Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 249 of 250
Found at i:77450018 original size:120 final size:120
Alignment explanation
Indices: 77449821--77450203 Score: 721
Period size: 120 Copynumber: 3.2 Consensus size: 120
77449811 TTTTCAAGTT
77449821 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
77449886 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
77449941 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
77450006 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
77450061 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * * *
77450126 TAATATAAGAATATTAATTATTAAGAATTTTAATAAAATAAATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
77450181 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
77450204 TAAATATGAT
Statistics
Matches: 258, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 258 1.00
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:77450188 original size:16 final size:16
Alignment explanation
Indices: 77450152--77450193 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
77450142 ATTATTAAGA
77450152 ATTTTAATAAAATAAAT
1 ATTTTAATAAAAT-AAT
77450169 ATTTTAATTAAAAT-AT
1 ATTTTAA-TAAAATAAT
77450185 A-TTTAATAA
1 ATTTTAATAA
77450194 TAATTATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.12
15 5 0.21
16 3 0.12
17 7 0.29
18 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTTAATAAAATAAT
Found at i:77450446 original size:16 final size:16
Alignment explanation
Indices: 77450422--77450489 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
77450412 GATTTGCTAT
77450422 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
77450438 TATACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
77450454 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
*
77450470 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
77450486 TACA
1 TACA
77450490 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:77456447 original size:18 final size:17
Alignment explanation
Indices: 77456424--77456463 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
77456414 ATTAAGAAAC
*
77456424 AAATATTATCACTCGAGA
1 AAATA-TATCACACGAGA
*
77456442 AAATATATGACACGAGA
1 AAATATATCACACGAGA
77456459 AAATA
1 AAATA
77456464 CACAAGCACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (17 bp):
AAATATATCACACGAGA
Found at i:77462712 original size:27 final size:27
Alignment explanation
Indices: 77462682--77462736 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
77462672 TCTTTCAAGA
77462682 AATCTTTGACAAGTGTTGAATATAAGC
1 AATCTTTGACAAGTGTTGAATATAAGC
77462709 AATCTTTGACAAGTGTTGAATATAAGC
1 AATCTTTGACAAGTGTTGAATATAAGC
77462736 A
1 A
77462737 TGTACGGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (27 bp):
AATCTTTGACAAGTGTTGAATATAAGC
Found at i:77466846 original size:18 final size:20
Alignment explanation
Indices: 77466809--77466847 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
77466799 TTGTTATTTT
*
77466809 TACATTGTTATTATTATATA
1 TACATTGTTATTAGTATATA
77466829 TACA-TGTT-TTAGTATATA
1 TACATTGTTATTAGTATATA
77466847 T
1 T
77466848 GTATATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 4 0.22
20 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (20 bp):
TACATTGTTATTAGTATATA
Found at i:77467102 original size:20 final size:20
Alignment explanation
Indices: 77467079--77467116 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
77467069 TGTTATATAC
*
77467079 GTATATATTATGTGTATTTT
1 GTATATATTATGTATATTTT
77467099 GTATATATTATGTATATT
1 GTATATATTATGTATATT
77467117 ATTATCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (20 bp):
GTATATATTATGTATATTTT
Found at i:77467112 original size:11 final size:11
Alignment explanation
Indices: 77467079--77467121 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
77467069 TGTTATATAC
77467079 GTATATATTAT
1 GTATATATTAT
*
77467090 GTGTAT-TT-T
1 GTATATATTAT
77467099 GTATATATTAT
1 GTATATATTAT
77467110 GTATATTATTAT
1 GTATA-TATTAT
77467122 CTTTATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 6 0.22
10 4 0.15
11 11 0.41
12 6 0.22
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (11 bp):
GTATATATTAT
Found at i:77467199 original size:21 final size:21
Alignment explanation
Indices: 77467170--77467209 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
77467160 ATTCATGTAT
*
77467170 TTTATTATATATGTATATATC
1 TTTAATATATATGTATATATC
*
77467191 TTTAATATATATTTATATA
1 TTTAATATATATGTATATA
77467210 AGTATATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAATATATATGTATATATC
Found at i:77467309 original size:24 final size:25
Alignment explanation
Indices: 77467282--77467332 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
77467272 ATGTGTGTAC
*
77467282 ATATTATGTAAATGTTTTA-ATATT
1 ATATTATATAAATGTTTTATATATT
**
77467306 ATATTATATGTATGTTTTATATATT
1 ATATTATATAAATGTTTTATATATT
77467331 AT
1 AT
77467333 GAACATGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (25 bp):
ATATTATATAAATGTTTTATATATT
Found at i:77470946 original size:2 final size:2
Alignment explanation
Indices: 77470939--77470974 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
77470929 ACTATAAACC
77470939 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
77470975 GTTGTTCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:77473407 original size:21 final size:21
Alignment explanation
Indices: 77473381--77473421 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
77473371 ATCTGCTCAA
* *
77473381 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
77473402 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
77473422 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:77478625 original size:93 final size:93
Alignment explanation
Indices: 77478466--77478652 Score: 356
Period size: 93 Copynumber: 2.0 Consensus size: 93
77478456 TTAGAGTGGG
* *
77478466 ATTGGATTGGAAGTCCAGTGAGAATGCCACTGCCGACATCAGAAGGCATTACCCCAAGCAAGAAC
1 ATTGGATTGGAAGTCCAATGAGAATGCCACTGCCGACATCAGAAGGCACTACCCCAAGCAAGAAC
77478531 AAGGCCCATTGTGTGCCAAAGCCAAGGA
66 AAGGCCCATTGTGTGCCAAAGCCAAGGA
77478559 ATTGGATTGGAAGTCCAATGAGAATGCCACTGCCGACATCAGAAGGCACTACCCCAAGCAAGAAC
1 ATTGGATTGGAAGTCCAATGAGAATGCCACTGCCGACATCAGAAGGCACTACCCCAAGCAAGAAC
77478624 AAGGCCCATTGTGTGCCAAAGCCAAGGA
66 AAGGCCCATTGTGTGCCAAAGCCAAGGA
77478652 A
1 A
77478653 GAAAGGCATT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.16
Consensus pattern (93 bp):
ATTGGATTGGAAGTCCAATGAGAATGCCACTGCCGACATCAGAAGGCACTACCCCAAGCAAGAAC
AAGGCCCATTGTGTGCCAAAGCCAAGGA
Found at i:77482201 original size:16 final size:16
Alignment explanation
Indices: 77482182--77482217 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
77482172 CAAGGAAATG
77482182 ATAAGGCAAGAAATAC
1 ATAAGGCAAGAAATAC
77482198 ATAAGGCAAGAAATAC
1 ATAAGGCAAGAAATAC
77482214 ATAA
1 ATAA
77482218 TTCCACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.58, C:0.11, G:0.17, T:0.14
Consensus pattern (16 bp):
ATAAGGCAAGAAATAC
Found at i:77488711 original size:14 final size:14
Alignment explanation
Indices: 77488694--77488720 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77488684 GTAAGTCCTT
77488694 ATAAAGAGTATACA
1 ATAAAGAGTATACA
77488708 ATAAAGAGTATAC
1 ATAAAGAGTATAC
77488721 CAATTACTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (14 bp):
ATAAAGAGTATACA
Found at i:77499490 original size:19 final size:18
Alignment explanation
Indices: 77499435--77499480 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
77499425 TAAAAAAGTC
77499435 AAAATAATA-TATAAAAATT
1 AAAA-AATATTATAAAAA-T
*
77499454 GAAAAATATTATAAAAAT
1 AAAAAATATTATAAAAAT
77499472 AAAAAATAT
1 AAAAAATAT
77499481 ATATTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAAAATATTATAAAAAT
Found at i:77499706 original size:19 final size:21
Alignment explanation
Indices: 77499673--77499721 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
77499663 TTTTACAATC
*
77499673 TATATGTTTTCTTCT-AGTTTT
1 TATAT-TTTTCTTCTGAATTTT
77499694 TATATTTTT-TTCTGAATTTT
1 TATATTTTTCTTCTGAATTTT
77499714 TAT-TTTTT
1 TATATTTTT
77499722 ATTTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 9 0.35
20 12 0.46
21 5 0.19
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.71
Consensus pattern (21 bp):
TATATTTTTCTTCTGAATTTT
Found at i:77500373 original size:19 final size:20
Alignment explanation
Indices: 77500335--77500373 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
77500325 ACACAATTAA
*
77500335 TTTAATCAATCAAATAAATG
1 TTTAAACAATCAAATAAATG
*
77500355 TTTAAACAAT-AATTAAATG
1 TTTAAACAATCAAATAAATG
77500374 AAAGTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (20 bp):
TTTAAACAATCAAATAAATG
Found at i:77501104 original size:14 final size:14
Alignment explanation
Indices: 77501085--77501137 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
77501075 ACCTTGTGAC
77501085 TTAAATAAAAATTT
1 TTAAATAAAAATTT
***
77501099 TTAAATAATTTTGTGAT
1 TTAAATAAAAAT-T--T
77501116 TTAAATAAAAATTT
1 TTAAATAAAAATTT
77501130 TTAAATAA
1 TTAAATAA
77501138 TTCAATAATC
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
14 18 0.60
15 1 0.03
16 1 0.03
17 10 0.33
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (14 bp):
TTAAATAAAAATTT
Found at i:77501113 original size:31 final size:31
Alignment explanation
Indices: 77501078--77501139 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
77501068 CTTAGCAACC
77501078 TTGTGACTTAAATAAAAATTTTTAAATAATT
1 TTGTGACTTAAATAAAAATTTTTAAATAATT
*
77501109 TTGTGATTTAAATAAAAATTTTTAAATAATT
1 TTGTGACTTAAATAAAAATTTTTAAATAATT
77501140 CAATAATCAT
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:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (31 bp):
TTGTGACTTAAATAAAAATTTTTAAATAATT
Found at i:77507203 original size:17 final size:18
Alignment explanation
Indices: 77507172--77507209 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
77507162 ACTTTCTAAA
77507172 AATTTAAAATAAAAT-CT
1 AATTTAAAATAAAATACT
77507189 AATTTAAAA-ATAAATACT
1 AATTTAAAATA-AAATACT
77507207 AAT
1 AAT
77507210 ACTACAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.05
17 13 0.68
18 5 0.26
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTTAAAATAAAATACT
Found at i:77523975 original size:60 final size:56
Alignment explanation
Indices: 77523856--77523976 Score: 140
Period size: 60 Copynumber: 2.1 Consensus size: 56
77523846 TTAGTCACTT
*
77523856 AATTTTAAAAAATTATAAATTTTTTAATTTTTAAATAGTTCAATGATCTAAATAAA
1 AATTTTAAAAAATTATAAATTTTTTAATTTTTAAATAGTTCAATGATCAAAATAAA
*
77523912 AATTTTAAAAAAAGTTAATAAATATTTTATAACTTTTTAAA-A-TT-AATTGATCAAAATATA
1 AATTTT-AAAAAA-TT-ATAAAT-TTTT-TAA-TTTTTAAATAGTTCAA-TGATCAAAATAAA
77523972 AATTT
1 AATTT
77523977 ATTAATAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
56 6 0.11
57 6 0.11
58 2 0.04
59 8 0.14
60 22 0.39
61 4 0.07
62 8 0.14
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (56 bp):
AATTTTAAAAAATTATAAATTTTTTAATTTTTAAATAGTTCAATGATCAAAATAAA
Found at i:77536117 original size:87 final size:87
Alignment explanation
Indices: 77536017--77536282 Score: 451
Period size: 89 Copynumber: 3.0 Consensus size: 87
77536007 CTTACGAAAA
77536017 ATGTATTAAACATATTGATTATATTGAAATCATTTATAAATATGGTTGGTAAGCTATAGGGATTT
1 ATGTATTAAACATATTGATTATATTGAAATCATTTATAAATATGGTTGGTAAGCTATAGGGATTT
77536082 CACTTCTTTTTGTTATATATGT
66 CACTTCTTTTTGTTATATATGT
*
77536104 ATGTATTAAACATATTGATTATATTGAAATCATTTATAAATATGATTGGTAAGCTATAGGGATTT
1 ATGTATTAAACATATTGATTATATTGAAATCATTTATAAATATGGTTGGTAAGCTATAGGGATTT
77536169 CACTTCTTTTTGTTATATATATGT
66 CACTTCTTTTTG-T-TATATATGT
* * *
77536193 ATGTATTAAACATATTGATTATATTGAAATCATTTACAAATATAGTTGGTAAGTTATAGGGATTT
1 ATGTATTAAACATATTGATTATATTGAAATCATTTATAAATATGGTTGGTAAGCTATAGGGATTT
* *
77536258 CACTTCTTCTTTTTTATTTATGT
66 CACTTCTT-TTTGTTATATATGT
77536281 AT
1 AT
77536283 ATATGTATTT
Statistics
Matches: 169, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
87 76 0.45
88 11 0.07
89 79 0.47
90 3 0.02
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.47
Consensus pattern (87 bp):
ATGTATTAAACATATTGATTATATTGAAATCATTTATAAATATGGTTGGTAAGCTATAGGGATTT
CACTTCTTTTTGTTATATATGT
Found at i:77544852 original size:110 final size:110
Alignment explanation
Indices: 77544628--77544955 Score: 442
Period size: 110 Copynumber: 3.0 Consensus size: 110
77544618 AATAGTTTCA
* * * * *
77544628 CTATGTATGCAGTATTGCTAAATCTAGTTTTAGATATCATTTTGGAATCATATGTGATTTTCTAA
1 CTATGTATGCAGTATGGTTAAATCTAGTTATAGATATCATTTTGGAATCATATATGATTTTGT-A
* *
77544693 TATAAACCTATGGAAAATGCTATGGTATTGGACTGCACTTAATCCT
65 TATAAACCTATGGAAAATGCTATGGTATTGGACTGCACTTAGTCAT
* * * * *
77544739 CTATGCATGCTGTATGGTTAAATATAGTTCTAGCTATCATTTTGGAATCATATATGATTTTGTAT
1 CTATGTATGCAGTATGGTTAAATCTAGTTATAGATATCATTTTGGAATCATATATGATTTTGTAT
* * *
77544804 ATAAACCTATAGTAAATGCTATGGTATTGGATTGCACTTAGTCAT
66 ATAAACCTATGGAAAATGCTATGGTATTGGACTGCACTTAGTCAT
* * *
77544849 CTATGTATGCAGTATGGTTAAATCTAGTTATAGATATCATCTTGGAATCAT-TGACGATTTTGTT
1 CTATGTATGCAGTATGGTTAAATCTAGTTATAGATATCATTTTGGAATCATAT-ATGATTTTGTA
* * *
77544913 TATAAACCTATGGGAAATGCTATGATATTGGACTGCTCTTAGT
65 TATAAACCTATGGAAAATGCTATGGTATTGGACTGCACTTAGT
77544956 GCTCGTTTAA
Statistics
Matches: 189, Mismatches: 27, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
109 1 0.01
110 134 0.71
111 54 0.29
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (110 bp):
CTATGTATGCAGTATGGTTAAATCTAGTTATAGATATCATTTTGGAATCATATATGATTTTGTAT
ATAAACCTATGGAAAATGCTATGGTATTGGACTGCACTTAGTCAT
Found at i:77547548 original size:25 final size:26
Alignment explanation
Indices: 77547511--77547562 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
77547501 TATTTTAAGT
* *
77547511 ATAAAATATTTAT-TTTTATATAAAA
1 ATAAAATATTTATATATTAAATAAAA
77547536 ATAAAAT-TATTATATATTAAATAAAA
1 ATAAAATAT-TTATATATTAAATAAAA
77547562 A
1 A
77547563 AAAGGAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 11 0.48
26 11 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATAAAATATTTATATATTAAATAAAA
Found at i:77551504 original size:31 final size:31
Alignment explanation
Indices: 77551461--77551521 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
77551451 CTAGGCACCT
* *
77551461 AATTGAATATT-AAAGTAAAATTTAGATACTA
1 AATTAAATATTAAAACT-AAATTTAGATACTA
77551492 AATTAAATATTAAAACTAAATTTAGATACT
1 AATTAAATATTAAAACTAAATTTAGATACT
77551522 CAACTGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (31 bp):
AATTAAATATTAAAACTAAATTTAGATACTA
Found at i:77555766 original size:30 final size:30
Alignment explanation
Indices: 77555670--77555756 Score: 138
Period size: 30 Copynumber: 2.9 Consensus size: 30
77555660 ATCGACCGCA
*
77555670 GGGAGAAACCAAGGAAAAGCACCGATACCC
1 GGGAAAAACCAAGGAAAAGCACCGATACCC
* *
77555700 GGGACAAGCCAAGGAAAAGCACCGATACCC
1 GGGAAAAACCAAGGAAAAGCACCGATACCC
*
77555730 GGGAAAAACCAAGGAAAAGCATCGATA
1 GGGAAAAACCAAGGAAAAGCACCGATA
77555757 GGCCTGAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.45, C:0.24, G:0.26, T:0.05
Consensus pattern (30 bp):
GGGAAAAACCAAGGAAAAGCACCGATACCC
Found at i:77556803 original size:5 final size:6
Alignment explanation
Indices: 77556788--77556828 Score: 55
Period size: 6 Copynumber: 6.3 Consensus size: 6
77556778 TTGAATTCTG
77556788 AAAAAT AAAAAT AAAAAT AAAAATTT AAGAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAA--T AA-AAAT AAAAAT AA
77556829 TAAAATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 23 0.72
7 3 0.09
8 3 0.09
9 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:77556822 original size:21 final size:22
Alignment explanation
Indices: 77556788--77556837 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
77556778 TTGAATTCTG
*
77556788 AAAAATAA-AAATAAAAATAA-
1 AAAATTAAGAAATAAAAATAAT
*
77556808 AAATTTAAGAAATAAAAATAAT
1 AAAATTAAGAAATAAAAATAAT
77556830 AAAATTAA
1 AAAATTAA
77556838 ATTTCAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 6 0.24
21 12 0.48
22 7 0.28
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAATTAAGAAATAAAAATAAT
Found at i:77556838 original size:15 final size:15
Alignment explanation
Indices: 77556797--77556838 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
77556787 GAAAAATAAA
77556797 AATAAAAATAAAAAT
1 AATAAAAATAAAAAT
*
77556812 -TTAAGAAATAAAAAT
1 AATAA-AAATAAAAAT
*
77556827 AATAAAATTAAA
1 AATAAAAATAAA
77556839 TTTCAAACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 3 0.14
15 16 0.73
16 3 0.14
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (15 bp):
AATAAAAATAAAAAT
Found at i:77559370 original size:30 final size:29
Alignment explanation
Indices: 77559336--77559407 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
77559326 TGTTACGAGT
* * * *
77559336 GGACTTACTTGATTCTTTTTAATAGTATAA
1 GGACTAACTTGATTC-ATTTAATAATAGAA
* *
77559366 GGACTAAATTGATTCATTTAATAATAGAG
1 GGACTAACTTGATTCATTTAATAATAGAA
77559395 GGACTAACTTGAT
1 GGACTAACTTGAT
77559408 CTAGTCTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
29 22 0.63
30 13 0.37
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.39
Consensus pattern (29 bp):
GGACTAACTTGATTCATTTAATAATAGAA
Found at i:77563415 original size:4 final size:4
Alignment explanation
Indices: 77563406--77563436 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
77563396 AAAGAAGCAT
77563406 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
77563437 TATATATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:77567237 original size:22 final size:22
Alignment explanation
Indices: 77567211--77567260 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
77567201 AAATTATTAA
77567211 AAATTTTATGTTTTGATCACTT
1 AAATTTTATGTTTTGATCACTT
77567233 AAATTTTATGTTTTGATCACTT
1 AAATTTTATGTTTTGATCACTT
77567255 AAATTT
1 AAATTT
77567261 AAAAAGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.54
Consensus pattern (22 bp):
AAATTTTATGTTTTGATCACTT
Found at i:77581173 original size:13 final size:14
Alignment explanation
Indices: 77581155--77581185 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
77581145 ATTTTCGTAT
77581155 ATAAAAAAGA-AAA
1 ATAAAAAAGACAAA
77581168 ATAAAAAAGACAAA
1 ATAAAAAAGACAAA
77581182 ATAA
1 ATAA
77581186 GTGAACTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.81, C:0.03, G:0.06, T:0.10
Consensus pattern (14 bp):
ATAAAAAAGACAAA
Found at i:77582178 original size:44 final size:44
Alignment explanation
Indices: 77582082--77582324 Score: 189
Period size: 44 Copynumber: 5.6 Consensus size: 44
77582072 TTTTAATCCA
* ** *
77582082 CTCCACTGTAA-CTTCAGGGAGATAGGAT-AGTGTCTTCGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTCTGTCTTCAATCTG
* *
77582125 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTCTGTCTTCAATCTG
* *
77582169 CTCCACTGTAACCTCAGGGAGATAAGATC-C--T-TT-AATCCG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTCTGTCTTCAATCTG
* * * * **
77582208 CTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-CTGTCTTCAATCTG
* * * ***
77582252 CTCCGCTGTAATCTCAAGGAGATAAGATCTGAAAT-TCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---CTGTCTTCAATCTG
*
77582298 TTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
77582325 CCTGTATTAT
Statistics
Matches: 165, Mismatches: 24, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
39 29 0.18
40 3 0.02
42 1 0.01
43 27 0.16
44 68 0.41
45 1 0.01
46 34 0.21
47 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTCTGTCTTCAATCTG
Found at i:77595687 original size:13 final size:14
Alignment explanation
Indices: 77595669--77595699 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
77595659 ATTTTCGTAT
77595669 ATAAAAAAGA-AAA
1 ATAAAAAAGACAAA
77595682 ATAAAAAAGACAAA
1 ATAAAAAAGACAAA
77595696 ATAA
1 ATAA
77595700 GTGAACTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.81, C:0.03, G:0.06, T:0.10
Consensus pattern (14 bp):
ATAAAAAAGACAAA
Found at i:77599281 original size:18 final size:17
Alignment explanation
Indices: 77599252--77599301 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
77599242 ACAACTTTTA
77599252 AAATTAATAATTATAATTT
1 AAATT-ATAATTAT-ATTT
*
77599271 AAATTATAATTATTTTT
1 AAATTATAATTATATTT
77599288 AAATATATAATTAT
1 AAAT-TATAATTAT
77599302 CATAAATTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 7 0.24
18 17 0.59
19 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTATAATTATATTT
Found at i:77599603 original size:20 final size:20
Alignment explanation
Indices: 77599578--77599616 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
77599568 CATATTGTTC
*
77599578 TTCCTATTTGAGTTTATCCT
1 TTCCTATATGAGTTTATCCT
77599598 TTCCTATATGAGTTTATCC
1 TTCCTATATGAGTTTATCC
77599617 GAGAGATAAG
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:0.18, C:0.21, G:0.10, T:0.51
Consensus pattern (20 bp):
TTCCTATATGAGTTTATCCT
Found at i:77599817 original size:21 final size:20
Alignment explanation
Indices: 77599793--77599836 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
77599783 TTATTTTTAA
*
77599793 ATATTTATATTATAATATGAT
1 ATATTTATATTAT-ATATCAT
*
77599814 ATATTTATTTTATATATCAT
1 ATATTTATATTATATATCAT
77599834 ATA
1 ATA
77599837 AATTACCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
ATATTTATATTATATATCAT
Found at i:77599863 original size:24 final size:26
Alignment explanation
Indices: 77599818--77599865 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
77599808 TATGATATAT
* *
77599818 TTATTTTATATATCATATAAATTACC
1 TTATTTTATATATAATAAAAATTACC
77599844 TTATTTTATA-A-AATAAAAATTA
1 TTATTTTATATATAATAAAAATTA
77599866 TCATATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 1 0.05
26 10 0.50
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATTTTATATATAATAAAAATTACC
Found at i:77613125 original size:6 final size:6
Alignment explanation
Indices: 77613114--77613143 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
77613104 AACCATGAAT
*
77613114 CTAGCA CTAGCA CTAGCA CTAGCA CAAGCA
1 CTAGCA CTAGCA CTAGCA CTAGCA CTAGCA
77613144 ATGGAAGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.37, C:0.33, G:0.17, T:0.13
Consensus pattern (6 bp):
CTAGCA
Found at i:77620258 original size:32 final size:31
Alignment explanation
Indices: 77620222--77620323 Score: 96
Period size: 33 Copynumber: 3.2 Consensus size: 31
77620212 ACTTGAGGTG
*
77620222 TACATTCCTTTCCAAATGATACACAAAAAGTA
1 TACATTCCTTTCCAAATG-TACACACAAAGTA
* * *
77620254 TACATTTCCTTTTCATATGGTATACACAAAGTA
1 TACA-TTCCTTTCCAAAT-GTACACACAAAGTA
* * * *
77620287 TACCTAACCTTTCCAAGTGTACACACAAAGTG
1 TACAT-TCCTTTCCAAATGTACACACAAAGTA
77620319 TACAT
1 TACAT
77620324 AACTTTTTCA
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
32 21 0.38
33 33 0.60
34 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (31 bp):
TACATTCCTTTCCAAATGTACACACAAAGTA
Found at i:77620336 original size:32 final size:33
Alignment explanation
Indices: 77620228--77620341 Score: 90
Period size: 33 Copynumber: 3.5 Consensus size: 33
77620218 GGTGTACATT
* * **
77620228 CCTTTCCAA-ATGATACACAAAAAGTATACATTT
1 CCTTTCCAAGTTG-TACACACAAAGTATACATAA
* * * *
77620261 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTCCA-AGTTGTACACACAAAGTATACATAA
*
77620294 CCTTTCCAAG-TGTACACACAAAGTGTACATAA
1 CCTTTCCAAGTTGTACACACAAAGTATACATAA
* *
77620326 CTTTTTCAAGTTGTAC
1 CCTTTCCAAGTTGTAC
77620342 CATTTGCGTA
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
32 27 0.43
33 34 0.54
34 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (33 bp):
CCTTTCCAAGTTGTACACACAAAGTATACATAA
Found at i:77622359 original size:29 final size:29
Alignment explanation
Indices: 77622324--77622397 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
77622314 GTTGTGAGAT
* *
77622324 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
77622353 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
77622382 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
77622398 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:77631686 original size:25 final size:26
Alignment explanation
Indices: 77631658--77631706 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
77631648 CTTATTTCAT
77631658 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAATATAA
* *
77631683 TAAATCAAATATATTTAAAAATAT
1 TAAATAAAAAATATTTAAAAATAT
77631707 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAATATAA
Found at i:77631715 original size:24 final size:25
Alignment explanation
Indices: 77631670--77631717 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
77631660 AATAAAAAAT
*
77631670 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAATAT-ATAAAACAAATATA
77631696 TTTAAAAATAT-TAAAACAAATA
1 TTTAAAAATATATAAAACAAATA
77631718 AAAATAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
26 11 0.52
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
TTTAAAAATATATAAAACAAATATA
Found at i:77634474 original size:9 final size:9
Alignment explanation
Indices: 77634460--77634513 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
77634450 AAGACCAGGG
77634460 AAAGAAATA
1 AAAGAAATA
77634469 AAAGAAATA
1 AAAGAAATA
77634478 ACATA-AAATA
1 A-A-AGAAATA
77634488 AAAGAAATA
1 AAAGAAATA
* *
77634497 AAACAAAGAA
1 AAAGAAA-TA
77634507 AAAGAAA
1 AAAGAAA
77634514 AAGAAAGGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
8 1 0.03
9 22 0.58
10 14 0.37
11 1 0.03
ACGTcount: A:0.78, C:0.04, G:0.09, T:0.09
Consensus pattern (9 bp):
AAAGAAATA
Found at i:77634509 original size:19 final size:19
Alignment explanation
Indices: 77634464--77634513 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
77634454 CCAGGGAAAG
* *
77634464 AAATAAAAGAAATAACATA
1 AAATAAAAGAAATAAAACA
77634483 AAATAAAAGAAATAAAACA
1 AAATAAAAGAAATAAAACA
77634502 AAGA-AAAAGAAA
1 AA-ATAAAAGAAA
77634514 AAGAAAGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 27 0.96
20 1 0.04
ACGTcount: A:0.78, C:0.04, G:0.08, T:0.10
Consensus pattern (19 bp):
AAATAAAAGAAATAAAACA
Found at i:77638477 original size:53 final size:53
Alignment explanation
Indices: 77638396--77638546 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
77638386 CTTACACGGT
* *
77638396 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
* *
77638451 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
77638504 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
77638547 GCGCACTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:77641349 original size:51 final size:51
Alignment explanation
Indices: 77641294--77641429 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 51
77641284 TGGAAACATG
* *
77641294 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATATA
1 ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAGATAAGATATATA
* * * * * *
77641345 ATCTTATAAGATATTATTTTATAGA-ATTACATATCTTAGATAAGATATGTA
1 ATCTTAAAAGATATAATTTTATA-ATCTTAGAGATCTTAGATAAGATATATA
* *
77641396 ATCTTAGAAGATATAATTTTATATTCTTAGAGAT
1 ATCTTAAAAGATATAATTTTATAATCTTAGAGAT
77641430 TTAATTGTAG
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
51 69 0.99
52 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (51 bp):
ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAGATAAGATATATA
Found at i:77646927 original size:23 final size:22
Alignment explanation
Indices: 77646901--77646957 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
77646891 AAATGAAGGA
*
77646901 ATAAAAATTATTTAATTTTAATT
1 ATAAAAATTATTTAATATTAA-T
77646924 ATAAAAA-TA-TTAATATTAAT
1 ATAAAAATTATTTAATATTAAT
*
77646944 ATAATAATATATTT
1 ATAAAAAT-TATTT
77646958 TTAAAAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 7 0.24
21 9 0.31
22 4 0.14
23 9 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAAAATTATTTAATATTAAT
Found at i:77647680 original size:23 final size:23
Alignment explanation
Indices: 77647638--77647682 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
77647628 AAATTATATT
77647638 TTTAAAAAGAAATTTCAAAATCC
1 TTTAAAAAGAAATTTCAAAATCC
*
77647661 TTTAAAATATAAATTT-AAAATC
1 TTTAAAA-AGAAATTTCAAAATC
77647683 TGCATTATTG
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:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (23 bp):
TTTAAAAAGAAATTTCAAAATCC
Found at i:77660928 original size:22 final size:22
Alignment explanation
Indices: 77660903--77660945 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
77660893 AATAAACAAG
*
77660903 TTTACTTGTTTGATTAGTGGAC
1 TTTACTTATTTGATTAGTGGAC
77660925 TTTACTTATTTGATTAGTGGA
1 TTTACTTATTTGATTAGTGGA
77660946 ATCTGGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.51
Consensus pattern (22 bp):
TTTACTTATTTGATTAGTGGAC
Found at i:77663221 original size:23 final size:24
Alignment explanation
Indices: 77663185--77663232 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
77663175 TTCAAAATGG
*
77663185 TTAAAATCATTAATTAAAAAAAAT
1 TTAAAATCACTAATTAAAAAAAAT
* *
77663209 TTAAAAT-ACTAATTACAAATAAT
1 TTAAAATCACTAATTAAAAAAAAT
77663232 T
1 T
77663233 AATACTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (24 bp):
TTAAAATCACTAATTAAAAAAAAT
Found at i:77663733 original size:30 final size:30
Alignment explanation
Indices: 77663610--77663741 Score: 122
Period size: 30 Copynumber: 4.4 Consensus size: 30
77663600 AAGGCCCACG
* * * *
77663610 GTCCATGCAGAAG-CTACAAAAGCGCCGACG
1 GTCCATGCAGAAGTC-GCAGAAGCGCCAACT
* *
77663640 GACCATGCAGAAGTCGCAGAAGCGCCGACT
1 GTCCATGCAGAAGTCGCAGAAGCGCCAACT
* * * *
77663670 ATCTATGCAGAAGTCGTAGAAGCGTCAACT
1 GTCCATGCAGAAGTCGCAGAAGCGCCAACT
* * *
77663700 GTCCATGCAGAAGCCGCAGAAGCGGCAATT
1 GTCCATGCAGAAGTCGCAGAAGCGCCAACT
*
77663730 GTCCATGGAGAA
1 GTCCATGCAGAA
77663742 CTCTTAGAAG
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
30 83 0.99
31 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.28, T:0.14
Consensus pattern (30 bp):
GTCCATGCAGAAGTCGCAGAAGCGCCAACT
Found at i:77663750 original size:60 final size:60
Alignment explanation
Indices: 77663642--77663757 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
77663632 CGCCGACGGA
* * * * *
77663642 CCATGCAGAAGTCGCAGAAGCGCCGACTATCTATGCAGAAGTCGTAGAAGCGTCAACTGT
1 CCATGCAGAAGCCGCAGAAGCGCCAACTATCCATGCAGAACTCGTAGAAGCCTCAACTGT
* * * * *
77663702 CCATGCAGAAGCCGCAGAAGCGGCAATTGTCCATGGAGAACTCTTAGAAGCCTCAA
1 CCATGCAGAAGCCGCAGAAGCGCCAACTATCCATGCAGAACTCGTAGAAGCCTCAA
77663758 AAATGCCCAC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.17
Consensus pattern (60 bp):
CCATGCAGAAGCCGCAGAAGCGCCAACTATCCATGCAGAACTCGTAGAAGCCTCAACTGT
Found at i:77667307 original size:20 final size:21
Alignment explanation
Indices: 77667274--77667313 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
77667264 GGTTCAATTA
77667274 AATATATAATTAAAAATTTAT
1 AATATATAATTAAAAATTTAT
77667295 AATATAT-ATTAAAAATTTA
1 AATATATAATTAAAAATTTA
77667314 GTTAAACCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATATATAATTAAAAATTTAT
Found at i:77668158 original size:17 final size:16
Alignment explanation
Indices: 77668123--77668165 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
77668113 ATTAATGACC
* *
77668123 AAATTTAACTTTAAAA
1 AAATTTAAATTAAAAA
77668139 AAATTTAAATTAATAAA
1 AAATTTAAATTAA-AAA
*
77668156 AAATATAAAT
1 AAATTTAAAT
77668166 ATTAAAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATTTAAATTAAAAA
Found at i:77692850 original size:21 final size:23
Alignment explanation
Indices: 77692816--77692869 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
77692806 ATTATAGAAA
*
77692816 AATACATAATTTTAAA-AA-ATAT
1 AATA-ATAAATTTAAATAATATAT
77692838 AATAATAAATTTAAATAATATAT
1 AATAATAAATTTAAATAATATAT
*
77692861 AAAAATAAA
1 AATAATAAA
77692870 AAATCATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.36
22 6 0.21
23 12 0.43
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AATAATAAATTTAAATAATATAT
Found at i:77696472 original size:18 final size:18
Alignment explanation
Indices: 77696446--77696480 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
77696436 ACCAATGATC
*
77696446 TTGAGAGGTACCTCTTTT
1 TTGACAGGTACCTCTTTT
*
77696464 TTGACAGGTTCCTCTTT
1 TTGACAGGTACCTCTTT
77696481 CTCAGACAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (18 bp):
TTGACAGGTACCTCTTTT
Found at i:77707537 original size:32 final size:34
Alignment explanation
Indices: 77707500--77707565 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
77707490 TTTAATTGTG
*
77707500 TTAATAATTAAA-C-AAATTTTAAAATCTGAAAA
1 TTAATAATTAAACCTAAATTTTAAAATCCGAAAA
* *
77707532 TTAATAGTTAAACCTAAATTTTAAGATCCGAAAA
1 TTAATAATTAAACCTAAATTTTAAAATCCGAAAA
77707566 ATAGGACTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 11 0.38
33 1 0.03
34 17 0.59
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (34 bp):
TTAATAATTAAACCTAAATTTTAAAATCCGAAAA
Found at i:77712384 original size:16 final size:15
Alignment explanation
Indices: 77712359--77712406 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
77712349 CTATTTTAAG
77712359 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
77712374 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
77712391 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
77712406 T
1 T
77712407 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:77718067 original size:16 final size:16
Alignment explanation
Indices: 77718046--77718097 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
77718036 TTTGGTTCGC
77718046 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
77718062 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
* *
77718078 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
77718094 TGTA
1 TGTA
77718098 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:77718144 original size:45 final size:44
Alignment explanation
Indices: 77718078--77718172 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
77718068 GGATTAGAAG
* *
77718078 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
77718123 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
77718167 TGTAAT
1 TGTAAT
77718173 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:77718342 original size:25 final size:25
Alignment explanation
Indices: 77718310--77718364 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
77718300 TAATTTAATC
*
77718310 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
77718334 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
77718359 ATATAT
1 ATATAT
77718365 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:77718546 original size:47 final size:46
Alignment explanation
Indices: 77718495--77718655 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
77718485 GATTTAATAA
77718495 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
77718542 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
77718583 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
77718630 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
77718656 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:77724419 original size:21 final size:21
Alignment explanation
Indices: 77724385--77724424 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
77724375 GAATTAAATA
*
77724385 AATTTTTATAATT-ATTTTGT
1 AATTTTTAAAATTAATTTTGT
77724405 AATTTGTTAAAATTAATTTT
1 AATTT-TTAAAATTAATTTT
77724425 TCTAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 7 0.41
22 5 0.29
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
AATTTTTAAAATTAATTTTGT
Found at i:77732759 original size:22 final size:23
Alignment explanation
Indices: 77732716--77732759 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
77732706 AATAATTCTA
* *
77732716 AAAATATTAAAAATAGAGAAATT
1 AAAATATTAAAAATAAAAAAATT
*
77732739 AAAAT-TTTAAAATAAAAAAAT
1 AAAATATTAAAAATAAAAAAAT
77732760 AAGGATTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (23 bp):
AAAATATTAAAAATAAAAAAATT
Found at i:77760567 original size:25 final size:25
Alignment explanation
Indices: 77760533--77760640 Score: 125
Period size: 25 Copynumber: 4.4 Consensus size: 25
77760523 GACTTCAGCA
77760533 TGCTCTCTGA-ATATTAGCACGCCAG
1 TGCTCTCTGATAT-TTAGCACGCCAG
****
77760558 TGCTCTCTG--A-TTAGCACATTTG
1 TGCTCTCTGATATTTAGCACGCCAG
77760580 TGCTCTCTGATATTTAGCACGCCAG
1 TGCTCTCTGATATTTAGCACGCCAG
* *
77760605 TGCTCTATGATATTTAGCACGTCAG
1 TGCTCTCTGATATTTAGCACGCCAG
77760630 TGCTCTCTGAT
1 TGCTCTCTGAT
77760641 TAGCACATTT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
22 17 0.25
24 2 0.03
25 50 0.72
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (25 bp):
TGCTCTCTGATATTTAGCACGCCAG
Found at i:77760644 original size:47 final size:45
Alignment explanation
Indices: 77760533--77760682 Score: 124
Period size: 47 Copynumber: 3.2 Consensus size: 45
77760523 GACTTCAGCA
* **
77760533 TGCTCTCTGAATATTAGCACGCCAGTGCTCTCTGATTAGCACATTTG
1 TGCTCTCTG-A-ATTAGCACGCCAGTGCTCTATGATTAGCACATCAG
*
77760580 TGCTCTCTGATATTTAGCACGCCAGTGCTCTATGATATTTAGCACGTCAG
1 TGCTCTCTGA-A-TTAGCACGCCAGTGCTCTATG--A-TTAGCACATCAG
**** * *
77760630 TGCTCTCTG-ATTAGCACATTTGTGCTCTCTG-TATAGCACTTCAG
1 TGCTCTCTGAATTAGCACGCCAGTGCTCTATGAT-TAGCACATCAG
77760674 TGCTCTCTG
1 TGCTCTCTG
77760683 TTCATTAGTG
Statistics
Matches: 88, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 19 0.22
46 3 0.03
47 45 0.51
48 1 0.01
49 1 0.01
50 18 0.20
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (45 bp):
TGCTCTCTGAATTAGCACGCCAGTGCTCTATGATTAGCACATCAG
Found at i:77760683 original size:22 final size:23
Alignment explanation
Indices: 77760524--77760683 Score: 123
Period size: 22 Copynumber: 6.7 Consensus size: 23
77760514 ATGTTAAGGG
77760524 ACTTCAGCATGCTCTCTGAATATTAGC
1 ACTTCAG--TGCTCTCTG--TATTAGC
**
77760551 ACGCCAGTGCTCTCTG-ATTAGC
1 ACTTCAGTGCTCTCTGTATTAGC
*
77760573 ACATT-TGTGCTCTCTGATATTTAGC
1 AC-TTCAGTGCTCTCTG-TA-TTAGC
** *
77760598 ACGCCAGTGCTCTATGATATTTAGC
1 ACTTCAGTGCTCTCTG-TA-TTAGC
*
77760623 ACGTCAGTGCTCTCTG-ATTAGC
1 ACTTCAGTGCTCTCTGTATTAGC
*
77760645 ACATT-TGTGCTCTCTGTA-TAGC
1 AC-TTCAGTGCTCTCTGTATTAGC
77760667 ACTTCAGTGCTCTCTGT
1 ACTTCAGTGCTCTCTGT
77760684 TCATTAGTGC
Statistics
Matches: 111, Mismatches: 14, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
21 2 0.02
22 52 0.47
23 3 0.03
24 1 0.01
25 48 0.43
27 5 0.05
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.36
Consensus pattern (23 bp):
ACTTCAGTGCTCTCTGTATTAGC
Found at i:77775662 original size:4 final size:4
Alignment explanation
Indices: 77775653--77775686 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
77775643 AGAATAGGGG
*
77775653 AGAA AGAA AGGAA AGAA AGAA AGAA AGGA AGAA A
1 AGAA AGAA A-GAA AGAA AGAA AGAA AGAA AGAA A
77775687 AGGGAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:77775688 original size:17 final size:17
Alignment explanation
Indices: 77775653--77775686 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
77775643 AGAATAGGGG
77775653 AGAAAGAAAGGAAAGAA
1 AGAAAGAAAGGAAAGAA
77775670 AGAAAGAAAGG-AAGAA
1 AGAAAGAAAGGAAAGAA
77775686 A
1 A
77775687 AGGGAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAGGAAAGAA
Found at i:77776766 original size:25 final size:25
Alignment explanation
Indices: 77776699--77776753 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
77776689 ATGTTAGACT
77776699 ACAAGATCACAATATCAAGCCTACA
1 ACAAGATCACAATATCAAGCCTACA
77776724 ACAAGATCACAATATCAAGCCTACA
1 ACAAGATCACAATATCAAGCCTACA
77776749 ACAAG
1 ACAAG
77776754 CATTCAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.49, C:0.27, G:0.09, T:0.15
Consensus pattern (25 bp):
ACAAGATCACAATATCAAGCCTACA
Found at i:77783361 original size:8 final size:8
Alignment explanation
Indices: 77783348--77783375 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
77783338 TGGGTCCCCG
77783348 AAAAAGGA
1 AAAAAGGA
77783356 AAAAAGGA
1 AAAAAGGA
77783364 AAAAAGGA
1 AAAAAGGA
77783372 AAAA
1 AAAA
77783376 TTTATGGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (8 bp):
AAAAAGGA
Found at i:77786291 original size:58 final size:59
Alignment explanation
Indices: 77786181--77786292 Score: 172
Period size: 58 Copynumber: 1.9 Consensus size: 59
77786171 GACTAATATT
*
77786181 TATCACAAAAATAGTATACATATTTCCTCCAAGTTTTTCAGTGTGTAAACTTAAAATGTA
1 TATCACAAAAACAGTATACATATTT-CTCCAAGTTTTTCAGTGTGTAAACTTAAAATGTA
* **
77786241 TATCACAAACACAGTATACATATTT-TCTGAGTTTTTCAGTGTGTAAACTTAA
1 TATCACAAAAACAGTATACATATTTCTCCAAGTTTTTCAGTGTGTAAACTTAA
77786293 CTATTTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 25 0.52
60 23 0.48
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (59 bp):
TATCACAAAAACAGTATACATATTTCTCCAAGTTTTTCAGTGTGTAAACTTAAAATGTA
Found at i:77789423 original size:13 final size:13
Alignment explanation
Indices: 77789405--77789430 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77789395 ATTCGATCTT
77789405 TAATCAGACACTC
1 TAATCAGACACTC
77789418 TAATCAGACACTC
1 TAATCAGACACTC
77789431 AACTCGGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
TAATCAGACACTC
Found at i:77792446 original size:116 final size:116
Alignment explanation
Indices: 77792242--77792487 Score: 316
Period size: 116 Copynumber: 2.1 Consensus size: 116
77792232 CCAACACTTG
* ** * * * *
77792242 ATGAGTCGTGGGTGTTATGCTGCATTTTGCTATATCGATGCTAATACCTAACAATGGTTGATCGC
1 ATGAGTCATGGGTGTTATGCCACATTTTGCAATATCGATGCTAATACCTAACAATGGCTCATCAC
* * * *
77792307 CAAATTATATTCCTTTAAGTCATTGAACTAGGTCCTACAAGCCTATTTCCC
66 CAAATTACATTCCTTTAAGTCATTGAACCAAGTCCTACAAGACTATTTCCC
* * * *
77792358 ATGAGTCATGGGTTTTATGCCATATTTTGCAATGTTGATGCTAATACCTAACAATGGCTCATCAC
1 ATGAGTCATGGGTGTTATGCCACATTTTGCAATATCGATGCTAATACCTAACAATGGCTCATCAC
77792423 CAAATGT-CATT-CTTGTAAGTCATTGAACCAAGTCCTACAAGACTATTTCCC
66 CAAAT-TACATTCCTT-TAAGTCATTGAACCAAGTCCTACAAGACTATTTCCC
*
77792474 ATGAGCCATGGGTG
1 ATGAGTCATGGGTG
77792488 CTAAGCCATA
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
115 3 0.03
116 107 0.96
117 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (116 bp):
ATGAGTCATGGGTGTTATGCCACATTTTGCAATATCGATGCTAATACCTAACAATGGCTCATCAC
CAAATTACATTCCTTTAAGTCATTGAACCAAGTCCTACAAGACTATTTCCC
Found at i:77792518 original size:116 final size:116
Alignment explanation
Indices: 77792282--77792782 Score: 325
Period size: 116 Copynumber: 4.3 Consensus size: 116
77792272 TATATCGATG
* * * * * *
77792282 CTAATACCTAACAATGGTTGATCGCCAAATTATATTCCTTTAAGTCATTGAACTAGGTCCTACAA
1 CTAATACCTAACAATGGCTCATCACCAAATTACATTCCTTTAAGTCATTGAACCAAGTCCTACAA
* * ** * ** * ** *
77792347 GCCTATTTCCCATGAGTCATGGGTTTTATGCCATATTTTGCAATGTTGATG
66 GACTATTTCCCATGAGCCATGGGTGCTAAGCCATATAGTGCAAGGTCAATA
77792398 CTAATACCTAACAATGGCTCATCACCAAATGT-CATT-CTTGTAAGTCATTGAACCAAGTCCTAC
1 CTAATACCTAACAATGGCTCATCACCAAAT-TACATTCCTT-TAAGTCATTGAACCAAGTCCTAC
**
77792461 AAGACTATTTCCCATGAGCCATGGGTGCTAAGCCATATAGTGTGAGGTCAATA
64 AAGACTATTTCCCATGAGCCATGGGTGCTAAGCCATATAGTGCAAGGTCAATA
* * ** * * ** * * * * *
77792514 CTAATGCCCATTAAT-GTTCGTTGCCAACATT-TATTCC-CTAACTCATTGAACTAAGTCCTATA
1 CTAATACCTAACAATGGCTCATCACCAA-ATTACATTCCTTTAAGTCATTGAACCAAGTCCTACA
* * * * * ** * *
77792576 AGCCCA-TTCCCAATGAGTCATGGGTGTTATGCCATACCGTTCAAGGTCAATG
65 AGACTATTTCCC-ATGAGCCATGGGTGCTAAGCCATATAGTGCAAGGTCAATA
* * * ** ** * * * *
77792628 CTAACAGCTATCAATGGCTCATTGCCAGAA-TACATTCCCAT-AGTTATTGTACGTAAGTCCTAT
1 CTAATACCTAACAATGGCTCATCACCA-AATTACATTCCTTTAAGTCATTGAAC-CAAGTCCTAC
* * * * * * * *
77792691 GAGCCTGTTTCCCATAAGCCATGGGTGTTATGCCATATTGTGCAAGGTCAATG
64 AAGACTATTTCCCATGAGCCATGGGTGCTAAGCCATATAGTGCAAGGTCAATA
* * *
77792744 CTAATACCTATCAATGCCTCATCACCAAATTATATTCCT
1 CTAATACCTAACAATGGCTCATCACCAAATTACATTCCT
77792783 ACGAGTTATT
Statistics
Matches: 303, Mismatches: 70, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
113 5 0.02
114 67 0.22
115 40 0.13
116 185 0.61
117 6 0.02
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (116 bp):
CTAATACCTAACAATGGCTCATCACCAAATTACATTCCTTTAAGTCATTGAACCAAGTCCTACAA
GACTATTTCCCATGAGCCATGGGTGCTAAGCCATATAGTGCAAGGTCAATA
Found at i:77794774 original size:9 final size:10
Alignment explanation
Indices: 77794763--77794824 Score: 56
Period size: 12 Copynumber: 5.9 Consensus size: 10
77794753 GGTACAAATA
77794763 AATAAATAA-
1 AATAAATAAT
*
77794772 AATGCAATAAT
1 AAT-AAATAAT
77794783 AATGATAATAAT
1 AAT-A-AATAAT
77794795 AAT-AATAAT
1 AATAAATAAT
77794804 AATAAACTCAAT
1 AATAAA-T-AAT
77794816 AATAAATAA
1 AATAAATAA
77794825 AATGATAGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
9 12 0.27
10 9 0.20
11 6 0.13
12 18 0.40
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (10 bp):
AATAAATAAT
Found at i:77794820 original size:3 final size:3
Alignment explanation
Indices: 77794777--77794808 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
77794767 AATAAAATGC
*
77794777 AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
77794809 ACTCAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:77796251 original size:87 final size:87
Alignment explanation
Indices: 77796141--77796302 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
77796131 AGACCTGATG
* * * * *
77796141 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACC
77796205 TCAGGGAGATAGGATAGTGTCTT
65 TCAGGGAGATAGGATAGTGTCTT
* * * * *
77796228 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
77796293 CAGGGAGATA
66 CAGGGAGATA
77796303 AGATCTGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 63 0.98
88 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAGGATAGTGTCTT
Found at i:77796363 original size:131 final size:131
Alignment explanation
Indices: 77796228--77796526 Score: 315
Period size: 131 Copynumber: 2.3 Consensus size: 131
77796218 ATAGTGTCTT
* * *
77796228 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTC-TGGCTTCAATCTGCTCCACTGTAACC
1 CGATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCTCTTGACTTCAATCCGCTCCACTGTAACC
*
77796292 TCAGGGAGATAAGATCTGAAAT-TCTTTAG-TCTGTTCCACTGTAATCTCAGGGAAATAAGA-C-
65 TCAGGGAGATAAGA--T--AATGTC-TTAGATCTGCTCCACTGTAATCTCAGGGAAATAAGATCT
77796353 CTGG-TG
125 CTGGCTG
* * * * * *
77796359 CGATCTGCTCTACTGTAACTTCAGGGAGATAAGATC-CTTTATTTTAATCCGTTCCACTGTAACT
1 CGATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCTCTTGACTTCAATCCGCTCCACTGTAACC
* * * * *
77796423 TCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGC
65 TCAGGGAGATAAGATAATGTCTTAGATCTGCTCCACTGTAATCTCAGGGAAATAAGATCTCTGGC
*
77796488 TT
130 TG
* *
77796490 CAATCTGCTCCACTGTGACCTCAGGGAGATAAGATCT
1 CGATCTGCTCCACTGT-AACTCAGGGAGATAAGATCT
77796527 GAAATTCTTT
Statistics
Matches: 140, Mismatches: 19, Indels: 17
0.80 0.11 0.10
Matches are distributed among these distances:
127 5 0.04
128 30 0.21
129 2 0.01
130 6 0.04
131 95 0.68
132 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (131 bp):
CGATCTGCTCCACTGTAACTCAGGGAGATAAGATCTCTTGACTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAAGATAATGTCTTAGATCTGCTCCACTGTAATCTCAGGGAAATAAGATCTCTGGCT
G
Found at i:77796365 original size:87 final size:85
Alignment explanation
Indices: 77796230--77796525 Score: 272
Period size: 87 Copynumber: 3.4 Consensus size: 85
77796220 AGTGTCTTCG
* * *
77796230 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
1 ATCTGTTCCACTGTAATCTCAGGGAGATAAGATC-CTGG-TTCGATCTGCTCCACTGTAACCTCA
77796295 GGGAGATAAGATCTGAAATTCTTTA
64 GGGAGATAAGATCT-AAA-T-TTTA
* * * * *
77796320 GTCTGTTCCACTGTAATCTCAGGGAAATAAGA-CCTGGTGCGATCTGCTCTACTGTAACTTCAGG
1 ATCTGTTCCACTGTAATCTCAGGGAGATAAGATCCTGGTTCGATCTGCTCCACTGTAACCTCAGG
**
77796384 GAGATAAGATCCTTTATTTTA
66 GAGATAAGAT-CTAAATTTTA
* * ** * * *
77796405 ATCCGTTCCACTGTAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCA
1 ATCTGTTCCACTGTAATC-TCAGGGAGATAAGATCCTG-GTTCGATCTGCTCCACTGTAACCTCA
**** *
77796469 GGGAGATAAGATCTCTGGCTTCA
64 GGGAGATAAGATCT-AAATTTTA
* * *
77796492 ATCTGCTCCACTGTGACCTCAGGGAGATAAGATC
1 ATCTGTTCCACTGTAATCTCAGGGAGATAAGATC
77796526 TGAAATTCTT
Statistics
Matches: 169, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
84 1 0.01
85 30 0.18
86 5 0.03
87 97 0.57
88 7 0.04
89 1 0.01
90 28 0.17
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (85 bp):
ATCTGTTCCACTGTAATCTCAGGGAGATAAGATCCTGGTTCGATCTGCTCCACTGTAACCTCAGG
GAGATAAGATCTAAATTTTA
Found at i:77796485 original size:218 final size:218
Alignment explanation
Indices: 77796101--77796572 Score: 829
Period size: 218 Copynumber: 2.2 Consensus size: 218
77796091 TGTTGTGTTC
* * *
77796101 AGTCTATTCCACTG-CATCTTCAGGGAAATAAGACCTGATGCGATCTACTCTGCTGTAACCTCAG
1 AGTCTGTTCCACTGTAATC-TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAG
77796165 AGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCG
65 AGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCG
77796230 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
130 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
77796295 GGGAGATAAGATCTGAAATTCTTT
195 GGGAGATAAGATCTGAAATTCTTT
* * * *
77796319 AGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTGTAACTTCAGG
1 AGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGA
*
77796384 GAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGA
66 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGA
*
77796449 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTGACCTCAG
131 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAG
77796514 GGAGATAAGATCTGAAATTCTTT
196 GGAGATAAGATCTGAAATTCTTT
* *
77796537 AGTCTGTTCCACTGTAATATCAGGGGAATAAGACCT
1 AGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCT
77796573 TTTATAATGA
Statistics
Matches: 242, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
218 239 0.99
219 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (218 bp):
AGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGA
GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGA
TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAG
GGAGATAAGATCTGAAATTCTTT
Found at i:77796526 original size:44 final size:44
Alignment explanation
Indices: 77796153--77796526 Score: 287
Period size: 44 Copynumber: 8.6 Consensus size: 44
77796143 ATCTACTCTG
* *** * *
77796153 CTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTC-TGGCTTCAATCTGCTCCA
* * ** * * *
77796197 CTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
*
77796240 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
* * * * *
77796284 CTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTTAGTCTGTTCCA
1 CTGTAACCTCAGGGAGATAAGATCT---CTGGCTTCAATCTGCTCCA
* * * * *
77796330 CTGTAATCTCAGGGAAATAAGA-C-CTGG-TGCGATCTGCTCTA
1 CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
* *** * * *
77796371 CTGTAACTTCAGGGAGATAAGATC-CTTTATTTTAATCCGTTCCA
1 CTGTAACCTCAGGGAGATAAGATCTC-TGGCTTCAATCTGCTCCA
* * ** * * *
77796415 CTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
*
77796458 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
*
77796502 CTGTGACCTCAGGGAGATAAGATCT
1 CTGTAACCTCAGGGAGATAAGATCT
77796527 GAAATTCTTT
Statistics
Matches: 253, Mismatches: 66, Indels: 22
0.74 0.19 0.06
Matches are distributed among these distances:
41 28 0.11
42 2 0.01
43 62 0.25
44 127 0.50
45 1 0.00
46 32 0.13
47 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (44 bp):
CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
Found at i:77809084 original size:9 final size:10
Alignment explanation
Indices: 77809073--77809131 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 10
77809063 GGTACAAATA
77809073 AATAAATAA-
1 AATAAATAAT
*
77809082 AATGCAATAAT
1 AAT-AAATAAT
*
77809093 AAT-GATAAT
1 AATAAATAAT
77809102 AAT-AATAAT
1 AATAAATAAT
77809111 AATAAACTCAAT
1 AATAAA-T-AAT
77809123 AATAAATAA
1 AATAAATAA
77809132 AATGATAGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
9 19 0.45
10 9 0.21
11 5 0.12
12 9 0.21
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.27
Consensus pattern (10 bp):
AATAAATAAT
Found at i:77814803 original size:18 final size:18
Alignment explanation
Indices: 77814782--77814818 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
77814772 CTACTTTTCC
77814782 TTTTAAAATGACTTTACA
1 TTTTAAAATGACTTTACA
77814800 TTTTAAAATGACTTTACA
1 TTTTAAAATGACTTTACA
77814818 T
1 T
77814819 GTATTACTAA
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:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (18 bp):
TTTTAAAATGACTTTACA
Found at i:77820265 original size:13 final size:13
Alignment explanation
Indices: 77820247--77820290 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
77820237 TTTAACAATG
77820247 CTTTTGAAAAATA
1 CTTTTGAAAAATA
*
77820260 CTTTTGAAAAATG
1 CTTTTGAAAAATA
* * *
77820273 CTGTGGAAAAGTA
1 CTTTTGAAAAATA
77820286 CTTTT
1 CTTTT
77820291 CAGAAGTGCT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAATA
Found at i:77820272 original size:26 final size:26
Alignment explanation
Indices: 77820243--77820308 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
77820233 CTAGTTTAAC
*
77820243 AATGCTTTTGAAAAATACTTTTGAAA
1 AATGCTTTTGAAAAATACTTTTCAAA
* * * *
77820269 AATGCTGTGGAAAAGTACTTTTCAGA
1 AATGCTTTTGAAAAATACTTTTCAAA
* *
77820295 AGTGCTTTTTAAAA
1 AATGCTTTTGAAAA
77820309 TTTTAGTTTA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (26 bp):
AATGCTTTTGAAAAATACTTTTCAAA
Found at i:77822104 original size:19 final size:19
Alignment explanation
Indices: 77822080--77822117 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
77822070 CTGCCTTGGA
77822080 ATTTCATTGTGTTATTTAT
1 ATTTCATTGTGTTATTTAT
77822099 ATTTCATTGTGTTATTTAT
1 ATTTCATTGTGTTATTTAT
77822118 CCACCTAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.11, T:0.63
Consensus pattern (19 bp):
ATTTCATTGTGTTATTTAT
Found at i:77832249 original size:4 final size:4
Alignment explanation
Indices: 77832240--77832274 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
77832230 CTGAATTTTT
77832240 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
77832275 TTCTCTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:77841175 original size:43 final size:44
Alignment explanation
Indices: 77841114--77841206 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
77841104 TCCTAATTGG
77841114 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
77841157 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
77841201 -AAAATA
1 GAAAATA
77841207 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:77845905 original size:43 final size:44
Alignment explanation
Indices: 77845844--77845936 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
77845834 TCCTAATTGG
77845844 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
77845887 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
77845931 -AAAATA
1 GAAAATA
77845937 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:77864420 original size:12 final size:12
Alignment explanation
Indices: 77864405--77864429 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77864395 GTCTCCATGC
77864405 TAGATCAAAGCA
1 TAGATCAAAGCA
77864417 TAGATCAAAGCA
1 TAGATCAAAGCA
77864429 T
1 T
77864430 GAGGAGTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (12 bp):
TAGATCAAAGCA
Found at i:77873480 original size:21 final size:23
Alignment explanation
Indices: 77873455--77873497 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
77873445 AATTAAAAAA
*
77873455 AAGTTAATATAT-T-ATAATTAT
1 AAGTTAAAATATGTAATAATTAT
77873476 AAGTTAAAATATGTAATAATTA
1 AAGTTAAAATATGTAATAATTA
77873498 CTTAAAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 1 0.05
23 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (23 bp):
AAGTTAAAATATGTAATAATTAT
Found at i:77874891 original size:20 final size:20
Alignment explanation
Indices: 77874866--77874917 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
77874856 GGGGCACATG
*
77874866 CCCGTGTGGCCTGGGACACC
1 CCCGTGTGGCCTGGAACACC
**
77874886 CCCGTGTGGCCTGGAACATG
1 CCCGTGTGGCCTGGAACACC
77874906 CCCGTGTGGCCT
1 CCCGTGTGGCCT
77874918 ACCCGTAGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.10, C:0.37, G:0.35, T:0.19
Consensus pattern (20 bp):
CCCGTGTGGCCTGGAACACC
Found at i:77875463 original size:13 final size:13
Alignment explanation
Indices: 77875445--77875480 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
77875435 GATAATTAGT
77875445 AAATCATACATAC
1 AAATCATACATAC
*
77875458 AAATCATACATAT
1 AAATCATACATAC
77875471 AAATTCATAC
1 AAA-TCATAC
77875481 CAAACTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATCATACATAC
Found at i:77876885 original size:19 final size:18
Alignment explanation
Indices: 77876852--77876899 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
77876842 ATTTTCCCTT
* *
77876852 TTTCTTTTTCTTTTCTTC-
1 TTTCTTTCTCTTTTC-ACG
77876870 TTTCTTTCTCTCTTTCACG
1 TTTCTTTCTCT-TTTCACG
77876889 TTTCTTTCTCT
1 TTTCTTTCTCT
77876900 GTAACTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTCTTTCTCTTTTCACG
Found at i:77877094 original size:3 final size:3
Alignment explanation
Indices: 77877073--77877110 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
77877063 CTATCTCAAT
77877073 TAA TAGA TAA -AA T-A TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
77877111 GTAAATATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.12
3 25 0.78
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:77884186 original size:120 final size:120
Alignment explanation
Indices: 77884055--77884583 Score: 902
Period size: 120 Copynumber: 4.4 Consensus size: 120
77884045 CAAACTTTAG
77884055 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
*
77884120 TTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
*
77884175 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTATATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
*
77884240 TTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
*
77884295 ATTAAATTATATATTTTTATTAAATTATA-TT--TAATAATTATGTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
*
77884357 TTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
* *
77884412 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
* * * * *
77884477 TCATATATTATTATTTTAGTAAATTCAGATAAAAATATTTATTATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
* *
77884532 ATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT-TTTAAAT
77884584 ATGATTAAAT
Statistics
Matches: 389, Mismatches: 16, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
117 111 0.29
118 2 0.01
119 2 0.01
120 269 0.69
121 5 0.01
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
Found at i:77884192 original size:18 final size:18
Alignment explanation
Indices: 77884171--77884324 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
77884161 ATATTAAGAA
77884171 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
77884189 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
* *
77884204 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* * *
77884219 TTTAAATTATATTATATAG
1 TTT-TATTAAATTATATAT
* * *
77884238 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
77884253 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** * *
77884272 GAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
77884291 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
77884309 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
77884325 TTAATAATTA
Statistics
Matches: 100, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 5 0.05
16 12 0.12
17 17 0.17
18 38 0.38
19 11 0.11
20 5 0.05
21 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:77884476 original size:237 final size:237
Alignment explanation
Indices: 77884055--77884569 Score: 877
Period size: 237 Copynumber: 2.2 Consensus size: 237
77884045 CAAACTTTAG
*
77884055 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATA-TT--TAATAATTATGTTAAATTATATTTTATAGTA
**
77884120 TTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTAT
63 TTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTAT
* * *
77884185 ATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTATATAGTATTATATATTA
128 ATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTATATAGTATCATATATTA
* * *
77884250 TGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTT
193 TGATTTTAGTAAATTCAGATAAAAATATTTAATATTAAGAATTTT
77884295 ATTAAATTATATATTTTTATTAAATTATATTTAATAATTATGTTAAATTATATTTTATAGTATTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATTATGTTAAATTATATTTTATAGTATTA
77884360 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
66 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
* *
77884425 TTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTTTATAGTATCATATATTATTA
131 TTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTATATAGTATCATATATTATGA
*
77884490 TTTTAGTAAATTCAGATAAAAATATTTATTATTAAGAATTTT
196 TTTTAGTAAATTCAGATAAAAATATTTAATATTAAGAATTTT
* *
77884532 ATTAAATTATATATTTTAATTAAAATATATTTAATAAT
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAAT
77884570 AATTATGTTT
Statistics
Matches: 261, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
237 230 0.88
239 2 0.01
240 29 0.11
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (237 bp):
ATTAAATTATATATTTTTATTAAATTATATTTAATAATTATGTTAAATTATATTTTATAGTATTA
TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
TTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTATATAGTATCATATATTATGA
TTTTAGTAAATTCAGATAAAAATATTTAATATTAAGAATTTT
Found at i:77884555 original size:18 final size:17
Alignment explanation
Indices: 77884527--77884561 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
77884517 ATTATTAAGA
*
77884527 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
77884544 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
77884562 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:77884808 original size:16 final size:16
Alignment explanation
Indices: 77884787--77884848 Score: 90
Period size: 16 Copynumber: 3.9 Consensus size: 16
77884777 AGTTGATTTG
77884787 CTATTACACCTCTATT
1 CTATTACACCTCTATT
77884803 CTATTACACCTCTATT
1 CTATTACACCTCTATT
*
77884819 CCATTACACCTCTAATT
1 CTATTACACCTCT-ATT
*
77884836 C-AATACACCTCTA
1 CTATTACACCTCTA
77884849 ATCCAATACA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
15 1 0.02
16 38 0.88
17 4 0.09
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (16 bp):
CTATTACACCTCTATT
Found at i:77884809 original size:45 final size:44
Alignment explanation
Indices: 77884713--77884810 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 44
77884703 CTATTACACC
* *
77884713 TCTATTCCATTCAACCAAACACAAGATTACTATTACGCCTATAT
1 TCTATTACATTCAACCAAACACAAGATTACTATTACACCTATAT
* *** * *
77884757 TCCATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTAT
1 TCTATTACATTCAACCAAACACAAGA-TTACTATTACACCTATAT
77884802 TCTATTACA
1 TCTATTACA
77884811 CCTCTATTCC
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 21 0.48
45 23 0.52
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.35
Consensus pattern (44 bp):
TCTATTACATTCAACCAAACACAAGATTACTATTACACCTATAT
Found at i:77884830 original size:32 final size:32
Alignment explanation
Indices: 77884789--77884858 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
77884779 TTGATTTGCT
* *
77884789 ATTACACCTCT-ATTCTATTACACCTCTATTCC
1 ATTACACCTCTAATTC-AATACACCTCTAATCC
77884821 ATTACACCTCTAATTCAATACACCTCTAATCC
1 ATTACACCTCTAATTCAATACACCTCTAATCC
*
77884853 AATACA
1 ATTACA
77884859 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 30 0.88
33 4 0.12
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.34
Consensus pattern (32 bp):
ATTACACCTCTAATTCAATACACCTCTAATCC
Found at i:77884849 original size:16 final size:15
Alignment explanation
Indices: 77884791--77884858 Score: 73
Period size: 16 Copynumber: 4.3 Consensus size: 15
77884781 GATTTGCTAT
*
77884791 TACACCTCTATTCTAT
1 TACACCTCTATTC-AA
*
77884807 TACACCTCTATTCCAT
1 TACACCTCTATT-CAA
77884823 TACACCTCTAATTCAA
1 TACACCTCT-ATTCAA
*
77884839 TACACCTCTAATCCAA
1 TACACCTCT-ATTCAA
77884855 TACA
1 TACA
77884859 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
16 44 0.92
17 4 0.08
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (15 bp):
TACACCTCTATTCAA
Found at i:77885188 original size:13 final size:13
Alignment explanation
Indices: 77885155--77885188 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
77885145 TTGGTAGTTC
*
77885155 GGTTTTAATTTAG
1 GGTTTTAGTTTAG
*
77885168 GGTTTTAGTTTGG
1 GGTTTTAGTTTAG
77885181 GGTTTTAG
1 GGTTTTAG
77885189 ATTCAAATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (13 bp):
GGTTTTAGTTTAG
Found at i:77887295 original size:17 final size:18
Alignment explanation
Indices: 77887267--77887301 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
77887257 TCATATGTAT
*
77887267 TAATGATAAAATCGTGAA
1 TAATGATAAAATCATGAA
77887285 TAATG-TAAAATCATGAA
1 TAATGATAAAATCATGAA
77887302 AATTGAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (18 bp):
TAATGATAAAATCATGAA
Found at i:77887460 original size:50 final size:51
Alignment explanation
Indices: 77887385--77887511 Score: 175
Period size: 50 Copynumber: 2.5 Consensus size: 51
77887375 CCATGGCAAC
* *
77887385 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGATAAGTGA-
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATGAT
* * *
77887435 AAGTGATAAGTAATAGCTTCGGCTACCCTTATCTGATCAAGGACAAATGAT
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATGAT
* * *
77887486 AAGTGAAAAGTGGTAGCTTCGACTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
77887512 CTGATCAGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 45 0.67
51 22 0.33
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (51 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATGAT
Found at i:77887525 original size:31 final size:31
Alignment explanation
Indices: 77887482--77887665 Score: 230
Period size: 31 Copynumber: 6.0 Consensus size: 31
77887472 CAAGGACAAA
77887482 TGATAAGTGAAAAGTGGTAGCTTC-GACTACC
1 TGATAAGTGAAAAGTGGTAGCTTCTG-CTACC
* *
77887513 TGATCAGTGAAAAGTGGTAGCTTCTGCTGCC
1 TGATAAGTGAAAAGTGGTAGCTTCTGCTACC
*
77887544 TGATAAGTGAAAAGTGGTAG-TTCTGCTGCC
1 TGATAAGTGAAAAGTGGTAGCTTCTGCTACC
77887574 TGATAAGTGAAAAGTGGTAGCTTCTGCTACC
1 TGATAAGTGAAAAGTGGTAGCTTCTGCTACC
* * * * *
77887605 TAATCAA-TGAAAAATGGTAGGTCCGGCTACC
1 TGAT-AAGTGAAAAGTGGTAGCTTCTGCTACC
* * *
77887636 TGATCAGTGAATAGTGGTAGCTTCGGCTAC
1 TGATAAGTGAAAAGTGGTAGCTTCTGCTAC
77887666 AAGTGACAAG
Statistics
Matches: 134, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
30 31 0.23
31 100 0.75
32 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
TGATAAGTGAAAAGTGGTAGCTTCTGCTACC
Found at i:77887595 original size:92 final size:92
Alignment explanation
Indices: 77887482--77887655 Score: 251
Period size: 92 Copynumber: 1.9 Consensus size: 92
77887472 CAAGGACAAA
* * * * * *
77887482 TGATAAGTGAAAAGTGGTAGCTTC-GACTACCTGATCAGTGAAAAGTGGTAGCTTCTGCTGCCTG
1 TGATAAGTGAAAAGTGGTAGCTTCTG-CTACCTAATCAATGAAAAATGGTAGCTCCGGCTACCTG
77887546 ATAAGTGAAAAGTGGTAGTTCTGCTGCC
65 ATAAGTGAAAAGTGGTAGTTCTGCTGCC
*
77887574 TGATAAGTGAAAAGTGGTAGCTTCTGCTACCTAATCAATGAAAAATGGTAGGTCCGGCTACCTGA
1 TGATAAGTGAAAAGTGGTAGCTTCTGCTACCTAATCAATGAAAAATGGTAGCTCCGGCTACCTGA
* *
77887639 TCAGTGAATAGTGGTAG
66 TAAGTGAAAAGTGGTAG
77887656 CTTCGGCTAC
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 71 0.99
93 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (92 bp):
TGATAAGTGAAAAGTGGTAGCTTCTGCTACCTAATCAATGAAAAATGGTAGCTCCGGCTACCTGA
TAAGTGAAAAGTGGTAGTTCTGCTGCC
Found at i:77887838 original size:49 final size:46
Alignment explanation
Indices: 77887687--77887854 Score: 192
Period size: 47 Copynumber: 3.6 Consensus size: 46
77887677 GATTTCCGTA
* * * * *
77887687 TAAGACCATATCTGGGATATGGCATCAGTGTGATATATGCTTCTGTA
1 TAAGACCATAGCTGGGATATGGCATCAATGTGATATGTGATTC-GTG
* * *
77887734 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGATATGGCATCAATGTGATATGTGATTCGTG
*
77887780 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGGCATC-A-ATGTGATATGTGATT-CGTG
* * *
77887829 TAAGACCATAGATGGGCTATGACATC
1 TAAGACCATAGCTGGGATATGGCATC
77887855 GATATATGAA
Statistics
Matches: 108, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
46 26 0.24
47 41 0.38
48 13 0.12
49 28 0.26
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (46 bp):
TAAGACCATAGCTGGGATATGGCATCAATGTGATATGTGATTCGTG
Found at i:77887855 original size:49 final size:48
Alignment explanation
Indices: 77887765--77887898 Score: 163
Period size: 49 Copynumber: 2.9 Consensus size: 48
77887755 GCATCAGTGA
* *
77887765 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGATGGGCTATGACATCGATATGT
*
77887813 GATATGTGATTACGTGTAAGACCATAGATGGGCTATGACATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGATGGGCTATGACATCGATATGT
* **
77887862 GA-A---GA-T-GTGTAAGACCATAGTTGAACTATGACATCGA
1 GATATGTGATTCGTGTAAGACCATAGATGGGCTATGACATCGA
77887899 GTAAACGAAG
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
42 28 0.35
44 1 0.01
45 2 0.03
48 12 0.15
49 36 0.46
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGATGGGCTATGACATCGATATGT
Found at i:77891839 original size:14 final size:14
Alignment explanation
Indices: 77891820--77891847 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
77891810 CACCATGGCT
77891820 TATTTTGCATCCAA
1 TATTTTGCATCCAA
77891834 TATTTTGCATCCAA
1 TATTTTGCATCCAA
77891848 AGGGAGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (14 bp):
TATTTTGCATCCAA
Found at i:77891955 original size:30 final size:30
Alignment explanation
Indices: 77891919--77891991 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
77891909 TTTATTTATG
77891919 TATTATTATATTAAATCATTTAATATC-ATT
1 TATTATTATATTAAATCATTTAA-ATCTATT
* **
77891949 TATTATTGA-GTTAAATTTTTTAAATCTTATT
1 TATTATT-ATATTAAATCATTTAAATC-TATT
77891980 TATTATTATATT
1 TATTATTATATT
77891992 TAACTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
29 3 0.09
30 19 0.54
31 13 0.37
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.58
Consensus pattern (30 bp):
TATTATTATATTAAATCATTTAAATCTATT
Found at i:77892501 original size:14 final size:14
Alignment explanation
Indices: 77892478--77892516 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
77892468 ATTTAATAAA
77892478 TAAAAATAAAAATC
1 TAAAAATAAAAATC
*
77892492 TAAAACTAAAAAT-
1 TAAAAATAAAAATC
*
77892505 AAAAAATAAAAA
1 TAAAAATAAAAA
77892517 AATATAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAAAATAAAAATC
Found at i:77892558 original size:18 final size:18
Alignment explanation
Indices: 77892535--77892575 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
77892525 TTTATACAAA
*
77892535 TAATTCTGTTAATTCGAT
1 TAATTCGGTTAATTCGAT
*
77892553 TAATTCGGTTAATTGGAT
1 TAATTCGGTTAATTCGAT
77892571 TAATT
1 TAATT
77892576 TTATACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (18 bp):
TAATTCGGTTAATTCGAT
Found at i:77900039 original size:14 final size:15
Alignment explanation
Indices: 77900020--77900049 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
77900010 ATGCAAATAA
77900020 TAAAAAAA-TTTGAG
1 TAAAAAAATTTTGAG
77900034 TAAAAAAATTTTGAG
1 TAAAAAAATTTTGAG
77900049 T
1 T
77900050 TAATTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (15 bp):
TAAAAAAATTTTGAG
Done.