Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 236 of 343
Found at i:77722463 original size:97 final size:97
Alignment explanation
Indices: 77722309--77722501 Score: 368
Period size: 97 Copynumber: 2.0 Consensus size: 97
77722299 GCTTTCTTTA
77722309 TTTCTTCTATGTCCTCATCATTTGTATAGAGGCTAATAATATCCTCAAAACCAAAGATTCTTTGA
1 TTTCTTCTATGTCCTCATCATTTGTATAGAGGCTAATAATATCCTCAAAACCAAAGATTCTTTGA
*
77722374 AGTTCTTACCATTTGTGTAAAGGCTAACAATC
66 AGTTCTCACCATTTGTGTAAAGGCTAACAATC
77722406 TTTCTTCTATGTCCTCATCATTTGTATAGAGGCTAATAATATCCTCAAAACCAAAGATTCTTTGA
1 TTTCTTCTATGTCCTCATCATTTGTATAGAGGCTAATAATATCCTCAAAACCAAAGATTCTTTGA
*
77722471 AGTTCTCATCATTTGTGTAAAGGCTAACAAT
66 AGTTCTCACCATTTGTGTAAAGGCTAACAAT
77722502 TTCCTCAAAA
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 94 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (97 bp):
TTTCTTCTATGTCCTCATCATTTGTATAGAGGCTAATAATATCCTCAAAACCAAAGATTCTTTGA
AGTTCTCACCATTTGTGTAAAGGCTAACAATC
Found at i:77724308 original size:37 final size:37
Alignment explanation
Indices: 77724258--77724332 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
77724248 AATGATAGGC
77724258 ACAAAAGTCTTTAATTTGTGGTTTTGTTTATTTGTTT
1 ACAAAAGTCTTTAATTTGTGGTTTTGTTTATTTGTTT
77724295 ACAAAAGTCTTTAATTTGTGGTTTTGTTTATTTGTTT
1 ACAAAAGTCTTTAATTTGTGGTTTTGTTTATTTGTTT
77724332 A
1 A
77724333 TGGATTCCGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.56
Consensus pattern (37 bp):
ACAAAAGTCTTTAATTTGTGGTTTTGTTTATTTGTTT
Found at i:77724525 original size:6 final size:6
Alignment explanation
Indices: 77724514--77724539 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
77724504 TAATATGGGT
77724514 TGGATG TGGATG TGGATG TGGATG TG
1 TGGATG TGGATG TGGATG TGGATG TG
77724540 AATTTGCAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.50, T:0.35
Consensus pattern (6 bp):
TGGATG
Found at i:77730825 original size:21 final size:22
Alignment explanation
Indices: 77730799--77730845 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
77730789 CTCTGCTCAA
*
77730799 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
77730820 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
77730842 ACTC
1 ACTC
77730846 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:77736401 original size:21 final size:18
Alignment explanation
Indices: 77736363--77736406 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 18
77736353 CATCAATTAC
77736363 TTTTTATTTTTATATATA
1 TTTTTATTTTTATATATA
77736381 TTTTTAATTTATTATTATATA
1 TTTTT-ATTT-TTA-TATATA
77736402 TTTTT
1 TTTTT
77736407 GAAAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.22
19 4 0.17
20 3 0.13
21 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTATTTTTATATATA
Found at i:77736418 original size:23 final size:22
Alignment explanation
Indices: 77736371--77736418 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
77736361 ACTTTTTATT
**
77736371 TTTA-TATATATTTTTAATTTA
1 TTTATTATATATTTTTAAAATA
77736392 -TTATTATATATTTTTGAAAATA
1 TTTATTATATATTTTT-AAAATA
77736414 TTTAT
1 TTTAT
77736419 GTATTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.14
21 11 0.50
22 4 0.18
23 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTATTATATATTTTTAAAATA
Found at i:77736433 original size:10 final size:10
Alignment explanation
Indices: 77736363--77736434 Score: 51
Period size: 10 Copynumber: 7.3 Consensus size: 10
77736353 CATCAATTAC
77736363 TTTTTAT-T-
1 TTTTTATATA
*
77736371 TTTATATATA
1 TTTTTATATA
*
77736381 TTTTTAATTTA
1 TTTTT-ATATA
*
77736392 TTATTATATA
1 TTTTTATATA
*
77736402 TTTTTGA-AAA
1 TTTTT-ATATA
* *
77736412 TATTTATGTA
1 TTTTTATATA
77736422 TTTTTATATA
1 TTTTTATATA
77736432 TTT
1 TTT
77736435 CTTTGACTTT
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
8 6 0.13
9 2 0.04
10 30 0.64
11 9 0.19
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (10 bp):
TTTTTATATA
Found at i:77742401 original size:34 final size:34
Alignment explanation
Indices: 77742358--77742424 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
77742348 ATATCACATC
77742358 AGGGGACATTCATTTTTGTTCTAGTATTGGTACT
1 AGGGGACATTCATTTTTGTTCTAGTATTGGTACT
77742392 AGGGGACATTCATTTTTGTTCTAGTATTGGTAC
1 AGGGGACATTCATTTTTGTTCTAGTATTGGTAC
77742425 GAATTGATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.43
Consensus pattern (34 bp):
AGGGGACATTCATTTTTGTTCTAGTATTGGTACT
Found at i:77745564 original size:39 final size:39
Alignment explanation
Indices: 77745521--77745618 Score: 169
Period size: 39 Copynumber: 2.5 Consensus size: 39
77745511 CCGAACATAT
* *
77745521 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
77745560 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
*
77745599 TTCCAGCATATAGCCTGCGG
1 TTCCAGCACATAGCCTGCGG
77745619 GTCTTTAAGC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
Found at i:77752835 original size:39 final size:39
Alignment explanation
Indices: 77752790--77752975 Score: 313
Period size: 39 Copynumber: 4.8 Consensus size: 39
77752780 ATGAAAGACA
*
77752790 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
77752829 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
77752868 CTGGAAATGTATCCGGG--AAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
77752905 CTGAAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
77752944 CAGGAAATGTATCCGGGCTAAAGTCCCGCAGG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGG
77752976 TTTTGTGGTG
Statistics
Matches: 137, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
37 36 0.26
39 101 0.74
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:77752898 original size:76 final size:76
Alignment explanation
Indices: 77752790--77752975 Score: 291
Period size: 76 Copynumber: 2.4 Consensus size: 76
77752780 ATGAAAGACA
* * *
77752790 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCTGGGCTAAAGTCC
1 CTGGAAATGTATCC-GG-GAAAGTCCCGCAGGCTTCGTGCTGAAAATGTATCCGGGCTAAAGTCC
77752855 CGCAGGCTTCGTG
64 CGCAGGCTTCGTG
77752868 CTGGAAATGTATCCGGGAAAGTCCCGCAGGCTTCGTGCTGAAAATGTATCCGGGCTAAAGTCCCG
1 CTGGAAATGTATCCGGGAAAGTCCCGCAGGCTTCGTGCTGAAAATGTATCCGGGCTAAAGTCCCG
*
77752933 TAGGCTTCGTG
66 CAGGCTTCGTG
*
77752944 CAGGAAATGTATCCGGGCTAAAGTCCCGCAGG
1 CTGGAAATGTATCCGGG--AAAGTCCCGCAGG
77752976 TTTTGTGGTG
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
76 72 0.71
77 2 0.02
78 27 0.27
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (76 bp):
CTGGAAATGTATCCGGGAAAGTCCCGCAGGCTTCGTGCTGAAAATGTATCCGGGCTAAAGTCCCG
CAGGCTTCGTG
Found at i:77757123 original size:51 final size:51
Alignment explanation
Indices: 77757043--77757152 Score: 166
Period size: 51 Copynumber: 2.2 Consensus size: 51
77757033 CAAATTTACA
* * * *
77757043 TCATACTTCATCTGGAATTATTTCCTTGTTGTTCTAACTTCAACAAGAGCT
1 TCATATTTCATCTGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAGCT
* *
77757094 TCATATTTCATCTGGAATAATTACTTTGTTGCTCTAGCTTCAACAAGAGCT
1 TCATATTTCATCTGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAGCT
77757145 TCATATTT
1 TCATATTT
77757153 TATCCGGATA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (51 bp):
TCATATTTCATCTGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAGCT
Found at i:77758706 original size:30 final size:31
Alignment explanation
Indices: 77758654--77758712 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
77758644 CACCCTTAAA
* * *
77758654 ATATTTTCACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACTATTAGCCCTTCAAATTTTTC
77758685 ATATTTACACT-TTAGCCCTTCAAATTTT
1 ATATTTACACTATTAGCCCTTCAAATTTT
77758713 GAGTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.25, C:0.22, G:0.03, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAGCCCTTCAAATTTTTC
Found at i:77758720 original size:30 final size:31
Alignment explanation
Indices: 77758654--77758721 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
77758644 CACCCTTAAA
* * *
77758654 ATATTTTCACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACTATTAGCCCTTCAACATTTTC
*
77758685 ATATTTACACT-TTAGCCCTTCAA-ATTTTG
1 ATATTTACACTATTAGCCCTTCAACATTTTC
77758714 AGTATTTA
1 A-TATTTA
77758722 TTCTTGTGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.16
30 17 0.53
31 10 0.31
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAGCCCTTCAACATTTTC
Found at i:77765485 original size:43 final size:43
Alignment explanation
Indices: 77765398--77765485 Score: 97
Period size: 43 Copynumber: 2.0 Consensus size: 43
77765388 TTGATATTGG
* * * *
77765398 ATCCCATGTAAGGCCATGTCTAGGACATTGAGTTGACATTGAT
1 ATCCCATATAAGACCATGTCTAGGACATGGAGTTGACATCGAT
* * *
77765441 ATCCCATATAAGACCATGTTTGGGACATGGCA-TTGGCATCGAT
1 ATCCCATATAAGACCATGTCTAGGACATGG-AGTTGACATCGAT
77765484 AT
1 AT
77765486 GTGATCCCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
43 36 0.97
44 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (43 bp):
ATCCCATATAAGACCATGTCTAGGACATGGAGTTGACATCGAT
Found at i:77766582 original size:43 final size:43
Alignment explanation
Indices: 77766529--77766636 Score: 173
Period size: 43 Copynumber: 2.5 Consensus size: 43
77766519 AGGGCACGAC
*
77766529 CATGCGTCTCAGCCGTGTGAAGGACACAGCCTTAGAACATGGG
1 CATGTGTCTCAGCCGTGTGAAGGACACAGCCTTAGAACATGGG
* *
77766572 CATGTGTCTCAACCATGTGAAGGACACAGCCTTAGAACATGGG
1 CATGTGTCTCAGCCGTGTGAAGGACACAGCCTTAGAACATGGG
77766615 CATGTG-CTCAGGCCGTGTGAAG
1 CATGTGTCTCA-GCCGTGTGAAG
77766637 TCTGCACTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 4 0.07
43 55 0.93
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (43 bp):
CATGTGTCTCAGCCGTGTGAAGGACACAGCCTTAGAACATGGG
Found at i:77767399 original size:3 final size:3
Alignment explanation
Indices: 77767393--77767431 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
77767383 CTTGTTACAC
77767393 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
77767432 GAGTTTCTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:77770073 original size:39 final size:39
Alignment explanation
Indices: 77770024--77770146 Score: 140
Period size: 39 Copynumber: 3.1 Consensus size: 39
77770014 ACATTGTAAC
*
77770024 ATATGCTTGAACGTTATGTAATTATATGAGTATTGTGAT
1 ATATGCTTGAACGTTATGTGATTATATGAGTATTGTGAT
* *
77770063 ATATGTTTGAATC-TTATGTGATTATATGAGTATTCTGAT
1 ATATGCTTGAA-CGTTATGTGATTATATGAGTATTGTGAT
* * * * * *
77770102 ACATGCTTAAATGTTATATGATTATATGTGTAGTGTGATT
1 ATATGCTTGAACGTTATGTGATTATATGAGTATTGTGA-T
77770142 ATATG
1 ATATG
77770147 TGTAATGTGA
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
39 63 0.91
40 6 0.09
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.46
Consensus pattern (39 bp):
ATATGCTTGAACGTTATGTGATTATATGAGTATTGTGAT
Found at i:77770142 original size:17 final size:17
Alignment explanation
Indices: 77770120--77770162 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
77770110 AAATGTTATA
*
77770120 TGATTATATGTGTAGTG
1 TGATTATATGTGTAATG
77770137 TGATTATATGTGTAATG
1 TGATTATATGTGTAATG
77770154 TGA-TATATG
1 TGATTATATG
77770163 CCCAAAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (17 bp):
TGATTATATGTGTAATG
Found at i:77786144 original size:22 final size:22
Alignment explanation
Indices: 77786076--77786146 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
77786066 CTACAAACTT
* *
77786076 TTTATCT-TAAAATACTGGCGG
1 TTTATCTATAAATTACTGGTGG
* * * * *
77786097 TTTATCCACAATTTTATTGGTAG
1 TTTATCTATAA-ATTACTGGTGG
77786120 TTTATCTATAAATTACTGGTGG
1 TTTATCTATAAATTACTGGTGG
77786142 TTTAT
1 TTTAT
77786147 TTACAAACAC
Statistics
Matches: 36, Mismatches: 12, Indels: 3
0.71 0.24 0.06
Matches are distributed among these distances:
21 6 0.17
22 15 0.42
23 15 0.42
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.46
Consensus pattern (22 bp):
TTTATCTATAAATTACTGGTGG
Found at i:77790648 original size:16 final size:17
Alignment explanation
Indices: 77790613--77790654 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
77790603 AAGTAATTTC
*
77790613 AAAATATAAATAAAGATA
1 AAAATA-AAAAAAAGATA
77790631 AAAATAAAAAAAAG-TA
1 AAAATAAAAAAAAGATA
77790647 AAAATAAA
1 AAAATAAA
77790655 TAATAGGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.43
17 7 0.30
18 6 0.26
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (17 bp):
AAAATAAAAAAAAGATA
Found at i:77801734 original size:6 final size:6
Alignment explanation
Indices: 77801723--77801798 Score: 61
Period size: 6 Copynumber: 13.0 Consensus size: 6
77801713 CCTATTTATT
* *
77801723 TTTTTA TTTTTA --TTTA TTTTTA TTTTTA TTTTTC TTTTGA -TTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * *
77801768 TTTTCA -TTTCA ATTTTA TTATTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA -T-TTTTA TTTTTA
77801799 AAGACATATC
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
4 4 0.07
5 9 0.16
6 38 0.67
7 1 0.02
8 5 0.09
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:77801738 original size:18 final size:18
Alignment explanation
Indices: 77801715--77801770 Score: 66
Period size: 16 Copynumber: 3.3 Consensus size: 18
77801705 TGACTCCTCC
77801715 TATTTATTTTTTTATTTT
1 TATTTATTTTTTTATTTT
77801733 TATTTA--TTTTTATTTT
1 TATTTATTTTTTTATTTT
*
77801749 TATTT-TTCTTTTGA-TTT
1 TATTTATT-TTTTTATTTT
77801766 TATTT
1 TATTT
77801771 TCATTTCAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
16 15 0.44
17 8 0.24
18 11 0.32
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (18 bp):
TATTTATTTTTTTATTTT
Found at i:77801755 original size:23 final size:23
Alignment explanation
Indices: 77801723--77801776 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
77801713 CCTATTTATT
*
77801723 TTTTTATTTTTATTTAT--TTTTA
1 TTTTTATTTTTCTTT-TGATTTTA
77801745 TTTTTATTTTTCTTTTGATTTTA
1 TTTTTATTTTTCTTTTGATTTTA
*
77801768 TTTTCATTT
1 TTTTTATTT
77801777 CAATTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 13 0.46
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTTTATTTTTCTTTTGATTTTA
Found at i:77807703 original size:42 final size:42
Alignment explanation
Indices: 77807648--77807761 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 42
77807638 CAATATCAAT
* * * *
77807648 GCCTCTGTCCCAGACAGGGTCTTACACGAAATCAGATAT-GAT
1 GCCTGTGTCCCAGACACGGTCTTACACGAAATCACA-ATCGAG
* * * *
77807690 GTC-GATGTCCCAGACATGGTCTTATACATAAATCACAATCGAG
1 GCCTG-TGTCCCAGACACGGTCTTACAC-GAAATCACAATCGAG
77807733 GCCTGTGTCCCAGACACGGTCTTACACGA
1 GCCTGTGTCCCAGACACGGTCTTACACGA
77807762 TGTCTCAGAC
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
42 25 0.44
43 31 0.54
44 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (42 bp):
GCCTGTGTCCCAGACACGGTCTTACACGAAATCACAATCGAG
Found at i:77817468 original size:23 final size:23
Alignment explanation
Indices: 77817442--77817486 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
77817432 CACCTCACCT
77817442 TTACCTTTACTTACCACAGTTTC
1 TTACCTTTACTTACCACAGTTTC
77817465 TTACCTTTACTTACCACAGTTT
1 TTACCTTTACTTACCACAGTTT
77817487 TGGTCATTGT
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:0.22, C:0.29, G:0.04, T:0.44
Consensus pattern (23 bp):
TTACCTTTACTTACCACAGTTTC
Found at i:77831075 original size:75 final size:74
Alignment explanation
Indices: 77830921--77831251 Score: 301
Period size: 75 Copynumber: 4.5 Consensus size: 74
77830911 AACGCAATCA
*
77830921 CTATTGTATTTTACATCAATAATA-TACTTATTTACAATCTACGAAAACAA-TAGAAAAATTATT
1 CTATTGTATTTTATATCAATAATATTACTTATTTACAATCTA-GAAAACAATTA-AAAAATTATT
77830984 TGTATTGTATT
64 TGTATTGTATT
* * * *
77830995 CTATTGTAATTTATATCAATAATATTTATTTATTTACAATATATGAAAA-AATTTAAAAAAAT-T
1 CTATTGTATTTTATATCAATAATA-TTACTTATTTACAATCTA-GAAAACAA-TTAAAAAATTAT
77831058 TTGTATTGTATT
63 TTGTATTGTATT
* *
77831070 TTATTGTATTTTATATCAATAATATATACTTATTTACAATCTA-AAAATAAATTAAAAAATTATT
1 CTATTGTATTTTATATCAATAATAT-TACTTATTTACAATCTAGAAAA-CAATTAAAAAATTATT
*
77831134 TGTATTATATT
64 TGTATTGTATT
** * * * ** * *
77831145 CTATTGTATGCCT-TCTC-ATAATA-TATTTATTTACAA-C-ATACGA-AA--AAAAATTTGTTT
1 CTATTGTAT-TTTATATCAATAATATTACTTATTTACAATCTAGAAAACAATTAAAAAATTATTT
*
77831202 ATATTGTATT
65 GTATTGTATT
* * *
77831212 CTACTATATTTTACATCAATAATATATACTTATTTACAAT
1 CTATTGTATTTTATATCAATAATAT-TACTTATTTACAAT
77831252 TTACCAAAAA
Statistics
Matches: 212, Mismatches: 30, Indels: 33
0.77 0.11 0.12
Matches are distributed among these distances:
66 1 0.00
67 27 0.13
68 6 0.03
69 2 0.01
70 13 0.06
71 3 0.01
72 12 0.06
73 4 0.02
74 38 0.18
75 77 0.36
76 27 0.13
77 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.46
Consensus pattern (74 bp):
CTATTGTATTTTATATCAATAATATTACTTATTTACAATCTAGAAAACAATTAAAAAATTATTTG
TATTGTATT
Found at i:77831236 original size:142 final size:145
Alignment explanation
Indices: 77830927--77831263 Score: 370
Period size: 142 Copynumber: 2.3 Consensus size: 145
77830917 ATCACTATTG
*
77830927 TATTTTACATCAAT-A-ATATACTTATTTACAATCTACGAAAACAATAGAAAAATTATTTGTATT
1 TATTTTACATCAATAATATATACTTATTTACAATCTAC-AAAAAAATAGAAAAATTATTTGTATT
* * * *
77830990 GTATTCTATTGTAATTTATATCAATAATATTTATTTATTTACAATATATGAAAAAATTTAAAAAA
65 ATATTCTATTGTAATCTATATCAATAATA-TTATTTATTTACAACATACG--AAAA--TAAAAAA
* * * *
77831055 ATTTTGTATTGTATTTTATTG
125 ATTTTATATTGTATTCTACTA
*
77831076 TATTTTATATCAATAATATATACTTATTTACAATCTA-AAAATAAATTA-AAAAATTATTTGTAT
1 TATTTTACATCAATAATATATACTTATTTACAATCTACAAAA-AAA-TAGAAAAATTATTTGTAT
* **
77831139 TATATTCTATTGT-ATGCCT-TCTC-ATAATA-TATTTATTTACAACATACG-AAA-AAAAATTT
64 TATATTCTATTGTAAT--CTATATCAATAATATTATTTATTTACAACATACGAAAATAAAAAAAT
77831198 GTTTATATTGTATTCTACTA
127 -TTTATATTGTATTCTACTA
*
77831218 TATTTTACATCAATAATATATACTTATTTACAATTTACCAAAAAAA
1 TATTTTACATCAATAATATATACTTATTTACAATCTA-CAAAAAAA
77831264 AAGCAATGAA
Statistics
Matches: 164, Mismatches: 15, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
141 6 0.04
142 50 0.30
143 3 0.02
144 7 0.04
147 17 0.10
149 25 0.15
150 33 0.20
151 23 0.14
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (145 bp):
TATTTTACATCAATAATATATACTTATTTACAATCTACAAAAAAATAGAAAAATTATTTGTATTA
TATTCTATTGTAATCTATATCAATAATATTATTTATTTACAACATACGAAAATAAAAAAATTTTA
TATTGTATTCTACTA
Found at i:77833327 original size:25 final size:26
Alignment explanation
Indices: 77833292--77833340 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
77833282 AGAAATTTTT
*
77833292 CTTTTCTTTTTTAGATTAGGTTTTCA
1 CTTTTCTTTTTTAGATTAGATTTTCA
*
77833318 CTTTTC-TTTTTAGGTTAGATTTT
1 CTTTTCTTTTTTAGATTAGATTTT
77833341 AGTTTTGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.14, C:0.10, G:0.12, T:0.63
Consensus pattern (26 bp):
CTTTTCTTTTTTAGATTAGATTTTCA
Found at i:77844330 original size:48 final size:48
Alignment explanation
Indices: 77844246--77844467 Score: 255
Period size: 48 Copynumber: 4.6 Consensus size: 48
77844236 GACATTTGGG
* * * * *
77844246 TGATATGAGTGCCAGTGTAAGACCATGTCTAGGACATGGCATTGGCAT
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAA
* * * * *
77844294 TGATGTGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCAA
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAA
** * * *
77844342 CAATATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCAT
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAA
* * * *
77844390 TGATAAGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAA
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAA
* *
77844438 TGAGATGAGAGCTAGTGTAAGACCACGTCT
1 TGATATGAGAGCTAGTGTAAGACCATGTCT
77844468 AAGCTAGTGT
Statistics
Matches: 142, Mismatches: 32, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 142 1.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAA
Found at i:77844412 original size:96 final size:96
Alignment explanation
Indices: 77844248--77844468 Score: 309
Period size: 96 Copynumber: 2.3 Consensus size: 96
77844238 CATTTGGGTG
* * * ** *
77844248 ATATGAGTGCCAGTGTAAGACCATGTCTAGGACATGGCATTGGCATTGATGTGTGTGCTAGTGTA
1 ATATGAGAGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCATTGATAAGTGCGCTAGTGTA
*
77844313 AGACCATGTTTGGGACATGGCATC-AGCAACA
66 AGACCATGTCTGGGACATGGCATCGA-CAACA
*
77844344 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCATTGATAAGTGCGCTAGTGTA
1 ATATGAGAGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCATTGATAAGTGCGCTAGTGTA
**
77844409 AGACCATGTCTGGGACATGGCATCGACAATG
66 AGACCATGTCTGGGACATGGCATCGACAACA
* * *
77844440 AGATGAGAGCTAGTGTAAGACCACGTCTA
1 ATATGAGAGCCAGTGTAAGACCATGTCTA
77844469 AGCTAGTGTA
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 109 0.99
97 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (96 bp):
ATATGAGAGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCATTGATAAGTGCGCTAGTGTA
AGACCATGTCTGGGACATGGCATCGACAACA
Found at i:77851195 original size:42 final size:44
Alignment explanation
Indices: 77851149--77851244 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
77851139 GTTCCAGCAG
77851149 GGTCTTACA-AGAAATCA-AA-TACAATGCCAACATCCCAAACGT
1 GGTCTTACACAGAAATCATAAGT-CAATGCCAACATCCCAAACGT
* * * *
77851191 GGTCTTACACATAAATCATAAGTCGATGCCAACGTCCCAGACGT
1 GGTCTTACACAGAAATCATAAGTCAATGCCAACATCCCAAACGT
77851235 GGTCTTACAC
1 GGTCTTACAC
77851245 GATAACACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 9 0.19
43 7 0.15
44 30 0.64
45 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (44 bp):
GGTCTTACACAGAAATCATAAGTCAATGCCAACATCCCAAACGT
Found at i:77854309 original size:43 final size:44
Alignment explanation
Indices: 77854238--77854372 Score: 184
Period size: 43 Copynumber: 3.1 Consensus size: 44
77854228 TATCGAAATG
*
77854238 TGATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
77854282 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
77854325 T-ATTATTCGAGCCTTTGAACCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
77854370 TGA
1 TGA
77854373 AATGTTATGT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 37 0.47
44 8 0.10
45 31 0.40
46 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:77854703 original size:38 final size:38
Alignment explanation
Indices: 77854669--77854833 Score: 251
Period size: 38 Copynumber: 4.3 Consensus size: 38
77854659 GGAGGCTATA
* *
77854669 TGCTGG-AATTATATCCGGGTTAAATCCCGTAGGCTTCG
1 TGCTGGTAA-TATATCCAGGTTAAATCCCGCAGGCTTCG
*
77854707 TGCTGGTAATATATCCAGGTTAAATCCTGCAGGCTTCG
1 TGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCG
* * *
77854745 TGCTGGTAATATATCCGGGTTAATTCCCGTAGGCTTCG
1 TGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCG
*
77854783 TGCTGGTAATATATCCAAGTTAAATCCCGCAGGCTTCG
1 TGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCG
77854821 TGCTGGTAATATA
1 TGCTGGTAATATA
77854834 GCTTCGTACT
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
38 113 0.98
39 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (38 bp):
TGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCG
Found at i:77854773 original size:76 final size:76
Alignment explanation
Indices: 77854669--77854833 Score: 287
Period size: 76 Copynumber: 2.2 Consensus size: 76
77854659 GGAGGCTATA
*
77854669 TGCTGG-AATTATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAATATATCCAGGTTAAATC
1 TGCTGGTAA-TATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAATATATCCAAGTTAAATC
*
77854733 CTGCAGGCTTCG
65 CCGCAGGCTTCG
*
77854745 TGCTGGTAATATATCCGGGTTAATTCCCGTAGGCTTCGTGCTGGTAATATATCCAAGTTAAATCC
1 TGCTGGTAATATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAATATATCCAAGTTAAATCC
77854810 CGCAGGCTTCG
66 CGCAGGCTTCG
77854821 TGCTGGTAATATA
1 TGCTGGTAATATA
77854834 GCTTCGTACT
Statistics
Matches: 85, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
76 83 0.98
77 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (76 bp):
TGCTGGTAATATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAATATATCCAAGTTAAATCC
CGCAGGCTTCG
Found at i:77854839 original size:19 final size:19
Alignment explanation
Indices: 77854815--77854852 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
77854805 AATCCCGCAG
*
77854815 GCTTCGTGCTGGTAATATA
1 GCTTCGTACTGGTAATATA
77854834 GCTTCGTACTGGTAATATA
1 GCTTCGTACTGGTAATATA
77854853 TCCGGGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.37
Consensus pattern (19 bp):
GCTTCGTACTGGTAATATA
Found at i:77854868 original size:57 final size:57
Alignment explanation
Indices: 77854777--77854890 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 57
77854767 ATTCCCGTAG
* *
77854777 GCTTCGTGCTGGTAATATATCCAAGTTAAATCCCGCAGGCTTCGTGCTGGTAATATA
1 GCTTCGTACTGGTAATATATCCAAGTTAAATCCCGCAGGCTTCGTGCTAGTAATATA
** * * *
77854834 GCTTCGTACTGGTAATATATCCGGGTTAATTCCCGCATGCTTCGTGCTAGTATTATA
1 GCTTCGTACTGGTAATATATCCAAGTTAAATCCCGCAGGCTTCGTGCTAGTAATATA
77854891 TCCGAGTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (57 bp):
GCTTCGTACTGGTAATATATCCAAGTTAAATCCCGCAGGCTTCGTGCTAGTAATATA
Found at i:77854891 original size:38 final size:38
Alignment explanation
Indices: 77854834--77854935 Score: 123
Period size: 38 Copynumber: 2.7 Consensus size: 38
77854824 TGGTAATATA
* * * *
77854834 GCTTCGTACTGGTAATATATCCGGGTTAATTCCCGCAT
1 GCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAG
* *
77854872 GCTTCGTGCTAGTATTATATCCGAGTTAAATCCCGCAG
1 GCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAG
* * *
77854910 GCCTAGTGCTGGTATTATATTCGGGT
1 GCTTCGTGCTGGTATTATATCCGGGT
77854936 CTTTGAGCCT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (38 bp):
GCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAG
Found at i:77854902 original size:95 final size:95
Alignment explanation
Indices: 77854739--77854928 Score: 299
Period size: 95 Copynumber: 2.0 Consensus size: 95
77854729 AATCCTGCAG
* * *
77854739 GCTTCGTGCTGGTAATATATCCGGGTTAATTCCCGTAGGCTTCGTGCTGGTAATATATCCAAGTT
1 GCTTCGTACTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCGTGCTAGTAATATATCCAAGTT
* *
77854804 AAATCCCGCAGGCTTCGTGCTGGTAATATA
66 AAATCCCGCAGGCCTAGTGCTGGTAATATA
* * *
77854834 GCTTCGTACTGGTAATATATCCGGGTTAATTCCCGCATGCTTCGTGCTAGTATTATATCCGAGTT
1 GCTTCGTACTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCGTGCTAGTAATATATCCAAGTT
*
77854899 AAATCCCGCAGGCCTAGTGCTGGTATTATA
66 AAATCCCGCAGGCCTAGTGCTGGTAATATA
77854929 TTCGGGTCTT
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 86 1.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (95 bp):
GCTTCGTACTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCGTGCTAGTAATATATCCAAGTT
AAATCCCGCAGGCCTAGTGCTGGTAATATA
Found at i:77854976 original size:45 final size:44
Alignment explanation
Indices: 77854926--77855052 Score: 182
Period size: 45 Copynumber: 2.8 Consensus size: 44
77854916 TGCTGGTATT
*
77854926 ATATTCGGGTCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACA
1 ATATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACA
* *
77854971 ATATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATA
1 ATATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACA
* *
77855016 CTATTCGGGCTTTCAAGCCTAGCAGGCTATAATGCCG
1 ATATTCGGGCTTT-GAGCCTAGCAGGCTATAATGCCG
77855053 ATGAAATGAT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
44 4 0.05
45 70 0.95
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (44 bp):
ATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACA
Found at i:77861072 original size:85 final size:85
Alignment explanation
Indices: 77860940--77861099 Score: 223
Period size: 85 Copynumber: 1.9 Consensus size: 85
77860930 TTCACCATAG
* * * * * * *
77860940 GTAAGATAATGTTAGAGATCATGTTAGAATCCAATTTCGAATGATCCTGTGTCATACCTGCAACA
1 GTAAGACAATGTTAGAGATCAGGTCAAAATCCAATTCCGAATGATCCTATGACATACCTGCAACA
*
77861005 ACACACGTATTTCAAAATAA
66 ACACAAGTATTTCAAAATAA
*
77861025 GTAAGACAATGTTAGAGATTAGGTCAAAATCCAATTCC-AGATGATCCTATGACATACCTGCAAC
1 GTAAGACAATGTTAGAGATCAGGTCAAAATCCAATTCCGA-ATGATCCTATGACATACCTGCAAC
77861089 AACACAAGTAT
65 AACACAAGTAT
77861100 GTGAAGCGTT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
84 1 0.02
85 64 0.98
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (85 bp):
GTAAGACAATGTTAGAGATCAGGTCAAAATCCAATTCCGAATGATCCTATGACATACCTGCAACA
ACACAAGTATTTCAAAATAA
Found at i:77862774 original size:25 final size:25
Alignment explanation
Indices: 77862743--77862792 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
77862733 ATTAACCTTA
77862743 AAAAAGTACATAAATTGAAAATTTT
1 AAAAAGTACATAAATTGAAAATTTT
77862768 AAAAAGTACATAAATTGAAAATTTT
1 AAAAAGTACATAAATTGAAAATTTT
77862793 CTTTCATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (25 bp):
AAAAAGTACATAAATTGAAAATTTT
Found at i:77873941 original size:3 final size:3
Alignment explanation
Indices: 77873933--77873967 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
77873923 AAAGAACGAG
*
77873933 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA GGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
77873968 TGATTTAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:77876736 original size:23 final size:24
Alignment explanation
Indices: 77876687--77876736 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
77876677 ATACTATATA
*
77876687 TTATAAAAATAATAATATACTTAT
1 TTATAAAAATAATAATATAATTAT
* * *
77876711 TTATAAAAA-AGTATTATAATTTT
1 TTATAAAAATAATAATATAATTAT
77876734 TTA
1 TTA
77876737 CCATAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
TTATAAAAATAATAATATAATTAT
Found at i:77877434 original size:6 final size:6
Alignment explanation
Indices: 77877423--77877448 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
77877413 AGGGTTACAA
77877423 ATTCAG ATTCAG ATTCAG ATTCAG AT
1 ATTCAG ATTCAG ATTCAG ATTCAG AT
77877449 GATGATAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (6 bp):
ATTCAG
Found at i:77877788 original size:16 final size:16
Alignment explanation
Indices: 77877749--77877790 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
77877739 AAAATAACGA
*
77877749 TATAATTACACTTTGT
1 TATAATTACAATTTGT
*
77877765 TA-AATTACAATTTTT
1 TATAATTACAATTTGT
77877780 TATAATTACAA
1 TATAATTACAA
77877791 AAGAGTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (16 bp):
TATAATTACAATTTGT
Found at i:77878314 original size:11 final size:12
Alignment explanation
Indices: 77878299--77878349 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
77878289 TAAAATGACG
77878299 ATAATATATAAT
1 ATAATATATAAT
77878311 -TAATATA-AAT
1 ATAATATATAAT
*
77878321 ATAATATATTAT
1 ATAATATATAAT
* *
77878333 ATTATATTATATT
1 ATAATA-TATAAT
77878346 ATAA
1 ATAA
77878350 AAATGTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
10 3 0.10
11 14 0.45
12 7 0.23
13 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATAATATATAAT
Found at i:77883842 original size:20 final size:20
Alignment explanation
Indices: 77883816--77883883 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
77883806 TCGTACACAC
*
77883816 GCCCGTGTGTCTTGGGACAT
1 GCCCGTGTGGCTTGGGACAT
* *
77883836 GCTCGTGTGGCTTGGGACAC
1 GCCCGTGTGGCTTGGGACAT
77883856 GCCCGTGTGGCTTGGGACAT
1 GCCCGTGTGGCTTGGGACAT
77883876 GCCCGTGT
1 GCCCGTGT
77883884 CCTCAGCCCG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.09, C:0.26, G:0.38, T:0.26
Consensus pattern (20 bp):
GCCCGTGTGGCTTGGGACAT
Found at i:77885618 original size:45 final size:45
Alignment explanation
Indices: 77885568--77885657 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
77885558 CAAAACATGA
77885568 GTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
1 GTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
* *
77885613 GTCACATATATCATGAACTCAGATCACAACTCAATGAGTTCAGAT
1 GTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
77885658 TTCATAGTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.24
Consensus pattern (45 bp):
GTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
Found at i:77885655 original size:21 final size:21
Alignment explanation
Indices: 77885586--77885657 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
77885576 CATCATGAAC
*
77885586 TCAGACCACAACTCAATGAGT
1 TCAGATCACAACTCAATGAGT
* **
77885607 TCAGATGTCACATATATC-ATGAAC
1 TCAGA--TCACA-A-CTCAATGAGT
77885631 TCAGATCACAACTCAATGAGT
1 TCAGATCACAACTCAATGAGT
77885652 TCAGAT
1 TCAGAT
77885658 TTCATAGTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
20 2 0.05
21 16 0.41
22 5 0.13
23 4 0.10
24 10 0.26
25 2 0.05
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.25
Consensus pattern (21 bp):
TCAGATCACAACTCAATGAGT
Found at i:77889087 original size:27 final size:27
Alignment explanation
Indices: 77889025--77889087 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
77889015 AGTTTGACAG
* *
77889025 GACATTAAACACGGGATAGTCTGCCAG
1 GACATTAAAAACGGGATAGTCTGCCAA
* * *
77889052 GACGA-TAAAAATGGGGTTGTCTGCCAA
1 GAC-ATTAAAAACGGGATAGTCTGCCAA
77889079 GACATTAAA
1 GACATTAAA
77889088 TATCGAAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (27 bp):
GACATTAAAAACGGGATAGTCTGCCAA
Found at i:77895759 original size:139 final size:138
Alignment explanation
Indices: 77895396--77895778 Score: 626
Period size: 136 Copynumber: 2.8 Consensus size: 138
77895386 GAGAACATAG
* *
77895396 ATATAATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTTTT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* *
77895461 AATATAAACAGTTATATGAATTAATTTCGGTCAAAATATAAAAGACATAGAAATTAATATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATAGAAATTAATATGCTTT
* *
77895526 TGGAAAGA
131 TAGAAACA
* *
77895534 ATATAATTAATATATGAATTTGATTCATGC-AAA-ATTAATTGCATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * *
77895597 AATATAAATAGTTATATTAATTAATTTCGGTCAAAATATAAAATACATGGAAATTAATATGCTTT
66 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATAGAAATTAATATGCTTT
77895662 TAGAAACA
131 TAGAAACA
* *
77895670 ATATAATTTAATATATGAATTTGATTCATACAAAATATTAATTTTATATATTTTACTGAATTTAT
1 ATATAA-TTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
77895735 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAA
65 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAA
77895779 AGCATGAAGA
Statistics
Matches: 226, Mismatches: 16, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
136 100 0.44
137 26 0.12
138 31 0.14
139 69 0.31
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.41
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATAGAAATTAATATGCTTT
TAGAAACA
Found at i:77897845 original size:17 final size:17
Alignment explanation
Indices: 77897820--77897859 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
77897810 CTCAATTAAT
77897820 TTAAA-TAATTTCTCAA
1 TTAAATTAATTTCTCAA
77897836 TTAAATTAATTTCTCAA
1 TTAAATTAATTTCTCAA
*
77897853 TCAAATT
1 TTAAATT
77897860 CTAATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAATTAATTTCTCAA
Found at i:77901187 original size:27 final size:26
Alignment explanation
Indices: 77901170--77901239 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
77901160 ATATTAAGTC
77901170 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
77901197 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
77901225 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
77901240 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:77901233 original size:28 final size:28
Alignment explanation
Indices: 77901170--77901267 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
77901160 ATATTAAGTC
*
77901170 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
77901197 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
77901225 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
77901254 CGCACACTTAGTGC
1 CGCACACTTAGTGC
77901268 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:77901729 original size:12 final size:12
Alignment explanation
Indices: 77901712--77901737 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
77901702 TGGGCATACT
77901712 TATGTATATATA
1 TATGTATATATA
77901724 TATGTATATATA
1 TATGTATATATA
77901736 TA
1 TA
77901738 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:77904742 original size:17 final size:17
Alignment explanation
Indices: 77904720--77904773 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
77904710 TTAGGTACTA
77904720 TGTATCGATGTTTATAT
1 TGTATCGATGTTTATAT
*
77904737 TGTATC-A-G-ATACTA-
1 TGTATCGATGTTTA-TAT
77904751 TGTATCGATGTTTATAT
1 TGTATCGATGTTTATAT
*
77904768 TATATC
1 TGTATC
77904774 AGGTACTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
14 8 0.28
15 4 0.14
16 4 0.14
17 13 0.45
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (17 bp):
TGTATCGATGTTTATAT
Found at i:77904750 original size:31 final size:31
Alignment explanation
Indices: 77904715--77904785 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
77904705 AAGTATTAGG
*
77904715 TACTATGTATCGATGTTTATATTGTATCAGA
1 TACTATGTATCGATGTTTATATTATATCAGA
*
77904746 TACTATGTATCGATGTTTATATTATATCAGG
1 TACTATGTATCGATGTTTATATTATATCAGA
77904777 TACTATGTA
1 TACTATGTA
77904786 CTGGTGTTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (31 bp):
TACTATGTATCGATGTTTATATTATATCAGA
Found at i:77907285 original size:39 final size:40
Alignment explanation
Indices: 77907185--77907408 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
77907175 TTGAATGATG
*
77907185 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
77907224 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
77907265 TTCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
77907304 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
77907343 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
77907382 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
77907409 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
39 71 0.44
40 76 0.47
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:77907359 original size:79 final size:81
Alignment explanation
Indices: 77907185--77907408 Score: 264
Period size: 79 Copynumber: 2.8 Consensus size: 81
77907175 TTGAATGATG
* * *
77907185 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
77907247 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
* *
77907265 TTCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
* *
77907327 TGTGCGAGTTATTAAA
66 TGTGCGAGATACTAAA
* * * * *
77907343 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
77907407 TG
66 TG
77907409 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 35 0.28
79 53 0.43
80 35 0.28
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:77907430 original size:79 final size:79
Alignment explanation
Indices: 77907185--77907441 Score: 197
Period size: 79 Copynumber: 3.3 Consensus size: 79
77907175 TTGAATGATG
* * * * *
77907185 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
77907247 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* * *
77907265 TTCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** * *
77907329 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * *
77907343 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
77907407 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
77907423 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
77907442 TACGTGATTT
Statistics
Matches: 148, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
77 1 0.01
78 34 0.23
79 67 0.45
80 45 0.30
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:77915148 original size:40 final size:39
Alignment explanation
Indices: 77915064--77915248 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 39
77915054 TTGAATGATG
* *
77915064 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAA-A
* * * *
77915104 TCCGGACTAAGATCCGAAGCCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
77915144 TCCGGGCTAAGCCCAAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
77915183 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
77915224 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
77915249 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 32 0.26
40 77 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:77915270 original size:79 final size:79
Alignment explanation
Indices: 77915117--77915281 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
77915107 GGACTAAGAT
* * ** * *
77915117 CCGAAGCCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCAAAGGCATTTGTGCGAGTTATTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTGACTAA
*
77915182 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
77915196 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACGAGTGA-C
* *
77915259 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
77915275 CCGAAGG
1 CCGAAGG
77915282 TACGTGATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:77917188 original size:28 final size:28
Alignment explanation
Indices: 77917148--77917206 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
77917138 GAAGCAGTTA
* *
77917148 GGCCTGATGGGCCATATGAATGTGATTG
1 GGCCTGATGGGCCATATGAACGAGATTG
*
77917176 GGCCTGATGGGCCATGTGAACGAGATTG
1 GGCCTGATGGGCCATATGAACGAGATTG
77917204 GGC
1 GGC
77917207 TTAAAGGGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (28 bp):
GGCCTGATGGGCCATATGAACGAGATTG
Found at i:77917552 original size:27 final size:27
Alignment explanation
Indices: 77917522--77917888 Score: 382
Period size: 27 Copynumber: 13.6 Consensus size: 27
77917512 CGTAAAAAGG
* * * *
77917522 AAAATTACCAAAATACCCCCGGTTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* * * *
77917549 AAAATTACCTAAATACCCCCAATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* * * *
77917576 AAAATTACCAAAAAACCCTTGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
*
77917603 AAAATCATCGAAATACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* * * *
77917630 GAAATTACCAAAACACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* *
77917657 AAAATTATCGAAACACCCTTGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* *
77917684 AAAATTACCGAAAAACCCT-GATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* *
77917710 GAAATTATCGAAACACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* * * *
77917737 AAAATTATTGAAACACCCTTGATTTAT
1 AAAATTATCGAAATACCCTCGATTTGT
*
77917764 AAAATTA-CAGAAATACCCTCTATTTGT
1 AAAATTATC-GAAATACCCTCGATTTGT
77917791 AAAATTATCGAAATACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
*
77917818 AAAATTATCGAAACACCC-CTGATTTGT
1 AAAATTATCGAAATACCCTC-GATTTGT
* * *
77917845 AAAATTATCGAAATACCTTTG-TAGTGT
1 AAAATTATCGAAATACCCTCGAT-TTGT
*
77917872 AAAATTATCAAAATACC
1 AAAATTATCGAAATACC
77917889 ATTGTAGTGT
Statistics
Matches: 291, Mismatches: 43, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
26 25 0.09
27 265 0.91
28 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGATTTGT
Found at i:77917655 original size:81 final size:81
Alignment explanation
Indices: 77917522--77917861 Score: 441
Period size: 81 Copynumber: 4.2 Consensus size: 81
77917512 CGTAAAAAGG
* * * * * * * * * *
77917522 AAAATTACCAAAATACCCCCGGTTTGTAAAATTACCTAAATACCCCCAATTTGTAAAATTACCAA
1 AAAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGA
*
77917587 AAAACCCTTGATTTGT
66 AACACCCTTGATTTGT
* * *
77917603 AAAATCATCGAAATACCCTCGATTTGTGAAATTACCAAAACACCCTCGATTTGTAAAATTATCGA
1 AAAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGA
77917668 AACACCCTTGATTTGT
66 AACACCCTTGATTTGT
* * * * *
77917684 AAAATTACCGAAAAACCCT-GATTTGTGAAATTATCGAAACACCCTCGATTTGTAAAATTATTGA
1 AAAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGA
*
77917748 AACACCCTTGATTTAT
66 AACACCCTTGATTTGT
* * *
77917764 AAAATTA-CAGAAATACCCTCTATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCG
1 AAAATTATC-GAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCG
*
77917828 AAACACCCCTGATTTGT
65 AAACACCCTTGATTTGT
77917845 AAAATTATCGAAATACC
1 AAAATTATCGAAATACC
77917862 TTTGTAGTGT
Statistics
Matches: 229, Mismatches: 27, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
79 1 0.00
80 73 0.32
81 154 0.67
82 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (81 bp):
AAAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGA
AACACCCTTGATTTGT
Found at i:77917893 original size:27 final size:27
Alignment explanation
Indices: 77917842--77917903 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
77917832 ACCCCTGATT
* *
77917842 TGTAAAATTATCGAAATACCTTTGTAG
1 TGTAAAATTATCAAAATACCATTGTAG
77917869 TGTAAAATTATCAAAATACCATTGTAG
1 TGTAAAATTATCAAAATACCATTGTAG
77917896 TGTAAAAT
1 TGTAAAAT
77917904 GACCGACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (27 bp):
TGTAAAATTATCAAAATACCATTGTAG
Found at i:77917900 original size:54 final size:54
Alignment explanation
Indices: 77917654--77917930 Score: 167
Period size: 54 Copynumber: 5.1 Consensus size: 54
77917644 ACCCTCGATT
* * * * *
77917654 TGTAAAATTATCGAAACACC-CTTGATTTGTAAAATTACCGAAAAACCC-TG-ATT
1 TGTAAAATTATCAAAACACCAC-TGATGTGTAAAATTATCGAAATACCCTTGTA-G
* * * * * *
77917707 TGTGAAATTATCGAAACACC-CTCGATTTGTAAAATTATTGAAACACCCTTG-ATT
1 TGTAAAATTATCAAAACACCACT-GATGTGTAAAATTATCGAAATACCCTTGTA-G
* * * * * *
77917761 TATAAAATTA-CAGAAATACC-CTCTATTTGTAAAATTATCGAAATACCCTCG-ATT
1 TGTAAAATTATCA-AAACACCACT-GATGTGTAAAATTATCGAAATACCCTTGTA-G
* * * *
77917815 TGTAAAATTATCGAAACACCCCTGATTTGTAAAATTATCGAAATACCTTTGTAG
1 TGTAAAATTATCAAAACACCACTGATGTGTAAAATTATCGAAATACCCTTGTAG
* * * * * *
77917869 TGTAAAATTATCAAAATACCATTG-TAGTGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATTATCAAAACACCACTGAT-GTGTAAAATTATCGAAATACCCTTGTAG
*
77917923 GGTAAAAT
1 TGTAAAAT
77917931 GACTGTTTGC
Statistics
Matches: 187, Mismatches: 30, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
53 44 0.24
54 138 0.74
55 4 0.02
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (54 bp):
TGTAAAATTATCAAAACACCACTGATGTGTAAAATTATCGAAATACCCTTGTAG
Found at i:77917914 original size:27 final size:27
Alignment explanation
Indices: 77917842--77917933 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 27
77917832 ACCCCTGATT
* * *
77917842 TGTAAAATTATCGAAATACCTTTGTAG
1 TGTAAAATGACCGAAATACCATTGTAG
* * *
77917869 TGTAAAATTATCAAAATACCATTGTAG
1 TGTAAAATGACCGAAATACCATTGTAG
* **
77917896 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATGACCGAAATACCATTGTAG
*
77917923 GGTAAAATGAC
1 TGTAAAATGAC
77917934 TGTTTGCCCT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.29
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCATTGTAG
Found at i:77918508 original size:27 final size:27
Alignment explanation
Indices: 77918441--77918508 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
77918431 TGAGGCTAAG
* * *
77918441 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATTCTGTA
* *
77918467 ATGGGCTGTGACCCAAATGATAT-TGTA
1 ATGGGCTTTGGCCCAAATGAT-TCTGTA
77918494 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
77918509 CGTATGCTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 26 0.79
28 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATTCTGTA
Found at i:77926605 original size:42 final size:42
Alignment explanation
Indices: 77926494--77926613 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 42
77926484 TACCGTACCA
* * **
77926494 ATGCCATATCTTAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCTAGATATGGTCTTACACGTAATCTAATATCG
* *
77926536 ATGCCAATAGCCTAGCTATGGTCTTACACG-AAGTCTAATATCG
1 ATGCC-ATATCCTAGATATGGTCTTACACGTAA-TCTAATATCG
*
77926579 ATGCCATATCCTAGATATGGTCTTACAAGTAATCT
1 ATGCCATATCCTAGATATGGTCTTACACGTAATCT
77926614 TAGTAACCCT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGTAATCTAATATCG
Found at i:77929472 original size:4 final size:4
Alignment explanation
Indices: 77929463--77929489 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
77929453 TTTAGTTTAG
77929463 CTTT CTTT CTTT CTTT CTTT CTTT CTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTT
77929490 ATGGTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:77946972 original size:14 final size:14
Alignment explanation
Indices: 77946949--77946983 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
77946939 GGGCATGGTT
*
77946949 GTGTGATGGTGTGA
1 GTGTGGTGGTGTGA
77946963 GTGTGGTGGTGTGA
1 GTGTGGTGGTGTGA
*
77946977 GTTTGGT
1 GTGTGGT
77946984 CGTCTAGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.09, C:0.00, G:0.51, T:0.40
Consensus pattern (14 bp):
GTGTGGTGGTGTGA
Found at i:77947054 original size:18 final size:17
Alignment explanation
Indices: 77947018--77947071 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
77947008 AAATTGGGCT
77947018 TGTAGGCCACACGAGCA
1 TGTAGGCCACACGAGCA
77947035 TGTAGGCCCACACG-GACA
1 TGTAGG-CCACACGAG-CA
77947053 TGT----CACACGAGCA
1 TGTAGGCCACACGAGCA
77947066 TGTAGG
1 TGTAGG
77947072 TTTTAGGCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 13
0.70 0.00 0.30
Matches are distributed among these distances:
13 11 0.35
14 1 0.03
17 7 0.23
18 12 0.39
ACGTcount: A:0.28, C:0.28, G:0.30, T:0.15
Consensus pattern (17 bp):
TGTAGGCCACACGAGCA
Found at i:77951323 original size:27 final size:27
Alignment explanation
Indices: 77951293--77951483 Score: 121
Period size: 27 Copynumber: 6.9 Consensus size: 27
77951283 GTCAAATTGT
* *
77951293 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTTGATTTAC
*** *
77951320 AAAATTACCGTTTTACCCTTGATTTAT
1 AAAATTACCAAATTACCCTTGATTTAC
* *** *
77951347 AGAATTACCGTTTTACCCTTAATTTAC
1 AAAATTACCAAATTACCCTTGATTTAC
* **** * *
77951374 AGAATTACTGTTTTACCATCGATTTAC
1 AAAATTACCAAATTACCCTTGATTTAC
* * *
77951401 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAATTACCCTTGATTTAC
*
77951428 AAAATTACCAAAATACCCTTGATCAGTGTTTAC
1 AAAATTACCAAATTACCCTTG---A---TTTAC
*
77951461 AAAATTACCAAAATACCCTTGAT
1 AAAATTACCAAATTACCCTTGAT
77951484 CAGTAAAATT
Statistics
Matches: 135, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
27 108 0.80
30 1 0.01
33 26 0.19
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.35
Consensus pattern (27 bp):
AAAATTACCAAATTACCCTTGATTTAC
Found at i:77951353 original size:54 final size:54
Alignment explanation
Indices: 77951293--77951436 Score: 153
Period size: 54 Copynumber: 2.7 Consensus size: 54
77951283 GTCAAATTGT
* * * * *
77951293 AAAATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTAT
1 AAAATTACCAAAATACCCTTGATTTACAAAATTACCGTTTTACCATCGATTTAC
* **** * * *
77951347 AGAATTACCGTTTTACCCTTAATTTACAGAATTACTGTTTTACCATCGATTTAC
1 AAAATTACCAAAATACCCTTGATTTACAAAATTACCGTTTTACCATCGATTTAC
* *
77951401 AAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 AAAATTACCAAAATACCCTTGATTTACAAAATTACC
77951437 AAAATACCCT
Statistics
Matches: 68, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGATTTACAAAATTACCGTTTTACCATCGATTTAC
Found at i:77951460 original size:33 final size:33
Alignment explanation
Indices: 77951396--77951487 Score: 133
Period size: 33 Copynumber: 3.0 Consensus size: 33
77951386 TTACCATCGA
*
77951396 TTTACAAAATTACTAAAATACCC-T--T--G-G
1 TTTACAAAATTACCAAAATACCCTTGATCAGTG
77951423 TTTACAAAATTACCAAAATACCCTTGATCAGTG
1 TTTACAAAATTACCAAAATACCCTTGATCAGTG
77951456 TTTACAAAATTACCAAAATACCCTTGATCAGT
1 TTTACAAAATTACCAAAATACCCTTGATCAGT
77951488 AAAATTACCA
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
27 22 0.38
28 1 0.02
30 1 0.02
32 1 0.02
33 33 0.57
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (33 bp):
TTTACAAAATTACCAAAATACCCTTGATCAGTG
Found at i:77951491 original size:27 final size:27
Alignment explanation
Indices: 77951401--77951725 Score: 194
Period size: 27 Copynumber: 11.8 Consensus size: 27
77951391 ATCGATTTAC
* * **
77951401 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGATTTGT
*
77951428 AAAATTACCAAAATACCCTTGATCAGTGTTT
1 AAAATTACCAAAATACCCTTGAT---T-TGT
**
77951459 ACAAAATTACCAAAATACCCTTGATCAGT
1 --AAAATTACCAAAATACCCTTGATTTGT
* * *
77951488 AAAATTACCAAAATA-CCGTGGTCTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* * *
77951514 AAAATTGCTAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTGT
*
77951541 AAAATTACCAAAATACCAC-TGGTTTGT
1 AAAATTACCAAAATACC-CTTGATTTGT
* **
77951568 GAAATTACCAAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* **
77951595 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGATTTGT
* *
77951622 AAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCA-AAATACCCTTGA-TTTGT
* * * **
77951650 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACCA-AAATACCCTTGATTTGT
** *
77951678 AAAATTACTGAAATAGCCTT-AGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTGT
* * *
77951705 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
77951726 TAGGACGAAA
Statistics
Matches: 231, Mismatches: 50, Indels: 33
0.74 0.16 0.11
Matches are distributed among these distances:
26 24 0.10
27 155 0.67
28 8 0.03
29 19 0.08
30 1 0.00
31 1 0.00
33 23 0.10
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTGT
Found at i:77951638 original size:81 final size:80
Alignment explanation
Indices: 77951461--77951618 Score: 185
Period size: 80 Copynumber: 2.0 Consensus size: 80
77951451 CAGTGTTTAC
* ** * * ** * *
77951461 AAAATTACCAAAATACC-CTTGATCAGTAAAATTACCAAAATACCGTGGTCTGTAAAATTGCTAA
1 AAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCAAAATACCCTAATCTGTAAAATTACCAA
*
77951525 AATACCCCTAGTTTGT
65 AATACCCCTAGATTGT
*
77951541 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCAAAATACCCT-AATCTGTAAAATTACCAA
77951606 AATACCCCT-GATT
65 AATACCCCTAGATT
77951619 TACAAAGTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 42 0.65
81 23 0.35
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.28
Consensus pattern (80 bp):
AAAATTACCAAAATACCACTGGTTTGTGAAATTACCAAAATACCCTAATCTGTAAAATTACCAAA
ATACCCCTAGATTGT
Found at i:77951786 original size:27 final size:27
Alignment explanation
Indices: 77951743--77951808 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
77951733 AAATGACTAA
*
77951743 AATACCCCTATTA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
77951770 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
77951797 AATACCCCTGTA
1 AATACCCCTGTA
77951809 TCGTAAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 3 0.09
27 29 0.88
28 1 0.03
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:77951814 original size:27 final size:27
Alignment explanation
Indices: 77951764--77951815 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
77951754 TAGGTAAAAA
*
77951764 GACCGTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGCGTAAAGT
*
77951791 GACCGTAATA-CCCCTGTATCGTAAA
1 GACCGTAA-AGCCCCTGTAGCGTAAA
77951816 ATGATGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (27 bp):
GACCGTAAAGCCCCTGTAGCGTAAAGT
Found at i:77953057 original size:31 final size:31
Alignment explanation
Indices: 77953014--77953088 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
77953004 ACGATTACTG
77953014 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* * *
77953045 GGCCAAAGCCTTTTCATAAATCATTTCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
77953076 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
77953089 ACTGTAAACG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:77953161 original size:42 final size:42
Alignment explanation
Indices: 77953114--77953203 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
77953104 GCCTATAGTT
* ** *
77953114 CCATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGC
1 CCATTTCAATATCACATGAAATACCAATGAATGTATGCAAGC
*
77953156 CCATTTTAATATCACATGAAATACCAATGAATGTATGCAAGC
1 CCATTTCAATATCACATGAAATACCAATGAATGTATGCAAGC
77953198 CCATTT
1 CCATTT
77953204 GGGGAGACTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (42 bp):
CCATTTCAATATCACATGAAATACCAATGAATGTATGCAAGC
Found at i:77953393 original size:26 final size:26
Alignment explanation
Indices: 77953338--77953497 Score: 225
Period size: 26 Copynumber: 6.2 Consensus size: 26
77953328 GGAGGCCTAG
**
77953338 CCTTTTCAATAAA-TGGGGCA-AAGC
1 CCTTTTCGGTAAACTGGGGCATAAGC
77953362 CCTTTTCGGTAAACTGGGGCATAAGC
1 CCTTTTCGGTAAACTGGGGCATAAGC
* **
77953388 CATTTTCAATAAACTGGGGCATAAGC
1 CCTTTTCGGTAAACTGGGGCATAAGC
*
77953414 CTTTTTCGGTAAACTGGGGCATAAGC
1 CCTTTTCGGTAAACTGGGGCATAAGC
**
77953440 CCTTTTCAATAAACTGGGGCATAAGC
1 CCTTTTCGGTAAACTGGGGCATAAGC
*
77953466 CCTTTTCGGTAAACTAGGGCATAAGC
1 CCTTTTCGGTAAACTGGGGCATAAGC
77953492 CCTTTT
1 CCTTTT
77953498 GCACTTCCTC
Statistics
Matches: 120, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
24 11 0.09
25 7 0.06
26 102 0.85
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
CCTTTTCGGTAAACTGGGGCATAAGC
Found at i:77953423 original size:52 final size:52
Alignment explanation
Indices: 77953338--77953497 Score: 279
Period size: 52 Copynumber: 3.1 Consensus size: 52
77953328 GGAGGCCTAG
77953338 CCTTTTCAATAAA-TGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
* *
77953388 CATTTTCAATAAACTGGGGCATAAGCCTTTTTCGGTAAACTGGGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
*
77953440 CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
77953492 CCTTTT
1 CCTTTT
77953498 GCACTTCCTC
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
50 12 0.12
51 7 0.07
52 84 0.82
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (52 bp):
CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
Found at i:77954330 original size:27 final size:27
Alignment explanation
Indices: 77954300--77954377 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
77954290 GGGCATATTC
* *
77954300 GTCATTTTACCATATAGGGGTATCACG
1 GTCACTTTACCCTATAGGGGTATCACG
* * *
77954327 GTCACTTTACCCTACA-GGGTCTTTACG
1 GTCACTTTACCCTATAGGGGT-ATCACG
77954354 GTCACTTTACCCTAATAGGGGTAT
1 GTCACTTTACCCT-ATAGGGGTAT
77954378 TTTAGTCATT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
26 4 0.10
27 30 0.73
28 3 0.07
29 4 0.10
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (27 bp):
GTCACTTTACCCTATAGGGGTATCACG
Found at i:77954449 original size:27 final size:27
Alignment explanation
Indices: 77954417--77954634 Score: 161
Period size: 27 Copynumber: 8.0 Consensus size: 27
77954407 TGGTAAATCA
*
77954417 ACAAACCAAAGGTATTTCAGTAATTTT
1 ACAAACCAAGGGTATTTCAGTAATTTT
** *
77954444 GTAAACCAATGGTATTTCTA-TAATTTTT
1 ACAAACCAAGGGTATTTC-AGTAA-TTTT
* * *
77954472 AGAAAGTCAAGGGTATTTCTA-TAACTTT
1 ACAAA-CCAAGGGTATTTC-AGTAATTTT
** * * **
77954500 GTAAATCAGGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCAGTAATTTT
*** *
77954527 ACAAATTGAGGGTATTTCGGTAATTTT
1 ACAAACCAAGGGTATTTCAGTAATTTT
** *
77954554 ACAAACCAAGGGTATTTTGGTAAATTT
1 ACAAACCAAGGGTATTTCAGTAATTTT
* * **
77954581 ACAAACTAGGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCAGTAATTTT
*
77954608 ACAAACCAAGGGTATTTTAGTAATTTT
1 ACAAACCAAGGGTATTTCAGTAATTTT
77954635 GTAAATCGAG
Statistics
Matches: 156, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
27 126 0.81
28 14 0.09
29 16 0.10
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
ACAAACCAAGGGTATTTCAGTAATTTT
Found at i:77954567 original size:54 final size:54
Alignment explanation
Indices: 77954509--77954648 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 54
77954499 TGTAAATCAG
77954509 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAA
* * *
77954563 GGGTATTTTGGTAAATTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTTACAAACCAA
* ** *
77954617 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
77954649 AAATAGTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 73 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAA
Found at i:77954620 original size:81 final size:82
Alignment explanation
Indices: 77954396--77954634 Score: 216
Period size: 81 Copynumber: 2.9 Consensus size: 82
77954386 TTTCATCCTA
* ** * ** ** ** *
77954396 CAAGGGTGTTTTGGTAAATCAACAAACCAAAGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* *
77954461 CTA-TAATTTTTAGAAAGT
66 C-AGTAA-TTTTACAAAGC
* * ** ***
77954479 CAAGGGTATTTCT-ATAACTTTGTAAA-TCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTAT
1 CAAGGGTATTT-TGGTAAATTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTAT
*
77954542 TTCGGTAATTTTACAAA-C
64 TTCAGTAATTTTACAAAGC
77954560 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
77954625 TAGTAATTTT
66 CAGTAATTTT
77954635 GTAAATCGAG
Statistics
Matches: 121, Mismatches: 30, Indels: 12
0.74 0.18 0.07
Matches are distributed among these distances:
80 1 0.01
81 62 0.51
82 9 0.07
83 48 0.40
84 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (82 bp):
CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
CAGTAATTTTACAAAGC
Found at i:77954675 original size:81 final size:81
Alignment explanation
Indices: 77954497--77954675 Score: 189
Period size: 81 Copynumber: 2.2 Consensus size: 81
77954487 TTTCTATAAC
*** *
77954497 TTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCA
1 TTTGTAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACCA
*** *
77954562 AGGGTATTTTGGTAAA
66 AGGGTAAAATAGTAAA
** * ** *
77954578 TTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATC
1 TTTGTAAATC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACC
* *
77954642 GAGGGTAAAATAGTAAT
65 AAGGGTAAAATAGTAAA
*
77954659 TTTGTAAATCAAGGGTA
1 TTTGTAAATCAGGGGTA
77954676 AAACAGTAAT
Statistics
Matches: 77, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
80 1 0.01
81 75 0.97
82 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (81 bp):
TTTGTAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACCA
AGGGTAAAATAGTAAA
Found at i:77954701 original size:81 final size:81
Alignment explanation
Indices: 77954626--77954810 Score: 246
Period size: 81 Copynumber: 2.3 Consensus size: 81
77954616 AGGGTATTTT
* * *
77954626 AGTAATTTTGTAAATCGAGGGTAAAATAG-TAATTTTGTAAATCAAGGGTAAAACAGTAATTCTA
1 AGTAATTCTGTAAATCGAGGGTAAAA-AGATAATTATGTAAATCAAGGGTAAAACAGTAATTATA
*
77954690 TAAATTGAGGGTAAAAC
65 TAAATCGAGGGTAAAAC
* * * * ** *
77954707 GGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAATGGTAATTATGT
1 AGTAATTCTGTAAATCGAGGGTAAAAAGATAATTATGTAAATCAAGGGTAAAACAGTAATTATAT
*
77954772 AAATCGGGGGTAAAAC
66 AAATCGAGGGTAAAAC
77954788 AGTAATTCTGTAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
77954811 CTTTGGTAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 1 0.01
81 88 0.99
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (81 bp):
AGTAATTCTGTAAATCGAGGGTAAAAAGATAATTATGTAAATCAAGGGTAAAACAGTAATTATAT
AAATCGAGGGTAAAAC
Found at i:77954821 original size:54 final size:54
Alignment explanation
Indices: 77954626--77954810 Score: 239
Period size: 54 Copynumber: 3.4 Consensus size: 54
77954616 AGGGTATTTT
* * * *
77954626 AGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAATGGTAATTATGTAAATCGAGGGTAAAAC
* * * * *
77954680 AGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAATGGTAATTATGTAAATCGAGGGTAAAAC
* *
77954734 -GATAATTATGTAAATC-AGGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAATGGTAATTATGTAAATCGAGGGTAAAAC
77954788 AGTAATTCTGTAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
77954811 CTTTGGTAAT
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.02
54 107 0.96
55 2 0.02
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (54 bp):
AGTAATTCTGTAAATCGAGGGTAAAATGGTAATTATGTAAATCGAGGGTAAAAC
Found at i:77954878 original size:27 final size:27
Alignment explanation
Indices: 77954427--77954904 Score: 139
Period size: 27 Copynumber: 17.7 Consensus size: 27
77954417 ACAAACCAAA
** * * *
77954427 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTCAGTAATTTTACAAATCGAG
* *
77954454 GGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTTC-AGTAA-TTTTACAAA-TCGAG
* **
77954483 GGTATTTCTA-TAACTTTGTAAATC-AGG
1 GGTATTTC-AGTAATTTTACAAATCGA-G
** *
77954510 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* * *
77954537 GGTATTTCGGTAATTTTACAAACCAAG
1 GGTATTTCAGTAATTTTACAAATCGAG
** * *
77954564 GGTATTTTGGTAAATTTACAAA-CTAGG
1 GGTATTTCAGTAATTTTACAAATCGA-G
** * *
77954591 GGTATTTTGGTAATTTTACAAACCAAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* **
77954618 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
** ** *
77954645 GGTAAAAT-AGTAATTTTGTAAATCAAG
1 GGT-ATTTCAGTAATTTTACAAATCGAG
*** * * *
77954672 GGTAAAACAGTAATTCTATAAATTGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
*** * * ** *
77954699 GGTAAAACGGTAATTCTGTAAGTCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
*** * **
77954726 GGTAAAAC-GATAATTATGTAAATC-AGG
1 GGTATTTCAG-TAATTTTACAAATCGA-G
** * * ** *
77954753 GGTAAAAT-GGTAATTATGTAAATCGGG
1 GGT-ATTTCAGTAATTTTACAAATCGAG
*** * **
77954780 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* * *
77954807 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCAGTAATTTTACAAATCGAG
77954834 GGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* * *
77954861 GGTATTTCAGTATTTTTACAACT-AAG
1 GGTATTTCAGTAATTTTACAAATCGAG
*
77954887 GGTATTTCGGTAATTTTA
1 GGTATTTCAGTAATTTTA
77954905 GTAAACTAAA
Statistics
Matches: 369, Mismatches: 64, Indels: 37
0.79 0.14 0.08
Matches are distributed among these distances:
26 32 0.09
27 298 0.81
28 23 0.06
29 16 0.04
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAG
Found at i:77956458 original size:42 final size:42
Alignment explanation
Indices: 77956411--77956502 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
77956401 TAGTCTCCCC
* ** *
77956411 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
77956453 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
77956495 AAATGGGC
1 AAATGGGC
77956503 CTAAGGCCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:77956628 original size:31 final size:31
Alignment explanation
Indices: 77956525--77956630 Score: 169
Period size: 31 Copynumber: 3.4 Consensus size: 31
77956515 CGTTTACAGT
*
77956525 AAAGGCTTCAGCCCAA-TGATATGATTTATGA
1 AAAGGCTTC-GGCCAAGTGATATGATTTATGA
*
77956556 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAAGTGATATGATTTATGA
*
77956587 AAAGGCTTCGGCCAAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCAAGTGATATGATTTATGA
77956618 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
77956631 TAGTAACCGT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
30 4 0.06
31 66 0.94
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCAAGTGATATGATTTATGA
Found at i:77958176 original size:27 final size:27
Alignment explanation
Indices: 77958146--77958323 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
77958136 ATATTGAGTC
* * * *
77958146 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
77958173 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
77958200 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
77958228 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
77958255 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
77958282 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
77958309 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
77958324 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:77958285 original size:82 final size:81
Alignment explanation
Indices: 77958167--77958322 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
77958157 TGCTATATAA
* *
77958167 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
77958232 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
77958249 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
77958313 CACTTAGTGC
65 CACTTAGTGC
77958323 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:77960875 original size:26 final size:26
Alignment explanation
Indices: 77960842--77960892 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
77960832 AACATATTTT
77960842 ATCAAAATTTTA-TCAGGTGTAAAATC
1 ATCAAAATTTTACTCAGG-GTAAAATC
*
77960868 ATCAAAATTTTACTGAGGGTAAAAT
1 ATCAAAATTTTACTCAGGGTAAAAT
77960893 AAGGATGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (26 bp):
ATCAAAATTTTACTCAGGGTAAAATC
Found at i:77967903 original size:26 final size:26
Alignment explanation
Indices: 77967874--77967931 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
77967864 AAATAAGTAG
77967874 TTAATGGAACCAGTTGGTCAAATCAA
1 TTAATGGAACCAGTTGGTCAAATCAA
*
77967900 TTAATGGAACCAGTTGGTCAAATTAA
1 TTAATGGAACCAGTTGGTCAAATCAA
77967926 TTAATG
1 TTAATG
77967932 AAATCAAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (26 bp):
TTAATGGAACCAGTTGGTCAAATCAA
Found at i:77982992 original size:27 final size:27
Alignment explanation
Indices: 77982946--77983054 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 27
77982936 CATGGCTGCT
* *
77982946 AGAACAGATA-ATGTGACAGAGTCACC
1 AGAACAGATATATGTGGCAGAGCCACC
*
77982972 AGAACAGGT-TATTGTGGCAGAGCCACC
1 AGAACAGATATA-TGTGGCAGAGCCACC
77982999 AGAACAGATATATGTGGCAGAGCCACC
1 AGAACAGATATATGTGGCAGAGCCACC
* * *
77983026 AGATCAGATAAATGTGGCATAGCCACC
1 AGAACAGATATATGTGGCAGAGCCACC
77983053 AG
1 AG
77983055 GAGGCTTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 9 0.12
27 62 0.85
28 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.17
Consensus pattern (27 bp):
AGAACAGATATATGTGGCAGAGCCACC
Found at i:77984461 original size:25 final size:25
Alignment explanation
Indices: 77984439--77984495 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
77984429 AACTCTTCCT
77984439 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCAGCTCCTAAATCTTCTCC
77984465 CCTTATCAGCTCCTAAATCTTCT-C
1 CCTTATCAGCTCCTAAATCTTCTCC
77984489 CCTTATC
1 CCTTATC
77984496 CCCTCCTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 8 0.26
25 19 0.61
26 4 0.13
ACGTcount: A:0.19, C:0.39, G:0.05, T:0.37
Consensus pattern (25 bp):
CCTTATCAGCTCCTAAATCTTCTCC
Found at i:77984501 original size:24 final size:25
Alignment explanation
Indices: 77984439--77984502 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
77984429 AACTCTTCCT
*
77984439 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCACCTCCTAAATCTTCTCC
*
77984465 CCTTATCAGCTCCTAAATCTTCT-C
1 CCTTATCACCTCCTAAATCTTCTCC
*
77984489 CCTTATCCCCTCCT
1 CCTTATCACCTCCT
77984503 TACTCAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 13 0.36
25 19 0.53
26 4 0.11
ACGTcount: A:0.17, C:0.42, G:0.05, T:0.36
Consensus pattern (25 bp):
CCTTATCACCTCCTAAATCTTCTCC
Found at i:77989842 original size:17 final size:17
Alignment explanation
Indices: 77989822--77989855 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
77989812 TTTTTTTTAA
77989822 ATTTTGTTTTTGAAAAT
1 ATTTTGTTTTTGAAAAT
* *
77989839 ATTTTTTTTTTGTAAAT
1 ATTTTGTTTTTGAAAAT
77989856 CCATTCTACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (17 bp):
ATTTTGTTTTTGAAAAT
Found at i:77990851 original size:26 final size:26
Alignment explanation
Indices: 77990815--77990925 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
77990805 AGCATGGCTG
* * *
77990815 CCAGAACAGATAATGTGACAAAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
77990841 CCAGAACAGATAATTATGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
*
77990868 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
77990895 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
77990922 CCAG
1 CCAG
77990926 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 13 0.18
27 58 0.79
28 2 0.03
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:77992239 original size:25 final size:23
Alignment explanation
Indices: 77992211--77992274 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 23
77992201 GCTGACCAAC
77992211 TCTTGCTCCTTGATCAGCTCCTAAA
1 TCTT-CTCCTT-ATCAGCTCCTAAA
77992236 TCTTCTCCCCTTATCAGCTCCTAAA
1 TCTTCT--CCTTATCAGCTCCTAAA
77992261 TCTTCTCCCTTATC
1 TCTTCT-CCTTATC
77992275 CCCTCCTTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.27
25 23 0.62
26 4 0.11
ACGTcount: A:0.17, C:0.38, G:0.06, T:0.39
Consensus pattern (23 bp):
TCTTCTCCTTATCAGCTCCTAAA
Found at i:77992280 original size:24 final size:25
Alignment explanation
Indices: 77992218--77992281 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
77992208 AACTCTTGCT
*
77992218 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCACCTCCTAAATCTTCTCC
*
77992244 CCTTATCAGCTCCTAAATCTTCT-C
1 CCTTATCACCTCCTAAATCTTCTCC
*
77992268 CCTTATCCCCTCCT
1 CCTTATCACCTCCT
77992282 TACTCAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 13 0.36
25 19 0.53
26 4 0.11
ACGTcount: A:0.17, C:0.42, G:0.05, T:0.36
Consensus pattern (25 bp):
CCTTATCACCTCCTAAATCTTCTCC
Found at i:77993779 original size:15 final size:15
Alignment explanation
Indices: 77993732--77993787 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
77993722 TAAGAAAATT
77993732 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
77993747 -AGATAGAA-AAACCCA
1 GA-ATA-AAGAAATCCA
77993762 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
77993777 GAATAACGAAA
1 GAATAAAGAAA
77993788 CCCAAGATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 3 0.09
15 28 0.82
16 3 0.09
ACGTcount: A:0.61, C:0.14, G:0.14, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:77996855 original size:49 final size:49
Alignment explanation
Indices: 77996788--77996984 Score: 198
Period size: 50 Copynumber: 4.0 Consensus size: 49
77996778 GTAGACAAGG
* * * *
77996788 TTATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
77996837 TTATCCGGTACACGTAGTAGCCTGCACTTAGTCCTACACACGTGACCTAA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
** * * * *
77996887 CCA-CCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCC-GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * *
77996937 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGACC
1 -TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
77996985 TCACAATAGA
Statistics
Matches: 121, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 42 0.35
50 43 0.36
51 35 0.29
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:77996985 original size:101 final size:99
Alignment explanation
Indices: 77996802--77996985 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 99
77996792 CTGGTACGCA
* *
77996802 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
77996867 GTCCTACACACGTGACCTAACCACCTGATACACG
66 GTACTACACACGCGACCTAACCACCTGATACACG
* * * * *
77996901 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACATAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* *
77996966 TAGTATTACACATGCGACCT
64 TAGTACTACACACGCGACCT
77996986 CACAATAGAC
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 28 0.39
100 3 0.04
101 41 0.57
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (99 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCACCTGATACACG
Found at i:77999815 original size:27 final size:29
Alignment explanation
Indices: 77999761--77999817 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
77999751 ACACATTTAA
*
77999761 TTCACAATTTAGTCCTCAAAAACCTCATT
1 TTCACAAATTAGTCCTCAAAAACCTCATT
* *
77999790 TTCACAAATTAG-CC-CAAATAGCTCATT
1 TTCACAAATTAGTCCTCAAAAACCTCATT
77999817 T
1 T
77999818 AATCAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 12 0.48
28 2 0.08
29 11 0.44
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.33
Consensus pattern (29 bp):
TTCACAAATTAGTCCTCAAAAACCTCATT
Found at i:77999824 original size:27 final size:27
Alignment explanation
Indices: 77999741--77999825 Score: 66
Period size: 27 Copynumber: 3.0 Consensus size: 27
77999731 CTTCCATACA
*
77999741 AGCCCAAATAACACATTTAATTCACAATTT
1 AGCCCAAATAACTCATTTAA-TCA-AA-TT
*
77999771 AGTCCTCAAA-AACCTCATTTTCA-CAAATT
1 AG-CC-CAAATAA-CTCA-TTTAATCAAATT
*
77999800 AGCCCAAATAGCTCATTTAATCAAAT
1 AGCCCAAATAACTCATTTAATCAAAT
77999826 ATTCAAAAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 15
0.70 0.06 0.23
Matches are distributed among these distances:
26 4 0.09
27 13 0.29
28 3 0.07
29 4 0.09
30 4 0.09
31 6 0.13
32 7 0.16
33 4 0.09
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.29
Consensus pattern (27 bp):
AGCCCAAATAACTCATTTAATCAAATT
Found at i:78001001 original size:47 final size:47
Alignment explanation
Indices: 78000948--78001073 Score: 234
Period size: 47 Copynumber: 2.7 Consensus size: 47
78000938 AGATATTTGA
78000948 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
78000995 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* *
78001042 GCATCCGAGCTCATTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
78001074 ACTTATGGGC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 77 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:78009106 original size:28 final size:29
Alignment explanation
Indices: 78009040--78009150 Score: 109
Period size: 28 Copynumber: 3.9 Consensus size: 29
78009030 TGAATGTGAC
* * *
78009040 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTAATT
*
78009069 TGGGCCTAATGGGCCA-ATACAGGTAATT
1 TGGGCCTAATGGGCCATATAAAGGTAATT
* ** *
78009097 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAAGGTAATT
* * *
78009125 TGGGCTTAATGGGCCAGATACAGGTA
1 TGGGCCTAATGGGCCATATAAAGGTA
78009151 TGTGAAATTG
Statistics
Matches: 65, Mismatches: 16, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
28 45 0.69
29 20 0.31
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTAATT
Found at i:78009146 original size:57 final size:57
Alignment explanation
Indices: 78009040--78009150 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 57
78009030 TGAATGTGAC
*
78009040 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCAATACAGGTAATT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAATACAGGTAATT
* * *
78009097 TGGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGTA
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCA-ATACAGGTA
78009151 TGTGAAATTG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 16 0.33
57 33 0.67
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAATACAGGTAATT
Found at i:78018372 original size:44 final size:42
Alignment explanation
Indices: 78018309--78018463 Score: 163
Period size: 43 Copynumber: 3.6 Consensus size: 42
78018299 ATGTGTTATT
*
78018309 GTGTAAGACCATGTCTGGGACGTTGGCATCGACTTATGATTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGA-TT-TGATTTAC
* *
78018353 GTGTAAGACCACGTCTGGGATGTTAGCATCGTATTTGATTT-C
1 GTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGATTTAC
**
78018395 GTGTAAGACCGTGTCTGGGACAG-TGGCATCGATATTTGA-TTAC
1 GTGTAAGACCACGTCTGGGAC-GTTGGCATCG--ATTTGATTTAC
* * *
78018438 ATGTAAGACCACATCTAGGACGTTGG
1 GTGTAAGACCACGTCTGGGACGTTGG
78018464 ATTGTACGAG
Statistics
Matches: 94, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
42 29 0.31
43 34 0.36
44 30 0.32
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATTTAC
Found at i:78018411 original size:42 final size:42
Alignment explanation
Indices: 78018309--78018448 Score: 158
Period size: 44 Copynumber: 3.3 Consensus size: 42
78018299 ATGTGTTATT
*
78018309 GTGTAAGACCATGTCTGGGACGTTGGCATCG-ACTTATGATTTAC
1 GTGTAAGACCATGTCTGGGAAGTTGGCATCGTA-TT-TGATTT-C
* * *
78018353 GTGTAAGACCACGTCTGGGATGTTAGCATCGTATTTGATTTC
1 GTGTAAGACCATGTCTGGGAAGTTGGCATCGTATTTGATTTC
* *
78018395 GTGTAAGACCGTGTCTGGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGA-AGTTGGCATCG-TATTTGATTTC
*
78018438 ATGTAAGACCA
1 GTGTAAGACCA
78018449 CATCTAGGAC
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
42 26 0.31
43 26 0.31
44 30 0.36
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGAAGTTGGCATCGTATTTGATTTC
Found at i:78018777 original size:13 final size:15
Alignment explanation
Indices: 78018759--78018790 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
78018749 GTTTATATGT
78018759 TTTATTTG-ATA-AG
1 TTTATTTGTATATAG
78018772 TTTATTTGTATATAG
1 TTTATTTGTATATAG
78018787 TTTA
1 TTTA
78018791 CTAAGCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 3 0.18
15 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTATTTGTATATAG
Found at i:78020533 original size:30 final size:30
Alignment explanation
Indices: 78020499--78020557 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
78020489 TTTTTGGACT
*
78020499 TAGGGGTAAAATGGT-TATTTTGCAAAAGTC
1 TAGGGGCAAAATGGTCT-TTTTGCAAAAGTC
*
78020529 TAGGGGCAAAATGGTCTTTTTGCCAAAGT
1 TAGGGGCAAAATGGTCTTTTTGCAAAAGT
78020558 ATAGATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCTTTTTGCAAAAGTC
Found at i:78020938 original size:46 final size:46
Alignment explanation
Indices: 78020881--78021054 Score: 144
Period size: 46 Copynumber: 3.7 Consensus size: 46
78020871 GAACTATTGT
* *
78020881 GAGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCACATAACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATAACGA
* * *
78020927 GAGCCAGTGTAAGGCCATGTTTAGGACATGGCATC-G--ACAGTGAGACGA
1 GAGCCAGTGTAA-GACATGTCTGGGACAT-GCATCGGCCACA-T-A-ACGA
** * * *
78020975 GA-CCTAGTGTAAGACATGTCTGGGACATGCATCAACCTCGA-GATGTA
1 GAGCC-AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATAACG-A
78021022 -AGCCAGTGTAAGACATGTCTGGGACATGCATCG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCG
78021055 ACTACAAGTT
Statistics
Matches: 103, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
45 3 0.03
46 48 0.47
47 33 0.32
48 17 0.17
49 1 0.01
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATAACGA
Found at i:78022282 original size:21 final size:22
Alignment explanation
Indices: 78022242--78022283 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
78022232 GTCGAATTGG
78022242 TCACATGAGCGTGTTGCCCCTC
1 TCACATGAGCGTGTTGCCCCTC
78022264 TCACAT-AGGCGTG-TGCCCCT
1 TCACATGA-GCGTGTTGCCCCT
78022284 GTGTCTAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.14, C:0.36, G:0.24, T:0.26
Consensus pattern (22 bp):
TCACATGAGCGTGTTGCCCCTC
Done.