Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 200 of 320
Found at i:66900735 original size:47 final size:48
Alignment explanation
Indices: 66900662--66900886 Score: 205
Period size: 47 Copynumber: 4.8 Consensus size: 48
66900652 AGAGTAAGGT
* * *
66900662 GCCGATGCCATGTCCTAGACACGGTCTTACACTGGCTCATATCTC-AA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATCTCGAA
* * * *
66900709 GTCGATGCCATGTCCCATACATGGTCTTACACTGACT-ATTATCTCGTA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCA-TATCTCGAA
* ** *
66900757 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATCTCGAA
* * * *
66900803 GCCGATG-CATGCCCCAGACAT-GTCTTACACTAGC-CCTCATCTC-AA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCAT-ATCTCGAA
* * *
66900848 TACCGACGCCATATCCCAAACATGGTCTTACACTGGCTC
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
66900887 TCATAATGTG
Statistics
Matches: 143, Mismatches: 27, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 59 0.41
47 63 0.44
48 19 0.13
49 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATCTCGAA
Found at i:66900800 original size:46 final size:47
Alignment explanation
Indices: 66900662--66900927 Score: 192
Period size: 47 Copynumber: 5.7 Consensus size: 47
66900652 AGAGTAAGGT
* * * * *
66900662 GCCGATGCCATGTCCTAGACACGGTCTTACACTGGCTCATATCTC-AA
1 GCCGATGCCATGTCCCAGACA-TGTCTTACACTGGCTTACATCTCGTA
* * * *
66900709 GTCGATGCCATGTCCCATACATGGTCTTACACTGAC-TATTATCTCGTA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCGTA
* *
66900757 GCCGATG-CATGTCCCAAACATGTCTTACACTGGCTTACGTCTCG-A
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGTA
* * * *
66900802 GGCCGATG-CATGCCCCAGACATGTCTTACACTAGCCCT-CATCTCAATA
1 -GCCGATGCCATGTCCCAGACATGTCTTACACT-GGCTTACATCTC-GTA
* * * * *
66900850 -CCGACGCCATATCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGTA
*
66900897 GCCGATG-CACGTCCCAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT
66900928 AGCTCACACA
Statistics
Matches: 175, Mismatches: 31, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
45 1 0.01
46 67 0.38
47 79 0.45
48 27 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGTA
Found at i:66917032 original size:20 final size:19
Alignment explanation
Indices: 66916972--66917044 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
66916962 TACATAATAA
*
66916972 ATAATTAATAATAAAATGAT
1 ATAA-TAATAATAAAAAGAT
* *
66916992 ATAGTAA-AATAAAAATAAT
1 ATAATAATAATAAAAA-GAT
66917011 ATAATGAATAATAAAAAGAT
1 ATAAT-AATAATAAAAAGAT
66917031 ATAATATATAATAA
1 ATAATA-ATAATAA
66917045 TTTTTACATA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 7 0.16
19 10 0.23
20 19 0.43
21 8 0.18
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAATAATAATAAAAAGAT
Found at i:66917108 original size:23 final size:26
Alignment explanation
Indices: 66917078--66917150 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 26
66917068 GATAGTAAAG
* *
66917078 ATAAATAATATATAAAGTATTTAATAA
1 ATAAATTATATA-AAAATATTTAATAA
66917105 ATAAATTATATAAAAATATTTAA-AA
1 ATAAATTATATAAAAATATTTAATAA
*
66917130 GGACTAAATTAAATAAAAATA
1 --A-TAAATTATATAAAAATA
66917151 AAGCTCTAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
25 2 0.05
26 10 0.25
27 12 0.30
28 16 0.40
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (26 bp):
ATAAATTATATAAAAATATTTAATAA
Found at i:66920519 original size:40 final size:40
Alignment explanation
Indices: 66920464--66920544 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
66920454 CTACTTGGGC
66920464 ATTATAACGTAATTAATTCAAAATATTTAATCATACTAAA
1 ATTATAACGTAATTAATTCAAAATATTTAATCATACTAAA
*
66920504 ATTATAACGTAATTAATTCAAAATATTTAATCATTCTAAA
1 ATTATAACGTAATTAATTCAAAATATTTAATCATACTAAA
66920544 A
1 A
66920545 ATATTTTCAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.38
Consensus pattern (40 bp):
ATTATAACGTAATTAATTCAAAATATTTAATCATACTAAA
Found at i:66927815 original size:51 final size:49
Alignment explanation
Indices: 66927694--66927888 Score: 264
Period size: 49 Copynumber: 3.9 Consensus size: 49
66927684 GCTATTGTGA
* * *
66927694 GGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACAAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
66927743 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT
* * * *
66927793 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * *
66927843 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
66927889 GCTTCGGCTA
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 81 0.64
50 4 0.03
51 41 0.33
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:66927874 original size:100 final size:100
Alignment explanation
Indices: 66927696--66927894 Score: 328
Period size: 100 Copynumber: 2.0 Consensus size: 100
66927686 TATTGTGAGG
66927696 TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACAAGATAATTGGTCACATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACAAGATAATTGGTCACATGTGTAGTACT
* *
66927761 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTATGCATACCAGATAACTTCGA
* * *
66927796 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAA-ATAATTGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTA-CAAGATAATTGGTCACATGTGTAGTAC
*
66927860 TAAGTGCAGGCTACTATGCATACCAGATAGCTTCG
65 TAAGTGCAGGCTACTATGCATACCAGATAACTTCG
66927895 GCTACAAGTG
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 89 0.97
101 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACAAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCAGATAACTTCGA
Found at i:66936295 original size:39 final size:40
Alignment explanation
Indices: 66936217--66936386 Score: 229
Period size: 40 Copynumber: 4.3 Consensus size: 40
66936207 TCTTCGGAAT
* * *
66936217 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
66936256 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
*
66936295 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * *
66936335 TTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
66936375 TTAGCCCGGATA
1 TTAGCCCGGATA
66936387 TCATTCAAAT
Statistics
Matches: 116, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 37 0.32
40 79 0.68
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:66936343 original size:79 final size:80
Alignment explanation
Indices: 66936208--66936386 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 80
66936198 ACCCAAGTTT
* * * * *
66936208 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAT
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAT
*
66936271 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * * *
66936287 CTTC-GGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATAAAAT
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAT
*
66936351 CACTAGCACAATTGC
66 CACTAGCACAAATGC
66936366 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATA
66936387 TCATTCAAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 5 0.06
79 61 0.72
80 19 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAT
CACTAGCACAAATGC
Found at i:66939267 original size:10 final size:10
Alignment explanation
Indices: 66939244--66939284 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
66939234 AGTAGTACAT
66939244 TATA-TATTA
1 TATATTATTA
*
66939253 CATATTATTA
1 TATATTATTA
66939263 TATATTATTA
1 TATATTATTA
*
66939273 TTTATTATTA
1 TATATTATTA
66939283 TA
1 TA
66939285 CTAGTTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
9 3 0.11
10 24 0.89
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (10 bp):
TATATTATTA
Found at i:66939565 original size:226 final size:227
Alignment explanation
Indices: 66939120--66939586 Score: 620
Period size: 226 Copynumber: 2.1 Consensus size: 227
66939110 ATATCATATC
* * * * * *
66939120 ATATATATAATATATTAATAGCTTATATTTATGCATTAATGATTAAACATTATAATATTATGTAA
1 ATATATATAATATATTAATAGCTTATATATATGCATAAATAATTAAAAATTATAATATCATATAA
* * * *
66939185 TATTATATATTTTATTATAATTGATAATATAATAATAGTTATATATAATAGTAGTACATTATATA
66 TACTAAATATTTTATTACAATTGATAATACAATAATAGTTATATATAATAGTAGTACATTATATA
* *
66939250 TTACATATTATTATATATTATTATTTATTATTATACTAGTTGAAATATGCTTTAAGTCCTTATAC
131 TTACATATTATTATATATTATTATTTATTATTATACTAGGTGAAATATGCTTGAAGTCCTTATAC
* *
66939315 TTTTCTTACATTTGAAAATTAGCTCTTTTGCT
196 TTTTCATACAGTTGAAAATTAGCTCTTTTGCT
*
66939347 ATATCATATCATATATTAATAG-TT-TATATATGCATAAATAATTAAAAATTATAATATCATATA
1 ATAT-ATATAATATATTAATAGCTTATATATATGCATAAATAATTAAAAATTATAATATCATATA
* *
66939410 ATACTAAATCTTTTATTACAATCT-ATATTACAATAATAGTTATATATAATAGTAGTACATTATA
65 ATACTAAATATTTTATTACAAT-TGATAATACAATAATAGTTATATATAATAGTAGTACATTATA
* * * * *
66939474 TATTGCTTATTGTTATATATTATTATTTATTATTGTACTAGGTGAAATATGCTTGAAGT-CTCTG
129 TATTACATATTATTATATATTATTATTTATTATTATACTAGGTGAAATATGCTTGAAGTCCT-TA
* ** *
66939538 TAGTTTTCATACAGTT-AAAAGTTAGCTCTCCTACT
193 TACTTTTCATACAGTTGAAAA-TTAGCTCTTTTGCT
66939573 ATATTATATAATAT
1 ATA-TATATAATAT
66939587 TATTGTATTA
Statistics
Matches: 208, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
225 6 0.03
226 178 0.86
227 8 0.04
228 16 0.08
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (227 bp):
ATATATATAATATATTAATAGCTTATATATATGCATAAATAATTAAAAATTATAATATCATATAA
TACTAAATATTTTATTACAATTGATAATACAATAATAGTTATATATAATAGTAGTACATTATATA
TTACATATTATTATATATTATTATTTATTATTATACTAGGTGAAATATGCTTGAAGTCCTTATAC
TTTTCATACAGTTGAAAATTAGCTCTTTTGCT
Found at i:66939735 original size:5 final size:5
Alignment explanation
Indices: 66939725--66939837 Score: 192
Period size: 5 Copynumber: 22.4 Consensus size: 5
66939715 TTAGTAATAG
66939725 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
*
66939775 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTAT- TAATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
66939824 GTATATA TTATA TT
1 -T-TATA TTATA TT
66939838 TTTATTTTAT
Statistics
Matches: 103, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
4 3 0.03
5 95 0.92
6 2 0.02
7 3 0.03
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:66940032 original size:16 final size:17
Alignment explanation
Indices: 66940011--66940043 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
66940001 ATAATTATAG
66940011 TATTAAA-AATATTTTA
1 TATTAAATAATATTTTA
66940027 TATTAAATTAATATTTT
1 TATTAAA-TAATATTTT
66940044 TTAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTAAATAATATTTTA
Found at i:66943406 original size:27 final size:27
Alignment explanation
Indices: 66943376--66943579 Score: 234
Period size: 27 Copynumber: 7.6 Consensus size: 27
66943366 AATCGATAAT
66943376 ATGACTATTTTGCCCTTATGGGGTAAA
1 ATGACTATTTTGCCCTTATGGGGTAAA
* * *
66943403 ATGATTGTTTTGCCCTTATAGGGTAAA
1 ATGACTATTTTGCCCTTATGGGGTAAA
**
66943430 ATGACTATTTACCCCTTATGGGGT-AA
1 ATGACTATTTTGCCCTTATGGGGTAAA
* * *
66943456 ATGATTGTTTTGCCCTTATAGGGTAAA
1 ATGACTATTTTGCCCTTATGGGGTAAA
* *
66943483 ATGACTGTTTTGCCCTTATGTGGTAAA
1 ATGACTATTTTGCCCTTATGGGGTAAA
* *
66943510 ATGACTATTTTG--CTTGATGTGGTAAG
1 ATGACTATTTTGCCCTT-ATGGGGTAAA
** *
66943536 ATGACTATTTTGCCCTTATATGGTAAG
1 ATGACTATTTTGCCCTTATGGGGTAAA
*
66943563 ATGACTGTTTTGCCCTT
1 ATGACTATTTTGCCCTT
66943580 TTGTGATGTA
Statistics
Matches: 153, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
25 3 0.02
26 42 0.27
27 105 0.69
28 3 0.02
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (27 bp):
ATGACTATTTTGCCCTTATGGGGTAAA
Found at i:66943478 original size:53 final size:54
Alignment explanation
Indices: 66943376--66943579 Score: 263
Period size: 53 Copynumber: 3.8 Consensus size: 54
66943366 AATCGATAAT
*
66943376 ATGACTATTTTGCCCTTATGGGGTAAAATGATTGTTTTGCCCTTATAGGGTAAA
1 ATGACTATTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCCTTATAGGGTAAA
** *
66943430 ATGACTATTTACCCCTTATGGGGT-AAATGATTGTTTTGCCCTTATAGGGTAAA
1 ATGACTATTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCCTTATAGGGTAAA
* * * *
66943483 ATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTTTG--CTTGAT-GTGGTAAG
1 ATGACTATTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCCTT-ATAG-GGTAAA
** *
66943536 ATGACTATTTTGCCCTTATATGGTAAGATGACTGTTTTGCCCTT
1 ATGACTATTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCCTT
66943580 TTGTGATGTA
Statistics
Matches: 132, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
52 4 0.03
53 91 0.69
54 34 0.26
55 3 0.02
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (54 bp):
ATGACTATTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCCTTATAGGGTAAA
Found at i:66943516 original size:80 final size:80
Alignment explanation
Indices: 66943376--66943584 Score: 280
Period size: 80 Copynumber: 2.6 Consensus size: 80
66943366 AATCGATAAT
* *
66943376 ATGACTATTTTGCCCTTATGGGGTAAAATGATTGTTTTGCCCTTATAG-GGTAAAATGACTATTT
1 ATGACTATTTTGCCCTTATAGGGTAAAATGACTGTTTTGCCCTTAT-GTGGTAAAATGACTATTT
66943440 ACCCCTT-ATGGGGTAA-
65 --CCCTTGATGGGGTAAG
* * *
66943456 ATGATTGTTTTGCCCTTATAGGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTTT
1 ATGACTATTTTGCCCTTATAGGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTTC
* *
66943521 GCTTGATGTGGTAAG
66 CCTTGATGGGGTAAG
* * *
66943536 ATGACTATTTTGCCCTTATATGGTAAGATGACTGTTTTGCCCTTTTGTG
1 ATGACTATTTTGCCCTTATAGGGTAAAATGACTGTTTTGCCCTTATGTG
66943585 ATGTATGTTT
Statistics
Matches: 114, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
78 3 0.03
79 9 0.08
80 102 0.89
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (80 bp):
ATGACTATTTTGCCCTTATAGGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTTC
CCTTGATGGGGTAAG
Found at i:66943936 original size:18 final size:18
Alignment explanation
Indices: 66943913--66943961 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
66943903 CATACTATTG
*
66943913 TTACTGTTACTGCACTGA
1 TTACTGTTACTGCACTAA
*
66943931 TTACTGTTATTGCACTAA
1 TTACTGTTACTGCACTAA
66943949 TTACTGTTACTGC
1 TTACTGTTACTGC
66943962 CATGGGCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.43
Consensus pattern (18 bp):
TTACTGTTACTGCACTAA
Found at i:66948382 original size:47 final size:45
Alignment explanation
Indices: 66948264--66948388 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 45
66948254 GGATGGTTGA
*
66948264 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTT--CCTA-GGATGCAAAG
* *
66948312 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGT-GAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTAG-GATGCAA--AG
66948357 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
66948389 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
42 1 0.01
43 6 0.09
44 2 0.03
45 2 0.03
46 28 0.41
47 29 0.42
48 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTAGGATGCAAAG
Found at i:66949762 original size:27 final size:27
Alignment explanation
Indices: 66949730--66949843 Score: 88
Period size: 27 Copynumber: 4.3 Consensus size: 27
66949720 CTAATGGATA
66949730 AAAATGACCATAACACCCCCGTAGGGT
1 AAAATGACCATAACACCCCCGTAGGGT
* * ** *
66949757 GAAATGACCGTAATGCCTCCGTAGGGT
1 AAAATGACCATAACACCCCCGTAGGGT
* ** *
66949784 AAAATGACCGTAA-TGCCCC-TAAGGT
1 AAAATGACCATAACACCCCCGTAGGGT
* * * * *
66949809 AAAATGATCGTAATACCCCTGTAGGGC
1 AAAATGACCATAACACCCCCGTAGGGT
66949836 AAAATGAC
1 AAAATGAC
66949844 GAGTATGCCC
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
25 17 0.25
26 6 0.09
27 45 0.66
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (27 bp):
AAAATGACCATAACACCCCCGTAGGGT
Found at i:66949815 original size:25 final size:25
Alignment explanation
Indices: 66949758--66949828 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
66949748 CCGTAGGGTG
*
66949758 AAATGACCGTAATGCCTCCGTAGGGTA
1 AAATGACCGTAATGCC-CC-TAAGGTA
66949785 AAATGACCGTAATGCCCCTAAGGTA
1 AAATGACCGTAATGCCCCTAAGGTA
* *
66949810 AAATGATCGTAATACCCCT
1 AAATGACCGTAATGCCCCT
66949829 GTAGGGCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 23 0.56
26 2 0.05
27 16 0.39
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (25 bp):
AAATGACCGTAATGCCCCTAAGGTA
Found at i:66950058 original size:27 final size:27
Alignment explanation
Indices: 66949978--66950058 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
66949968 AGGAAGTACT
* *
66949978 ATACTGGTGACTATGTCACATTCACTT
1 ATACTGGTGGCTATGTCACATTCACTG
*
66950005 ATACTGGTGGCTATGCCACAATT-ACTG
1 ATACTGGTGGCTATGTCAC-ATTCACTG
*
66950032 ATACTGGTGGCTTTGTCACATTCACTG
1 ATACTGGTGGCTATGTCACATTCACTG
66950059 TTTCTGGTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 3 0.06
27 41 0.87
28 3 0.06
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
ATACTGGTGGCTATGTCACATTCACTG
Found at i:66954367 original size:40 final size:40
Alignment explanation
Indices: 66954300--66954476 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
66954290 ACCCAAGCAT
*
66954300 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
66954339 CTTCGGGTCTTAGCCCGGATATAGCAACTCGTACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
66954379 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
66954419 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
66954459 CTTTGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
66954477 TTATCATCCG
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 101 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:66957907 original size:45 final size:45
Alignment explanation
Indices: 66957843--66958048 Score: 285
Period size: 45 Copynumber: 4.6 Consensus size: 45
66957833 TTGCGTACTG
*
66957843 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
66957888 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
66957933 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * ** *
66957978 TATTATTCAGGCCTTCAAGCCTAGCAGG-TATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
66958022 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGC
66958049 GAAATGTCGG
Statistics
Matches: 147, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
42 15 0.10
43 4 0.03
44 16 0.11
45 112 0.76
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:66962370 original size:16 final size:16
Alignment explanation
Indices: 66962349--66962384 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
66962339 GGCAAATCCC
*
66962349 GAAATGTCGAAAAGCT
1 GAAATGCCGAAAAGCT
66962365 GAAATGCCGAAAAGCT
1 GAAATGCCGAAAAGCT
66962381 GAAA
1 GAAA
66962385 GTTTGACTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.14, G:0.25, T:0.14
Consensus pattern (16 bp):
GAAATGCCGAAAAGCT
Found at i:66962679 original size:28 final size:28
Alignment explanation
Indices: 66962597--66962683 Score: 122
Period size: 29 Copynumber: 3.0 Consensus size: 28
66962587 TGAACACGAC
*
66962597 TATAAATGTGAATTGGGCCT-GATGGACCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
66962626 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
66962655 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
66962683 T
1 T
66962684 GTACAGGTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
28 18 0.34
29 35 0.66
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:66964250 original size:45 final size:45
Alignment explanation
Indices: 66964176--66964261 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
66964166 CATCGATCCG
* *
66964176 TCTTTCTTCTTAACAAGCAAGATTGGTGCTTCCCATGGAGACACA
1 TCTTTCTTCTTAACAAGCAAGATCGGTGCTCCCCATGGAGACACA
*
66964221 TCTTTCTTCTTAACAAGCAGGA-CGAGTGCTCCCCATGGAGA
1 TCTTTCTTCTTAACAAGCAAGATCG-GTGCTCCCCATGGAGA
66964262 TACACTCAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 1 0.03
45 36 0.97
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (45 bp):
TCTTTCTTCTTAACAAGCAAGATCGGTGCTCCCCATGGAGACACA
Found at i:66985184 original size:44 final size:45
Alignment explanation
Indices: 66985120--66985323 Score: 260
Period size: 44 Copynumber: 4.6 Consensus size: 45
66985110 TTGCGTACTG
*
66985120 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
66985165 TACTATTC-GGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
66985209 TACTATTCGGGCC-TTGAGCCTAGCAGGCTATAAT-CCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * ** *
66985252 TATTATTCAGG-CTTCAAGCCTAGCAGG-TATAAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTAT-AATGCCGGTGAGA
*
66985296 TGA-TA-TCGGGCCTTCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGC
66985324 GAAATGTCGG
Statistics
Matches: 142, Mismatches: 10, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
42 4 0.03
43 36 0.25
44 89 0.63
45 13 0.09
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:66985272 original size:87 final size:88
Alignment explanation
Indices: 66985120--66985323 Score: 265
Period size: 87 Copynumber: 2.3 Consensus size: 88
66985110 TTGCGTACTG
* * **
66985120 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATACTATTCGGCCTTTGAGCC
1 TACTATTCGGGCC-TTGAGCCTAGCAGGCTATAATGCCAGTGAGATACTATTCGGCCTTCAAGCC
* *
66985185 TAGCAGGCTAT-GATGCCGGTGAGA
65 TAGCAGG-TATAAATGCCGGTGAAA
*
66985209 TACTATTCGGGCCTTGAGCCTAGCAGGCTATAAT-CCAGTGAGATATTATTCAGG-CTTCAAGCC
1 TACTATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCAGTGAGATACTATTC-GGCCTTCAAGCC
66985272 TAGCAGGTATAAATGCCGGTGAAA
65 TAGCAGGTATAAATGCCGGTGAAA
66985296 TGA-TA-TCGGGCCTTCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTT-GAGCCTAGCAGGC
66985324 GAAATGTCGG
Statistics
Matches: 104, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
86 12 0.12
87 56 0.54
88 23 0.22
89 13 0.12
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (88 bp):
TACTATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCAGTGAGATACTATTCGGCCTTCAAGCCT
AGCAGGTATAAATGCCGGTGAAA
Found at i:66988728 original size:4 final size:4
Alignment explanation
Indices: 66988719--66988743 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
66988709 AGTGTAGGTG
66988719 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
66988744 TAGTATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:66989472 original size:15 final size:14
Alignment explanation
Indices: 66989452--66989491 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 14
66989442 GTAGATCGGC
66989452 AAAAGCCAAATGCCG
1 AAAAGCCAAATG-CG
66989467 AAAAGCCAAAATGCG
1 AAAAGCC-AAATGCG
66989482 AAAAGCCAAA
1 AAAAGCCAAA
66989492 GTTTGACTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.12
15 16 0.67
16 5 0.21
ACGTcount: A:0.55, C:0.23, G:0.17, T:0.05
Consensus pattern (14 bp):
AAAAGCCAAATGCG
Found at i:66989761 original size:29 final size:28
Alignment explanation
Indices: 66989696--66989784 Score: 135
Period size: 28 Copynumber: 3.1 Consensus size: 28
66989686 GTGACATGAC
*
66989696 TATAAATGTGAATTGGGCCTGAT-GGCCA
1 TATAAATGTG-ATTGGGCCTAATGGGCCA
66989724 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAATGGGCCA
*
66989753 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAATGGGCCA
66989781 TATA
1 TATA
66989785 CAGGTATGTG
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
27 1 0.02
28 40 0.70
29 16 0.28
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:67002409 original size:30 final size:30
Alignment explanation
Indices: 67002375--67002435 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
67002365 TCATTAACTC
67002375 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
67002405 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
67002435 A
1 A
67002436 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:67004698 original size:11 final size:11
Alignment explanation
Indices: 67004677--67004710 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
67004667 TTGGGAGTTC
67004677 TTTCAAGAAGAA
1 TTTC-AGAAGAA
67004689 TTTCAGAAGAA
1 TTTCAGAAGAA
*
67004700 ATTCAGAAGAA
1 TTTCAGAAGAA
67004711 ATACATCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.24
Consensus pattern (11 bp):
TTTCAGAAGAA
Found at i:67004719 original size:14 final size:11
Alignment explanation
Indices: 67004682--67004712 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
67004672 AGTTCTTTCA
*
67004682 AGAAGAATTTC
1 AGAAGAAATTC
67004693 AGAAGAAATTC
1 AGAAGAAATTC
67004704 AGAAGAAAT
1 AGAAGAAAT
67004713 ACATCAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (11 bp):
AGAAGAAATTC
Found at i:67018537 original size:36 final size:36
Alignment explanation
Indices: 67018490--67018559 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
67018480 ACGATTATAC
67018490 AAGGTAGCAACGAAGCACCACCATGATGCTCGTTTA
1 AAGGTAGCAACGAAGCACCACCATGATGCTCGTTTA
* *
67018526 AAGGTAGCAACGAAGCGCCGCCATGATGCTCGTT
1 AAGGTAGCAACGAAGCACCACCATGATGCTCGTT
67018560 CAACACAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.19
Consensus pattern (36 bp):
AAGGTAGCAACGAAGCACCACCATGATGCTCGTTTA
Found at i:67018571 original size:36 final size:36
Alignment explanation
Indices: 67018495--67018571 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
67018485 TATACAAGGT
* **
67018495 AGCAACGAAGCACCACCATGATGCTCGTTTAAAGGT
1 AGCAACGAAGCACCACCATGATGCTCGTTCAAAGCA
* *
67018531 AGCAACGAAGCGCCGCCATGATGCTCGTTCAACA-CA
1 AGCAACGAAGCACCACCATGATGCTCGTTCAA-AGCA
67018567 AGCAA
1 AGCAA
67018572 TTTGAAGTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 34 0.97
37 1 0.03
ACGTcount: A:0.34, C:0.29, G:0.22, T:0.16
Consensus pattern (36 bp):
AGCAACGAAGCACCACCATGATGCTCGTTCAAAGCA
Found at i:67019805 original size:28 final size:27
Alignment explanation
Indices: 67019724--67019820 Score: 94
Period size: 28 Copynumber: 3.6 Consensus size: 27
67019714 CTTCATCCAG
*
67019724 CTACTTCTCCTTCTCTA-TTTTTCTTT
1 CTACTTCTCCTTCTCCATTTTTTCTTT
* *
67019750 C-CCGTT-T-CTTTTCCATTTCTCTTCTTT
1 CTAC-TTCTCCTTCTCCATTT-T-TTCTTT
67019777 CTTACTTCTCCTTCTCCATTTTTTCTTT
1 C-TACTTCTCCTTCTCCATTTTTTCTTT
67019805 CCTACTTCTCCTTCTC
1 -CTACTTCTCCTTCTC
67019821 TATTCCTCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
24 6 0.11
25 4 0.07
26 4 0.07
27 7 0.12
28 22 0.39
29 4 0.07
30 10 0.18
ACGTcount: A:0.06, C:0.35, G:0.01, T:0.58
Consensus pattern (27 bp):
CTACTTCTCCTTCTCCATTTTTTCTTT
Found at i:67021559 original size:17 final size:17
Alignment explanation
Indices: 67021529--67021575 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
67021519 TTATTTTTAC
**
67021529 TTTATTTTGCTTTTCCT
1 TTTATTTTTATTTTCCT
* *
67021546 TTTGTTTTTATTTTTCT
1 TTTATTTTTATTTTCCT
67021563 TTTATTTTTATTT
1 TTTATTTTTATTT
67021576 CTATTTCCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATTTTCCT
Found at i:67021571 original size:11 final size:11
Alignment explanation
Indices: 67021518--67021581 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
67021508 TTTGAGTCCA
67021518 TTTATTTTTAC-
1 TTTATTTTT-CT
*
67021529 TTTATTTTGCT
1 TTTATTTTTCT
*
67021540 TTTCCTTTTGT-T
1 TTT-ATTTT-TCT
67021552 TTTATTTTTCT
1 TTTATTTTTCT
*
67021563 TTTATTTTTAT
1 TTTATTTTTCT
67021574 TTCTATTT
1 TT-TATTT
67021582 CCATTTTTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 2 0.05
11 28 0.65
12 13 0.30
ACGTcount: A:0.11, C:0.09, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTATTTTTCT
Found at i:67021571 original size:23 final size:23
Alignment explanation
Indices: 67021529--67021581 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
67021519 TTATTTTTAC
* *
67021529 TTTATTTTGCTTTTCCTTTTGTT
1 TTTATTTTGCTTTTACTTTTATT
* *
67021552 TTTATTTTTCTTTTATTTTTATT
1 TTTATTTTGCTTTTACTTTTATT
*
67021575 TCTATTT
1 TTTATTT
67021582 CCATTTTTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.77
Consensus pattern (23 bp):
TTTATTTTGCTTTTACTTTTATT
Found at i:67027293 original size:21 final size:20
Alignment explanation
Indices: 67027267--67027306 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
67027257 GTTATAATGA
*
67027267 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCATGTT-CCCTT
67027288 CCACACGGGCATGTTCCCT
1 CCACACGGGCATGTTCCCT
67027307 GTTTCAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.12, C:0.40, G:0.25, T:0.23
Consensus pattern (20 bp):
CCACACGGGCATGTTCCCTT
Found at i:67030132 original size:23 final size:23
Alignment explanation
Indices: 67030105--67030151 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
67030095 TACAAAAGCT
67030105 TAACCATTGAACCAGCAAGCTCA
1 TAACCATTGAACCAGCAAGCTCA
67030128 TAACCATTGAACCAGCAAGCTCA
1 TAACCATTGAACCAGCAAGCTCA
67030151 T
1 T
67030152 TCTTAACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.30, G:0.13, T:0.19
Consensus pattern (23 bp):
TAACCATTGAACCAGCAAGCTCA
Found at i:67041247 original size:31 final size:31
Alignment explanation
Indices: 67041212--67041276 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
67041202 GAAACAAGGA
* *
67041212 CAAGTTAGAAGGAATTGAAACTTCATTATTC
1 CAAGTCAGAAGAAATTGAAACTTCATTATTC
*
67041243 CAAGTCAGAAGAAATTGAAACTTCATTTTTC
1 CAAGTCAGAAGAAATTGAAACTTCATTATTC
67041274 CAA
1 CAA
67041277 AAATAGAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (31 bp):
CAAGTCAGAAGAAATTGAAACTTCATTATTC
Found at i:67042585 original size:15 final size:16
Alignment explanation
Indices: 67042565--67042603 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
67042555 TGTTTTTTGA
67042565 TTTCTTTTTTCT-TTT
1 TTTCTTTTTTCTGTTT
67042580 TTTC-TTTTTCTGTTT
1 TTTCTTTTTTCTGTTT
67042595 TTT-TTTTTT
1 TTTCTTTTTT
67042604 TTTGAGCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTCTTTTTTCTGTTT
Found at i:67042606 original size:8 final size:8
Alignment explanation
Indices: 67042565--67042605 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
67042555 TGTTTTTTGA
67042565 TTTC-TTT
1 TTTCTTTT
67042572 TTTCTTTT
1 TTTCTTTT
67042580 TTTCTTTT
1 TTTCTTTT
* *
67042588 TCTGTTTT
1 TTTCTTTT
67042596 TTT-TTTT
1 TTTCTTTT
67042603 TTT
1 TTT
67042606 TGAGCGTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
7 11 0.37
8 19 0.63
ACGTcount: A:0.00, C:0.10, G:0.02, T:0.88
Consensus pattern (8 bp):
TTTCTTTT
Found at i:67046182 original size:20 final size:20
Alignment explanation
Indices: 67046144--67046182 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
67046134 TGATCTTAAT
*
67046144 ATAATTTATTTTCTCATAAA
1 ATAATTTATTTTCTAATAAA
*
67046164 ATAATTTATTTTTTAATAA
1 ATAATTTATTTTCTAATAA
67046183 TTTTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAATTTATTTTCTAATAAA
Found at i:67052429 original size:9 final size:9
Alignment explanation
Indices: 67052412--67052448 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
67052402 TGAGTTTTCG
67052412 AATTCGAAT
1 AATTCGAAT
*
67052421 AACTCGAAT
1 AATTCGAAT
*
67052430 AATTCAAAT
1 AATTCGAAT
67052439 AATTCGAAT
1 AATTCGAAT
67052448 A
1 A
67052449 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:67052704 original size:30 final size:30
Alignment explanation
Indices: 67052660--67052718 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
67052650 AACTTTTTAT
67052660 TTTCCCCCAAAATTTTTAC-TCCCTCCCAC
1 TTTCCCCCAAAATTTTTACTTCCCTCCCAC
*
67052689 TTTCCCCCTAAAATTTTTACTTCCTTCCCA
1 TTTCCCCC-AAAATTTTTACTTCCCTCCCA
67052719 TCCCACCTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 11 0.41
31 8 0.30
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (30 bp):
TTTCCCCCAAAATTTTTACTTCCCTCCCAC
Found at i:67053289 original size:16 final size:17
Alignment explanation
Indices: 67053253--67053289 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
67053243 GTGATGAAAG
*
67053253 TTAATAAAAAATTTGTC
1 TTAATAAAAAATTTGTA
67053270 TTAATAAAAAATTTG-A
1 TTAATAAAAAATTTGTA
67053286 TTAA
1 TTAA
67053290 GGTGGACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (17 bp):
TTAATAAAAAATTTGTA
Found at i:67057248 original size:6 final size:6
Alignment explanation
Indices: 67057237--67057277 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
67057227 CATTCAATTT
67057237 AAACCA AAACCA AAACCA AAACCA AAACCA AAACCA AAACC
1 AAACCA AAACCA AAACCA AAACCA AAACCA AAACCA AAACC
67057278 TTGTAATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACCA
Found at i:67060067 original size:15 final size:15
Alignment explanation
Indices: 67060039--67060077 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
67060029 AACAATAATT
*
67060039 AAAATAAATTATTTAA
1 AAAATAAA-AATTTAA
*
67060055 AAATTAAAAATTTAA
1 AAAATAAAAATTTAA
67060070 AAAATAAA
1 AAAATAAA
67060078 TTTACATGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATAAAAATTTAA
Found at i:67060785 original size:5 final size:5
Alignment explanation
Indices: 67060775--67060850 Score: 152
Period size: 5 Copynumber: 15.2 Consensus size: 5
67060765 TATAGAATCA
67060775 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
67060825 ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT A
67060851 ATGTTTTTAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 71 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:67061490 original size:25 final size:25
Alignment explanation
Indices: 67061462--67061511 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
67061452 AATCTCAAGC
67061462 AATTTAGATGTCTTTTCTTTACTTT
1 AATTTAGATGTCTTTTCTTTACTTT
67061487 AATTTAGATGTCTTTTCTTTACTTT
1 AATTTAGATGTCTTTTCTTTACTTT
67061512 TTGTCAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (25 bp):
AATTTAGATGTCTTTTCTTTACTTT
Found at i:67064408 original size:21 final size:21
Alignment explanation
Indices: 67064368--67064408 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
67064358 ATATGGATTC
*
67064368 TTGAAATGAAAATGTGTGATG
1 TTGAAATGAAAATGTATGATG
67064389 TTGAAA-GAAAATGATATGAT
1 TTGAAATGAAAATG-TATGAT
67064409 TGAGTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (21 bp):
TTGAAATGAAAATGTATGATG
Found at i:67067912 original size:47 final size:47
Alignment explanation
Indices: 67067859--67068343 Score: 700
Period size: 47 Copynumber: 10.2 Consensus size: 47
67067849 AATTCTAAAT
67067859 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
67067906 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
67067955 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
** *
67068002 TGCAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
67068051 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
67068098 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
67068145 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
67068194 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
67068241 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
67068288 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
67068335 TGTGATAAG
1 TGTGATAAG
67068344 TCCCGAAGGG
Statistics
Matches: 396, Mismatches: 36, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
47 265 0.67
49 131 0.33
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:67068023 original size:96 final size:95
Alignment explanation
Indices: 67067859--67068343 Score: 708
Period size: 96 Copynumber: 5.1 Consensus size: 95
67067849 AATTCTAAAT
*
67067859 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
67067924 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTG-ATATATA
* ** *
67067955 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCAATAAGGCCTAATAG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
67068020 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTG-ATATATA
** *
67068051 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
*
67068116 CCGATGTGATGAATGTGAAAGTG-TATATG
66 CCGATGTGATGAATGTGAAAGTGATATATA
* * * *
67068145 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
*
67068210 GGCCGATGTGATGAATGTGAAAGTG-TATATG
64 GGCCGATGTGATGAATGTGAAAGTGATATATA
* * * * *
67068241 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* *
67068306 CCAATGTGATGGATGTGAAAGTGCATA-A-A
66 CCGATGTGATGAATGTGAAAGTG-ATATATA
67068335 TGTGATAAG
1 TGTGATAAG
67068344 TCCCGAAGGG
Statistics
Matches: 356, Mismatches: 29, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
94 91 0.26
95 1 0.00
96 264 0.74
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (95 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGATATATA
Found at i:67068103 original size:143 final size:143
Alignment explanation
Indices: 67067862--67068343 Score: 783
Period size: 143 Copynumber: 3.4 Consensus size: 143
67067852 TCTAAATTGT
* *
67067862 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
**
67067925 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTG
66 CGATGTGATGAATGTGAAAGTG--TATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTG
67067990 AAAGTGTATATGTGC
129 AAAGTGTATATGTGC
*
67068005 AATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
67068070 CGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
66 CGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
67068135 AGTGTATATGTGC
131 AGTGTATATGTGC
67068148 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
67068213 CGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
66 CGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
* *
67068278 AGTGTATATATGT
131 AGTGTATATGTGC
* * * * * * * *
67068291 GACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAG
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
67068344 TCCCGAAGGG
Statistics
Matches: 321, Mismatches: 16, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 264 0.82
145 46 0.14
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
CGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
AGTGTATATGTGC
Found at i:67068518 original size:37 final size:37
Alignment explanation
Indices: 67068462--67068539 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
67068452 CTGAGCTCTA
* *
67068462 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
67068499 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
67068536 AAGA
1 AAGA
67068540 TTTCGTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:67074323 original size:40 final size:40
Alignment explanation
Indices: 67074268--67074524 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
67074258 CGGATGATAA
* * * *
67074268 CCGGGCTAAGTCCCGAACGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
67074308 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
67074348 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
67074388 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
67074428 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
67074468 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
67074507 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
67074525 TACTTGGCTT
Statistics
Matches: 194, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
38 15 0.08
39 16 0.08
40 163 0.84
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:67098973 original size:27 final size:28
Alignment explanation
Indices: 67098889--67098986 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
67098879 CATGAGATTG
* * *
67098889 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
67098918 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
67098946 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
67098973 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
67098987 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:67099000 original size:29 final size:27
Alignment explanation
Indices: 67098917--67099000 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
67098907 TAAATTGTTC
* *
67098917 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
67098945 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
67098972 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
67099001 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:67105692 original size:20 final size:20
Alignment explanation
Indices: 67105654--67105694 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
67105644 TTTTATATTG
*
67105654 ATTTAACAAATCTATAAGTA
1 ATTTAACAAATCCATAAGTA
67105674 ATTTCAACAAATCCA-AAGTA
1 ATTT-AACAAATCCATAAGTA
67105694 A
1 A
67105695 AAATATTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (20 bp):
ATTTAACAAATCCATAAGTA
Found at i:67106901 original size:42 final size:42
Alignment explanation
Indices: 67106852--67107051 Score: 168
Period size: 42 Copynumber: 4.6 Consensus size: 42
67106842 TGTATGGTTT
*
67106852 CATGTAAGACCATATCTGGGATATGACCTCGATATGTGATCC
1 CATGTAAGACCATATCTGGGATATGACATCGATATGTGATCC
* **
67106894 CATGTAAGACCATATCTGGGATATGGCATTAGCATCAATATGTGATTT
1 CATGTAAGACCATATCTGGGATAT-G----A-CATCGATATGTGATCC
* * * * * * *
67106942 CGTGTAAGACCATGTGTGGGACATGGCATCGATATGAGA-CAT
1 CATGTAAGACCATATCTGGGATATGACATCGATATGTGATC-C
** * * *
67106984 TGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGTGATCC
1 CATGTAAGACCATATCTGGGATA-TGACATCGATATGTGATCC
*
67107027 CATGTAAGACCATATCTAGGATATG
1 CATGTAAGACCATATCTGGGATATG
67107052 GCATTGGCAT
Statistics
Matches: 124, Mismatches: 25, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
42 55 0.44
43 34 0.27
44 1 0.01
47 2 0.02
48 32 0.26
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGATATGACATCGATATGTGATCC
Found at i:67111940 original size:11 final size:11
Alignment explanation
Indices: 67111924--67111949 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
67111914 ACCAAGAGTC
67111924 AAAACGAGCCA
1 AAAACGAGCCA
67111935 AAAACGAGCCA
1 AAAACGAGCCA
67111946 AAAA
1 AAAA
67111950 GGGACAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.23, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAACGAGCCA
Found at i:67113005 original size:13 final size:13
Alignment explanation
Indices: 67112983--67113015 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
67112973 TTGCTTTAGT
67112983 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
67112995 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
67113008 TTAGTTTA
1 TTAGTTTA
67113016 ATAAACAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:67119704 original size:39 final size:39
Alignment explanation
Indices: 67119615--67119791 Score: 266
Period size: 39 Copynumber: 4.5 Consensus size: 39
67119605 ACAAAGCATG
* * *
67119615 CGGGACTTTAAGCCCGGATGTAATACCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
67119655 CAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
67119694 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
67119733 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
67119772 CGAGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
67119792 TATCTCACAC
Statistics
Matches: 127, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
38 20 0.16
39 102 0.80
40 5 0.04
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:67122164 original size:6 final size:6
Alignment explanation
Indices: 67122153--67122217 Score: 105
Period size: 6 Copynumber: 10.7 Consensus size: 6
67122143 TCCTCCTATC
67122153 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
67122201 -TTTTA TTATTTA CTTTT
1 TTTTTA TT-TTTA -TTTT
67122218 GAAAGACATA
Statistics
Matches: 56, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.09
6 43 0.77
7 6 0.11
8 2 0.04
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:67124095 original size:12 final size:11
Alignment explanation
Indices: 67124068--67124095 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
67124058 CACCAAGAGT
67124068 CAAAAACGAGC
1 CAAAAACGAGC
67124079 CAAAAACGAGC
1 CAAAAACGAGC
67124090 CAAAAA
1 CAAAAA
67124096 GGGACAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.25, G:0.14, T:0.00
Consensus pattern (11 bp):
CAAAAACGAGC
Found at i:67125150 original size:13 final size:13
Alignment explanation
Indices: 67125128--67125160 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
67125118 TTGCTTTAGT
67125128 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
67125140 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
67125153 TTAGTTTA
1 TTAGTTTA
67125161 ATAAACAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:67126871 original size:40 final size:40
Alignment explanation
Indices: 67126808--67127049 Score: 371
Period size: 40 Copynumber: 6.0 Consensus size: 40
67126798 CGAGATTTAA
* * *
67126808 CCGGATATAGTTACTCGCTCAAATGCCTTTGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
**
67126848 CCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
67126888 CCGGATATAGTAACTCGCACAAATGCCTTTGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
67126928 CCGGAAATAGTAACTCGGACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
67126968 CC-GAAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
67127008 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
67127048 CC
1 CC
67127050 CATTATCATC
Statistics
Matches: 188, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 4 0.02
40 182 0.97
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:67134896 original size:40 final size:40
Alignment explanation
Indices: 67134860--67135010 Score: 268
Period size: 40 Copynumber: 3.8 Consensus size: 40
67134850 GGATATAGCT
*
67134860 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
67134900 ACTCGCACAAATGCCTTAGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
67134940 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
67134980 ACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG
67135011 TTATCATCCG
Statistics
Matches: 107, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
40 105 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:67138582 original size:30 final size:30
Alignment explanation
Indices: 67138548--67138608 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
67138538 TCCTTAACTC
67138548 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
67138578 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
67138608 A
1 A
67138609 GGCACGGGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:67140242 original size:31 final size:31
Alignment explanation
Indices: 67140207--67140283 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
67140197 GCATAAACTA
67140207 GGCCGAAGCCTTTACATTATTCATATCACTG
1 GGCCGAAGCCTTTACATTATTCATATCACTG
* *
67140238 GGCCGAAGCCTTTTCATTATTCATATCATTG
1 GGCCGAAGCCTTTACATTATTCATATCACTG
*
67140269 CGCCGAAGCCTTTAC
1 GGCCGAAGCCTTTAC
67140284 TGTAACAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.32
Consensus pattern (31 bp):
GGCCGAAGCCTTTACATTATTCATATCACTG
Found at i:67140564 original size:26 final size:25
Alignment explanation
Indices: 67140501--67140621 Score: 179
Period size: 25 Copynumber: 4.8 Consensus size: 25
67140491 CTCTTTTAAT
*
67140501 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
67140526 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
67140551 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGATA
* *
67140577 AACTGGGGTAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
67140602 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
67140622 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 68 0.76
26 22 0.24
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:67140581 original size:51 final size:50
Alignment explanation
Indices: 67140501--67140621 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 50
67140491 CTCTTTTAAT
* *
67140501 AACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTTCGATA
* * *
67140551 AACTGGGGCAAAAGCCCTTTTCGGTAAACTGGGGTAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTTCGATA
*
67140602 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
67140622 GCACTTCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 19 0.30
51 45 0.70
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (50 bp):
AACTGGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTTCGATA
Found at i:67140687 original size:18 final size:19
Alignment explanation
Indices: 67140664--67140701 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
67140654 GCATAAATGA
67140664 ATACAT-CATGTGCATATC
1 ATACATACATGTGCATATC
*
67140682 ATACATAACATGTGCGTATC
1 ATACAT-ACATGTGCATATC
67140702 GTATCAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (19 bp):
ATACATACATGTGCATATC
Found at i:67140795 original size:25 final size:24
Alignment explanation
Indices: 67140752--67140799 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
67140742 ATAATTAAAC
* **
67140752 CCTAGGGGTAAAATGGTCAATTTTA
1 CCTAGGGGCAAAACAGTC-ATTTTA
67140777 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
67140800 CATGTTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (24 bp):
CCTAGGGGCAAAACAGTCATTTTA
Found at i:67145043 original size:31 final size:31
Alignment explanation
Indices: 67145000--67145085 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
67144990 TCAATCTCAG
67145000 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
67145030 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
67145061 CATATCATTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
67145086 TGTAACAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:67145348 original size:26 final size:25
Alignment explanation
Indices: 67145303--67145394 Score: 112
Period size: 25 Copynumber: 3.6 Consensus size: 25
67145293 CTCTTTTAAT
*
67145303 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
67145328 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGATA
* *
67145354 AATTAGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* * *
67145379 AATTAGGGCATAGCCC
1 AACTGGGGCAAAGCCC
67145395 ATTTGCACTT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
25 39 0.65
26 21 0.35
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:67154329 original size:20 final size:20
Alignment explanation
Indices: 67154266--67154320 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
67154256 CATAACAAGG
67154266 GCACCAAAGTGCAATCAGGA
1 GCACCAAAGTGCAATCAGGA
* *
67154286 GCACGAATGTGCAATCAGGA
1 GCACCAAAGTGCAATCAGGA
*
67154306 GCACCAAAATGCAAT
1 GCACCAAAGTGCAAT
67154321 TAGGGGCACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.13
Consensus pattern (20 bp):
GCACCAAAGTGCAATCAGGA
Found at i:67154336 original size:40 final size:40
Alignment explanation
Indices: 67154266--67154423 Score: 138
Period size: 40 Copynumber: 4.0 Consensus size: 40
67154256 CATAACAAGG
* * *
67154266 GCACCAAAGTGCAATCAGGAGCAC-GAATGTGCAATCAGGA
1 GCACCAAAGTGCAATTAGGGGCACAG-ATGTGCATTCAGGA
* * *
67154306 GCACCAAAATGCAATTAGGGGCACAGATGTGCATTTAGGG
1 GCACCAAAGTGCAATTAGGGGCACAGATGTGCATTCAGGA
* * * * * *
67154346 GTATCGAAGTACAAATAGGGGCACAGATGTGCATTCAGGG
1 GCACCAAAGTGCAATTAGGGGCACAGATGTGCATTCAGGA
* * * * * *
67154386 GTACCGAAGTACAAATAGGGACACGGATGTGCATTCAG
1 GCACCAAAGTGCAATTAGGGGCACAGATGTGCATTCAG
67154424 AGGTATCAAA
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 100 0.99
41 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (40 bp):
GCACCAAAGTGCAATTAGGGGCACAGATGTGCATTCAGGA
Found at i:67154338 original size:20 final size:20
Alignment explanation
Indices: 67154315--67154418 Score: 68
Period size: 20 Copynumber: 5.2 Consensus size: 20
67154305 AGCACCAAAA
67154315 TGCAATTAGGGGCACAGATG
1 TGCAATTAGGGGCACAGATG
* * *
67154335 TGCATTTAGGGGTATC-GAAG
1 TGCAATTAGGGGCA-CAGATG
* *
67154355 TACAAATAGGGGCACAGATG
1 TGCAATTAGGGGCACAGATG
* * *
67154375 TGC-ATTCAGGGGTACCGAAG
1 TGCAATT-AGGGGCACAGATG
* * * *
67154395 TACAAATAGGGACACGGATG
1 TGCAATTAGGGGCACAGATG
67154415 TGCA
1 TGCA
67154419 TTCAGAGGTA
Statistics
Matches: 60, Mismatches: 20, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
19 3 0.05
20 54 0.90
21 3 0.05
ACGTcount: A:0.32, C:0.15, G:0.33, T:0.20
Consensus pattern (20 bp):
TGCAATTAGGGGCACAGATG
Found at i:67154436 original size:40 final size:40
Alignment explanation
Indices: 67154321--67154474 Score: 209
Period size: 40 Copynumber: 3.9 Consensus size: 40
67154311 AAAATGCAAT
*
67154321 TAGGGGCACAGATGTGCATTTAGGGGTATCGAAGTACAAA
1 TAGGGGCACAGATGTGCATTCAGGGGTATCGAAGTACAAA
*
67154361 TAGGGGCACAGATGTGCATTCAGGGGTACCGAAGTACAAA
1 TAGGGGCACAGATGTGCATTCAGGGGTATCGAAGTACAAA
* * * *
67154401 TAGGGACACGGATGTGCATTCAGAGGTATCAAAGTACAAA
1 TAGGGGCACAGATGTGCATTCAGGGGTATCGAAGTACAAA
* * * * *
67154441 CAAGGGCATAGATGTGCATTCAAGGGTACCGAAG
1 TAGGGGCACAGATGTGCATTCAGGGGTATCGAAG
67154475 GGCCACTTTT
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (40 bp):
TAGGGGCACAGATGTGCATTCAGGGGTATCGAAGTACAAA
Found at i:67155152 original size:28 final size:29
Alignment explanation
Indices: 67155106--67155161 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
67155096 TACTTATAAA
* *
67155106 TAACAACTAATACCTC-AAATTCATCATT
1 TAACAACTAAAACCACAAAATTCATCATT
*
67155134 TAACAACTAAAATCACAAAAATTCATCA
1 TAACAACTAAAACCAC-AAAATTCATCA
67155162 ATGGCAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 13 0.57
30 10 0.43
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (29 bp):
TAACAACTAAAACCACAAAATTCATCATT
Found at i:67156851 original size:21 final size:21
Alignment explanation
Indices: 67156827--67156869 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
67156817 TGGATACGGG
67156827 TTAGGTGTGTTACACATACTC
1 TTAGGTGTGTTACACATACTC
67156848 TTAGGTGTGTTACACATACTC
1 TTAGGTGTGTTACACATACTC
67156869 T
1 T
67156870 GCTAAGGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (21 bp):
TTAGGTGTGTTACACATACTC
Found at i:67166201 original size:43 final size:43
Alignment explanation
Indices: 67166144--67166263 Score: 136
Period size: 42 Copynumber: 2.8 Consensus size: 43
67166134 CTACATGTAA
* * * * *
67166144 TCTCGTATTGATGCCAATAGCCTAGCTATGATCTTAAATGAAG
1 TCTCATATCGATGCCAATAGCCCAGATATGATCTTAAACGAAG
* * *
67166187 TCTCATATCGATGCC-ATATCCCAGATATGGTCTTACACGAAG
1 TCTCATATCGATGCCAATAGCCCAGATATGATCTTAAACGAAG
* *
67166229 TCTCATATCGATGCC-ATATCCCAGATATGGTCTTA
1 TCTCATATCGATGCCAATAGCCCAGATATGATCTTA
67166264 GACATAATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
42 56 0.81
43 13 0.19
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (43 bp):
TCTCATATCGATGCCAATAGCCCAGATATGATCTTAAACGAAG
Found at i:67166229 original size:42 final size:42
Alignment explanation
Indices: 67166183--67166263 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
67166173 GATCTTAAAT
67166183 GAAGTCTCATATCGATGCCATATCCCAGATATGGTCTTACAC
1 GAAGTCTCATATCGATGCCATATCCCAGATATGGTCTTACAC
67166225 GAAGTCTCATATCGATGCCATATCCCAGATATGGTCTTA
1 GAAGTCTCATATCGATGCCATATCCCAGATATGGTCTTA
67166264 GACATAATCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (42 bp):
GAAGTCTCATATCGATGCCATATCCCAGATATGGTCTTACAC
Found at i:67168202 original size:40 final size:40
Alignment explanation
Indices: 67168154--67168229 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
67168144 TAAAAACAAA
67168154 TGGCACTTACTGTGCG-GTGCGAAATAGCTTCGGCTAAATG
1 TGGCACTTACTGTGCGAGTG-GAAATAGCTTCGGCTAAATG
* * *
67168194 TGGCACTTAGTGTGCGATTGGAGATAGCTTCGGCTA
1 TGGCACTTACTGTGCGAGTGGAAATAGCTTCGGCTA
67168230 TATATGTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (40 bp):
TGGCACTTACTGTGCGAGTGGAAATAGCTTCGGCTAAATG
Found at i:67168313 original size:28 final size:28
Alignment explanation
Indices: 67168238--67168314 Score: 109
Period size: 28 Copynumber: 2.8 Consensus size: 28
67168228 TATATATGTA
* *
67168238 TATGGCACTTAGTGTGCAAAATATTAAG
1 TATGGCACTTAGTGTGCGAGATATTAAG
* *
67168266 AATGGCACTTAGTGTGCGAGATATTGAG
1 TATGGCACTTAGTGTGCGAGATATTAAG
*
67168294 TATGGCACTTAGTGTACGAGA
1 TATGGCACTTAGTGTGCGAGA
67168315 CATCGAAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (28 bp):
TATGGCACTTAGTGTGCGAGATATTAAG
Found at i:67171079 original size:41 final size:41
Alignment explanation
Indices: 67170944--67171129 Score: 243
Period size: 41 Copynumber: 4.6 Consensus size: 41
67170934 CTCGCACAAG
* * * * * *
67170944 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
67170984 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* * * *
67171024 GCCTTC-AGATCTTAGTCCGGATGTACTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
67171065 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
67171106 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
67171130 CATTCGAGTA
Statistics
Matches: 129, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
39 2 0.02
40 58 0.45
41 67 0.52
42 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:67178755 original size:9 final size:8
Alignment explanation
Indices: 67178722--67178773 Score: 52
Period size: 9 Copynumber: 6.0 Consensus size: 8
67178712 AAATGAAAAT
67178722 AAAAATCAA
1 AAAAAT-AA
67178731 AAGAAA-AA
1 AA-AAATAA
67178739 GAAAAATAA
1 -AAAAATAA
67178748 ATAAAATAA
1 A-AAAATAA
67178757 AATAAATAA
1 AA-AAATAA
67178766 AAAAATAA
1 AAAAATAA
67178774 GAGGATTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
8 13 0.34
9 22 0.58
10 3 0.08
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (8 bp):
AAAAATAA
Found at i:67178760 original size:14 final size:14
Alignment explanation
Indices: 67178741--67178767 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
67178731 AAGAAAAAGA
67178741 AAAATAAATAAAAT
1 AAAATAAATAAAAT
67178755 AAAATAAATAAAA
1 AAAATAAATAAAA
67178768 AAATAAGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:67182968 original size:26 final size:26
Alignment explanation
Indices: 67182938--67182990 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
67182928 CCTCTATGAA
*
67182938 TTCATAGGCATCTTCTGATGTTTTAT
1 TTCATAGGCATCTTCCGATGTTTTAT
*
67182964 TTCATAGGCATCTTCCGGTGTTTTAT
1 TTCATAGGCATCTTCCGATGTTTTAT
67182990 T
1 T
67182991 GTTGATGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (26 bp):
TTCATAGGCATCTTCCGATGTTTTAT
Found at i:67184124 original size:13 final size:13
Alignment explanation
Indices: 67184102--67184134 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
67184092 AATGATTTGT
67184102 TTAT-TAAACTAA
1 TTATCTAAACTAA
67184114 TTATCTAAACTAA
1 TTATCTAAACTAA
*
67184127 TTAACTAA
1 TTATCTAA
67184135 TTTACTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:67188749 original size:42 final size:43
Alignment explanation
Indices: 67188702--67188865 Score: 158
Period size: 42 Copynumber: 3.9 Consensus size: 43
67188692 TACTGTACCA
* * * *
67188702 ATGCCATATCCTAGATCTGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCTAGATATGGTCTTACACGTAAGTCTCATATTG
* * *
67188744 ATGCCAATAGT-CTAGCTATGGTCTTACAC-AAAGTCTTATATTG
1 ATGCC-ATA-TCCTAGATATGGTCTTACACGTAAGTCTCATATTG
* * *
67188787 ATGCCATATCCAAGATATAGTCTTACACG-AAGTCCCATATTG
1 ATGCCATATCCTAGATATGGTCTTACACGTAAGTCTCATATTG
* * *
67188829 ATGCCATATCCCAGACATGGTCTTACACATAA-TCTCA
1 ATGCCATATCCTAGATATGGTCTTACACGTAAGTCTCA
67188866 GTAACCTTAA
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 65 0.66
43 32 0.32
44 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (43 bp):
ATGCCATATCCTAGATATGGTCTTACACGTAAGTCTCATATTG
Found at i:67189716 original size:12 final size:13
Alignment explanation
Indices: 67189699--67189727 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
67189689 AAGATGGACA
67189699 AATTTGGC-TTTT
1 AATTTGGCTTTTT
67189711 AATTTGGCTTTTT
1 AATTTGGCTTTTT
67189724 AATT
1 AATT
67189728 CATTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (13 bp):
AATTTGGCTTTTT
Found at i:67192860 original size:37 final size:37
Alignment explanation
Indices: 67192819--67192892 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
67192809 TTGCCTGAAA
67192819 ATCTCTTTCTAAAGCCCCTAGCTTCAGAATCGGGTTT
1 ATCTCTTTCTAAAGCCCCTAGCTTCAGAATCGGGTTT
*
67192856 ATCTCTTTCTAAAGCCTCTAGCTTCAGAATCGGGTTT
1 ATCTCTTTCTAAAGCCCCTAGCTTCAGAATCGGGTTT
67192893 TGTTTTCTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (37 bp):
ATCTCTTTCTAAAGCCCCTAGCTTCAGAATCGGGTTT
Found at i:67195450 original size:23 final size:24
Alignment explanation
Indices: 67195420--67195478 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
67195410 GAACTGGTGG
*
67195420 ACAGTAAGCTCTATTGAACTGA-A
1 ACAGTAAGCTCTAATGAACTGAGA
**
67195443 ACAGTAAGCTCTAATGAGTTGAGA
1 ACAGTAAGCTCTAATGAACTGAGA
67195467 ACAGTAAGCTCT
1 ACAGTAAGCTCT
67195479 TACGAGCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 19 0.59
24 13 0.41
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (24 bp):
ACAGTAAGCTCTAATGAACTGAGA
Found at i:67200228 original size:20 final size:20
Alignment explanation
Indices: 67200200--67200241 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
67200190 AAATTCTCGT
*
67200200 TTGTCAAAAATTATTGGTAC
1 TTGTCAAAAATTATTGATAC
*
67200220 TTGTTAAAAATTATTGATAC
1 TTGTCAAAAATTATTGATAC
67200240 TT
1 TT
67200242 TAGTCCAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (20 bp):
TTGTCAAAAATTATTGATAC
Found at i:67202062 original size:46 final size:46
Alignment explanation
Indices: 67201880--67202052 Score: 292
Period size: 46 Copynumber: 3.8 Consensus size: 46
67201870 TATATATACA
* * * *
67201880 CATCTCATACATATCTCACATTAGCCATTCAGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
67201926 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
67201972 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
67202018 CATCTCATACACATTTCGCATTAGCCATTCGGCTT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTT
67202053 CGCCACATAT
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 121 1.00
ACGTcount: A:0.24, C:0.32, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
Found at i:67202105 original size:22 final size:22
Alignment explanation
Indices: 67202079--67202153 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
67202069 TTCCACGTTC
67202079 ATCACATTGGCCATTCTACCTT
1 ATCACATTGGCCATTCTACCTT
* * *
67202101 ATCACATATATG-CATGTTTACATT
1 ATCACAT-T-GGCCAT-TCTACCTT
**
67202125 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCTACCTT
67202148 ATCACA
1 ATCACA
67202154 CATATGGAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 13 0.32
23 9 0.22
24 11 0.28
25 7 0.17
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.35
Consensus pattern (22 bp):
ATCACATTGGCCATTCTACCTT
Found at i:67202107 original size:47 final size:47
Alignment explanation
Indices: 67202056--67202269 Score: 286
Period size: 47 Copynumber: 4.6 Consensus size: 47
67202046 TCGGCTTCGC
* * **
67202056 CACATATATACACT-TCCACGTTCATCACATTGGCCATTCTACCTTAT
1 CACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* *
67202103 CACATATATGCATGTTTACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* ** *
67202150 CACACATATGGAAGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* * *
67202197 CACGTATATGCATGTTCACATTCATCACATTGGTCATTCGGCCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
*
67202244 CACATATATGCATGTTCACATTCATC
1 CACATATATACATGTTCACATTCATC
67202270 TCATAAAATC
Statistics
Matches: 150, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 1 0.01
47 149 0.99
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
Found at i:67202174 original size:94 final size:94
Alignment explanation
Indices: 67202076--67202269 Score: 316
Period size: 94 Copynumber: 2.1 Consensus size: 94
67202066 CACTTCCACG
* *
67202076 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTTACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
*
67202141 CGGCCTTATCACACATATGGAAGTTCACA
66 CGGCCTTATCACACATATGCAAGTTCACA
* * *
67202170 TTCATCACATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACATTCATCACATTGGTCATT
1 TTCATCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
* *
67202235 CGGCCTTATCACATATATGCATGTTCACA
66 CGGCCTTATCACACATATGCAAGTTCACA
67202264 TTCATC
1 TTCATC
67202270 TCATAAAATC
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (94 bp):
TTCATCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACACATATGCAAGTTCACA
Found at i:67207995 original size:93 final size:93
Alignment explanation
Indices: 67207880--67208051 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
67207870 GCCCATAAGT
* * *
67207880 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCAA
67207945 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
67207973 GAACTCGGACTCAACTCGACGAGTTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
67208038 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
67208052 CAAATATACC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:67208047 original size:46 final size:46
Alignment explanation
Indices: 67207872--67208047 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
67207862 TGTAACCCGC
* *
67207872 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
67207918 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** * *
67207964 ACATCTCTCGAACTCGGACTCAACTCGACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
67208011 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
67208048 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 73 0.68
47 35 0.32
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:67210477 original size:30 final size:31
Alignment explanation
Indices: 67210441--67210520 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
67210431 CAAGAAAATC
* *
67210441 GAATAAAGAAATCCAAGATAGAGA-AACCCG
1 GAATAAAGAAATCCAAGATAAAGAGAACCAG
*
67210471 GAATAAAGAAATCC-AGAATAAAGAGATCCAG
1 GAATAAAGAAATCCAAG-ATAAAGAGAACCAG
*
67210502 G-ATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
67210521 CGATACTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 2 0.05
30 34 0.79
31 7 0.16
ACGTcount: A:0.55, C:0.15, G:0.19, T:0.11
Consensus pattern (31 bp):
GAATAAAGAAATCCAAGATAAAGAGAACCAG
Found at i:67210520 original size:15 final size:15
Alignment explanation
Indices: 67210443--67210520 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
67210433 AGAAAATCGA
67210443 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
67210458 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
67210472 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
67210487 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
67210503 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
67210518 ATA
1 ATA
67210521 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:67212467 original size:27 final size:27
Alignment explanation
Indices: 67212437--67212614 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
67212427 ATATTGAGTC
* *
67212437 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
67212464 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
67212491 CACACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
67212519 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
67212546 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
67212573 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
67212600 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
67212615 GTACAATTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:67216828 original size:46 final size:46
Alignment explanation
Indices: 67216761--67216935 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
67216751 TGTAACCCGC
* *
67216761 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGCTCGTAT
* *
67216807 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCGCTCGTAT
* *** * * * *
67216853 ACATCTCTCGAACTCGGACTCAACTCGACGAGTTTGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGGCGCTCGTAT
67216900 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
67216936 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.65
47 33 0.32
48 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGCTCGTAT
Found at i:67216877 original size:93 final size:93
Alignment explanation
Indices: 67216769--67216940 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
67216759 GCCCATAAGT
* * *
67216769 GAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67216834 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
67216862 GAACTCGGACTCAACTCGACGAGTTTGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
67216927 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
67216941 CAAATATCCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:67216955 original size:46 final size:45
Alignment explanation
Indices: 67216812--67216955 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
67216802 CGTATCCATA
* * *
67216812 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * * *
67216860 --TCGAACTCGGACTCAACTCGACGAGTTTGGACGCTC-GCATCCATA
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
67216905 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
67216951 AGTGA
1 AGTGA
67216956 CATGTCACTT
Statistics
Matches: 73, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
43 4 0.05
46 36 0.49
47 29 0.40
48 4 0.05
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:67226561 original size:39 final size:39
Alignment explanation
Indices: 67226481--67226613 Score: 124
Period size: 39 Copynumber: 3.4 Consensus size: 39
67226471 GAATTCAATC
* ** * *
67226481 ACCAACACAAAGCCTATGGGACTTTAAGCCCGGATATAGT
1 ACCAGCACAAAGCCTA-CAGACTTTAAGTCCGGATACAGT
* *
67226521 ACCAGTACAAAGCCTACAGACTTTAAGTCCAGATACAGT
1 ACCAGCACAAAGCCTACAGACTTTAAGTCCGGATACAGT
* * * *
67226560 ACCAGCACGAAGCCTGCGGA-TCTTAAGTCCGGATACAAT
1 ACCAGCACAAAGCCTACAGACT-TTAAGTCCGGATACAGT
* *
67226599 TCCAGCACGAAGCCT
1 ACCAGCACAAAGCCT
67226614 GTGGGTCTTT
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
38 1 0.01
39 63 0.81
40 14 0.18
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.19
Consensus pattern (39 bp):
ACCAGCACAAAGCCTACAGACTTTAAGTCCGGATACAGT
Found at i:67226637 original size:40 final size:40
Alignment explanation
Indices: 67226541--67226835 Score: 360
Period size: 40 Copynumber: 7.4 Consensus size: 40
67226531 AGCCTACAGA
* * * * *
67226541 CTTTAAGTCCAGATACAGTACCAGCACGAAGCCTGCGGAT
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGT
* *
67226581 C-TTAAGTCCGGATACAATTCCAGCACGAAGCCTGTGGGT
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGT
* * *
67226620 CTTTAAGCCCTGATACAATTTCAACACGAAGCCTGCGGGT
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGT
* * *
67226660 CTTTAAGCTCGGATACAATTCCATCACGAAGCCTGTGGGT
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGT
* * * * *
67226700 CTTTAAGCCCTGATACAATTTCAGTACAAATCCTGCGGGT
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGT
* *
67226740 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTG-AGGA
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGT
* * *
67226779 CCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGAGT
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGT
*
67226819 CTTTAAGCCCAGATACA
1 CTTTAAGCCCGGATACA
67226836 CATCAAATAT
Statistics
Matches: 215, Mismatches: 38, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
39 69 0.32
40 146 0.68
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGT
Found at i:67242274 original size:39 final size:40
Alignment explanation
Indices: 67242070--67242292 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
67242060 TTGAATGCTG
* * * * * *
67242070 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
67242110 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
**
67242150 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
67242190 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
67242230 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
67242269 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
67242293 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:67242312 original size:79 final size:80
Alignment explanation
Indices: 67242145--67242327 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
67242135 GTGCGAGATA
** * *
67242145 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
67242210 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
67242225 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
67242289 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
67242304 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
67242328 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):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:67250050 original size:40 final size:40
Alignment explanation
Indices: 67249967--67250188 Score: 229
Period size: 40 Copynumber: 5.6 Consensus size: 40
67249957 TTGAATGCTG
* * * * *
67249967 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAAC-ATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGT-TACTAAA
* * * *
67250007 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
**
67250047 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
67250087 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
67250127 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
67250166 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
67250189 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 22 0.14
39 15 0.09
40 116 0.72
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:67252433 original size:23 final size:23
Alignment explanation
Indices: 67252352--67252430 Score: 113
Period size: 23 Copynumber: 3.4 Consensus size: 23
67252342 AGTCTTATAA
* *
67252352 TGGGAAGCTCACACAGAGCCATTT
1 TGGGAAGCTCATAAAGAGCC-TTT
*
67252376 TAGGAAGCTCATAAAGAGCCTTT
1 TGGGAAGCTCATAAAGAGCCTTT
*
67252399 TGGGAAGCTTATAAAGAGCCTTT
1 TGGGAAGCTCATAAAGAGCCTTT
67252422 TGGGAAGCT
1 TGGGAAGCT
67252431 TATCCAGGCT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 33 0.66
24 17 0.34
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (23 bp):
TGGGAAGCTCATAAAGAGCCTTT
Found at i:67252656 original size:26 final size:27
Alignment explanation
Indices: 67252595--67252662 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
67252585 GCACTATCAC
* * *
67252595 GAAGGTCACGAAGAGCCAATTTAACGG
1 GAAGCTCATGAAGAGCCAATATAACGG
*
67252622 GAAGCTCATGAAGAGCC-ATATATCGG
1 GAAGCTCATGAAGAGCCAATATAACGG
* *
67252648 GATGTTCAT-AAGAGC
1 GAAGCTCATGAAGAGC
67252663 TAAGGTGTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 6 0.17
26 14 0.40
27 15 0.43
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (27 bp):
GAAGCTCATGAAGAGCCAATATAACGG
Found at i:67255593 original size:48 final size:49
Alignment explanation
Indices: 67255491--67255826 Score: 339
Period size: 48 Copynumber: 7.0 Consensus size: 49
67255481 GATACTAGGG
* * *
67255491 TTATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGC-TT
1 TTATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
* *
67255539 TGATATGTGAGCTAGTGT-A-ACCATGTTTGGAACATGGCATCGGCATT
1 TTATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
* * *
67255586 ATTATA--TGAGCCAGTGTAAGACCATGTTTGGAACATAGTATCGACATT
1 -TTATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
* *
67255634 GTTGTA--TGAGCCAGTGTAAGACCATGTTTGGAACATGGCCTCGGCATT
1 -TTATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
* * * * * *
67255682 TT-CATGAGAGCTAGTGTAAGACCATGTTTGGAATATGGCCTCAGCATT
1 TTATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
* * * * * *
67255730 GT-TATGAGAGCTAGTGTAAGACCATGTCTGGGACATTGCATCGGCATT
1 TTATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
* * * * *
67255778 GATATATGAGAGCCAGTGTAAGATCATGTCTGGGACATGGCATCGGCAT
1 -TTATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT
67255827 CTTAACCTTT
Statistics
Matches: 247, Mismatches: 33, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
46 33 0.13
47 6 0.02
48 165 0.67
49 1 0.00
50 42 0.17
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (49 bp):
TTATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
Found at i:67255786 original size:144 final size:142
Alignment explanation
Indices: 67255493--67255826 Score: 413
Period size: 144 Copynumber: 2.3 Consensus size: 142
67255483 TACTAGGGTT
* * *
67255493 ATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGC-TTTGATATGTGAGCTAGTGT
1 ATATATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTT-ATATGAGAGCTAGTGT
* *
67255557 AACCATGTTTGGAACATGGCATCGGCATTATTATATGAGCCAGTGTAAGACCATGTTTGGAACAT
65 AACCATGTTTGGAACATGGCATCAGCATTATTATATGAGCCAGTGTAAGACCATGTCTGGAACAT
*
67255622 AGTATCGACATTG
130 AGCATCGACATTG
* * * * *
67255635 TTGTATGAGCCAGTGTAAGACCATGTTTGGAACATGGCCTCGGCATTT-TCATGAGAGCTAGTGT
1 ATATATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTTAT-ATGAGAGCTAGTGT
* * * * *
67255699 AAGACCATGTTTGGAATATGGCCTCAGCATTGTTATGA-GAGCTAGTGTAAGACCATGTCTGGGA
65 -A-ACCATGTTTGGAACATGGCATCAGCATTATTAT-ATGAGCCAGTGTAAGACCATGTCTGGAA
* *
67255763 CATTGCATCGGCATTG
127 CATAGCATCGACATTG
*
67255779 ATATATGAGAGCCAGTGTAAGATCATGTCTGGGACATGGCATCGGCAT
1 ATATAT--GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
67255827 CTTAACCTTT
Statistics
Matches: 161, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
141 1 0.01
142 50 0.31
143 4 0.02
144 69 0.43
145 1 0.01
146 36 0.22
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (142 bp):
ATATATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTTATATGAGAGCTAGTGTA
ACCATGTTTGGAACATGGCATCAGCATTATTATATGAGCCAGTGTAAGACCATGTCTGGAACATA
GCATCGACATTG
Done.