Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 193 of 290
Found at i:66195574 original size:12 final size:12
Alignment explanation
Indices: 66195557--66195583 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
66195547 ACGAGGTAGG
66195557 CCTCCGAGATAC
1 CCTCCGAGATAC
66195569 CCTCCGAGATAC
1 CCTCCGAGATAC
66195581 CCT
1 CCT
66195584 AAGGTGCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.44, G:0.15, T:0.19
Consensus pattern (12 bp):
CCTCCGAGATAC
Found at i:66199333 original size:27 final size:26
Alignment explanation
Indices: 66199293--66199457 Score: 206
Period size: 27 Copynumber: 6.1 Consensus size: 26
66199283 AGGAAGCGTC
*
66199293 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
66199320 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAT-TATCTGA-T
*
66199347 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
66199374 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
66199401 CTGGTGGCTCTGCCACAATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
66199429 CTGGTGACTCTGTCACATTATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
66199456 CT
1 CT
66199458 AGTAGCCATC
Statistics
Matches: 124, Mismatches: 7, Indels: 14
0.86 0.05 0.10
Matches are distributed among these distances:
26 5 0.04
27 99 0.80
28 20 0.16
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:66199452 original size:54 final size:54
Alignment explanation
Indices: 66199293--66199453 Score: 261
Period size: 54 Copynumber: 3.0 Consensus size: 54
66199283 AGGAAGCGTC
*
66199293 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
66199347 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
66199401 CTGGTGGCTCTGCCACAATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGT
66199454 ATCTAGTAGC
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
54 82 0.82
55 18 0.18
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:66204947 original size:8 final size:8
Alignment explanation
Indices: 66204934--66204976 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
66204924 ATAAAAGCCA
66204934 AAATGCCG
1 AAATGCCG
66204942 AAATGCCG
1 AAATGCCG
* *
66204950 AAAAGCCA
1 AAATGCCG
*
66204958 AAATGTCG
1 AAATGCCG
*
66204966 AAAAGCCG
1 AAATGCCG
66204974 AAA
1 AAA
66204977 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.49, C:0.21, G:0.21, T:0.09
Consensus pattern (8 bp):
AAATGCCG
Found at i:66204958 original size:24 final size:24
Alignment explanation
Indices: 66204926--66204976 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
66204916 ATGAATCGAT
*
66204926 AAAAGCCAAAATGCCGAAATGCCG
1 AAAAGCCAAAATGCCGAAAAGCCG
*
66204950 AAAAGCCAAAATGTCGAAAAGCCG
1 AAAAGCCAAAATGCCGAAAAGCCG
66204974 AAA
1 AAA
66204977 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.22, G:0.20, T:0.08
Consensus pattern (24 bp):
AAAAGCCAAAATGCCGAAAAGCCG
Found at i:66205232 original size:29 final size:29
Alignment explanation
Indices: 66205187--66205305 Score: 118
Period size: 29 Copynumber: 4.2 Consensus size: 29
66205177 GTGAGCATGA
* *
66205187 ATAT-AATATGATTTGGGCCTAATGGGAC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
66205215 ATATGAATGTGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
66205244 ATAAGAATATGAACTGGGCC-AGATGGGCC
1 ATATGAATATGAATTGGGCCTA-ATGGGCC
* * * *
66205273 ATTTGAATAAG-ATCGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
66205301 ATATG
1 ATATG
66205306 CATGTATGTA
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 21 0.29
29 52 0.71
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.26
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:66205255 original size:58 final size:57
Alignment explanation
Indices: 66205191--66205303 Score: 138
Period size: 58 Copynumber: 2.0 Consensus size: 57
66205181 GCATGAATAT
** ** *
66205191 AATATGATTTGGGCCTA-ATGGGACATATGAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGGACATATGAATAAG-ATCGGGCCTAGTGGGCCATAAG
* *
66205249 AATATGAACTGGGCCAGATGGGCCATTTGAATAAGATCGGGCCTAGTGGGCCATA
1 AATATGAACTGGGCCAGATGGGACATATGAATAAGATCGGGCCTAGTGGGCCATA
66205304 TGCATGTATG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 20 0.43
58 27 0.57
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGACATATGAATAAGATCGGGCCTAGTGGGCCATAAG
Found at i:66206603 original size:37 final size:37
Alignment explanation
Indices: 66206562--66206713 Score: 173
Period size: 37 Copynumber: 4.1 Consensus size: 37
66206552 CTGAGTGTTA
* * * * *
66206562 CTCAACTGAGTGTTACCTACTGATATACCGACTAAAG
1 CTCAACTGAGTGATATCTACTAATATACTGAATAAAG
* *
66206599 CTCAACTGAGCGATATCTACTAATATACTAAATAAAG
1 CTCAACTGAGTGATATCTACTAATATACTGAATAAAG
*
66206636 CTCAACCGAGTGATATCTACTAATATACTGAATAAAG
1 CTCAACTGAGTGATATCTACTAATATACTGAATAAAG
* * * *
66206673 CTAAACTGAGTGTTATTTACTGATATACT-AAGT-AAG
1 CTCAACTGAGTGATATCTACTAATATACTGAA-TAAAG
66206709 CTCAA
1 CTCAA
66206714 TCGAGTATTA
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
36 9 0.09
37 89 0.91
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (37 bp):
CTCAACTGAGTGATATCTACTAATATACTGAATAAAG
Found at i:66206735 original size:74 final size:74
Alignment explanation
Indices: 66206562--66206738 Score: 180
Period size: 74 Copynumber: 2.4 Consensus size: 74
66206552 CTGAGTGTTA
* * * * * *
66206562 CTCAACTGAGTGTTA-CCTACTGATATACCGACTAAAGCTCAACTGAGCGATATCTACTAATATA
1 CTCAACCGAGTGATATCC-ACTAATATACTGAATAAAGCTAAACTGAGCGATATCTACTAATATA
66206626 CTAAATAAAG
65 CTAAATAAAG
* * * * *
66206636 CTCAACCGAGTGATATCTACTAATATACTGAATAAAGCTAAACTGAGTGTTATTTACTGATATAC
1 CTCAACCGAGTGATATCCACTAATATACTGAATAAAGCTAAACTGAGCGATATCTACTAATATAC
*
66206701 TAAGT-AAG
66 TAAATAAAG
* *
66206709 CTCAATCGAGT-ATTATCCATTAAATATACT
1 CTCAACCGAGTGA-TATCCACT-AATATACT
66206739 AAACTACTGC
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
72 1 0.01
73 19 0.22
74 64 0.75
75 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.31
Consensus pattern (74 bp):
CTCAACCGAGTGATATCCACTAATATACTGAATAAAGCTAAACTGAGCGATATCTACTAATATAC
TAAATAAAG
Found at i:66209515 original size:56 final size:56
Alignment explanation
Indices: 66209455--66209587 Score: 221
Period size: 56 Copynumber: 2.4 Consensus size: 56
66209445 TCCCAGATAA
*
66209455 GGTCTTACTCACACACATATAACAAAATCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCACACACATATAACAAAATCACATATCGATGCCAACGTATTAAACGT
* * *
66209511 GGTCTTACTCGCACACATATAACAGAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCACACACATATAACAAAATCACATATCGATGCCAACGTATTAAACGT
*
66209567 AGTCTTACTCACACACATATA
1 GGTCTTACTCACACACATATA
66209588 TCAATGCCAT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCACACACATATAACAAAATCACATATCGATGCCAACGTATTAAACGT
Found at i:66212927 original size:46 final size:46
Alignment explanation
Indices: 66212875--66213048 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
66212865 TATTTGGGCA
*
66212875 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
66212921 TCCGAACTAGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* *
66212966 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
66213014 -CCTGAGCTCGTTGAGTTGAGTCCAAGTTCGCTTAT
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
66213049 AGGTGGGTTA
Statistics
Matches: 104, Mismatches: 14, Indels: 20
0.75 0.10 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 5 0.05
46 56 0.54
47 26 0.25
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:66212982 original size:93 final size:93
Alignment explanation
Indices: 66212871--66213043 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
66212861 CGGATATTTG
* *
66212871 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCC-GAACTAGTTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAACTAGTTGA
*
66212935 GTTGAGTCCGAGTTCGTGAGATGTAACTA
65 GTTGAGTCCAAGTTCGTGAGATGTAACTA
* * *
66212964 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTAGTTGAG
66213029 TTGAGTCCAAGTTCG
66 TTGAGTCCAAGTTCG
66213044 CTTATAGGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTAGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:66216467 original size:47 final size:46
Alignment explanation
Indices: 66216414--66216506 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 46
66216404 ATACCAACAC
66216414 TTACCTTGCAAAAATAGCAACTTATCACCGACTTAGTTCGTCGGAA
1 TTACCTTGCAAAAATAGCAACTTATCACCGACTTAGTTCGTCGGAA
66216460 NTTACCTTGCAAAAATAGCAACTTATCACCGACTTAGTTCGTCGGAA
1 -TTACCTTGCAAAAATAGCAACTTATCACCGACTTAGTTCGTCGGAA
66216507 GAGCACCAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (46 bp):
TTACCTTGCAAAAATAGCAACTTATCACCGACTTAGTTCGTCGGAA
Found at i:66218695 original size:42 final size:43
Alignment explanation
Indices: 66218539--66218689 Score: 155
Period size: 42 Copynumber: 3.6 Consensus size: 43
66218529 TACCAATACC
* * *
66218539 ATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGCCA
1 ATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGTCA
* * * * *
66218582 ATAGCCCAGCTATGGTCTTACATGAAATCTTACATCGAT-TCT
1 ATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGTCA
* * * *
66218624 GTATCCTAGATATGGTCTTACA-CAAAGTCTCATATTGATGTC-
1 ATATCCCAGATATGGTCTTACATGAAA-TCTCATATCGATGTCA
*
66218666 ATATCCTAGATATGGTCTTACATG
1 ATATCCCAGATATGGTCTTACATG
66218690 TAGTCTTAGT
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
41 3 0.03
42 49 0.56
43 35 0.40
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.34
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGTCA
Found at i:66223210 original size:22 final size:22
Alignment explanation
Indices: 66223154--66223210 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
66223144 GATTCATGCT
66223154 AAGA-GTTCGCACAACGCATAG
1 AAGAGGTTCGCACAACGCATAG
* ** *
66223175 ATGAGGTTTACACAATGCATAG
1 AAGAGGTTCGCACAACGCATAG
66223197 AAGAGGTTCGCACA
1 AAGAGGTTCGCACA
66223211 TACACATGCT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (22 bp):
AAGAGGTTCGCACAACGCATAG
Found at i:66230807 original size:19 final size:19
Alignment explanation
Indices: 66230771--66230808 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
66230761 ACTTGTAAGT
*
66230771 TATTTTCCATTGACCAAAC
1 TATTTTCCATTGAACAAAC
66230790 TATTTTCCA-TGAAACAAAC
1 TATTTTCCATTG-AACAAAC
66230809 ACAGGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (19 bp):
TATTTTCCATTGAACAAAC
Found at i:66232117 original size:41 final size:41
Alignment explanation
Indices: 66232060--66232140 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
66232050 CATTCACTTT
*
66232060 GTTTTTCCCTCTTTTATCTTTAATGATTATGGGATTGGAGA
1 GTTTTTCCCTCTTTTATCATTAATGATTATGGGATTGGAGA
66232101 GTTTTTCCCTCTTTTATCATTAATGATTATGGGATTGGAG
1 GTTTTTCCCTCTTTTATCATTAATGATTATGGGATTGGAG
66232141 TTTTTAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.48
Consensus pattern (41 bp):
GTTTTTCCCTCTTTTATCATTAATGATTATGGGATTGGAGA
Found at i:66234954 original size:30 final size:30
Alignment explanation
Indices: 66234918--66234974 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
66234908 GTTGTCATCA
66234918 CAAGTATTTTTACCATTAATTCAACCTTAT
1 CAAGTATTTTTACCATTAATTCAACCTTAT
66234948 CAAGTATTTTTACCATTAATTCAACCT
1 CAAGTATTTTTACCATTAATTCAACCT
66234975 CATACTTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (30 bp):
CAAGTATTTTTACCATTAATTCAACCTTAT
Found at i:66235855 original size:20 final size:21
Alignment explanation
Indices: 66235832--66235871 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
66235822 AGGAAAAATC
*
66235832 AAAA-TGATTTAGGATAGACT
1 AAAAGTGATTTAAGATAGACT
*
66235852 AAAAGTGGTTTAAGATAGAC
1 AAAAGTGATTTAAGATAGAC
66235872 AGAAATCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.28
Consensus pattern (21 bp):
AAAAGTGATTTAAGATAGACT
Found at i:66239895 original size:22 final size:22
Alignment explanation
Indices: 66239855--66239915 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
66239845 GATTCATGCT
*
66239855 AAGA-GTTCGCACAACGCATAG
1 AAGAGGTTCGCACAATGCATAG
* * *
66239876 ATGAGGTTTGCACAATGCATGG
1 AAGAGGTTCGCACAATGCATAG
66239898 AAGAGGTTCGCAC-ATGCA
1 AAGAGGTTCGCACAATGCA
66239916 CATGTTCAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 8 0.24
22 25 0.76
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (22 bp):
AAGAGGTTCGCACAATGCATAG
Found at i:66242782 original size:20 final size:19
Alignment explanation
Indices: 66242752--66242789 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
66242742 TTATTATGCC
*
66242752 AATTTTATAAATAAAAAAA
1 AATTTTATAAACAAAAAAA
66242771 AATTTATATAAACAAAAAA
1 AATTT-TATAAACAAAAAA
66242790 CAAAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (19 bp):
AATTTTATAAACAAAAAAA
Found at i:66256425 original size:63 final size:63
Alignment explanation
Indices: 66256326--66256449 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 63
66256316 TTAGTATTTT
* * *
66256326 TCCATTCGGTACAGTTGAGGTAAGTCACCCTAAGTTTGGCATTTTTAAGGTAAACAACACCAG
1 TCCATTCGGTACAGTCGAGGTAAGTCACCCCAAGTTTGGCACTTTTAAGGTAAACAACACCAG
66256389 TCCATTCGGTAC-GATCGAGGTAAAG-CACCCCAAGTTTGGCACTTTTAAGGTAAACAACACC
1 TCCATTCGGTACAG-TCGAGGT-AAGTCACCCCAAGTTTGGCACTTTTAAGGTAAACAACACC
66256450 CGTTTAAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
62 1 0.02
63 52 0.93
64 3 0.05
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (63 bp):
TCCATTCGGTACAGTCGAGGTAAGTCACCCCAAGTTTGGCACTTTTAAGGTAAACAACACCAG
Found at i:66262578 original size:44 final size:43
Alignment explanation
Indices: 66262520--66262619 Score: 164
Period size: 44 Copynumber: 2.3 Consensus size: 43
66262510 ATCGCATTTA
66262520 ATTTCGTGTAAGACCACGTCTGGGACGTTGGAATCGACTTGAG
1 ATTTCGTGTAAGACCACGTCTGGGACGTTGGAATCGACTTGAG
* *
66262563 ATTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGAG
1 ATTT-CGTGTAAGACCACGTCTGGGACGTTGGAATCGACTTGAG
*
66262607 ATATCGTGTAAGA
1 ATTTCGTGTAAGA
66262620 TAGTGTCTGG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
43 13 0.25
44 40 0.75
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
ATTTCGTGTAAGACCACGTCTGGGACGTTGGAATCGACTTGAG
Found at i:66262629 original size:43 final size:43
Alignment explanation
Indices: 66262463--66262729 Score: 206
Period size: 43 Copynumber: 6.2 Consensus size: 43
66262453 TACGTAATAC
* * * *
66262463 TGGCATAGATTAGAGATTACGTATAAGACCATGGT-TGGGACAT
1 TGGCATCGATTTGAGATTACGTGTAAGACTAT-GTCTGGGACAT
** * * * *
66262506 TGTAATCGCATTT-A-ATTTCGTGTAAGACCACGTCTGGGACGT
1 TGGCATCG-ATTTGAGATTACGTGTAAGACTATGTCTGGGACAT
* * * * *
66262548 TGGAATCGACTTGAGATTTACGTGTAAGACCACGTCTGGGACGT
1 TGGCATCGATTTGAGA-TTACGTGTAAGACTATGTCTGGGACAT
* *
66262592 TGGCATCGATTTGAGA-TATCGTGTAAGA-TAGTGTCTGGGAAAC
1 TGGCATCGATTTGAGATTA-CGTGTAAGACTA-TGTCTGGGACAT
* * *
66262635 TGGCATCGATTAGAGATTACATATAAGACTATGTCTGGGACAT
1 TGGCATCGATTTGAGATTACGTGTAAGACTATGTCTGGGACAT
* * * * *
66262678 TGGCATCG-TAT-ATGATTTCGTGTAAGACTCTGTCTAGGACAG
1 TGGCATCGATTTGA-GATTACGTGTAAGACTATGTCTGGGACAT
66262720 TGGCATCGAT
1 TGGCATCGAT
66262730 AATTCATTAC
Statistics
Matches: 182, Mismatches: 31, Indels: 22
0.77 0.13 0.09
Matches are distributed among these distances:
41 6 0.03
42 64 0.35
43 65 0.36
44 47 0.26
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (43 bp):
TGGCATCGATTTGAGATTACGTGTAAGACTATGTCTGGGACAT
Found at i:66269381 original size:43 final size:43
Alignment explanation
Indices: 66269203--66270134 Score: 349
Period size: 43 Copynumber: 21.7 Consensus size: 43
66269193 TACAGAATAC
* * * *
66269203 TGGCATCG-ATTAGAGAT-TACGTATAAGACCATGCCTGAGACAT
1 TGGCATCGAATT-GAGATAT-CGTGTAAGACCATGTCTGGGAGAT
* * * ** ** *
66269246 TGGCATCGTATTTA-ATTTTATGTAAGACCACATATGGGA-AGT
1 TGGCATCGAATTGAGATATCGTGTAAGACCATGTCTGGGAGA-T
* * * *
66269288 TGGCATCGACTTGAAATTTAT-GTGTAAGATCACGTCTGGGATG-T
1 TGGCATCGAATTGAGA--TATCGTGTAAGACCATGTCTGGGA-GAT
* * *
66269332 TTGCATCGAATTGAGATATCGTGTCAGA-CAGTGTCTGGGAGAC
1 TGGCATCGAATTGAGATATCGTGTAAGACCA-TGTCTGGGAGAT
* * * *
66269375 TGGCATCG-ATTAGAGAT-TACGTATAAGACCATGCCTGAGACAT
1 TGGCATCGAATT-GAGATAT-CGTGTAAGACCATGTCTGGGAGAT
* * * ** ** *
66269418 TGGCATCGTATTTA-ATTTTATGTAAGACCACATATGGGA-AGT
1 TGGCATCGAATTGAGATATCGTGTAAGACCATGTCTGGGAGA-T
* * * *
66269460 TGGCATCGACTTGAAATTTAT-GTGTAAGATCACGTCTGGGATG-T
1 TGGCATCGAATTGAGA--TATCGTGTAAGACCATGTCTGGGA-GAT
* * *
66269504 TTGCATCGAATTGAGATATCGTGTCAGA-CAGTGTCTGGGAGAC
1 TGGCATCGAATTGAGATATCGTGTAAGACCA-TGTCTGGGAGAT
* * * *
66269547 TGGCATCG-ATTAGAGAT-TACGTATAAGACCATGCCTGAGACAT
1 TGGCATCGAATT-GAGATAT-CGTGTAAGACCATGTCTGGGAGAT
* * * ** ** *
66269590 TGGCATCGTATTTA-ATTTTATGTAAGACCACATATGGGA-AGT
1 TGGCATCGAATTGAGATATCGTGTAAGACCATGTCTGGGAGA-T
* * * *
66269632 TGGCATCGACTTGAAATTTAT-GTGTAAGATCACGTCTGGGATG-T
1 TGGCATCGAATTGAGA--TATCGTGTAAGACCATGTCTGGGA-GAT
* * *
66269676 TTGCATCGAATTGAGATATCGTGTCAGA-CAGTGTCTGGGAGAC
1 TGGCATCGAATTGAGATATCGTGTAAGACCA-TGTCTGGGAGAT
* * * *
66269719 TGGCATCG-ATTAGAGAT-TACGTATAAGACCATGCCTGAGACAT
1 TGGCATCGAATT-GAGATAT-CGTGTAAGACCATGTCTGGGAGAT
* * * ** ** *
66269762 TGGCATCGTATTTA-ATTTTATGTAAGACCACATATGGGA-AGT
1 TGGCATCGAATTGAGATATCGTGTAAGACCATGTCTGGGAGA-T
* * * *
66269804 TGGCATCGACTTGAAATTTAT-GTGTAAGATCACGTCTGGGATG-T
1 TGGCATCGAATTGAGA--TATCGTGTAAGACCATGTCTGGGA-GAT
* * *
66269848 TTGCATCGAATTGAGATATCGTGTCAGA-CAGTGTCTGGGAGAC
1 TGGCATCGAATTGAGATATCGTGTAAGACCA-TGTCTGGGAGAT
* * * *
66269891 TGGCATCG-ATTAGAGAT-TACGTATAAGACCATGCCTGAGACAT
1 TGGCATCGAATT-GAGATAT-CGTGTAAGACCATGTCTGGGAGAT
* * * ** ** *
66269934 TGGCATCGTATTTA-ATTTTATGTAAGACCACATATGGGA-AGT
1 TGGCATCGAATTGAGATATCGTGTAAGACCATGTCTGGGAGA-T
* * * *
66269976 TGGCATCGACTTGAAATTTAT-GTGTAAGATCACGTCTGGGATG-T
1 TGGCATCGAATTGAGA--TATCGTGTAAGACCATGTCTGGGA-GAT
* *
66270020 TGGCATCGATTTGAGATATCGTGTAAGA-CAGTGTCTGGGAGAC
1 TGGCATCGAATTGAGATATCGTGTAAGACCA-TGTCTGGGAGAT
* * * *
66270063 TGGCATCG-ATTAGAGAT-TACGTATAAGACCATGTATAGGACAT
1 TGGCATCGAATT-GAGATAT-CGTGTAAGACCATGTCTGGGAGAT
* *
66270106 TGGCATCGTA-T-ATGATTTCGTGTAAGACC
1 TGGCATCGAATTGA-GATATCGTGTAAGACC
66270135 CTATCTAGGA
Statistics
Matches: 668, Mismatches: 148, Indels: 147
0.69 0.15 0.15
Matches are distributed among these distances:
41 6 0.01
42 197 0.29
43 278 0.42
44 177 0.26
45 10 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (43 bp):
TGGCATCGAATTGAGATATCGTGTAAGACCATGTCTGGGAGAT
Found at i:66270156 original size:172 final size:172
Alignment explanation
Indices: 66269201--66270134 Score: 1771
Period size: 172 Copynumber: 5.4 Consensus size: 172
66269191 TGTACAGAAT
66269201 ACTGGCATCGATTAGAGATTACGTATAAGACCATGCCTGAGACATTGGCATCGTATTTAATTTTA
1 ACTGGCATCGATTAGAGATTACGTATAAGACCATGCCTGAGACATTGGCATCGTATTTAATTTTA
66269266 TGTAAGACCACATATGGGAAGTTGGCATCGACTTGAAATTTATGTGTAAGATCACGTCTGGGATG
66 TGTAAGACCACATATGGGAAGTTGGCATCGACTTGAAATTTATGTGTAAGATCACGTCTGGGATG
66269331 TTTGCATCGAATTGAGATATCGTGTCAGACAGTGTCTGGGAG
131 TTTGCATCGAATTGAGATATCGTGTCAGACAGTGTCTGGGAG
66269373 ACTGGCATCGATTAGAGATTACGTATAAGACCATGCCTGAGACATTGGCATCGTATTTAATTTTA
1 ACTGGCATCGATTAGAGATTACGTATAAGACCATGCCTGAGACATTGGCATCGTATTTAATTTTA
66269438 TGTAAGACCACATATGGGAAGTTGGCATCGACTTGAAATTTATGTGTAAGATCACGTCTGGGATG
66 TGTAAGACCACATATGGGAAGTTGGCATCGACTTGAAATTTATGTGTAAGATCACGTCTGGGATG
66269503 TTTGCATCGAATTGAGATATCGTGTCAGACAGTGTCTGGGAG
131 TTTGCATCGAATTGAGATATCGTGTCAGACAGTGTCTGGGAG
66269545 ACTGGCATCGATTAGAGATTACGTATAAGACCATGCCTGAGACATTGGCATCGTATTTAATTTTA
1 ACTGGCATCGATTAGAGATTACGTATAAGACCATGCCTGAGACATTGGCATCGTATTTAATTTTA
66269610 TGTAAGACCACATATGGGAAGTTGGCATCGACTTGAAATTTATGTGTAAGATCACGTCTGGGATG
66 TGTAAGACCACATATGGGAAGTTGGCATCGACTTGAAATTTATGTGTAAGATCACGTCTGGGATG
66269675 TTTGCATCGAATTGAGATATCGTGTCAGACAGTGTCTGGGAG
131 TTTGCATCGAATTGAGATATCGTGTCAGACAGTGTCTGGGAG
66269717 ACTGGCATCGATTAGAGATTACGTATAAGACCATGCCTGAGACATTGGCATCGTATTTAATTTTA
1 ACTGGCATCGATTAGAGATTACGTATAAGACCATGCCTGAGACATTGGCATCGTATTTAATTTTA
66269782 TGTAAGACCACATATGGGAAGTTGGCATCGACTTGAAATTTATGTGTAAGATCACGTCTGGGATG
66 TGTAAGACCACATATGGGAAGTTGGCATCGACTTGAAATTTATGTGTAAGATCACGTCTGGGATG
66269847 TTTGCATCGAATTGAGATATCGTGTCAGACAGTGTCTGGGAG
131 TTTGCATCGAATTGAGATATCGTGTCAGACAGTGTCTGGGAG
66269889 ACTGGCATCGATTAGAGATTACGTATAAGACCATGCCTGAGACATTGGCATCGTATTTAATTTTA
1 ACTGGCATCGATTAGAGATTACGTATAAGACCATGCCTGAGACATTGGCATCGTATTTAATTTTA
66269954 TGTAAGACCACATATGGGAAGTTGGCATCGACTTGAAATTTATGTGTAAGATCACGTCTGGGATG
66 TGTAAGACCACATATGGGAAGTTGGCATCGACTTGAAATTTATGTGTAAGATCACGTCTGGGATG
* * *
66270019 TTGGCATCGATTTGAGATATCGTGTAAGACAGTGTCTGGGAG
131 TTTGCATCGAATTGAGATATCGTGTCAGACAGTGTCTGGGAG
** * * *
66270061 ACTGGCATCGATTAGAGATTACGTATAAGACCATGTAT-AGGACATTGGCATCGTATATGATTTC
1 ACTGGCATCGATTAGAGATTACGTATAAGACCATGCCTGA-GACATTGGCATCGTATTTAATTTT
*
66270125 GTGTAAGACC
65 ATGTAAGACC
66270135 CTATCTAGGA
Statistics
Matches: 752, Mismatches: 9, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
171 1 0.00
172 751 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (172 bp):
ACTGGCATCGATTAGAGATTACGTATAAGACCATGCCTGAGACATTGGCATCGTATTTAATTTTA
TGTAAGACCACATATGGGAAGTTGGCATCGACTTGAAATTTATGTGTAAGATCACGTCTGGGATG
TTTGCATCGAATTGAGATATCGTGTCAGACAGTGTCTGGGAG
Found at i:66276785 original size:29 final size:29
Alignment explanation
Indices: 66276751--66276811 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
66276741 AGTGTGATTC
66276751 TGAATTTCGAGTTGATGTTGATGATTGTT
1 TGAATTTCGAGTTGATGTTGATGATTGTT
*
66276780 TGAATTTTGAGTTGATGTTGATGATTGTT
1 TGAATTTCGAGTTGATGTTGATGATTGTT
66276809 TGA
1 TGA
66276812 GATTCAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.49
Consensus pattern (29 bp):
TGAATTTCGAGTTGATGTTGATGATTGTT
Found at i:66286443 original size:48 final size:47
Alignment explanation
Indices: 66286340--66286551 Score: 189
Period size: 46 Copynumber: 4.5 Consensus size: 47
66286330 TATGTTTGCT
* * * * *
66286340 AGTGTAAGACTTGTATAGGACATGCATCGGCCAC-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATAT-AGAGCC
* * *
66286386 AGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACCAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATATA-GAGCC
* * ** *
66286434 AGTGTAAGACATGTCTGGGACATGCATC-AACATTGAGA-CGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCA-CGAGATATAGAGCC
* * * *
66286480 GGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATATA-GAGCC
* *
66286528 AGTGTAAAACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
66286552 GCGTTAGCTT
Statistics
Matches: 135, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
46 64 0.47
47 8 0.06
48 63 0.47
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATATAGAGCC
Found at i:66286650 original size:142 final size:138
Alignment explanation
Indices: 66286433--66286695 Score: 336
Period size: 142 Copynumber: 1.9 Consensus size: 138
66286423 ATATACCAGC
* *
66286433 CAGTGTAAGACATGTCTGGGACATGCATCAACATTGAGACGAGAGCTGGTGTAAGACATGTCTGG
1 CAGTGTAAGACATGTCTGGGACATGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTATGG
* *
66286498 GACATGCATCGGCCACGAG-ATAT-ACAAG-CTAGTGTAAAACCTGTCTGGGACATGGCGTTAGC
66 GACATGCATCGGCCACG-GTATATGA-AAGTC-AGTGTAAAACCTATCTGAGACATGGCGTTAGC
66286560 TTGTTGTGTGT
128 TTGTTGTGTGT
* * * *
66286571 CAGTGTAGGACTTGTCTGGGACATGGCATCGACACCATT-AGATGAGAGCTAGTGTAAGACCTGT
1 CAGTGTAAGACATGTCTGGGACAT-GCATC-A-A-CATTGAGACGAGAGCTAGTGTAAGACATGT
* *
66286635 ATGGGACATGGCATCGGCCTCGGTATATGAAAGTCAGTGTAAGACCTATCTGAGACATGGC
62 ATGGGACAT-GCATCGGCCACGGTATATGAAAGTCAGTGTAAAACCTATCTGAGACATGGC
66286696 ATCAACTTTG
Statistics
Matches: 107, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
138 22 0.21
139 5 0.05
140 1 0.01
141 32 0.30
142 45 0.42
143 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (138 bp):
CAGTGTAAGACATGTCTGGGACATGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTATGG
GACATGCATCGGCCACGGTATATGAAAGTCAGTGTAAAACCTATCTGAGACATGGCGTTAGCTTG
TTGTGTGT
Found at i:66286674 original size:49 final size:49
Alignment explanation
Indices: 66286569--66286698 Score: 138
Period size: 49 Copynumber: 2.7 Consensus size: 49
66286559 CTTGTTGTGT
* * * *
66286569 GTCAGTGTAGGACTTGTCTGGGACATGGCATCGACACCATTAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCAGTAGATGAAA
* * * *
66286618 G-CTAGTGTAAGACCTGTATGGGACATGGCATCGGC-CTCGGTATATGAAA
1 GTC-AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CAGTAGATGAAA
* *
66286667 GTCAGTGTAAGACCTATCTGAGACATGGCATC
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATC
66286699 AACTTTGATG
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 2 0.03
49 64 0.96
50 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCAGTAGATGAAA
Found at i:66304855 original size:51 final size:50
Alignment explanation
Indices: 66304796--66304892 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 50
66304786 CTCTCCATTA
66304796 AATGGTCATGGTGGTTCGAGGAGTTTATACTCCTCATTCCTACTATNATTG
1 AATGGTCATGGTGGTTCGAGGAGTTTATACTCCTCATTCCTACTAT-ATTG
* * *
66304847 AATGGTCATGGTGGTTTGAGGAGTTTATACTCTTCATTCCTGCTAT
1 AATGGTCATGGTGGTTCGAGGAGTTTATACTCCTCATTCCTACTAT
66304893 CATTCTCATC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.39
Consensus pattern (50 bp):
AATGGTCATGGTGGTTCGAGGAGTTTATACTCCTCATTCCTACTATATTG
Found at i:66318648 original size:275 final size:276
Alignment explanation
Indices: 66318157--66318698 Score: 1059
Period size: 275 Copynumber: 2.0 Consensus size: 276
66318147 GCCTATCGAA
66318157 CAGTAGTATAGTGTTAGCAAGACCGGATTGTCAAACCCAAAGGAACTAAAAGTACCAGTAATGAC
1 CAGTAGTATAGTGTTAGCAAGACCGGATTGTCAAACCCAAAGGAACTAAAAGTACCAGTAATGAC
66318222 TGTCTTTTTACTATCTAGCCTAAGAATAAGGGGGTTTTGTTTTAACTAACTAATTATCTAAACTA
66 TGTCTTTTTACTATCTAGCCTAAGAATAAGGGGGTTTTGTTTTAACTAACTAATTATCTAAACTA
66318287 AGAATTCACAGAAAATAGAATTGGGGAATTACTTTTGGAAAAACGATTAAATTAAGACAATACCT
131 AGAATTCACAGAAAATAGAATTGGGGAATTACTTTTGGAAAAACGATTAAATTAAGACAATACCT
* *
66318352 AAGGAAGAATCCACCTAGACTTCACTTGTTATTCTGACTCCGAATCGGACGATTTATTCA-TTAA
196 AAGAAAGAATCCACCTAGACTTCACTTGTTATTCTGACTCCGAATCGGAAGATTTATTCATTTAA
66318416 CTTGTTCCGTAGAGAC
261 CTTGTTCCGTAGAGAC
66318432 CAGTAGTATAGTGTTAGCAAGACCGGATTGTCAAACCCAAAGGAACTAAAAGTACCAGTAATGAC
1 CAGTAGTATAGTGTTAGCAAGACCGGATTGTCAAACCCAAAGGAACTAAAAGTACCAGTAATGAC
66318497 TGTCTTTTTACTATCTAGCCTAAGAATAAGGGGGTTTTGTTTTAACTAACTAATTATCTAAACTA
66 TGTCTTTTTACTATCTAGCCTAAGAATAAGGGGGTTTTGTTTTAACTAACTAATTATCTAAACTA
66318562 AGAATTCACAGAAAATAGAATTGGGGAATTACTTTTGGAAAAACGATTAAATTAAGACAATACCT
131 AGAATTCACAGAAAATAGAATTGGGGAATTACTTTTGGAAAAACGATTAAATTAAGACAATACCT
66318627 AAGAAAGAATCCACCTAGACTTCACTTGTTATTCTGACTCCGAATCGGAAGATTTATTCATTTAA
196 AAGAAAGAATCCACCTAGACTTCACTTGTTATTCTGACTCCGAATCGGAAGATTTATTCATTTAA
66318692 CTTGTTC
261 CTTGTTC
66318699 TATAGAGATC
Statistics
Matches: 264, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
275 253 0.96
276 11 0.04
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (276 bp):
CAGTAGTATAGTGTTAGCAAGACCGGATTGTCAAACCCAAAGGAACTAAAAGTACCAGTAATGAC
TGTCTTTTTACTATCTAGCCTAAGAATAAGGGGGTTTTGTTTTAACTAACTAATTATCTAAACTA
AGAATTCACAGAAAATAGAATTGGGGAATTACTTTTGGAAAAACGATTAAATTAAGACAATACCT
AAGAAAGAATCCACCTAGACTTCACTTGTTATTCTGACTCCGAATCGGAAGATTTATTCATTTAA
CTTGTTCCGTAGAGAC
Found at i:66320951 original size:12 final size:13
Alignment explanation
Indices: 66320915--66320952 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
66320905 AAATATTTGA
66320915 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
66320928 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
66320942 CTTG-TCTTAAT
1 CTTGTTCTTAAT
66320953 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:66321948 original size:20 final size:20
Alignment explanation
Indices: 66321920--66321960 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
66321910 ATTGCTGCTA
* *
66321920 ATCAGAATCCTGATCCGCGT
1 ATCAAAATCCTGATCCACGT
66321940 ATCAAAATCCTGATCCACGT
1 ATCAAAATCCTGATCCACGT
66321960 A
1 A
66321961 CTATGTATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (20 bp):
ATCAAAATCCTGATCCACGT
Found at i:66328977 original size:12 final size:12
Alignment explanation
Indices: 66328962--66328989 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
66328952 GAGTAGGAAG
66328962 CAAGGAATTACT
1 CAAGGAATTACT
66328974 CAAGGAATTACT
1 CAAGGAATTACT
66328986 CAAG
1 CAAG
66328990 CAAGTCAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (12 bp):
CAAGGAATTACT
Found at i:66329214 original size:12 final size:13
Alignment explanation
Indices: 66329178--66329215 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
66329168 AAACATTTGA
66329178 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
66329191 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
66329205 CTTG-TCTTAAT
1 CTTGTTCTTAAT
66329216 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:66335858 original size:79 final size:82
Alignment explanation
Indices: 66335747--66335931 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
66335737 GCTACTCGTT
* *
66335747 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
66335810 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
66335827 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
66335890 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
66335907 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66335932 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:66335931 original size:40 final size:40
Alignment explanation
Indices: 66335728--66335931 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
66335718 CGGAATTTAA
** *
66335728 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66335768 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
66335808 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66335847 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
66335887 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
66335927 CCGGA
1 CCGGA
66335932 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:66350746 original size:40 final size:39
Alignment explanation
Indices: 66350702--66350806 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
66350692 AGTGACCATA
*
66350702 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
66350742 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
66350780 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
66350807 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:66350763 original size:39 final size:40
Alignment explanation
Indices: 66350662--66350825 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
66350652 TTGAATGATG
* *
66350662 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
66350702 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
66350741 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
66350781 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
66350821 TCCGG
1 TCCGG
66350826 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:66350825 original size:79 final size:80
Alignment explanation
Indices: 66350662--66350812 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
66350652 TTGAATGATG
*
66350662 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
66350727 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
66350742 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
66350804 TTGAACGAG
64 TTGAACGAG
66350813 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:66358191 original size:79 final size:81
Alignment explanation
Indices: 66358055--66358239 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
66358045 TTGAATGATG
* *
66358055 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
66358119 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
66358134 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
66358196 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
66358214 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66358240 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:66358253 original size:40 final size:40
Alignment explanation
Indices: 66358056--66358239 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
66358046 TGAATGATGT
* * * *
66358056 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
66358096 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
66358136 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
66358174 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
66358215 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
66358240 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:66358261 original size:79 final size:79
Alignment explanation
Indices: 66358108--66358272 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
66358098 GGACTAAGAT
* * **
66358108 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
66358173 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
66358187 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
66358250 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
66358266 CCGAAGG
1 CCGAAGG
66358273 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:66362192 original size:40 final size:40
Alignment explanation
Indices: 66362114--66362377 Score: 356
Period size: 40 Copynumber: 6.5 Consensus size: 40
66362104 ACCCAAGTAT
* *
66362114 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
66362153 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
66362193 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATTGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
66362233 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATTGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
66362273 CTTCGGGACTTAGCCC-GAGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGA-TATAGTC-ACTA---GCACAAATGC
* *
66362316 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
66362356 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
66362378 CATTCGAAGA
Statistics
Matches: 203, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 14 0.07
40 153 0.75
41 1 0.00
43 33 0.16
44 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:66369710 original size:40 final size:40
Alignment explanation
Indices: 66369632--66369895 Score: 363
Period size: 40 Copynumber: 6.5 Consensus size: 40
66369622 ACCCAAGTAT
* *
66369632 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
66369671 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
66369711 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATTGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
66369751 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATTGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
66369791 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
66369834 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
66369874 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
66369896 CATTCGAAGA
Statistics
Matches: 203, Mismatches: 15, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 12 0.06
40 155 0.76
41 1 0.00
43 35 0.17
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:66371403 original size:43 final size:43
Alignment explanation
Indices: 66371325--66371457 Score: 128
Period size: 43 Copynumber: 3.1 Consensus size: 43
66371315 AAACACATAT
* * * * *
66371325 ATCACATACA-ATGCC-ATATCCCAGATATGGTCTTACATGTT
1 ATCACATATAGATGCCAATGTCCCAAACATGGTCTTACATGTA
* ** *
66371366 ATCACATATCGATGCCCCTGTCCCAAACA-GGTGCTTACACGTA
1 ATCACATATAGATGCCAATGTCCCAAACATGGT-CTTACATGTA
* * *
66371409 ATCTCATATAGATGCCAATGTCCCAGACATGGTCTTACATGAA
1 ATCACATATAGATGCCAATGTCCCAAACATGGTCTTACATGTA
66371452 ATCACA
1 ATCACA
66371458 CCTCGGAAGT
Statistics
Matches: 72, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
41 8 0.11
42 8 0.11
43 53 0.74
44 3 0.04
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (43 bp):
ATCACATATAGATGCCAATGTCCCAAACATGGTCTTACATGTA
Found at i:66371633 original size:22 final size:21
Alignment explanation
Indices: 66371593--66371633 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
66371583 GGCAACATAT
*
66371593 ATAAATATACAATTCAATTCG
1 ATAAATATACAATTAAATTCG
*
66371614 ATAATATATACATTTAAATT
1 ATAA-ATATACAATTAAATT
66371634 TAAAAGCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (21 bp):
ATAAATATACAATTAAATTCG
Found at i:66379695 original size:20 final size:20
Alignment explanation
Indices: 66379647--66379696 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
66379637 TGGTTGCTTG
*
66379647 TGGATGATGAGCTTGATGAA
1 TGGATTATGAGCTTGATGAA
* *
66379667 TGG-TATATGTGCTTGATGGA
1 TGGAT-TATGAGCTTGATGAA
66379687 TGGATTATGA
1 TGGATTATGA
66379697 CCAATAGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.26, C:0.04, G:0.34, T:0.36
Consensus pattern (20 bp):
TGGATTATGAGCTTGATGAA
Found at i:66388415 original size:28 final size:29
Alignment explanation
Indices: 66388276--66388450 Score: 228
Period size: 29 Copynumber: 6.1 Consensus size: 29
66388266 GAATGCATGT
*
66388276 ATATGAATGTGATTTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
** *
66388305 ATATGAATGTGATTTGCACCTAATGGACC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
** *
66388334 ATACAAATGTGATTTAGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
66388363 TTACGAATTTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
66388392 ATATGAATATG-TTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
66388420 ATATGAATGAGA-TTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
66388448 ATA
1 ATA
66388451 AGCATGTATG
Statistics
Matches: 126, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
28 45 0.36
29 81 0.64
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:66393719 original size:23 final size:22
Alignment explanation
Indices: 66393693--66393738 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
66393683 TGTGATGACG
66393693 TTATCTT-ATAAATATGTATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
66393716 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
66393738 T
1 T
66393739 GGTTTGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:66395668 original size:16 final size:16
Alignment explanation
Indices: 66395633--66395670 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
66395623 GTAGATCGAC
*
66395633 AAAAGCCAAAATACTA
1 AAAAGCCAAAATACCA
*
66395649 AAAAGCCAAAATACCG
1 AAAAGCCAAAATACCA
66395665 AAAAGC
1 AAAAGC
66395671 TGAAAGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.61, C:0.21, G:0.11, T:0.08
Consensus pattern (16 bp):
AAAAGCCAAAATACCA
Found at i:66395940 original size:28 final size:29
Alignment explanation
Indices: 66395886--66395947 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 29
66395876 GAAAGCATGT
*
66395886 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
*
66395915 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
66395943 ATATG
1 ATATG
66395948 CATGTATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 20 0.65
29 11 0.35
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:66398672 original size:47 final size:47
Alignment explanation
Indices: 66398606--66398797 Score: 267
Period size: 47 Copynumber: 4.1 Consensus size: 47
66398596 GAAATGATAG
66398606 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
66398653 TAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
66398700 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
66398747 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
66398794 TAAG
1 TAAG
66398798 TCCCGAAGGG
Statistics
Matches: 126, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:66398972 original size:47 final size:47
Alignment explanation
Indices: 66398913--66399104 Score: 276
Period size: 47 Copynumber: 4.1 Consensus size: 47
66398903 GAAATGATAG
*
66398913 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
66398960 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
66399007 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
66399054 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
66399101 TAAG
1 TAAG
66399105 TCCCGAAGGG
Statistics
Matches: 129, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.27
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:66399059 original size:307 final size:307
Alignment explanation
Indices: 66398505--66399118 Score: 1183
Period size: 307 Copynumber: 2.0 Consensus size: 307
66398495 GTGAACCTTG
**
66398505 ATAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACTTGAATTCTAAATTTTGATA
1 ATAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACTTGAATTCTAAATCGTGATA
66398570 TTGTAAGTTTATGAGTATTCGAATATGAAATGATAGTAAGGCCTAATGGCCGATGTGATGAATGT
66 TTGTAAGTTTATGAGTATTCGAATATGAAATGATAGTAAGGCCTAATGGCCGATGTGATGAATGT
66398635 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
131 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
66398700 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACGGGGCCGAGTGGCCAAC
196 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACGGGGCCGAGTGGCCAAC
66398765 GTGATGGATGTGAAAGTGCATAAATGTGATAAGTCCCGAAGGGCATT
261 GTGATGGATGTGAAAGTGCATAAATGTGATAAGTCCCGAAGGGCATT
66398812 ATAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACTTGAATTCTAAATCGTGATA
1 ATAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACTTGAATTCTAAATCGTGATA
66398877 TTGTAAGTTTATGAGTATTCGAATATGAAATGATAGTAAGGCCTAATGGCCGATGTGATGAATGT
66 TTGTAAGTTTATGAGTATTCGAATATGAAATGATAGTAAGGCCTAATGGCCGATGTGATGAATGT
* * *
66398942 GAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
131 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
66399007 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACGGGGCCGAGTGGCCAAC
196 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACGGGGCCGAGTGGCCAAC
66399072 GTGATGGATGTGAAAGTGCATAAATGTGATAAGTCCCGAAGGGCATT
261 GTGATGGATGTGAAAGTGCATAAATGTGATAAGTCCCGAAGGGCATT
66399119 TGTGTCAGTA
Statistics
Matches: 302, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
307 302 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (307 bp):
ATAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACTTGAATTCTAAATCGTGATA
TTGTAAGTTTATGAGTATTCGAATATGAAATGATAGTAAGGCCTAATGGCCGATGTGATGAATGT
GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACGGGGCCGAGTGGCCAAC
GTGATGGATGTGAAAGTGCATAAATGTGATAAGTCCCGAAGGGCATT
Found at i:66407126 original size:49 final size:48
Alignment explanation
Indices: 66406986--66407129 Score: 162
Period size: 49 Copynumber: 2.9 Consensus size: 48
66406976 TCTATTGTGA
* *
66406986 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTGT
* ** ***
66407037 GATCATGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTG-T
* *
66407086 GGTCACATGTGTAGTACTAAGTTCATGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
66407130 TAGCTTCGGC
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
48 5 0.07
49 37 0.49
50 2 0.03
51 32 0.42
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGT
Found at i:66410167 original size:15 final size:15
Alignment explanation
Indices: 66410147--66410211 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
66410137 GTATCTTGGG
66410147 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
66410162 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
66410177 TTT-TTGTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
66410192 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGA
66410206 TTTCTT
1 TTTCTT
66410212 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 13 0.30
15 27 0.63
16 3 0.07
ACGTcount: A:0.09, C:0.11, G:0.15, T:0.65
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:66410179 original size:30 final size:30
Alignment explanation
Indices: 66410142--66410219 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 30
66410132 GTATTGTATC
66410142 TTGGGTTTCTT-TAT-TCTGGATTTCTTTAT
1 TTGGGTTTCTTGTATCT-TGGATTTCTTTAT
66410171 TCTGGGTTT-TTGTATCTTGGATTTCTTTAT
1 T-TGGGTTTCTTGTATCTTGGATTTCTTTAT
*
66410201 TTGGTTTTCTTGTTATCTT
1 TTGGGTTTCTTG-TATCTT
66410220 TATTCCGTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
29 9 0.21
30 27 0.63
31 7 0.16
ACGTcount: A:0.09, C:0.10, G:0.18, T:0.63
Consensus pattern (30 bp):
TTGGGTTTCTTGTATCTTGGATTTCTTTAT
Found at i:66420498 original size:257 final size:257
Alignment explanation
Indices: 66420042--66420546 Score: 785
Period size: 257 Copynumber: 2.0 Consensus size: 257
66420032 AGAGGCCTCC
** ** * * *
66420042 GAAAGGATAATGGAGGACTTAGACTATTCTCCTGAACAAAAGTTGAAAGGGGCGGTGTCATTGCT
1 GAAAGGATAATAAAGGACTTAGACTATTCAACTAAACAAAAGTTGAAAGGGGCAGTGCCATTGCT
*
66420107 TAGGGAATAAGCTTACCAATGGTGGCTGACAGTGAAAGAGGGCACCCAACCTGAGCAGGTCACTT
66 TAGGGAAGAAGCTTACCAATGGTGGCTGACAGTGAAAGAGGGCACCCAACCTGAGCAGGTCACTT
** * * *
66420172 GGGAGTTTTTCAAAACTGTGTTTCAAGGGAAGTATATGGGTGCGAGTTATGTGGATGCTAGAAGG
131 GGGAGTTTTTCAAAACTACGTTCCAAGGGAAGTATATGGGCGCCAGTTATGTGGATGCTAGAAGG
*
66420237 AAGGAATTCCTAAGCTTGACCCAGGCAAACAAATCTGTGGCGGAGTATGAGGCAGTGCCATT
196 AAGGAATTCCTAAGCTTGACCCAGGCAAACAAATCTGTGGCGAAGTATGAGGCAGTGCCATT
* *
66420299 GAAAGGATAATAAAGGACTTGGACTATTCAATTAAACAAAAGTTGAAAGGGGCAGTGCCATTGCT
1 GAAAGGATAATAAAGGACTTAGACTATTCAACTAAACAAAAGTTGAAAGGGGCAGTGCCATTGCT
* *
66420364 TAGGGAAGAAGCTTACCAGTGGTGGCTGACAGTGAAAGAGGGCACCCAACTTGAGCAGGTCACTT
66 TAGGGAAGAAGCTTACCAATGGTGGCTGACAGTGAAAGAGGGCACCCAACCTGAGCAGGTCACTT
* *
66420429 GGGAGTTTTTCAAAACTACGTTCCAAGGGAAGTATGTGGGCGCCAGTTATGTTGATGCTAGAAGG
131 GGGAGTTTTTCAAAACTACGTTCCAAGGGAAGTATATGGGCGCCAGTTATGTGGATGCTAGAAGG
* * * * *
66420494 AAGGAGTTCCTGAGCTTGACCTAGGGAAACAAATCTGTGGTGAAGTATGAGGC
196 AAGGAATTCCTAAGCTTGACCCAGGCAAACAAATCTGTGGCGAAGTATGAGGC
66420547 GAAATTTCTA
Statistics
Matches: 223, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
257 223 1.00
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (257 bp):
GAAAGGATAATAAAGGACTTAGACTATTCAACTAAACAAAAGTTGAAAGGGGCAGTGCCATTGCT
TAGGGAAGAAGCTTACCAATGGTGGCTGACAGTGAAAGAGGGCACCCAACCTGAGCAGGTCACTT
GGGAGTTTTTCAAAACTACGTTCCAAGGGAAGTATATGGGCGCCAGTTATGTGGATGCTAGAAGG
AAGGAATTCCTAAGCTTGACCCAGGCAAACAAATCTGTGGCGAAGTATGAGGCAGTGCCATT
Found at i:66424966 original size:40 final size:40
Alignment explanation
Indices: 66424911--66425246 Score: 269
Period size: 40 Copynumber: 8.4 Consensus size: 40
66424901 TAACCAGTCT
* * **
66424911 AAGTCCCG-AGAGCATTTGAGCTAGTGGTTAATTCCGGGCC
1 AAGTCCCGAAG-GCATTTGTGCGAGTGACTAATTCCGGGCC
* * *
66424951 AAGTCTCGAAGGCATTCGTGCGAGCT-ACT-ATATCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAG-TGACTAAT-TCCGGGCC
* * *
66424991 AAGTCCCGAAGGCGTTTGTGCGAGCT-A-TTATATCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAG-TGACTAAT-TCCGGGCC
* * *
66425031 AAGTCCCAAAGGCATTTGTGCTAGTGACTAGTTCCGGG-C
1 AAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCC
* * *
66425070 AAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGG-C
1 AAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCC
* * *
66425109 AAGTCCCGAAGGCATTTGCGCGAGTTACTAAATCCGGGCTC
1 AAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC-C
** * * * *
66425150 -AGTCTTGAAGGCATTTGTGCGAGTTACTAAATCTGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCC
* * *
66425189 AAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA--CCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTGA--CTAATTCCGGGCC
*
66425229 ATGTCCCGAAGGCATTTG
1 AAGTCCCGAAGGCATTTG
66425247 AGNNNNNNNN
Statistics
Matches: 252, Mismatches: 33, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
39 75 0.30
40 167 0.66
41 6 0.02
42 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
AAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCC
Found at i:66433698 original size:40 final size:40
Alignment explanation
Indices: 66433654--66433836 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
66433644 TGGCTAATTT
* *
66433654 CGGGCTAAGTCTCGAAGGCATTCGTGCGAGCTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
** *
66433694 CGGGCTAAGTCCCGAAGGTGTTTGTGCGAGCTATTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
* * *
66433734 CAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
* * *
66433773 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
*
66433813 CGGGCTAAATCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
66433837 AGCTAGTGGC
Statistics
Matches: 129, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 36 0.28
40 93 0.72
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
Found at i:66433799 original size:79 final size:80
Alignment explanation
Indices: 66433656--66433836 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 80
66433646 GCTAATTTCG
* * **
66433656 GGCTAAGTCTCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGTGTTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
* * *
66433721 GAGCTATTATATCCA
66 AAGCTACTATAACCA
* *
66433736 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
* *
66433800 AAGTTACTATAACCG
66 AAGCTACTATAACCA
*
66433815 GGCTAAATCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
66433837 AGCTAGTGGC
Statistics
Matches: 89, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 57 0.64
80 32 0.36
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
AAGCTACTATAACCA
Found at i:66433850 original size:40 final size:39
Alignment explanation
Indices: 66433613--66433859 Score: 241
Period size: 40 Copynumber: 6.2 Consensus size: 39
66433603 CGGATGATAA
* * *
66433613 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-ACTATA-T
* * *
66433653 TCGGGCTAAGTCTCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
** *
66433693 CCGGGCTAAGTCCCGAAGGTGTTTGTGCGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
66433733 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
66433772 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* * * *
66433812 CCGGGCTAAATCCCGAAGGCATTTGAGCTAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATAT
66433852 CC-GGCTAA
1 CCGGGCTAA
66433860 ACTCCGAAGG
Statistics
Matches: 178, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
39 43 0.24
40 131 0.74
41 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:66433869 original size:79 final size:80
Alignment explanation
Indices: 66433656--66433859 Score: 225
Period size: 79 Copynumber: 2.6 Consensus size: 80
66433646 GCTAATTTCG
* * * * **
66433656 GGCTAAGTCTCGAAGGCATTCGTGCGAGCT-ACTATATCCGGGCTAAGTCCCGAAGGTGTTTGTG
1 GGCTAAATCCCGAAGGCATTTGAGCGAG-TGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
* * *
66433720 CGAGCTATTATATCCA
65 CAAGCTACTATAACCA
* * * *
66433736 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAATCCCGAAGGCATTTGAGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
* *
66433800 AAGTTACTATAACCG
66 AAGCTACTATAACCA
* *
66433815 GGCTAAATCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 GGCTAAATCCCGAAGGCATTTGAGCGAGTGACTATATCCGGGCTAA
66433860 ACTCCGAAGG
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 73 0.69
80 33 0.31
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
GGCTAAATCCCGAAGGCATTTGAGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
AAGCTACTATAACCA
Found at i:66434622 original size:29 final size:29
Alignment explanation
Indices: 66434580--66434699 Score: 170
Period size: 29 Copynumber: 4.2 Consensus size: 29
66434570 GAAAGCATGT
66434580 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
66434609 ATATGAATGTGATTTGGGCCTAATAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
66434638 ATACGAATGTTATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * * *
66434667 ATTTGAATGAGA-TTGGGCCTAGTGGACC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
66434695 ATATG
1 ATATG
66434700 CGTGTATATA
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 18 0.22
29 62 0.77
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:66440259 original size:29 final size:29
Alignment explanation
Indices: 66440222--66440291 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
66440212 ACCAATTTCA
*
66440222 CTTCGGGCCATGCATATCGGATGATTTGG
1 CTTCGGGCCATGCATATCGGATAATTTGG
* **
66440251 CTTTGGGCCATGTGTATCGGATAATTTGG
1 CTTCGGGCCATGCATATCGGATAATTTGG
66440280 CTTCGGGCCATG
1 CTTCGGGCCATG
66440292 ATAATATATC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.16, C:0.20, G:0.31, T:0.33
Consensus pattern (29 bp):
CTTCGGGCCATGCATATCGGATAATTTGG
Found at i:66449012 original size:43 final size:43
Alignment explanation
Indices: 66448962--66449162 Score: 244
Period size: 43 Copynumber: 4.7 Consensus size: 43
66448952 TGAGATTACA
* * *
66448962 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTGATTGCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-TATGATTTCG
** * *
66449005 CATAAGACCATTTCTGGGACATTGGCATCGTTATATGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
* * *
66449048 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-TATGATTTCG
* * *
66449091 TGTAAGACCATTTATGGGACATTGACATCGTTATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
*
66449134 TGTAAGACCATGTCTAGGACATTGGCATC
1 TGTAAGACCATGTCTGGGACATTGGCATC
66449163 AATATGTGAT
Statistics
Matches: 131, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
42 2 0.02
43 125 0.95
44 4 0.03
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
Found at i:66449181 original size:43 final size:43
Alignment explanation
Indices: 66448955--66449187 Score: 227
Period size: 43 Copynumber: 5.4 Consensus size: 43
66448945 ACTAAGATGA
* *
66448955 GATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGGTA-TGT
* ** * * *
66448998 GATTGCGCATAAGACCATTTCTGGGACATTGGCATCGTTATAT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGGTATGT
** *
66449041 GATTTTGTGTAAGACCATGTCTGGGACATTGGCAT-TGTATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGGTA-TGT
* * * * *
66449084 GATTACGTGTAAGACCATTTATGGGACATTGACATCGTTATAT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGGTATGT
* * **
66449127 GATTTCGTGTAAGACCATGTCTAGGACATTGGCATCAATATGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGGTATGT
* * *
66449170 GATAACATGTAAAACCAT
1 GATTACGTGTAAGACCAT
66449188 ATCTAGGATA
Statistics
Matches: 151, Mismatches: 36, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
42 2 0.01
43 145 0.96
44 4 0.03
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGGTATGT
Found at i:66449187 original size:86 final size:86
Alignment explanation
Indices: 66448962--66449161 Score: 337
Period size: 86 Copynumber: 2.3 Consensus size: 86
66448952 TGAGATTACA
* ** *
66448962 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTGCGCATAAGACCATTTCTGGGACAT
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATTTATGGGACAT
* *
66449027 TGGCATCGTTATATGATTTTG
66 TGACATCGTTATATGATTTCG
66449048 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATTTATGGGACAT
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATTTATGGGACAT
66449113 TGACATCGTTATATGATTTCG
66 TGACATCGTTATATGATTTCG
*
66449134 TGTAAGACCATGTCTAGGACATTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
66449162 CAATATGTGA
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 107 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (86 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATTTATGGGACAT
TGACATCGTTATATGATTTCG
Found at i:66449187 original size:129 final size:128
Alignment explanation
Indices: 66448955--66449208 Score: 285
Period size: 129 Copynumber: 2.0 Consensus size: 128
66448945 ACTAAGATGA
* * * * *
66448955 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTGCGCATAAGACCATTTCT
1 GATTACATGTAAGACCATGTATGGGACATTGACATCGTATTATGATTGCGCATAAGACCATGTCT
* ** **** * * *
66449020 GGGACATTGGCATCGTTATATGATTTTGTGTAAGACCATGTCTGGGACATTGGCATTGTATTGT
66 AGGACATTGGCATCAATATATGATAACATGTAAAACCATATCTAGGACA-TGGCATTGTATTGT
* * * **
66449084 GATTACGTGTAAGACCATTTATGGGACATTGACATCGT-TATATGATTTCGTGTAAGACCATGTC
1 GATTACATGTAAGACCATGTATGGGACATTGACATCGTAT-TATGATTGCGCATAAGACCATGTC
* *
66449148 TAGGACATTGGCATCAATATGTGATAACATGTAAAACCATATCTAGGATATGGCATTGTAT
65 TAGGACATTGGCATCAATATATGATAACATGTAAAACCATATCTAGGACATGGCATTGTAT
66449209 GAGTTATATG
Statistics
Matches: 102, Mismatches: 22, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
128 12 0.12
129 90 0.88
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (128 bp):
GATTACATGTAAGACCATGTATGGGACATTGACATCGTATTATGATTGCGCATAAGACCATGTCT
AGGACATTGGCATCAATATATGATAACATGTAAAACCATATCTAGGACATGGCATTGTATTGT
Found at i:66450896 original size:79 final size:81
Alignment explanation
Indices: 66450787--66450969 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
66450777 TACTCGTTCA
* *
66450787 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
66450850 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
66450867 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
66450930 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
66450946 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
66450970 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:66450969 original size:40 final size:40
Alignment explanation
Indices: 66450766--66450969 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
66450756 CGGAATTTAA
** *
66450766 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66450806 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66450846 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66450885 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
66450925 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
66450965 CCGGA
1 CCGGA
66450970 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:66453204 original size:21 final size:21
Alignment explanation
Indices: 66453180--66453224 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
66453170 AATGAAATGG
*
66453180 TTGTGAATGAGATAGCATATT
1 TTGTGAATGAAATAGCATATT
* * *
66453201 TTGTGTATTAAATGGCATATT
1 TTGTGAATGAAATAGCATATT
66453222 TTG
1 TTG
66453225 GTTGTTTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.44
Consensus pattern (21 bp):
TTGTGAATGAAATAGCATATT
Found at i:66456936 original size:13 final size:12
Alignment explanation
Indices: 66456911--66456944 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
66456901 TTGCCACTAA
66456911 TTAAAAAATATT
1 TTAAAAAATATT
*
66456923 TTAAAAAATAAT
1 TTAAAAAATATT
*
66456935 TTAAATAATA
1 TTAAAAAATA
66456945 CAAATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAAAAAATATT
Found at i:66462189 original size:27 final size:27
Alignment explanation
Indices: 66462127--66462191 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
66462117 GAGCATATTC
66462127 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCATACAAGGGTATTACG
* * *
66462154 GTCAGTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAAGGG-TATTACG
*
66462181 GTCTTTTTACC
1 GTCATTTTACC
66462192 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACG
Found at i:66462275 original size:27 final size:27
Alignment explanation
Indices: 66462245--66462330 Score: 104
Period size: 27 Copynumber: 3.1 Consensus size: 27
66462235 GTAAATCTAC
66462245 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
66462272 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
66462298 AGAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
66462328 AAA
1 AAA
66462331 TTAGGGGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
26 1 0.02
27 22 0.43
28 7 0.14
29 20 0.39
30 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:66462349 original size:27 final size:27
Alignment explanation
Indices: 66462332--66462431 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
66462322 TTTTGTAAAT
66462332 TAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
66462358 TTGAGGGTATTTCGGTAATTTCACAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* *
66462386 CAGTGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
66462413 TAGGGGTATTTTGGTAATT
1 TAGGGGTATTTTGGTAATT
66462432 CTACCCTATA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.03
27 59 0.95
28 1 0.02
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:66462471 original size:27 final size:27
Alignment explanation
Indices: 66462333--66462471 Score: 113
Period size: 27 Copynumber: 5.1 Consensus size: 27
66462323 TTTGTAAATT
* *
66462333 AGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGGTATTTTGGTAATTTCAC-AATCG
* * *
66462361 A-GGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTTGGTAATTTCACAATCG
* * * *
66462387 AGTGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTCACAATCG
* *
66462414 AGGGGTATTTTGGTAATTCTACCCTAT--
1 AGGGGTATTTTGGTAATT-T-CACAATCG
**
66462441 AGGGGTATTTCAGTAATTTCACAATCG
1 AGGGGTATTTTGGTAATTTCACAATCG
66462468 AGGG
1 AGGG
66462472 TAAAACGGTA
Statistics
Matches: 88, Mismatches: 18, Indels: 11
0.75 0.15 0.09
Matches are distributed among these distances:
25 4 0.05
26 4 0.05
27 76 0.86
28 2 0.02
29 2 0.02
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTCACAATCG
Found at i:66462497 original size:27 final size:27
Alignment explanation
Indices: 66462463--66462660 Score: 236
Period size: 27 Copynumber: 7.3 Consensus size: 27
66462453 GTAATTTCAC
*
66462463 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
66462490 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
66462517 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * *
66462544 AATTGAGGGTAAAATGGCAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
66462571 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
66462598 AATCGAGGGTGAAACGTTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
66462625 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
66462652 AATCGAGGG
1 AATCGAGGG
66462661 CATTTCAGTA
Statistics
Matches: 147, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 145 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:66462581 original size:81 final size:81
Alignment explanation
Indices: 66462463--66462660 Score: 288
Period size: 81 Copynumber: 2.4 Consensus size: 81
66462453 GTAATTTCAC
* * * * *
66462463 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
*
66462528 AAACGATAATTCTGTA
66 AAACGATAATTCTATA
* * *
66462544 AATTGAGGGTAAAATGGCAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
*
66462609 AAACGTTAATTCTATA
66 AAACGATAATTCTATA
* *
66462625 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGG
66462661 CATTTCAGTA
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 103 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
AAACGATAATTCTATA
Found at i:66462680 original size:81 final size:81
Alignment explanation
Indices: 66462514--66462680 Score: 208
Period size: 81 Copynumber: 2.1 Consensus size: 81
66462504 TGGTAATTTT
* * * *
66462514 GTAAATCGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAATGGCAATTCTATAAATTGAGG
1 GTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGCAATTCTACAAATCGAGG
* * * *
66462579 GTAAAACGGTAATTTT
66 GCAAAACAGTAATATG
* * *
66462595 GTAAATCGAGGGTGAAACGTTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGG
1 GTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGCAATTCTACAAATCGAGG
***
66462660 GCATTTCAGTAATATG
66 GCAAAACAGTAATATG
66462676 GTAAA
1 GTAAA
66462681 CTAAAGTATT
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (81 bp):
GTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGCAATTCTACAAATCGAGG
GCAAAACAGTAATATG
Found at i:66471880 original size:28 final size:27
Alignment explanation
Indices: 66471836--66471939 Score: 86
Period size: 28 Copynumber: 3.7 Consensus size: 27
66471826 CTGCACAATC
*
66471836 GATGTCTT-GCACGCTAAGTGCTATACCG
1 GATGT-TTCGCACACTAAGTGCTAT-CCG
* *
66471864 GATGTTTCGCACACTAAGTGCCATCCTC
1 GATGTTTCGCACACTAAGTGCTATCC-G
** *
66471892 GATACTTCGCACACTAAGTG-TCATTTCG
1 GATGTTTCGCACACTAAGTGCT-A-TCCG
*
66471920 GATGTTTCACACACTAAGTG
1 GATGTTTCGCACACTAAGTG
66471940 TCATCATCAA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
27 4 0.07
28 55 0.90
29 2 0.03
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (27 bp):
GATGTTTCGCACACTAAGTGCTATCCG
Found at i:66471922 original size:56 final size:56
Alignment explanation
Indices: 66471862--66472026 Score: 237
Period size: 56 Copynumber: 3.0 Consensus size: 56
66471852 AGTGCTATAC
*
66471862 CGGATGTTTCGCACACTAAGTGCCATCCTCGATACTTCGCACACTAAGTGTCATTT
1 CGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCGCACACTAAGTGTCATTT
* * * **
66471918 CGGATGTTTCACACACTAAGTGTCATCATCAATACTTCATACACT--GTGTCATTT
1 CGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCGCACACTAAGTGTCATTT
*
66471972 CGGATGTCTT-GCACACTAAGTGCCATCCTTAATACTTCGCACACTAAGTGTCATT
1 CGGATGT-TTCGCACACTAAGTGCCATCCTCAATACTTCGCACACTAAGTGTCATT
66472027 CGTTTGGTCG
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
54 45 0.48
55 2 0.02
56 47 0.50
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (56 bp):
CGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCGCACACTAAGTGTCATTT
Found at i:66471940 original size:28 final size:29
Alignment explanation
Indices: 66471862--66472025 Score: 112
Period size: 28 Copynumber: 5.9 Consensus size: 29
66471852 AGTGCTATAC
* *
66471862 CGGATGTTTCGCACACTAAGTGCCATCCT
1 CGGATGTTTCGCACACTAAGTGTCATCTT
**
66471891 C-GATACTTCGCACACTAAGTGTCAT-TT
1 CGGATGTTTCGCACACTAAGTGTCATCTT
* *
66471918 CGGATGTTTCACACACTAAGTGTCATCAT
1 CGGATGTTTCGCACACTAAGTGTCATCTT
* ** **
66471947 C-AATACTTCATACACT--GTGTCAT-TT
1 CGGATGTTTCGCACACTAAGTGTCATCTT
*
66471972 CGGATGTCTT-GCACACTAAGTGCCATCCTT
1 CGGATGT-TTCGCACACTAAGTGTCAT-CTT
* **
66472002 --AATACTTCGCACACTAAGTGTCAT
1 CGGATGTTTCGCACACTAAGTGTCAT
66472026 TCGTTTGGTC
Statistics
Matches: 103, Mismatches: 23, Indels: 19
0.71 0.16 0.13
Matches are distributed among these distances:
25 2 0.02
26 14 0.14
27 6 0.06
28 76 0.74
29 3 0.03
30 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (29 bp):
CGGATGTTTCGCACACTAAGTGTCATCTT
Found at i:66476117 original size:5 final size:5
Alignment explanation
Indices: 66476107--66476131 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
66476097 GCGACACTAT
66476107 AAGGA AAGGA AAGGA AAGGA AAGGA
1 AAGGA AAGGA AAGGA AAGGA AAGGA
66476132 GTAAGCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AAGGA
Found at i:66479972 original size:93 final size:93
Alignment explanation
Indices: 66479859--66480030 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
66479849 CGCCCATAAG
* *
66479859 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
66479924 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
66479952 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
66480017 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
66480031 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:66480027 original size:46 final size:46
Alignment explanation
Indices: 66479852--66480027 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
66479842 TGTAACCCGC
* * *
66479852 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
66479898 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
66479948 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
66479991 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
66480028 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:66486559 original size:46 final size:46
Alignment explanation
Indices: 66486496--66486616 Score: 242
Period size: 46 Copynumber: 2.6 Consensus size: 46
66486486 TACATCTCAC
66486496 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
66486542 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
66486588 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
66486617 TGCTCAACCA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
Found at i:66491667 original size:27 final size:27
Alignment explanation
Indices: 66491629--66491682 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
66491619 TGGCACACAA
66491629 AATGGAACATTTAATTACTCAAGCATT
1 AATGGAACATTTAATTACTCAAGCATT
66491656 AATGGAACATTTAATTACTCAAGCATT
1 AATGGAACATTTAATTACTCAAGCATT
66491683 CACATTCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (27 bp):
AATGGAACATTTAATTACTCAAGCATT
Found at i:66496554 original size:14 final size:16
Alignment explanation
Indices: 66496535--66496567 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
66496525 ATGCGATCTT
66496535 ATTTATA-TATGTT-C
1 ATTTATATTATGTTGC
66496549 ATTTATATTATGTTGC
1 ATTTATATTATGTTGC
66496565 ATT
1 ATT
66496568 GCATTGGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 6 0.35
16 4 0.24
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (16 bp):
ATTTATATTATGTTGC
Found at i:66497577 original size:22 final size:22
Alignment explanation
Indices: 66497549--66497591 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
66497539 AAGAGTTCGC
**
66497549 ACAATGCATAGATGAGGTTTGT
1 ACAATGCATAGAAAAGGTTTGT
66497571 ACAATGCATAGAAAAGGTTTG
1 ACAATGCATAGAAAAGGTTTG
66497592 CACATACACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (22 bp):
ACAATGCATAGAAAAGGTTTGT
Found at i:66501244 original size:43 final size:42
Alignment explanation
Indices: 66501169--66501265 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 42
66501159 AAAGGTTACT
* *
66501169 TGTAAGACCATATCTGGGATATGGCATTGATATGAGATGTC-A
1 TGTAAGACCATAACTGGCATATGGCATTGATATGAGAT-TCTA
66501211 TGTAAGACCATAACTAGGCCAT-TGGCATTGATATGAGATTCTA
1 TGTAAGACCATAACT-GG-CATATGGCATTGATATGAGATTCTA
66501254 TGTAAGACCATA
1 TGTAAGACCATA
66501266 TATGGGATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
42 16 0.32
43 32 0.64
44 2 0.04
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATAACTGGCATATGGCATTGATATGAGATTCTA
Found at i:66502524 original size:18 final size:20
Alignment explanation
Indices: 66502488--66502526 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
66502478 AACCACACGG
*
66502488 CCTACCCACACAGGTGTGTC
1 CCTAACCACACAGGTGTGTC
*
66502508 CCTAACCACACGGGTGTGT
1 CCTAACCACACAGGTGTGT
66502527 GACCCCTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.23, T:0.21
Consensus pattern (20 bp):
CCTAACCACACAGGTGTGTC
Found at i:66506635 original size:27 final size:27
Alignment explanation
Indices: 66506597--66506710 Score: 115
Period size: 28 Copynumber: 4.2 Consensus size: 27
66506587 GAGGAAGCGT
*
66506597 TCTGGTGGCTCTGCCATAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
66506624 TCTGGTGGCTCTACCACAAATATCT-A
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
66506650 TTTCTGGTGGCTCTGTCACAATTATCTGTA
1 --TCTGGTGGCTCTGCCACAAATATCTG-A
* ** *
66506680 TCTGGTGACTCTATCAC-AATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
66506706 TCTGG
1 TCTGG
66506711 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.08
27 30 0.41
28 37 0.50
30 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:66506701 original size:55 final size:55
Alignment explanation
Indices: 66506596--66506703 Score: 155
Period size: 55 Copynumber: 2.0 Consensus size: 55
66506586 GGAGGAAGCG
* *
66506596 TTCTGGTGGCTCTGCCATAAATATCTGATCTGGTGGCTCTACCACAAATATCTAT
1 TTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTACCACAAATATCTAT
* * *
66506651 TTCTGGTGGCTCTGTCACAATTATCTGTATCTGGTGACTCTATCAC-AATATCT
1 TTCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGACTCTACCACAAATATCT
66506704 GTTCTGGCAG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
55 31 0.66
56 16 0.34
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (55 bp):
TTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTACCACAAATATCTAT
Found at i:66507828 original size:49 final size:49
Alignment explanation
Indices: 66507756--66507856 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
66507746 ACTTTCATCC
66507756 ACACATCAACATGTTAGGCCATATAGGGTACATCTAAAAATGCATTAAT
1 ACACATCAACATGTTAGGCCATATAGGGTACATCTAAAAATGCATTAAT
66507805 ACACATCAACATGTTAGGCCATATAGGGTACATCTAAAAATGCATTAAT
1 ACACATCAACATGTTAGGCCATATAGGGTACATCTAAAAATGCATTAAT
66507854 ACA
1 ACA
66507857 AGCTATCACT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (49 bp):
ACACATCAACATGTTAGGCCATATAGGGTACATCTAAAAATGCATTAAT
Found at i:66507972 original size:24 final size:24
Alignment explanation
Indices: 66507944--66507999 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
66507934 GCCATTATAT
*
66507944 CAAAATGATAGTTTCTTTTATACC
1 CAAAATGAAAGTTTCTTTTATACC
66507968 CAAAATGAAAGTTTCTTTTATACC
1 CAAAATGAAAGTTTCTTTTATACC
66507992 CAAAATGA
1 CAAAATGA
66508000 GATAGTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (24 bp):
CAAAATGAAAGTTTCTTTTATACC
Found at i:66513071 original size:5 final size:6
Alignment explanation
Indices: 66513058--66513108 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
66513048 TTTATTTTCG
* * *
66513058 TTTATT TTTATT TTTATT TTTATT TTTATT TTTCTG TTTATT TGTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
66513106 TTT
1 TTT
66513109 CTAGACTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:66513109 original size:18 final size:18
Alignment explanation
Indices: 66513043--66513110 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 18
66513033 ATTGAGTCCA
66513043 TTTA-TTTTA-TTTTC-G
1 TTTATTTTTATTTTTCTG
* *
66513058 TTTATTTTTATTTTTATT
1 TTTATTTTTATTTTTCTG
66513076 TTTATTTTTATTTTTCTG
1 TTTATTTTTATTTTTCTG
*
66513094 TTTATTTGTATTTTTCT
1 TTTATTTTTATTTTTCT
66513111 AGACTTTTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
15 4 0.09
16 5 0.11
17 4 0.09
18 32 0.71
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTATTTTTATTTTTCTG
Found at i:66514600 original size:34 final size:34
Alignment explanation
Indices: 66514562--66514627 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
66514552 AATAACAGTC
*
66514562 CAGTAACAGT-TAGGGCCTTAGCTCAATATAGTTT
1 CAGTAACAGTGT-GGGCCTTAGCCCAATATAGTTT
* *
66514596 CAGTAGCAGTGGTGGGCCTTAGCCCATTATAG
1 CAGTAACAGT-GTGGGCCTTAGCCCAATATAG
66514628 CAACAGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 9 0.33
35 17 0.63
36 1 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (34 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATATAGTTT
Found at i:66521341 original size:4 final size:4
Alignment explanation
Indices: 66521322--66521368 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
66521312 ACAATTTCAT
* * *
66521322 TTTA TTTCA GTTA TTTA TTTT TTTA TTTA TTTA TTTC TTT- TTTA TTT
1 TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
66521369 CTTAATTTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
3 3 0.08
4 30 0.83
5 3 0.08
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:66521355 original size:20 final size:20
Alignment explanation
Indices: 66521321--66521369 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
66521311 AACAATTTCA
*
66521321 TTTTATTTCAGTTATTTATTT
1 TTTTATTTCAGTTATTT-CTT
*
66521342 TTTTATTT-ATTTATTTCTT
1 TTTTATTTCAGTTATTTCTT
66521361 TTTTATTTC
1 TTTTATTTC
66521370 TTAATTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.40
20 7 0.28
21 8 0.32
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTATTTCAGTTATTTCTT
Found at i:66521376 original size:19 final size:17
Alignment explanation
Indices: 66521339--66521394 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
66521329 CAGTTATTTA
*
66521339 TTTTTTTATTTATTTATT
1 TTTTTTTATTT-TTAATT
66521357 TCTTTTTTATTTCTTAATT
1 T-TTTTTTATTT-TTAATT
* *
66521376 TTCTTTCATTTTTAATT
1 TTTTTTTATTTTTAATT
66521393 TT
1 TT
66521395 AGCCTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 8 0.24
18 9 0.27
19 16 0.48
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTTATTTTTAATT
Found at i:66521551 original size:19 final size:18
Alignment explanation
Indices: 66521529--66521575 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
66521519 AGCATTCTTA
66521529 TGATTTTTAGTTAGTTATT
1 TGATTTTTAGTTAGTT-TT
*
66521548 TGATTTTTAATTAGTTTT
1 TGATTTTTAGTTAGTTTT
*
66521566 T-ATTTCTAGT
1 TGATTTTTAGT
66521576 ATTAGCTTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 7 0.28
18 3 0.12
19 15 0.60
ACGTcount: A:0.21, C:0.02, G:0.13, T:0.64
Consensus pattern (18 bp):
TGATTTTTAGTTAGTTTT
Found at i:66522963 original size:6 final size:6
Alignment explanation
Indices: 66522952--66523004 Score: 79
Period size: 6 Copynumber: 8.5 Consensus size: 6
66522942 TTTGAGTCCC
*
66522952 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTCTCTT ATTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT -TTTATT
66523002 TTT
1 TTT
66523005 GAAGACTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 35 0.81
7 6 0.14
8 2 0.05
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:66524269 original size:22 final size:23
Alignment explanation
Indices: 66524229--66524275 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
66524219 ACTTTTCATG
66524229 TTTGACTAATGAGTGCTTAATCA
1 TTTGACTAATGAGTGCTTAATCA
66524252 TTTGACTAATG-GTGCTTAATCA
1 TTTGACTAATGAGTGCTTAATCA
66524274 TT
1 TT
66524276 GAATCTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.43
Consensus pattern (23 bp):
TTTGACTAATGAGTGCTTAATCA
Found at i:66535278 original size:46 final size:46
Alignment explanation
Indices: 66535209--66535305 Score: 142
Period size: 46 Copynumber: 2.1 Consensus size: 46
66535199 ATAATCTCAC
* * *
66535209 CCATAATGAGCTCGGAACGCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGCTCGGATGCTT-GCAT
*
66535255 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGCTCGGATGCTTGCAT
66535301 CCATA
1 CCATA
66535306 GGTAAACTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 44 0.96
47 2 0.04
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAATGAACTCGGAACACAACTCAACGAGCTCGGATGCTTGCAT
Found at i:66557861 original size:46 final size:45
Alignment explanation
Indices: 66557808--66558024 Score: 140
Period size: 46 Copynumber: 4.7 Consensus size: 45
66557798 TGTGTGAGCT
*
66557808 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-GAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATGA-GACGAGTC
* *
66557854 AGTGTAAGACCATGTTTGGGACATGGCATCGG--CATTGAGACGAGCGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCA-TGAGACGAG-TC
* * * * * *
66557901 TAGTGTAAGGCATGTCTAGGATATGCATCAGCCTCA--AGATGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATGAGACG--AGTC
* * * * * *
66557948 AGTGTAAAACATGTCTAGAACATGCATCGG-CCATGAAATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCCATGAGACGAGTC
*
66557992 AGTGTAAAACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
66558025 ACCTTACTCC
Statistics
Matches: 135, Mismatches: 20, Indels: 31
0.73 0.11 0.17
Matches are distributed among these distances:
44 13 0.10
45 17 0.13
46 60 0.44
47 26 0.19
48 17 0.13
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATGAGACGAGTC
Found at i:66561218 original size:20 final size:21
Alignment explanation
Indices: 66561195--66561247 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
66561185 ACCTAGTCAG
*
66561195 AAGTATCAATACCCTT-AAGA
1 AAGTATCGATACCCTTGAAGA
*
66561215 AAGTATCGATA-CTTTGAAGA
1 AAGTATCGATACCCTTGAAGA
66561235 AAGTATCGATACC
1 AAGTATCGATACC
66561248 TTTCACCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 3 0.10
20 25 0.86
21 1 0.03
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (21 bp):
AAGTATCGATACCCTTGAAGA
Found at i:66564907 original size:43 final size:43
Alignment explanation
Indices: 66564846--66564965 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
66564836 CAATGTCATA
* * * * **
66564846 TCCCAGATATGGTATTACATGTTATCACATATCGATGCCTCTG
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATG
* * *
66564889 TCCCAGACAGGGTCTTACACGTAATCTCATATAGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATG
* *
66564932 TCCCAAACATGGTCTTACACGAAATCACATATCG
1 TCCCAGACATGGTCTTACACGTAATCACATATCG
66564966 GAAGTCCTAA
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATG
Found at i:66575102 original size:42 final size:43
Alignment explanation
Indices: 66574982--66575104 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
66574972 AAACACATAT
* * * *
66574982 ATCACATA-CAATGCCA-TATCCCAGATATGGTCTTACATGTT
1 ATCACATATCGATGCCACTATCCCAGACATGGTCTTACACGTA
* *
66575023 ATCACATATCGATGCCTCTATCCCAGACAGGGTCTTACACGTA
1 ATCACATATCGATGCCACTATCCCAGACATGGTCTTACACGTA
* *
66575066 ATCTCATATCGATGCCAC-GTCCCAGACATGGTCTTACAC
1 ATCACATATCGATGCCACTATCCCAGACATGGTCTTACAC
66575105 AATATCACAC
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 8 0.11
42 25 0.36
43 37 0.53
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (43 bp):
ATCACATATCGATGCCACTATCCCAGACATGGTCTTACACGTA
Found at i:66578404 original size:48 final size:46
Alignment explanation
Indices: 66578298--66578407 Score: 112
Period size: 48 Copynumber: 2.3 Consensus size: 46
66578288 GGGTTATTAT
* * * * * * *
66578298 GATCTCGTATAAGACCATGTTTAGGACATGGCATCGGTATCGATAC
1 GATCCCGTATAAGAACATGTCTAGCACATGGCATCAGCACCGATAC
*
66578344 GAGGTCCTGTATAAGAACATGTCTAGCACATGGCATCAGCACCATGATAC
1 GA--TCCCGTATAAGAACATGTCTAGCACATGGCATCAGCACC--GATAC
66578394 GATCCCGTATAAGA
1 GATCCCGTATAAGA
66578408 CCACGTTTGG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
46 2 0.04
48 42 0.82
50 7 0.14
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (46 bp):
GATCCCGTATAAGAACATGTCTAGCACATGGCATCAGCACCGATAC
Found at i:66579898 original size:24 final size:22
Alignment explanation
Indices: 66579855--66579898 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
66579845 GTGTCCTCTA
*
66579855 TCTCACACGGGCGTGTCCCTTG
1 TCTCACACGGGCGTGACCCTTG
*
66579877 TCTCTCACGGGCCTGTGACCCT
1 TCTCACACGGG-C-GTGACCCT
66579899 ATTTTGAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 1 0.06
24 7 0.39
ACGTcount: A:0.09, C:0.39, G:0.25, T:0.27
Consensus pattern (22 bp):
TCTCACACGGGCGTGACCCTTG
Found at i:66584612 original size:25 final size:24
Alignment explanation
Indices: 66584574--66584640 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
66584564 GTCATTAAGG
* **
66584574 TTACCAATTTCAGCTCGTATGAGC
1 TTACCGATTTCAGCTCACATGAGC
66584598 TTACCGATTCTCAGCTCACATGAGC
1 TTACCGATT-TCAGCTCACATGAGC
*
66584623 TTACCGTTATTCAGCTCA
1 TTACCGAT-TTCAGCTCA
66584641 AAGAAGCTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 8 0.22
25 28 0.76
26 1 0.03
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (24 bp):
TTACCGATTTCAGCTCACATGAGC
Found at i:66584648 original size:25 final size:25
Alignment explanation
Indices: 66584594--66584651 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
66584584 CAGCTCGTAT
*
66584594 GAGCTTACCGATTCTCAGCTCACAT
1 GAGCTTACCGATTCTCAGCTCACAA
*
66584619 GAGCTTACCG-TTATTCAGCTCA-AA
1 GAGCTTACCGATT-CTCAGCTCACAA
66584643 GAAGCTTAC
1 G-AGCTTAC
66584652 AGTTTACATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (25 bp):
GAGCTTACCGATTCTCAGCTCACAA
Found at i:66587809 original size:16 final size:18
Alignment explanation
Indices: 66587783--66587815 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
66587773 TTAAAAATTA
66587783 AAAATTAAAAAT-TTTAT
1 AAAATTAAAAATATTTAT
66587800 AAAA-TAAAAATATTTA
1 AAAATTAAAAATATTTA
66587816 AAAGTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATTAAAAATATTTAT
Found at i:66587818 original size:25 final size:24
Alignment explanation
Indices: 66587776--66587824 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
66587766 TTGATTCTTA
* *
66587776 AAAATTAAAAATTAAAAATTTTAT
1 AAAATAAAAAATTAAAAAGTTTAT
*
66587800 AAAATAAAAATATTTAAAAGTTTAT
1 AAAATAAAAA-ATTAAAAAGTTTAT
66587825 TTTTCGATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (24 bp):
AAAATAAAAAATTAAAAAGTTTAT
Found at i:66588300 original size:17 final size:17
Alignment explanation
Indices: 66588278--66588311 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
66588268 TCAAGCACAA
66588278 CCTCAAATACAATAAAC
1 CCTCAAATACAATAAAC
66588295 CCTCAAATACAATAAAC
1 CCTCAAATACAATAAAC
66588312 TTGTTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (17 bp):
CCTCAAATACAATAAAC
Found at i:66591424 original size:17 final size:17
Alignment explanation
Indices: 66591382--66591428 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
66591372 AATTTAATTT
66591382 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
66591398 T-ATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
66591416 TAATATAAATAAT
1 TAATATAAATAAT
66591429 ATAAAATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 13 0.48
18 8 0.30
19 2 0.07
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Done.