Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 116 of 373
Found at i:37872211 original size:21 final size:22
Alignment explanation
Indices: 37872185--37872235 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
37872175 GTTTTATACT
37872185 TTAATTAATCTTGATTTAAT-A
1 TTAATTAATCTTGATTTAATGA
37872206 TTAATTAATCTTGATTTAATGA
1 TTAATTAATCTTGATTTAATGA
37872228 -TAATTAAT
1 TTAATTAAT
37872236 TCTTTAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (22 bp):
TTAATTAATCTTGATTTAATGA
Found at i:37878331 original size:30 final size:30
Alignment explanation
Indices: 37878297--37878366 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
37878287 ATACAGGCAG
37878297 AGACACGGTCATGTGTCTCAGCCGTGTGGA
1 AGACACGGTCATGTGTCTCAGCCGTGTGGA
37878327 AGACACGGTCATGTGTCTCAGCCGTGTGGA
1 AGACACGGTCATGTGTCTCAGCCGTGTGGA
*
37878357 GGACACGGTC
1 AGACACGGTC
37878367 TAGCACATGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.20, C:0.24, G:0.34, T:0.21
Consensus pattern (30 bp):
AGACACGGTCATGTGTCTCAGCCGTGTGGA
Found at i:37879348 original size:17 final size:19
Alignment explanation
Indices: 37879316--37879350 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
37879306 ACGTTTGGGC
37879316 ACTAAATTTAGTAAAAAGG
1 ACTAAATTTAGTAAAAAGG
37879335 ACTAAA-TT-GTAAAAAG
1 ACTAAATTTAGTAAAAAG
37879351 TGCAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (19 bp):
ACTAAATTTAGTAAAAAGG
Found at i:37880416 original size:42 final size:43
Alignment explanation
Indices: 37880357--37880477 Score: 149
Period size: 42 Copynumber: 2.8 Consensus size: 43
37880347 TAGGATTAGT
37880357 TGAGATTAT-GTGTAAGACCATATCTGGGATATGGCAAT-GATA
1 TGAGATT-TCGTGTAAGACCATATCTGGGATATGGCAATCGATA
* *
37880399 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC-ATCGATA
1 TGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCAATCGATA
** * *
37880442 TGAGATCCCATGTAAGACCATATCTAGGATATGGCA
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCA
37880478 TTGGTACGGT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
41 1 0.01
42 33 0.49
43 33 0.49
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (43 bp):
TGAGATTTCGTGTAAGACCATATCTGGGATATGGCAATCGATA
Found at i:37880456 original size:43 final size:42
Alignment explanation
Indices: 37880367--37880477 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 42
37880357 TGAGATTATG
* ** *
37880367 TGTAAGACCATATCTGGGATATGGCAATGATATGAGATTTCG
1 TGTAAGACCATAGCTGGGATATGGCAATGATATGAGATCCCA
*
37880409 TGTAAGACCATAGCTGGGCTATTGGC-ATCGATATGAGATCCCA
1 TGTAAGACCATAGCTGGGATA-TGGCAAT-GATATGAGATCCCA
* *
37880452 TGTAAGACCATATCTAGGATATGGCA
1 TGTAAGACCATAGCTGGGATATGGCA
37880478 TTGGTACGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 25 0.43
43 33 0.57
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATAGCTGGGATATGGCAATGATATGAGATCCCA
Found at i:37885194 original size:47 final size:47
Alignment explanation
Indices: 37885125--37885248 Score: 230
Period size: 47 Copynumber: 2.6 Consensus size: 47
37885115 ATATTTGAGT
37885125 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGCAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGCAACTAGGCA
* *
37885172 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGCAACTAGGCA
37885219 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
37885249 CTTATGGATG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGCAACTAGGCA
Found at i:37890419 original size:80 final size:80
Alignment explanation
Indices: 37890322--37890485 Score: 319
Period size: 80 Copynumber: 2.0 Consensus size: 80
37890312 GATGTTTTAT
37890322 GGTATAATATGAAACTTTAAATTGTGTTAAACAACTTTTGCTAAACGATTTTACGTGAAAACGAG
1 GGTATAATATGAAACTTTAAATTGTGTTAAACAACTTTTGCTAAACGATTTTACGTGAAAACGAG
37890387 TAAAATGACATAAAC
66 TAAAATGACATAAAC
37890402 GGTATAATATGAAACTTTAAATTGTGTTAAACAACTTTTGCTAAACGATTTTACGTGAAAACGAG
1 GGTATAATATGAAACTTTAAATTGTGTTAAACAACTTTTGCTAAACGATTTTACGTGAAAACGAG
*
37890467 TAAAATGACATAATC
66 TAAAATGACATAAAC
37890482 GGTA
1 GGTA
37890486 AAAATACCTA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 83 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (80 bp):
GGTATAATATGAAACTTTAAATTGTGTTAAACAACTTTTGCTAAACGATTTTACGTGAAAACGAG
TAAAATGACATAAAC
Found at i:37893172 original size:49 final size:49
Alignment explanation
Indices: 37893109--37893234 Score: 162
Period size: 49 Copynumber: 2.6 Consensus size: 49
37893099 AGATGCCGAC
* * * *
37893109 GCCATGTCCAAGACAGGTCTTACACTGAATTTCATATATTGAGGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGAATCTCATATATCGAGGTCAAT
** ** * *
37893158 GCTGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGATGTCAAT
1 GCCATGTCCCAGACAGGTCTTACACTGAATCTCATATATCGAGGTCAAT
37893207 GCCATGTCCCAGACAGGTCTTACACTGA
1 GCCATGTCCCAGACAGGTCTTACACTGA
37893235 CAGACAACAA
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 64 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.29
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGAATCTCATATATCGAGGTCAAT
Found at i:37893323 original size:48 final size:48
Alignment explanation
Indices: 37893257--37893376 Score: 177
Period size: 48 Copynumber: 2.5 Consensus size: 48
37893247 TGACGCCATC
* *
37893257 TCCCAAACAGATCTTACACTAGCTTGTACATCTTGAAGCTAATGCATG
1 TCCCAAACATATCTTACACTAGCTTGTACATCTCGAAGCTAATGCATG
* * * *
37893305 TCCTAGACATATCTTACACTAGCTTGTATATCTCGAAGCTGATGCATG
1 TCCCAAACATATCTTACACTAGCTTGTACATCTCGAAGCTAATGCATG
*
37893353 TCCCAAACATGTCTTACACTAGCT
1 TCCCAAACATATCTTACACTAGCT
37893377 CTCATAATGT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (48 bp):
TCCCAAACATATCTTACACTAGCTTGTACATCTCGAAGCTAATGCATG
Found at i:37896750 original size:27 final size:27
Alignment explanation
Indices: 37896720--37896897 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 27
37896710 TTATTGAGCC
* *
37896720 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
37896747 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
37896774 CGCACACTTAGTGCCACATAGTCCAACT
1 CGCACACTTAGTGCTACATAAT-CAACT
** ** *
37896802 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
37896829 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
37896856 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
*
37896883 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
37896898 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 102 0.80
28 26 0.20
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:37896859 original size:82 final size:81
Alignment explanation
Indices: 37896741--37896896 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
37896731 TGCTATATAA
* *
37896741 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCCAA-TCGCA
37896806 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
37896823 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCCAATCGCA
*
37896887 CCCTTAGTGC
65 CACTTAGTGC
37896897 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCCAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37904777 original size:27 final size:27
Alignment explanation
Indices: 37904747--37904923 Score: 169
Period size: 27 Copynumber: 6.5 Consensus size: 27
37904737 TTATTGAGCC
* * *
37904747 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCCACATAATCAACT
* * *
37904774 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCCACATAATCAACT
*
37904801 CGCACACTTAGTGCCACATAGTCCAACT
1 CGCACACTTAGTGCCACATAAT-CAACT
** *
37904829 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCCACATAATCAACT
* **
37904856 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAATCAACT
* *
37904883 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCCACATAATC-AACT
*
37904910 CGCACCCTTAGTGC
1 CGCACACTTAGTGC
37904924 TGTACAATTT
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.02
27 100 0.78
28 27 0.21
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAATCAACT
Found at i:37904886 original size:82 final size:81
Alignment explanation
Indices: 37904768--37904923 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
37904758 TGCTATATAA
* *
37904768 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCCAA-TCGCA
37904833 CACTTAGTGCCACATGG
65 CACTTAGTGCCACATGG
* * ** *
37904850 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCCAATCGCA
*
37904914 CCCTTAGTGC
65 CACTTAGTGC
37904924 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCCAATCGCAC
ACTTAGTGCCACATGG
Found at i:37906977 original size:20 final size:20
Alignment explanation
Indices: 37906954--37907006 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
37906944 TACACGGGCA
37906954 TGTCCCAAGCCACACAAGCG
1 TGTCCCAAGCCACACAAGCG
* **
37906974 TGTCTCAAGCCACACGGGCG
1 TGTCCCAAGCCACACAAGCG
37906994 TGTCCCAAGCCAC
1 TGTCCCAAGCCAC
37907007 GCAAATGTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.40, G:0.23, T:0.13
Consensus pattern (20 bp):
TGTCCCAAGCCACACAAGCG
Found at i:37909694 original size:40 final size:40
Alignment explanation
Indices: 37909657--37909841 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
37909647 GCTACTCGTT
*
37909657 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
37909697 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
37909737 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
37909776 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
37909817 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37909842 CATCATTTGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.63
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:37909801 original size:79 final size:80
Alignment explanation
Indices: 37909659--37909839 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
37909649 TACTCGTTCA
* **
37909659 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
37909724 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* **
37909739 AATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
37909801 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
37909818 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
37909840 GACATCATTT
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 4 0.05
79 57 0.66
80 25 0.29
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:37912524 original size:40 final size:40
Alignment explanation
Indices: 37912455--37912530 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
37912445 TCTATGTTCG
* *
37912455 GCACTAAGTGTGTGATTTGAAATAACTTCGGCTATAAATA
1 GCACTAAGTGTGCGAATTGAAATAACTTCGGCTATAAATA
* *
37912495 GCACTAAGTGTGCGAATTGGAATAGCTTCGGCTATA
1 GCACTAAGTGTGCGAATTGAAATAACTTCGGCTATA
37912531 TGAGGCACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (40 bp):
GCACTAAGTGTGCGAATTGAAATAACTTCGGCTATAAATA
Found at i:37912539 original size:40 final size:40
Alignment explanation
Indices: 37912454--37912549 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
37912444 TTCTATGTTC
* *
37912454 GGCACTAAGTGTGTGATTTGAAATAACTTCGGCTATAAATA
1 GGCACTAAGTGTGCGAATTGAAATAACTTCGGCTAT-AATA
* *
37912495 -GCACTAAGTGTGCGAATTGGAATAGCTTCGGCTAT-ATGA
1 GGCACTAAGTGTGCGAATTGAAATAACTTCGGCTATAAT-A
*
37912534 GGCACTAAATGTGCGA
1 GGCACTAAGTGTGCGA
37912550 TACCGAGATA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 45 0.94
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCGAATTGAAATAACTTCGGCTATAATA
Found at i:37912893 original size:14 final size:14
Alignment explanation
Indices: 37912876--37912903 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37912866 ATAAACTATT
37912876 GATTATAATTGATA
1 GATTATAATTGATA
37912890 GATTATAATTGATA
1 GATTATAATTGATA
37912904 CGAACTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
GATTATAATTGATA
Found at i:37916661 original size:40 final size:40
Alignment explanation
Indices: 37916554--37917123 Score: 839
Period size: 40 Copynumber: 14.6 Consensus size: 40
37916544 CATTTGACTG
* *
37916554 ATATCCGGGTTAAGA-CCGAAGGCATTTGTGCAAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
37916593 ATATCCGGGCTAA-ACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
37916632 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
37916672 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
37916712 ATATCCGGGCTAAGACCTGAA-GCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
37916751 ATATCCGGGCTAAGACCCGAA-GCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
37916790 ATATCC-GG----GA---TAA-GCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
37916821 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
37916861 ATATCCGGGCTAAGATCGGAAGGCATTTGTGCGAATT-AT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
37916900 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
37916940 ATATCC-GGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
37916979 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
37917019 ATATCCGGGCTAAGACCCGAAGGCAGTTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * * *
37917059 ATATCCGGGCTAAGACCCAAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
37917099 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
37917124 ATTGAGCTTG
Statistics
Matches: 487, Mismatches: 29, Indels: 29
0.89 0.05 0.05
Matches are distributed among these distances:
31 26 0.05
32 2 0.00
34 2 0.00
36 2 0.00
38 3 0.01
39 187 0.38
40 264 0.54
41 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:37916737 original size:79 final size:80
Alignment explanation
Indices: 37916554--37917123 Score: 839
Period size: 79 Copynumber: 7.3 Consensus size: 80
37916544 CATTTGACTG
* *
37916554 ATATCCGGGTTAAGA-CCGAAGGCATTTGTGCAAATTGATATATCCGGGCTAA-ACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
37916617 TTTGTGCGAATTGAT
66 TTTGTGCGAATTGAT
* *
37916632 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
37916697 TTTGTGCGAATTGAT
66 TTTGTGCGAATTGAT
*
37916712 ATATCCGGGCTAAGACCTGAA-GCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAA-GCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
37916775 TTTGTGCGAATTGAT
66 TTTGTGCGAATTGAT
* *
37916790 ATATCC-GG----GA---TAA-GCATTTGTGCGAATTGATATATCCGGGCTAAGACCTGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
37916846 TTTGTGCGAATTGAT
66 TTTGTGCGAATTGAT
* *
37916861 ATATCCGGGCTAAGATCGGAAGGCATTTGTGCGAATT-ATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
37916925 TTTGTGCGAATTGAT
66 TTTGTGCGAATTGAT
* * * *
37916940 ATATCC-GGATAAGACCCGAAGGCATTTGTGCGAACTGATATATCCGGGCTAAGACCCGACGGCG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
37917004 TTTGTGCGAATTGAT
66 TTTGTGCGAATTGAT
* *
37917019 ATATCCGGGCTAAGACCCGAAGGCAGTTGTGC-AAGTTGATATATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGATATATCCGGGCTAAGACCCGAAGGC
* * *
37917083 ATTCGTGCGAGTTGCT
65 ATTTGTGCGAATTGAT
* *
37917099 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
37917124 ATTGAGCTTG
Statistics
Matches: 450, Mismatches: 27, Indels: 28
0.89 0.05 0.06
Matches are distributed among these distances:
70 40 0.09
71 24 0.05
72 2 0.00
73 2 0.00
76 2 0.00
77 2 0.00
78 64 0.14
79 170 0.38
80 144 0.32
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAATTGAT
Found at i:37916808 original size:31 final size:31
Alignment explanation
Indices: 37916770--37916834 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
37916760 CTAAGACCCG
37916770 AAGCATTTGTGCGAATTGATATATCCGGGAT
1 AAGCATTTGTGCGAATTGATATATCCGGGAT
*
37916801 AAGCATTTGTGCGAATTGATATATCCGGGCT
1 AAGCATTTGTGCGAATTGATATATCCGGGAT
37916832 AAG
1 AAG
37916835 ACCTGAAGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (31 bp):
AAGCATTTGTGCGAATTGATATATCCGGGAT
Found at i:37930959 original size:49 final size:48
Alignment explanation
Indices: 37930906--37931024 Score: 141
Period size: 49 Copynumber: 2.4 Consensus size: 48
37930896 GAGGAAGTGC
*
37930906 AAAAGGGCTATGCCCCAGTTTACCGAAAA-GGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAG-TTAT-A
* * * *
37930955 AAAAGGGCTTTGCCCTAGTTTATCAAAAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTATA
*
37931003 AAAAGAGGCTAGGCCTCCAGTT
1 AAAAG-GGCTATGCC-CCAGTT
37931025 ATATGATAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
48 5 0.08
49 36 0.61
50 18 0.31
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTATA
Found at i:37931012 original size:24 final size:25
Alignment explanation
Indices: 37930906--37930999 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
37930896 GAGGAAGTGC
* * *
37930906 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
37930931 AAAA-GGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
37930955 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
37930980 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
37931000 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 21 0.33
25 42 0.67
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:37931258 original size:31 final size:31
Alignment explanation
Indices: 37931220--37931334 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
37931210 CGTTTCCAGT
37931220 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
37931251 AAAGGCTTCGGCCCAGTGATATAAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
37931282 AAAGGCTTCGGCCCAGTGACATGGATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
37931313 AAAGGCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
37931335 CTGAGATTGA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 4 0.05
31 73 0.95
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:37943180 original size:24 final size:24
Alignment explanation
Indices: 37943148--37943194 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
37943138 CTATCAGGAG
**
37943148 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
37943172 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
37943195 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:37944652 original size:26 final size:26
Alignment explanation
Indices: 37944613--37944724 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
37944603 AGGAAGCGTC
*
37944613 CTGGTGGCTATGCCACAATATCTGAT
1 CTGGTGGCTCTGCCACAATATCTGAT
* *
37944639 CTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
* *
37944666 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-AATATCTG-AT
* * * * *
37944694 CTGGTGACTCTGTCATATTATCTGTT
1 CTGGTGGCTCTGCCACAATATCTGAT
37944720 CTGGT
1 CTGGT
37944725 AGCCATGCTG
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 22 0.31
27 35 0.49
28 14 0.20
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:37944711 original size:53 final size:53
Alignment explanation
Indices: 37944616--37944721 Score: 135
Period size: 53 Copynumber: 2.0 Consensus size: 53
37944606 AAGCGTCCTG
*
37944616 GTGGCTATGCCACAATATCTGATCTGGTGGCTCTGCCACATATT-TCTGTTCTA
1 GTGGCTATGCCACAATATCTGATCTGGTGACTCTG-CACATATTATCTGTTCTA
* * *
37944669 GTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTG-TCATATTATCTGTTCT
1 GTGGCTATGCCAC-AATATCTG-ATCTGGTGACTCTGCACATATTATCTGTTCT
37944722 GGTAGCCATG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
53 18 0.39
54 15 0.33
55 13 0.28
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.39
Consensus pattern (53 bp):
GTGGCTATGCCACAATATCTGATCTGGTGACTCTGCACATATTATCTGTTCTA
Found at i:37945806 original size:11 final size:10
Alignment explanation
Indices: 37945778--37945811 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
37945768 AGCCTGTAAG
37945778 TATTCTGAAT
1 TATTCTGAAT
*
37945788 TTTTCTGAAT
1 TATTCTGAAT
37945798 ATATTCTGAAT
1 -TATTCTGAAT
37945809 TAT
1 TAT
37945812 CTTTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:37951016 original size:24 final size:24
Alignment explanation
Indices: 37950984--37951030 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
37950974 CTGTCAGGAG
**
37950984 AGGAATTAGGAGTTGATAAGGGAT
1 AGGAATTAGGAGCAGATAAGGGAT
*
37951008 AGGATTTAGGAGCAGATAAGGGA
1 AGGAATTAGGAGCAGATAAGGGA
37951031 GGAAATCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.02, G:0.38, T:0.21
Consensus pattern (24 bp):
AGGAATTAGGAGCAGATAAGGGAT
Found at i:37952478 original size:27 final size:27
Alignment explanation
Indices: 37952439--37952549 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
37952429 GGAAGTGTCG
*
37952439 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
*
37952466 TGGTGGCTCTGCCACATATT-TCTGTTC
1 TGGTGGCTCTGCCACA-ATTATCTGATC
* *
37952493 TGGTAGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCACAATTATCTG-ATC
* * *
37952521 TGGTGACTCTGTCAC-ATTATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGATC
37952547 TGG
1 TGG
37952550 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.65
28 17 0.24
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:37952544 original size:54 final size:54
Alignment explanation
Indices: 37952439--37952558 Score: 152
Period size: 54 Copynumber: 2.2 Consensus size: 54
37952429 GGAAGTGTCG
* * *
37952439 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTTC
1 TGGTAGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTC
* * *
37952493 TGGTAGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTC
1 TGGTAGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTC
* *
37952547 TGGCAGCCATGC
1 TGGTAGCTATGC
37952559 TGCATAATTC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 38 0.68
55 18 0.32
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (54 bp):
TGGTAGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTC
Found at i:37957478 original size:93 final size:93
Alignment explanation
Indices: 37957319--37957490 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
37957309 AGGATATTTG
* **
37957319 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTAGAACTAGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCAGAACTAGTTGAG
37957384 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
37957412 GGCATCCGAGCTCGTTGAGTTGCGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCA-TTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCAGAACT-AGTTGA
37957476 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
37957491 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
93 69 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCAGAACTAGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:37969167 original size:50 final size:50
Alignment explanation
Indices: 37969049--37969484 Score: 333
Period size: 50 Copynumber: 8.8 Consensus size: 50
37969039 ATTGTGAGAA
* *
37969049 CACATGTGTAGTAC-AATGTGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGT
1 CACATGTGTAGTACTAA-GTGCAGGCTACTACGTG--T-A-CCAGATTGTTAGGT
* *
37969101 CACATGCGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * * * *
37969151 CGCATGTGTAGCACTAAGTGCAAGCTACTATGCGTACTC-GATAGTTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTG-TTAGGT
* * *
37969202 CACGTGTGTAGTAC----T-----CTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * *
37969243 CACGTGCGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * *
37969293 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTCACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTTAGGT
* * * * * * *
37969344 CACGTGTGTAGTACTAAGTGCAGGATACTATGTGTATCAGATCGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
** * * *
37969394 CATGTGTGTAGTACTAAGTGTATGCTACTACGTGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * *
37969444 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
37969485 GAGCTTCGGT
Statistics
Matches: 305, Mismatches: 61, Indels: 38
0.75 0.15 0.09
Matches are distributed among these distances:
41 18 0.06
42 14 0.05
45 1 0.00
47 1 0.00
48 3 0.01
49 5 0.02
50 178 0.58
51 54 0.18
52 29 0.10
53 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:37969351 original size:142 final size:145
Alignment explanation
Indices: 37969095--37969492 Score: 525
Period size: 142 Copynumber: 2.7 Consensus size: 145
37969085 TAAGACAGTT
* *
37969095 TTAGGTCACATGCGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
1 TTAGGTCACGTGCGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
* * * *
37969160 AGCACTAAGTGCAAGCTACTATGCGTACTCGATAGTTTCGATCACGTGTGTAGTAC-T-C-TACT
66 AGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACGTGTGTAGTACATGCATACT
*
37969222 ACGTGTATCAGATGG
131 ACGTGTATCAGATCG
* * *
37969237 TTAGGTCACGTGCGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGATAGGTCACATGTGT
1 TTAGGTCACGTGCGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
*
37969302 AGTACTAAGTGCAGGCTACTATGCGTACCCGTTCA-CTTCGATCACGTGTGTAGTACTAAGTGCA
66 AGTACTAAGTGCAGGCTACTATGCGTACCCGAT-AGCTTCGATCACGTGTGTAGTAC--A-TGC-
*
37969366 GGATACTATGTGTATCAGATCG
126 --ATACTACGTGTATCAGATCG
* * * * * *
37969388 ATAAGTCATGTGTGTAGTACTAAGTGTATGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
1 TTAGGTCACGTGCGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
* *
37969453 AGTACTAAGTGCAGGCTACTATGCGTACCAGAGAGCTTCG
66 AGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCG
37969493 GTTACAAGGG
Statistics
Matches: 222, Mismatches: 23, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
142 109 0.49
143 1 0.00
146 1 0.00
147 1 0.00
150 1 0.00
151 109 0.49
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (145 bp):
TTAGGTCACGTGCGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACGTGTGTAGTACATGCATACT
ACGTGTATCAGATCG
Found at i:37969421 original size:101 final size:100
Alignment explanation
Indices: 37969242--37969484 Score: 281
Period size: 101 Copynumber: 2.4 Consensus size: 100
37969232 GATGGTTAGG
* * * * *
37969242 TCACGTGCGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGATAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATCGATAAGTCACATGTGTAGTAC
* * *
37969307 TAAGTGCAGGCTACTATGCGTACCCG-TTCACTTCGA
66 TAAGTGCAGGCTACTACGCGTACCAGATTCA--TAGA
* * **
37969343 TCACGTGTGTAGTACTAAGTGCAGGATACTATGTGTATCAGATCGATAAGTCATGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATCGATAAGTCACATGTGTAGTAC
* * * * *
37969408 TAAGTGTATGCTACTACGTGTACCAGATTGATAGG
66 TAAGTGCAGGCTACTACGCGTACCAGATTCATAGA
* * *
37969443 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
37969485 GAGCTTCGGT
Statistics
Matches: 119, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
100 39 0.33
101 77 0.65
102 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATCGATAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTACGCGTACCAGATTCATAGA
Found at i:37970294 original size:180 final size:180
Alignment explanation
Indices: 37970026--37970383 Score: 533
Period size: 180 Copynumber: 2.0 Consensus size: 180
37970016 ATCCGAGATC
* *
37970026 TGTACCATGAGATAAATAATTTTTAGTAAAGAAAGATCAGAACTATAAGACAGTGAAATAGGGGT
1 TGTACCATGAGATAAATAATTTTTAGTAAAGAAAGATCAGAACTATAAGACAGTGAAATAGAGGC
* * * * *
37970091 ATATTTAATGAATAAATTGTACTAATTGGCTAAACCAAAAATTATTAAAATTTTATGGTAATAAT
66 AAATTTAATCAATAAACTGTACTAATTGGCTAAACCAAAAATTATGAAAATTTTATGGTAAGAAT
*
37970156 ATATGTGAGTCTCA-TTTCTGGGAAAATTAG-AGGTTCTTAATTTGGAGTCT
131 ATATGTGAGTCT-AGTTTCTGGGAAAATTAGCA-GATCTTAATTTGGAGTCT
* * * * **
37970206 TGTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTC-GAAACTGTTGGACAGTGAAATAGAGG
1 TGTACCATGAGATAAATAATTTTTAGTAAAGAAAGATCAG-AACTATAAGACAGTGAAATAGAGG
*
37970270 CAAATTTAATCAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAA
65 CAAATTTAATCAATAAACTGTACTAATTGGCTAAACCAAAAATTATGAAAATTTTATGGTAAGAA
37970335 TATATGTGAGTCTAGTTTCTGGGAAAATTAGCAGATCTTAATTTGGAGT
130 TATATGTGAGTCTAGTTTCTGGGAAAATTAGCAGATCTTAATTTGGAGT
37970384 TCCGTAGCTC
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
179 2 0.01
180 157 0.98
181 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (180 bp):
TGTACCATGAGATAAATAATTTTTAGTAAAGAAAGATCAGAACTATAAGACAGTGAAATAGAGGC
AAATTTAATCAATAAACTGTACTAATTGGCTAAACCAAAAATTATGAAAATTTTATGGTAAGAAT
ATATGTGAGTCTAGTTTCTGGGAAAATTAGCAGATCTTAATTTGGAGTCT
Found at i:37975465 original size:38 final size:39
Alignment explanation
Indices: 37975409--37975485 Score: 147
Period size: 38 Copynumber: 2.0 Consensus size: 39
37975399 ATATTTTTGG
37975409 ATTAGCAAACTTCTAGTTTACTTGTAGATGTGATTTAAT
1 ATTAGCAAACTTCTAGTTTACTTGTAGATGTGATTTAAT
37975448 ATTA-CAAACTTCTAGTTTACTTGTAGATGTGATTTAAT
1 ATTAGCAAACTTCTAGTTTACTTGTAGATGTGATTTAAT
37975486 CATATTAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 34 0.89
39 4 0.11
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.44
Consensus pattern (39 bp):
ATTAGCAAACTTCTAGTTTACTTGTAGATGTGATTTAAT
Found at i:37976871 original size:13 final size:14
Alignment explanation
Indices: 37976853--37976887 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
37976843 ATTCCAAGAT
37976853 TTGAAATCTTGA-C
1 TTGAAATCTTGATC
37976866 TTGAAATCTTGATTC
1 TTGAAATCTTGA-TC
37976881 TTGAAAT
1 TTGAAAT
37976888 TGTTTGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
15 8 0.40
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.43
Consensus pattern (14 bp):
TTGAAATCTTGATC
Found at i:37995327 original size:48 final size:48
Alignment explanation
Indices: 37995256--37995349 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
37995246 AGTATTTTCA
37995256 ATTCGTACCAACTACTTTGTTCGACGACATTTTGTGCCACTACAATAG
1 ATTCGTACCAACTACTTTGTTCGACGACATTTTGTGCCACTACAATAG
37995304 ATTCGTACCAACTACTTTGTTCGACGACATTTTGTGCCACTACAAT
1 ATTCGTACCAACTACTTTGTTCGACGACATTTTGTGCCACTACAAT
37995350 GGATCTCGAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (48 bp):
ATTCGTACCAACTACTTTGTTCGACGACATTTTGTGCCACTACAATAG
Found at i:37996404 original size:9 final size:8
Alignment explanation
Indices: 37996378--37996415 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
37996368 TTTTGGTTTG
37996378 TTTTAAA-
1 TTTTAAAT
37996385 TTTTAAAT
1 TTTTAAAT
37996393 TTTTATAAT
1 TTTTA-AAT
37996402 TTTTAAAT
1 TTTTAAAT
37996410 TATTTA
1 T-TTTA
37996416 TTAACGTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.25
8 9 0.32
9 12 0.43
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTTTAAAT
Found at i:38002560 original size:23 final size:23
Alignment explanation
Indices: 38002534--38002578 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
38002524 ACGAAATGTG
*
38002534 TAACGGGACAACACCAAAGTGCA
1 TAACAGGACAACACCAAAGTGCA
*
38002557 TAACAGGACAACTCCAAAGTGC
1 TAACAGGACAACACCAAAGTGC
38002579 GTAAACAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.27, G:0.20, T:0.11
Consensus pattern (23 bp):
TAACAGGACAACACCAAAGTGCA
Found at i:38014112 original size:37 final size:37
Alignment explanation
Indices: 38014051--38014129 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
38014041 TTATTACGAA
* * * *
38014051 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
*
38014088 GTCTTACCCGAACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
38014125 GTCTT
1 GTCTT
38014130 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
Found at i:38014326 original size:47 final size:47
Alignment explanation
Indices: 38014248--38014611 Score: 570
Period size: 47 Copynumber: 7.7 Consensus size: 47
38014238 CCCTTCGGGA
* * * * *
38014248 CTTATCACAT-TCATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATAT-ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38014295 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38014342 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38014389 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38014436 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
38014483 CTTATCACATATATACACTTTCACTTTTGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38014530 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38014577 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
38014612 AGAATCCTAA
Statistics
Matches: 295, Mismatches: 20, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 293 0.99
48 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38018077 original size:40 final size:40
Alignment explanation
Indices: 38017994--38018216 Score: 213
Period size: 40 Copynumber: 5.6 Consensus size: 40
38017984 TTGAATGCTG
* * * * *
38017994 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* * *
38018034 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
* **
38018074 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
**
38018114 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-TACTAAA
* * *
38018154 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* *
38018193 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38018217 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 34 0.21
40 114 0.72
41 10 0.06
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:38018131 original size:80 final size:79
Alignment explanation
Indices: 38017994--38018218 Score: 242
Period size: 80 Copynumber: 2.8 Consensus size: 79
38017984 TTGAATGCTG
* * * * * *
38017994 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
38018057 TTGTGCGAGA-TACTAAA
63 TTGTGCGA-ATTACTAAA
* *
38018074 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTT
**
38018139 GTGCGAATTGTTAAA
65 GTGCGAATTACTAAA
* * * *
38018154 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATTT
38018218 G
65 G
38018219 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
79 37 0.30
80 81 0.65
81 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:38018236 original size:79 final size:80
Alignment explanation
Indices: 38018069--38018251 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
38018059 GTGCGAGATA
** *
38018069 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** **
38018134 CATTCGTGCGAATTG
66 CATTCGAACGAAGAG
* * * *
38018149 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
* *
38018213 CATTTGAACGAGGAG
66 CATTCGAACGAAGAG
* *
38018228 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
38018252 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAAGAG
Found at i:38018236 original size:119 final size:120
Alignment explanation
Indices: 38017994--38018251 Score: 281
Period size: 119 Copynumber: 2.2 Consensus size: 120
38017984 TTGAATGCTG
* * * * *
38017994 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
* ** ** *
38018059 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
* * * *
38018114 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTG-TTAAATCCGGGTTATG-TCCCGAAGG-CA
1 TCCGGGTTAAGTCCCGAAGGC-TTCGTGCGAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCCA
* * * * *
38018176 TTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
64 TTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
*
38018233 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38018252 TACGTGATTT
Statistics
Matches: 115, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
118 15 0.13
119 51 0.44
120 39 0.34
121 10 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
Found at i:38033754 original size:27 final size:26
Alignment explanation
Indices: 38033719--38033830 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 26
38033709 AGCATGGCTG
* *
38033719 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
38033745 CCAGATACAGATAATCCTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
38033773 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
38033800 CCA-AATCAGATAATTGTGGC-GTAGCCA
1 CCAGAA-CAGATAA-TGTGGCAG-AGCCA
38033827 CCAG
1 CCAG
38033831 GATGCTTCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
26 9 0.12
27 50 0.67
28 16 0.21
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:38033783 original size:54 final size:54
Alignment explanation
Indices: 38033719--38033830 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
38033709 AGCATGGCTG
* *
38033719 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCCTGGCAG-AGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAT-CAGATAATCCTGGC-GTAGCCA
* **
38033773 CCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATAATTGTGGCGTAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCCTGGCGTAGCCA
38033827 CCAG
1 CCAG
38033831 GATGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 1 0.02
54 33 0.65
55 17 0.33
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCCTGGCGTAGCCA
Found at i:38046697 original size:23 final size:22
Alignment explanation
Indices: 38046652--38046697 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
38046642 GCAGATGTCT
38046652 CCATAGAGGATATCGAGCATGAC
1 CCATAGAGGATATCGAG-ATGAC
38046675 CCATATGAGGATGATCGAG-TGAC
1 CCATA-GAGGAT-ATCGAGATGAC
38046698 TTCGTGGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 9 0.43
24 6 0.29
25 6 0.29
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (22 bp):
CCATAGAGGATATCGAGATGAC
Found at i:38047027 original size:16 final size:17
Alignment explanation
Indices: 38047005--38047076 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 17
38046995 ATGATCATTA
38047005 ATTTTA-TTTATTTTCTT
1 ATTTTATTTTATTTT-TT
38047022 -TTTTATTTTA--TTTT
1 ATTTTATTTTATTTTTT
*
38047036 ATTTTATTCTATTTTTAGT
1 ATTTTATTTTATTTTT--T
*
38047055 CATTTTGTTTTA-TTTTT
1 -ATTTTATTTTATTTTTT
38047072 ATTTT
1 ATTTT
38047077 CTTATACTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
14 2 0.04
15 11 0.24
16 10 0.22
17 8 0.18
19 5 0.11
20 9 0.20
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.76
Consensus pattern (17 bp):
ATTTTATTTTATTTTTT
Found at i:38047033 original size:17 final size:16
Alignment explanation
Indices: 38047006--38047040 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
38046996 TGATCATTAA
*
38047006 TTTTATTTATTTTCTT
1 TTTTATTTATTTTATT
38047022 TTTTATTTTATTTTATT
1 TTTTA-TTTATTTTATT
38047039 TT
1 TT
38047041 ATTCTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTATTTATTTTATT
Found at i:38047059 original size:25 final size:25
Alignment explanation
Indices: 38047005--38047068 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
38046995 ATGATCATTA
* * *
38047005 ATTTTATTTATTTTCTTTTTTATTTT
1 ATTTTATTT-TATTCTTTTTTATGTC
38047031 ATTTTATTTTATTCTATTTTTA-GTC
1 ATTTTATTTTATTCT-TTTTTATGTC
*
38047056 ATTTTGTTTTATT
1 ATTTTATTTTATT
38047069 TTTATTTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 18 0.55
26 15 0.45
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (25 bp):
ATTTTATTTTATTCTTTTTTATGTC
Found at i:38058262 original size:20 final size:20
Alignment explanation
Indices: 38058237--38058296 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
38058227 ACATGTGCAT
38058237 TCAGGGGTATCGAAGTACAA
1 TCAGGGGTATCGAAGTACAA
* * * *
38058257 TCAGGGGCAT-GCATGTGCAT
1 TCAGGGGTATCG-AAGTACAA
*
38058277 TCAGGGGTACCGAAGTACAA
1 TCAGGGGTATCGAAGTACAA
38058297 ATAGGGGCAC
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.20
Consensus pattern (20 bp):
TCAGGGGTATCGAAGTACAA
Found at i:38058305 original size:40 final size:40
Alignment explanation
Indices: 38058101--38058297 Score: 234
Period size: 40 Copynumber: 4.9 Consensus size: 40
38058091 AGTGCATTCA
* *
38058101 GAGCACACATGTGCATTCAGGGGTACCAAAGTACAAA-AG
1 GAGCATACATGTGCATTCAGGGGTACCGAAGTACAAACAG
* * * * * *
38058140 GAAGCATGCATCTACGTTCAGGGGTACCAAAGTATAAACAG
1 G-AGCATACATGTGCATTCAGGGGTACCGAAGTACAAACAG
* * *
38058181 GAGCACACATGTGCATTTAGGGGTACTGAAGTACAAACAG
1 GAGCATACATGTGCATTCAGGGGTACCGAAGTACAAACAG
* * *
38058221 TAGCATACATGTGCATTCAGGGGTATCGAAGTACAATCAG
1 GAGCATACATGTGCATTCAGGGGTACCGAAGTACAAACAG
* *
38058261 GGGCATGCATGTGCATTCAGGGGTACCGAAGTACAAA
1 GAGCATACATGTGCATTCAGGGGTACCGAAGTACAAA
38058298 TAGGGGCACA
Statistics
Matches: 130, Mismatches: 26, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 126 0.97
41 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.20
Consensus pattern (40 bp):
GAGCATACATGTGCATTCAGGGGTACCGAAGTACAAACAG
Found at i:38060585 original size:96 final size:96
Alignment explanation
Indices: 38060449--38060810 Score: 460
Period size: 96 Copynumber: 3.8 Consensus size: 96
38060439 TAAAGTACCA
* * * ** * *
38060449 ATGCCATGCCCCTGACATGGTCTTACATAAATC-CACATATCATCACCGATGCCATGCCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCACCGATGCCATGTCCCAGAC
38060513 ATGGTCTTACACTGACACACATATCATCGCCG
65 ATGGTCTTACACTGACACACATATCATCGCCG
* * *
38060545 ATGTCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGCCATTTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCACCGATGCCATGTCCCAGACA
* * * *
38060610 TGGTCTTACACAGGCACATATATCATTGCCG
66 TGGTCTTACACTGACACACATATCATCGCCG
* * *
38060641 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGCCGATGCCATGTCCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCACCGATGCCATGTCCCAGACA
* ** * *
38060706 TCGTCTTACA-T-AGGCACATTTCATCACCG
66 TGGTCTTACACTGACACACATATCATCGCCG
* * * *
38060735 ATGCCATGTCACAGACATGGCCTTACACAGGTACATTTATCATCACCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCACCGATGCCATGTCCCAGACA
38060800 TGGTCTTACAC
66 TGGTCTTACAC
38060811 AAGCACATTT
Statistics
Matches: 231, Mismatches: 33, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
94 80 0.35
95 2 0.01
96 149 0.65
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCACCGATGCCATGTCCCAGACA
TGGTCTTACACTGACACACATATCATCGCCG
Found at i:38060792 original size:142 final size:144
Alignment explanation
Indices: 38060485--38060821 Score: 498
Period size: 142 Copynumber: 2.4 Consensus size: 144
38060475 ATAAATCCAC
* * * ** *
38060485 ATATCATCACCGATGCCATGCCCCAGACATGGTCTTACACTGACACACATATCATCGCCGATGTC
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGCCGATGCC
* * * * * *
38060550 ATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGCCATTTCCCAGACATGGTC
66 ATGTCCCAAACATCGTCTTACACAGGCACATATATCATCACCGATGCCATGTCACAGACATGGCC
38060615 TTACACAGGCACAT
131 TTACACAGGCACAT
**
38060629 ATATCATTGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGCCGATGCC
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGCCGATGCC
*
38060694 ATGTCCCAAACATCGTCTTACATAGGCACAT-T-TCATCACCGATGCCATGTCACAGACATGGCC
66 ATGTCCCAAACATCGTCTTACACAGGCACATATATCATCACCGATGCCATGTCACAGACATGGCC
*
38060757 TTACACAGGTACAT
131 TTACACAGGCACAT
* *
38060771 TTATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAAGCACATTTA
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTA
38060822 GCACAGTGTC
Statistics
Matches: 173, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
142 87 0.50
143 1 0.01
144 85 0.49
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (144 bp):
ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGCCGATGCC
ATGTCCCAAACATCGTCTTACACAGGCACATATATCATCACCGATGCCATGTCACAGACATGGCC
TTACACAGGCACAT
Found at i:38060819 original size:48 final size:48
Alignment explanation
Indices: 38060486--38060821 Score: 478
Period size: 48 Copynumber: 7.0 Consensus size: 48
38060476 TAAATCCACA
* * * * **
38060486 TATCATCACCGATGCCATGCCCCAGACATGGTCTTACACTGACACACA
1 TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
* *
38060534 TATCATCGCCGATGTCATGTCCCAGACATGGTCTTACACAGGCACATA
1 TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
* *
38060582 TATCATCGCCGATGCCATTTCCCAGACATGGTCTTACACAGGCACATA
1 TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
*
38060630 TATCATTGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
1 TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
* * *
38060678 TATCATCGCCGATGCCATGTCCCAAACATCGTCTTACATAGGCACA-T
1 TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
* * * *
38060725 T-TCATCACCGATGCCATGTCACAGACATGGCCTTACACAGGTACATT
1 TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
* *
38060772 TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAAGCACATT
1 TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
38060820 TA
1 TA
38060822 GCACAGTGTC
Statistics
Matches: 260, Mismatches: 26, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
46 37 0.14
47 4 0.02
48 219 0.84
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (48 bp):
TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
Found at i:38068501 original size:144 final size:144
Alignment explanation
Indices: 38068278--38068614 Score: 496
Period size: 144 Copynumber: 2.3 Consensus size: 144
38068268 TGAATCCACA
* * **
38068278 TATCATCACCGATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCATCGTCGATGCCA
1 TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGTCGATGCCA
* * *
38068343 TGTCCCAAACATGGTCTTACATAGGCACATATATTATCGCCGATGCCATGTCCCAGA-CATGGTC
66 TATCCCAAACATGGTCTTACATAGGCACATATATCATCGCCAATGCCATGTCCCA-ACCATGGTC
* *
38068407 ATACATAGGTACATT
130 ATACACAGGCACATT
* * * *
38068422 TATCATCACCGATGCCATGTCCCAGACATCGTCTTAAACAGGCACATTTATCATCGTTGATTCCA
1 TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGTCGATGCCA
* * * *
38068487 TATCCCAAACATGGTCTTACATAGGCACATTTATCATTGTCAATGCCATGTCCCAACCATGGTCT
66 TATCCCAAACATGGTCTTACATAGGCACATATATCATCGCCAATGCCATGTCCCAACCATGGTCA
38068552 TACACAGGCACATT
131 TACACAGGCACATT
*
38068566 TATCATCACCAATGCCATGTCCCAGACATGGTCTTACACAGGCACATTT
1 TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATTT
38068615 GTAACATCCC
Statistics
Matches: 172, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
143 1 0.01
144 171 0.99
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (144 bp):
TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGTCGATGCCA
TATCCCAAACATGGTCTTACATAGGCACATATATCATCGCCAATGCCATGTCCCAACCATGGTCA
TACACAGGCACATT
Found at i:38068612 original size:48 final size:48
Alignment explanation
Indices: 38068278--38068614 Score: 406
Period size: 48 Copynumber: 7.0 Consensus size: 48
38068268 TGAATCCACA
* * **
38068278 TATCATCACCGATGCCATGTCCTAGACATGGTCTTACACTGGCACACA
1 TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
** * * *
38068326 TATCATCGTCGATGCCATGTCCCAAACATGGTCTTACATAGGCACATA
1 TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
* * * * *
38068374 TATTATCGCCGATGCCATGTCCCAGACATGGTCATACATAGGTACATT
1 TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
* *
38068422 TATCATCACCGATGCCATGTCCCAGACATCGTCTTAAACAGGCACATT
1 TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
*** * * * *
38068470 TATCATCGTTGATTCCATATCCCAAACATGGTCTTACATAGGCACATT
1 TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
*** *
38068518 TATCATTGTCAATGCCATGTCCCA-ACCATGGTCTTACACAGGCACATT
1 TATCATCACCGATGCCATGTCCCAGA-CATGGTCTTACACAGGCACATT
*
38068566 TATCATCACCAATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
1 TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
38068614 T
1 T
38068615 GTAACATCCC
Statistics
Matches: 249, Mismatches: 38, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
47 1 0.00
48 247 0.99
49 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (48 bp):
TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
Found at i:38074135 original size:26 final size:26
Alignment explanation
Indices: 38074104--38074215 Score: 140
Period size: 26 Copynumber: 4.3 Consensus size: 26
38074094 AACAAAGAGT
*
38074104 GCCTACT-AATACAACACCGGCAT-AAA
1 GCCTACTAAATA-TACACCGGC-TCAAA
38074130 GCCTACTAAATATACACCGGCTCAAA
1 GCCTACTAAATATACACCGGCTCAAA
* * *
38074156 GCTTACTGAATATACACTGGCTCAAA
1 GCCTACTAAATATACACCGGCTCAAA
38074182 GCCTACTAAATATACACCGGCAT-AAA
1 GCCTACTAAATATACACCGGC-TCAAA
38074208 GCCTACTA
1 GCCTACTA
38074216 TGCCCTAATG
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
25 1 0.01
26 70 0.92
27 5 0.07
ACGTcount: A:0.38, C:0.29, G:0.12, T:0.21
Consensus pattern (26 bp):
GCCTACTAAATATACACCGGCTCAAA
Found at i:38080560 original size:34 final size:34
Alignment explanation
Indices: 38080517--38080584 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
38080507 GGCTAGATGG
38080517 ATCCTAGATGTTCTTGGCTTTCAATGAATGGTGT
1 ATCCTAGATGTTCTTGGCTTTCAATGAATGGTGT
38080551 ATCCTAGATGTTCTTGGCTTTCAATGAATGGTGT
1 ATCCTAGATGTTCTTGGCTTTCAATGAATGGTGT
38080585 TCTCCGCTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.41
Consensus pattern (34 bp):
ATCCTAGATGTTCTTGGCTTTCAATGAATGGTGT
Found at i:38083173 original size:61 final size:61
Alignment explanation
Indices: 38083054--38083173 Score: 163
Period size: 60 Copynumber: 2.0 Consensus size: 61
38083044 CTATTCAAAA
* *
38083054 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGT
1 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT
* * *
38083115 ATCAGAG-TATACTGGGCC-TAGCCCATATCAGTGTCAATCTGGGCCGTAGCCCTATTACA
1 ATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACA
38083174 AGTCGAGATA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
60 32 0.62
61 20 0.38
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (61 bp):
ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT
Found at i:38083199 original size:60 final size:59
Alignment explanation
Indices: 38083054--38083202 Score: 151
Period size: 60 Copynumber: 2.5 Consensus size: 59
38083044 CTATTCAAAA
* *
38083054 ATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAG
1 ATCAGAGTAT-ACTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG
* * * *
38083114 TATCAGAGTATACTGGGCCTAGCCCATATCAGTGTCAATCTGGGCCGTAGCCCTATTACA-
1 -ATCAGAGTATACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAG
**
38083174 AGTC-GAGATATGTTGGGCCTTGCCCATAT
1 A-TCAGAG-TATACTGGGCCTTGCCCATAT
38083203 TAACACAGTC
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
59 4 0.05
60 48 0.64
61 22 0.29
62 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (59 bp):
ATCAGAGTATACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG
Found at i:38094150 original size:40 final size:40
Alignment explanation
Indices: 38094105--38094569 Score: 779
Period size: 40 Copynumber: 11.6 Consensus size: 40
38094095 CAAGCTCAAT
* * * * *
38094105 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
38094145 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
38094185 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
38094225 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
38094265 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
38094305 TGCCTTCGGGTCTTATCCCGGATATATCAAATCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
38094345 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
38094385 TGACTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
38094425 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
38094465 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
38094505 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
38094545 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
38094570 CATTCAAATG
Statistics
Matches: 400, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.00
40 397 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:38101873 original size:40 final size:40
Alignment explanation
Indices: 38101828--38102291 Score: 770
Period size: 40 Copynumber: 11.6 Consensus size: 40
38101818 CAAGCTCAAT
* * * * *
38101828 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
38101868 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
38101908 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * * * *
38101948 CGTCGTCGGGTCTTAGCCCAGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
38101988 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
38102028 TGCCTTCGGGTCTTATCCCGGATATATCAAATCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
38102068 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
38102108 TG-CTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
38102147 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
38102187 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
38102227 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
38102267 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
38102292 CATTCAAATG
Statistics
Matches: 398, Mismatches: 23, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
39 40 0.10
40 357 0.90
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:38105740 original size:22 final size:23
Alignment explanation
Indices: 38105713--38105758 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
38105703 TGTTTCACTA
**
38105713 ATTATT-AAATTTCTTGTACTTT
1 ATTATTCAAATTTAATGTACTTT
*
38105735 ATTATTCAACTTTAATGTACTTT
1 ATTATTCAAATTTAATGTACTTT
38105758 A
1 A
38105759 GTGAAACAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.54
Consensus pattern (23 bp):
ATTATTCAAATTTAATGTACTTT
Found at i:38112162 original size:31 final size:31
Alignment explanation
Indices: 38112127--38112187 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
38112117 AAGTTTGAGA
38112127 ACCAAAATGGAAAAAGCTGCCAAGTTCAAGT
1 ACCAAAATGGAAAAAGCTGCCAAGTTCAAGT
* *** *
38112158 ACCAAATTGGATCTAGTTGCCAAGTTCAAG
1 ACCAAAATGGAAAAAGCTGCCAAGTTCAAG
38112188 GGCCAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (31 bp):
ACCAAAATGGAAAAAGCTGCCAAGTTCAAGT
Found at i:38123401 original size:20 final size:20
Alignment explanation
Indices: 38123331--38123408 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
38123321 ATAAGTGAAC
38123331 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
* * *
38123351 TCGGATGCCCAGTTACATCTCACGAGC
1 TCGGA--CTCA---AC-TC-AACGAGT
38123378 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
38123398 TCGGAACTCAA
1 TCGG-ACTCAA
38123409 ATATCCTAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 15
0.68 0.09 0.23
Matches are distributed among these distances:
20 14 0.32
21 8 0.18
22 5 0.11
25 5 0.11
26 2 0.05
27 10 0.23
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGGACTCAACTCAACGAGT
Found at i:38135678 original size:12 final size:12
Alignment explanation
Indices: 38135663--38135698 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
38135653 GTAAATGATG
38135663 AAGAAAAAAAAA
1 AAGAAAAAAAAA
* *
38135675 AAGAGAAAGAAA
1 AAGAAAAAAAAA
38135687 AAGAAAAAAAAA
1 AAGAAAAAAAAA
38135699 GAAAGGCTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:38135695 original size:20 final size:19
Alignment explanation
Indices: 38135666--38135703 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
38135656 AATGATGAAG
*
38135666 AAAAAAAAAAAGAGAAAGA
1 AAAAAAAAAAAAAGAAAGA
38135685 AAAAGAAAAAAAAAGAAAG
1 AAAA-AAAAAAAAAGAAAG
38135704 GCTCTCATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAAGAAAGA
Found at i:38135697 original size:10 final size:10
Alignment explanation
Indices: 38135668--38135702 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
38135658 TGATGAAGAA
38135668 AAAAAAAAAG
1 AAAAAAAAAG
38135678 AGAAAGAAAAAG
1 A-AAA-AAAAAG
38135690 AAAAAAAAAG
1 AAAAAAAAAG
38135700 AAA
1 AAA
38135703 GGCTCTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.43
11 6 0.26
12 7 0.30
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:38136988 original size:40 final size:40
Alignment explanation
Indices: 38136933--38137150 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
38136923 TGGATGATAA
* * *
38136933 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
38136973 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
38137013 CCGGGCTAAGTCCCGAAGATATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
38137053 CAGGGCCAAGTCCCGAAGGCATTGGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
38137093 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
38137133 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
38137151 TACTTGGCTT
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 16 0.10
40 140 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:38148391 original size:18 final size:20
Alignment explanation
Indices: 38148355--38148401 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
38148345 AGTTGTAAGT
38148355 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
38148375 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
38148394 ATGATATA
1 AT-ATATA
38148402 ACTTGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:38148926 original size:100 final size:101
Alignment explanation
Indices: 38148751--38148938 Score: 324
Period size: 100 Copynumber: 1.9 Consensus size: 101
38148741 TCGTTGTGAG
*
38148751 TCACGTGTGTAGTACTAAGAGCAGGCTACTACATGTACCAAATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGAGCAGGCTACTACATGTACCAAATTGATAGGTCACATGTGTAGTAC
38148816 TAAGTACAGGCTACTATGCGTACTCGTTAACTTCGA
66 TAAGTACAGGCTACTATGCGTACTCGTTAACTTCGA
* * *
38148852 TCACGTGTGTAGTACTAAGTGTAGGCTACTAC-TGTACCAGATTGATAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGAGCAGGCTACTACATGTACCAAATTGATAGGTCACATGTGTAGTAC
*
38148916 TAAGTGCAGGCTACTATGCGTAC
66 TAAGTACAGGCTACTATGCGTAC
38148939 CAGAGAGCTT
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
100 52 0.63
101 30 0.37
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGAGCAGGCTACTACATGTACCAAATTGATAGGTCACATGTGTAGTAC
TAAGTACAGGCTACTATGCGTACTCGTTAACTTCGA
Found at i:38148927 original size:49 final size:49
Alignment explanation
Indices: 38148750--38148931 Score: 199
Period size: 50 Copynumber: 3.7 Consensus size: 49
38148740 TTCGTTGTGA
* * *
38148750 GTCACGTGTGTAGTACTAAGAGCAGGCTACTACATGTACCAAATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTAC-TGTACCAGATTGATAG
* * * *
38148800 GTCGCATGTGTAGTACTAAGTACAGGCTACTA-TGCGTACTC-G-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACT--GTAC-CAGATTGA--TAG
* * *
38148851 ATCACGTGTGTAGTACTAAGTGTAGGCTACTACTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACTGTACCAGATTGATAG
38148900 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
38148932 TGCGTACCAG
Statistics
Matches: 107, Mismatches: 17, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
48 1 0.01
49 35 0.33
50 37 0.35
51 33 0.31
52 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (49 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACTGTACCAGATTGATAG
Found at i:38149163 original size:16 final size:16
Alignment explanation
Indices: 38149142--38149173 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38149132 AGAATGGAGT
38149142 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
38149158 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
38149174 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:38151463 original size:22 final size:20
Alignment explanation
Indices: 38151422--38151464 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
38151412 GATAATAGAT
*
38151422 ATAAAATTTTAAAGTAAATA
1 ATAAAATTTTAAAATAAATA
*
38151442 ATAAAATGATTTAAAATGAATA
1 ATAAAAT--TTTAAAATAAATA
38151464 A
1 A
38151465 CACATAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
ATAAAATTTTAAAATAAATA
Found at i:38153862 original size:44 final size:44
Alignment explanation
Indices: 38153808--38153964 Score: 147
Period size: 44 Copynumber: 3.6 Consensus size: 44
38153798 AAATTTGGCT
* * *
38153808 TGTTACCCTACTACTTAGGGGGTTAAAGCTCATTATCTTTGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCAACTTTGATC
* * * * * * *
38153852 TGTTTCCCTACTGCTTAGGGTGAT-AAGATCTATGAAC-TTCAGC
1 TGTTACCCTACTGCTTAGGGGGTTAAAGCTC-ATCAACTTTGATC
* ** *
38153895 TTGTTACCCTACTGCTTAGGGGGTTAAAGCTCGTCGCCTTCGATC
1 -TGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCAACTTTGATC
*
38153940 TGTTTCCCTACTGCTTAGGGGGTTA
1 TGTTACCCTACTGCTTAGGGGGTTA
38153965 CGATCTGTAA
Statistics
Matches: 88, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
43 9 0.10
44 71 0.81
45 8 0.09
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (44 bp):
TGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCAACTTTGATC
Found at i:38153918 original size:88 final size:87
Alignment explanation
Indices: 38153770--38154008 Score: 271
Period size: 88 Copynumber: 2.7 Consensus size: 87
38153760 CAGACTATTA
** * * * ** *
38153770 CCCTACTGCTTAGGGGTTTACGGTCTGTAAATTTGGCTTGTTACCCTACTACTTAGGGGGTTAAA
1 CCCTACTGCTTAGGGGGATAAGATCTATAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAA
* * *
38153835 GCTCATTATCTTTGATCTGTTT
66 GCTCATCACCTTCGATCTGTTT
* *
38153857 CCCTACTGCTTAGGGTGATAAGATCTATGAACTTCAGCTTGTTACCCTACTGCTTAGGGGGTTAA
1 CCCTACTGCTTAGGGGGATAAGATCTAT-AAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAA
* *
38153922 AGCTCGTCGCCTTCGATCTGTTT
65 AGCTCATCACCTTCGATCTGTTT
* * * * * * *
38153945 CCCTACTGCTTAGGGGGTTACGATCTGTAAATTCAACCTGTTACCCAACTGTTTAGGGGGTTAA
1 CCCTACTGCTTAGGGGGATAAGATCTATAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAA
38154009 GGCTTGGTGA
Statistics
Matches: 127, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
87 53 0.42
88 74 0.58
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.36
Consensus pattern (87 bp):
CCCTACTGCTTAGGGGGATAAGATCTATAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAA
GCTCATCACCTTCGATCTGTTT
Found at i:38158781 original size:79 final size:82
Alignment explanation
Indices: 38158670--38158854 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
38158660 GCTACTCGTT
* * *
38158670 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
38158733 GGATTTAGTAAC-TCGCG
65 GGATATAGTAACTTAGCA
* **
38158750 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
38158813 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
38158830 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38158855 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:38158854 original size:40 final size:40
Alignment explanation
Indices: 38158651--38158854 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
38158641 CGGAATTTAA
** *
38158651 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
38158691 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38158731 CCGGATTTAGTAACTCGCGCAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38158770 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
38158810 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
38158850 CCGGA
1 CCGGA
38158855 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38166697 original size:40 final size:39
Alignment explanation
Indices: 38166578--38166717 Score: 178
Period size: 39 Copynumber: 3.6 Consensus size: 39
38166568 GCTACTCGTT
*
38166578 CAAATGCCTTCGGGACATAGCCC-G-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
* *
38166617 CAAATGCGTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
38166656 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTCACTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
38166696 CAAA-GCCTTCGGACTTAGCCCG
1 CAAATGCCTTCGGACTTAGCCCG
38166718 ACATCATTCA
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
38 17 0.19
39 45 0.51
40 27 0.30
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38193205 original size:22 final size:20
Alignment explanation
Indices: 38193164--38193206 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
38193154 GATAATAGAT
*
38193164 ATAAAATTTTAAAGTAAATA
1 ATAAAATTTTAAAATAAATA
*
38193184 ATAAAATGATTTAAAATGAATA
1 ATAAAAT--TTTAAAATAAATA
38193206 A
1 A
38193207 CACATAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
ATAAAATTTTAAAATAAATA
Found at i:38194274 original size:20 final size:21
Alignment explanation
Indices: 38194232--38194275 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
38194222 ATGTCCGGCA
* *
38194232 TTGTGGTCCATTGCGCTGCCG
1 TTGTGGGCCAGTGCGCTGCCG
*
38194253 TTGTGGGCCAGTG-GCTGGCG
1 TTGTGGGCCAGTGCGCTGCCG
38194273 TTG
1 TTG
38194276 CTCGAACGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.05, C:0.23, G:0.41, T:0.32
Consensus pattern (21 bp):
TTGTGGGCCAGTGCGCTGCCG
Found at i:38195689 original size:21 final size:21
Alignment explanation
Indices: 38195665--38195706 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
38195655 GATACCTGGT
* * *
38195665 AAAAGGTATCGATATTTTTTG
1 AAAAGATATCAATACTTTTTG
38195686 AAAAGATATCAATACTTTTTG
1 AAAAGATATCAATACTTTTTG
38195707 TCATTGTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (21 bp):
AAAAGATATCAATACTTTTTG
Found at i:38199348 original size:23 final size:23
Alignment explanation
Indices: 38199317--38199367 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
38199307 ATATTATTGT
38199317 TTATG-TATGCTTGTTATGTATG
1 TTATGATATGCTTGTTATGTATG
*
38199339 TTATGATATGTTTGTTATGTATG
1 TTATGATATGCTTGTTATGTATG
38199362 TTATGA
1 TTATGA
38199368 ATATTACTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.22, C:0.02, G:0.22, T:0.55
Consensus pattern (23 bp):
TTATGATATGCTTGTTATGTATG
Found at i:38199391 original size:52 final size:51
Alignment explanation
Indices: 38199335--38199452 Score: 134
Period size: 52 Copynumber: 2.3 Consensus size: 51
38199325 GCTTGTTATG
* *
38199335 TATGTTATGATATGTTTGTTATGTATGTTATG-A-ATATTACTGTTTATGTATT
1 TATGTTATG-TATGTTTATTA-GTATGTTATGTAGATATTACTG-TTATGTATA
* *
38199387 TATG-TATGTATGTCTATTAGTATGTTATGTAGTATATTATTGTTATGTATA
1 TATGTTATGTATGTTTATTAGTATGTTATGTAG-ATATTACTGTTATGTATA
*
38199438 TATATTATGTATGTT
1 TATGTTATGTATGTT
38199453 ATGTATATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
49 10 0.18
50 10 0.18
51 15 0.27
52 21 0.38
ACGTcount: A:0.26, C:0.02, G:0.17, T:0.55
Consensus pattern (51 bp):
TATGTTATGTATGTTTATTAGTATGTTATGTAGATATTACTGTTATGTATA
Found at i:38199396 original size:12 final size:13
Alignment explanation
Indices: 38199286--38199565 Score: 120
Period size: 13 Copynumber: 20.6 Consensus size: 13
38199276 AAGGTCAATC
38199286 TGTTATGTATGTA
1 TGTTATGTATGTA
*
38199299 TGTTATGTATATTA
1 TGTTATGTAT-GTA
38199313 TTGTTTATGTATGCT-
1 -TG-TTATGTATG-TA
38199328 TGTTATGTATGTTA
1 TGTTATGTATG-TA
* *
38199342 TGATATGTTTGTTA
1 TGTTATGTATG-TA
*
38199356 TG-TATGTTATGAA
1 TGTTATG-TATGTA
*
38199369 TATTACTGTTTATGTA
1 TGTTA-TG--TATGTA
38199385 T-TTATGTATGTA
1 TGTTATGTATGTA
38199397 TGTCTAT-TA-GTA
1 TGT-TATGTATGTA
38199409 TGTTATGTA-GTA
1 TGTTATGTATGTA
*
38199421 TATTATTGTTATGTA
1 TGTTA-TG-TATGTA
*
38199436 TATATAT-TATGTA
1 TGT-TATGTATGTA
*
38199449 TGTTATGTATATTA
1 TGTTATGTAT-GTA
*
38199463 TTGTTTATGTATGTC
1 -TG-TTATGTATGTA
38199478 TGTTA-GTATGTTA
1 TGTTATGTATG-TA
38199491 TGTT-TGAATAT-TA
1 TGTTATG--TATGTA
38199504 T-TTATGTTATGTTTA
1 TGTTATG-TATG--TA
*
38199519 T-TACTATTTATGTA
1 TGT--TATGTATGTA
**
38199533 TG-TCCGT-TAGTA
1 TGTTATGTAT-GTA
38199545 TGTTATGTATGTA
1 TGTTATGTATGTA
38199558 TGTTATGT
1 TGTTATGT
38199566 TTATTACTGT
Statistics
Matches: 211, Mismatches: 22, Indels: 68
0.70 0.07 0.23
Matches are distributed among these distances:
11 4 0.02
12 42 0.20
13 70 0.33
14 38 0.18
15 24 0.11
16 30 0.14
17 3 0.01
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.56
Consensus pattern (13 bp):
TGTTATGTATGTA
Found at i:38199416 original size:77 final size:77
Alignment explanation
Indices: 38199293--38199505 Score: 216
Period size: 77 Copynumber: 2.8 Consensus size: 77
38199283 ATCTGTTATG
38199293 TATGTATGTTATGTATATTATTGTTTATGTATG-C--TT-GTTATG-TATGTTA-TGATATGT-T
1 TATGTATGTTATGTATATTATTG-TTATGTATGTCTATTAG-TATGTTATGTTAGT-ATAT-TAT
*
38199351 TGTTATGTATGTTATGAA
62 TGTTATGTAT-ATAT-AA
38199369 TAT-TACTGTTTATGTAT-TTA-TG-TATGTATGTCTATTAGTATGTTATG-TAGTATATTATTG
1 TATGTA-TG-TTATGTATATTATTGTTATGTATGTCTATTAGTATGTTATGTTAGTATATTATTG
*
38199429 TTATGTATATATAT
64 TTATGTATATATAA
* * *
38199443 TATGTATGTTATGTATATTATTGTTTATGTATGTCTGTTAGTATGTTATGTTTGAATATTATT
1 TATGTATGTTATGTATATTATTG-TTATGTATGTCTATTAGTATGTTATGTTAGTATATTATT
38199506 TATGTTATGT
Statistics
Matches: 117, Mismatches: 5, Indels: 28
0.78 0.03 0.19
Matches are distributed among these distances:
73 16 0.14
74 10 0.09
75 12 0.10
76 31 0.26
77 38 0.32
78 10 0.09
ACGTcount: A:0.25, C:0.02, G:0.17, T:0.56
Consensus pattern (77 bp):
TATGTATGTTATGTATATTATTGTTATGTATGTCTATTAGTATGTTATGTTAGTATATTATTGTT
ATGTATATATAA
Found at i:38199432 original size:18 final size:18
Alignment explanation
Indices: 38199409--38199473 Score: 71
Period size: 18 Copynumber: 3.5 Consensus size: 18
38199399 TCTATTAGTA
38199409 TGTTATGTAGTATATTAT
1 TGTTATGTAGTATATTAT
38199427 TGTTATGTA-TATA-TAT
1 TGTTATGTAGTATATTAT
*
38199443 TATGTATGTTATGTATATTAT
1 TGT-TATG-TA-GTATATTAT
38199464 TGTTTATGTA
1 TG-TTATGTA
38199474 TGTCTGTTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 5 0.13
17 8 0.21
18 11 0.28
20 6 0.15
21 8 0.21
22 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (18 bp):
TGTTATGTAGTATATTAT
Found at i:38199475 original size:65 final size:60
Alignment explanation
Indices: 38199378--38199552 Score: 139
Period size: 59 Copynumber: 2.9 Consensus size: 60
38199368 ATATTACTGT
38199378 TTATGTAT-TTATGTATGTATGT-CTA-TTA-GTATGTTATG-TAGTATATTATTGTTATGTATA
1 TTATGTATGTTATGTA--TAT-TACTATTTATGTATGTTATGTTAGTATATTA-TGTT-TG---A
38199438 TATA
58 -ATA
* * * *
38199442 TTATGTATGTTATGTATATTATTGTTTATGTATG-TCTGTTAGTATGTTATGTTTGAATA
1 TTATGTATGTTATGTATATTACTATTTATGTATGTTATGTTAGTATATTATGTTTGAATA
* * ** *
38199501 TTATTTATGTTATGTTTATTACTATTTATGTATG-TCCGTTAGTATGTTATGT
1 TTATGTATGTTATGTATATTACTATTTATGTATGTTATGTTAGTATATTATGT
38199553 ATGTATGTTA
Statistics
Matches: 97, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
59 50 0.52
60 1 0.01
62 1 0.01
63 6 0.06
64 18 0.19
65 21 0.22
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.56
Consensus pattern (60 bp):
TTATGTATGTTATGTATATTACTATTTATGTATGTTATGTTAGTATATTATGTTTGAATA
Found at i:38199510 original size:59 final size:59
Alignment explanation
Indices: 38199439--38199552 Score: 183
Period size: 59 Copynumber: 1.9 Consensus size: 59
38199429 TTATGTATAT
* * *
38199439 ATATTATGTATGTTATGTATATTATTGTTTATGTATGTCTGTTAGTATGTTATGTTTGA
1 ATATTATGTATGTTATGTATATTACTATTTATGTATGTCCGTTAGTATGTTATGTTTGA
* *
38199498 ATATTATTTATGTTATGTTTATTACTATTTATGTATGTCCGTTAGTATGTTATGT
1 ATATTATGTATGTTATGTATATTACTATTTATGTATGTCCGTTAGTATGTTATGT
38199553 ATGTATGTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.56
Consensus pattern (59 bp):
ATATTATGTATGTTATGTATATTACTATTTATGTATGTCCGTTAGTATGTTATGTTTGA
Found at i:38199590 original size:59 final size:59
Alignment explanation
Indices: 38199427--38199591 Score: 147
Period size: 59 Copynumber: 2.8 Consensus size: 59
38199417 AGTATATTAT
* * * * * * * *
38199427 TGTTATGTAT-ATATATTATGTATGTTATGTATATTATTGTTTATGTATGTCTGTTAGTA
1 TGTTATGTATGA-ATATTATTTATATTATGTTTATAAATATGTATGTATGTCCGTTAGTA
* * * * *
38199486 TGTTATGTTTGAATATTATTTATGTTATGTTTATTACTATTTATGTATGTCCGTTAGTA
1 TGTTATGTATGAATATTATTTATATTATGTTTATAAATATGTATGTATGTCCGTTAGTA
* *
38199545 TGTTATGTATGTATGTTATGTT-TATTACTGTTTA-AAATATGTATGTA
1 TGTTATGTATGAATATTAT-TTATATTA-TGTTTATAAATATGTATGTA
38199592 ATATGTGCAG
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
59 81 0.90
60 9 0.10
ACGTcount: A:0.25, C:0.03, G:0.16, T:0.55
Consensus pattern (59 bp):
TGTTATGTATGAATATTATTTATATTATGTTTATAAATATGTATGTATGTCCGTTAGTA
Found at i:38199962 original size:15 final size:15
Alignment explanation
Indices: 38199942--38199971 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38199932 TTCACTGTTA
*
38199942 TGTCTTTTGTATTTT
1 TGTCTTTTATATTTT
38199957 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
38199972 GCATGTATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:38200191 original size:14 final size:14
Alignment explanation
Indices: 38200172--38200211 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
38200162 TTGATTGCCA
38200172 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
38200186 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
38200200 GGAAAATGTTTT
1 GTAAAATGTTTT
38200212 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:38200220 original size:20 final size:20
Alignment explanation
Indices: 38200195--38200234 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
38200185 CGTAAAATGA
*
38200195 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGGTTTACT
*
38200215 TTTCTGTAAAATGGTTTACT
1 TTTCTGGAAAATGGTTTACT
38200235 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGGTTTACT
Found at i:38200224 original size:34 final size:35
Alignment explanation
Indices: 38200180--38200246 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
38200170 CAGTAAAATG
*
38200180 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
* *
38200214 TTTTCTGTAAAATGGTTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
38200247 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:38205534 original size:42 final size:43
Alignment explanation
Indices: 38205487--38205602 Score: 137
Period size: 42 Copynumber: 2.7 Consensus size: 43
38205477 ATCTGAGATG
38205487 TCGTGTAAGACCATGTCTAGGACATCGGCATC-GTATCTG-ATT
1 TCGTGTAAGACCATGTCTAGGACATCGGCATCGGTA-CTGAATT
* * **
38205529 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGGTACTGAATT
1 TCGTGTAAGACCATGTCTAGGACATCGGCATCGGTACTGAATT
* * * *
38205572 ACATGTAAGACCACGTCTAGGACGTCGGCAT
1 TCGTGTAAGACCATGTCTAGGACATCGGCAT
38205603 TGTACCCGTT
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 31 0.52
43 29 0.48
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTAGGACATCGGCATCGGTACTGAATT
Found at i:38205602 original size:43 final size:42
Alignment explanation
Indices: 38205490--38205602 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 42
38205480 TGAGATGTCG
* * * *
38205490 TGTAAGACCATGTCTAGGACATCGGCATCGTATCTGATTTCG
1 TGTAAGACCACGTCTAGGACGTCGGCATCGTATCTGATTACA
* *
38205532 TGTAAGACC-CTGTCTGGGACAG-AGGCATCGGTA-CTGAATTACA
1 TGTAAGACCAC-GTCTAGGAC-GTCGGCATC-GTATCTG-ATTACA
38205575 TGTAAGACCACGTCTAGGACGTCGGCAT
1 TGTAAGACCACGTCTAGGACGTCGGCAT
38205603 TGTACCCGTT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
42 27 0.47
43 29 0.51
44 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (42 bp):
TGTAAGACCACGTCTAGGACGTCGGCATCGTATCTGATTACA
Found at i:38209355 original size:31 final size:31
Alignment explanation
Indices: 38209313--38209483 Score: 279
Period size: 31 Copynumber: 5.5 Consensus size: 31
38209303 TTTAACGGTT
38209313 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
*
38209344 ACTGGGTCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
*
38209375 ACTGGGCCAAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
* *
38209406 ACTAGGTCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
* * *
38209437 TCTGGGCCGAAGCTTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
38209468 ACTGGGCCGAAGCCTT
1 ACTGGGCCGAAGCCTT
38209484 TACTATAAAC
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 127 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTATCATAAATCATATC
Found at i:38209757 original size:25 final size:25
Alignment explanation
Indices: 38209705--38209794 Score: 155
Period size: 25 Copynumber: 3.6 Consensus size: 25
38209695 ATTAATAACC
*
38209705 GGGGCAAAGCCCTTTT-GATAAACT
1 GGGGCAAAGCCCTTTTCGGTAAACT
38209729 GGGGCAAAGCCCTTTTCGGTAAACT
1 GGGGCAAAGCCCTTTTCGGTAAACT
38209754 GGGGCAAAGCCCTTTTCGGTAAACT
1 GGGGCAAAGCCCTTTTCGGTAAACT
*
38209779 GGGGCATAGCCCTTTT
1 GGGGCAAAGCCCTTTT
38209795 AGCACTTCCT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
24 16 0.25
25 47 0.75
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTCGGTAAACT
Found at i:38210638 original size:27 final size:27
Alignment explanation
Indices: 38210603--38210682 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
38210593 GGGCATATTC
* *
38210603 GTCATTTTACCATACAGGGG-TATTACA
1 GTCACTTTACCCTACAGGGGCT-TTACA
*
38210630 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACA
*
38210657 GTCACTTTACCCTACAAGGGCTTTAC
1 GTCACTTTACCCTACAGGGGCTTTAC
38210683 GGTCTTTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 47 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACA
Found at i:38210778 original size:27 final size:27
Alignment explanation
Indices: 38210725--38211056 Score: 226
Period size: 27 Copynumber: 12.3 Consensus size: 27
38210715 TTTCACCCTA
* * * *
38210725 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
38210752 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * * *
38210779 TAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-C
* *
38210808 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * *
38210835 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * * *
38210862 TGAGGGTATTTCGATAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
38210889 C-AGTGGTATTTTGGTAA-TTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * *
38210915 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
38210942 CAGGGGTATTTTGGTAATTTTACAGAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
38210969 CAA-GGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
38210995 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
38211022 CAATGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
38211049 CGAGGGTA
1 CAAGGGTA
38211057 AAATAGTAAT
Statistics
Matches: 247, Mismatches: 48, Indels: 20
0.78 0.15 0.06
Matches are distributed among these distances:
26 47 0.19
27 171 0.69
28 15 0.06
29 14 0.06
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:38210933 original size:53 final size:53
Alignment explanation
Indices: 38210811--38211042 Score: 211
Period size: 53 Copynumber: 4.3 Consensus size: 53
38210801 AGAAAGTCAA
** * *
38210811 GGGTATTTCT-GTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTT-TGGTAATTTTACAAACCA-GGGTATTTTGGTAATTTTACAAACTAG
* * *
38210864 AGGGTATTTCGATAATTTCACAAACCAGTGGTATTTTGGTAA-TTTACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACCAG-GGTATTTTGGTAATTTTACAAACTAG
* *
38210918 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAGACCA-
1 GGGTATTTTGGTAATTTTACAAACCA-GGGTATTTTGGTAATTTTACAAACTAG
* * * * ** * *
38210971 AGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTAC-AAACCAGGGTATTTTGGTAATTTTACAAACTAG
* *
38211025 TGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
38211043 GTAAATCGAG
Statistics
Matches: 150, Mismatches: 21, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
53 87 0.58
54 63 0.42
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACCAGGGTATTTTGGTAATTTTACAAACTAG
Found at i:38210938 original size:80 final size:79
Alignment explanation
Indices: 38210812--38211015 Score: 225
Period size: 80 Copynumber: 2.5 Consensus size: 79
38210802 GAAAGTCAAG
** **
38210812 GGTATTTCT-GTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCG
1 GGTATTT-TGGTAATTTTACAAAT-AGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTCG
*
38210875 ATAATTTCACAAACCAGT
63 ATAATTTCACAAACCA-A
* *
38210893 GGTATTTTGGTAA-TTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTCGAT
* *
38210957 AATTTTACAGACCAA
65 AATTTCACAAACCAA
** *
38210972 GGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTT
1 GGTATTTTGGTAATTTTACAAATAG-GGGTATTTTGGTAATTTT
38211016 GTAAACCAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
79 15 0.14
80 78 0.74
81 13 0.12
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.42
Consensus pattern (79 bp):
GGTATTTTGGTAATTTTACAAATAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTCGATA
ATTTCACAAACCAA
Found at i:38211022 original size:80 final size:80
Alignment explanation
Indices: 38210836--38211042 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 80
38210826 TTTGTAAATC
** * * * *
38210836 AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGATAATTTCACAAACCAGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTACAAACCAGAGGTATTT
*
38210900 TGGTAATTTACAAACT
65 TGGTAATTTACAAACG
*
38210916 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAGACCA-AGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTT
* *
38210980 GGTAATTTTACTGATCG
66 GGTAA-TTTAC-AAACG
** ** *
38210997 A-GGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTT
38211043 GTAAATCGAG
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
79 13 0.12
80 92 0.84
81 4 0.04
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTT
GGTAATTTACAAACG
Found at i:38211063 original size:27 final size:27
Alignment explanation
Indices: 38211033--38211164 Score: 174
Period size: 27 Copynumber: 4.9 Consensus size: 27
38211023 AATGGTATTT
*
38211033 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
38211060 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
38211087 TAGTAATTCTATAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * *
38211114 CGGTAATTCTATAAATTGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
38211141 TAGTAATTATGTAAATCGGGGGTA
1 TAGTAATTCTGTAAATCGAGGGTA
38211165 CTTTGGTAAT
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:38211066 original size:54 final size:54
Alignment explanation
Indices: 38211008--38211157 Score: 147
Period size: 54 Copynumber: 2.8 Consensus size: 54
38210998 GGGTATTTTG
* * *** * * *
38211008 GTAATTTTGTAAACCAATGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATA
* **
38211062 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATA
* *** * *
38211116 GTAATTCTATAAATTGAGGGTAAAATAGTAATTATGTAAATC
1 GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATC
38211158 GGGGGTACTT
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (54 bp):
GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATA
Found at i:38211899 original size:224 final size:224
Alignment explanation
Indices: 38211509--38211956 Score: 887
Period size: 224 Copynumber: 2.0 Consensus size: 224
38211499 CCGAGCACTC
38211509 TTAGCCGACGCCCAACCCAAACGAGCACGCCATACAGCGAAAGGGATCAGCCAAGAAAGGTACCT
1 TTAGCCGACGCCCAACCCAAACGAGCACGCCATACAGCGAAAGGGATCAGCCAAGAAAGGTACCT
*
38211574 CTACTCTCCTCATGGTTCTCTTTATTTAAAGCCAGCTTCGCATCCCCTCTTATGTTAGCTTCCCG
66 CTACTCTCCTCATGGTTCTCTCTATTTAAAGCCAGCTTCGCATCCCCTCTTATGTTAGCTTCCCG
38211639 ATGTGGGATCCTTCGAATATCAGAGTTTAAATTCAACACCAACTCTTGCCGCCCCCTGTTAGCAA
131 ATGTGGGATCCTTCGAATATCAGAGTTTAAATTCAACACCAACTCTTGCCGCCCCCTGTTAGCAA
38211704 AATAAATGCTCCTTGCTTGCCATGGGATT
196 AATAAATGCTCCTTGCTTGCCATGGGATT
38211733 TTAGCCGACGCCCAACCCAAACGAGCACGCCATACAGCGAAAGGGATCAGCCAAGAAAGGTACCT
1 TTAGCCGACGCCCAACCCAAACGAGCACGCCATACAGCGAAAGGGATCAGCCAAGAAAGGTACCT
38211798 CTACTCTCCTCATGGTTCTCTCTATTTAAAGCCAGCTTCGCATCCCCTCTTATGTTAGCTTCCCG
66 CTACTCTCCTCATGGTTCTCTCTATTTAAAGCCAGCTTCGCATCCCCTCTTATGTTAGCTTCCCG
38211863 ATGTGGGATCCTTCGAATATCAGAGTTTAAATTCAACACCAACTCTTGCCGCCCCCTGTTAGCAA
131 ATGTGGGATCCTTCGAATATCAGAGTTTAAATTCAACACCAACTCTTGCCGCCCCCTGTTAGCAA
38211928 AATAAATGCTCCTTGCTTGCCATGGGATT
196 AATAAATGCTCCTTGCTTGCCATGGGATT
38211957 CGAACCCATG
Statistics
Matches: 223, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
224 223 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (224 bp):
TTAGCCGACGCCCAACCCAAACGAGCACGCCATACAGCGAAAGGGATCAGCCAAGAAAGGTACCT
CTACTCTCCTCATGGTTCTCTCTATTTAAAGCCAGCTTCGCATCCCCTCTTATGTTAGCTTCCCG
ATGTGGGATCCTTCGAATATCAGAGTTTAAATTCAACACCAACTCTTGCCGCCCCCTGTTAGCAA
AATAAATGCTCCTTGCTTGCCATGGGATT
Found at i:38216810 original size:42 final size:43
Alignment explanation
Indices: 38216761--38216867 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 43
38216751 TTTGAGATGT
** *
38216761 CATGTAAGACCATGTCTGGGACATCGGCATCG-TATCTG-ATTT
1 CATGTAAGACCATGTCTGGGACAGAGGCATCGATA-CTGAATTA
* * * *
38216803 CGTGTAAGACCCTGTCTAGGATAGAGGCATCGATACTGAATTA
1 CATGTAAGACCATGTCTGGGACAGAGGCATCGATACTGAATTA
*
38216846 CATGTAAGACCACGTCTGGGAC
1 CATGTAAGACCATGTCTGGGAC
38216868 GTTGGCATTG
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
42 29 0.57
43 22 0.43
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACAGAGGCATCGATACTGAATTA
Found at i:38217589 original size:33 final size:33
Alignment explanation
Indices: 38217543--38217607 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
38217533 TTTCAGCATG
38217543 AGTTAGAATGTGCCATAATTGAGCTATGAAATC
1 AGTTAGAATGTGCCATAATTGAGCTATGAAATC
38217576 AGTTAG-ATGGTGCCATAATTGAGCTATGAAAT
1 AGTTAGAAT-GTGCCATAATTGAGCTATGAAAT
38217608 GAGCATTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 2 0.06
33 29 0.94
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (33 bp):
AGTTAGAATGTGCCATAATTGAGCTATGAAATC
Found at i:38232746 original size:27 final size:27
Alignment explanation
Indices: 38232715--38232892 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
38232705 TAAATTGTAC
38232715 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
38232742 TGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38232768 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38232796 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38232824 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38232851 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38232878 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38232893 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38232856 original size:82 final size:81
Alignment explanation
Indices: 38232716--38232871 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
38232706 AAATTGTACA
* *
38232716 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
38232781 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
*** *
38232797 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACTAAGT
*
38232861 GTGCGAGTTGA
64 GTGCGAATTGA
38232872 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38232883 original size:82 final size:81
Alignment explanation
Indices: 38232712--38232892 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
38232702 GATTAAATTG
* *
38232712 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
38232777 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * *** *
38232793 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACT
* **
38232857 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38232875 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38232893 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38240748 original size:27 final size:27
Alignment explanation
Indices: 38240717--38240894 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
38240707 TAAATTGTAC
38240717 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
38240744 TGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38240770 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38240798 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38240826 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38240853 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38240880 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38240895 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38240858 original size:82 final size:81
Alignment explanation
Indices: 38240718--38240873 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
38240708 AAATTGTACA
* *
38240718 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
38240783 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
*** *
38240799 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACTAAGT
*
38240863 GTGCGAGTTGA
64 GTGCGAATTGA
38240874 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38240885 original size:82 final size:81
Alignment explanation
Indices: 38240714--38240894 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
38240704 GATTAAATTG
* *
38240714 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
38240779 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * *** *
38240795 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACT
* **
38240859 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38240877 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38240895 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38245364 original size:24 final size:24
Alignment explanation
Indices: 38245321--38245370 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
38245311 CATAGTATGC
*
38245321 CTCCACCAGCTCGAGTAGCTCCTG
1 CTCCACCAGCTCGAGCAGCTCCTG
*
38245345 CTCCACCAGCTTC-AGCAGCTCTTG
1 CTCCACCAGC-TCGAGCAGCTCCTG
38245369 CT
1 CT
38245371 ACATTAGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.16, C:0.42, G:0.18, T:0.24
Consensus pattern (24 bp):
CTCCACCAGCTCGAGCAGCTCCTG
Done.