Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 237 of 255
Found at i:77705903 original size:30 final size:31
Alignment explanation
Indices: 77705869--77705970 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
77705859 TTAAAAATAA
*
77705869 AAATTACATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
77705899 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
77705929 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
77705959 AAATTTCATTTT
1 AAATTTCATTTT
77705971 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:77706281 original size:17 final size:19
Alignment explanation
Indices: 77706234--77706276 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
77706224 TTTCGAAGGA
77706234 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
77706252 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
77706271 AAAAGA
1 AAAAGA
77706277 AAGAGTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:77706352 original size:3 final size:3
Alignment explanation
Indices: 77706346--77706380 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
77706336 GTGTAGGAGG
77706346 AGA AGA AGA AGA AGA AGA AGA AGAA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA A
77706381 AGAAAAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:77706373 original size:22 final size:22
Alignment explanation
Indices: 77706348--77706393 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
77706338 GTAGGAGGAG
*
77706348 AAGAAGAAG-AAGAAGAAGAAGA
1 AAGAAGAAGAAAGAA-AAAAAGA
77706370 AAGAAGAAGAAAGAAAAAAAGA
1 AAGAAGAAGAAAGAAAAAAAGA
77706392 AA
1 AA
77706394 AAAAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (22 bp):
AAGAAGAAGAAAGAAAAAAAGA
Found at i:77706533 original size:31 final size:30
Alignment explanation
Indices: 77706497--77706569 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 30
77706487 AAATTAATTA
*
77706497 AAAAAAACAACACAAA-AAAAACAAATCAGCCC
1 AAAAAAA-AA-ACAAACAAAAA-AAAGCAGCCC
77706529 AAAAAAAAAACAAAGCAAAAAAAAGCAGCCC
1 AAAAAAAAAACAAA-CAAAAAAAAGCAGCCC
*
77706560 AAAAAGAAAA
1 AAAAAAAAAA
77706570 GGCCCAAGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
30 5 0.14
31 20 0.54
32 12 0.32
ACGTcount: A:0.73, C:0.19, G:0.07, T:0.01
Consensus pattern (30 bp):
AAAAAAAAAACAAACAAAAAAAAGCAGCCC
Found at i:77706682 original size:21 final size:21
Alignment explanation
Indices: 77706656--77706749 Score: 81
Period size: 19 Copynumber: 4.5 Consensus size: 21
77706646 AGCAGGCCAG
77706656 GAAAAAAGAGAGAAAGAAAAA
1 GAAAAAAGAGAGAAAGAAAAA
*
77706677 GAAAAAAGAAAG-AAGAAAAA
1 GAAAAAAGAGAGAAAGAAAAA
* *
77706697 -AGAAAAGAGAAAAAAGGAAAAAA
1 GAAAAAAGAG-AGAAA-G-AAAAA
77706720 GGAAAAAAGA-AGAAA-AAAGAA
1 -GAAAAAAGAGAGAAAGAAA-AA
77706741 -AAAAAAGAG
1 GAAAAAAGAG
77706750 TTTCAATTCG
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
19 15 0.25
20 12 0.20
21 15 0.25
22 1 0.02
23 9 0.15
25 7 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (21 bp):
GAAAAAAGAGAGAAAGAAAAA
Found at i:77706684 original size:7 final size:7
Alignment explanation
Indices: 77706656--77706748 Score: 93
Period size: 7 Copynumber: 13.3 Consensus size: 7
77706646 AGCAGGCCAG
77706656 GAAAAAA
1 GAAAAAA
*
77706663 GAGAGAAA
1 GA-AAAAA
77706671 G-AAAAA
1 GAAAAAA
77706677 GAAAAAA
1 GAAAAAA
*
77706684 GAAAGAA
1 GAAAAAA
77706691 GAAAAAA
1 GAAAAAA
*
77706698 GAAAAGA
1 GAAAAAA
77706705 GAAAAAA
1 GAAAAAA
77706712 GGAAAAAA
1 -GAAAAAA
77706720 GGAAAAAA
1 -GAAAAAA
*
77706728 GAAGAAA
1 GAAAAAA
*
77706735 -AAAGAA
1 GAAAAAA
77706741 -AAAAAA
1 GAAAAAA
77706747 GA
1 GA
77706749 GTTTCAATTC
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
6 14 0.19
7 38 0.53
8 20 0.28
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:77706688 original size:17 final size:16
Alignment explanation
Indices: 77706657--77706748 Score: 89
Period size: 17 Copynumber: 5.5 Consensus size: 16
77706647 GCAGGCCAGG
*
77706657 AAAAAAGAGAGAAAGAA
1 AAAAAAGA-AAAAAGAA
77706674 AAAGAAA-AAAGAAAGAA
1 AAA-AAAGAAA-AAAGAA
*
77706691 GAAAAAAGAAAAGAG-A
1 -AAAAAAGAAAAAAGAA
*
77706707 AAAAAGGAAAAAAGGAA
1 AAAAAAGAAAAAA-GAA
77706724 AAAAGAAGAAAAAAGAA
1 AAAA-AAGAAAAAAGAA
77706741 AAAAAAGA
1 AAAAAAGA
77706749 GTTTCAATTC
Statistics
Matches: 63, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
15 11 0.17
16 7 0.11
17 28 0.44
18 17 0.27
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAGAA
Found at i:77706709 original size:26 final size:25
Alignment explanation
Indices: 77706668--77706744 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 25
77706658 AAAAAGAGAG
*
77706668 AAAGAAAAAGAAAAAAGAAAGAAGAAA
1 AAAG-AAAAGAGAAAA-AAAGAAGAAA
77706695 AAAGAAAAGAG-AAAAAAG--GAAA
1 AAAGAAAAGAGAAAAAAAGAAGAAA
* *
77706717 AAAGGAAAAAAGAAGAAAA-AAGAAA
1 AAA-GAAAAGAGAAAAAAAGAAGAAA
77706742 AAA
1 AAA
77706745 AAGAGTTTCA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
22 7 0.16
23 7 0.16
24 9 0.21
25 10 0.23
26 6 0.14
27 4 0.09
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (25 bp):
AAAGAAAAGAGAAAAAAAGAAGAAA
Found at i:77707369 original size:17 final size:17
Alignment explanation
Indices: 77707323--77707437 Score: 99
Period size: 17 Copynumber: 6.5 Consensus size: 17
77707313 AAAAATTCAT
*
77707323 TTTCCAAAATTTTTAGTG
1 TTTCAAAAATTTTT-GTG
77707341 TCTTCTAAAAATTTTTGTG
1 T-TTC-AAAAATTTTTGTG
*
77707360 TTTCAAAAATTTTCGT-
1 TTTCAAAAATTTTTGTG
77707376 TTTCAAAAATTCTCTTGT-
1 TTTCAAAAATT-T-TTGTG
**
77707394 TTTCAAAAATTTCGGTG
1 TTTCAAAAATTTTTGTG
** *
77707411 TTTTGAAAATTTTCGTG
1 TTTCAAAAATTTTTGTG
77707428 TTTTCAAAAA
1 -TTTCAAAAA
77707438 AAAAAATCTC
Statistics
Matches: 80, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
16 13 0.16
17 26 0.32
18 25 0.31
19 7 0.09
20 9 0.11
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.49
Consensus pattern (17 bp):
TTTCAAAAATTTTTGTG
Found at i:77707397 original size:18 final size:17
Alignment explanation
Indices: 77707347--77707437 Score: 96
Period size: 18 Copynumber: 5.3 Consensus size: 17
77707337 AGTGTCTTCT
77707347 AAAAATTT-TTGTGTTTC
1 AAAAATTTCTTGT-TTTC
*
77707364 AAAAATTT-TCGTTTTC
1 AAAAATTTCTTGTTTTC
77707380 AAAAATTCTCTTGTTTTC
1 AAAAATT-TCTTGTTTTC
* *
77707398 AAAAATTTCGGTGTTTTG
1 AAAAATTTC-TTGTTTTC
* *
77707416 AAAATTTTCGTGTTTTC
1 AAAAATTTCTTGTTTTC
77707433 AAAAA
1 AAAAA
77707438 AAAAAATCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
16 11 0.17
17 25 0.39
18 28 0.44
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.47
Consensus pattern (17 bp):
AAAAATTTCTTGTTTTC
Found at i:77707430 original size:35 final size:34
Alignment explanation
Indices: 77707347--77707437 Score: 105
Period size: 35 Copynumber: 2.7 Consensus size: 34
77707337 AGTGTCTTCT
*
77707347 AAAAATTTTTGTG-TTTCAAAAATTTTCGTTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTTTCGTTTTC
* * *
77707380 AAAAATTCTCTTGTTTTCAAAAA-TTTCGGTGTTTT
1 AAAAATTTTCGTGTTTTCAAAAATTTTC-GT-TTTC
*
77707415 GAAAATTTTCGTGTTTTCAAAAA
1 AAAAATTTTCGTGTTTTCAAAAA
77707438 AAAAAATCTC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
33 14 0.29
34 11 0.23
35 23 0.48
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.47
Consensus pattern (34 bp):
AAAAATTTTCGTGTTTTCAAAAATTTTCGTTTTC
Found at i:77708630 original size:20 final size:21
Alignment explanation
Indices: 77708593--77708634 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
77708583 TTCATGAGAG
*
77708593 ATTATTTAATGGATTTTTTTA
1 ATTATTTAATGAATTTTTTTA
77708614 ATTATTTAAT-AATTTTTTTA
1 ATTATTTAATGAATTTTTTTA
77708634 A
1 A
77708635 ACCTTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
ATTATTTAATGAATTTTTTTA
Found at i:77716504 original size:43 final size:43
Alignment explanation
Indices: 77716456--77716543 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
77716446 ACTTTCTCTC
*
77716456 GTGGTAATTTTTATCCAAGACACTTTCACTTTCAACAAAATTG
1 GTGGTAATTTTTATCCAAGACACTTTAACTTTCAACAAAATTG
77716499 GTGGTAATTTTTATCCAAGACACTTTAACTTTCAACAAAATTG
1 GTGGTAATTTTTATCCAAGACACTTTAACTTTCAACAAAATTG
77716542 GT
1 GT
77716544 ATTAAAGACG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (43 bp):
GTGGTAATTTTTATCCAAGACACTTTAACTTTCAACAAAATTG
Found at i:77718209 original size:18 final size:18
Alignment explanation
Indices: 77718177--77718211 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
77718167 ACATTTATTA
**
77718177 TTTTAAAATTTTAAAATT
1 TTTTAAAATGCTAAAATT
77718195 TTTTAAAATGCTAAAAT
1 TTTTAAAATGCTAAAAT
77718212 AACAAATTTC
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:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTTAAAATGCTAAAATT
Found at i:77719722 original size:165 final size:165
Alignment explanation
Indices: 77719418--77719744 Score: 539
Period size: 165 Copynumber: 2.0 Consensus size: 165
77719408 GATTCAACAG
* * *
77719418 GTTTCAGAAGTAGGGAGAATGAATCAATGTTTGGGCCATGAATGCTGGTGGAAAAGAGATATTCA
1 GTTTCAAAAGCAGGGAGAATGAATCAATGTTTGGGCCATGAATGCTCGTGGAAAAGAGATATTCA
** * *
77719483 CTGTGAGGGAAGAGGGATTTTTCAGCGGAAAATATGGAAAAACAAAAAAAAATAGTCGTTAGGCT
66 CTGTGAGGGAAGAGGGATTTTTCAGAAGAAAATATGGAAAAACAAAAAAAAACAGCCGTTAGGCT
77719548 CTAATTCTCGGCGTTGTAGGGAGAGGAGGATACTA
131 CTAATTCTCGGCGTTGTAGGGAGAGGAGGATACTA
** *
77719583 GTTTCAAAAGCAGGGAGAATGAATCGGTGTTTGGGCCATGGATGCTCGTGGAAAAGAGATATTCA
1 GTTTCAAAAGCAGGGAGAATGAATCAATGTTTGGGCCATGAATGCTCGTGGAAAAGAGATATTCA
*
77719648 CTGTGAGGGAAGAGGGATTTTTCAGAAGAAAATATGGAAAAA-TAAAAAAAACAGCCGTTAGGCT
66 CTGTGAGGGAAGAGGGATTTTTCAGAAGAAAATATGGAAAAACAAAAAAAAACAGCCGTTAGGCT
77719712 CTAGATTCTCGGCGTTGTAGGGAGAGGAGGATA
131 CTA-ATTCTCGGCGTTGTAGGGAGAGGAGGATA
77719745 TTAATGGCGA
Statistics
Matches: 150, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
164 22 0.15
165 128 0.85
ACGTcount: A:0.35, C:0.11, G:0.31, T:0.24
Consensus pattern (165 bp):
GTTTCAAAAGCAGGGAGAATGAATCAATGTTTGGGCCATGAATGCTCGTGGAAAAGAGATATTCA
CTGTGAGGGAAGAGGGATTTTTCAGAAGAAAATATGGAAAAACAAAAAAAAACAGCCGTTAGGCT
CTAATTCTCGGCGTTGTAGGGAGAGGAGGATACTA
Found at i:77724096 original size:13 final size:13
Alignment explanation
Indices: 77724078--77724105 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
77724068 GAGCTAGTTG
77724078 GGATTGCTTATTT
1 GGATTGCTTATTT
77724091 GGATTGCTTATTT
1 GGATTGCTTATTT
77724104 GG
1 GG
77724106 TGCATATGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.29, T:0.50
Consensus pattern (13 bp):
GGATTGCTTATTT
Found at i:77726977 original size:85 final size:86
Alignment explanation
Indices: 77726865--77727029 Score: 235
Period size: 85 Copynumber: 1.9 Consensus size: 86
77726855 TAAGTTCTGA
* * * * ** *
77726865 ATTTTTTTTACTTAATTGGGTATTTGAACTTTC-AAATGCATTAAAAATGC-CTCAAACTTTTTC
1 ATTTTTTTCACTCAATTGGATACTTGAACTTTCAAAATGCACAAAAAAGGCTCTCAAACTTTTTC
77726928 AAAAAAAAGCAATTAAACGCCT
66 -AAAAAAAGCAATTAAACGCCT
77726950 ATTTTTTTCACTCAATTGGATACTTGAACTTTCAAAATGCACAAAAAAGGCTCTCAAACTTTTTC
1 ATTTTTTTCACTCAATTGGATACTTGAACTTTCAAAATGCACAAAAAAGGCTCTCAAACTTTTTC
*
77727015 AAGAAAAGCAATTAA
66 AAAAAAAGCAATTAA
77727030 GATTCTGTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
85 29 0.41
86 28 0.40
87 13 0.19
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (86 bp):
ATTTTTTTCACTCAATTGGATACTTGAACTTTCAAAATGCACAAAAAAGGCTCTCAAACTTTTTC
AAAAAAAGCAATTAAACGCCT
Found at i:77727315 original size:19 final size:20
Alignment explanation
Indices: 77727286--77727345 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
77727276 TTTTATAAAG
*
77727286 TCGTAAGAAAATTATAAAAAT
1 TCGTAA-AAAAATATAAAAAT
* *
77727307 T-TTTAAAAAATAT-AAAAT
1 TCGTAAAAAAATATAAAAAT
77727325 TCGTAAAAAAATATAAAAAT
1 TCGTAAAAAAATATAAAAAT
77727345 T
1 T
77727346 ATCATACCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 6 0.19
19 17 0.53
20 8 0.25
21 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (20 bp):
TCGTAAAAAAATATAAAAAT
Found at i:77727541 original size:19 final size:19
Alignment explanation
Indices: 77727519--77727588 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 19
77727509 ATGTATTTGT
*
77727519 AATTTTTTATAAGTTTTAC
1 AATTTTTTATAATTTTTAC
77727538 AATTTTTTATAAATTTTTAC
1 AATTTTTTAT-AATTTTTAC
*
77727558 AACTTTTTTTCTAATTTTTA-
1 AA--TTTTTTATAATTTTTAC
77727578 AATATTTTTAT
1 AAT-TTTTTAT
77727589 TAAAAATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
18 1 0.02
19 16 0.36
20 12 0.27
21 8 0.18
22 7 0.16
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (19 bp):
AATTTTTTATAATTTTTAC
Found at i:77727573 original size:21 final size:19
Alignment explanation
Indices: 77727519--77727591 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 19
77727509 ATGTATTTGT
* *
77727519 AATTTTTTATAAGTTTTAC
1 AATTTTTTTTAATTTTTAC
*
77727538 AATTTTTTATAAATTTTTAC
1 AATTTTTT-TTAATTTTTAC
77727558 AACTTTTTTTCTAATTTTTA-
1 AA-TTTTTTT-TAATTTTTAC
77727578 AATATTTTTATTAA
1 AAT-TTTTT-TTAA
77727592 AAATAATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
19 9 0.20
20 21 0.47
21 15 0.33
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (19 bp):
AATTTTTTTTAATTTTTAC
Found at i:77730857 original size:20 final size:21
Alignment explanation
Indices: 77730828--77730867 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
77730818 TTTCCTTTTT
*
77730828 TTTTTCAAACTTTTAGCAATA
1 TTTTTCAAACTTATAGCAATA
77730849 TTTTT-AAACTTATAGCAAT
1 TTTTTCAAACTTATAGCAAT
77730868 CTTCTCTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.47
Consensus pattern (21 bp):
TTTTTCAAACTTATAGCAATA
Found at i:77735093 original size:13 final size:13
Alignment explanation
Indices: 77735075--77735103 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
77735065 TGGTGATATG
77735075 AAAAATAGTAAAC
1 AAAAATAGTAAAC
77735088 AAAAATAGTAAAC
1 AAAAATAGTAAAC
77735101 AAA
1 AAA
77735104 GAGACCTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAAATAGTAAAC
Found at i:77735751 original size:25 final size:24
Alignment explanation
Indices: 77735694--77735752 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
77735684 AAATGTTTAA
* *
77735694 TAAAAATTTCAATCATATTTTCAC
1 TAAAATTTTCAATCATATTTACAC
*
77735718 TAAATAATTTTCAATCATATTTAAGAC
1 T-AA-AATTTTCAATCATATTT-ACAC
77735745 TAAAATTT
1 TAAAATTT
77735753 CAAATTTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 1 0.03
25 7 0.24
26 18 0.62
27 3 0.10
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (24 bp):
TAAAATTTTCAATCATATTTACAC
Found at i:77737827 original size:44 final size:44
Alignment explanation
Indices: 77737779--77737863 Score: 154
Period size: 44 Copynumber: 1.9 Consensus size: 44
77737769 AGAAGTGTCC
77737779 TCTTAATTTTGCATTCAATCAAATTTTGACA-GGCTAGTTTGACA
1 TCTTAATTTTGCATTCAATCAAATTTTGACATGGC-AGTTTGACA
77737823 TCTTAATTTTGCATTCAATCAAATTTTGACATGGCAGTTTG
1 TCTTAATTTTGCATTCAATCAAATTTTGACATGGCAGTTTG
77737864 GCATGAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
44 37 0.93
45 3 0.08
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.42
Consensus pattern (44 bp):
TCTTAATTTTGCATTCAATCAAATTTTGACATGGCAGTTTGACA
Found at i:77742358 original size:64 final size:64
Alignment explanation
Indices: 77742285--77742495 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
77742275 CTGGGCCAGA
*
77742285 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
77742349 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
77742411 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
77742422 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
77742486 GCCCATTTCA
1 GCCCATTTCA
77742496 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:77742497 original size:137 final size:137
Alignment explanation
Indices: 77742251--77742537 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
77742241 TATTGGGCCT
**
77742251 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
77742316 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
77742381 CATATGC
131 CATATGC
77742388 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
77742453 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
77742518 CATATGC
131 CATATGC
*
77742525 CAGCCCATTTGGG
1 AAGCCCATTTGGG
77742538 GAGACTACTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:77744355 original size:26 final size:26
Alignment explanation
Indices: 77744325--77744406 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
77744315 TGAAATTCCC
77744325 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
77744351 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
77744377 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
77744403 ATCA
1 ATCA
77744407 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:77750029 original size:26 final size:26
Alignment explanation
Indices: 77749999--77750054 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
77749989 TGAAATTCCC
77749999 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
77750025 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
77750051 ATCA
1 ATCA
77750055 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:77751196 original size:15 final size:15
Alignment explanation
Indices: 77751161--77751198 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
77751151 AACCCAACCT
77751161 AACCCAAAACCCAGA
1 AACCCAAAACCCAGA
*
77751176 AGCCCAAAACCCCA-A
1 AACCCAAAA-CCCAGA
77751191 AACCCAAA
1 AACCCAAA
77751199 TCAGAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.53, C:0.42, G:0.05, T:0.00
Consensus pattern (15 bp):
AACCCAAAACCCAGA
Found at i:77751778 original size:16 final size:16
Alignment explanation
Indices: 77751753--77751792 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
77751743 CACCAGAAAT
*
77751753 CCCTCCCTCCTTTCTC
1 CCCTCTCTCCTTTCTC
*
77751769 TCCTCTCTCCTTTCTC
1 CCCTCTCTCCTTTCTC
77751785 CCCTCTCT
1 CCCTCTCT
77751793 TTTTTTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.42
Consensus pattern (16 bp):
CCCTCTCTCCTTTCTC
Found at i:77752286 original size:18 final size:16
Alignment explanation
Indices: 77752253--77752310 Score: 64
Period size: 16 Copynumber: 3.5 Consensus size: 16
77752243 ATTAAATTTG
77752253 TAATATTAATTTTATT
1 TAATATTAATTTTATT
77752269 TAATATTAATATTATATT
1 TAATATTAAT-TT-TATT
* *
77752287 TACTATT-ATTTTTTT
1 TAATATTAATTTTATT
77752302 TAAATATTA
1 T-AATATTA
77752311 GTGTACTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
15 4 0.11
16 17 0.49
17 4 0.11
18 10 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TAATATTAATTTTATT
Found at i:77752343 original size:17 final size:16
Alignment explanation
Indices: 77752320--77752367 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
77752310 AGTGTACTTT
77752320 GTATGTATATATTATTA
1 GTATGTATATATT-TTA
*
77752337 TTATG--TATATTTTA
1 GTATGTATATATTTTA
77752351 GTATGTATATATATTTA
1 GTATGTATATAT-TTTA
77752368 TGAAGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 7 0.27
15 6 0.23
16 5 0.19
17 8 0.31
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (16 bp):
GTATGTATATATTTTA
Found at i:77752357 original size:14 final size:15
Alignment explanation
Indices: 77752327--77752365 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
77752317 TTTGTATGTA
*
77752327 TATATTATTATTATG
1 TATATTATTAGTATG
77752342 TATATT-TTAGTATG
1 TATATTATTAGTATG
77752356 TATATATATT
1 TATAT-TATT
77752366 TATGAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 12 0.57
15 7 0.33
16 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (15 bp):
TATATTATTAGTATG
Found at i:77753987 original size:19 final size:21
Alignment explanation
Indices: 77753946--77753986 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
77753936 GTTTTCTCCC
*
77753946 TATGTTGCTACTATTTTACTAT
1 TATGTTACTACTATTTTA-TAT
77753968 TATGTTACTACTATTTTAT
1 TATGTTACTACTATTTTAT
77753987 TGTTATGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.24, C:0.12, G:0.07, T:0.56
Consensus pattern (21 bp):
TATGTTACTACTATTTTATAT
Found at i:77756681 original size:44 final size:44
Alignment explanation
Indices: 77756553--77756663 Score: 213
Period size: 44 Copynumber: 2.5 Consensus size: 44
77756543 AGAAATGTCC
*
77756553 TCTTAATTTTGCATTCAATCAAAATTTGGCAAGATAGTTTGACA
1 TCTTAATTTTGCATTCAATCAAAATTTGGCAAGACAGTTTGACA
77756597 TCTTAATTTTGCATTCAATCAAAATTTGGCAAGACAGTTTGACA
1 TCTTAATTTTGCATTCAATCAAAATTTGGCAAGACAGTTTGACA
77756641 TCTTAATTTTGCATTCAATCAAA
1 TCTTAATTTTGCATTCAATCAAA
77756664 TTTTAGTAGG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (44 bp):
TCTTAATTTTGCATTCAATCAAAATTTGGCAAGACAGTTTGACA
Found at i:77757636 original size:6 final size:6
Alignment explanation
Indices: 77757625--77757651 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
77757615 TTTATAATCT
77757625 ATCTCA ATCTCA ATCTCA ATCTCA ATC
1 ATCTCA ATCTCA ATCTCA ATCTCA ATC
77757652 CTTAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (6 bp):
ATCTCA
Found at i:77765259 original size:8 final size:8
Alignment explanation
Indices: 77765246--77765270 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
77765236 TTATTTTGAG
77765246 TAATAAAT
1 TAATAAAT
77765254 TAATAAAT
1 TAATAAAT
77765262 TAATAAAT
1 TAATAAAT
77765270 T
1 T
77765271 TATTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATAAAT
Found at i:77784261 original size:55 final size:53
Alignment explanation
Indices: 77784196--77784303 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 53
77784186 TGGTTACGTA
77784196 ATCATTCAAAAGTTTTCATTCAAGTCATT-GAGCCATTAAAAAAAAAGGGTAAAGT
1 ATCATTCAAAAGTTTTCATTCAAGTCATTAG-GCCA-T-AAAAAAAAGGGTAAAGT
* *
77784251 ATCATTCAAAAGTTTTCATTTAAGTCATTAGGCCATCAAAAAAAGGGTAAAGT
1 ATCATTCAAAAGTTTTCATTCAAGTCATTAGGCCATAAAAAAAAGGGTAAAGT
77784304 TTTTATGGGT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
53 16 0.32
54 1 0.02
55 32 0.64
56 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (53 bp):
ATCATTCAAAAGTTTTCATTCAAGTCATTAGGCCATAAAAAAAAGGGTAAAGT
Found at i:77785309 original size:28 final size:28
Alignment explanation
Indices: 77785269--77785336 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
77785259 CCTGGGCAGT
*
77785269 AGAAGAAAAAGAGAA-AAAGAAGAATAGG
1 AGAAGAAAAAGAGAAGAAA-AAGAAGAGG
*
77785297 AGAAGAAACAGAGAAGAAAAAGAAGAGG
1 AGAAGAAAAAGAGAAGAAAAAGAAGAGG
* *
77785325 AGGAGAAGAAGA
1 AGAAGAAAAAGA
77785337 ATTAAGAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 31 0.91
29 3 0.09
ACGTcount: A:0.65, C:0.01, G:0.32, T:0.01
Consensus pattern (28 bp):
AGAAGAAAAAGAGAAGAAAAAGAAGAGG
Found at i:77785318 original size:31 final size:28
Alignment explanation
Indices: 77785269--77785334 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 28
77785259 CCTGGGCAGT
*
77785269 AGAAGAAAAAGAGAAAAAGAAGAATAGG
1 AGAAGAAAAAGAGAAAAAGAAGAAGAGG
*
77785297 AGAAGAAACAGAGAAGAAAAAGAAGAGGAGG
1 AGAAGAAA-A-AG-AGAAAAAGAAGAAGAGG
77785328 AGAAGAA
1 AGAAGAA
77785335 GAATTAAGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 8 0.24
29 1 0.03
30 2 0.06
31 22 0.67
ACGTcount: A:0.65, C:0.02, G:0.32, T:0.02
Consensus pattern (28 bp):
AGAAGAAAAAGAGAAAAAGAAGAAGAGG
Found at i:77786498 original size:53 final size:53
Alignment explanation
Indices: 77786436--77786545 Score: 211
Period size: 53 Copynumber: 2.1 Consensus size: 53
77786426 TTCTTCCTCT
*
77786436 GCTTCTTTTCCACTGGTTCATAGTAATCCCATGGTCTTTCAGGGATGCGGATG
1 GCTTCTTTTCCACTGGTTCATAGTAATCCCATCGTCTTTCAGGGATGCGGATG
77786489 GCTTCTTTTCCACTGGTTCATAGTAATCCCATCGTCTTTCAGGGATGCGGATG
1 GCTTCTTTTCCACTGGTTCATAGTAATCCCATCGTCTTTCAGGGATGCGGATG
77786542 GCTT
1 GCTT
77786546 GGGGTTGTTC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (53 bp):
GCTTCTTTTCCACTGGTTCATAGTAATCCCATCGTCTTTCAGGGATGCGGATG
Found at i:77791216 original size:62 final size:62
Alignment explanation
Indices: 77791112--77791258 Score: 231
Period size: 62 Copynumber: 2.4 Consensus size: 62
77791102 AAAATTGACG
* * *
77791112 GTAAAAAGGATCTAGCCCGGATGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGT
1 GTAAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTAATATAGCCCTCCCGAAGAATACGT
*
77791174 GTAAAAAGGATCTAGCCCGGACGGGTGATCCTATTCTAATATAGCCCTCCCGAAGAATACGT
1 GTAAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTAATATAGCCCTCCCGAAGAATACGT
* * *
77791236 GTAAAATGGATTTAGCCCAGACG
1 GTAAAAAGGATCTAGCCCGGACG
77791259 AGTAATCCGA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 78 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (62 bp):
GTAAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTAATATAGCCCTCCCGAAGAATACGT
Found at i:77791512 original size:46 final size:47
Alignment explanation
Indices: 77791445--77791661 Score: 298
Period size: 46 Copynumber: 4.7 Consensus size: 47
77791435 TGGCAACCTG
*
77791445 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
* *
77791491 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
* *
77791537 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAGGAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
** *
77791584 T-AATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
* * * *
77791629 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
77791662 TCACGTCAAA
Statistics
Matches: 157, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 6 0.04
46 148 0.94
47 3 0.02
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (47 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
Found at i:77791639 original size:138 final size:130
Alignment explanation
Indices: 77791399--77791661 Score: 348
Period size: 138 Copynumber: 2.0 Consensus size: 130
77791389 GTGTTCTCTA
* *
77791399 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGA
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGGGTATAAGACCATGGTTGA
* * * * *
77791464 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
66 AAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACCTG
* *
77791529 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAGGAAAATAATAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---GG----T-ATAAGACC
*
77791594 ATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTAT
58 ATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACACCAT
77791658 GGCA
122 GGCA
77791662 TCACGTCAAA
Statistics
Matches: 114, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
130 44 0.39
133 1 0.01
137 2 0.02
138 67 0.59
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGGGTATAAGACCATGGTTGA
AAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACCTG
Found at i:77791967 original size:23 final size:25
Alignment explanation
Indices: 77791922--77791968 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
77791912 AATAAATATA
*
77791922 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
77791947 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
77791969 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:77794816 original size:26 final size:26
Alignment explanation
Indices: 77794778--77794835 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
77794768 CATGAAATTC
77794778 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
77794804 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
77794830 TTATCA
1 TTATCA
77794836 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:77795461 original size:15 final size:18
Alignment explanation
Indices: 77795437--77795472 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
77795427 AGAGACTTCC
77795437 AAAACACATC-ATA-AAA
1 AAAACACATCAATATAAA
77795453 AAAAC-CATCAATATAAA
1 AAAACACATCAATATAAA
77795470 AAA
1 AAA
77795473 TTCATTCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.22
16 8 0.44
17 6 0.33
ACGTcount: A:0.69, C:0.17, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAACACATCAATATAAA
Found at i:77799545 original size:35 final size:35
Alignment explanation
Indices: 77799506--77799840 Score: 350
Period size: 35 Copynumber: 9.6 Consensus size: 35
77799496 CATGGCAAAG
*
77799506 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* *
77799541 TGTGAAACGTAGGTATGGTATTAACCATACCAAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
*
77799576 TGTGAAACGTAGGTATGGTATTAACCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* * * * *
77799611 TGTGAAACATTGGTATGGTATTAACCATACTGAGC
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* *
77799646 TGTGAAACATAGGTATGGTATT-TCCATACCGAGC
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* * ** ** * *
77799680 TATGAAACGTAGGTATCGCGTCGTCCATACTGAGC
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* * * ** *
77799715 TATGATACGTAGGTATGGCATCGTCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* ** * *
77799750 TATGAAATATAGGTATGGTATTTTCCATACCG-GG
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* * * *
77799784 TATGAAAAGTAGGTATGGTGTTTTCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
77799819 TGTGAAACGTAGGTATGGTATT
1 TGTGAAACGTAGGTATGGTATT
77799841 TCAATGAGGA
Statistics
Matches: 261, Mismatches: 37, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
34 56 0.21
35 205 0.79
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
Found at i:77799743 original size:104 final size:102
Alignment explanation
Indices: 77799506--77799839 Score: 373
Period size: 104 Copynumber: 3.2 Consensus size: 102
77799496 CATGGCAAAG
* * *
77799506 TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATAC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGTTGTGAAACATAGGTATGGTATT-TCCATAC
* * *
77799571 CAAGTTGTGAAACGTAGGTATGGTATTAACCATACCGAGT
65 CGAGCTATGAAACGTAGGTATGGTATT--CCATACCGAGT
* * * * *
77799611 TGTGAAACATTGGTATGGTATTAACCATACTGAGCTGTGAAACATAGGTATGGTATTTCCATACC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGTTGTGAAACATAGGTATGGTATTTCCATACC
** * *
77799676 GAGCTATGAAACGTAGGTATCGCGTCGTCCATACTGAGC
66 GAGCTATGAAACGTAGGTAT-G-GTATTCCATACCGAGT
* * * * * *
77799715 TATGATACGTAGGTATGGCATCGTCCATACTGAGTTATGAAATATAGGTATGGTATTTTCCATAC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGTTGTGAAACATAGGTATGGTA-TTTCCATAC
* * *
77799780 CG-GGTATGAAAAGTAGGTATGGTGTTTTCCATACCGAGT
65 CGAGCTATGAAACGTAGGTAT-G-GTATTCCATACCGAGT
77799819 TGTGAAACGTAGGTATGGTAT
1 TGTGAAACGTAGGTATGGTAT
77799840 TTCAATGAGG
Statistics
Matches: 189, Mismatches: 37, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
104 124 0.66
105 62 0.33
106 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (102 bp):
TGTGAAACGTAGGTATGGTATCATCCATACTGAGTTGTGAAACATAGGTATGGTATTTCCATACC
GAGCTATGAAACGTAGGTATGGTATTCCATACCGAGT
Found at i:77799765 original size:139 final size:137
Alignment explanation
Indices: 77799506--77799838 Score: 364
Period size: 139 Copynumber: 2.4 Consensus size: 137
77799496 CATGGCAAAG
* * *
77799506 TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATAC
1 TGTGAAACATAGGTATGGTAT-TTCCATACCGAGTTGTGAAACGTAGGTATGGTAGT-ACCATAC
* * * * * *
77799571 CAAGTTGTGAAACGTAGGTATGGTATTAACCATACCGAGTTGTGAAACATTGGTATGGTATTAAC
64 CAAGCTATGAAACGTAGGTATGGCATCAACCATACCGAGTTATGAAACATAGGTATGGTATTAAC
*
77799636 CATACTGAGC
129 CATACCG-GC
* * *
77799646 TGTGAAACATAGGTATGGTATTTCCATACCGAGCTATGAAACGTAGGTATCGCGTCGT-CCATAC
1 TGTGAAACATAGGTATGGTATTTCCATACCGAGTTGTGAAACGTAGGTAT-G-GTAGTACCATAC
** * ** * * **
77799710 TGAGCTATGATACGTAGGTATGGCATCGTCCATACTGAGTTATGAAATATAGGTATGGTATTTTC
64 CAAGCTATGAAACGTAGGTATGGCATCAACCATACCGAGTTATGAAACATAGGTATGGTATTAAC
*
77799775 CATACCGGG
129 CATACCGGC
* *
77799784 TATGAAA-AGTAGGTATGGTGTTTTCCATACCGAGTTGTGAAACGTAGGTATGGTA
1 TGTGAAACA-TAGGTATGGT-ATTTCCATACCGAGTTGTGAAACGTAGGTATGGTA
77799839 TTTCAATGAG
Statistics
Matches: 161, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
137 3 0.02
138 18 0.11
139 116 0.72
140 21 0.13
141 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (137 bp):
TGTGAAACATAGGTATGGTATTTCCATACCGAGTTGTGAAACGTAGGTATGGTAGTACCATACCA
AGCTATGAAACGTAGGTATGGCATCAACCATACCGAGTTATGAAACATAGGTATGGTATTAACCA
TACCGGC
Found at i:77803416 original size:44 final size:44
Alignment explanation
Indices: 77803325--77803416 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
77803315 CTGAAGTAAC
* * *
77803325 AGTAACAGTACGACACACAAGGTGCCTTATTGACTTAAAGTCAA
1 AGTAACAGTACGACACACAAGGTGCCTCATCGACTCAAAGTCAA
** * *
77803369 AGTAACAGTACGACACTTATA-GTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACA-AGGTGCCTCATCGACTCAAAGTCAA
77803413 AGTA
1 AGTA
77803417 TCTCTGAACA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 39 0.98
45 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTAACAGTACGACACACAAGGTGCCTCATCGACTCAAAGTCAA
Found at i:77805350 original size:25 final size:25
Alignment explanation
Indices: 77805268--77805365 Score: 66
Period size: 22 Copynumber: 4.2 Consensus size: 25
77805258 CATTAATGAA
77805268 CAGAGAGCACTAA-AGTGCT-AT-A-
1 CAGAGAGCACTAATA-TGCTAATAAT
* * *
77805290 CAGAAAGCACGAATGTGCT-A-AAT
1 CAGAGAGCACTAATATGCTAATAAT
* *
77805313 -AGAGTGCACTAATATTCTAATAAT
1 CAGAGAGCACTAATATGCTAATAAT
* * *
77805337 CAGAGAGCATTAATGTGCTAATTAT
1 CAGAGAGCACTAATATGCTAATAAT
77805362 CAGA
1 CAGA
77805366 AAACGCGCTA
Statistics
Matches: 57, Mismatches: 13, Indels: 9
0.72 0.16 0.11
Matches are distributed among these distances:
22 30 0.53
23 1 0.02
24 3 0.05
25 23 0.40
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.24
Consensus pattern (25 bp):
CAGAGAGCACTAATATGCTAATAAT
Found at i:77806496 original size:10 final size:10
Alignment explanation
Indices: 77806481--77806556 Score: 50
Period size: 10 Copynumber: 7.4 Consensus size: 10
77806471 TAATTATATA
77806481 ATATAATAAT
1 ATATAATAAT
77806491 ATATAAT-AT
1 ATATAATAAT
*
77806500 AATTTAATAAT
1 -ATATAATAAT
* * *
77806511 ATTTACTTAT
1 ATATAATAAT
77806521 ATTATAAGTAAAT
1 A-TATAA-T-AAT
77806534 ATATAATAAT
1 ATATAATAAT
77806544 -TACTAAT-AT
1 ATA-TAATAAT
77806553 ATAT
1 ATAT
77806557 TTATTATTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
9 7 0.13
10 31 0.58
11 6 0.11
12 6 0.11
13 3 0.06
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (10 bp):
ATATAATAAT
Found at i:77809909 original size:50 final size:50
Alignment explanation
Indices: 77809834--77809932 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
77809824 TGGCAACAAT
*
77809834 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGAAAG
1 TGATAAGTGATAGCTTCGACTACACTTATCTGATCAAGGAAAAGTGAAAG
* *
77809884 TGATAAGTGATAGCTTCGACTACACTTATCTGATCAATGACAAGTGAAA
1 TGATAAGTGATAGCTTCGACTACACTTATCTGATCAAGGAAAAGTGAAA
77809933 AGTGGTAGCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (50 bp):
TGATAAGTGATAGCTTCGACTACACTTATCTGATCAAGGAAAAGTGAAAG
Found at i:77809944 original size:44 final size:44
Alignment explanation
Indices: 77809829--77809950 Score: 127
Period size: 50 Copynumber: 2.6 Consensus size: 44
77809819 GACCATGGCA
* * *
77809829 ACAATTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGG
1 ACAAGTGAAAAGTGATAGCTTCGACTACACTTATCTGATCAAGG
* *
77809873 AAAAGTGAAAGTGATAAGTGATAGCTTCGACTACACTTATCTGATCAATG
1 ACAAGTG--A---A-AAGTGATAGCTTCGACTACACTTATCTGATCAAGG
* *
77809923 ACAAGTGAAAAGTGGTAGCTTCAACTAC
1 ACAAGTGAAAAGTGATAGCTTCGACTAC
77809951 CTGATCAGTG
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
44 22 0.34
45 1 0.02
46 1 0.02
48 1 0.02
50 39 0.61
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (44 bp):
ACAAGTGAAAAGTGATAGCTTCGACTACACTTATCTGATCAAGG
Found at i:77809964 original size:31 final size:31
Alignment explanation
Indices: 77809926--77810074 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
77809916 ATCAATGACA
**
77809926 AGTGAAAAGTGGTAGCTTCAACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
77809957 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
77809988 AGTGAAAAGTGGTAGTTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
77810019 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
77810050 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
77810075 AAGTGACAAG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:77810170 original size:47 final size:46
Alignment explanation
Indices: 77810101--77810264 Score: 167
Period size: 47 Copynumber: 3.6 Consensus size: 46
77810091 GTGATTTTCA
* *
77810101 TATAAGACCATATCTGGGATATGGCATCAGTGTGATATATGCTACTG
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATAC-G
* * *
77810148 TATAAGACTATATCTGGGATATGGCATCAGTGAGATATGTGATTCG
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACG
* * * *
77810194 TGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATATG
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-ATACG
* * *
77810236 TGTAAGACCATAGCTGGGCTATGGCATCA
1 TATAAGACCATATCTGGGATATGGCATCA
77810265 TTATGTGAAG
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
41 7 0.07
42 31 0.30
46 25 0.24
47 40 0.39
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (46 bp):
TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACG
Found at i:77810248 original size:42 final size:43
Alignment explanation
Indices: 77810193--77810307 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
77810183 TATGTGATTC
*
77810193 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
77810235 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
77810277 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
77810308 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:77816148 original size:17 final size:18
Alignment explanation
Indices: 77816118--77816163 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
77816108 ATTTAAATTG
77816118 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
77816136 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
77816152 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
77816164 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:77818861 original size:5 final size:5
Alignment explanation
Indices: 77818818--77818844 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
77818808 GCTGATTGGT
77818818 AGAAA AGAAA AGAAA AGAAA AGAAA AG
1 AGAAA AGAAA AGAAA AGAAA AGAAA AG
77818845 CTTAAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:77823310 original size:26 final size:26
Alignment explanation
Indices: 77823253--77823302 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 26
77823243 TTTCAGTAAA
77823253 TAAAAATATATATAATTATTAAATAT
1 TAAAAATATATATAATTATTAAATAT
77823279 TAAAAATA-ATATAA-TA-TAAATAT
1 TAAAAATATATATAATTATTAAATAT
77823302 T
1 T
77823303 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 8 0.33
24 2 0.08
25 6 0.25
26 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
TAAAAATATATATAATTATTAAATAT
Found at i:77825186 original size:22 final size:20
Alignment explanation
Indices: 77825145--77825197 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
77825135 AAATAAAAAA
*
77825145 TAAAAAATATTATTAAATAT
1 TAAAAAATATAATTAAATAT
77825165 TAAAATAATATAATATAAATATTT
1 TAAAA-AATATAAT-TAAATA--T
77825189 TAAAAAATA
1 TAAAAAATA
77825198 ATATGAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 6 0.21
23 4 0.14
24 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAAAATATAATTAAATAT
Found at i:77829575 original size:13 final size:13
Alignment explanation
Indices: 77829557--77829591 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
77829547 TCAAAATTTG
*
77829557 AAAATAATAATAA
1 AAAATAAAAATAA
77829570 AAAATAAAAATAA
1 AAAATAAAAATAA
77829583 AAAAGTAAA
1 AAAA-TAAA
77829592 TAGTGATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:77829907 original size:12 final size:12
Alignment explanation
Indices: 77829892--77829975 Score: 80
Period size: 12 Copynumber: 6.8 Consensus size: 12
77829882 AGGTATAAAT
*
77829892 ATAATGATAGTA
1 ATAATAATAGTA
77829904 ATAATAATAGTA
1 ATAATAATAGTA
* *
77829916 GTAATAATACTA
1 ATAATAATAGTA
*
77829928 ACAATAATAGTAAA
1 ATAATAATAGT--A
77829942 GATAATAATAGTAA
1 -ATAATAATAGT-A
*
77829956 ATAATAATAATA
1 ATAATAATAGTA
77829968 ATAA-AATA
1 ATAATAATA
77829976 AACAAAATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
11 4 0.07
12 34 0.56
13 10 0.16
14 3 0.05
15 10 0.16
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:77829988 original size:3 final size:3
Alignment explanation
Indices: 77829892--77829976 Score: 66
Period size: 3 Copynumber: 28.3 Consensus size: 3
77829882 AGGTATAAAT
* * * * * * *
77829892 ATA ATG ATA GTA ATA ATA ATA GTA GTA ATA ATA CTA ACA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
77829940 A-A GATA ATA ATA GTAA ATA ATA ATA ATA ATA A-A ATA A
1 ATA -ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
77829977 ACAAAATAAT
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
2 3 0.05
3 58 0.91
4 3 0.05
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:77831377 original size:44 final size:43
Alignment explanation
Indices: 77831329--77831776 Score: 127
Period size: 44 Copynumber: 10.4 Consensus size: 43
77831319 CTACTGCCAA
* * * *
77831329 TTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAAC
1 TTCAGGGAGATAAGATTATGT-CTTTAATCCGCTCCACTGTAAC
* * *
77831373 TTCAGGGAGATAGGATTATGTCTTTAATCTGCTCCGCTGTAAC
1 TTCAGGGAGATAAGATTATGTCTTTAATCCGCTCCACTGTAAC
* *** ** *
77831416 CTCAGGGAGATAAGATCTGCAAT-TCTTCGGTCTACTCCGCTGTAAC
1 TTCAGGGAGATAAGAT-T---ATGTCTTTAATCCGCTCCACTGTAAC
* * ** * ** *
77831462 CTCAGGGAAATAAGACCCGATG-C---GATCTACTCTACTGTAAC
1 TTCAGGGAGATAAGA--TTATGTCTTTAATCCGCTCCACTGTAAC
* * *
77831503 TTCAGAGAGATAAGATCCTTTAT-TTTAATCCGCTCCACTGTAA-
1 TTCAGGGAGATAAGAT--TATGTCTTTAATCCGCTCCACTGTAAC
* * * **
77831546 TCTCAGGGAGATAGGATTACTAG-CTTCAATCTGCTCTGCTGTAA-
1 T-TCAGGGAGATAAGATTA-T-GTCTTTAATCCGCTCCACTGTAAC
* * *** ** *
77831590 TCTCAGGGAGATAAGA-TCTGAC-ACGATCTACTCTACTGTAAC
1 T-TCAGGGAGATAAGATTATGTCTTTAATCCGCTCCACTGTAAC
* * * *** *** *
77831632 TTCAGAGAGATAAGA-TCTGAC-ACGATCTATTCTACTGTAAC
1 TTCAGGGAGATAAGATTATGTCTTTAATCCGCTCCACTGTAAC
*
77831673 TTCAGAGAGATAAGATCCT-TCGT-TTTAATCCGCTCCACTGTAAC
1 TTCAGGGAGATAAGAT--TAT-GTCTTTAATCCGCTCCACTGTAAC
* * * * * *
77831717 ATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGT-AC
1 TTCAGGGAGATAAGATTA-TGTCTTTAATCCGCTCCACTGTAAC
77831760 TCTCAGGGAGATAAGAT
1 T-TCAGGGAGATAAGAT
77831777 CTGAAATTCT
Statistics
Matches: 313, Mismatches: 63, Indels: 56
0.72 0.15 0.13
Matches are distributed among these distances:
41 97 0.31
42 5 0.02
43 40 0.13
44 136 0.43
46 33 0.11
47 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
TTCAGGGAGATAAGATTATGTCTTTAATCCGCTCCACTGTAAC
Found at i:77831516 original size:41 final size:41
Alignment explanation
Indices: 77831446--77831687 Score: 146
Period size: 41 Copynumber: 5.8 Consensus size: 41
77831436 AATTCTTCGG
** * * * * *
77831446 TCTACTCCGCTGTAACCTCAGGGAAATAAGACCCGATGCGA
1 TCTACTCTACTGTAACTTCAGAGAGATAAGACCTGATACGA
* ***
77831487 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
1 TCTACTCTACTGTAACTTCAGAGAGATAAGA-CC-TGA-TACGA
** * * * * * * *
77831531 TCCGCTCCACTGTAA-TCTCAGGGAGATAGGATTACTAGCTTCAA
1 TCTACTCTACTGTAACT-TCAGAGAGATAAGA--CCT-GATACGA
* * * * *
77831575 TCTGCTCTGCTGTAA-TCTCAGGGAGATAAGATCTGACACGA
1 TCTACTCTACTGTAACT-TCAGAGAGATAAGACCTGATACGA
* *
77831616 TCTACTCTACTGTAACTTCAGAGAGATAAGATCTGACACGA
1 TCTACTCTACTGTAACTTCAGAGAGATAAGACCTGATACGA
*
77831657 TCTATTCTACTGTAACTTCAGAGAGATAAGA
1 TCTACTCTACTGTAACTTCAGAGAGATAAGA
77831688 TCCTTCGTTT
Statistics
Matches: 162, Mismatches: 32, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
41 95 0.59
42 5 0.03
43 2 0.01
44 58 0.36
45 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (41 bp):
TCTACTCTACTGTAACTTCAGAGAGATAAGACCTGATACGA
Found at i:77831621 original size:129 final size:131
Alignment explanation
Indices: 77831365--77831649 Score: 344
Period size: 129 Copynumber: 2.2 Consensus size: 131
77831355 AATCCGCTCC
* * * * *
77831365 ACTGTAACTTCAGGGAGATAGGAT-TATGTCTTTAATCTGCTCCGCTGTAACCTCAGGGAGATAA
1 ACTGTAACTTCAGAGAGATAAGATCTATATCTTTAATCCGCTCCACTGTAACCTCAGGGAGATAA
* * ** **
77831429 GATCTGCAATTCTTCGGTCTACTCCGCTGTAACCTCAGGGAAATAAGACCCGATGCGATCTACTC
66 GATCTACAATGCTTCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCCGACACGATCTACTC
77831494 T
131 T
* *
77831495 ACTGTAACTTCAGAGAGATAAGATCCTTTAT-TTTAATCCGCTCCACTGTAATCTCAGGGAGATA
1 ACTGTAACTTCAGAGAGATAAGAT-CTATATCTTTAATCCGCTCCACTGTAACCTCAGGGAGATA
* * * * * * * *
77831559 GGAT-TACTA-GCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATCTGACACGATCTACT
65 AGATCTACAATGCTTCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCCGACACGATCTACT
77831622 CT
130 CT
77831624 ACTGTAACTTCAGAGAGATAAGATCT
1 ACTGTAACTTCAGAGAGATAAGATCT
77831650 GACACGATCT
Statistics
Matches: 132, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
128 2 0.02
129 69 0.52
130 25 0.19
131 33 0.25
132 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (131 bp):
ACTGTAACTTCAGAGAGATAAGATCTATATCTTTAATCCGCTCCACTGTAACCTCAGGGAGATAA
GATCTACAATGCTTCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCCGACACGATCTACTC
T
Found at i:77831688 original size:41 final size:41
Alignment explanation
Indices: 77831574--77831689 Score: 180
Period size: 41 Copynumber: 2.8 Consensus size: 41
77831564 ACTAGCTTCA
* * *
77831574 ATCTGCTCTGCTGTAA-TCTCAGGGAGATAAGATCTGACACG
1 ATCTACTCTACTGTAACT-TCAGAGAGATAAGATCTGACACG
77831615 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGACACG
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGACACG
*
77831656 ATCTATTCTACTGTAACTTCAGAGAGATAAGATC
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATC
77831690 CTTCGTTTTA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 69 0.99
42 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (41 bp):
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGACACG
Found at i:77831692 original size:170 final size:172
Alignment explanation
Indices: 77831312--77831780 Score: 644
Period size: 170 Copynumber: 2.7 Consensus size: 172
77831302 CTTGGACGTA
* * *
77831312 ATCTACTCTACTGCCAA-TTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACTTC
1 ATCTACTCTACTG-TAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACATC
* *
77831376 AGGGAGATAGGATTA-T-GTCTTTAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAAT
65 AGGGAGATAGGATTACTAG-CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG--A-
* * * * **
77831439 TCTTCGGTCTACTCCGCTGTAACCTCAGGGAAATAAGACCCGATGCG
126 TCTACGATCTACTCCACTGTAACCTCAGAGAAATAAGACCCGACACG
77831486 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC-TC
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-CATC
*
77831550 AGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATCTGA-C-A
65 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGATCTA
* * * * *
77831613 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGACACG
130 CGATCTACTCCACTGTAACCTCAGAGAAATAAGACCCGACACG
* **
77831656 ATCTATTCTACTGTAACTTCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCCACTGTAACATCA
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACATCA
* *
77831721 GGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTACTCTCAGGGAGATAAGATCTGA
66 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
77831781 AATTCTTCGG
Statistics
Matches: 268, Mismatches: 22, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
169 1 0.00
170 150 0.56
171 1 0.00
173 3 0.01
174 72 0.27
175 40 0.15
176 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (172 bp):
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACATCA
GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGATCTAC
GATCTACTCCACTGTAACCTCAGAGAAATAAGACCCGACACG
Found at i:77844043 original size:13 final size:13
Alignment explanation
Indices: 77844025--77844059 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
77844015 ATCAAATTTG
*
77844025 AAAATAATAATAA
1 AAAATAAAAATAA
77844038 AAAATAAAAATAA
1 AAAATAAAAATAA
77844051 AAAAGTAAA
1 AAAA-TAAA
77844060 TAGTGATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:77844373 original size:12 final size:12
Alignment explanation
Indices: 77844358--77844440 Score: 85
Period size: 12 Copynumber: 6.6 Consensus size: 12
77844348 AGGTATAAAT
*
77844358 ATAATGATAGTA
1 ATAATAATAGTA
77844370 ATAATAATAGTA
1 ATAATAATAGTA
* *
77844382 GTAATAATACTA
1 ATAATAATAGTA
*
77844394 ACAATAATAGTAAA
1 ATAATAATAGT--A
77844408 GATAATAATAGTAA
1 -ATAATAATAGT-A
*
77844422 ATAATAATAATA
1 ATAATAATAGTA
77844434 ATAATAA
1 ATAATAA
77844441 AATAAACAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
12 37 0.62
13 10 0.17
14 3 0.05
15 10 0.17
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.30
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:77844457 original size:3 final size:3
Alignment explanation
Indices: 77844358--77844445 Score: 72
Period size: 3 Copynumber: 29.3 Consensus size: 3
77844348 AGGTATAAAT
* * * * * * *
77844358 ATA ATG ATA GTA ATA ATA ATA GTA GTA ATA ATA CTA ACA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
77844406 A-A GATA ATA ATA GTAA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA -ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
77844446 ACAAAATAAT
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
2 3 0.04
3 61 0.91
4 3 0.04
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:77847191 original size:19 final size:19
Alignment explanation
Indices: 77847167--77847205 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
77847157 AAATAGGTGT
77847167 CTAGTTAGACTTTTAACCA
1 CTAGTTAGACTTTTAACCA
77847186 CTAGTTAGACTTTTAACCA
1 CTAGTTAGACTTTTAACCA
77847205 C
1 C
77847206 AACTCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (19 bp):
CTAGTTAGACTTTTAACCA
Found at i:77849121 original size:31 final size:32
Alignment explanation
Indices: 77849074--77849137 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
77849064 TCAAATTTTT
* *
77849074 AAAGAAAAGAGACTAAAATTGATCAATTCAAA
1 AAAGAAAAGAGACTAAAATTAATCAAATCAAA
* *
77849106 AAAGATAAG-GACTAAATTTAATCAAATCAAA
1 AAAGAAAAGAGACTAAAATTAATCAAATCAAA
77849137 A
1 A
77849138 CATAGGGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.59, C:0.09, G:0.11, T:0.20
Consensus pattern (32 bp):
AAAGAAAAGAGACTAAAATTAATCAAATCAAA
Found at i:77849793 original size:2 final size:2
Alignment explanation
Indices: 77849788--77849820 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
77849778 TATGCATATA
77849788 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
77849821 ACATAGCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:77856523 original size:19 final size:19
Alignment explanation
Indices: 77856499--77856535 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
77856489 TATCAAACTT
*
77856499 CTTTTTTATCTTCCATATA
1 CTTTTTTATCTTCAATATA
77856518 CTTTTTTATCTTCAATAT
1 CTTTTTTATCTTCAATAT
77856536 CAGGATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (19 bp):
CTTTTTTATCTTCAATATA
Found at i:77859840 original size:21 final size:21
Alignment explanation
Indices: 77859814--77859854 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
77859804 AGACAAGCGA
* *
77859814 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
77859835 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
77859855 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:77863240 original size:41 final size:42
Alignment explanation
Indices: 77863187--77863267 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 42
77863177 AGAACAAAGA
* *
77863187 AAATGAAAGGGAAAAGGAGATAAAAAGAAAAAATAGAAATAG
1 AAATGAAAGGGAAAAGAAAATAAAAAGAAAAAATAGAAATAG
* * *
77863229 AAATG-AAGGGAAAATAAAATAAAATGAAATAATAGAAAT
1 AAATGAAAGGGAAAAGAAAATAAAAAGAAAAAATAGAAAT
77863268 TTTTAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
41 29 0.85
42 5 0.15
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.14
Consensus pattern (42 bp):
AAATGAAAGGGAAAAGAAAATAAAAAGAAAAAATAGAAATAG
Found at i:77863404 original size:20 final size:20
Alignment explanation
Indices: 77863379--77863423 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
77863369 TAAATTAGTA
77863379 TAATTATATACCTAAAATTC
1 TAATTATATACCTAAAATTC
* *
77863399 TAATTATATACGTAAAATTT
1 TAATTATATACCTAAAATTC
77863419 TAATT
1 TAATT
77863424 CTAATTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (20 bp):
TAATTATATACCTAAAATTC
Found at i:77863536 original size:25 final size:25
Alignment explanation
Indices: 77863500--77863550 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
77863490 ACAAACAAAC
* *
77863500 AAATTAATTTATTTTTATATTTAAT
1 AAATTAATTTATTTATATATATAAT
77863525 AAATATAA-TTATTTATATATATAAT
1 AAAT-TAATTTATTTATATATATAAT
77863550 A
1 A
77863551 TATAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
AAATTAATTTATTTATATATATAAT
Found at i:77863547 original size:29 final size:30
Alignment explanation
Indices: 77863501--77863561 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
77863491 CAAACAAACA
* * *
77863501 AATTAATTTATTTTTAT-ATTTAATAAATAT
1 AATTAATTTATATATATAATAT-ATAAATAT
77863531 AATT-ATTTATATATATAATATATAAATAT
1 AATTAATTTATATATATAATATATAAATAT
77863560 AA
1 AA
77863562 AACGATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
AATTAATTTATATATATAATATATAAATAT
Found at i:77863548 original size:16 final size:17
Alignment explanation
Indices: 77863517--77863549 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
77863507 TTTATTTTTA
77863517 TATTTAATAAATATAAT
1 TATTTAATAAATATAAT
*
77863534 TATTT-ATATATATAAT
1 TATTTAATAAATATAAT
77863550 ATATAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTTAATAAATATAAT
Found at i:77863658 original size:29 final size:30
Alignment explanation
Indices: 77863610--77863668 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
77863600 GAATTTGATT
*
77863610 AAATTAAAATTTCATGTATAAAATTATACA
1 AAATCAAAATTTCATGTATAAAATTATACA
77863640 AAATCAAAA-TTCATGTATAAAATTATACA
1 AAATCAAAATTTCATGTATAAAATTATACA
77863669 TTAAACTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.34
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTATACA
Found at i:77865067 original size:10 final size:11
Alignment explanation
Indices: 77865051--77865075 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
77865041 AATTTTACCA
77865051 AAAAAAAAAAG
1 AAAAAAAAAAG
77865062 AAAAAAAAAAG
1 AAAAAAAAAAG
77865073 AAA
1 AAA
77865076 CAAGTAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:77873167 original size:24 final size:24
Alignment explanation
Indices: 77873132--77873186 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
77873122 ACCATAACAT
77873132 TAACAGTAACAGTAACAATATCGG
1 TAACAGTAACAGTAACAATATCGG
* * *
77873156 TAACAGTGACAGTAGCAATTTCGG
1 TAACAGTAACAGTAACAATATCGG
77873180 TACACAG
1 TA-ACAG
77873187 AGTAGCTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (24 bp):
TAACAGTAACAGTAACAATATCGG
Found at i:77874045 original size:15 final size:15
Alignment explanation
Indices: 77874019--77874086 Score: 57
Period size: 15 Copynumber: 4.4 Consensus size: 15
77874009 CCTCAAAACC
77874019 CTATTT-TTTCCTTT
1 CTATTTCTTTCCTTT
*
77874033 CTTTTTCTTTCCTTT
1 CTATTTCTTTCCTTT
* *
77874048 CTATTTCATTTTCATT
1 CTATTTC-TTTCCTTT
* *
77874064 CTCTGTTCTTTCTTTTT
1 CTAT-TTCTTTC-CTTT
77874081 CTATTT
1 CTATTT
77874087 TGTTTCTTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
14 5 0.12
15 14 0.34
16 14 0.34
17 8 0.20
ACGTcount: A:0.07, C:0.22, G:0.01, T:0.69
Consensus pattern (15 bp):
CTATTTCTTTCCTTT
Found at i:77874092 original size:17 final size:18
Alignment explanation
Indices: 77874072--77874106 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
77874062 TTCTCTGTTC
77874072 TTTCTTTT-TCTATTTTG
1 TTTCTTTTATCTATTTTG
*
77874089 TTTCTTTTATTTATTTTG
1 TTTCTTTTATCTATTTTG
77874107 ACTATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTCTTTTATCTATTTTG
Found at i:77874156 original size:16 final size:15
Alignment explanation
Indices: 77874109--77874156 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
77874099 TTATTTTGAC
*
77874109 TATTATATTATATTAT
1 TATTATATTA-AATAT
*
77874125 TATTATAATAACATAT
1 TATTATATTAA-ATAT
77874141 TATATATATTAAATAT
1 TAT-TATATTAAATAT
77874157 CTTATACTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 1 0.04
16 19 0.70
17 7 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTATATTAAATAT
Found at i:77875010 original size:302 final size:302
Alignment explanation
Indices: 77874464--77875059 Score: 1131
Period size: 302 Copynumber: 2.0 Consensus size: 302
77874454 CCGGAAATAC
77874464 ACTTTTCCGATACTCATAAACTTTGGGTCATTACACAACAACTAAAAGAAAGATCGATTCTTTGG
1 ACTTTTCCGATACTCATAAACTTTGGGTCATTACACAACAACTAAAAGAAAGATCGATTCTTTGG
*
77874529 GATCTTTCCTTTCTTCAAACGAAACGAACCGAGATAGAATCTGATCGATTCCCTAAGTGCCTTTC
66 GATCTTTCCTTTCTTCAAACGAAACGAACCGAGATAGAATCAGATCGATTCCCTAAGTGCCTTTC
* *
77874594 TGGATATTCCTCAATGTCTCGGCTGTTCATGGAACGTGAGAAGTGAATGAATAATCATTTGCTTC
131 TGGATATTCCTCAATGTCCCGGCTGTTCATGGAACGTGAGAAGAGAATGAATAATCATTTGCTTC
77874659 CAAAAGAAATCGAATTTCTTAGGAATCTTACAAGATCCATTTATTCTTTTTTCTCTAATAGATGG
196 CAAAAGAAATCGAATTTCTTAGGAATCTTACAAGATCCATTTATTCTTTTTTCTCTAATAGATGG
77874724 TTAGAACTTCATCTAGGTTCGAATCCTACTGAGATGGTTAGA
261 TTAGAACTTCATCTAGGTTCGAATCCTACTGAGATGGTTAGA
77874766 ACTTTTCCGATACTCATAAACTTTGGGTCATTACACAACAACTAAAAGAAAGATCGATTCTTTGG
1 ACTTTTCCGATACTCATAAACTTTGGGTCATTACACAACAACTAAAAGAAAGATCGATTCTTTGG
*
77874831 GATCTTTCCTTTCTTCAAACGGAACGAACCGAGATAGAATCAGATCGATTCCCTAAGTGCCTTTC
66 GATCTTTCCTTTCTTCAAACGAAACGAACCGAGATAGAATCAGATCGATTCCCTAAGTGCCTTTC
77874896 TGGATATTCCTCAATGTCCCGGCTGTTCATGGAACGTGAGAAGCAG-ATGAATAATCATTTGCTT
131 TGGATATTCCTCAATGTCCCGGCTGTTCATGGAACGTGAGAAG-AGAATGAATAATCATTTGCTT
*
77874960 CCAAAAGAAATCGAATTTCTTAGGAATCTTACAAGATCCATTTATTCTTTTTTCTCTGATAGATG
195 CCAAAAGAAATCGAATTTCTTAGGAATCTTACAAGATCCATTTATTCTTTTTTCTCTAATAGATG
77875025 GTTAGAACTTCATCTAGGTTCGAATCCTACTGAGA
260 GTTAGAACTTCATCTAGGTTCGAATCCTACTGAGA
77875060 GGTCCACTAA
Statistics
Matches: 288, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
302 287 1.00
303 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (302 bp):
ACTTTTCCGATACTCATAAACTTTGGGTCATTACACAACAACTAAAAGAAAGATCGATTCTTTGG
GATCTTTCCTTTCTTCAAACGAAACGAACCGAGATAGAATCAGATCGATTCCCTAAGTGCCTTTC
TGGATATTCCTCAATGTCCCGGCTGTTCATGGAACGTGAGAAGAGAATGAATAATCATTTGCTTC
CAAAAGAAATCGAATTTCTTAGGAATCTTACAAGATCCATTTATTCTTTTTTCTCTAATAGATGG
TTAGAACTTCATCTAGGTTCGAATCCTACTGAGATGGTTAGA
Found at i:77879538 original size:21 final size:24
Alignment explanation
Indices: 77879514--77879562 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
77879504 AGAACAAGAG
77879514 AAAATTAAT-CA-TTC-TTGTTAA
1 AAAATTAATCCATTTCATTGTTAA
77879535 AAAATTAATCCATTTCTATTGTTAA
1 AAAATTAATCCATTTC-ATTGTTAA
77879560 AAA
1 AAA
77879563 TTGGCTTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 2 0.08
23 3 0.12
25 10 0.42
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (24 bp):
AAAATTAATCCATTTCATTGTTAA
Found at i:77882038 original size:24 final size:24
Alignment explanation
Indices: 77882011--77882066 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
77882001 AAAAGTTATA
* *
77882011 AAAATTTTTAGGTAATAATATGGT
1 AAAATTTTCAGGTAATAATATGAT
* * *
77882035 AAAATCTTCAGGTGATAATGTGAT
1 AAAATTTTCAGGTAATAATATGAT
77882059 AAAATTTT
1 AAAATTTT
77882067 AGAGTGTCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (24 bp):
AAAATTTTCAGGTAATAATATGAT
Found at i:77884944 original size:5 final size:5
Alignment explanation
Indices: 77884934--77884964 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
77884924 AATAATTAAG
77884934 TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TA-TAT TATAT
77884965 ATAAAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:77886633 original size:39 final size:39
Alignment explanation
Indices: 77886526--77886660 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
77886516 GACCTCGAGT
* * *
77886526 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
77886567 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
77886605 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
77886644 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
77886661 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:77892722 original size:5 final size:5
Alignment explanation
Indices: 77892712--77892747 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
77892702 AATAATTAAG
77892712 TATAT TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
77892748 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:77894413 original size:39 final size:40
Alignment explanation
Indices: 77894306--77894415 Score: 102
Period size: 39 Copynumber: 2.8 Consensus size: 40
77894296 GACCTCGAGT
* **
77894306 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
* ** *
77894347 CGATGAGGTC-CTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGA-GACACTGGGTGTCAACTATTACTTCGGATAGAGC
77894385 CGATGAGACACTGGGTGTCAACTATTACTTC
1 CGATGAGACACTGGGTGTCAACTATTACTTC
77894416 TAACTATTCG
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
37 2 0.04
38 17 0.31
39 18 0.33
40 1 0.02
41 13 0.24
42 4 0.07
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:77897563 original size:31 final size:31
Alignment explanation
Indices: 77897525--77897614 Score: 171
Period size: 31 Copynumber: 2.9 Consensus size: 31
77897515 GGTGGAAAAC
*
77897525 TTATTGACTTAAATGCTGAATGTTGCTGTTG
1 TTATTGACTTAAATGCTAAATGTTGCTGTTG
77897556 TTATTGACTTAAATGCTAAATGTTGCTGTTG
1 TTATTGACTTAAATGCTAAATGTTGCTGTTG
77897587 TTATTGACTTAAATGCTAAATGTTGCTG
1 TTATTGACTTAAATGCTAAATGTTGCTG
77897615 CTGTCCGAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (31 bp):
TTATTGACTTAAATGCTAAATGTTGCTGTTG
Found at i:77901810 original size:17 final size:16
Alignment explanation
Indices: 77901788--77901819 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
77901778 AATTTATACG
77901788 AATTTTTTAAACATTTT
1 AATTTTTTAAA-ATTTT
77901805 AATTTTTTAAAATTT
1 AATTTTTTAAAATTT
77901820 GACTCTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTTTTTAAAATTTT
Found at i:77902713 original size:20 final size:19
Alignment explanation
Indices: 77902661--77902713 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
77902651 AATTTATAAT
77902661 ATTTTATACTTAAATATTAC
1 ATTTTATA-TTAAATATTAC
*
77902681 ATTTTAT-TCTAAATATTTC
1 ATTTTATAT-TAAATATTAC
*
77902700 GTATTTATATTAAA
1 AT-TTTATATTAAA
77902714 AACCATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 1 0.04
19 10 0.36
20 16 0.57
21 1 0.04
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTTTATATTAAATATTAC
Found at i:77902752 original size:11 final size:11
Alignment explanation
Indices: 77902736--77902767 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
77902726 TTTAATTTTC
77902736 TTTAAAATAAT
1 TTTAAAATAAT
77902747 TTTAAAATAAT
1 TTTAAAATAAT
*
77902758 TATAAAATAA
1 TTTAAAATAA
77902768 GGATAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TTTAAAATAAT
Found at i:77908952 original size:3 final size:3
Alignment explanation
Indices: 77908939--77908972 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
77908929 CTAGGTTTTA
77908939 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
77908973 GTTCATGGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:77909336 original size:21 final size:21
Alignment explanation
Indices: 77909285--77909337 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
77909275 ATATTTGATA
*
77909285 AAAAAATTATAATAAAATTATT
1 AAAAAA-TATAATAAAATAATT
* *
77909307 AATATATATAATTAAAA-AATT
1 AAAAAATATAA-TAAAATAATT
77909328 AAAAAATATA
1 AAAAAATATA
77909338 GAAATTATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAAATATAATAAAATAATT
Found at i:77909487 original size:3 final size:3
Alignment explanation
Indices: 77909479--77909503 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
77909469 TTCCATTTCT
77909479 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
77909504 AATCATTCAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:77917374 original size:16 final size:16
Alignment explanation
Indices: 77917349--77917379 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
77917339 AAGAATAATA
77917349 ATTATATAATAATATC
1 ATTATATAATAATATC
*
77917365 ATTATTTAATAATAT
1 ATTATATAATAATAT
77917380 TAAATATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTATATAATAATATC
Found at i:77919067 original size:17 final size:18
Alignment explanation
Indices: 77919029--77919070 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
77919019 TTATAAAGAT
*
77919029 ATTTTT-ATTTTATATTA
1 ATTTTTAATTTAATATTA
*
77919046 TTTTTTAATTTAAT-TTA
1 ATTTTTAATTTAATATTA
77919063 ATTTTTAA
1 ATTTTTAA
77919071 ATCAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTAATTTAATATTA
Found at i:77923602 original size:20 final size:20
Alignment explanation
Indices: 77923579--77923633 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
77923569 TGTTATAAAA
77923579 ATATATTATATTAATTATAT
1 ATATATTATATTAATTATAT
* *
77923599 ATAT-TAAATAATAATTATAT
1 ATATAT-TATATTAATTATAT
77923619 ATATATTCATATTAA
1 ATATATT-ATATTAA
77923634 ACCACACTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 1 0.04
20 20 0.71
21 7 0.25
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATATTATATTAATTATAT
Found at i:77925131 original size:31 final size:31
Alignment explanation
Indices: 77925096--77925169 Score: 139
Period size: 31 Copynumber: 2.4 Consensus size: 31
77925086 AATGTTTTAA
77925096 AGTTAGGTGACCCAAACAAGAACATAAACAT
1 AGTTAGGTGACCCAAACAAGAACATAAACAT
77925127 AGTTAGGTGACCCAAACAAGAACATAAACAT
1 AGTTAGGTGACCCAAACAAGAACATAAACAT
*
77925158 AGTTAGATGACC
1 AGTTAGGTGACC
77925170 ATTTATATAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.46, C:0.19, G:0.18, T:0.18
Consensus pattern (31 bp):
AGTTAGGTGACCCAAACAAGAACATAAACAT
Found at i:77925337 original size:19 final size:18
Alignment explanation
Indices: 77925309--77925354 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
77925299 AATCTTTTAT
*
77925309 TAATTATTGATAACTATTA
1 TAATTTTTGATAA-TATTA
*
77925328 TAATTTTTGATAATTTTA
1 TAATTTTTGATAATATTA
77925346 TAATATTTT
1 TAAT-TTTT
77925355 ACAACTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (18 bp):
TAATTTTTGATAATATTA
Found at i:77928315 original size:15 final size:16
Alignment explanation
Indices: 77928297--77928330 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
77928287 TTTTTCTCTT
77928297 AAATTATT-TTTTATA
1 AAATTATTATTTTATA
77928312 AAATTATTAATTTTATA
1 AAATTATT-ATTTTATA
77928329 AA
1 AA
77928331 TAAACCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTATTATTTTATA
Found at i:77929934 original size:12 final size:12
Alignment explanation
Indices: 77929917--77929945 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
77929907 ACCTCACACT
77929917 CGTGTGCTAGGC
1 CGTGTGCTAGGC
77929929 CGTGTGCTAGGC
1 CGTGTGCTAGGC
77929941 CGTGT
1 CGTGT
77929946 AACAACCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.24, G:0.41, T:0.28
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:77942318 original size:46 final size:44
Alignment explanation
Indices: 77942214--77942321 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
77942204 TGTCTTTAAC
** * * *
77942214 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
77942258 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
77942304 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
77942322 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:77943210 original size:9 final size:9
Alignment explanation
Indices: 77943196--77943230 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
77943186 TTCTATTCTG
77943196 TTTCTTTTC
1 TTTCTTTTC
*
77943205 TTTCTTTTT
1 TTTCTTTTC
*
77943214 TTTCTATTC
1 TTTCTTTTC
77943223 TTTCTTTT
1 TTTCTTTT
77943231 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:77943223 original size:18 final size:19
Alignment explanation
Indices: 77943196--77943235 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
77943186 TTCTATTCTG
*
77943196 TTTCTTTTCTTTCTTTT-T
1 TTTCTATTCTTTCTTTTGT
77943214 TTTCTATTCTTTCTTTTGT
1 TTTCTATTCTTTCTTTTGT
77943233 TTT
1 TTT
77943236 ATGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTCTATTCTTTCTTTTGT
Found at i:77943252 original size:5 final size:5
Alignment explanation
Indices: 77943239--77943311 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
77943229 TTGTTTTATG
77943239 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
77943287 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
77943312 TTTTTAACAC
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:77943264 original size:19 final size:19
Alignment explanation
Indices: 77943240--77943282 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
77943230 TGTTTTATGT
77943240 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
77943259 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
77943278 ATATA
1 ATATA
77943283 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:77943292 original size:24 final size:25
Alignment explanation
Indices: 77943246--77943310 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
77943236 ATGTATATAT
* *
77943246 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
77943270 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
77943295 TTACTATAATATAATA
1 ATAATATAATATAATA
77943311 TTTTTTAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 18 0.53
25 13 0.38
26 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:77948462 original size:46 final size:44
Alignment explanation
Indices: 77948358--77948465 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
77948348 TGTCTTTAAC
** * * *
77948358 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
77948402 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
77948448 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
77948466 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:77949355 original size:9 final size:9
Alignment explanation
Indices: 77949341--77949375 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
77949331 TTCTATTCTG
77949341 TTTCTTTTC
1 TTTCTTTTC
*
77949350 TTTCTTTTT
1 TTTCTTTTC
*
77949359 TTTCTATTC
1 TTTCTTTTC
77949368 TTTCTTTT
1 TTTCTTTT
77949376 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:77949368 original size:18 final size:19
Alignment explanation
Indices: 77949341--77949380 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
77949331 TTCTATTCTG
*
77949341 TTTCTTTTCTTTCTTTT-T
1 TTTCTATTCTTTCTTTTGT
77949359 TTTCTATTCTTTCTTTTGT
1 TTTCTATTCTTTCTTTTGT
77949378 TTT
1 TTT
77949381 ATGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTCTATTCTTTCTTTTGT
Done.