Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 100 of 318
Found at i:30450863 original size:43 final size:43
Alignment explanation
Indices: 30450815--30451018 Score: 270
Period size: 43 Copynumber: 4.7 Consensus size: 43
30450805 GGTTAAAAAC
* * * *
30450815 ATATGTGGTTACGTGTAAGACCTCGTTTGGGACGTTGGCATAG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* * **
30450858 ATATGTGATTATGTGTAAGACCACGTTTTAGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
30450901 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* *
30450944 ATATGTGATTACATGTAAGACC-CTGTCTGGGACAG-TGACATCG
1 ATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG
30450987 ATATGTGATTA-GTTGTAAGACCACGTCTGGGA
1 ATATGTGATTACG-TGTAAGACCACGTCTGGGA
30451019 TGTAACACCT
Statistics
Matches: 144, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
42 1 0.01
43 141 0.98
44 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
Found at i:30453365 original size:40 final size:40
Alignment explanation
Indices: 30453173--30453358 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
30453163 TCGAATGATG
* * * *
30453173 TCCGGGCTCAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
30453213 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30453253 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30453293 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
30453334 -CCGGGCTATGTCCCGAAGGAATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30453359 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30453365 original size:80 final size:79
Alignment explanation
Indices: 30453226--30453381 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
30453216 GGACTAAGAT
* **
30453226 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGAATTTGAACGAG-TAGCT
30453290 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
30453306 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGAATTTGAACGAGTAGC
1 CCGAAGGCATTCGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGAATTTGAACGAGTAGC
*
30453369 TATATCCGGTTAA
64 TAAATCCGGTTAA
30453382 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 55 0.83
81 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGAATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:30456187 original size:46 final size:46
Alignment explanation
Indices: 30456134--30456309 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
30456124 TATTTGGGCA
30456134 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
30456180 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
30456227 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
30456273 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30456310 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:30456289 original size:93 final size:93
Alignment explanation
Indices: 30456130--30456301 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30456120 GGGATATTTG
* *
30456130 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30456195 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
30456223 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30456288 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
30456302 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:30459278 original size:15 final size:15
Alignment explanation
Indices: 30459258--30459326 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
30459248 GTATCTTGGG
30459258 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
30459273 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
30459288 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
30459303 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
30459318 TTTCTTTAT
1 TTTCTTTAT
30459327 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:30459327 original size:30 final size:30
Alignment explanation
Indices: 30459249--30459336 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
30459239 CATAGTATCG
* * * *
30459249 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
30459279 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
30459309 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
30459337 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:30461773 original size:46 final size:46
Alignment explanation
Indices: 30461720--30461895 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
30461710 TATTTGGGCA
30461720 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
30461766 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
30461813 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
30461859 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30461896 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:30461875 original size:93 final size:93
Alignment explanation
Indices: 30461716--30461887 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30461706 GGGATATTTG
* *
30461716 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30461781 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
30461809 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30461874 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
30461888 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:30469825 original size:40 final size:40
Alignment explanation
Indices: 30469673--30469818 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
30469663 TCGAATGATG
* * * *
30469673 TCCGGGCTCAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
30469713 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30469753 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
30469794 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30469819 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 81 0.89
41 9 0.10
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30469825 original size:80 final size:80
Alignment explanation
Indices: 30469673--30469841 Score: 184
Period size: 80 Copynumber: 2.1 Consensus size: 80
30469663 TCGAATGATG
* * *
30469673 TCCGGGCTCAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTC
**
30469738 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * *
30469753 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACCGGACTAAGAT-CCGAAGGCAT
* *
30469816 TTGAACGAGTAGCTATA
64 TCGAACGAGTAGCTAAA
30469833 TCC-GGTTAA
1 TCCGGGTTAA
30469842 ACTCCGAAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
79 9 0.12
80 59 0.79
81 7 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTC
GAACGAGTAGCTAAA
Found at i:30474404 original size:18 final size:18
Alignment explanation
Indices: 30474383--30474426 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
30474373 CCTCCACCCC
30474383 CTCAAGTTCCTGTAACTT
1 CTCAAGTTCCTGTAACTT
*
30474401 CTCAAGTTCTTGTAACTT
1 CTCAAGTTCCTGTAACTT
30474419 CTCAAGTT
1 CTCAAGTT
30474427 ATACAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (18 bp):
CTCAAGTTCCTGTAACTT
Found at i:30478582 original size:15 final size:15
Alignment explanation
Indices: 30478562--30478627 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 15
30478552 ACTACAAAAC
30478562 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
30478577 ATTTATAATTTTAATAAAT
1 ATTTAT--TATTAAT--AT
*
30478596 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
*
30478611 A-TTAATATTAA-AT
1 ATTTATTATTAATAT
30478624 ATTT
1 ATTT
30478628 TCAATAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.26
15 9 0.21
17 11 0.26
19 8 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:30489968 original size:28 final size:28
Alignment explanation
Indices: 30489937--30490004 Score: 111
Period size: 28 Copynumber: 2.4 Consensus size: 28
30489927 ATTTTCCTTT
30489937 GCACACTTAGTGCTCGATAA-TCAAACTC
1 GCACACTTAGTGCTCGATAACT-AAACTC
*
30489965 GCACACTTAGTGCTCGTTAACTAAACTC
1 GCACACTTAGTGCTCGATAACTAAACTC
30489993 GCACACTTAGTG
1 GCACACTTAGTG
30490005 AAATTTTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (28 bp):
GCACACTTAGTGCTCGATAACTAAACTC
Found at i:30491755 original size:28 final size:28
Alignment explanation
Indices: 30491710--30491778 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
30491700 ATTTAAAACC
*
30491710 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
30491737 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
30491765 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
30491779 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:30493409 original size:20 final size:20
Alignment explanation
Indices: 30493386--30493424 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30493376 CCACATCCAA
*
30493386 TTACAAAATTTTAAAAATCT
1 TTACAAAATATTAAAAATCT
*
30493406 TTACAAAATATTGAAAATC
1 TTACAAAATATTAAAAATC
30493425 GCGAATAAAC
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:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (20 bp):
TTACAAAATATTAAAAATCT
Found at i:30497056 original size:28 final size:28
Alignment explanation
Indices: 30496987--30497087 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
30496977 GACAAGATTG
* * * *
30496987 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
30497017 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
30497045 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
30497074 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
30497088 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:30509715 original size:28 final size:28
Alignment explanation
Indices: 30509646--30509746 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
30509636 GACAAGATTG
* * * *
30509646 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
30509676 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
30509704 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
30509733 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
30509747 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:30514932 original size:28 final size:28
Alignment explanation
Indices: 30514883--30514951 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
30514873 TTTAAAACCC
* *
30514883 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGATAATTTTGCTCTT
30514910 TAGGGGTAATTTCGATAATTTTGCTCTT
1 TAGGGGTAATTTCGATAATTTTGCTCTT
30514938 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
30514952 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGATAATTTTGCTCTT
Found at i:30516592 original size:20 final size:20
Alignment explanation
Indices: 30516569--30516607 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30516559 CCACATCCAA
*
30516569 TTACAAAATTTTAAAAATCT
1 TTACAAAATATTAAAAATCT
*
30516589 TTACAAAATATTGAAAATC
1 TTACAAAATATTAAAAATC
30516608 GCGAATAAAC
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:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (20 bp):
TTACAAAATATTAAAAATCT
Found at i:30517122 original size:43 final size:44
Alignment explanation
Indices: 30517002--30517123 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 44
30516992 AGCTCATACA
* * *
30517002 ATACCAAC-GTCCCAGACGTGGTCTTACATGT-AATTAAATATCG
1 ATACC-ACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* *
30517045 ATGCCACTGTCCCAGACAGGGTCTTACACG-AAATCAAATAT-G
1 ATACCACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
*
30517087 ATACCGA-TGTCCCAGACATGGTATTACACGTAAATCA
1 ATACC-ACTGTCCCAGACATGGTCTTACACGTAAATCA
30517124 TAAGTGGATG
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
42 28 0.42
43 39 0.58
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (44 bp):
ATACCACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
Found at i:30519020 original size:40 final size:41
Alignment explanation
Indices: 30518931--30519121 Score: 278
Period size: 41 Copynumber: 4.7 Consensus size: 41
30518921 CGCTGACTTA
*
30518931 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGC-C
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * * *
30518971 TGAAGGCCCTTCGAAACTAGGTTTGG-TTATGACACTGGCTC
1 -AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
30519012 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
30519053 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
30519094 AAAAGCCTTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
30519122 TAAACCCCAA
Statistics
Matches: 132, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
40 30 0.23
41 102 0.77
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:30519026 original size:81 final size:82
Alignment explanation
Indices: 30518931--30519121 Score: 278
Period size: 81 Copynumber: 2.3 Consensus size: 82
30518921 CGCTGACTTA
* * * * * * *
30518931 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGC-CTGAAGGCCCTTCGAAACTAGGTTT
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC-AAAAGCCCTTCGAAACCAAGCTC
30518995 GG-TTATGACACTGGCTC
65 GGATTATGACACTGGCTC
*
30519012 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCG
30519077 GATTATGACACTGGCTC
66 GATTATGACACTGGCTC
*
30519094 AAAAGCCTTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
30519122 TAAACCCCAA
Statistics
Matches: 99, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
81 56 0.57
82 43 0.43
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (82 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCG
GATTATGACACTGGCTC
Found at i:30527197 original size:44 final size:42
Alignment explanation
Indices: 30527128--30527269 Score: 126
Period size: 44 Copynumber: 3.3 Consensus size: 42
30527118 ATGCATTCTA
* * * *
30527128 GTGTAAGACCACGTCTGGGATGTTGGCATCG-ACTTATGATTTAT
1 GTGTAAGACCACGCCTCGGACGTTGGCATCGTA-TT-TGATTT-C
30527172 GTGTAAGACCACGCCTCGGACGTTGGCATCGTATTTGATTTC
1 GTGTAAGACCACGCCTCGGACGTTGGCATCGTATTTGATTTC
*** * * *
30527214 GTGTAAGACCATATCTGGGACAG-TGGCACCGATATTTGATTAC
1 GTGTAAGACCACGCCTCGGAC-GTTGGCATCG-TATTTGATTTC
*
30527257 ATGTAAGACCACG
1 GTGTAAGACCACG
30527270 TCTGGGATGT
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 24 0.29
43 27 0.33
44 30 0.37
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCACGCCTCGGACGTTGGCATCGTATTTGATTTC
Found at i:30527241 original size:42 final size:43
Alignment explanation
Indices: 30527173--30527276 Score: 113
Period size: 43 Copynumber: 2.4 Consensus size: 43
30527163 ATGATTTATG
** * * * *
30527173 TGTAAGACCACGCCTCGGAC-GTTGGCATCG-TATTTGATTTCG
1 TGTAAGACCACATCTGGGACAG-TGGCACCGATATTTGATTACA
*
30527215 TGTAAGACCATATCTGGGACAGTGGCACCGATATTTGATTACA
1 TGTAAGACCACATCTGGGACAGTGGCACCGATATTTGATTACA
*
30527258 TGTAAGACCACGTCTGGGA
1 TGTAAGACCACATCTGGGA
30527277 TGTTTCCATT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 23 0.45
43 28 0.55
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACAGTGGCACCGATATTTGATTACA
Found at i:30535646 original size:27 final size:28
Alignment explanation
Indices: 30535616--30535670 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
30535606 AAAATTTATT
30535616 ATAAAATAATT-AAAATTCAA-TATTTTA
1 ATAAAATAATTGAAAATT-AATTATTTTA
**
30535643 ATAATTTAATTGAAAATTAATTATTTTA
1 ATAAAATAATTGAAAATTAATTATTTTA
30535671 TAATTAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
ATAAAATAATTGAAAATTAATTATTTTA
Found at i:30535673 original size:27 final size:27
Alignment explanation
Indices: 30535622--30535675 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
30535612 TATTATAAAA
30535622 TAATTAAAATTCAATATTTTAATAATT
1 TAATTAAAATTCAATATTTTAATAATT
30535649 TAATTGAAAATT-AATTATTTT-ATAATT
1 TAATT-AAAATTCAA-TATTTTAATAATT
30535676 AAAGTGTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (27 bp):
TAATTAAAATTCAATATTTTAATAATT
Found at i:30547771 original size:16 final size:15
Alignment explanation
Indices: 30547746--30547779 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
30547736 AAAGTTGATA
*
30547746 ATAATTAATATACATT
1 ATAATAAATATA-ATT
30547762 ATAATAAATATAATT
1 ATAATAAATATAATT
30547777 ATA
1 ATA
30547780 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:30550338 original size:2 final size:2
Alignment explanation
Indices: 30550331--30550362 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
30550321 AATTCATAAC
30550331 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30550363 AGAAGTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30551171 original size:21 final size:21
Alignment explanation
Indices: 30551147--30551204 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
30551137 TTCTCAAATT
*
30551147 CAACAACTTCTTCTTCTTCAG
1 CAACAACTTCTTCTTCTACAG
*
30551168 CAACAACTTCCTCTTCTACAG
1 CAACAACTTCTTCTTCTACAG
*
30551189 CAGCAACTTCCTTCTT
1 CAACAACTT-CTTCTT
30551205 AACAATAGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 27 0.84
22 5 0.16
ACGTcount: A:0.24, C:0.36, G:0.05, T:0.34
Consensus pattern (21 bp):
CAACAACTTCTTCTTCTACAG
Found at i:30555333 original size:49 final size:49
Alignment explanation
Indices: 30555277--30555447 Score: 182
Period size: 49 Copynumber: 3.5 Consensus size: 49
30555267 GTATGCATAA
30555277 TAGCCTGCACTTAGTACTACACATGCGACTAATTATCCGGTACTCGTAG
1 TAGCCTGCACTTAGTACTACACATGCGACTAATTATCCGGTACTCGTAG
*** ** * * * *
30555326 TAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACATAG
1 TAGCCTGCACTTAGTACTACACATGCGA-CTAATTATCCGGTACTCGTAG
* * *
30555376 TAACCTGCACTTAGTACTACACATGCTACCAATTATCCGGTACAT-GTAG
1 TAGCCTGCACTTAGTACTACACATGCGACTAATTATCCGGTAC-TCGTAG
* * *
30555425 TAGCCTACACTTACTACTGCACA
1 TAGCCTGCACTTAGTACTACACA
30555448 CGTGACCTCA
Statistics
Matches: 95, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
49 57 0.60
50 38 0.40
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (49 bp):
TAGCCTGCACTTAGTACTACACATGCGACTAATTATCCGGTACTCGTAG
Found at i:30555721 original size:27 final size:27
Alignment explanation
Indices: 30555681--30555734 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
30555671 AAGTACAACC
* *
30555681 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
30555708 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
30555735 TCACATAGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:30559915 original size:33 final size:33
Alignment explanation
Indices: 30559878--30559965 Score: 131
Period size: 33 Copynumber: 2.7 Consensus size: 33
30559868 GCTTGGGCCC
*
30559878 ACTCTGCTACTGTATAGGGCTAAAGCCCAGACT
1 ACTCTGTTACTGTATAGGGCTAAAGCCCAGACT
*
30559911 ACTCTGTTATTGTATAGGGCTAAAGCCCAGACT
1 ACTCTGTTACTGTATAGGGCTAAAGCCCAGACT
* * *
30559944 TCTCTGTTACTGAATAAGGCTA
1 ACTCTGTTACTGTATAGGGCTA
30559966 CGGCTCAGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (33 bp):
ACTCTGTTACTGTATAGGGCTAAAGCCCAGACT
Found at i:30564521 original size:40 final size:40
Alignment explanation
Indices: 30564461--30564663 Score: 316
Period size: 40 Copynumber: 5.1 Consensus size: 40
30564451 CAATTGAGGA
* * *
30564461 TTATATCCGGGTTAAGTCCCGAAAGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
30564501 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
30564541 TTATTCCCGGGTTAAGTCCTGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
30564581 TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* ** *
30564621 CTATTTTTGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
30564661 TTA
1 TTA
30564664 CATCCGGGCT
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 149 1.00
ACGTcount: A:0.17, C:0.19, G:0.28, T:0.36
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:30566409 original size:2 final size:2
Alignment explanation
Indices: 30566402--30566427 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30566392 TGTGTTATTT
30566402 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
30566428 GGGTAATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30570709 original size:37 final size:37
Alignment explanation
Indices: 30570656--30570759 Score: 174
Period size: 37 Copynumber: 2.8 Consensus size: 37
30570646 CGAATAGTCC
*
30570656 CCACACGTAGTTATCGGGTCTTACCCGGACAA-AATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGA-AATAATCT
*
30570693 CCACACGTAGTCATCGGGTCTTACCCAGAAATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGAAATAATCT
30570730 CCACACGTAGTCATCGGGTCTTACCCGGAA
1 CCACACGTAGTCATCGGGTCTTACCCGGAA
30570760 TATATTTCCA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 2 0.03
37 61 0.97
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGAAATAATCT
Found at i:30570957 original size:48 final size:48
Alignment explanation
Indices: 30570899--30571094 Score: 329
Period size: 48 Copynumber: 4.0 Consensus size: 48
30570889 ATATACACAC
*
30570899 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
30570947 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
30570995 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
30571045 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
30571093 AT
1 AT
30571095 ATTTATCTTG
Statistics
Matches: 139, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
48 93 0.67
50 46 0.33
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:30571058 original size:98 final size:98
Alignment explanation
Indices: 30570908--30571094 Score: 347
Period size: 98 Copynumber: 1.9 Consensus size: 98
30570898 CATCTCCTAC
30570908 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
*
30570973 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACACATACATATCTCATATAT
*
30571006 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
*
30571071 TTCGGCTTTACCACACATATATAT
66 TTCGGCTTTACCACACATACATAT
30571095 ATTTATCTTG
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 86 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (98 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
TTCGGCTTTACCACACATACATATCTCATATAT
Found at i:30575746 original size:63 final size:63
Alignment explanation
Indices: 30575647--30575769 Score: 246
Period size: 63 Copynumber: 2.0 Consensus size: 63
30575637 CTTTCACTCT
30575647 CTTTGATACTGATGTGATTGCTTTGATTGACCCTGGTTCTACTCATTCTTATATATGTGATTG
1 CTTTGATACTGATGTGATTGCTTTGATTGACCCTGGTTCTACTCATTCTTATATATGTGATTG
30575710 CTTTGATACTGATGTGATTGCTTTGATTGACCCTGGTTCTACTCATTCTTATATATGTGA
1 CTTTGATACTGATGTGATTGCTTTGATTGACCCTGGTTCTACTCATTCTTATATATGTGA
30575770 GACTTTTGAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.20, C:0.16, G:0.19, T:0.46
Consensus pattern (63 bp):
CTTTGATACTGATGTGATTGCTTTGATTGACCCTGGTTCTACTCATTCTTATATATGTGATTG
Found at i:30577063 original size:41 final size:41
Alignment explanation
Indices: 30577018--30577135 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
30577008 TGAAAGATAA
30577018 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
30577059 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30577089 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30577130 ATGTAG
1 ATGTAG
30577136 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:30577074 original size:71 final size:71
Alignment explanation
Indices: 30576986--30577149 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30576976 GAGATGTATC
30576986 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30577051 AGGACA
66 AGGACA
30577057 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30577122 AGGACA
66 AGGACA
30577128 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
30577150 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:30583692 original size:41 final size:41
Alignment explanation
Indices: 30583647--30583764 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
30583637 TGAAAGATAA
30583647 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
30583688 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30583718 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30583759 ATGTAG
1 ATGTAG
30583765 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:30583703 original size:71 final size:71
Alignment explanation
Indices: 30583615--30583778 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30583605 GAGATGTATC
30583615 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30583680 AGGACA
66 AGGACA
30583686 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30583751 AGGACA
66 AGGACA
30583757 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
30583779 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:30589614 original size:40 final size:40
Alignment explanation
Indices: 30589556--30589751 Score: 304
Period size: 40 Copynumber: 4.9 Consensus size: 40
30589546 GGACTATATT
* *
30589556 CGGGTTAAGTCCCAAAGGCATTCATGCTGGTTGTTATTTC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTC
30589596 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTA-TTC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTC
*
30589635 CTGGGTTAAGTCCTGAAGGCATTCGTGCTGGTTGTTATTTC
1 C-GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTC
* *
30589676 CGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGCTATTTC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTC
* * *
30589716 CGGGTTAAGTCTCAAAGGCATTTGTGCTGGTTGTTA
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTA
30589752 CATCCGGGCT
Statistics
Matches: 143, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
39 4 0.03
40 135 0.94
41 4 0.03
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (40 bp):
CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTC
Found at i:30589758 original size:40 final size:40
Alignment explanation
Indices: 30589556--30589773 Score: 303
Period size: 40 Copynumber: 5.5 Consensus size: 40
30589546 GGACTATATT
*
30589556 CGGGTTAAGTCCCAAAGGCATTCATGCTGGTTGTTATTTC
1 CGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTGTTATTTC
*
30589596 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTA-TTC
1 CGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTGTTATTTC
**
30589635 CTGGGTTAAGTCCTGAAGGCATTCGTGCTGGTTGTTATTTC
1 C-GGGTTAAGTCCCAAAGGCATTCGTGCTGGTTGTTATTTC
* * *
30589676 CGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGCTATTTC
1 CGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTGTTATTTC
* * **
30589716 CGGGTTAAGTCTCAAAGGCATTTGTGCTGGTTGTTACATC
1 CGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTGTTATTTC
* *
30589756 CGGGCTAAATCCCAAAGG
1 CGGGTTAAGTCCCAAAGG
30589774 TAATTGGGTT
Statistics
Matches: 160, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 4 0.03
40 152 0.95
41 4 0.03
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (40 bp):
CGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTGTTATTTC
Found at i:30593162 original size:80 final size:80
Alignment explanation
Indices: 30593078--30593226 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
30593068 TATGGTAACC
* * * *
30593078 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
30593142 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
30593158 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
30593223 CCGG
66 CCGG
30593227 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:30593168 original size:40 final size:38
Alignment explanation
Indices: 30593119--30593226 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
30593109 ATCACGATTT
*
30593119 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
30593159 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
30593199 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
30593227 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:30601309 original size:77 final size:78
Alignment explanation
Indices: 30601204--30601367 Score: 194
Period size: 77 Copynumber: 2.1 Consensus size: 78
30601194 GGGACTTTAA
* *
30601204 CCCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGG-ATGAATACT-C-GCACGAA
1 CCCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGTAT-AAT-CTCCAGCA-GAA
30601266 -TGCCTTCGGGCTTAG
63 TTGCCTTCGGGCTTAG
* * * *
30601281 CCCGGATATAGCCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGTATAATTTCCAGCATAATT
1 CCCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGTATAATCTCCAGCAGAATT
*
30601345 GTCTTCGGGCTTAG
65 GCCTTCGGGCTTAG
30601359 CCCGGATAT
1 CCCGGATAT
30601368 CATTCAATTT
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
76 2 0.03
77 45 0.60
78 28 0.37
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (78 bp):
CCCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGTATAATCTCCAGCAGAATTG
CCTTCGGGCTTAG
Found at i:30607395 original size:40 final size:39
Alignment explanation
Indices: 30607345--30607530 Score: 185
Period size: 40 Copynumber: 4.7 Consensus size: 39
30607335 TAACCGCAAG
* * * * ***
30607345 CACAATTGCCTTCGGGTCTTAACCTGGATTTGGTAACTT
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTT
* *
30607384 ACACAAATGCCTTTGGGTCTTAGCCCGGATATAACAACTCG
1 -CACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACT-T
*
30607425 CACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCT
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACT-T
* * *
30607465 CACGAATGCCTTCGGGTCTTAGCCCAGATATAATC-ACTAG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACT-T
* *
30607505 CATAAATGCCTTCGGGACTTAGCCCG
1 CACAAATGCCTTCGGGTCTTAGCCCG
30607531 AGTATCATTC
Statistics
Matches: 125, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 124 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (39 bp):
CACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTT
Found at i:30611923 original size:40 final size:39
Alignment explanation
Indices: 30611755--30611925 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
30611745 AGAAATTGAA
* *
30611755 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
30611795 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
30611835 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
30611875 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
30611915 TGATATCCGGG
1 TGATATCCGGG
30611926 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:30613913 original size:8 final size:8
Alignment explanation
Indices: 30613900--30613928 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
30613890 CGACAGCCCA
30613900 CTTTTCAG
1 CTTTTCAG
30613908 CTTTTCAG
1 CTTTTCAG
30613916 CTTTTCAG
1 CTTTTCAG
30613924 CTTTT
1 CTTTT
30613929 GTCGTTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.24, G:0.10, T:0.55
Consensus pattern (8 bp):
CTTTTCAG
Found at i:30616080 original size:21 final size:20
Alignment explanation
Indices: 30616043--30616082 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
30616033 CTTTGAAATA
*
30616043 GGGCACATGCCCATATGGAT
1 GGGCACAAGCCCATATGGAT
*
30616063 GGGCAACAAGCCCGTATGGA
1 GGGC-ACAAGCCCATATGGA
30616083 ACTTGAACAT
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:0.28, C:0.25, G:0.33, T:0.15
Consensus pattern (20 bp):
GGGCACAAGCCCATATGGAT
Found at i:30617398 original size:46 final size:44
Alignment explanation
Indices: 30617202--30617472 Score: 140
Period size: 47 Copynumber: 5.9 Consensus size: 44
30617192 ACATAGGGTG
* * * * * *
30617202 TAATGCCGATGCCATGTCCCAGACATGCTATTACATTGGATCATCCA
1 TAATGTCGATG-CATGTCCCAGACATG-TCTTACACTAGCTC-TCCC
* * *
30617249 TCAA-GTCGATGCCATGTCCCAAACATGGTCTTACACT-GACACGTCTC
1 T-AATGTCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTC-TCCC
* * * * *
30617296 TTA-GCCAATGCATGTCCCAGACATGTCTTATACTAGCT-TACATCT
1 TAATGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-C--CC
* *
30617341 TGA-GGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGCC
1 TAATGTC-GATGCATGTCCCAGACATGTCTTACACTAGCTCTC-CC
* *
30617386 TCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CA
1 T-AATGTCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCCC
* * *
30617432 TAATGTGGCCAATGCATGTCCTAAACATGTCTTACACTAGC
1 TAATGT---CGATGCATGTCCCAGACATGTCTTACACTAGC
30617473 ACACAAATAA
Statistics
Matches: 177, Mismatches: 31, Indels: 33
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 10 0.06
45 25 0.14
46 57 0.32
47 61 0.34
48 22 0.12
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (44 bp):
TAATGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCCC
Found at i:30623455 original size:33 final size:34
Alignment explanation
Indices: 30623382--30623481 Score: 100
Period size: 33 Copynumber: 3.0 Consensus size: 34
30623372 TTGCATATTG
* * *
30623382 TATTGATACTGTAATGGGC-CTAGGCCCTACTGA
1 TATTGTTACTGAAATGGGCTCTAGGCCCAACTGA
* *
30623415 TACTGTTACTG-AATGGGCTCT-GGCCCAAACTGC
1 TATTGTTACTGAAATGGGCTCTAGGCCC-AACTGA
*
30623448 TATTGTTACTGAAATGGGCT-AAGGCCCTAACTGA
1 TATTGTTACTGAAATGGGCTCTAGGCCC-AACTGA
30623482 GACTGAAAGG
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
32 12 0.22
33 25 0.45
34 18 0.33
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (34 bp):
TATTGTTACTGAAATGGGCTCTAGGCCCAACTGA
Found at i:30637812 original size:40 final size:40
Alignment explanation
Indices: 30637747--30637952 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
30637737 TCTTCGGAAT
* ** *
30637747 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
30637786 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
30637826 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGT-
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
30637865 TTAGCCCGGATATAACAAC-CGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
30637904 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
30637944 TTAGCCCGG
1 TTAGCCCGG
30637953 GTATCATTCA
Statistics
Matches: 150, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 19 0.13
39 39 0.26
40 92 0.61
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:30637911 original size:78 final size:78
Alignment explanation
Indices: 30637747--30637952 Score: 281
Period size: 78 Copynumber: 2.6 Consensus size: 78
30637737 TCTTCGGAAT
* * * * *
30637747 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGT-TTAGCCCGGATATAACAACTCGCAC
30637811 AAATGCCTTCGGGTC
64 AAATGCCTTCGGGTC
*
30637826 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTTTAGCCCGGATATAACAAC-CGCACA
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTTTAGCCCGGATATAACAACTCGCACA
30637890 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
* *
30637904 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGG
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTC-GGGTTTAGCCCGG
30637953 GTATCATTCA
Statistics
Matches: 114, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
78 51 0.45
79 34 0.30
80 29 0.25
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (78 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTTTAGCCCGGATATAACAACTCGCACAA
ATGCCTTCGGGTC
Found at i:30645803 original size:40 final size:40
Alignment explanation
Indices: 30645739--30645906 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
30645729 TCTTCGAAAT
* ** *
30645739 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
30645778 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
30645818 TTAGCCCAGATATAACAACTCGCACAAATGCCTTTGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
30645858 TTAGCCCGGATATAATC-ACTAGCATAAATACCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
30645898 TTAGCCCGG
1 TTAGCCCGG
30645907 GTATCATTCA
Statistics
Matches: 109, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 3 0.03
40 105 0.96
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:30652413 original size:43 final size:42
Alignment explanation
Indices: 30652297--30652416 Score: 127
Period size: 41 Copynumber: 2.9 Consensus size: 42
30652287 TAGGATTTCT
* * *
30652297 GATATGTGATTACGTGTAAGGCCATATCTGGGACATCGGCATC
1 GATATGTGATTACATGTAAGACCATGTCTGGGACAT-GGCATC
* * *
30652340 G-TATTTGATT-CATGTAAGACCTTGTTTGGGACAGTGGCATC
1 GATATGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATC
** *
30652381 GATATGTGATTACATGTAATTCCACGTCTGGGACAT
1 GATATGTGATTACATGTAAGACCATGTCTGGGACAT
30652417 TGGCGTTGTA
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
41 25 0.40
42 18 0.29
43 19 0.31
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (42 bp):
GATATGTGATTACATGTAAGACCATGTCTGGGACATGGCATC
Found at i:30652489 original size:56 final size:55
Alignment explanation
Indices: 30652427--30652615 Score: 233
Period size: 56 Copynumber: 3.4 Consensus size: 55
30652417 TGGCGTTGTA
*
30652427 CGATATGTGTGTACGAGTAAGACCATGTTTAATACGTTGACATCGATATGTGATTT
1 CGATATGTGTGTACGAGTAAGACCA-GTTTAATACGTTGGCATCGATATGTGATTT
* *
30652483 CGATATGTGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA-TT
1 CGATATGTGTGTACGAGTAAGACCA-GTTTAATACGTTGGCATCGATATGTGATTT
* * * *
30652538 CTGATGTGTGTGT--GAGTAAGACACA-TTTAGTGCGTTGGCATCGATATGTGATTC
1 C-GATATGTGTGTACGAGTAAGAC-CAGTTTAATACGTTGGCATCGATATGTGATTT
* *
30652592 CGATATGTGTTTACGAGTAGGACC
1 CGATATGTGTGTACGAGTAAGACC
30652616 CTATCTGGGA
Statistics
Matches: 116, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
53 33 0.28
54 11 0.09
55 13 0.11
56 59 0.51
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (55 bp):
CGATATGTGTGTACGAGTAAGACCAGTTTAATACGTTGGCATCGATATGTGATTT
Found at i:30653970 original size:13 final size:14
Alignment explanation
Indices: 30653942--30653974 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
30653932 CATTTCGACC
*
30653942 ATGTTTATATTTAT
1 ATGTTTATATTGAT
30653956 ATGTTT-TATTGAT
1 ATGTTTATATTGAT
30653969 ATGTTT
1 ATGTTT
30653975 GTTTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (14 bp):
ATGTTTATATTGAT
Found at i:30665419 original size:29 final size:29
Alignment explanation
Indices: 30665353--30665471 Score: 143
Period size: 29 Copynumber: 4.2 Consensus size: 29
30665343 CACATACCTG
* * * *
30665353 TATATGGCCCACTAGACCC-AATTATATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
30665381 CACATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
30665410 TATATGGCCCTTTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
30665439 TATATGGACCTTTAGGCCCAAATCACA-T
1 TATATGGCCCATTAGGCCCAAATCACATT
30665467 TATAT
1 TATAT
30665472 TCATGCTCAC
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 21 0.26
29 59 0.74
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:30673290 original size:51 final size:51
Alignment explanation
Indices: 30673213--30673392 Score: 288
Period size: 51 Copynumber: 3.5 Consensus size: 51
30673203 TGGACTTCCG
* * * *
30673213 TACACGGGCAGACCACACGTCTGTGTCCTTTTAGTAGAATCGAGCACGACT
1 TACACAGGTAGACCACACGCCCGTGTCCTTTTAGTAGAATCGAGCACGACT
* * *
30673264 TACATAGGTAGACCACACGCCAGTGTCCTTTTAGTAGAATTGAGCACGACT
1 TACACAGGTAGACCACACGCCCGTGTCCTTTTAGTAGAATCGAGCACGACT
30673315 TACACAGGTAGACCACACGCCCGTGTCCTTTTAGTAGAATCGAGCACGACT
1 TACACAGGTAGACCACACGCCCGTGTCCTTTTAGTAGAATCGAGCACGACT
*
30673366 TACACAAGTAGACCACACGCCCGTGTC
1 TACACAGGTAGACCACACGCCCGTGTC
30673393 TATTTAACAG
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 119 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (51 bp):
TACACAGGTAGACCACACGCCCGTGTCCTTTTAGTAGAATCGAGCACGACT
Found at i:30676419 original size:39 final size:40
Alignment explanation
Indices: 30676327--30676462 Score: 184
Period size: 40 Copynumber: 3.4 Consensus size: 40
30676317 CAATTATTTG
* *
30676327 TGGCACTTAGTGTGCGATACGACATAGCTTTGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
30676367 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTAT-TA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* * * * * *
30676406 TGGCACTTAGTGTGAGGTTTGAGATAGCTTCAGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
*
30676446 TGGCACTTAGTCTGCGA
1 TGGCACTTAGTGTGCGA
30676463 GACATTGAGT
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 34 0.40
40 51 0.60
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
Found at i:30679267 original size:48 final size:48
Alignment explanation
Indices: 30679106--30679415 Score: 264
Period size: 47 Copynumber: 6.5 Consensus size: 48
30679096 TTCATATAAT
* *
30679106 GATGCCATAGCCCAGCTATGGTCTT--ACG---CATAT-TCATATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACATATC
*
30679148 GATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCACATATC
* *
30679197 GATGCCATAGCCCA-CTATGGTCTTACATGGATCACATATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACATATC
* *
30679244 GATGCCATAGCCCAGCTACGGTCTTACACGAATCACATATCTCAT-T-
1 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACATATC
* * ** * * * ** *
30679290 GATGCAATATCCCATATATGGTCTTATACAGTAGCGTATATCAC--ACC
1 GATGCCATAGCCCAGCTATGGTCTTACAC-GAATCACATATCACATATC
* * * * * *
30679337 GATGCCATATCCCAGATATGGTCTTATATAGAAGCACATAATCACATCTCTCC
1 GATGCCATAGCCCAGCTATGGTCTTACA-CGAATCACAT-ATCACA--TAT-C
*
30679390 AATGCCATAGCCCAGCTATGGTCTTA
1 GATGCCATAGCCCAGCTATGGTCTTA
30679416 TATGGAAATC
Statistics
Matches: 217, Mismatches: 33, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
42 24 0.11
44 3 0.01
46 23 0.11
47 73 0.34
48 49 0.23
49 21 0.10
53 24 0.11
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (48 bp):
GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACATATC
Found at i:30685520 original size:46 final size:46
Alignment explanation
Indices: 30685467--30685583 Score: 207
Period size: 46 Copynumber: 2.5 Consensus size: 46
30685457 TGGGCATTCG
*
30685467 AACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACATCTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCTA
* *
30685513 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCTA
30685559 AACTCGTTGAGTTGAGTCCGAGTTC
1 AACTCGTTGAGTTGAGTCCGAGTTC
30685584 GTGAAATGTA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCTA
Found at i:30690016 original size:40 final size:40
Alignment explanation
Indices: 30689972--30690105 Score: 205
Period size: 40 Copynumber: 3.4 Consensus size: 40
30689962 TAGTTATTTG
* * *
30689972 TGGCACTTAGTATGCAATACGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
30690012 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* * *
30690052 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
*
30690092 CGGCACTTAGTGTG
1 TGGCACTTAGTGTG
30690106 TAAGATATCA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
Found at i:30691354 original size:21 final size:22
Alignment explanation
Indices: 30691328--30691368 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
30691318 CACTTGACAC
30691328 AGGGGC-ACACGCCAGTGTGGG
1 AGGGGCAACACGCCAGTGTGGG
30691349 AGGGGCAACACGCCAGTGTG
1 AGGGGCAACACGCCAGTGTG
30691369 ACCAATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.22, C:0.24, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCAGTGTGGG
Found at i:30693344 original size:46 final size:45
Alignment explanation
Indices: 30693257--30693426 Score: 139
Period size: 46 Copynumber: 3.7 Consensus size: 45
30693247 TCATCTCGTA
* * * * * *
30693257 GCCGATGCATATCCCAAGCACGTCTTACAGTGGCTTACGTCTCAAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCCT-CGTCTCAAG
* * *
30693303 GTCGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCGAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGC-CTCGTCTCAAG
* *
30693349 GCCGATGCCATGTCCCAGACATGGTCTTACAC-AGGCTC-TCAT-AATGTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCCTCGTC-TCAA---G
*
30693397 GCCGATGCATGTCCCAGACATGTCTTACAC
1 GCCGATGCATGTCCCAAACATGTCTTACAC
30693427 ACTCGTCTCG
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
45 3 0.03
46 54 0.52
47 30 0.29
48 16 0.16
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (45 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCCTCGTCTCAAG
Found at i:30693408 original size:47 final size:48
Alignment explanation
Indices: 30693349--30693498 Score: 165
Period size: 47 Copynumber: 3.3 Consensus size: 48
30693339 TCGTCTCGAT
*
30693349 GCCGATGCCATGTCCCAGACATGGTCTTACACAGGCTCTCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACAAGCTCTCATAATGTG
** *
30693397 GCCGATG-CATGTCCCAGACAT-GTCTTACACACTCGTCTCGAT-A-CT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACAAGC-TCTC-ATAATGTG
*
30693442 --C-ATGCCATGTCCCAGACATGGTATTACACAAGCTCTCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACAAGCTCTCATAATGTG
*
30693487 GCCTATG-CATGT
1 GCCGATGCCATGT
30693499 AATACCCCGT
Statistics
Matches: 85, Mismatches: 7, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
42 5 0.06
43 20 0.24
44 11 0.13
46 12 0.14
47 25 0.29
48 12 0.14
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACAAGCTCTCATAATGTG
Found at i:30693469 original size:90 final size:93
Alignment explanation
Indices: 30693305--30693498 Score: 297
Period size: 90 Copynumber: 2.1 Consensus size: 93
30693295 GTCTCAAGGT
*
30693305 CGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCGATGCCGATGCCATGTCCCAGACA
1 CGATGCATGTCCCAAACATGTCTTA-ACTAGCACTCGTCTCGATACCGATGCCATGTCCCAGACA
* *
30693370 TGGTCTTACACAGGCTCTCATAATGTGGC
65 TGGTATTACACAAGCTCTCATAATGTGGC
*
30693399 CGATGCATGTCCCAGACATGTCTT-AC-A-CACTCGTCTCGATACTC-ATGCCATGTCCCAGACA
1 CGATGCATGTCCCAAACATGTCTTAACTAGCACTCGTCTCGATAC-CGATGCCATGTCCCAGACA
30693460 TGGTATTACACAAGCTCTCATAATGTGGC
65 TGGTATTACACAAGCTCTCATAATGTGGC
*
30693489 CTATGCATGT
1 CGATGCATGT
30693499 AATACCCCGT
Statistics
Matches: 94, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
90 67 0.71
91 2 0.02
92 2 0.02
94 23 0.24
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (93 bp):
CGATGCATGTCCCAAACATGTCTTAACTAGCACTCGTCTCGATACCGATGCCATGTCCCAGACAT
GGTATTACACAAGCTCTCATAATGTGGC
Found at i:30703036 original size:40 final size:40
Alignment explanation
Indices: 30702970--30703120 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
30702960 AAATTGAATG
* *
30702970 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * * ****
30703009 ATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
30703049 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
30703089 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
30703121 ACGTGATTAT
Statistics
Matches: 88, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 16 0.18
40 70 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:30708152 original size:46 final size:48
Alignment explanation
Indices: 30708079--30708294 Score: 179
Period size: 46 Copynumber: 4.6 Consensus size: 48
30708069 GGTAGGGTGT
* * * *
30708079 CGATGCCATATCCCAAATATGGT-TTACACTGACTA-TCATCTCG-TAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACT-ACTACTCATCTCGAT-GC
* * *
30708126 TGATG-CATGTCCCAGACAT-GTCTTACACTAGTACTCGTCTCGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTACTACTCATCTCGATGC
*
30708172 CGATGCCATGTCCCAGACATGGTCTTACAC-AGGCT-CTCATAAT-G-TGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTA--CTACTCAT-CTCGAT-GC
*
30708220 CGATG-CATGTCCC-GAACAT-GTCTTACACTAGC-ACTCGTCTCGATGC
1 CGATGCCATGTCCCAG-ACATGGTCTTACACTA-CTACTCATCTCGATGC
*
30708266 TGATGCCATGTCCCAGACATGGTCTTACA
1 CGATGCCATGTCCCAGACATGGTCTTACA
30708295 TAAGCTCTCA
Statistics
Matches: 138, Mismatches: 14, Indels: 33
0.75 0.08 0.18
Matches are distributed among these distances:
45 6 0.04
46 53 0.38
47 47 0.34
48 30 0.22
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTACTACTCATCTCGATGC
Found at i:30708222 original size:48 final size:46
Alignment explanation
Indices: 30708127--30708331 Score: 174
Period size: 47 Copynumber: 4.4 Consensus size: 46
30708117 TCTCGTAGTT
* *
30708127 GATGCATGTCCCAGACAT-GTCTTACACTAG-TACTCGT-CTCGAT-GCC
1 GATGCATGTCCCAGACATGGTCTTACAC-AGCT-CTCATAAT-G-TGGCC
30708173 GATGCCATGTCCCAGACATGGTCTTACACAGGCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACATGGTCTTACACA-GCTCTCATAATGTGGCC
* * * *
30708221 GATGCATGTCCC-GAACAT-GTCTTACACTAGCACTCGT-CTCGAT-GCT
1 GATGCATGTCCCAG-ACATGGTCTTACAC-AGCTCTCATAAT-G-TGGCC
*
30708267 GATGCCATGTCCCAGACATGGTCTTACATAAGCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACATGGTCTTACA-CAGCTCTCATAATGTGGCC
*
30708315 GATGCATGTCCTAGACA
1 GATGCATGTCCCAGACA
30708332 CGTCATACAC
Statistics
Matches: 131, Mismatches: 12, Indels: 31
0.75 0.07 0.18
Matches are distributed among these distances:
45 1 0.01
46 27 0.21
47 55 0.42
48 45 0.34
49 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGGTCTTACACAGCTCTCATAATGTGGCC
Found at i:30708239 original size:94 final size:94
Alignment explanation
Indices: 30708127--30708345 Score: 359
Period size: 94 Copynumber: 2.3 Consensus size: 94
30708117 TCTCGTAGTT
*
30708127 GATGCATGTCCCAGACATGTCTTACACTAGTACTCGTCTCGATGCCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGATGCCGATGCCATGTCCCAGACAT
*
30708192 GGTCTTACACAGGCTCTCATAATGTGGCC
66 GGTCTTACACAAGCTCTCATAATGTGGCC
*
30708221 GATGCATGTCCC-GAACATGTCTTACACTAGCACTCGTCTCGATGCTGATGCCATGTCCCAGACA
1 GATGCATGTCCCAG-ACATGTCTTACACTAGCACTCGTCTCGATGCCGATGCCATGTCCCAGACA
*
30708285 TGGTCTTACATAAGCTCTCATAATGTGGCC
65 TGGTCTTACACAAGCTCTCATAATGTGGCC
* * *
30708315 GATGCATGTCCTAGACACGTCATACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
30708346 CCACAATAAC
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
93 1 0.01
94 114 0.98
95 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (94 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGATGCCGATGCCATGTCCCAGACAT
GGTCTTACACAAGCTCTCATAATGTGGCC
Found at i:30714706 original size:14 final size:14
Alignment explanation
Indices: 30714684--30714714 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30714674 ACTAAGAAGA
*
30714684 TAAATATAAATACT
1 TAAAAATAAATACT
30714698 TAAAAATAAATACT
1 TAAAAATAAATACT
30714712 TAA
1 TAA
30714715 GAAAGGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAAATAAATACT
Found at i:30716536 original size:17 final size:18
Alignment explanation
Indices: 30716503--30716537 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30716493 CCATGTCATT
*
30716503 TGCCCATGTGGGCCCACA
1 TGCCCATGTGAGCCCACA
30716521 TGCCCATGT-AGCCCACA
1 TGCCCATGTGAGCCCACA
30716538 AGGCCCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.40, G:0.23, T:0.17
Consensus pattern (18 bp):
TGCCCATGTGAGCCCACA
Found at i:30719347 original size:29 final size:29
Alignment explanation
Indices: 30719314--30719473 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
30719304 GTGACGAGAT
30719314 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
30719343 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
30719372 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
30719401 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
30719430 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
30719459 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
30719474 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:30724422 original size:27 final size:27
Alignment explanation
Indices: 30724392--30724451 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
30724382 CAGTTTGGAA
*
30724392 AATGATCGTAATACCCCTGTAGGGCAG
1 AATGACCGTAATACCCCTGTAGGGCAG
* *
30724419 AATGACCGTAATACCCCTGTATGGTAG
1 AATGACCGTAATACCCCTGTAGGGCAG
30724446 AATGAC
1 AATGAC
30724452 GATTATGCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (27 bp):
AATGACCGTAATACCCCTGTAGGGCAG
Found at i:30727841 original size:20 final size:20
Alignment explanation
Indices: 30727818--30727855 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30727808 CACATCCAAA
*
30727818 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
30727838 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
30727856 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:30729425 original size:10 final size:10
Alignment explanation
Indices: 30729410--30729434 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30729400 TTCAATAAAA
30729410 CATTTCAAAT
1 CATTTCAAAT
30729420 CATTTCAAAT
1 CATTTCAAAT
30729430 CATTT
1 CATTT
30729435 GAAAGTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (10 bp):
CATTTCAAAT
Found at i:30733860 original size:29 final size:30
Alignment explanation
Indices: 30733798--30733864 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
30733788 TATACCAGCT
*
30733798 CATATTTTTCATTATTTCACACATTTACCA
1 CATAATTTTCATTATTTCACACATTTACCA
* *
30733828 CATAATTTTCATT-TTTCTCA-ATTTAACCC
1 CATAATTTTCATTATTTCACACATTT-ACCA
30733857 CATAATTT
1 CATAATTT
30733865 GCAATTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 4 0.12
29 17 0.52
30 12 0.36
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (30 bp):
CATAATTTTCATTATTTCACACATTTACCA
Found at i:30735289 original size:43 final size:43
Alignment explanation
Indices: 30735170--30735289 Score: 154
Period size: 44 Copynumber: 2.8 Consensus size: 43
30735160 CATAGGATTC
30735170 CGATATGTGATT-CATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATGTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
* * ** *
30735212 CGATTTGTGATTTACGTGTAAGACCTTGTTTGGGATAG-TGGCAT
1 CGATATGTGA-TTACATGTAAGACCACGTCTGGGAT-GTTGGCAT
*
30735256 CGATATGTGATTACATGTAAGACCACATCTGGGA
1 CGATATGTGATTACATGTAAGACCACGTCTGGGA
30735290 CATTGGTGTT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 9 0.14
43 21 0.33
44 33 0.52
45 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (43 bp):
CGATATGTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
Found at i:30741989 original size:27 final size:26
Alignment explanation
Indices: 30741941--30742000 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
30741931 GCGAGGATGC
*
30741941 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
30741968 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
30741994 CAGATAT
1 CAGATAT
30742001 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:30742045 original size:71 final size:67
Alignment explanation
Indices: 30741968--30742109 Score: 194
Period size: 67 Copynumber: 2.1 Consensus size: 67
30741958 TCACCAGATA
* * *
30741968 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
30742033 GGCTGC
62 GGCTGC
* * *
30742039 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGTGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
30742104 GC
66 GC
30742106 CAGA
1 CAGA
30742110 ATGCTTCCCC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
67 40 0.62
71 25 0.38
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:30742087 original size:27 final size:26
Alignment explanation
Indices: 30742039--30742090 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
30742029 GCGAGGCTGC
*
30742039 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
30742065 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
30742091 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:30742771 original size:27 final size:27
Alignment explanation
Indices: 30742741--30742821 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
30742731 ATCGGTAGTC
* *
30742741 CTACCCTACTGGGGTATTTCAATAATT
1 CTACCCTACAGGGGTATTTCAGTAATT
** *
30742768 CTACCCTACAGGGGTATTTTGGTATTT
1 CTACCCTACAGGGGTATTTCAGTAATT
*
30742795 CTACCCTACAAGGGTATTTCAGTAATT
1 CTACCCTACAGGGGTATTTCAGTAATT
30742822 TTGTCAATCG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (27 bp):
CTACCCTACAGGGGTATTTCAGTAATT
Found at i:30742781 original size:54 final size:54
Alignment explanation
Indices: 30742715--30742821 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
30742705 ATAGTCATTT
**
30742715 TACCCTCTAGGGGTAAATCGGTAGTCCTACCCTACTGGGGTATTTCAATAATTC
1 TACCCTCTAGGGGTAAATCGGTAGTCCTACCCTACAAGGGTATTTCAATAATTC
** * * * *
30742769 TACCCTAC-AGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCAGTAATT
1 TACCCT-CTAGGGGTAAATCGGTAGTCCTACCCTACAAGGGTATTTCAATAATT
30742822 TTGTCAATCG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
54 43 0.98
55 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (54 bp):
TACCCTCTAGGGGTAAATCGGTAGTCCTACCCTACAAGGGTATTTCAATAATTC
Found at i:30742835 original size:27 final size:27
Alignment explanation
Indices: 30742805--30742903 Score: 67
Period size: 27 Copynumber: 3.7 Consensus size: 27
30742795 CTACCCTACA
30742805 AGGGTATTTCAGTAATTTTGTCAATCG
1 AGGGTATTTCAGTAATTTTGTCAATCG
*** * * *
30742832 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTCAGTAATTTTGTCAATCG
* * *
30742859 AGGCTACTTT-GGTAATTTT-ACAAGTCG
1 AGGGTA-TTTCAGTAATTTTGTCAA-TCG
* *
30742886 AGAGTATTTTAGTAATTT
1 AGGGTATTTCAGTAATTT
30742904 CATAAATTAG
Statistics
Matches: 53, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
26 5 0.09
27 48 0.91
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTGTCAATCG
Found at i:30742919 original size:27 final size:27
Alignment explanation
Indices: 30742866--30743171 Score: 237
Period size: 27 Copynumber: 11.4 Consensus size: 27
30742856 TCGAGGCTAC
* * *
30742866 TTTGGTAATTTTAC-AAGTCGAGAGTAT
1 TTTGGTAATTTTACAAACTAG-GGGTAT
* * * *
30742893 TTTAGTAATTTCATAAATTAGGGGTAT
1 TTTGGTAATTTTACAAACTAGGGGTAT
* *
30742920 TTTGGTATTTTTGCAAACTAGGGGTAT
1 TTTGGTAATTTTACAAACTAGGGGTAT
*
30742947 TTTGGTAATTTTACAAACCAGGGGTAT
1 TTTGGTAATTTTACAAACTAGGGGTAT
* * *
30742974 TTTGGAAATTTTATAAACTAAGGGTAT
1 TTTGGTAATTTTACAAACTAGGGGTAT
* * *
30743001 TTTAGTAATTTTACAAACCAGGGATAT
1 TTTGGTAATTTTACAAACTAGGGGTAT
*
30743028 TTTGGTAATTTTAC-AACTGGGGGTAT
1 TTTGGTAATTTTACAAACTAGGGGTAT
** *
30743054 TTCAGTAATTTTGCAAACT-GAGGGTAT
1 TTTGGTAATTTTACAAACTAG-GGGTAT
* * * *
30743081 TTCGGTAATTTTACAAA-TCGATGATAT
1 TTTGGTAATTTTACAAACTAG-GGGTAT
* * * * *
30743108 TTGGGTAATTTTATAAAC-CGAGGTTAC
1 TTTGGTAATTTTACAAACTAG-GGGTAT
* *
30743135 TTTCGTAATTTTAC-AACTGGGGGTAT
1 TTTGGTAATTTTACAAACTAGGGGTAT
**
30743161 TTCAGTAATTT
1 TTTGGTAATTT
30743172 GGTAAACTAA
Statistics
Matches: 224, Mismatches: 49, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
26 38 0.17
27 182 0.81
28 4 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
TTTGGTAATTTTACAAACTAGGGGTAT
Found at i:30743091 original size:107 final size:107
Alignment explanation
Indices: 30742872--30743171 Score: 309
Period size: 107 Copynumber: 2.8 Consensus size: 107
30742862 CTACTTTGGT
* * * * ** * * *
30742872 AATTTTACAAGTCGAGAGTATTTTAGTAATTTCATAAATTAGGGGTATTTTGGTATTTTTGCAAA
1 AATTTTACAAATCAAGGGTATTTTAGTAATTTTATAAACCAGGGATATTTTGGTAATTTTAC-AA
* ** *
30742937 CTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGA
65 CTGGGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTCGGA
* *
30742980 AATTTTATAAA-CTAAGGGTATTTTAGTAATTTTACAAACCAGGGATATTTTGGTAATTTTACAA
1 AATTTTACAAATC-AAGGGTATTTTAGTAATTTTATAAACCAGGGATATTTTGGTAATTTTACAA
* * *
30743044 CTGGGGGTATTTCAGTAATTTTGCAAA-CTGAGGGTATTTCGGT
65 CTGGGGGTATTTCAGTAATTTTACAAACCAG-GGGTATTTCGGA
* * * ** * * *
30743087 AATTTTACAAATCGATGATATTTGGGTAATTTTATAAACC-GAGGTTACTTTCGTAATTTTACAA
1 AATTTTACAAATCAAGGGTATTTTAGTAATTTTATAAACCAG-GGATATTTTGGTAATTTTACAA
30743151 CTGGGGGTATTTCAGTAATTT
65 CTGGGGGTATTTCAGTAATTT
30743172 GGTAAACTAA
Statistics
Matches: 160, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
106 3 0.02
107 107 0.67
108 50 0.31
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (107 bp):
AATTTTACAAATCAAGGGTATTTTAGTAATTTTATAAACCAGGGATATTTTGGTAATTTTACAAC
TGGGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTCGGA
Found at i:30752665 original size:40 final size:40
Alignment explanation
Indices: 30752620--30752786 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
30752610 CGGAATATAA
30752620 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
30752660 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
30752700 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
30752740 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
30752779 CCGGATAT
1 CCGGATAT
30752787 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:30753628 original size:17 final size:19
Alignment explanation
Indices: 30753605--30753650 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
30753595 AAGAAGCATG
30753605 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
30753623 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
30753641 AATCATGCTC
1 AATCATGCTC
30753651 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:30758172 original size:40 final size:39
Alignment explanation
Indices: 30758004--30758183 Score: 161
Period size: 40 Copynumber: 4.5 Consensus size: 39
30757994 AGAAATTGAA
* *
30758004 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
30758044 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
30758084 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
30758124 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
*
30758164 TGATATCCGGG-TAAGTCCCG
1 TGATATCCGGGCTAAGACCCG
30758184 TTGGCCTTGG
Statistics
Matches: 115, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 12 0.10
40 95 0.83
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:30766197 original size:40 final size:39
Alignment explanation
Indices: 30766029--30766199 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
30766019 AGAAATTGAA
* *
30766029 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
30766069 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
30766109 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
30766149 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
30766189 TGATATCCGGG
1 TGATATCCGGG
30766200 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:30771145 original size:2 final size:2
Alignment explanation
Indices: 30771138--30771164 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30771128 ATGTTACACT
30771138 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
30771165 CCTATAAGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30777244 original size:18 final size:17
Alignment explanation
Indices: 30777221--30777254 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
30777211 TAGTTGTGCC
30777221 GTTTTCTCTTCTGTATTA
1 GTTTTCTCTTCT-TATTA
30777239 GTTTTCTCTTCTTATT
1 GTTTTCTCTTCTTATT
30777255 TTCTTCCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (17 bp):
GTTTTCTCTTCTTATTA
Found at i:30778422 original size:24 final size:24
Alignment explanation
Indices: 30778376--30778422 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
30778366 TTGTAATATG
* * * *
30778376 AAAATGACCGTTTTGCCCGTAGGT
1 AAAATGACCATTATACCCCTAGGT
30778400 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
30778423 GTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:30778473 original size:9 final size:9
Alignment explanation
Indices: 30778460--30778519 Score: 57
Period size: 9 Copynumber: 6.2 Consensus size: 9
30778450 TTTTGATAAA
30778460 CATGATATG
1 CATGATATG
*
30778469 TATGATATG
1 CATGATATG
30778478 CACATGATATG
1 --CATGATATG
30778489 CATGATATG
1 CATGATATG
*
30778498 CACATGATATA
1 --CATGATATG
*
30778509 TATGATATG
1 CATGATATG
30778518 CA
1 CA
30778520 CATGAGATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
9 25 0.61
11 16 0.39
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (9 bp):
CATGATATG
Found at i:30778484 original size:20 final size:20
Alignment explanation
Indices: 30778459--30778524 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
30778449 ATTTTGATAA
30778459 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
30778479 ACATGATATGCATGATATGC
1 ACATGATATGTATGATATGC
*
30778499 ACATGATATATATGATATGC
1 ACATGATATGTATGATATGC
30778519 ACATGA
1 ACATGA
30778525 GATATTCATA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30778486 original size:11 final size:11
Alignment explanation
Indices: 30778470--30778524 Score: 73
Period size: 11 Copynumber: 5.4 Consensus size: 11
30778460 CATGATATGT
30778470 ATGATATGCAC
1 ATGATATGCAC
30778481 ATGATATG--C
1 ATGATATGCAC
30778490 ATGATATGCAC
1 ATGATATGCAC
*
30778501 ATGATAT--AT
1 ATGATATGCAC
30778510 ATGATATGCAC
1 ATGATATGCAC
30778521 ATGA
1 ATGA
30778525 GATATTCATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 17 0.45
11 21 0.55
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:30778606 original size:23 final size:23
Alignment explanation
Indices: 30778576--30778718 Score: 214
Period size: 23 Copynumber: 6.1 Consensus size: 23
30778566 AGGAAGTGCA
30778576 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
30778599 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
30778622 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
30778646 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
30778669 AAAGGGCTTATGCCCCATTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* * * *
30778692 AAAAAGTCTTTTGCCCTAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
30778716 AAA
1 AAA
30778719 AGAGGCTAGG
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
23 70 0.64
24 40 0.36
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:30778667 original size:47 final size:46
Alignment explanation
Indices: 30778576--30778718 Score: 214
Period size: 47 Copynumber: 3.1 Consensus size: 46
30778566 AGGAAGTGCA
*
30778576 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
30778622 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
* * * * *
30778669 AAAGGGCTTATGCCCCATTTATTAAAAAGTCTTTTGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCCCCAGTTATT
30778716 AAA
1 AAA
30778719 AGAGGCTAGG
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
46 22 0.25
47 66 0.74
48 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:30778968 original size:31 final size:31
Alignment explanation
Indices: 30778933--30778996 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
30778923 CGTTTACAGT
30778933 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
30778964 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
30778995 AA
1 AA
30778997 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:30782408 original size:24 final size:24
Alignment explanation
Indices: 30782376--30782423 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
30782366 AGATAAACAT
30782376 AATTAGGGGTGTTTAAAGTGCAAA
1 AATTAGGGGTGTTTAAAGTGCAAA
* *
30782400 AATTGGGGGTGTTTAAATTGCAAA
1 AATTAGGGGTGTTTAAAGTGCAAA
30782424 TAGACCCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.31
Consensus pattern (24 bp):
AATTAGGGGTGTTTAAAGTGCAAA
Found at i:30783650 original size:46 final size:46
Alignment explanation
Indices: 30783548--30783686 Score: 163
Period size: 46 Copynumber: 3.0 Consensus size: 46
30783538 GTTATTTGTG
** * * *
30783548 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAA
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGTATCGAGATGTA
* *
30783596 AGCTAGTGTAAGACATGTCTGGGGCATGCATCAGTATCGAGATGTA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGTATCGAGATGTA
* *
30783642 AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCTA-CGAGATGT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAG-TATCGAGATGT
30783687 GTCAATGTAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
46 52 0.66
47 15 0.19
48 12 0.15
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAGTATCGAGATGTA
Found at i:30785555 original size:22 final size:22
Alignment explanation
Indices: 30785524--30785598 Score: 114
Period size: 22 Copynumber: 3.4 Consensus size: 22
30785514 GTGCCAAAGG
*
30785524 CACACAGGCCTGTCCCTATGTC
1 CACACGGGCCTGTCCCTATGTC
30785546 CACACGGGCCTGTCCCTATGTC
1 CACACGGGCCTGTCCCTATGTC
* * *
30785568 CACACGAGCCTGTCCTTATATC
1 CACACGGGCCTGTCCCTATGTC
30785590 CACACGGGC
1 CACACGGGC
30785599 GTGTGACCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.19, C:0.40, G:0.20, T:0.21
Consensus pattern (22 bp):
CACACGGGCCTGTCCCTATGTC
Found at i:30797750 original size:3 final size:3
Alignment explanation
Indices: 30797742--30797791 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
30797732 CTAAAGAATA
30797742 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30797790 AA
1 AA
30797792 AGGGAAAGAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:30800974 original size:48 final size:46
Alignment explanation
Indices: 30800897--30801043 Score: 179
Period size: 48 Copynumber: 3.0 Consensus size: 46
30800887 TGTCCTTAGG
* *
30800897 GATTACATTGAGTTGGCTTCGGACAATGATATTGGCACTTCGGGTGCAA
1 GATT-CATTGAGTT-GCTTCGG-CCATGATATTGGCACTTAGGGTGCAA
* *
30800946 GATTCATTGAGTTAGCTTTGGTCCATGATATTGGCACTTTA-GGTGCGA
1 GATTCATTGAGTT-GCTTCGG-CCATGATATTGGCAC-TTAGGGTGCAA
30800994 GATTCATTGAGTTGACTTCGAGCCATGATATTGGCACTTAGGGTGCAA
1 GATTCATTGAGTTG-CTTCG-GCCATGATATTGGCACTTAGGGTGCAA
30801042 GA
1 GA
30801044 CTTCCGAGTA
Statistics
Matches: 86, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
47 4 0.05
48 75 0.87
49 7 0.08
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (46 bp):
GATTCATTGAGTTGCTTCGGCCATGATATTGGCACTTAGGGTGCAA
Found at i:30806484 original size:31 final size:30
Alignment explanation
Indices: 30806429--30806503 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
30806419 CATAGTTTCA
* * * *
30806429 CTATAGTTTTCAGAATCTAAAGTTTCATAGT
1 CTATAG-TTTCACAGTCTAAAGTTTCAAAAT
* *
30806460 CTATTTGTTTCACAGTCTATAGTTTCAAAAT
1 CTA-TAGTTTCACAGTCTAAAGTTTCAAAAT
30806491 CTATAGTTTCACA
1 CTATAGTTTCACA
30806504 ATCACAATCT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
30 9 0.25
31 25 0.69
32 2 0.06
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.43
Consensus pattern (30 bp):
CTATAGTTTCACAGTCTAAAGTTTCAAAAT
Found at i:30806506 original size:15 final size:15
Alignment explanation
Indices: 30806429--30806506 Score: 75
Period size: 15 Copynumber: 5.1 Consensus size: 15
30806419 CATAGTTTCA
*
30806429 CTATAGTTTTCAGAAT
1 CTATAG-TTTCACAAT
* * *
30806445 CTAAAGTTTCATAGT
1 CTATAGTTTCACAAT
* *
30806460 CTATTTGTTTCACAGT
1 CTA-TAGTTTCACAAT
*
30806476 CTATAGTTTCAAAAT
1 CTATAGTTTCACAAT
30806491 CTATAGTTTCACAAT
1 CTATAGTTTCACAAT
30806506 C
1 C
30806507 ACAATCTAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
15 34 0.67
16 17 0.33
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (15 bp):
CTATAGTTTCACAAT
Found at i:30807757 original size:24 final size:24
Alignment explanation
Indices: 30807725--30807792 Score: 118
Period size: 24 Copynumber: 2.8 Consensus size: 24
30807715 ATTGTGCTAT
*
30807725 GTGAAATAAGACCATGGCATCTAA
1 GTGAAATAAGTCCATGGCATCTAA
30807749 GTGAAATAAGTCCATGGCATCTAA
1 GTGAAATAAGTCCATGGCATCTAA
*
30807773 GTGACATAAGTCCATGGCAT
1 GTGAAATAAGTCCATGGCAT
30807793 TGTGCTAAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (24 bp):
GTGAAATAAGTCCATGGCATCTAA
Found at i:30807889 original size:51 final size:51
Alignment explanation
Indices: 30807828--30808026 Score: 267
Period size: 51 Copynumber: 3.9 Consensus size: 51
30807818 TGAACCTTAG
30807828 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
* * * * *
30807879 GAATATAATAGCTTTAGACACAAGTGTGATACTATGTCTAA-GCCACTTTTT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGT-GAAGGCCACTTTAT
* * * *
30807930 GAGTATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCATTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
* *
30807981 GAATAAAATAGTTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
30808027 CATGTATCCG
Statistics
Matches: 129, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
50 3 0.02
51 124 0.96
52 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.31
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
Found at i:30810288 original size:24 final size:24
Alignment explanation
Indices: 30810261--30810353 Score: 102
Period size: 24 Copynumber: 3.9 Consensus size: 24
30810251 TAACACTGCA
*
30810261 CGTTGTGGCCAAGCCACTCAATAT
1 CGTTGTGGACAAGCCACTCAATAT
* * *
30810285 CGTTATGGTCAAGCCACT-AGTTAGT
1 CGTTGTGGACAAGCCACTCA-ATA-T
30810310 -GTTGTGGACAAGCCACTC-ATAT
1 CGTTGTGGACAAGCCACTCAATAT
*
30810332 CGTTGTGGATAAGCCACTCAAT
1 CGTTGTGGACAAGCCACTCAAT
30810354 TTTTTCAGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
22 1 0.02
23 20 0.35
24 35 0.61
25 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (24 bp):
CGTTGTGGACAAGCCACTCAATAT
Found at i:30810496 original size:42 final size:42
Alignment explanation
Indices: 30810449--30810545 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
30810439 GTAGTTGTGC
*
30810449 TTAACATGAAAATCAAATCTAAGATCAACATAGTTAGCATGT
1 TTAACATGAAAATCAAATATAAGATCAACATAGTTAGCATGT
* * * * * * *
30810491 TTAACAT-ACAAATCATATATCAGTTTATCATTGTTGGCATGT
1 TTAACATGA-AAATCAAATATAAGATCAACATAGTTAGCATGT
30810533 TTAACATGAAAAT
1 TTAACATGAAAAT
30810546 AGTCAGCATG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 43 0.96
43 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (42 bp):
TTAACATGAAAATCAAATATAAGATCAACATAGTTAGCATGT
Found at i:30810585 original size:66 final size:66
Alignment explanation
Indices: 30810478--30810611 Score: 241
Period size: 66 Copynumber: 2.0 Consensus size: 66
30810468 TAAGATCAAC
* *
30810478 ATAGTTAGCATGTTTAACATACAAATCATATATCAGTTTATCATTGTTGGCATGTTTAACATGAA
1 ATAGTCAGCATGTTTAACATACAAATCATATATCAGCTTATCATTGTTGGCATGTTTAACATGAA
30810543 A
66 A
*
30810544 ATAGTCAGCATGTTTAACATACAAATCATATCTCAGCTTATCATTGTTGGCATGTTTAACATGAA
1 ATAGTCAGCATGTTTAACATACAAATCATATATCAGCTTATCATTGTTGGCATGTTTAACATGAA
30810609 A
66 A
30810610 AT
1 AT
30810612 CAAATATCAA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (66 bp):
ATAGTCAGCATGTTTAACATACAAATCATATATCAGCTTATCATTGTTGGCATGTTTAACATGAA
A
Found at i:30814350 original size:15 final size:15
Alignment explanation
Indices: 30814330--30814360 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
30814320 CGTATAGTCG
30814330 CTACATTTTGAAATC
1 CTACATTTTGAAATC
30814345 CTACATTTTGAAATC
1 CTACATTTTGAAATC
30814360 C
1 C
30814361 GAGGTAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (15 bp):
CTACATTTTGAAATC
Found at i:30814808 original size:50 final size:50
Alignment explanation
Indices: 30814607--30814876 Score: 187
Period size: 46 Copynumber: 5.7 Consensus size: 50
30814597 GAAAGCCAGA
* * * ** * * *
30814607 GTAAGACCATGTCTGGGACATGGCAGCGCCA-TTG-AGACAAGTGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCACTCGAAGATGAGAGCCAAT
* * * *
30814655 GTAAGA-CATGTCTGGGACAT-ACATCAGC-CTCG-AGACGTA-AGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCACTCGAAGATG-AGAGCCAAT
* * *
30814701 ATAAGA-CATGTCTGGGACAT-GCATCGG--CTACG-AGAT--GTGTCAAT
1 GTAAGACCATGTCTGGGACATGGCATCGGCACT-CGAAGATGAGAGCCAAT
* ** *
30814745 GTAAGACCATGTCTGGGACATGGCATCGGCACT-GTTATG-TGAGAGTTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCACTCG--AAGATGAGAGCCAAT
* *
30814795 GTAAGACCATGTCTGGGATATGGCATCGGC-CTCGAAGATGATAGCCAAT
1 GTAAGACCATGTCTGGGACATGGCATCGGCACTCGAAGATGAGAGCCAAT
*
30814844 GTAAGACCATGTCTGGGACATGGCATCAGCACT
1 GTAAGACCATGTCTGGGACATGGCATCGGCACT
30814877 TTACCGATGA
Statistics
Matches: 178, Mismatches: 28, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 52 0.29
47 15 0.08
48 11 0.06
49 38 0.21
50 37 0.21
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCACTCGAAGATGAGAGCCAAT
Found at i:30814850 original size:99 final size:94
Alignment explanation
Indices: 30814702--30814876 Score: 262
Period size: 99 Copynumber: 1.8 Consensus size: 94
30814692 TAAGCCAGTA
*
30814702 TAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCAATGTAAGACCATGTCTGGGACATG
1 TAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGCCAATGTAAGACCATGTCTGGGACATG
*
30814767 GCATCGGCACTGTTATGTGAGAGTTAGTG
66 GCATCAGCACTGTTATGTGAGAGTTAGTG
*
30814796 TAAGACCATGTCTGGGATATGGCATCGGCCT-CGAAGATGATAGCCAATGTAAGACCATGTCTGG
1 TAAGA-CATGTCTGGGACAT-GCATCGG-CTACG-AGATG-T-GCCAATGTAAGACCATGTCTGG
30814860 GACATGGCATCAGCACT
60 GACATGGCATCAGCACT
30814877 TTACCGATGA
Statistics
Matches: 72, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
94 5 0.07
95 13 0.18
96 9 0.12
97 7 0.10
98 1 0.01
99 37 0.51
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (94 bp):
TAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGCCAATGTAAGACCATGTCTGGGACATG
GCATCAGCACTGTTATGTGAGAGTTAGTG
Found at i:30821402 original size:7 final size:7
Alignment explanation
Indices: 30821390--30821414 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30821380 AATTTTGACT
30821390 AAAATAG
1 AAAATAG
30821397 AAAATAG
1 AAAATAG
30821404 AAAATAG
1 AAAATAG
30821411 AAAA
1 AAAA
30821415 AGGAAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAATAG
Found at i:30825072 original size:44 final size:44
Alignment explanation
Indices: 30824959--30825080 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 44
30824949 GACGAGTGCT
*
30824959 AGTATAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTAAGCC
1 AGTATAAGACATGTCTGGGACATGCATC-GGCTCGAGACGT-AGCC
* *
30825005 AGTATAAGACATGTCTGGGACATGCATCGGCTACGAGATGT-GTC
1 AGTATAAGACATGTCTGGGACATGCATCGGCT-CGAGACGTAGCC
*
30825049 AGTGTAAGACCATGTCT-GGACATGGCATCGGC
1 AGTATAAGA-CATGTCTGGGACAT-GCATCGGC
30825081 ACGGTTATGT
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
44 16 0.23
45 18 0.26
46 35 0.51
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (44 bp):
AGTATAAGACATGTCTGGGACATGCATCGGCTCGAGACGTAGCC
Done.