTACCTCAT
1 AAGGGCAAATCAGTCATTTTACCCCAT
**
85392174 AAATGCAAAAT-AGTCATTTTA
1 AAGGGC-AAATCAGTCATTTTA
85392195 TCGATTAAGG
Statistics
Matches: 231, Mismatches: 26, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
26 9 0.04
27 208 0.90
28 14 0.06
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (27 bp):
AAGGGCAAATCAGTCATTTTACCCCAT
Found at i:85392205 original size:54 final size:54
Alignment explanation
Indices: 85391904--85392194 Score: 422
Period size: 54 Copynumber: 5.4 Consensus size: 54
85391894 CTTACCATAA
* * **
85391904 AAGGGCAAAACAATCATTTTACCATATAAGGGCAAAACAGTCATTTTACCTCAT
1 AAGGGCAAAATAGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCTCAT
* *
85391958 AAGGGCAAAATAGTCATTTCACCCCATAAGGGAAAAACAGTCATTTTACCTCAT
1 AAGGGCAAAATAGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCTCAT
* * * *
85392012 AAGGGAAAAATGGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCCCAC
1 AAGGGCAAAATAGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCTCAT
* *
85392066 AAGGGCAAAATAGTTATTTTACCCCATAAGGGCAAAACAGTCATTTTACCCCAT
1 AAGGGCAAAATAGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCTCAT
* *
85392120 AAGGGC-AAATCAGTCATTTTACCTCATAAGGGCAAATCAGTCATTTTACCTCAT
1 AAGGGCAAAAT-AGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCTCAT
**
85392174 AAATGCAAAATAGTCATTTTA
1 AAGGGCAAAATAGTCATTTTA
85392195 TCGATTAAGG
Statistics
Matches: 213, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
53 4 0.02
54 205 0.96
55 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (54 bp):
AAGGGCAAAATAGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCTCAT
Found at i:85399770 original size:49 final size:49
Alignment explanation
Indices: 85399562--85399793 Score: 241
Period size: 49 Copynumber: 4.7 Consensus size: 49
85399552 CTGGTACGCA
* * * * *
85399562 TAGTAGCCTGAACTTAGTGCTACACATGCGACCAATTATCCAGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* * * * ** * *
85399611 TAGTAGCCTGCACTCAGTACTATATACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * ** *
85399661 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-CGAGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCG-GTACACG
*
85399712 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
85399761 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
85399794 TCACAATAGA
Statistics
Matches: 146, Mismatches: 32, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
49 65 0.45
50 46 0.32
51 35 0.24
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:85400070 original size:27 final size:27
Alignment explanation
Indices: 85400040--85400093 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
85400030 TCATACAACC
* *
85400040 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
85400067 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
85400094 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:85405546 original size:40 final size:39
Alignment explanation
Indices: 85405501--85405627 Score: 121
Period size: 40 Copynumber: 3.2 Consensus size: 39
85405491 CGGAATATAA
85405501 CCGGATACAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATACAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
85405541 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATACAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
** * * * *
85405581 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATACAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
85405621 CCGGATA
1 CCGGATA
85405628 TAATTTCCAG
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATACAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:85405645 original size:40 final size:40
Alignment explanation
Indices: 85405517--85405668 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
85405507 ACAACCATGT
* * *
85405517 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
85405557 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
85405597 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
85405637 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
85405669 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:85405651 original size:80 final size:80
Alignment explanation
Indices: 85405517--85405666 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
85405507 ACAACCATGT
*
85405517 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
85405581 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
85405597 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
85405660 CCCGGAT
64 CCCGGAT
85405667 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:85417134 original size:40 final size:40
Alignment explanation
Indices: 85417067--85417243 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
85417057 TCCCAAGTAT
*
85417067 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
85417106 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
85417146 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
85417186 CTTCGGGACATAGCTCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
85417226 CTTCAGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
85417244 TTATCATCCG
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 101 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:85436190 original size:18 final size:19
Alignment explanation
Indices: 85436156--85436199 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
85436146 GATACTAATT
85436156 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
85436175 ATATATG-TGTATATGAAA
1 ATATATGATGTAAATGAAA
85436193 AGTATAT
1 A-TATAT
85436200 TCGGCAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:85437293 original size:28 final size:28
Alignment explanation
Indices: 85437253--85437340 Score: 149
Period size: 28 Copynumber: 3.1 Consensus size: 28
85437243 TGGAAAGTAG
* *
85437253 TTGGGCCTGATGGGCCATATGAATTTGA
1 TTGGGCCTGATGGGCCATGTGAATGTGA
85437281 TTGGGCCTGATGGGCCATGTGAATGTGA
1 TTGGGCCTGATGGGCCATGTGAATGTGA
*
85437309 TTGGGCTTGATGGGCCATGTGAATGTGA
1 TTGGGCCTGATGGGCCATGTGAATGTGA
85437337 TTGG
1 TTGG
85437341 TAACTAGTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.18, C:0.12, G:0.38, T:0.32
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATGTGAATGTGA
Found at i:85437356 original size:14 final size:14
Alignment explanation
Indices: 85437337--85437387 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
85437327 GTGAATGTGA
85437337 TTGGTAACTAGTTT
1 TTGGTAACTAGTTT
* * *
85437351 TTGGTAAATGGGTT
1 TTGGTAACTAGTTT
* *
85437365 GTGG-ACCTAGTTT
1 TTGGTAACTAGTTT
85437378 TTGGTAACTA
1 TTGGTAACTA
85437388 CTTAAGCAGA
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.43
Consensus pattern (14 bp):
TTGGTAACTAGTTT
Found at i:85437660 original size:27 final size:27
Alignment explanation
Indices: 85437630--85438126 Score: 507
Period size: 27 Copynumber: 18.7 Consensus size: 27
85437620 TAATAAAGAG
* * * *
85437630 AAATTACTAAAACACCCTCAATTTGAA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
85437657 AAATTACCGAAATACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
85437684 AAATTACCGAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
85437710 AAATTACTGAAATATCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
85437737 AAATTACCGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
85437764 AAATTACCGAAATA-CC-C--TTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
85437787 AAATTACTGAAAAACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
85437814 AAATTACCGAAATACCGTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
85437840 AAATTACCGAAATACCTTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
85437867 AAATTA-TCAAAATACCCTCAATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
85437894 AAATTA-TCGAAACACCCCCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
85437921 AAATTACTGAAATATCCC-CGATTTGTA
1 AAATTACTGAAATA-CCCTCGATTTGTA
* *
85437948 AAATTACCGAAATA-CCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
85437974 AAATTACTGAAATAACCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
85438001 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
85438028 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
85438055 AAATTACCAAAACACCC-CTGATTTGTA
1 AAATTACTGAAATACCCTC-GATTTGTA
* *
85438082 AAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
*
85438109 AAATTACCGAAATACCCT
1 AAATTACTGAAATACCCT
85438127 TATAGTGTAA
Statistics
Matches: 402, Mismatches: 52, Indels: 32
0.83 0.11 0.07
Matches are distributed among these distances:
23 17 0.04
24 2 0.00
25 2 0.00
26 71 0.18
27 306 0.76
28 4 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:85437762 original size:80 final size:81
Alignment explanation
Indices: 85437630--85438153 Score: 593
Period size: 80 Copynumber: 6.6 Consensus size: 81
85437620 TAATAAAGAG
* * *
85437630 AAATTACTAAAACACCCTCAATTTGAAAAATTACCGAAATACCCCCGATTTGTAAAATTACCGAA
1 AAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACCGAA
*
85437695 ATACCCTCGA-TTGTG
66 ATACCCTCGATTTGTA
* **
85437710 AAATTACTGAAATATCCTCAATTTGTAAAATTACCGAAATACCCTTGATTTGTAAAATTACCGAA
1 AAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACCGAA
*
85437775 ATA-CC-C--TTTGTG
66 ATACCCTCGATTTGTA
* ** ** *
85437787 AAATTACTGAAAAACCCTTGATTTGTAAAATTACCGAAATACCGTCGA-TTGTGAAATTACCGAA
1 AAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACCGAA
*
85437851 ATACCTTCGATTTGTA
66 ATACCCTCGATTTGTA
* * * *
85437867 AAATTA-TCAAAATACCCTCAATTTGTAAAATTATCGAAACACCCCCGATTTGTAAAATTACTGA
1 AAATTACT-GAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACCGA
85437931 AATATCCC-CGATTTGTA
65 AATA-CCCTCGATTTGTA
* * * * * *
85437948 AAATTACCGAAATA-CCTCAATTTGTAAAATTACTGAAATAACCTCAATTTGTAAAATTACTGAA
1 AAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACCGAA
*
85438012 ATACCCTCAATTTGTA
66 ATACCCTCGATTTGTA
* * * * *
85438028 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACACCCCTGATTTGTAAAATTATCGAA
1 AAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACCGAA
* *
85438093 ATACCCTTG-TAGTGTA
66 ATACCCTCGAT-TTGTA
* * * * *
85438109 AAATTACCGAAATACCCT-TATAGTGTAAAATGACCGACATACCCC
1 AAATTACTGAAATACCCTCAAT-TTGTAAAATTACCGAAATACCCC
85438154 TATAGGGTAA
Statistics
Matches: 374, Mismatches: 57, Indels: 25
0.82 0.12 0.05
Matches are distributed among these distances:
76 18 0.05
77 48 0.13
78 2 0.01
79 6 0.02
80 175 0.47
81 123 0.33
82 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (81 bp):
AAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACCGAA
ATACCCTCGATTTGTA
Found at i:85438157 original size:27 final size:27
Alignment explanation
Indices: 85438078--85438167 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
85438068 ACCCCTGATT
* * *
85438078 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTATAG
*
85438105 TGTAAAATTACCGAAATACCCTTATAG
1 TGTAAAATGACCGAAATACCCTTATAG
* *
85438132 TGTAAAATGACCGACATACCCCTATAG
1 TGTAAAATGACCGAAATACCCTTATAG
*
85438159 GGTAAAATG
1 TGTAAAATG
85438168 GCTGTTTTGC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTATAG
Found at i:85441136 original size:20 final size:20
Alignment explanation
Indices: 85440992--85441136 Score: 71
Period size: 20 Copynumber: 7.2 Consensus size: 20
85440982 ATGTAAGTGA
*
85440992 AATCAAGGGTACCGAAGTAC
1 AATCATGGGTACCGAAGTAC
* * ** *
85441012 AAAT-AGGGGCACATAAGTGC
1 -AATCATGGGTACCGAAGTAC
* * *
85441032 AATCAAGGGTATCGAAGTAT
1 AATCATGGGTACCGAAGTAC
* * * *
85441052 AAACAGGGGCA-CGTAAGTGC
1 AATCATGGGTACCG-AAGTAC
85441072 AATCATGGGTACCGAAGTAC
1 AATCATGGGTACCGAAGTAC
* * * * *
85441092 AAACAGGGGCA-TGTAAGTGC
1 AATCATGGGTACCG-AAGTAC
*
85441112 AATCATGGGTACCGAAATAC
1 AATCATGGGTACCGAAGTAC
85441132 AATCA
1 AATCA
85441137 GGGGCACGCA
Statistics
Matches: 87, Mismatches: 32, Indels: 11
0.67 0.25 0.08
Matches are distributed among these distances:
19 6 0.07
20 75 0.86
21 6 0.07
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (20 bp):
AATCATGGGTACCGAAGTAC
Found at i:85441140 original size:120 final size:120
Alignment explanation
Indices: 85440927--85441143 Score: 328
Period size: 120 Copynumber: 1.8 Consensus size: 120
85440917 GAGTTACCAG
* * * * *
85440927 AGTATAAAGAGGGGCACATAAGTGCATTCAGGGGTACCGGATTATAAACAGGGGCATGTAAGTGA
1 AGTATAAACAGGGGCACATAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCATGTAAGTGA
*
85440992 AATCAAGGGTACCGAAGTACAAATAGGGGCACATAAGTGCAATCAAGGGTATCGA
66 AATCAAGGGTACCGAAATACAAATAGGGGCACATAAGTGCAATCAAGGGTATCGA
* * *
85441047 AGTATAAACAGGGGCACGTAAGTGCAATCATGGGTACCGAAGTACAAACAGGGGCATGTAAGTGC
1 AGTATAAACAGGGGCACATAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCATGTAAGTGA
*
85441112 AATCATGGGTACCGAAATAC-AATCAGGGGCAC
66 AATCAAGGGTACCGAAATACAAAT-AGGGGCAC
85441144 GCAAATGTAA
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
119 3 0.03
120 83 0.97
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (120 bp):
AGTATAAACAGGGGCACATAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCATGTAAGTGA
AATCAAGGGTACCGAAATACAAATAGGGGCACATAAGTGCAATCAAGGGTATCGA
Found at i:85441157 original size:40 final size:40
Alignment explanation
Indices: 85440927--85441144 Score: 265
Period size: 40 Copynumber: 5.5 Consensus size: 40
85440917 GAGTTACCAG
* * * * * *
85440927 AGTATAAAGAGGGGCACATAAGTGCATTCAGGGGTACCGG
1 AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
* * * * *
85440967 ATTATAAACAGGGGCATGTAAGTGAAATCAAGGGTACCGA
1 AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
* * * *
85441007 AGTACAAATAGGGGCACATAAGTGCAATCAAGGGTATCGA
1 AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
*
85441047 AGTATAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
1 AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
*
85441087 AGTACAAACAGGGGCATGTAAGTGCAATCATGGGTACCGA
1 AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
* *
85441127 AATACAATCAGGGGCACG
1 AGTACAAACAGGGGCACG
85441145 CAAATGTAAT
Statistics
Matches: 153, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 153 1.00
ACGTcount: A:0.37, C:0.16, G:0.30, T:0.17
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
Found at i:85447243 original size:26 final size:26
Alignment explanation
Indices: 85447182--85447243 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
85447172 AGTACTATTG
* *
85447182 GGAAGTTCACAAAGAGCCAATTTAACA
1 GGAAGCTCACAAAGAGCC-ATATAACA
85447209 GGAAGCTCACAAAGAGCC-TATAATCA
1 GGAAGCTCACAAAGAGCCATATAA-CA
*
85447235 GGATGCTCA
1 GGAAGCTCA
85447244 TAAGAGCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.13
26 10 0.32
27 17 0.55
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCATATAACA
Found at i:85451992 original size:40 final size:40
Alignment explanation
Indices: 85451919--85452135 Score: 338
Period size: 40 Copynumber: 5.5 Consensus size: 40
85451909 AACCCAAGTA
* * *
85451919 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATAC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
*
85451958 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
85451998 CTTCGGGA-TTAGCCCGG-TATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
85452036 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
85452076 CTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
85452116 CTTC-GGACTTAGCCC-GATAT
1 CTTCGGGACTTAGCCCGGATAT
85452136 CATTCGAATA
Statistics
Matches: 168, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
38 34 0.20
39 40 0.24
40 93 0.55
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:85452049 original size:78 final size:79
Alignment explanation
Indices: 85451919--85452135 Score: 327
Period size: 78 Copynumber: 2.8 Consensus size: 79
85451909 AACCCAAGTA
* * * *
85451919 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGG-TATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
85451982 TCACTAGCACAAATGC
64 TCACTAGCACAAATGC
85451998 CTTCGGGA-TTAGCCCGGTATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCCGGTATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
85452062 ACTAGCACAAATGC
66 ACTAGCACAAATGC
*
85452076 CTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATGCCTTC-GGACTTAGCCC-GATAT
1 CTTCGGGACTTAGCCC-GGTATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
85452136 CATTCGAATA
Statistics
Matches: 130, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
78 73 0.56
79 31 0.24
80 26 0.20
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGTATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:85460058 original size:40 final size:40
Alignment explanation
Indices: 85459984--85460202 Score: 331
Period size: 39 Copynumber: 5.6 Consensus size: 40
85459974 AACCCAAGTA
* * * *
85459984 CCTTCGAGATTTAG-CCGGATATAG-CAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
85460023 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
85460063 CCTTCGGGATTTAGCCCGG-TATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
85460102 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
85460142 CCTTCGGGACTTAGCCC-GATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
85460181 CCTTCGGGAC-TAGCCCAGATAT
1 CCTTCGGGACTTAGCCCGGATAT
85460203 CATTCGAATA
Statistics
Matches: 168, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
38 6 0.04
39 86 0.51
40 75 0.45
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:85460115 original size:79 final size:79
Alignment explanation
Indices: 85459984--85460202 Score: 336
Period size: 79 Copynumber: 2.8 Consensus size: 79
85459974 AACCCAAGTA
* * * *
85459984 CCTTCGAGATTTAG-CCGGATATAG-CAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGATTTAGCCCGG-TATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
85460047 GTCACTAGCACAAATG
64 GTCACTAGCACAAATG
85460063 CCTTCGGGATTTAGCCCGGTATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGATTTAGCCCGGTATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
85460128 CACTAGCACAAATG
66 CACTAGCACAAATG
* * *
85460142 CCTTCGGGACTTAGCCCGATATAGTCACTAGCACAAATGCCTTCGGGAC-TAGCCCAGATAT
1 CCTTCGGGATTTAGCCCGGTATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
85460203 CATTCGAATA
Statistics
Matches: 131, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
78 11 0.08
79 115 0.88
80 5 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (79 bp):
CCTTCGGGATTTAGCCCGGTATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATG
Found at i:85461135 original size:18 final size:18
Alignment explanation
Indices: 85461112--85461148 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
85461102 CTTGGTGATG
85461112 AGTTCAAATTAATCTAAC
1 AGTTCAAATTAATCTAAC
85461130 AGTTCAAATTAATCTAAC
1 AGTTCAAATTAATCTAAC
85461148 A
1 A
85461149 TTAACACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.32
Consensus pattern (18 bp):
AGTTCAAATTAATCTAAC
Found at i:85468636 original size:3 final size:3
Alignment explanation
Indices: 85468628--85468652 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
85468618 TAATACTAAA
85468628 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
85468653 ATTTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:85468708 original size:21 final size:21
Alignment explanation
Indices: 85468684--85468724 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
85468674 AATAACATAG
85468684 GTTAACTATCAAAAATAAAAC
1 GTTAACTATCAAAAATAAAAC
85468705 GTTAACTATCAAAAATAAAA
1 GTTAACTATCAAAAATAAAA
85468725 TATAGCTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.12, G:0.05, T:0.24
Consensus pattern (21 bp):
GTTAACTATCAAAAATAAAAC
Found at i:85469861 original size:6 final size:6
Alignment explanation
Indices: 85469837--85469881 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
85469827 TAAAGAAGAT
* * * *
85469837 AAATAA AGATAA AAGTGA AAATGA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
85469882 AAAGTCTTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:85474600 original size:40 final size:40
Alignment explanation
Indices: 85474545--85474754 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
85474535 AACATTGGAA
85474545 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
85474585 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
85474625 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
85474665 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
85474704 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
85474745 CTATATCCGG
1 ATATATCCGG
85474755 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:85477429 original size:42 final size:42
Alignment explanation
Indices: 85477367--85477454 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
85477357 CTAAGTCCGG
*
85477367 ATATAGTACCAGCACTAAGCCTGCGGGATTTAACCAGGATAT
1 ATATAGTACCAGCACTAAGCCTACGGGATTTAACCAGGATAT
* *
85477409 ATATATTACCAGCA-TGAAGCCTACGGGATTTAACCCGGATAT
1 ATATAGTACCAGCACT-AAGCCTACGGGATTTAACCAGGATAT
85477451 ATAT
1 ATAT
85477455 TATATCGAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
41 1 0.02
42 41 0.98
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (42 bp):
ATATAGTACCAGCACTAAGCCTACGGGATTTAACCAGGATAT
Found at i:85485345 original size:46 final size:46
Alignment explanation
Indices: 85485181--85485353 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
85485171 TGTAACCCGC
* * * *
85485181 CCATAAGCGAACTCGGACTCAACTCAACAAGCTT-GGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCAGACATTTGCAT
* * * * * * *
85485227 CCATGAGTGAACTTGGACTCAACTCAACGAGTCCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTGCAT
*
85485277 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
*
85485320 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
85485354 GGATGCTCAA
Statistics
Matches: 100, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 4 0.04
46 53 0.53
47 24 0.24
48 2 0.02
49 3 0.03
50 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
Found at i:85485347 original size:93 final size:93
Alignment explanation
Indices: 85485188--85485359 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
85485178 CGCCCATAAG
* * * *
85485188 CGAACTCGGACTCAACTCAACAAGCTTGGGCATTCGCATCCATGAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTTAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
85485253 ACGAGTCCGGATGCCTAGTTACATCTCA
66 ACGAGTCCGGATGCCTAGTTACATCTCA
* *
85485281 CGAACTCGGACTCAACTCAACGAG-TTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTT-AGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
85485345 AACGAGTTCGGATGC
65 AACGAGTCCGGATGC
85485360 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTTAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTCCGGATGCCTAGTTACATCTCA
Found at i:85487879 original size:42 final size:42
Alignment explanation
Indices: 85487817--85487904 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
85487807 CTAAGTCCAG
*
85487817 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGATAT
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
*
85487859 ATATAGTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
85487901 ATAT
1 ATAT
85487905 TATATCGAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (42 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Found at i:85488413 original size:23 final size:23
Alignment explanation
Indices: 85488359--85488405 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
85488349 AACCAAACCT
85488359 ATACCTAATTATTTTAACACATC
1 ATACCTAATTATTTTAACACATC
85488382 ATACCTAATTATTTTAACACATC
1 ATACCTAATTATTTTAACACATC
85488405 A
1 A
85488406 CCTCTAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (23 bp):
ATACCTAATTATTTTAACACATC
Found at i:85495039 original size:16 final size:17
Alignment explanation
Indices: 85495010--85495042 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
85495000 ATTAGAAAAA
85495010 AATAAAAATTTAAAATGC
1 AATAAAAA-TTAAAATGC
85495028 AATAAAAA-TAAAATG
1 AATAAAAATTAAAATG
85495043 GCTAAAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (17 bp):
AATAAAAATTAAAATGC
Found at i:85498775 original size:27 final size:26
Alignment explanation
Indices: 85498731--85498781 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
85498721 CCTCGCTGAA
*
85498731 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
85498758 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
85498782 GGCAACCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:85498847 original size:71 final size:66
Alignment explanation
Indices: 85498713--85498853 Score: 174
Period size: 71 Copynumber: 2.1 Consensus size: 66
85498703 GAGGAAGTGT
* * * *
85498713 TCTGGCAGCCTCGCTGAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCGTCACAAT
1 TCTGGCAACCTCGCTGAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACCTAGCCACAAT
85498778 A
66 A
* * *
85498779 TCTGGCAACCTCGCTGCAATCTGGTGGCTTCGACACATATATATATCTATTCTGGTGGCCTAGCC
1 TCTGGCAACCTCGCTG-AATCTGGTGGCCTCG-C-C--ACATATATCTATTCTGGTGACCTAGCC
85498844 ACAATA
61 ACAATA
85498850 TCTG
1 TCTG
85498854 TATCTGGTGA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
66 15 0.24
67 14 0.22
68 1 0.02
69 1 0.02
71 32 0.51
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (66 bp):
TCTGGCAACCTCGCTGAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACCTAGCCACAAT
A
Found at i:85498861 original size:27 final size:26
Alignment explanation
Indices: 85498821--85498880 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
85498811 ACACATATAT
* *
85498821 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
85498847 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
85498874 ATATCTG
1 ATATCTG
85498881 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:85500855 original size:17 final size:18
Alignment explanation
Indices: 85500833--85500866 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
85500823 TGAAGCATAC
85500833 AGAAAGA-CAGAATCGTG
1 AGAAAGATCAGAATCGTG
85500850 AGAAAGATCAGAATCGT
1 AGAAAGATCAGAATCGT
85500867 TTTAGGAGAG
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:0.47, C:0.12, G:0.26, T:0.15
Consensus pattern (18 bp):
AGAAAGATCAGAATCGTG
Found at i:85509927 original size:2 final size:2
Alignment explanation
Indices: 85509920--85509957 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
85509910 GCTTCGCCAC
85509920 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
85509958 TTGCTCTGGT
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:85511493 original size:46 final size:46
Alignment explanation
Indices: 85511426--85511598 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
85511416 AACCCGCCCC
* *
85511426 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGACGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* * * * * *
85511472 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCATCCA
* * *
85511518 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
85511565 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
85511599 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.02
46 66 0.64
47 33 0.32
48 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:85511538 original size:93 final size:93
Alignment explanation
Indices: 85511431--85511601 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
85511421 GCCCCTAAGT
* *
85511431 GAACTCGGACTCAACTCAATGAGCTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
85511496 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
85511524 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
85511589 CGAGTTCGGATGC
66 CGAGTTCGGATGC
85511602 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:85517740 original size:25 final size:24
Alignment explanation
Indices: 85517684--85517740 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
85517674 TTTTATTAGT
* *
85517684 ATAAAATATTAATAATTTAATAAA
1 ATAAAAAATTAATAATTAAATAAA
* *
85517708 TTAGAAAATTAAATAATTAAATAAA
1 ATAAAAAATT-AATAATTAAATAAA
85517733 ATAAAAAA
1 ATAAAAAA
85517741 ATTAGGAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (24 bp):
ATAAAAAATTAATAATTAAATAAA
Found at i:85520116 original size:31 final size:32
Alignment explanation
Indices: 85520078--85520143 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
85520068 ATCATGATAA
*
85520078 TATGATTGT-ATGAATATTTTATTAAG-AAATT
1 TATGATTGTGA-GAAAATTTTATTAAGAAAATT
85520109 TATGATTGTGAGAAAATTTTATTAAGAAAATT
1 TATGATTGTGAGAAAATTTTATTAAGAAAATT
85520141 TAT
1 TAT
85520144 CTTTTGAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 23 0.72
32 9 0.28
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (32 bp):
TATGATTGTGAGAAAATTTTATTAAGAAAATT
Found at i:85527639 original size:16 final size:16
Alignment explanation
Indices: 85527618--85527649 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
85527608 AATTAGTGTC
85527618 GATAGTTTGTGAACAT
1 GATAGTTTGTGAACAT
85527634 GATAGTTTGTGAACAT
1 GATAGTTTGTGAACAT
85527650 CCGGATGTGT
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:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (16 bp):
GATAGTTTGTGAACAT
Found at i:85531010 original size:28 final size:27
Alignment explanation
Indices: 85530940--85531016 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 27
85530930 CTGCTAGAAT
*
85530940 AGATATTGTGACAGAGTCACC-GAATAC
1 AGATATTGTG-CAGAGCCACCAGAATAC
85530967 AGATATTGTAGCAGAGCCACCAGAA-AC
1 AGATATTGT-GCAGAGCCACCAGAATAC
*
85530994 ATATATTTGTGCCAGAGCCACCA
1 AGATA-TTGTG-CAGAGCCACCA
85531017 AAGCGCTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AGATATTGTGCAGAGCCACCAGAATAC
Found at i:85531459 original size:8 final size:8
Alignment explanation
Indices: 85531432--85531462 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
85531422 ACAAAATGCT
85531432 GGCTTTTC
1 GGCTTTTC
*
85531440 GGCATTTC
1 GGCTTTTC
85531448 GGCTTTTC
1 GGCTTTTC
85531456 GGCTTTT
1 GGCTTTT
85531463 GTCGATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.23, G:0.26, T:0.48
Consensus pattern (8 bp):
GGCTTTTC
Found at i:85533161 original size:71 final size:71
Alignment explanation
Indices: 85533077--85533240 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
85533067 CGATTTGTCT
85533077 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
85533142 CTTTCA
66 CTTTCA
85533148 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
85533213 CTTTCA
66 CTTTCA
85533219 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
85533241 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:85533278 original size:71 final size:70
Alignment explanation
Indices: 85533077--85533274 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
85533067 CGATTTGTCT
* * * *
85533077 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
85533142 CTTTCA
65 CTTTCA
* * * *
85533148 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
85533213 CTTTCA
65 CTTTCA
* *
85533219 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
85533275 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:85540736 original size:70 final size:71
Alignment explanation
Indices: 85540653--85540815 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
85540643 CGATTTGTCT
85540653 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTA-CTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
85540717 CTTTCA
66 CTTTCA
85540723 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
85540788 CTTTCA
66 CTTTCA
85540794 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
85540816 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 54 0.59
71 38 0.41
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:85540853 original size:71 final size:73
Alignment explanation
Indices: 85540653--85540853 Score: 215
Period size: 70 Copynumber: 2.8 Consensus size: 73
85540643 CGATTTGTCT
* * * *
85540653 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGA-C---CTACTACATT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACTACATT
85540714 TATCTTTCA
65 TATCTTTCA
* * * *
85540723 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAG---CTACATT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACTACATT
85540785 TATCTTTCA
65 TATCTTTCA
* *
85540794 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTACTACA
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTACTACA
85540854 GGGTGTCTCG
Statistics
Matches: 117, Mismatches: 6, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
68 18 0.15
69 1 0.01
70 51 0.44
71 47 0.40
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.34
Consensus pattern (73 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACTACATTT
ATCTTTCA
Found at i:85548438 original size:27 final size:28
Alignment explanation
Indices: 85548401--85548513 Score: 137
Period size: 27 Copynumber: 4.2 Consensus size: 28
85548391 AGCATGGCTG
*
85548401 CCAGA-ACAGATA-TTGTGACAGAGTCA
1 CCAGATACAGATATTTGTGACAGAGCCA
85548427 CCAGATACAGATA-TTGT-AGCAGAGCCA
1 CCAGATACAGATATTTGTGA-CAGAGCCA
* *
85548454 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGACAGAGCCA
* *
85548482 CCAGAT-CAGATATTTGTGGCAAAGCCA
1 CCAGATACAGATATTTGTGACAGAGCCA
85548509 CCAGA
1 CCAGA
85548514 ACGCTTCCTC
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 17 0.22
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGACAGAGCCA
Found at i:85548493 original size:54 final size:55
Alignment explanation
Indices: 85548401--85548514 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 55
85548391 AGCATGGCTG
* *
85548401 CCAG-AACAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTAGCAGAGCCA
1 CCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATATTTGTAGCAAAGCCA
* *
85548454 CCAGAAACAGATATTTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAAAGCCA
1 CCAGAAACAGATA-TTGTGACAGAGCCACCAGATACAGATATTTGTAGCAAAGCCA
85548509 CCAGAA
1 CCAGAA
85548515 CGCTTCCTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
53 4 0.07
54 14 0.26
55 36 0.67
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (55 bp):
CCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATATTTGTAGCAAAGCCA
Found at i:85548651 original size:26 final size:27
Alignment explanation
Indices: 85548622--85548680 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
85548612 TTAACCCTGA
85548622 GGGTATAATGGTAATTTT-ACACCTAG
1 GGGTATAATGGTAATTTTCACACCTAG
* * *
85548648 GGGTATAGTGGTAATTTTCATACTTAG
1 GGGTATAATGGTAATTTTCACACCTAG
85548675 GGGTAT
1 GGGTAT
85548681 TTTAGTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 17 0.59
27 12 0.41
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.37
Consensus pattern (27 bp):
GGGTATAATGGTAATTTTCACACCTAG
Found at i:85568719 original size:40 final size:41
Alignment explanation
Indices: 85568675--85568866 Score: 169
Period size: 40 Copynumber: 4.8 Consensus size: 41
85568665 TTTAACTGGA
* * * *
85568675 TATAGCAACTCGCTCGATTGTCTTCGGGACA-TAGCCCAG-T
1 TATAGTAACTCGCACAATTGCCTTCGGGA-ATTAGCCCAGAT
* *
85568715 TATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCAGAT
1 TATAGTAACTCGCACAATTGCCTTCGGGAATTAGCCCAGAT
* * * *
85568756 T-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCC-GGT
1 TATAGTAACTCGCACAATTGCCTTCGGGAATTAGCCCAGAT
* * * * * *
85568795 TTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCC-GGT
1 TATAGTAACTCGCACAATTGCCTTCGGGAATTAGCCCAGAT
* * *
85568835 TTTGGTAACTCGCACAAATGCCTTCGGGAATT
1 TATAGTAACTCGCACAATTGCCTTCGGGAATT
85568867 GACCCGAATT
Statistics
Matches: 135, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 4 0.03
40 129 0.96
41 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (41 bp):
TATAGTAACTCGCACAATTGCCTTCGGGAATTAGCCCAGAT
Found at i:85568872 original size:40 final size:40
Alignment explanation
Indices: 85568724--85568914 Score: 229
Period size: 40 Copynumber: 4.8 Consensus size: 40
85568714 TTATAGTGAT
* * * * *
85568724 TCGCACAATTGCCTTCGGGAATTAGCCCAGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGGTTTTGGTAAC
*
85568764 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGGTTTTGGTAAC
*
85568804 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGGTTTTGGTAAC
* ** * *
85568844 TCGCACAAATGCCTTCGGGAATTGACCCGAATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGGTTTTGGTAAC
* * * *
85568884 TTAGCACAAAAGCCTTCAGGAATTAGCCCGG
1 -TCGCACAAATGCCTTCGGGAATTAACCCGG
85568915 ATACCATTCG
Statistics
Matches: 132, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 108 0.82
41 24 0.18
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGAATTAACCCGGTTTTGGTAAC
Found at i:85577532 original size:2 final size:2
Alignment explanation
Indices: 85577525--85577550 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
85577515 CATTGTACAC
85577525 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
85577551 TCGGCCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85578092 original size:28 final size:28
Alignment explanation
Indices: 85578023--85578123 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
85578013 GACAAGATTG
* * * *
85578023 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
85578053 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
85578081 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
85578110 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
85578124 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:85578117 original size:29 final size:28
Alignment explanation
Indices: 85578052--85578123 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
85578042 AAAATTGTAC
*
85578052 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
85578080 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
85578109 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
85578124 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:85579831 original size:40 final size:41
Alignment explanation
Indices: 85579761--85580007 Score: 168
Period size: 40 Copynumber: 6.1 Consensus size: 41
85579751 CGGAATTTAA
* * * * *
85579761 CCGGATATAGCAACTCGCTCGATTGTCTTCGGGACA-TAG-
1 CCGGATTTAGTAACTCGCACAATTGCCTTCGGGACATTAGC
* * * *
85579800 CCGGGTTATAGTGATTCTCACAATTGCCTTCGGGA-ATTAGC
1 CCGGATT-TAGTAACTCGCACAATTGCCTTCGGGACATTAGC
* *
85579841 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGAC-TTAAC
1 CCGGATTTAGTAACTCGCACAATTGCCTTCGGGACATTAGC
* * * * *
85579881 CCGGTTTTGGTAACTCACACAAATGCCTTCGGGAC-TTAAC
1 CCGGATTTAGTAACTCGCACAATTGCCTTCGGGACATTAGC
* * * * *
85579921 CCAGTTTTGGTAACTCGCACAAATGCCTTCGAGA-ATT-GAC
1 CCGGATTTAGTAACTCGCACAATTGCCTTCGGGACATTAG-C
* * ** * *
85579961 CCGGATTTAGTCACTTAGCACAAAAGCCTTCAGGAC-TTATC
1 CCGGATTTAGTAAC-TCGCACAATTGCCTTCGGGACATTAGC
85580002 CCGGAT
1 CCGGAT
85580008 ACCATTCGAA
Statistics
Matches: 168, Mismatches: 31, Indels: 16
0.78 0.14 0.07
Matches are distributed among these distances:
39 6 0.04
40 131 0.78
41 31 0.18
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (41 bp):
CCGGATTTAGTAACTCGCACAATTGCCTTCGGGACATTAGC
Found at i:85580005 original size:41 final size:40
Alignment explanation
Indices: 85579818--85580007 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
85579808 TAGTGATTCT
* * * *
85579818 CACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCG
1 CACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAG
* *
85579858 CACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCA-
1 CACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACT-AG
* * * *
85579898 CACAAATGCCTTCGGGACTTAACCCAGTTTTGGTAACTCG
1 CACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAG
* * * *
85579938 CACAAATGCCTTCGAGAATTGACCCGGATTTAGTCACTTAG
1 CACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TAG
* * *
85579979 CACAAAAGCCTTCAGGACTTATCCCGGAT
1 CACAAATGCCTTCGGGACTTAACCCGGAT
85580008 ACCATTCGAA
Statistics
Matches: 125, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
40 100 0.80
41 25 0.20
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAG
Found at i:85585507 original size:27 final size:28
Alignment explanation
Indices: 85585439--85585511 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
85585429 TTAAAATTTG
85585439 TATAGCACTAAGTGTGCGAGTTGGACCA
1 TATAGCACTAAGTGTGCGAGTTGGACCA
**
85585467 TATAGCACTAAGTGTGCGAGTT-GATTA
1 TATAGCACTAAGTGTGCGAGTTGGACCA
*
85585494 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
85585512 GACTCACTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 20 0.48
28 22 0.52
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGTTGGACCA
Found at i:85585522 original size:27 final size:27
Alignment explanation
Indices: 85585439--85585523 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
85585429 TTAAAATTTG
* * *
85585439 TATAGCACTAAGTGTGCGAGTTGGACCA
1 TATAGCACTAAGTGTGCGAGCT-CACTA
* * *
85585467 TATAGCACTAAGTGTGCGAGTTGATTA
1 TATAGCACTAAGTGTGCGAGCTCACTA
*
85585494 TATAGCACTGAGTGTGCG-GACTCACTA
1 TATAGCACTAAGTGTGCGAG-CTCACTA
85585521 TAT
1 TAT
85585524 GCTTTTGAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.02
27 27 0.54
28 22 0.44
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (27 bp):
TATAGCACTAAGTGTGCGAGCTCACTA
Found at i:85595714 original size:42 final size:42
Alignment explanation
Indices: 85595602--85595761 Score: 214
Period size: 42 Copynumber: 3.8 Consensus size: 42
85595592 ATACCAATGT
* * * *
85595602 CATATCCCAGATATTGTCTTACATGTAATCTCTTATCGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
* *
85595644 CAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
* *
85595687 CATATCCTAGATATGGTCTTACACGAAATCTCATATAGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
*
85595729 CATATCTCAGATATGGTCTTACAC-ATAATCTCA
1 CATATCCCAGATATGGTCTTACACGA-AATCTCA
85595762 GTAACCCTAA
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.01
42 67 0.64
43 36 0.35
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
Found at i:85595728 original size:85 final size:84
Alignment explanation
Indices: 85595602--85595761 Score: 214
Period size: 85 Copynumber: 1.9 Consensus size: 84
85595592 ATACCAATGT
* * * * * *
85595602 CATATCCCAGATATTGTCTTACATGTAATCTCTTATCGATGCCAATAGCCCAGCTATGGTCTTAC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATAGATGCC-ATAGCCCAGATATGGTCTTAC
85595667 ACGA-AATCTCATATCGATGC
65 AC-ATAATCTCATATCGATGC
* * *
85595687 CATATCCTAGATATGGTCTTACACGAAATCTCATATAGATGCCATATCTCAGATATGGTCTTACA
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATAGATGCCATAGCCCAGATATGGTCTTACA
85595752 CATAATCTCA
66 CATAATCTCA
85595762 GTAACCCTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
83 1 0.02
84 27 0.42
85 37 0.57
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (84 bp):
CATATCCCAGATATGGTCTTACACGAAATCTCATATAGATGCCATAGCCCAGATATGGTCTTACA
CATAATCTCATATCGATGC
Found at i:85602818 original size:34 final size:34
Alignment explanation
Indices: 85602780--85602847 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
85602770 CATATATTGG
85602780 AATCACATATCGATGCCATGATCTTACTCGCACA
1 AATCACATATCGATGCCATGATCTTACTCGCACA
*
85602814 AATCACATATCGATGCCATGATCTTAGTCGCACA
1 AATCACATATCGATGCCATGATCTTACTCGCACA
85602848 CATATATCAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (34 bp):
AATCACATATCGATGCCATGATCTTACTCGCACA
Found at i:85605075 original size:24 final size:23
Alignment explanation
Indices: 85605032--85605077 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
85605022 TATATAAGTC
*
85605032 AAAGATTTCTTGATTAGAAACAT
1 AAAGATTTCTGGATTAGAAACAT
85605055 AAAGAGTTTCTGGAATT-GAAACA
1 AAAGA-TTTCTGG-ATTAGAAACA
85605078 AGACTGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 12 0.60
25 3 0.15
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (23 bp):
AAAGATTTCTGGATTAGAAACAT
Found at i:85607919 original size:41 final size:40
Alignment explanation
Indices: 85607699--85607917 Score: 276
Period size: 40 Copynumber: 5.5 Consensus size: 40
85607689 ACTCGATTAT
* * * * * * *
85607699 CTTCGGGACATAGCCTGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
85607739 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
*
85607779 CTTCGGGACTTAACCCGGTTTTGGTAACTTGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
85607819 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * * * ** * *
85607859 CTTCGGGAATTGACCCGGATTTAGTCATTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGTTTTGGT-AACTCGCACAAATGC
*
85607900 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
85607918 ATACCATTCG
Statistics
Matches: 158, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 132 0.84
41 26 0.16
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
Found at i:85609774 original size:16 final size:17
Alignment explanation
Indices: 85609741--85609777 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
85609731 TATTATATGT
85609741 TTTATTATATTAACATG
1 TTTATTATATTAACATG
*
85609758 TTTATTAT-TTTACATG
1 TTTATTATATTAACATG
85609774 TTTA
1 TTTA
85609778 ACATTTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTATTATATTAACATG
Found at i:85616563 original size:2 final size:2
Alignment explanation
Indices: 85616556--85616581 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
85616546 GCTCTTGCAC
85616556 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
85616582 GTTTGCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85617087 original size:40 final size:40
Alignment explanation
Indices: 85616895--85617080 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
85616885 TCGAATGATG
* * * *
85616895 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
85616935 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
85616975 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
85617015 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
85617056 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
85617081 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 116 0.91
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:85617087 original size:80 final size:79
Alignment explanation
Indices: 85616948--85617103 Score: 185
Period size: 80 Copynumber: 2.0 Consensus size: 79
85616938 GGACTAAGAT
**
85616948 CCGAAGGCATTCGTGCGAGTTACTAAATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCAGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
85617012 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
85617028 CCGAAGGCA-TCTGTGCGAGTTACTATAAT-CGGGCTATG-TCCCGAAGGCATTTGAACGAGTAG
1 CCGAAGGCATTC-GTGCGAGTTACTA-AATCCAGACTAAGAT-CCGAAGGCATTTGAACGAGTAG
*
85617090 CTATATCCGGTTAA
63 CTAAATCCGGTTAA
85617104 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
79 11 0.17
80 52 0.79
81 3 0.05
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCAGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:85621958 original size:16 final size:15
Alignment explanation
Indices: 85621935--85621978 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
85621925 CACATTCGGC
*
85621935 TTTCACATATATATA
1 TTTCACATATATACA
85621950 TTATCACAT-TATACA
1 TT-TCACATATATACA
85621965 TTTCAGCATATATA
1 TTTCA-CATATATA
85621979 ATTCATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 3 0.12
15 12 0.48
16 10 0.40
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (15 bp):
TTTCACATATATACA
Found at i:85622728 original size:16 final size:17
Alignment explanation
Indices: 85622695--85622731 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
85622685 TATTATATGT
85622695 TTTATTATATTAACATG
1 TTTATTATATTAACATG
*
85622712 TTTATTAT-TTTACATG
1 TTTATTATATTAACATG
85622728 TTTA
1 TTTA
85622732 ACCTTTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTATTATATTAACATG
Found at i:85625430 original size:27 final size:27
Alignment explanation
Indices: 85625394--85625661 Score: 200
Period size: 27 Copynumber: 9.9 Consensus size: 27
85625384 AGTGGATGAG
* * *
85625394 TTGTAGAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCTTGAT
* *
85625421 TTATAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCTTGAT
* *
85625448 TTGTAAAATTACCAAAAAACCCAT-AGT
1 TTGTAAAATTACCAAAATACCCTTGA-T
*
85625475 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCTTGAT
* ** * * *
85625502 TTGTGAAATTACTGAAATACTCTCGAC
1 TTGTAAAATTACCAAAATACCCTTGAT
* ** * *
85625529 CTGTAAAATTACTGAAATACCCTCGAA
1 TTGTAAAATTACCAAAATACCCTTGAT
*
85625556 TTGTAAAATTACCAAAGTACCCTTGAT
1 TTGTAAAATTACCAAAATACCCTTGAT
* * **** *
85625583 TTATAGAATTACCGTTTTACCCTCGAT
1 TTGTAAAATTACCAAAATACCCTTGAT
**
85625610 TTACAAAATTA-CAGAAATACCCTTGCA-
1 TTGTAAAATTACCA-AAATACCCTTG-AT
** *
85625637 AGGTAAAATTACCGAAATACCCTTG
1 TTGTAAAATTACCAAAATACCCTTG
85625662 TAGGGTAGGA
Statistics
Matches: 190, Mismatches: 46, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
26 2 0.01
27 185 0.97
28 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTTGAT
Found at i:85630160 original size:27 final size:26
Alignment explanation
Indices: 85630130--85630181 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
85630120 CTCGTTGCAA
*
85630130 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
85630157 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
85630182 GTAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:85633922 original size:25 final size:25
Alignment explanation
Indices: 85633894--85633950 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 25
85633884 TATTCTGATG
*
85633894 ATTGTTTAAGATTCAGAGGCCGAAC
1 ATTGTTTAAGATTCAGAAGCCGAAC
*
85633919 ATTGTTTAAGATTTAGAAGCCGAAC
1 ATTGTTTAAGATTCAGAAGCCGAAC
85633944 ATGTGTT
1 AT-TGTT
85633951 CCTAGAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (25 bp):
ATTGTTTAAGATTCAGAAGCCGAAC
Done.