Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 278 of 295
Found at i:88453406 original size:75 final size:75
Alignment explanation
Indices: 88453287--88453457 Score: 230
Period size: 75 Copynumber: 2.4 Consensus size: 75
88453277 CATGGAAAAG
** *
88453287 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
88453346 CCATACTGAGT
65 CCATACCGAGT
88453357 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
88453422 CATACCGAGT
66 CATACCGAGT
**
88453432 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
88453458 TGAGGAAAAC
Statistics
Matches: 89, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.04
74 5 0.06
75 62 0.70
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGT
Found at i:88460845 original size:40 final size:37
Alignment explanation
Indices: 88460782--88460913 Score: 164
Period size: 35 Copynumber: 3.6 Consensus size: 37
88460772 GGAAAAGTGT
*
88460782 GAAATGTAGGTATGGTA--TCATCCATACTGAGTTGT
1 GAAATGTAGGTATGGTATTTCATCCATACTGAGTTGA
*
88460817 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC--ATCCATACTGAGTTGA
* *
88460857 GAAATGTAGGTATGGCATTTC--CCATACCGAGTTGA
1 GAAATGTAGGTATGGTATTTCATCCATACTGAGTTGA
*
88460892 AAAATGTAGGTATGGTATTTCA
1 GAAATGTAGGTATGGTATTTCA
88460914 ATGAGGAAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
35 48 0.57
38 2 0.02
39 2 0.02
40 32 0.38
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (37 bp):
GAAATGTAGGTATGGTATTTCATCCATACTGAGTTGA
Found at i:88462531 original size:24 final size:24
Alignment explanation
Indices: 88462504--88462582 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
88462494 TCCAATGCAC
88462504 CTAATTTATATTACAAAGTTTGTT
1 CTAATTTATATTACAAAGTTTGTT
* *** * *
88462528 CTAATTTTTAATGTTGTAA-TGTATT
1 CTAATTTAT-AT-TACAAAGTTTGTT
88462553 -TAATTTATATTACAAAGTTTGTT
1 CTAATTTATATTACAAAGTTTGTT
88462576 CTAATTT
1 CTAATTT
88462583 TTAATGTTAT
Statistics
Matches: 39, Mismatches: 12, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
22 3 0.08
23 6 0.15
24 21 0.54
25 6 0.15
26 3 0.08
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (24 bp):
CTAATTTATATTACAAAGTTTGTT
Found at i:88462565 original size:48 final size:48
Alignment explanation
Indices: 88462505--88462644 Score: 228
Period size: 48 Copynumber: 2.9 Consensus size: 48
88462495 CCAATGCACC
*
88462505 TAATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTGTAATGTATT
1 TAATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTATAATGTATT
88462553 TAATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTATAATGTATT
1 TAATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTATAATGTATT
* * * *
88462601 TAATTTATATTACAAAATTTGTTCCAA-TTTTAGTGTTTTAATGT
1 TAATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTATAATGT
88462645 TGTAATGTTG
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
47 15 0.17
48 72 0.83
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (48 bp):
TAATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTATAATGTATT
Found at i:88462604 original size:24 final size:24
Alignment explanation
Indices: 88462529--88462606 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
88462519 AAGTTTGTTC
*
88462529 TAATTTTTAATGTTGTAATGTATT
1 TAATTTTTAATGTTATAATGTATT
* * * *
88462553 TAA--TTT-ATATTACAAAGTTTGTT
1 TAATTTTTAATGTTA-TAA-TGTATT
88462576 CTAATTTTTAATGTTATAATGTATT
1 -TAATTTTTAATGTTATAATGTATT
88462601 TAATTT
1 TAATTT
88462607 ATATTACAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 12
0.65 0.15 0.20
Matches are distributed among these distances:
21 4 0.10
22 5 0.13
23 4 0.10
24 12 0.31
25 4 0.10
26 5 0.13
27 5 0.13
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (24 bp):
TAATTTTTAATGTTATAATGTATT
Found at i:88463203 original size:18 final size:18
Alignment explanation
Indices: 88463180--88463220 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
88463170 TGTTGCGACT
*
88463180 GCTCGGGCTCGGGCTGTG
1 GCTCGGGATCGGGCTGTG
* *
88463198 GCTCGGGATCTGGCTTTG
1 GCTCGGGATCGGGCTGTG
88463216 GCTCG
1 GCTCG
88463221 ACCTCTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.02, C:0.27, G:0.44, T:0.27
Consensus pattern (18 bp):
GCTCGGGATCGGGCTGTG
Found at i:88463878 original size:14 final size:14
Alignment explanation
Indices: 88463859--88463888 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
88463849 TACATGTTAG
*
88463859 AATAGTATCTTTAA
1 AATAGTATCATTAA
88463873 AATAGTATCATTAA
1 AATAGTATCATTAA
88463887 AA
1 AA
88463889 AATGTCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (14 bp):
AATAGTATCATTAA
Found at i:88465431 original size:15 final size:16
Alignment explanation
Indices: 88465411--88465440 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
88465401 TTTTACCTAC
88465411 ATAAAAAAA-TAAAAA
1 ATAAAAAAATTAAAAA
88465426 ATAAAAAAATTAAAA
1 ATAAAAAAATTAAAA
88465441 TAATCAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
ATAAAAAAATTAAAAA
Found at i:88465535 original size:29 final size:29
Alignment explanation
Indices: 88465496--88465555 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
88465486 ATTAACCTAC
*
88465496 AACACACATAACATATAAATTACATAAAA
1 AACACACATAACAAATAAATTACATAAAA
88465525 AACACACATAACAAATAAATTACATAAAA
1 AACACACATAACAAATAAATTACATAAAA
88465554 AA
1 AA
88465556 TAAAACATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.65, C:0.17, G:0.00, T:0.18
Consensus pattern (29 bp):
AACACACATAACAAATAAATTACATAAAA
Found at i:88465556 original size:16 final size:16
Alignment explanation
Indices: 88465510--88465576 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 16
88465500 CACATAACAT
88465510 ATAAATTACAT-AAAA
1 ATAAATTACATAAAAA
* * *
88465525 A-ACA-CACATAACAA
1 ATAAATTACATAAAAA
88465539 ATAAATTACATAAAAA
1 ATAAATTACATAAAAA
*
88465555 ATAAA--ACATCAAAA
1 ATAAATTACATAAAAA
*
88465569 CTAAATTA
1 ATAAATTA
88465577 TGAATGAATG
Statistics
Matches: 39, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
13 4 0.10
14 18 0.46
15 3 0.08
16 14 0.36
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (16 bp):
ATAAATTACATAAAAA
Found at i:88465574 original size:30 final size:29
Alignment explanation
Indices: 88465501--88465576 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
88465491 CCTACAACAC
* * *
88465501 ACATAACATATAAATTACATAAAAAACAC
1 ACATAACAAATAAATTACATAAAAAAAAA
88465530 ACATAACAAATAAATTACATAAAAAATAAA
1 ACATAACAAATAAATTACATAAAAAA-AAA
*
88465560 ACATCAA-AACTAAATTA
1 ACAT-AACAAATAAATTA
88465577 TGAATGAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
29 25 0.61
30 14 0.34
31 2 0.05
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (29 bp):
ACATAACAAATAAATTACATAAAAAAAAA
Found at i:88465873 original size:15 final size:15
Alignment explanation
Indices: 88465849--88465905 Score: 75
Period size: 15 Copynumber: 3.9 Consensus size: 15
88465839 CTTCCAACCC
88465849 TCTTCTTCTCCTTCT
1 TCTTCTTCTCCTTCT
*
88465864 TCTTCATCT-CTTCT
1 TCTTCTTCTCCTTCT
88465878 T-TTCTTCTCCTTC-
1 TCTTCTTCTCCTTCT
88465891 TCTTTCTTCTCCTTC
1 TC-TTCTTCTCCTTC
88465906 ACTCACCGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
13 7 0.19
14 10 0.27
15 20 0.54
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.60
Consensus pattern (15 bp):
TCTTCTTCTCCTTCT
Found at i:88487614 original size:40 final size:40
Alignment explanation
Indices: 88487559--88487636 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
88487549 GCATTTGAGT
* * *
88487559 GAAAATTGTATAATTTAGCCGGATGAAGTATGTATTAATA
1 GAAAACTGTATAATTTAACCGGATGAAGTAGGTATTAATA
88487599 GAAAACTGTATAATTTAACCGGATGAAGTAGGTATTAA
1 GAAAACTGTATAATTTAACCGGATGAAGTAGGTATTAA
88487637 CAGATATACT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (40 bp):
GAAAACTGTATAATTTAACCGGATGAAGTAGGTATTAATA
Found at i:88487667 original size:18 final size:18
Alignment explanation
Indices: 88487644--88487678 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
88487634 TAACAGATAT
88487644 ACTTAAAATCTAGTTGGC
1 ACTTAAAATCTAGTTGGC
88487662 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
88487679 ACTGCCACGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:88488367 original size:16 final size:16
Alignment explanation
Indices: 88488346--88488384 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
88488336 TGAATTACTT
**
88488346 ATTACAGCTTTATTCA
1 ATTACAGCCCTATTCA
*
88488362 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCA
88488378 ATTACAG
1 ATTACAG
88488385 TGAACCAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (16 bp):
ATTACAGCCCTATTCA
Found at i:88490250 original size:26 final size:27
Alignment explanation
Indices: 88490221--88490276 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
88490211 TTCTAAGGTC
* * *
88490221 TATTTCTTTTTTCGTTTTGTTAAC-TA
1 TATTTATTTATTCATTTTGTTAACATA
*
88490247 TATTTATTTATTCATTTTTTTAACATA
1 TATTTATTTATTCATTTTGTTAACATA
88490274 TAT
1 TAT
88490277 GTATACATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.23, C:0.09, G:0.04, T:0.64
Consensus pattern (27 bp):
TATTTATTTATTCATTTTGTTAACATA
Found at i:88491873 original size:126 final size:125
Alignment explanation
Indices: 88491646--88491875 Score: 381
Period size: 126 Copynumber: 1.8 Consensus size: 125
88491636 TTCTCAGTTG
*
88491646 TTTTTAAAATAATGGCAATGTTCGATATTTAAAAAATTCAAAGGATCGTGCCCTAACGTACTGGG
1 TTTTTAAAATAAAGGCAATGTTCGATATTTAAAAAATTCAAAGGATCGTGCCCTAACGTACTGGG
*
88491711 TTTCGCTTTCTTTGTTTGTTTTGAATATCAGGATATCCTTTTACCGGTTCACTCTCAAAA
66 TTTCGCTTTCTTTGTTTGTTTTGAATATCAGAATATCCTTTTACCGGTTCACTCTCAAAA
* * *
88491771 TTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGGATCGTGCCCTAACGTGCTGG
1 TTTTT-AAAATAAAGGCAATGTTCGATATTTAAAAAATTCAAAGGATCGTGCCCTAACGTACTGG
*
88491836 GTTTTGCTTTCTTTGTTTGTTTTGAATATTCA-AATATCCT
65 GTTTCGCTTTCTTTGTTTGTTTTGAATA-TCAGAATATCCT
88491876 CTTAAAGCTA
Statistics
Matches: 97, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
125 5 0.05
126 89 0.92
127 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (125 bp):
TTTTTAAAATAAAGGCAATGTTCGATATTTAAAAAATTCAAAGGATCGTGCCCTAACGTACTGGG
TTTCGCTTTCTTTGTTTGTTTTGAATATCAGAATATCCTTTTACCGGTTCACTCTCAAAA
Found at i:88492708 original size:26 final size:26
Alignment explanation
Indices: 88492676--88492735 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
88492666 TGCAAATTTG
88492676 ATTGAATTCCTCCAATGAGTGCTCTT
1 ATTGAATTCCTCCAATGAGTGCTCTT
*
88492702 ATTGAATTCCTCCAATGAGTGCTTTT
1 ATTGAATTCCTCCAATGAGTGCTCTT
88492728 ATTGAATT
1 ATTGAATT
88492736 TTCAAATGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (26 bp):
ATTGAATTCCTCCAATGAGTGCTCTT
Found at i:88498992 original size:32 final size:32
Alignment explanation
Indices: 88498955--88499036 Score: 119
Period size: 32 Copynumber: 2.6 Consensus size: 32
88498945 TTGCAATTAG
*
88498955 TTTGTTGGATTTTGAAATTATTATATTTTAAA
1 TTTGTTGGATATTGAAATTATTATATTTTAAA
* * *
88498987 TTTGTTGGATATTGAATTTATTATGTTTTAAG
1 TTTGTTGGATATTGAAATTATTATATTTTAAA
*
88499019 CTTGTTGGATATTGAAAT
1 TTTGTTGGATATTGAAAT
88499037 GATTGACAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.28, C:0.01, G:0.17, T:0.54
Consensus pattern (32 bp):
TTTGTTGGATATTGAAATTATTATATTTTAAA
Found at i:88511807 original size:27 final size:26
Alignment explanation
Indices: 88511776--88511953 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 26
88511766 TAAATTGTAC
88511776 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
88511803 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
88511829 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
88511857 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* * *
88511885 AGCACTAAGTGTACGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
88511912 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
88511939 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
88511954 GGCTCAATAT
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.80
28 24 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:88511892 original size:82 final size:81
Alignment explanation
Indices: 88511777--88511932 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
88511767 AAATTGTACA
* * * *
88511777 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTACGAAATGAATACG-TGGCACTAAGTG
88511841 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
88511858 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTACGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTACGAAATGAATACGTGGCACTAAGTG
*
88511923 TGCGAGTTGA
65 TGCGAATTGA
88511933 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTACGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:88511944 original size:82 final size:81
Alignment explanation
Indices: 88511773--88511953 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
88511763 GATTAAATTG
* * * *
88511773 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTACGAAATGAATACGATGCACTAA
88511838 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
88511854 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTACGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTACGAAATGAATACGAT-GCACT
* **
88511918 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
88511936 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
88511954 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTACGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:88525299 original size:14 final size:14
Alignment explanation
Indices: 88525282--88525322 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
88525272 AATTAATTTT
88525282 TTTTAATATTAAAA
1 TTTTAATATTAAAA
*
88525296 TTTTAA-ATTTTAAA
1 TTTTAATA-TTAAAA
88525310 TTTTAATATTAAA
1 TTTTAATATTAAA
88525323 TTAATTGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTTAATATTAAAA
Found at i:88534301 original size:93 final size:93
Alignment explanation
Indices: 88534189--88534360 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
88534179 CGCCCATAAG
*
88534189 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
88534253 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
88534282 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88534347 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
88534361 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:88534355 original size:46 final size:46
Alignment explanation
Indices: 88534182--88534357 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
88534172 TGTAACCCGC
* *
88534182 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
88534228 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
88534278 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
88534321 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
88534358 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:88540542 original size:19 final size:17
Alignment explanation
Indices: 88540520--88540560 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 17
88540510 ATAAAATAAA
88540520 AAATAAAGAGAAAAAAATT
1 AAATAAA-AG-AAAAAATT
88540539 AAATTAAAAGAAAAAATT
1 AAA-TAAAAGAAAAAATT
88540557 AAAT
1 AAAT
88540561 TGCTCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.05
18 11 0.52
19 5 0.24
20 4 0.19
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (17 bp):
AAATAAAAGAAAAAATT
Found at i:88542413 original size:17 final size:17
Alignment explanation
Indices: 88542391--88542428 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
88542381 GTTATTTATT
88542391 TTTTTA-ATTTTATGAAC
1 TTTTTATATTTTATG-AC
*
88542408 TTTTTATATTTTTTGAC
1 TTTTTATATTTTATGAC
88542425 TTTT
1 TTTT
88542429 GACTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTTTATATTTTATGAC
Found at i:88545808 original size:29 final size:29
Alignment explanation
Indices: 88545766--88545823 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
88545756 ATTTCATCAG
*
88545766 TCATCGTCCAAATTAAGAGAAGAAAAGAA
1 TCATCGGCCAAATTAAGAGAAGAAAAGAA
88545795 TCATCGGCCAAATTAAGAGAAGAAAAGAA
1 TCATCGGCCAAATTAAGAGAAGAAAAGAA
88545824 AGACCATCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.52, C:0.14, G:0.19, T:0.16
Consensus pattern (29 bp):
TCATCGGCCAAATTAAGAGAAGAAAAGAA
Found at i:88563507 original size:16 final size:16
Alignment explanation
Indices: 88563486--88563547 Score: 88
Period size: 16 Copynumber: 3.9 Consensus size: 16
88563476 TTTGGTTCAG
*
88563486 TGTAATGGAATAGGGT
1 TGTAATGGAATAGAGT
**
88563502 TGTAATGGAATAGAAC
1 TGTAATGGAATAGAGT
88563518 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
*
88563534 TGTAATAGAATAGA
1 TGTAATGGAATAGA
88563548 ACTGTAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.40, C:0.02, G:0.29, T:0.29
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:88563522 original size:32 final size:32
Alignment explanation
Indices: 88563486--88563555 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
88563476 TTTGGTTCAG
* *
88563486 TGTAATGGAATAGGGTTGTAATGGAATAGAAC
1 TGTAATGGAATAGAGTTGTAATAGAATAGAAC
88563518 TGTAATGGAATAGAGTTGTAATAGAATAGAAC
1 TGTAATGGAATAGAGTTGTAATAGAATAGAAC
88563550 TGTAAT
1 TGTAAT
88563556 AACAATTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.40, C:0.03, G:0.27, T:0.30
Consensus pattern (32 bp):
TGTAATGGAATAGAGTTGTAATAGAATAGAAC
Found at i:88563553 original size:16 final size:16
Alignment explanation
Indices: 88563502--88563556 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
88563492 GGAATAGGGT
*
88563502 TGTAATGGAATAGAAC
1 TGTAATAGAATAGAAC
* **
88563518 TGTAATGGAATAGAGT
1 TGTAATAGAATAGAAC
88563534 TGTAATAGAATAGAAC
1 TGTAATAGAATAGAAC
88563550 TGTAATA
1 TGTAATA
88563557 ACAATTCAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.44, C:0.04, G:0.24, T:0.29
Consensus pattern (16 bp):
TGTAATAGAATAGAAC
Found at i:88563626 original size:44 final size:45
Alignment explanation
Indices: 88563541--88563628 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 45
88563531 AGTTGTAATA
88563541 GAATAGAACTGTAATAACAATTCAATTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAACAATTCAATTGTTTGGTTGAATGGAATG
* * *
88563586 GAATAGTACTGTAATAA-TATTC-TTGTGTTTGGTTGAATGGAAT
1 GAATAGAACTGTAATAACAATTCAAT-TGTTTGGTTGAATGGAAT
88563629 AAAGTTGTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 1 0.03
44 22 0.56
45 16 0.41
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.38
Consensus pattern (45 bp):
GAATAGAACTGTAATAACAATTCAATTGTTTGGTTGAATGGAATG
Found at i:88563821 original size:21 final size:20
Alignment explanation
Indices: 88563793--88563832 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
88563783 AATTTATTAT
88563793 TAATTATAATTTAACAATAA
1 TAATTATAATTTAACAATAA
*
88563813 TAATATATAATTTAATAATA
1 TAAT-TATAATTTAACAATA
88563833 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATTATAATTTAACAATAA
Found at i:88563881 original size:20 final size:22
Alignment explanation
Indices: 88563856--88563900 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
88563846 AATTATTAAA
*
88563856 ATATAA-ATTA-ATAAAATAAT
1 ATATAATATTACAAAAAATAAT
88563876 ATATAATATTACAAAAAATAAT
1 ATATAATATTACAAAAAATAAT
88563898 ATA
1 ATA
88563901 CAACCTACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 4 0.18
22 12 0.55
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATAATATTACAAAAAATAAT
Found at i:88564023 original size:13 final size:13
Alignment explanation
Indices: 88564005--88564037 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
88563995 TATGTTACTT
88564005 AAAGAATAATTTA
1 AAAGAATAATTTA
88564018 AAAGAATAATTTA
1 AAAGAATAATTTA
88564031 AAA-AATA
1 AAAGAATA
88564038 TATTGTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (13 bp):
AAAGAATAATTTA
Found at i:88567379 original size:24 final size:24
Alignment explanation
Indices: 88567352--88567407 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
88567342 TTTTGGTGCT
88567352 GTTTTT-TCCATTATTTTTAATGTC
1 GTTTTTGT-CATTATTTTTAATGTC
**
88567376 GTTTTTGTTGTTATTTTTAATGTC
1 GTTTTTGTCATTATTTTTAATGTC
88567400 GTTTTTGT
1 GTTTTTGT
88567408 TGTTTGGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.12, C:0.07, G:0.14, T:0.66
Consensus pattern (24 bp):
GTTTTTGTCATTATTTTTAATGTC
Found at i:88567408 original size:24 final size:24
Alignment explanation
Indices: 88567362--88567411 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
88567352 GTTTTTTCCA
88567362 TTATTTTTAATGTCGTTTTTGTTG
1 TTATTTTTAATGTCGTTTTTGTTG
88567386 TTATTTTTAATGTCGTTTTTGTTG
1 TTATTTTTAATGTCGTTTTTGTTG
88567410 TT
1 TT
88567412 TGGGTGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.12, C:0.04, G:0.16, T:0.68
Consensus pattern (24 bp):
TTATTTTTAATGTCGTTTTTGTTG
Found at i:88568433 original size:16 final size:16
Alignment explanation
Indices: 88568400--88568429 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
88568390 ATGTGTCTTT
88568400 TTTTTTTAAATATTTA
1 TTTTTTTAAATATTTA
88568416 TTTTTTT-AATATTT
1 TTTTTTTAAATATTT
88568430 TATTATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTTAAATATTTA
Found at i:88585237 original size:23 final size:23
Alignment explanation
Indices: 88585210--88585254 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
88585200 AAATTTAATA
88585210 AATTTTTATTTTGGTTTCTCATT
1 AATTTTTATTTTGGTTTCTCATT
88585233 AATTTTTATTTTGGTTTCTCAT
1 AATTTTTATTTTGGTTTCTCAT
88585255 GTTATCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (23 bp):
AATTTTTATTTTGGTTTCTCATT
Found at i:88596736 original size:17 final size:16
Alignment explanation
Indices: 88596683--88596736 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 16
88596673 CACTAGATAA
88596683 ATCAAATTTTAA-AA-
1 ATCAAATTTTAACAAT
*
88596697 ATCAAATTTAAACTAAT
1 ATCAAATTTTAAC-AAT
88596714 -TACAAATTTTTAACAAT
1 AT-CAAA-TTTTAACAAT
88596731 ATCAAA
1 ATCAAA
88596737 AATAATTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 11 0.34
16 3 0.09
17 11 0.34
18 7 0.22
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (16 bp):
ATCAAATTTTAACAAT
Found at i:88599994 original size:33 final size:32
Alignment explanation
Indices: 88599970--88600031 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
88599960 TTACACTTGT
88599970 AATGCCATAACCCAGTTATGGTCTTATCATCAG
1 AATGCCATAACCCAGTTATGGTCTTA-CATCAG
* * *
88600003 GATGTCATAGCCCAGTTATGGTCTTACAT
1 AATGCCATAACCCAGTTATGGTCTTACAT
88600032 ATATACATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 3 0.12
33 23 0.88
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (32 bp):
AATGCCATAACCCAGTTATGGTCTTACATCAG
Found at i:88600117 original size:33 final size:33
Alignment explanation
Indices: 88600080--88600165 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
88600070 TTTACGGTGT
*
88600080 CATAACCCAATTATGGTCTTTTCACTAAAATGC
1 CATAACCCAGTTATGGTCTTTTCACTAAAATGC
* * *
88600113 CATAACCCAGTTATGATATTTTCACTAAAATGT
1 CATAACCCAGTTATGGTCTTTTCACTAAAATGC
* *
88600146 CATAGCCCAGTTCTGGTCTT
1 CATAACCCAGTTATGGTCTT
88600166 ACCTTTAAAC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (33 bp):
CATAACCCAGTTATGGTCTTTTCACTAAAATGC
Found at i:88605750 original size:22 final size:24
Alignment explanation
Indices: 88605725--88605771 Score: 80
Period size: 22 Copynumber: 2.0 Consensus size: 24
88605715 ATTGAGTCCA
88605725 TTTAATTTTATTTT-CT-TTTATT
1 TTTAATTTTATTTTCCTGTTTATT
88605747 TTTAATTTTATTTTCCTGTTTATT
1 TTTAATTTTATTTTCCTGTTTATT
88605771 T
1 T
88605772 GTTTTTTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 14 0.61
23 2 0.09
24 7 0.30
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTAATTTTATTTTCCTGTTTATT
Found at i:88605777 original size:22 final size:21
Alignment explanation
Indices: 88605729--88605778 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
88605719 AGTCCATTTA
*
88605729 ATTTTATTTTCTTTTATTTTT
1 ATTTTATTTTCTTTTATTTGT
88605750 AATTTTATTTTCCTGTTTATTTGT
1 -ATTTTATTTT-CT-TTTATTTGT
*
88605774 TTTTT
1 ATTTT
88605779 CCCAAACTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
23 6 0.25
24 8 0.33
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (21 bp):
ATTTTATTTTCTTTTATTTGT
Found at i:88614728 original size:21 final size:21
Alignment explanation
Indices: 88614702--88614742 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
88614692 ATCTGCTCAA
* *
88614702 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
88614723 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
88614743 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:88621564 original size:29 final size:32
Alignment explanation
Indices: 88621523--88621612 Score: 123
Period size: 29 Copynumber: 2.8 Consensus size: 32
88621513 ATTGTTTATT
88621523 TTTTACATAATCTTCAACATTTATATC-A-A-
1 TTTTACATAATCTTCAACATTTATATCTATAC
88621552 TTTTACATAATCTTCAACATTTATATCTTTTATATC
1 TTTTACATAATCTTCAACATTTATATC---TATA-C
88621588 TTTTACATAATCTTCAACATTTATA
1 TTTTACATAATCTTCAACATTTATA
88621613 CTTTACCATA
Statistics
Matches: 54, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
29 27 0.50
33 1 0.02
34 1 0.02
36 25 0.46
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (32 bp):
TTTTACATAATCTTCAACATTTATATCTATAC
Found at i:88621595 original size:36 final size:36
Alignment explanation
Indices: 88621542--88621616 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
88621532 ATCTTCAACA
88621542 TTTATATCAATTTTACATAATCTTCAACATTTATATCT
1 TTTATATC-ATTTTACATAATCTTCAACATTTATA-CT
88621580 TTTATATC-TTTTACATAATCTTCAACATTTATACT
1 TTTATATCATTTTACATAATCTTCAACATTTATACT
88621615 TT
1 TT
88621617 ACCATAGGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
35 4 0.11
36 25 0.68
38 8 0.22
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (36 bp):
TTTATATCATTTTACATAATCTTCAACATTTATACT
Found at i:88621610 original size:18 final size:18
Alignment explanation
Indices: 88621553--88621610 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
88621543 TTATATCAAT
88621553 TTTACATAATCTTCAACA
1 TTTACATAATCTTCAACA
* *
88621571 TTT--AT-ATCTTTTATATCT
1 TTTACATAATC-TTCA-A-CA
88621589 TTTACATAATCTTCAACA
1 TTTACATAATCTTCAACA
88621607 TTTA
1 TTTA
88621611 TACTTTACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
15 3 0.10
16 5 0.17
17 1 0.03
18 12 0.40
19 1 0.03
20 5 0.17
21 3 0.10
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTACATAATCTTCAACA
Found at i:88623975 original size:28 final size:28
Alignment explanation
Indices: 88623942--88623999 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
88623932 AATATTATTA
88623942 TTGCTTCAAAGAAATCAAACAAAAATTT
1 TTGCTTCAAAGAAATCAAACAAAAATTT
*
88623970 TTGCTTCAAAGAAATCAATCAAAAATTT
1 TTGCTTCAAAGAAATCAAACAAAAATTT
88623998 TT
1 TT
88624000 CTTTACTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.33
Consensus pattern (28 bp):
TTGCTTCAAAGAAATCAAACAAAAATTT
Found at i:88625745 original size:9 final size:11
Alignment explanation
Indices: 88625720--88625747 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
88625710 TAATTTTGAT
88625720 ATATATAATTA
1 ATATATAATTA
88625731 ATATATAATTA
1 ATATATAATTA
88625742 ATATAT
1 ATATAT
88625748 TTTTTATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATATAATTA
Found at i:88627595 original size:42 final size:42
Alignment explanation
Indices: 88627541--88627625 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
88627531 AAATTTACCC
88627541 ATTCTTATAATCTAAAAAATAAAGGGATTGAAATTGAAATTT
1 ATTCTTATAATCTAAAAAATAAAGGGATTGAAATTGAAATTT
*
88627583 ATTCTTATAATCTAATAAATAAAGGGATTGAAATTGAAATTT
1 ATTCTTATAATCTAAAAAATAAAGGGATTGAAATTGAAATTT
88627625 A
1 A
88627626 CTCATGATGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (42 bp):
ATTCTTATAATCTAAAAAATAAAGGGATTGAAATTGAAATTT
Found at i:88627958 original size:30 final size:30
Alignment explanation
Indices: 88627888--88627959 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
88627878 TTTAATAGTT
* * *
88627888 TATATATTTATAATTTTTAAAAGATTAAAT
1 TATAAATTTATTATTTTTAAAAGATTAAAA
* * *
88627918 TA-AAATTTTATTATTTTTAGAGGGTTAAAA
1 TATAAA-TTTATTATTTTTAAAAGATTAAAA
88627948 TATAAATTTATT
1 TATAAATTTATT
88627960 TTTATTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
29 2 0.06
30 29 0.85
31 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (30 bp):
TATAAATTTATTATTTTTAAAAGATTAAAA
Found at i:88630971 original size:42 final size:42
Alignment explanation
Indices: 88630872--88631109 Score: 365
Period size: 42 Copynumber: 5.7 Consensus size: 42
88630862 GTTTACAAAC
88630872 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-A
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
88630913 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
88630955 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AA
* * *
88630997 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
88631039 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-A
*
88631081 GAAAACGCCGCTAAAGATCATGTTCTTTA
1 AAAAACGCCGCTAAAGATCATGTTCTTTA
88631110 ATGGGATTTT
Statistics
Matches: 181, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
41 44 0.24
42 134 0.74
43 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:88631047 original size:84 final size:83
Alignment explanation
Indices: 88630872--88631177 Score: 366
Period size: 84 Copynumber: 3.7 Consensus size: 83
88630862 GTTTACAAAC
* * *
88630872 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGATCATGTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAACGCCACTAAAGACCATGTT
88630937 CTTTAGCGGCGCTTAGAA
66 CTTTAGCGGCGCTTAGAA
* *
88630955 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAAAAAAATGCCACTAAAGACCATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG--AAAAAACGCCACTAAAGACCATG
88631019 TTCTTTAGCGGCGCTTAGAA
64 TTCTTTAGCGGCGCTTAGAA
** * *
88631039 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGGGAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT-AGAAAAAACGCCACTAAAGACCATGT
** * ***
88631104 TCTTTAATGG-GATT-TTT
65 TCTTTAGCGGCGCTTAGAA
* * * *
88631121 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTTATACAAAAACGCCACTA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGC--TTAGA-AAAAACGCCACTA
88631178 TTTTTGGGAT
Statistics
Matches: 192, Mismatches: 24, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
82 36 0.19
83 38 0.20
84 115 0.60
85 2 0.01
86 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (83 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAACGCCACTAAAGACCATGTT
CTTTAGCGGCGCTTAGAA
Found at i:88631173 original size:126 final size:125
Alignment explanation
Indices: 88630872--88631158 Score: 393
Period size: 126 Copynumber: 2.3 Consensus size: 125
88630862 GTTTACAAAC
* *
88630872 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGATCATGTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGAACATGTT
*
88630937 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAA
66 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAACGGCGTTTGTAA
* * *
88630997 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AAAAAACGCCGCTAAAGAACATGT
** * * *
88631062 TCTTTAGCGGCGCTTA-AGGGAAAACGCCGCTAAAGATCATGTTCTTTAATGG-GATTT-T-T
65 TCTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGAACATGTTCTTTAACGGCG-TTTGTAA
* * *
88631121 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
88631159 TTATACAAAA
Statistics
Matches: 143, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
124 32 0.22
125 40 0.28
126 71 0.50
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (125 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGAACATGTT
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAACGGCGTTTGTAA
Found at i:88631248 original size:14 final size:14
Alignment explanation
Indices: 88631225--88631258 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
88631215 GCCCTCCTGT
*
88631225 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
88631239 AGCAACATTTCAAA
1 AGCAACATTTCAAA
88631253 AGCAAC
1 AGCAAC
88631259 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:88631550 original size:21 final size:21
Alignment explanation
Indices: 88631482--88631552 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
88631472 TTTTGCTCTG
* *
88631482 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
88631503 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
88631524 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
88631545 CTCTGCTT
1 CTCTGCTT
88631553 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:88634330 original size:11 final size:9
Alignment explanation
Indices: 88634282--88634446 Score: 69
Period size: 7 Copynumber: 19.0 Consensus size: 9
88634272 AATTGCAATG
88634282 GTAAGTTAT
1 GTAAGTTAT
88634291 GTAAGTTAT
1 GTAAGTTAT
88634300 GTAAGTTAAAT
1 GTAAGTT--AT
88634311 GT-A-TTAT
1 GTAAGTTAT
88634318 GTAAGTTAAAT
1 GTAAGTT--AT
88634329 GTAAG-T-T
1 GTAAGTTAT
88634336 GTAAGTTAT
1 GTAAGTTAT
*
88634345 -TATGTATTAT
1 GTAAG--TTAT
88634355 GTAAG-T-T
1 GTAAGTTAT
88634362 GTAAGTTAAAT
1 GTAAGTT--AT
*
88634373 GT-A-TTGT
1 GTAAGTTAT
88634380 GTAAG-T-T
1 GTAAGTTAT
88634387 GTAAGTTAAAT
1 GTAAGTT--AT
88634398 GT-A-TTAT
1 GTAAGTTAT
88634405 GTAAG-T-T
1 GTAAGTTAT
88634412 GTAAGTTAT
1 GTAAGTTAT
*
88634421 -TATGTATTAT
1 GTAAG--TTAT
88634431 GTAAG-T-T
1 GTAAGTTAT
88634438 GTAAGTTAT
1 GTAAGTTAT
88634447 TATGTATTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 60
0.65 0.03 0.32
Matches are distributed among these distances:
7 41 0.34
8 18 0.15
9 27 0.22
10 12 0.10
11 23 0.19
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:88634357 original size:19 final size:19
Alignment explanation
Indices: 88634296--88634713 Score: 82
Period size: 18 Copynumber: 21.6 Consensus size: 19
88634286 GTTATGTAAG
*
88634296 TTATGTAAGTTA-AATGTA
1 TTATGTAAGTTATTATGTA
*
88634314 TTATGTAAGTTA-AATGTAA
1 TTATGTAAGTTATTATGT-A
*
88634333 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
88634351 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
*
88634376 TTGTGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* *
88634401 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
88634417 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
88634435 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
88634453 TTGTGTAAGTTGCAAGTTAAATGTA
1 TTATGTAAGTT---A-TT--ATGTA
* *
88634478 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
88634494 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
88634512 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
* * *
88634530 TTGTGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
88634546 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
88634564 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
88634582 TTGTGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* * *
88634607 TTATGTCAGTCA-AATGTA
1 TTATGTAAGTTATTATGTA
88634625 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* *
88634650 TTATGTAAGTT-GTAAGTTA
1 TTATGTAAGTTATTATG-TA
*
88634669 TTATGT-A-TTATGTAAGTA
1 TTATGTAAGTTAT-TATGTA
*
88634687 --ATGTAAGTTA-AATGTA
1 TTATGTAAGTTATTATGTA
88634703 TTATGTAAGTT
1 TTATGTAAGTT
88634714 GTAAGTTATT
Statistics
Matches: 301, Mismatches: 43, Indels: 112
0.66 0.09 0.25
Matches are distributed among these distances:
14 3 0.01
15 18 0.06
16 19 0.06
17 6 0.02
18 83 0.28
19 71 0.24
20 5 0.02
21 3 0.01
22 4 0.01
23 8 0.03
24 3 0.01
25 78 0.26
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (19 bp):
TTATGTAAGTTATTATGTA
Found at i:88634361 original size:26 final size:26
Alignment explanation
Indices: 88634327--88634732 Score: 579
Period size: 26 Copynumber: 16.1 Consensus size: 26
88634317 TGTAAGTTAA
88634327 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
88634353 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
88634378 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
88634403 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
88634429 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* * *
88634455 GTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
88634480 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
88634506 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
88634532 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
88634558 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
88634584 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
88634609 ATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
88634627 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
88634652 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
88634678 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
88634705 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
88634731 AT
1 AT
88634733 TTAATAAAAT
Statistics
Matches: 345, Mismatches: 22, Indels: 26
0.88 0.06 0.07
Matches are distributed among these distances:
18 12 0.03
19 1 0.00
21 3 0.01
22 3 0.01
24 1 0.00
25 113 0.33
26 188 0.54
27 15 0.04
28 9 0.03
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:88634702 original size:53 final size:51
Alignment explanation
Indices: 88634327--88634732 Score: 571
Period size: 51 Copynumber: 8.0 Consensus size: 51
88634317 TGTAAGTTAA
* *
88634327 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
*
88634378 GTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
* * * *
88634429 ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
*
88634480 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
* *
88634532 GTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
* * *
88634584 GTGTAAGTTGTAAGTTAAATGTATTATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
88634627 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
88634678 ATGTAAGTAATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGT--TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
88634731 AT
1 AT
88634733 TTAATAAAAT
Statistics
Matches: 324, Mismatches: 18, Indels: 24
0.89 0.05 0.07
Matches are distributed among these distances:
43 36 0.11
45 1 0.00
46 3 0.01
48 3 0.01
49 1 0.00
50 24 0.07
51 114 0.35
52 97 0.30
53 45 0.14
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (51 bp):
ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
Found at i:88634725 original size:19 final size:19
Alignment explanation
Indices: 88634502--88634728 Score: 100
Period size: 19 Copynumber: 12.5 Consensus size: 19
88634492 AGTTATTATG
88634502 TATTATGTAAGTTGTAAGT
1 TATTATGTAAGTTGTAAGT
88634521 TATTATGT-A-TTGT--GT
1 TATTATGTAAGTTGTAAGT
* * * *
88634536 AAGT-TGTAAGTTATTA-T
1 TATTATGTAAGTTGTAAGT
88634553 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
88634573 TATTATGT-A-TTGT--GT
1 TATTATGTAAGTTGTAAGT
* * *
88634588 AAGT-TGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
* * *
88634604 GTATTATGTCAG-T-CAAAT
1 -TATTATGTAAGTTGTAAGT
88634622 GTATTATGTAAGTTGTAAGTTAAAT
1 -TATTATGTAAGTTGTAAG-----T
88634647 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
*
88634667 TATTATGT-ATTATGTAAG-
1 TATTATGTAAGT-TGTAAGT
*
88634685 TA--ATGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
88634700 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
88634720 TATTATGTA
1 TATTATGTA
88634729 TTATTTAATA
Statistics
Matches: 159, Mismatches: 21, Indels: 56
0.67 0.09 0.24
Matches are distributed among these distances:
14 10 0.06
15 12 0.08
16 10 0.06
17 12 0.08
18 36 0.23
19 51 0.32
20 8 0.05
25 20 0.13
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.47
Consensus pattern (19 bp):
TATTATGTAAGTTGTAAGT
Found at i:88634926 original size:74 final size:74
Alignment explanation
Indices: 88634769--88634916 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
88634759 ACATTACTAA
88634769 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
88634834 TATTTTTTT
66 TATTTTTTT
88634843 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
88634908 TATTTTTTT
66 TATTTTTTT
88634917 ATATTTTATT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (74 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTTT
Found at i:88637228 original size:27 final size:27
Alignment explanation
Indices: 88637196--88637247 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
88637186 TATGACTTTT
* *
88637196 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
*
88637223 AAATAAATAATTACTAACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
88637248 TTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:88637338 original size:8 final size:10
Alignment explanation
Indices: 88637315--88637351 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
88637305 TAATAACTAT
88637315 ATATATATCC
1 ATATATATCC
*
88637325 ATATATATTC
1 ATATATATCC
88637335 ATATATATCC
1 ATATATATCC
88637345 ATATATA
1 ATATATA
88637352 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:88638369 original size:82 final size:82
Alignment explanation
Indices: 88638250--88638426 Score: 336
Period size: 82 Copynumber: 2.2 Consensus size: 82
88638240 GCTACCGGAA
*
88638250 AAAACGCCACTAACTTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
88638315 TTGCGGCGTTTTACCTT
66 TTGCGGCGTTTTACCTT
88638332 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
*
88638397 TTGCGGCGTTTTCCCTT
66 TTGCGGCGTTTTACCTT
88638414 AAAACGCCACTAA
1 AAAACGCCACTAA
88638427 TAGAGTACAC
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 93 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (82 bp):
AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
TTGCGGCGTTTTACCTT
Found at i:88638651 original size:41 final size:41
Alignment explanation
Indices: 88638566--88638759 Score: 205
Period size: 41 Copynumber: 4.7 Consensus size: 41
88638556 AACACGAACT
* * * * *
88638566 TTAGCGGCGCTTAG-CAAAAAATGCCGCTAAAGA-ACAGAGAA
1 TTAGCGGCGCTCAGAC-AAAAACGCCACTAATGATAC-GAGCA
* *
88638607 TTAGTGGCGCTCAGATAAAAACGCCACTAATGATACGAGCA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAATGATACGAGCA
* * * *
88638648 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGA-ACAGAGAA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAATGATAC-GAGCA
* *
88638689 TTAGTGGCGCTCAGATAAAAACGCCACTAATGATACGAGCA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAATGATACGAGCA
* *
88638730 TTAGCGGCGCTTAGACAAAAACGCCGCTAA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAA
88638760 AGGTTTAAAA
Statistics
Matches: 126, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 2 0.02
41 120 0.95
42 4 0.03
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (41 bp):
TTAGCGGCGCTCAGACAAAAACGCCACTAATGATACGAGCA
Found at i:88638703 original size:82 final size:82
Alignment explanation
Indices: 88638566--88638761 Score: 367
Period size: 82 Copynumber: 2.4 Consensus size: 82
88638556 AACACGAACT
*
88638566 TTAGCGGCGCTTAG-CAAAAAATGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACG
1 TTAGCGGCGCTTAGAC-AAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACG
88638630 CCACTAATGATACGAGCA
65 CCACTAATGATACGAGCA
88638648 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACGC
1 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACGC
88638713 CACTAATGATACGAGCA
66 CACTAATGATACGAGCA
88638730 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
1 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
88638762 GTTTAAAAAA
Statistics
Matches: 112, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
82 111 0.99
83 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (82 bp):
TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACGC
CACTAATGATACGAGCA
Found at i:88659439 original size:11 final size:11
Alignment explanation
Indices: 88659421--88659470 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
88659411 AAAAATATAC
88659421 TATTTTCTTGT
1 TATTTTCTTGT
* *
88659432 TGTTTTCTTAT
1 TATTTTCTTGT
*
88659443 TATTTTGTTGT
1 TATTTTCTTGT
*
88659454 TATTTTGTTGT
1 TATTTTCTTGT
88659465 TATTTT
1 TATTTT
88659471 TTCACTGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.10, C:0.04, G:0.12, T:0.74
Consensus pattern (11 bp):
TATTTTCTTGT
Found at i:88662187 original size:45 final size:45
Alignment explanation
Indices: 88662123--88662212 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
88662113 GATTACAAAA
*
88662123 CTAAATCTCAACATTTTCAAGCCTTTTCATGCGAGGTATTTCAAT
1 CTAAATCTCAACATTTTCAAGCCTTTTCATGCGAGGTATATCAAT
88662168 CTAAATCTCAACATTTTCAAGCCTTTTCATGCGAGGTATATCAAT
1 CTAAATCTCAACATTTTCAAGCCTTTTCATGCGAGGTATATCAAT
88662213 ACTTTTGTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (45 bp):
CTAAATCTCAACATTTTCAAGCCTTTTCATGCGAGGTATATCAAT
Found at i:88665646 original size:37 final size:38
Alignment explanation
Indices: 88665578--88665653 Score: 104
Period size: 37 Copynumber: 2.0 Consensus size: 38
88665568 AATCCAGGTC
*
88665578 ATATATATAATCATATTTTTTTTATTAAAATTATTATA
1 ATATATATAATCATATTTTTTTTATTAAAATTATAATA
88665616 ATAT-TAT-ATCATACTTTTTTTTA-TATAAATTATAATA
1 ATATATATAATCATA-TTTTTTTTATTA-AAATTATAATA
88665653 A
1 A
88665654 CATGACAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
36 8 0.23
37 23 0.66
38 4 0.11
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (38 bp):
ATATATATAATCATATTTTTTTTATTAAAATTATAATA
Found at i:88665671 original size:63 final size:63
Alignment explanation
Indices: 88665604--88665729 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
88665594 TTTTTTTATT
*
88665604 AAAATTATTATAATATTATATCATACTTTTTTTTATATAAATTATAATAACATGACAAAACCC
1 AAAATTATTATAATATTATATCATACTTTTTTTTATATAAATTATAATAACAGGACAAAACCC
88665667 AAAATTATTATAATATTATATCATACTTTTTTTTATATAAATTATAATAACAGGACAAAACCC
1 AAAATTATTATAATATTATATCATACTTTTTTTTATATAAATTATAATAACAGGACAAAACCC
88665730 GAACAACAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.40
Consensus pattern (63 bp):
AAAATTATTATAATATTATATCATACTTTTTTTTATATAAATTATAATAACAGGACAAAACCC
Found at i:88669310 original size:6 final size:6
Alignment explanation
Indices: 88669299--88669323 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
88669289 TAATTAAAAC
88669299 CCCTAA CCCTAA CCCTAA CCCTAA C
1 CCCTAA CCCTAA CCCTAA CCCTAA C
88669324 ACTTTATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (6 bp):
CCCTAA
Found at i:88669776 original size:29 final size:29
Alignment explanation
Indices: 88669744--88669802 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
88669734 TGGTATATGA
* *
88669744 ATTTGTTAATTGCTCTTAGATTGATATTT
1 ATTTATTAATTGATCTTAGATTGATATTT
** *
88669773 ATTTATTTTTTTATCTTAGATTGATATTT
1 ATTTATTAATTGATCTTAGATTGATATTT
88669802 A
1 A
88669803 AACTTTTTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.25, C:0.05, G:0.10, T:0.59
Consensus pattern (29 bp):
ATTTATTAATTGATCTTAGATTGATATTT
Found at i:88669970 original size:6 final size:6
Alignment explanation
Indices: 88669959--88670005 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
88669949 TTCATACATC
* * *
88669959 TTTCTT TTTCTT TTTGTT TTTCTT TATTCAT TCTCTT TTTCTT TTTC
1 TTTCTT TTTCTT TTTCTT TTTCTT T-TTCTT TTTCTT TTTCTT TTTC
88670006 CTACCTTTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:88678955 original size:24 final size:23
Alignment explanation
Indices: 88678916--88679002 Score: 61
Period size: 25 Copynumber: 3.6 Consensus size: 23
88678906 TTAATATTAA
88678916 ATTAATATAATATTTATTGATAAAT
1 ATTAAT-TAA-ATTTATTGATAAAT
*
88678941 ATTAGATTAAATTTACT-ATTAAAT
1 ATTA-ATTAAATTTATTGA-TAAAT
* * * *
88678965 CTT-ATTAAAATAATAAGATAAAT
1 ATTAATTAAATTTAT-TGATAAAT
88678988 ATTAAATTAAATTTA
1 ATT-AATTAAATTTA
88679003 ATATTAAACT
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
22 8 0.17
23 8 0.17
24 14 0.30
25 15 0.32
26 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (23 bp):
ATTAATTAAATTTATTGATAAAT
Found at i:88678964 original size:47 final size:47
Alignment explanation
Indices: 88678934--88679024 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 47
88678924 AATATTTATT
* * *
88678934 GATAAATATTAGATTAAATTTACTATTAAATCTTATTAAAATAATAA
1 GATAAATATTAAATTAAATTTAATATTAAATCTAATTAAAATAATAA
88678981 GATAAATATTAAATTAAATTTAATATTAAA-CT-ATTAAAATAATA
1 GATAAATATTAAATTAAATTTAATATTAAATCTAATTAAAATAATA
88679025 TGAAACTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 12 0.29
46 2 0.05
47 28 0.67
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (47 bp):
GATAAATATTAAATTAAATTTAATATTAAATCTAATTAAAATAATAA
Found at i:88678998 original size:12 final size:12
Alignment explanation
Indices: 88678936--88679018 Score: 50
Period size: 12 Copynumber: 6.9 Consensus size: 12
88678926 TATTTATTGA
*
88678936 TAAATATTAGAT
1 TAAATATTAAAT
*
88678948 TAAAT-TTACTAT
1 TAAATATTA-AAT
*
88678960 TAAATCTT--AT
1 TAAATATTAAAT
*
88678970 TAAAATAATAAGA-
1 T-AAATATTAA-AT
88678983 TAAATATTAAAT
1 TAAATATTAAAT
88678995 TAAAT-TTAATAT
1 TAAATATTAA-AT
88679007 TAAACTATTAAA
1 TAAA-TATTAAA
88679019 ATAATATGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
10 3 0.05
11 13 0.23
12 31 0.54
13 5 0.09
14 5 0.09
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:88679042 original size:47 final size:47
Alignment explanation
Indices: 88678935--88679042 Score: 123
Period size: 47 Copynumber: 2.3 Consensus size: 47
88678925 ATATTTATTG
* * * *
88678935 ATAAATATTAGATTAAATTTACTATTAAATCTTATTAAAATAATAAG
1 ATAAATATCAAATTAAATTTAATATTAAATCTTATTAAAATAATAAA
*
88678982 ATAAATATTAAATTAAATTTAATATTAAA-C-TATTAAAATAATATGAA
1 ATAAATATCAAATTAAATTTAATATTAAATCTTATTAAAATAATA--AA
88679029 ACTAAA-ATCAAATT
1 A-TAAATATCAAATT
88679043 TTCTGGTAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
45 13 0.24
46 1 0.02
47 36 0.67
48 4 0.07
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (47 bp):
ATAAATATCAAATTAAATTTAATATTAAATCTTATTAAAATAATAAA
Found at i:88680622 original size:16 final size:16
Alignment explanation
Indices: 88680601--88680634 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
88680591 TTATGCATGC
* *
88680601 AAAATATAAAAGATAT
1 AAAATAAAAAAGACAT
88680617 AAAATAAAAAAGACAT
1 AAAATAAAAAAGACAT
88680633 AA
1 AA
88680635 TAGCAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAATAAAAAAGACAT
Found at i:88685734 original size:52 final size:49
Alignment explanation
Indices: 88685649--88686015 Score: 449
Period size: 46 Copynumber: 7.6 Consensus size: 49
88685639 TTTGAGTACT
* ** *
88685649 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
88685695 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
88685747 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
88685793 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
88685845 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
88685891 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* ** *
88685943 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
88685989 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
88686016 GCTGCACTTA
Statistics
Matches: 291, Mismatches: 12, Indels: 36
0.86 0.04 0.11
Matches are distributed among these distances:
46 154 0.53
48 2 0.01
49 5 0.02
50 3 0.01
52 127 0.44
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:88685769 original size:98 final size:98
Alignment explanation
Indices: 88685649--88686004 Score: 604
Period size: 98 Copynumber: 3.6 Consensus size: 98
88685639 TTTGAGTACT
* *
88685649 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
88685714 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
88685747 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
88685812 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
88685845 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
88685910 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * * *
88685943 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
88686005 AGTGATAAGT
Statistics
Matches: 246, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 246 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (98 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:88686027 original size:37 final size:37
Alignment explanation
Indices: 88685979--88686124 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
88685969 GATAGCTTTA
*
88685979 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
88686016 GCTGCACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
88686053 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
88686090 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
88686125 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:88687440 original size:49 final size:49
Alignment explanation
Indices: 88687379--88687522 Score: 207
Period size: 49 Copynumber: 2.9 Consensus size: 49
88687369 ATGTGAACAT
* *
88687379 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTGTGGCATCGGTAA
1 GTGA-TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
88687429 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
88687478 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTCTGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
88687523 AGAAAACGAA
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.95
50 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:88690732 original size:52 final size:49
Alignment explanation
Indices: 88690647--88691013 Score: 449
Period size: 46 Copynumber: 7.6 Consensus size: 49
88690637 TTTGAGTACT
* ** *
88690647 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
88690693 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
88690745 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
88690791 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
88690843 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
88690889 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* ** *
88690941 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
88690987 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
88691014 GCTGCACTTA
Statistics
Matches: 291, Mismatches: 12, Indels: 36
0.86 0.04 0.11
Matches are distributed among these distances:
46 154 0.53
48 2 0.01
49 5 0.02
50 3 0.01
52 127 0.44
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:88690767 original size:98 final size:98
Alignment explanation
Indices: 88690647--88691002 Score: 604
Period size: 98 Copynumber: 3.6 Consensus size: 98
88690637 TTTGAGTACT
* *
88690647 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
88690712 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
88690745 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
88690810 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
88690843 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
88690908 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * * *
88690941 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
88691003 AGTGATAAGT
Statistics
Matches: 246, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 246 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (98 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:88691025 original size:37 final size:37
Alignment explanation
Indices: 88690977--88691122 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
88690967 GATAGCTTTA
*
88690977 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
88691014 GCTGCACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
88691051 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
88691088 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
88691123 ATCACACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:88693972 original size:21 final size:20
Alignment explanation
Indices: 88693947--88693988 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
88693937 ATTTTTTAAA
88693947 TTTAAAAATTAAAAAAACTAT
1 TTTAAAAA-TAAAAAAACTAT
*
88693968 TTTAAAAATAAAAAAATTAT
1 TTTAAAAATAAAAAAACTAT
88693988 T
1 T
88693989 AAAATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TTTAAAAATAAAAAAACTAT
Found at i:88693974 original size:20 final size:20
Alignment explanation
Indices: 88693946--88693992 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
88693936 AATTTTTTAA
*
88693946 ATTTAAAAATTAAAAAAACT
1 ATTTAAAAAATAAAAAAACT
* *
88693966 ATTTTAAAAATAAAAAAATT
1 ATTTAAAAAATAAAAAAACT
88693986 A-TTAAAA
1 ATTTAAAA
88693993 TATTATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
ATTTAAAAAATAAAAAAACT
Found at i:88693996 original size:28 final size:29
Alignment explanation
Indices: 88693950--88694049 Score: 80
Period size: 29 Copynumber: 3.4 Consensus size: 29
88693940 TTTTAAATTT
**
88693950 AAAAATTAAAAAAACTATTTTAAAA-ATAA
1 AAAAATTATTAAAA-TATTTTAAAATATAA
*
88693979 AAAAATTATTAAAATATTATAAAATTATAA
1 AAAAATTATTAAAATATTTTAAAA-TATAA
* * * * *
88694009 AAATATTTTTAATAT-TTTTAAATTCT-A
1 AAAAATTATTAAAATATTTTAAAATATAA
88694036 AAAAATTAATTAAA
1 AAAAATT-ATTAAA
88694050 TGCTAACATG
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
27 7 0.12
28 15 0.27
29 18 0.32
30 16 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAAATTATTAAAATATTTTAAAATATAA
Found at i:88703350 original size:190 final size:190
Alignment explanation
Indices: 88703027--88703407 Score: 699
Period size: 190 Copynumber: 2.0 Consensus size: 190
88703017 ACTTCCAATC
88703027 AGCGAACTTTAGGTAACCTTCAGAATTGGGTTACTAATCAGATATTCCAACTTTCTTTCTTAACA
1 AGCGAACTTTAGGTAACCTTCAGAATTGGGTTACTAATCAGATATTCCAACTTTCTTTCTTAACA
88703092 ATCAGCCAACAAATTACTTAAACCTGTTGCAGCCCTTTATGATGGCAACGATCCCAGCGTGGAAT
66 ATCAGCCAACAAATTACTTAAACCTGTTGCAGCCCTTTATGATGGCAACGATCCCAGCGTGGAAT
*
88703157 CTGAACCCGATGAAACATTGGCAGCTCTGAAAAGCAAAATGAAACCAAAATCTAAAAGTG
131 CTGAACCCGAGGAAACATTGGCAGCTCTGAAAAGCAAAATGAAACCAAAATCTAAAAGTG
*
88703217 AGCGAACTTTAGGTAAGCTTCAGAATTGGGTTACTAATCAGATATTCCAACTTTCTTTCTTAACA
1 AGCGAACTTTAGGTAACCTTCAGAATTGGGTTACTAATCAGATATTCCAACTTTCTTTCTTAACA
* * **
88703282 ATCAGCCAACAAATTACTTAAACCTGTTGCAGCCCTTTGTTATGGCAACGATCCCAGTTTGGAAT
66 ATCAGCCAACAAATTACTTAAACCTGTTGCAGCCCTTTATGATGGCAACGATCCCAGCGTGGAAT
*
88703347 CTGAACCCGAGGAAACATTGGCAGCTCTGAAAAGCAAAATGAAACCAAACTCTAAAAGTG
131 CTGAACCCGAGGAAACATTGGCAGCTCTGAAAAGCAAAATGAAACCAAAATCTAAAAGTG
88703407 A
1 A
88703408 CGGTAAGAAG
Statistics
Matches: 184, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
190 184 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (190 bp):
AGCGAACTTTAGGTAACCTTCAGAATTGGGTTACTAATCAGATATTCCAACTTTCTTTCTTAACA
ATCAGCCAACAAATTACTTAAACCTGTTGCAGCCCTTTATGATGGCAACGATCCCAGCGTGGAAT
CTGAACCCGAGGAAACATTGGCAGCTCTGAAAAGCAAAATGAAACCAAAATCTAAAAGTG
Found at i:88704678 original size:23 final size:21
Alignment explanation
Indices: 88704640--88704721 Score: 101
Period size: 23 Copynumber: 3.7 Consensus size: 21
88704630 TACCAAATTG
*
88704640 AATTAAAAAAACTTAAGAACCA
1 AATTAAAAAAAATTAA-AACCA
*
88704662 AATTAAAAAAAAATTAAACATCA
1 AATT-AAAAAAAATTAAA-ACCA
88704685 AATTAAAAAAAATTAAAAAACCA
1 AATTAAAAAAAATT--AAAACCA
88704708 AATTAAAAAAAATT
1 AATTAAAAAAAATT
88704722 GTGAAGGTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
22 15 0.28
23 35 0.66
24 3 0.06
ACGTcount: A:0.70, C:0.09, G:0.01, T:0.21
Consensus pattern (21 bp):
AATTAAAAAAAATTAAAACCA
Found at i:88705262 original size:26 final size:25
Alignment explanation
Indices: 88705226--88705282 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
88705216 CAGCAAAAAA
*
88705226 ATAAATAAATAAATAATCCATCAAAT
1 ATAAATAAATAAAAAATCCAT-AAAT
* *
88705252 ATAATTAAATAAAAAATGCATAAAT
1 ATAAATAAATAAAAAATCCATAAAT
*
88705277 ACAAAT
1 ATAAAT
88705283 TTAATCTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (25 bp):
ATAAATAAATAAAAAATCCATAAAT
Found at i:88714586 original size:3 final size:3
Alignment explanation
Indices: 88714578--88714608 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
88714568 TTTGAAGGGG
88714578 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
88714609 ATGGATTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:88714655 original size:6 final size:6
Alignment explanation
Indices: 88714644--88714679 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
88714634 GTTTCTTTTC
*
88714644 TTTCTT TTTCTT TTTCTT TTTCTT TTT-TT CTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
88714680 GGTGTGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTCTT
Found at i:88718676 original size:13 final size:13
Alignment explanation
Indices: 88718658--88718687 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
88718648 ACATGACATC
88718658 ATTGGATTGGTTA
1 ATTGGATTGGTTA
88718671 ATTGGATTGGTTA
1 ATTGGATTGGTTA
88718684 ATTG
1 ATTG
88718688 TGTTCCGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (13 bp):
ATTGGATTGGTTA
Found at i:88720923 original size:222 final size:223
Alignment explanation
Indices: 88720515--88720960 Score: 734
Period size: 222 Copynumber: 2.0 Consensus size: 223
88720505 GACTTTAATA
* *
88720515 GTTGATTAAGTCTTCGCTCGATTGGTATAAATATTGTTATCAATGCAGAAGAATGTGGGTTCGAG
1 GTTGATTAAGTATTCGCTCGATTGGTATAAATATTATTATCAATGCAGAAGAATGTGGGTTCGAG
* *
88720580 TGCATTAATGCGTAATATCCTCTTATTGATGAGTTGGGAGAGGCTGTAAGTAGTTTTAGGCATTG
66 TGCACTAATGCGTAATA----C-TA-T-ATGAGTTGGGAGAGGCTGTAAGTAGTTTTAAGCATTG
*
88720645 TGTCAAAAAGAATAAATATGATCAGAACCACCTATAATGAGAATTAAACTGACTTTTGTAAGGTA
124 TGTCAAAAAGAACAAATATGATCAGAACCACCTATAATGAGAATTAAACTGACTTTTGTAAGGTA
*
88720710 ATTGAATCGAGCATCTTCAAACTATCATTATCAAT
189 ATTGAATCGAACATCTTCAAACTATCATTATCAAT
*
88720745 GTTGATTAAGTATTCGCTCGATTGGTATAAATATTATTATCAATGCAGAATAATGTGGGTTCGAG
1 GTTGATTAAGTATTCGCTCGATTGGTATAAATATTATTATCAATGCAGAAGAATGTGGGTTCGAG
*
88720810 TGCACTAATGCGTAATA-TA-ATGAGTTGGGGAGGGGCTGTAAGTAGTTTTAAGCATTGTGTCAA
66 TGCACTAATGCGTAATACTATATGAGTT-GGGAGAGGCTGTAAGTAGTTTTAAGCATTGTGTCAA
88720873 AAAGAACAAATATGATCAGAACCACCTATAATGAGAATTAAACTGACTTTTGTAAGGTAATTGAA
130 AAAGAACAAATATGATCAGAACCACCTATAATGAGAATTAAACTGACTTTTGTAAGGTAATTGAA
88720938 TCGAACATCTTCAAACTATCATT
195 TCGAACATCTTCAAACTATCATT
88720961 TATATTTTAA
Statistics
Matches: 207, Mismatches: 8, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
221 7 0.03
222 120 0.58
224 2 0.01
230 78 0.38
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (223 bp):
GTTGATTAAGTATTCGCTCGATTGGTATAAATATTATTATCAATGCAGAAGAATGTGGGTTCGAG
TGCACTAATGCGTAATACTATATGAGTTGGGAGAGGCTGTAAGTAGTTTTAAGCATTGTGTCAAA
AAGAACAAATATGATCAGAACCACCTATAATGAGAATTAAACTGACTTTTGTAAGGTAATTGAAT
CGAACATCTTCAAACTATCATTATCAAT
Found at i:88727082 original size:33 final size:33
Alignment explanation
Indices: 88727044--88727114 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
88727034 GCCCATGTAC
88727044 CAAATTACGA-AAAAAAATGAT-AAGTTCAAGTAT
1 CAAATT-CGACAAAAAAATG-TCAAGTTCAAGTAT
* *
88727077 CAAATTGGACAAAAAAATGTCAAGTTTAAGTAT
1 CAAATTCGACAAAAAAATGTCAAGTTCAAGTAT
88727110 CAAAT
1 CAAAT
88727115 GTTATATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 3 0.09
33 31 0.91
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.25
Consensus pattern (33 bp):
CAAATTCGACAAAAAAATGTCAAGTTCAAGTAT
Found at i:88740607 original size:22 final size:22
Alignment explanation
Indices: 88740538--88740610 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
88740528 AATTTAAATT
88740538 TAAAT-TA-TAAAATTATTTGA
1 TAAATATATTAAAATTATTTGA
*
88740558 TAAATCAT-TTAAAATTAATT-A
1 TAAAT-ATATTAAAATTATTTGA
*
88740579 TAGAATATAATT-AGATTATTTGA
1 TA-AATAT-ATTAAAATTATTTGA
88740602 TAAATATAT
1 TAAATATAT
88740611 ATTTTAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.12
21 7 0.16
22 26 0.60
23 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.44
Consensus pattern (22 bp):
TAAATATATTAAAATTATTTGA
Found at i:88741565 original size:26 final size:26
Alignment explanation
Indices: 88741536--88741603 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
88741526 GCACGACTCT
88741536 TTTTTTATATTAAAATATTTTTTTTA
1 TTTTTTATATTAAAATATTTTTTTTA
* *
88741562 TTTTTTAAAATAAAATA--TTTTTTA
1 TTTTTTATATTAAAATATTTTTTTTA
*
88741586 -TTTTTAT-TAAAAATATTT
1 TTTTTTATATTAAAATATTT
88741604 AAATTTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 6 0.17
23 6 0.17
24 8 0.23
26 15 0.43
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTTTATATTAAAATATTTTTTTTA
Found at i:88741930 original size:3 final size:3
Alignment explanation
Indices: 88741907--88741970 Score: 53
Period size: 3 Copynumber: 21.7 Consensus size: 3
88741897 GGAAGAGAGA
* * * *
88741907 AAG AA- AAG AA- AAA AAG GAG AAG AAA AAA AAG AAG -AG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
88741952 AAG AAG AAAG AAAG AAG AA
1 AAG AAG -AAG -AAG AAG AA
88741971 AAAAAAGTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
2 6 0.12
3 39 0.75
4 7 0.13
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:88741931 original size:14 final size:12
Alignment explanation
Indices: 88741899--88741977 Score: 70
Period size: 14 Copynumber: 6.2 Consensus size: 12
88741889 CTGCCACTGG
*
88741899 AAGAGAGAAAGAA
1 AAGA-AGAAAAAA
*
88741912 AAGAA-AAAAAG
1 AAGAAGAAAAAA
*
88741923 GAGAAGAAAAAA
1 AAGAAGAAAAAA
*
88741935 AAGAAGAGAAGAAG
1 AAGAAGA-AA-AAA
88741949 AAGAAGAAGAAAGA
1 AAGAAGAA-AAA-A
88741963 AAGAAGAAAAAA
1 AAGAAGAAAAAA
88741975 AAG
1 AAG
88741978 TAATGTTTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
11 8 0.15
12 16 0.30
13 12 0.22
14 18 0.33
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAAAA
Found at i:88741931 original size:23 final size:23
Alignment explanation
Indices: 88741898--88741973 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 23
88741888 CCTGCCACTG
*
88741898 GAAGAGAGAAAGAAAAGAAAAAAA
1 GAAGA-AGAAAAAAAAGAAAAAAA
*
88741922 GGAGAAGAAAAAAAAGAAGAGAAGAA
1 GAAGAAGAAAAAAAAGAA-A-AA-AA
88741948 GAAGAAGAAGAAAGAAAGAAGAAAAA
1 GAAGAAGAA-AAA-AAAGAA-AAAAA
88741974 AAAGTAATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
23 12 0.27
24 5 0.11
25 2 0.05
26 12 0.27
27 5 0.11
28 8 0.18
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (23 bp):
GAAGAAGAAAAAAAAGAAAAAAA
Found at i:88745636 original size:33 final size:33
Alignment explanation
Indices: 88745594--88745680 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 33
88745584 CAGCCTACTA
* *
88745594 CCACCTCAGTACTCAACTCCTTCCGGCCCGTAT
1 CCACCTCAGTACTCTACTCCTTCCGGCCCATAT
* * *
88745627 CCACCTCAGTACTCTGCTCCTTTCGGTCCATAT
1 CCACCTCAGTACTCTACTCCTTCCGGCCCATAT
* *
88745660 CCACCGCCGTACTCTACTCCT
1 CCACCTCAGTACTCTACTCCT
88745681 CTTGGCTCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.16, C:0.45, G:0.11, T:0.28
Consensus pattern (33 bp):
CCACCTCAGTACTCTACTCCTTCCGGCCCATAT
Found at i:88745960 original size:76 final size:75
Alignment explanation
Indices: 88745878--88746018 Score: 201
Period size: 76 Copynumber: 1.9 Consensus size: 75
88745868 AATAACTTCA
* * *
88745878 TATTTATATAATAAATTTTTTGGCATTTTATTTATCAATCTAAGTTTTTTTTTTGCAATTTAAAT
1 TATTTATATAATAAATTTTTTGACATTTTATTTATCAATCTAA-TGTTTTTTTTGAAATTTAAAT
88745943 AGTCAACTTTG
65 AGTCAACTTTG
* * * * *
88745954 TATTTATTTAATGACTTTTTTGACATTTTATTTATCAATTTTATGTTTTTTTTGAAATTTAAATA
1 TATTTATATAATAAATTTTTTGACATTTTATTTATCAATCTAATGTTTTTTTTGAAATTTAAATA
88746019 AATAGGCTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
75 20 0.35
76 37 0.65
ACGTcount: A:0.30, C:0.06, G:0.07, T:0.57
Consensus pattern (75 bp):
TATTTATATAATAAATTTTTTGACATTTTATTTATCAATCTAATGTTTTTTTTGAAATTTAAATA
GTCAACTTTG
Found at i:88749192 original size:27 final size:27
Alignment explanation
Indices: 88749162--88749223 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
88749152 CACACTATTT
*
88749162 GCACCTCTGAGATAA-GCACAATTAGTC
1 GCACCTCTGAGA-AAGGCACAACTAGTC
* *
88749189 GCACCTTTTAGAAAGGCACAACTAGTC
1 GCACCTCTGAGAAAGGCACAACTAGTC
*
88749216 GCGCCTCT
1 GCACCTCT
88749224 AAGAGCAACC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (27 bp):
GCACCTCTGAGAAAGGCACAACTAGTC
Found at i:88749301 original size:27 final size:29
Alignment explanation
Indices: 88749266--88749325 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 29
88749256 TACTGATCCG
*
88749266 AAAAT-AAAAAAAAATATTTT-ATTTAAA
1 AAAATAAAAAAAAAATATTTTAATATAAA
88749293 AAAATAAAAAAAAAATATTTTAATATAAA
1 AAAATAAAAAAAAAATATTTTAATATAAA
88749322 AAAA
1 AAAA
88749326 GAGTCGCGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 5 0.17
28 15 0.50
29 10 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (29 bp):
AAAATAAAAAAAAAATATTTTAATATAAA
Found at i:88755469 original size:16 final size:16
Alignment explanation
Indices: 88755448--88755480 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
88755438 TAGCTTGAAA
88755448 GTCGTCTAAATCATGT
1 GTCGTCTAAATCATGT
88755464 GTCGTCTAAATCATGT
1 GTCGTCTAAATCATGT
88755480 G
1 G
88755481 CCGATTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (16 bp):
GTCGTCTAAATCATGT
Found at i:88757069 original size:17 final size:17
Alignment explanation
Indices: 88757047--88757093 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
88757037 TGTAGTACCT
88757047 AAAATATAATA-ATAATG
1 AAAATATAATAGATAA-G
88757064 AAAATATAAATAGATAAG
1 AAAATAT-AATAGATAAG
88757082 -AAATATAATAGA
1 AAAATATAATAGA
88757094 GGAGTAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.21
17 13 0.46
18 5 0.18
19 4 0.14
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
AAAATATAATAGATAAG
Found at i:88757161 original size:6 final size:6
Alignment explanation
Indices: 88757142--88757211 Score: 50
Period size: 6 Copynumber: 11.5 Consensus size: 6
88757132 GTCATAATAC
* * * * * *
88757142 AATAGT AATAGT AATTGT AATAAT AATAAT AATAAT AATAAT AATAAT
1 AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT
* * *
88757190 AAAACAT AATAGT AATAAT AAT
1 AATA-GT AATAGT AATAGT AAT
88757212 GATAATAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
6 51 0.91
7 5 0.09
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (6 bp):
AATAGT
Found at i:88757400 original size:65 final size:66
Alignment explanation
Indices: 88757235--88757405 Score: 233
Period size: 65 Copynumber: 2.6 Consensus size: 66
88757225 AGCGGTAAAA
*
88757235 ATGATAAAAATAATAATGATAATAATAATATATAAAATAATAATAATAGTAAAAAAGATAATAAG
1 ATGATAAAAATAATAATGATAATAA-AATA-ATAAAATAATAAGAATAGTAAAAAAGATAATAAG
88757300 AAT
64 AAT
* *
88757303 ATGATAAAAATAATGATGATAATAATAT-ATAAAATAATAAGAATAGTAAAAAAGATAATAAGAA
1 ATGATAAAAATAATAATGATAATAAAATAATAAAATAATAAGAATAGTAAAAAAGATAATAAGAA
88757367 T
66 T
* * *
88757368 A-G-TAACAATAATAATGGTAATAACGATAAT-AAATAATA
1 ATGATAAAAATAATAATGATAATAA-AATAATAAAATAATA
88757406 GGAGTAAATA
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
63 18 0.19
64 11 0.12
65 39 0.41
67 2 0.02
68 24 0.26
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.27
Consensus pattern (66 bp):
ATGATAAAAATAATAATGATAATAAAATAATAAAATAATAAGAATAGTAAAAAAGATAATAAGAA
T
Found at i:88757656 original size:3 final size:3
Alignment explanation
Indices: 88757159--88757636 Score: 215
Period size: 3 Copynumber: 159.0 Consensus size: 3
88757149 ATAGTAATTG
* *
88757159 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA AACA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * *** * * *
88757205 TAA TAA TGA TAA TAAA TAT TAG CGG TAA AAA TGA TAA AAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
88757251 TGA TAA TAA TAA TATA TAA -AA TAA TAA TAA TAG TAA -AA AAGA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * * * *
88757296 TAA GAA T-A TGA TAA AAA TAA TGA TGA TAA TAA TATA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * * * **
88757340 TAA GAA TAG TAA -AA AAGA TAA TAA GAA TAG TAA CAA TAA TAA TGG
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * * * * *
88757385 TAA TAA CGA TAA TAAA TAA TAG GAG TAAA TAA TAA AAA TAA TAA TAG
1 TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* * * * * * *
88757432 TAA TAA TGA GAA GAT TAA TAA TAG TAA TAA TAA TGA TAA TAG TAA TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * * * * * *
88757481 AAA TAA -AA AAA TAA -AA AAA T-A TAA TAA TAG CAA TAG CAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *** * * *
88757526 TAA AAA TAA TAG TAA TAA TAA GGG TAA TAG TAA TAA TAA CAA TAA T-G
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
88757573 TAAA TAA TAA T-A TACA T-A TGAA TAA TAA TAA TAA TAA -AG TAA TTA
1 T-AA TAA TAA TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
*
88757618 TAA TTAA TAG TAA TAA TAA
1 TAA -TAA TAA TAA TAA TAA
88757637 ACAACAGAAA
Statistics
Matches: 344, Mismatches: 106, Indels: 50
0.69 0.21 0.10
Matches are distributed among these distances:
2 22 0.06
3 292 0.85
4 30 0.09
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:88760775 original size:39 final size:37
Alignment explanation
Indices: 88760708--88760800 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
88760698 ACCAGAATGG
* *
88760708 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
88760747 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
88760784 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
88760801 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:88761164 original size:3 final size:3
Alignment explanation
Indices: 88761156--88761206 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
88761146 ATTCCCACTC
* * * *
88761156 ATA ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
88761204 ATA
1 ATA
88761207 CTTACCTCAC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:88761207 original size:18 final size:18
Alignment explanation
Indices: 88761160--88761208 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
88761150 CCACTCATAA
*
88761160 TAATAATAATAATAATAC
1 TAATAATAATACTAATAC
88761178 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
88761196 TAATATTAATACT
1 TAATAATAATACT
88761209 TACCTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:88761208 original size:12 final size:12
Alignment explanation
Indices: 88761156--88761206 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
88761146 ATTCCCACTC
*
88761156 ATAATAATAATA
1 ATAATAATACTA
88761168 ATAATAATACTA
1 ATAATAATACTA
88761180 ATAATAATACTA
1 ATAATAATACTA
* *
88761192 ATACTAATATTA
1 ATAATAATACTA
88761204 ATA
1 ATA
88761207 CTTACCTCAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATAATACTA
Found at i:88761874 original size:11 final size:11
Alignment explanation
Indices: 88761860--88761885 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
88761850 CTTTTTCTTC
88761860 TTTCTCCCCTG
1 TTTCTCCCCTG
88761871 TTTCTCCCCTG
1 TTTCTCCCCTG
88761882 TTTC
1 TTTC
88761886 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:88762267 original size:21 final size:21
Alignment explanation
Indices: 88762243--88762285 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
88762233 AATAATAACT
88762243 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
88762264 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
88762285 A
1 A
88762286 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Found at i:88764358 original size:42 final size:42
Alignment explanation
Indices: 88764189--88764360 Score: 168
Period size: 42 Copynumber: 4.1 Consensus size: 42
88764179 TCATCTGACG
* * * * * *
88764189 AACCGAAGCAAATGTACCGGTACATAAGTGCAT-AACTGAATA
1 AACCAAAGCAAATATACTGGCACATAAGTGCATCATC-GATTA
* * * *
88764231 AACCAAAGCAAATATATTGACACATAAGTGTATCATC-AGCTA
1 AACCAAAGCAAATATACTGGCACATAAGTGCATCATCGA-TTA
* * * * *
88764273 AACCGAAGTAAATATACTAGTACATAAGTGCATCATCGGTTA
1 AACCAAAGCAAATATACTGGCACATAAGTGCATCATCGATTA
*
88764315 AACCAAAGCAAATATACTGGCACATAAGTGCATTATCGATTA
1 AACCAAAGCAAATATACTGGCACATAAGTGCATCATCGATTA
88764357 AACC
1 AACC
88764361 GAAGTATAAA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
41 1 0.01
42 100 0.97
43 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (42 bp):
AACCAAAGCAAATATACTGGCACATAAGTGCATCATCGATTA
Found at i:88764359 original size:84 final size:84
Alignment explanation
Indices: 88764189--88764366 Score: 216
Period size: 84 Copynumber: 2.1 Consensus size: 84
88764179 TCATCTGACG
* * * *
88764189 AACCGAAGCAAATGTACCGGTACATAAGTGCATAACTGAATAAACCAAAGCAAATATATTGACAC
1 AACCGAAGTAAATATACCAGTACATAAGTGCATAACTGAATAAACCAAAGCAAATATACTGACAC
*
88764254 ATAAGTGTATCATCAGCTA
66 ATAAGTGCATCATCAGCTA
* * ** *
88764273 AACCGAAGTAAATATACTAGTACATAAGTGCATCA-TCGGTTAAACCAAAGCAAATATACTGGCA
1 AACCGAAGTAAATATACCAGTACATAAGTGCATAACT-GAATAAACCAAAGCAAATATACTGACA
* *
88764337 CATAAGTGCATTATC-GATTA
65 CATAAGTGCATCATCAG-CTA
88764357 AACCGAAGTA
1 AACCGAAGTA
88764367 TAAACCTATA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
83 2 0.03
84 78 0.98
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (84 bp):
AACCGAAGTAAATATACCAGTACATAAGTGCATAACTGAATAAACCAAAGCAAATATACTGACAC
ATAAGTGCATCATCAGCTA
Done.