Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 177 of 328
Found at i:52494639 original size:29 final size:29
Alignment explanation
Indices: 52494597--52494678 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
52494587 ATTTTTTTTT
52494597 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
52494626 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
52494655 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
52494679 TATCTCGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:52499352 original size:35 final size:35
Alignment explanation
Indices: 52499306--52499445 Score: 193
Period size: 35 Copynumber: 4.1 Consensus size: 35
52499296 GAGTGGAGAT
52499306 AGTAGACTCAATGTCCTAGGCACAACAGAAGTCAG
1 AGTAGACTCAATGTCCTAGGCACAACAGAAGTCAG
52499341 AGTAGACTCAATGTCCTAGGCACAACAGAAGTCAG
1 AGTAGACTCAATGTCCTAGGCACAACAGAAGTCAG
* * *
52499376 AGTAGACTCAATGT--T-CGCATATATAAGAA-T--G
1 AGTAGACTCAATGTCCTAGGCACA-A-CAGAAGTCAG
52499407 AGTAGACTCAATGTCCTAGGCACAACAGAAGTCAG
1 AGTAGACTCAATGTCCTAGGCACAACAGAAGTCAG
52499442 AGTA
1 AGTA
52499446 CTCCACCAAT
Statistics
Matches: 91, Mismatches: 6, Indels: 16
0.81 0.05 0.14
Matches are distributed among these distances:
31 15 0.16
32 8 0.09
33 6 0.07
34 8 0.09
35 54 0.59
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (35 bp):
AGTAGACTCAATGTCCTAGGCACAACAGAAGTCAG
Found at i:52501562 original size:39 final size:39
Alignment explanation
Indices: 52501477--52501563 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
52501467 TTATGATATC
*
52501477 TCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAAT
1 TCGCACATTTGCCTTCGGGCTTAGCCCGGATATCACAAT
52501516 TCGCACATTTGCCTTCGGGCTTAGCCCGGATATCACAAT
1 TCGCACATTTGCCTTCGGGCTTAGCCCGGATATCACAAT
52501555 TCGCACATT
1 TCGCACATT
52501564 CATACACATC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.28
Consensus pattern (39 bp):
TCGCACATTTGCCTTCGGGCTTAGCCCGGATATCACAAT
Found at i:52505794 original size:25 final size:24
Alignment explanation
Indices: 52505766--52505911 Score: 105
Period size: 25 Copynumber: 5.9 Consensus size: 24
52505756 CAAACCAAGA
*
52505766 CTTTATGGCGAGTTATCTGTAAAGC
1 CTTTGTGGCGAGTTAT-TGTAAAGC
* * *
52505791 CTTTGTGGTGAATTATTAGAAAAGC
1 CTTTGTGGCGAGTTATT-GTAAAGC
*
52505816 TTTTGTGGCGAGTTATTTGTAAAGC
1 CTTTGTGGCGAGTTA-TTGTAAAGC
* * ***
52505841 CTTTGTGGTGAATTATCAAAAAAGC
1 CTTTGTGGCGAGTTAT-TGTAAAGC
* * *
52505866 CTTTGTGGCAAATTATTAGAAAAGC
1 CTTTGTGGCGAGTTATT-GTAAAGC
* *
52505891 CTTTGTGGTGAATTATT-TAAA
1 CTTTGTGGCGAGTTATTGTAAA
52505912 AATTCTTTGT
Statistics
Matches: 96, Mismatches: 21, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
23 3 0.03
24 2 0.02
25 89 0.93
26 2 0.02
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (24 bp):
CTTTGTGGCGAGTTATTGTAAAGC
Found at i:52505828 original size:50 final size:49
Alignment explanation
Indices: 52505766--52505923 Score: 199
Period size: 50 Copynumber: 3.2 Consensus size: 49
52505756 CAAACCAAGA
* *
52505766 CTTTATGGCGAGTTATCTGTAAAGCCTTTGTGGTGAATTATTAGAAAAGC
1 CTTTGTGGCGAGTTAT-TGTAAAGCCTTTGTGGTGAATTATTAAAAAAGC
* *
52505816 TTTTGTGGCGAGTTATTTGTAAAGCCTTTGTGGTGAATTATCAAAAAAGC
1 CTTTGTGGCGAGTTA-TTGTAAAGCCTTTGTGGTGAATTATTAAAAAAGC
* * * * **
52505866 CTTTGTGGCAAATTATTAGAAAAGCCTTTGTGGTGAATTATTTAAAAATT
1 CTTTGTGGCGAGTTATT-GTAAAGCCTTTGTGGTGAATTATTAAAAAAGC
52505916 CTTTGTGG
1 CTTTGTGG
52505924 TGTATTGTAT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
49 2 0.02
50 91 0.97
51 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (49 bp):
CTTTGTGGCGAGTTATTGTAAAGCCTTTGTGGTGAATTATTAAAAAAGC
Found at i:52505913 original size:25 final size:25
Alignment explanation
Indices: 52505786--52505925 Score: 149
Period size: 25 Copynumber: 5.6 Consensus size: 25
52505776 AGTTATCTGT
52505786 AAAGCCTTTGTGGTGAATTA-TTAGA
1 AAAGCCTTTGTGGTGAATTATTTA-A
* * * **
52505811 AAAGCTTTTGTGGCGAGTTATTTGT
1 AAAGCCTTTGTGGTGAATTATTTAA
**
52505836 AAAGCCTTTGTGGTGAATTATCAAA
1 AAAGCCTTTGTGGTGAATTATTTAA
**
52505861 AAAGCCTTTGTGGCAAATTA-TTAGA
1 AAAGCCTTTGTGGTGAATTATTTA-A
52505886 AAAGCCTTTGTGGTGAATTATTTAA
1 AAAGCCTTTGTGGTGAATTATTTAA
**
52505911 AAATTCTTTGTGGTG
1 AAAGCCTTTGTGGTG
52505926 TATTGTATGG
Statistics
Matches: 92, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
24 1 0.01
25 86 0.93
26 5 0.05
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (25 bp):
AAAGCCTTTGTGGTGAATTATTTAA
Found at i:52505940 original size:75 final size:75
Alignment explanation
Indices: 52505786--52505925 Score: 199
Period size: 75 Copynumber: 1.9 Consensus size: 75
52505776 AGTTATCTGT
** * * **
52505786 AAAGCCTTTGTGGTGAATTATTAGAAAAGCTTTTGTGGCGAGTTATTTGTAAAGCCTTTGTGGTG
1 AAAGCCTTTGTGGCAAATTATTAGAAAAGCCTTTGTGGCGAATTATTTAAAAAGCCTTTGTGGTG
52505851 AATTATCAAA
66 AATTATCAAA
* **
52505861 AAAGCCTTTGTGGCAAATTATTAGAAAAGCCTTTGTGGTGAATTATTTAAAAATTCTTTGTGGTG
1 AAAGCCTTTGTGGCAAATTATTAGAAAAGCCTTTGTGGCGAATTATTTAAAAAGCCTTTGTGGTG
52505926 TATTGTATGG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 56 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (75 bp):
AAAGCCTTTGTGGCAAATTATTAGAAAAGCCTTTGTGGCGAATTATTTAAAAAGCCTTTGTGGTG
AATTATCAAA
Found at i:52508465 original size:39 final size:39
Alignment explanation
Indices: 52508345--52508546 Score: 296
Period size: 39 Copynumber: 5.1 Consensus size: 39
52508335 ATGGTAACCT
* * *
52508345 GCACAAATGCCTTCGGGACTTAACCTGGATATCACAACTC
1 GCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTC
* * * *
52508385 GCACAATTGCCTTCGGAGTTTATCCCGGATATCATAGCTC
1 GCACAATTGCCTTCGG-GCTTAGCCCGGATATCACAACTC
52508425 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTC
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTC
*
52508464 GCACAATTGCCTTCGGCCTTAGCCCGGATATCACAACTC
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTC
* *
52508503 ACACAATTGCCTTCGGGCTTAGCCCGGATATCACAATTC
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTC
52508542 GCACA
1 GCACA
52508547 TTCATACACA
Statistics
Matches: 146, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 97 0.66
40 48 0.33
41 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTC
Found at i:52511866 original size:22 final size:22
Alignment explanation
Indices: 52511841--52511883 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
52511831 CATCTCAAAT
*
52511841 CAAACCACAATATACCAACTTC
1 CAAACAACAATATACCAACTTC
* *
52511863 CAAACAATAATATTCCAACTT
1 CAAACAACAATATACCAACTT
52511884 ACAACTATCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (22 bp):
CAAACAACAATATACCAACTTC
Found at i:52512591 original size:43 final size:43
Alignment explanation
Indices: 52512544--52512668 Score: 164
Period size: 43 Copynumber: 2.9 Consensus size: 43
52512534 CTTATCTGTT
* * * *
52512544 ATCAT-ATATCGATGTCACTGTCCCAGACAAGGTCTTATACGA-A
1 ATCATAATA-CGATGCCAATGTCCCAGACATGGTCTTACAC-ATA
52512587 ATCATAATACGATGCCAATGTCCCAGACATGGTCTTACACATA
1 ATCATAATACGATGCCAATGTCCCAGACATGGTCTTACACATA
* *
52512630 ATCACAATACAATGCCAATGTCCCAGACATGGTCTTACA
1 ATCATAATACGATGCCAATGTCCCAGACATGGTCTTACA
52512669 TGTAATCACA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.01
43 70 0.95
44 3 0.04
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (43 bp):
ATCATAATACGATGCCAATGTCCCAGACATGGTCTTACACATA
Found at i:52512675 original size:43 final size:43
Alignment explanation
Indices: 52512562--52512678 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
52512552 TCGATGTCAC
* * * * *
52512562 TGTCCCAGACAAGGTCTTATACGAAATCATAATACGATGCCAA
1 TGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAA
*
52512605 TGTCCCAGACATGGTCTTACACATAATCACAATACAATGCCAA
1 TGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAA
*
52512648 TGTCCCAGACATGGTCTTACATGTAATCACA
1 TGTCCCAGACATGGTCTTACACGTAATCACA
52512679 TCTCGGTAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.25
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAA
Found at i:52542639 original size:35 final size:35
Alignment explanation
Indices: 52542593--52542662 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
52542583 ATCGTAGACC
52542593 CCCGTCATACAATTGTGTCCACCGGTCGAAAAGTA
1 CCCGTCATACAATTGTGTCCACCGGTCGAAAAGTA
52542628 CCCGTCATACAATTGTGTCCACCGGTCGAAAAGTA
1 CCCGTCATACAATTGTGTCCACCGGTCGAAAAGTA
52542663 TGTTAGAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (35 bp):
CCCGTCATACAATTGTGTCCACCGGTCGAAAAGTA
Found at i:52546699 original size:22 final size:22
Alignment explanation
Indices: 52546666--52546707 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
52546656 GATATATTTC
52546666 TAAAGAAAAATGCACTGAAAGT
1 TAAAGAAAAATGCACTGAAAGT
52546688 TAAA-AAATAATGCACTGAAA
1 TAAAGAAA-AATGCACTGAAA
52546708 AAAATGATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.19
Consensus pattern (22 bp):
TAAAGAAAAATGCACTGAAAGT
Found at i:52547986 original size:79 final size:79
Alignment explanation
Indices: 52547855--52548015 Score: 313
Period size: 79 Copynumber: 2.0 Consensus size: 79
52547845 TATTTTTAAG
52547855 AAATTCAATCTAGCAAGAATATTTCAAAAAGAAAAAAAAGGAAAAAACTAAGGCAAGAAGACAGC
1 AAATTCAATCTAGCAAGAATATTTCAAAAAGAAAAAAAAGGAAAAAACTAAGGCAAGAAGACAGC
52547920 TTCATGAAGAAGCT
66 TTCATGAAGAAGCT
*
52547934 AAATTCAATCTAGCAAGAATATTTCATAAAGAAAAAAAAGGAAAAAACTAAGGCAAGAAGACAGC
1 AAATTCAATCTAGCAAGAATATTTCAAAAAGAAAAAAAAGGAAAAAACTAAGGCAAGAAGACAGC
52547999 TTCATGAAGAAGCT
66 TTCATGAAGAAGCT
52548013 AAA
1 AAA
52548016 GACAGTGTCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.55, C:0.12, G:0.16, T:0.17
Consensus pattern (79 bp):
AAATTCAATCTAGCAAGAATATTTCAAAAAGAAAAAAAAGGAAAAAACTAAGGCAAGAAGACAGC
TTCATGAAGAAGCT
Found at i:52562492 original size:55 final size:53
Alignment explanation
Indices: 52562342--52562541 Score: 152
Period size: 53 Copynumber: 3.7 Consensus size: 53
52562332 TTTTAAACTT
* * **
52562342 ACCATTGCCATGTCTTGACATGGTCTTACGTGGCATCCTTGCCTTATGAAGTC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAAGTC
* * * * * *
52562395 ACCATTGCCACGCCTTGGCATGGTCTTACATGGGATAT--TTGCCTTATCGTAGTTT
1 ACCAATGCCATGTCTTGACATGGTCTTACAT--GATATCCTTGCCTTAT-GAAG-TC
* * * * * *
52562450 ATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAAGTC
* * * * *
52562504 GCCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGATATCC
52562542 CTAAACCCTA
Statistics
Matches: 115, Mismatches: 26, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
53 40 0.35
54 36 0.31
55 39 0.34
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (53 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAAGTC
Found at i:52564752 original size:15 final size:16
Alignment explanation
Indices: 52564734--52564764 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52564724 TTTAACTAAG
52564734 TAAAAT-AAAATAAAA
1 TAAAATAAAAATAAAA
52564749 TAAAATAAAAATAAAA
1 TAAAATAAAAATAAAA
52564765 GTTTCAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAATAAAAATAAAA
Found at i:52564761 original size:6 final size:5
Alignment explanation
Indices: 52564734--52564764 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
52564724 TTTAACTAAG
52564734 TAAAA TAAAA TAAAA TAAAA TAAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA
52564765 GTTTCAATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:52567943 original size:32 final size:32
Alignment explanation
Indices: 52567903--52567965 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
52567893 TTTAAAAGTA
52567903 AAAAAAAATTATGCCCCGAACAAGTAAGATAT
1 AAAAAAAATTATGCCCCGAACAAGTAAGATAT
52567935 AAAAAAAATTATGCCCCGAACAAGTAAGATA
1 AAAAAAAATTATGCCCCGAACAAGTAAGATA
52567966 AGTCTGATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.54, C:0.16, G:0.13, T:0.17
Consensus pattern (32 bp):
AAAAAAAATTATGCCCCGAACAAGTAAGATAT
Found at i:52569517 original size:39 final size:39
Alignment explanation
Indices: 52569433--52569585 Score: 198
Period size: 39 Copynumber: 3.9 Consensus size: 39
52569423 TATGGTAACC
** * * *
52569433 CGCACAAAGGCCTTCGAGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCG-GGCTTAGCCCGGATATCACAACT
* * *
52569473 TGCACAATTGCCTTCGGGCTTAGCCCGGATATTATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
52569512 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
52569551 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
52569586 TCGAACATTC
Statistics
Matches: 98, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 85 0.87
40 13 0.13
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:52569557 original size:78 final size:79
Alignment explanation
Indices: 52569402--52569582 Score: 256
Period size: 78 Copynumber: 2.3 Consensus size: 79
52569392 TCGTTCAAAC
* * *
52569402 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGAGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATGATAACCCGCACAAAGGCCTTCGAGACTTAACCCGGATATC
52569467 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* * ** * * *
52569482 GCCTTCGGGCTTAGCCCGGATATTATAACTCGCACAATTGCCTTCG-GGCTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATGATAACCCGCACAAAGGCCTTCGAGACTTAACCCGGATATCA
52569546 CAATTTGCACAATT
66 CAATTTGCACAATT
52569560 GCCTTCGGGCTTAGCCCGGATAT
1 GCCTTCGGGCTTAGCCCGGATAT
52569583 CACTCGAACA
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 52 0.57
79 30 0.33
80 9 0.10
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATGATAACCCGCACAAAGGCCTTCGAGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:52573855 original size:42 final size:42
Alignment explanation
Indices: 52573737--52573865 Score: 168
Period size: 42 Copynumber: 3.0 Consensus size: 42
52573727 CATATAGTAC
* * **
52573737 CATACCAATGCCATATCCCAGATATGGTCTTACATGGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGAAATCT
* * *
52573779 CATATCTATGCCAATAGCCCAGCTATGGTCTTACACGAAATCT
1 CATATCAATGCC-ATATCCCAGATATGGTCTTACACGAAATCT
* *
52573822 CATATCAATTCCATATCCCAGATATGGTCTTACACGTAATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGAAATCT
52573864 CA
1 CA
52573866 ACTAACCCTA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 39 0.53
43 35 0.47
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACACGAAATCT
Found at i:52578549 original size:2 final size:2
Alignment explanation
Indices: 52578542--52578572 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
52578532 TCATGACATG
52578542 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
52578573 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:52587775 original size:46 final size:48
Alignment explanation
Indices: 52587724--52587854 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 48
52587714 ATGGTTGAGC
52587724 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* * *
52587771 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
52587816 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52587855 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 29 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTAG
Found at i:52590802 original size:15 final size:15
Alignment explanation
Indices: 52590763--52590842 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
52590753 GTATCTTGGG
*
52590763 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
52590778 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
52590793 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
52590808 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
52590823 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
52590837 TTTCTT
1 TTTCTT
52590843 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:52590832 original size:30 final size:30
Alignment explanation
Indices: 52590754--52590841 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
52590744 CATAGTATCG
* * *
52590754 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
52590784 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
52590814 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
52590842 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:52593268 original size:46 final size:48
Alignment explanation
Indices: 52593217--52593347 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 48
52593207 ATGGTTGAGC
52593217 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* * *
52593264 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
52593309 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52593348 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 29 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTAG
Found at i:52599807 original size:71 final size:71
Alignment explanation
Indices: 52599723--52599886 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52599713 CGATTTGTCT
52599723 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52599788 CTTTCA
66 CTTTCA
52599794 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52599859 CTTTCA
66 CTTTCA
52599865 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
52599887 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:52599924 original size:71 final size:70
Alignment explanation
Indices: 52599723--52599920 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
52599713 CGATTTGTCT
* * * *
52599723 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52599788 CTTTCA
65 CTTTCA
* * * *
52599794 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52599859 CTTTCA
65 CTTTCA
* *
52599865 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
52599921 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:52603760 original size:46 final size:46
Alignment explanation
Indices: 52603710--52603882 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
52603700 TGGTTGAGCA
*
52603710 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
52603756 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
52603801 CATCGGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
52603849 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
52603883 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:52603866 original size:93 final size:93
Alignment explanation
Indices: 52603707--52603877 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
52603697 GGATGGTTGA
* * *
52603707 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
52603772 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
52603800 GCATCGGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
52603865 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52603878 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:52605813 original size:16 final size:16
Alignment explanation
Indices: 52605792--52605824 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
52605782 CAGCCATTGT
52605792 GCCCTGAAGAATTGGA
1 GCCCTGAAGAATTGGA
*
52605808 GCCCTGAAGATTTGGA
1 GCCCTGAAGAATTGGA
52605824 G
1 G
52605825 ACACCATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.21
Consensus pattern (16 bp):
GCCCTGAAGAATTGGA
Found at i:52611529 original size:46 final size:46
Alignment explanation
Indices: 52611479--52611644 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 46
52611469 GCATCCGAAC
52611479 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAAG
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAAG
* * * * ** *
52611525 TCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCGGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCAAAG
* **
52611572 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCGAG
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAAG
*
52611617 CTCGTTGATTTGAGTCCGAGTTCACTTA
1 -TCGTTGAGTTGAGTCCGAGTTCACTTA
52611645 GGGGCAGGTT
Statistics
Matches: 93, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 48 0.52
47 26 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAAG
Found at i:52611630 original size:93 final size:93
Alignment explanation
Indices: 52611469--52611639 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
52611459 GGATGGTTGA
*
52611469 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAAGTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAAGTCGTTGAGT
52611534 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* ** *
52611562 GCATCGGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCGAGCTCGTTGAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAAG-TCGTTGAG
52611626 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
52611640 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAAGTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:52615683 original size:46 final size:46
Alignment explanation
Indices: 52615616--52615792 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
52615606 ATGTAACCTG
52615616 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGCTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACGCTCGCA
* * *
52615662 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-T
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCA
* *** * **
52615708 TACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
1 TCCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCA
* *
52615755 TCCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
52615793 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
45 2 0.02
46 72 0.65
47 36 0.33
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCA
Found at i:52615737 original size:93 final size:93
Alignment explanation
Indices: 52615625--52615796 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
52615615 GTCCATAAGT
*
52615625 GAACTCGGACTCAACTCAACGAGCTCAGG-CGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACACTCGCATCCATAAGTGAACTCGGACTCAACTCA
52615689 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* * *
52615718 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52615783 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
52615797 CAAATATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:52617976 original size:25 final size:24
Alignment explanation
Indices: 52617948--52618020 Score: 57
Period size: 25 Copynumber: 3.2 Consensus size: 24
52617938 AGGTGCCATC
52617948 TGTATGCTATACTGGTAGCTATTAT
1 TGTATGCTA-ACTGGTAGCTATTAT
* * * *
52617973 TGTAAGC-AA-AGGT-GCCA-T-C
1 TGTATGCTAACTGGTAGCTATTAT
52617992 TGTATGCTAGACTGGTAGCTATTAT
1 TGTATGCTA-ACTGGTAGCTATTAT
52618017 TGTA
1 TGTA
52618021 AGCAAACTCT
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
19 6 0.18
20 2 0.06
21 4 0.12
22 6 0.18
23 4 0.12
24 2 0.06
25 10 0.29
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (24 bp):
TGTATGCTAACTGGTAGCTATTAT
Found at i:52618000 original size:44 final size:44
Alignment explanation
Indices: 52617937--52618026 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
52617927 AGTGCTTCGT
*
52617937 AAGGTGCCATCTGTATGCTATACTGGTAGCTATTATTGTAAGCA
1 AAGGTGCCATCTGTATGCTAGACTGGTAGCTATTATTGTAAGCA
52617981 AAGGTGCCATCTGTATGCTAGACTGGTAGCTATTATTGTAAGCA
1 AAGGTGCCATCTGTATGCTAGACTGGTAGCTATTATTGTAAGCA
52618025 AA
1 AA
52618027 CTCTGGTAGC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (44 bp):
AAGGTGCCATCTGTATGCTAGACTGGTAGCTATTATTGTAAGCA
Found at i:52623614 original size:27 final size:28
Alignment explanation
Indices: 52623559--52623627 Score: 122
Period size: 27 Copynumber: 2.5 Consensus size: 28
52623549 CATGAGAATG
52623559 GCACTAAGTGTGCGAGTTTGATCATATA
1 GCACTAAGTGTGCGAGTTTGATCATATA
*
52623587 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATCATATA
52623614 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52623628 GACTTACTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATCATATA
Found at i:52623638 original size:27 final size:27
Alignment explanation
Indices: 52623559--52623639 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
52623549 CATGAGAATG
*
52623559 GCACTAAGTGTGCGAGTTTGA-TCATATA
1 GCACTAAGTGTGCGA-CTTGACT-ATATA
* *
52623587 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTGACTATATA
52623614 GCACTAAGTGTGCGGACTT-ACTATAT
1 GCACTAAGTGTGC-GACTTGACTATAT
52623640 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
27 28 0.58
28 20 0.42
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTGACTATATA
Found at i:52630723 original size:18 final size:19
Alignment explanation
Indices: 52630674--52630723 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
52630664 ATAATTTTGA
*
52630674 CATTTAATATG-TTTCAGT
1 CATTTAATATGCTATCAGT
* *
52630692 CTAATTAATTTGCTAT-AGT
1 C-ATTTAATATGCTATCAGT
52630711 CATTTAATATGCT
1 CATTTAATATGCT
52630724 TAATTATGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
18 11 0.44
19 12 0.48
20 2 0.08
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (19 bp):
CATTTAATATGCTATCAGT
Found at i:52632965 original size:40 final size:40
Alignment explanation
Indices: 52632920--52633009 Score: 128
Period size: 40 Copynumber: 2.2 Consensus size: 40
52632910 CGGAATACAA
*
52632920 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TCGCACGAATGCCTTCGGGTCTTAAC
* **
52632960 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTCGCACGAATGCCTTCGGGTCTTAAC
52633000 CCGGATATAA
1 CCGGATATAA
52633010 TTTCCAGCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.98
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTCGCACGAATGCCTTCGGGTCTTAAC
Found at i:52637363 original size:39 final size:40
Alignment explanation
Indices: 52637320--52637448 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
52637310 CGGAATACAA
52637320 CCGGATATAACCACGT-GCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
52637359 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
52637399 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
52637439 CCGGATATAA
1 CCGGATATAA
52637449 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 27 0.36
40 47 0.63
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:52637463 original size:40 final size:40
Alignment explanation
Indices: 52637320--52637482 Score: 136
Period size: 40 Copynumber: 4.1 Consensus size: 40
52637310 CGGAATACAA
**
52637320 CCGGATATAACCACGTGCACGAA-TGCCTTC-GGTCTTAGC
1 CCGGATATAACCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* **
52637359 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
52637399 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*** * * *
52637439 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
52637479 CCGG
1 CCGG
52637483 GTATCATTCA
Statistics
Matches: 99, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
39 27 0.27
40 72 0.73
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:52640783 original size:40 final size:40
Alignment explanation
Indices: 52640709--52640785 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
52640699 ACAGGGGTTT
* **
52640709 TCACACGGCCAGACACGCCCTTGTCAATGTCCCGTGTCCC
1 TCACACGGCCAGACACGCCCGTGTCAATAACCCGTGTCCC
*
52640749 TCACACGGCCATGACACGCCCGTGTC-TTAACCCGTGT
1 TCACACGGCCA-GACACGCCCGTGTCAATAACCCGTGT
52640786 GCAAAAACCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 19 0.59
41 13 0.41
ACGTcount: A:0.18, C:0.40, G:0.21, T:0.21
Consensus pattern (40 bp):
TCACACGGCCAGACACGCCCGTGTCAATAACCCGTGTCCC
Found at i:52643457 original size:49 final size:47
Alignment explanation
Indices: 52643290--52643622 Score: 524
Period size: 47 Copynumber: 7.0 Consensus size: 47
52643280 TGTAGGAGAT
52643290 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
52643337 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
* *
52643384 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT-AAAGGT
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA-GA
* *
52643431 GTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGT
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
52643480 GTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
* *
52643529 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTA
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG-A
* *
52643577 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 -GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
52643623 CATATGTGTG
Statistics
Matches: 270, Mismatches: 10, Indels: 10
0.93 0.03 0.03
Matches are distributed among these distances:
46 3 0.01
47 132 0.49
48 1 0.00
49 132 0.49
50 2 0.01
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (47 bp):
GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
Found at i:52643535 original size:145 final size:143
Alignment explanation
Indices: 52643291--52643622 Score: 601
Period size: 145 Copynumber: 2.3 Consensus size: 143
52643281 GTAGGAGATG
52643291 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
52643356 TAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
66 TAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
52643421 ATGTAAAGGTGTA
131 ATGTAAAGGTATA
* *
52643434 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--TATATATGTGATAAGG
52643499 CCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
64 CCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
52643564 GAATGTGAAGGTATA
129 GAATGTAAAGGTATA
*
52643579 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
52643623 CATATGTGTG
Statistics
Matches: 181, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
143 45 0.25
145 136 0.75
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (143 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
TAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTAAAGGTATA
Found at i:52643670 original size:48 final size:48
Alignment explanation
Indices: 52643614--52643813 Score: 355
Period size: 48 Copynumber: 4.2 Consensus size: 48
52643604 CGATGTGATG
*
52643614 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
52643662 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
52643710 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
52643758 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
52643806 AATGTGAA
1 AATGTGAA
52643814 TGTTGTAACA
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:52643675 original size:96 final size:98
Alignment explanation
Indices: 52643291--52643638 Score: 471
Period size: 96 Copynumber: 3.6 Consensus size: 98
52643281 GTAGGAGATG
* *
52643291 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG-AAAGA-GTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATGTATATATGTGATAAGG
* *
52643354 CCTAATGGCC-AATGTGATGAATGTGAAAGA-G
66 CCTAATGGCCGAATGTGATGAATGTGAAATATA
* * *
52643385 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT-AAAGGTGTATATATATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-ATATGTATATATGTGATAAG
* *
52643449 GCCTAATGGCC-AATGTGATGAATGTGAAGGTGTA
65 GCCTAATGGCCGAATGTGATGAATGTGAA-ATATA
* *
52643483 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG-AAAGA-GTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATGTATATATGTGATAAGG
*
52643546 CCTAATGGCCG-ATGTGATGAATGTGAAGGTATA
66 CCTAATGGCCGAATGTGATGAATGTGAA-ATATA
*
52643579 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAACATATGTGTGATATGT
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-ATATGTAT-ATATGT
52643639 ATATGTGGTA
Statistics
Matches: 225, Mismatches: 18, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
94 41 0.18
96 130 0.58
97 2 0.01
98 43 0.19
99 3 0.01
100 6 0.03
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (98 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATGTATATATGTGATAAGG
CCTAATGGCCGAATGTGATGAATGTGAAATATA
Found at i:52643907 original size:37 final size:37
Alignment explanation
Indices: 52643853--52643943 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
52643843 AACTTGGAAA
*
52643853 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
52643891 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
52643928 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
52643944 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:52645895 original size:40 final size:40
Alignment explanation
Indices: 52645849--52646149 Score: 317
Period size: 40 Copynumber: 7.5 Consensus size: 40
52645839 TGAATGATAC
**
52645849 CCGGGCTAAGTCCCGAAG-GCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG-ATATAT
* * * *
52645889 CCGGGCTAAGACCCGAAG-GCATTTGTG-TGAGTTGTTATAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AG-TGATATAT
* * * *
52645929 CCGGGTTAAGACCCGAAG-GCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGAGC-ATTCGTGCTAGT-GATATAT
* *
52645969 CC-GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
52646008 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
52646048 CCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
52646088 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
*
52646128 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
52646150 ATCATGCTGG
Statistics
Matches: 232, Mismatches: 21, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
39 24 0.10
40 202 0.87
41 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:52649690 original size:46 final size:46
Alignment explanation
Indices: 52649640--52649807 Score: 209
Period size: 46 Copynumber: 3.6 Consensus size: 46
52649630 TGGTTGAGCA
52649640 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
52649686 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
52649731 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
52649779 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
52649808 TTATGGGCGG
Statistics
Matches: 104, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 56 0.54
47 29 0.28
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:52649796 original size:93 final size:93
Alignment explanation
Indices: 52649637--52649807 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
52649627 GGATGGTTGA
* *
52649637 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
52649702 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
52649730 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
52649795 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52649808 TTATGGGCGG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52652797 original size:15 final size:15
Alignment explanation
Indices: 52652758--52652836 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
52652748 GTATCTTGGG
*
52652758 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
52652773 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
52652788 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
52652802 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
52652817 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
52652831 TTTCTT
1 TTTCTT
52652837 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:52652821 original size:29 final size:29
Alignment explanation
Indices: 52652749--52652835 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
52652739 CATAGTATCG
* * * *
52652749 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
52652779 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
52652808 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
52652836 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:52655249 original size:46 final size:46
Alignment explanation
Indices: 52655199--52655374 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
52655189 TGGTTGAGCA
52655199 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
52655245 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
52655290 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
52655338 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52655375 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:52655355 original size:93 final size:93
Alignment explanation
Indices: 52655196--52655366 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
52655186 GGATGGTTGA
* *
52655196 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
52655261 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
52655289 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
52655354 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52655367 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52658159 original size:47 final size:47
Alignment explanation
Indices: 52658104--52658398 Score: 477
Period size: 47 Copynumber: 6.2 Consensus size: 47
52658094 TGTAGGAGAT
52658104 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
52658151 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
* *
52658198 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGT
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA-GA
* *
52658246 GTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGT
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
52658295 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG-
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
* *
52658341 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAACA
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
52658390 -TATATATGT
1 GTATATATGT
52658399 ATATGTGGTA
Statistics
Matches: 235, Mismatches: 7, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
46 10 0.04
47 135 0.57
48 45 0.19
49 3 0.01
50 42 0.18
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (47 bp):
GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
Found at i:52658280 original size:144 final size:144
Alignment explanation
Indices: 52658105--52658429 Score: 526
Period size: 144 Copynumber: 2.2 Consensus size: 144
52658095 GTAGGAGATG
52658105 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
52658170 TAATGGCCAATGTGATGAATGTGAAA-GAGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
66 TAATGGCCAATGTGATGAATGTGAAAGGA-TATATATGTGATAAGGCCTAATGGCCGATGTGATG
** *
52658234 AATGTGAAAGGTGTA
130 AATGTGAAACATATA
* *
52658249 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
52658314 TAATGGCCAATGTGATGAATGTGAAAGGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
66 TAATGGCCAATGTGATGAATGTGAAAGG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATG
52658379 AATGTGAAACATATA
130 AATGTGAAACATATA
* * *
52658394 TATGTATATGTGGTAAGGCCGAATGGCTGAATGTGA
1 TA--TATATGTGATAAGGCCTAATGGC-CAATGTGA
52658430 AACATATGTG
Statistics
Matches: 168, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
144 89 0.53
145 50 0.30
146 1 0.01
147 21 0.12
148 7 0.04
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (144 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
TAATGGCCAATGTGATGAATGTGAAAGGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAACATATA
Found at i:52658299 original size:97 final size:95
Alignment explanation
Indices: 52658103--52658387 Score: 493
Period size: 97 Copynumber: 3.0 Consensus size: 95
52658093 ATGTAGGAGA
52658103 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA-G-AGTATATATGTGATAA
1 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGGTA-TATATATGTGATAA
52658166 GGCCTAATGGCCAATGTGATGAATGTGAAAG
65 GGCCTAATGGCCAATGTGATGAATGTGAAAG
* *
52658197 AGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTGTATATATATGTGATA
1 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA-G-GTATATATATGTGATA
*
52658262 AGGCCTAATGGCCAATGTGATGAATGTGAAGG
64 AGGCCTAATGGCCAATGTGATGAATGTGAAAG
52658294 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGGTATATATATGTGATAAG
1 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGGTATATATATGTGATAAG
*
52658359 GCCTAATGGCCGATGTGATGAATGTGAAA
66 GCCTAATGGCCAATGTGATGAATGTGAAA
52658388 CATATATATG
Statistics
Matches: 180, Mismatches: 7, Indels: 7
0.93 0.04 0.04
Matches are distributed among these distances:
94 44 0.24
95 45 0.25
96 1 0.01
97 89 0.49
98 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (95 bp):
TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGGTATATATATGTGATAAG
GCCTAATGGCCAATGTGATGAATGTGAAAG
Found at i:52658497 original size:48 final size:48
Alignment explanation
Indices: 52658393--52658622 Score: 388
Period size: 48 Copynumber: 4.8 Consensus size: 48
52658383 TGAAACATAT
* *
52658393 ATATGTATATGTGGTAAGGCCGAATGGCTGAATGTGAAACATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATGTGTG
52658442 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* *
52658490 ATGTGTATATGTGGTAAAGCCGAAGGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
52658538 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* * *
52658586 ATGTATATGTGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
52658623 TGTTGTAACA
Statistics
Matches: 172, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
48 144 0.84
49 28 0.16
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
Found at i:52658716 original size:37 final size:37
Alignment explanation
Indices: 52658662--52658752 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
52658652 AACTTGGAAA
*
52658662 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
52658700 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
52658737 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
52658753 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:52660701 original size:40 final size:40
Alignment explanation
Indices: 52660655--52660953 Score: 308
Period size: 40 Copynumber: 7.5 Consensus size: 40
52660645 TGAATGATAC
* **
52660655 CCGGGCTAAGTCCCGAAG-GCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG-ATATAT
** * * *
52660695 CCGGGCTAAGACCCGAAG-GCATTTGTG-TGAGTTGTTATAC
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCT-AG-TGATATAT
* ** * *
52660735 CCGGGTTAAGACCCGAAG-GCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGTTCCGAAGAGC-ATTCGTGCTAGT-GATATAT
*
52660775 CC-GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
* *
52660814 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
* *
52660854 CCGGGCTAAATTCC-AAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
* *
52660893 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
*
52660933 CCGGGCT-AGGTCCGAAGAGCA
1 CCGGGCTAAGTTCCGAAGAGCA
52660954 ATCATGCTGG
Statistics
Matches: 230, Mismatches: 20, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
39 74 0.32
40 150 0.65
41 6 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:52660855 original size:79 final size:80
Alignment explanation
Indices: 52660772--52660953 Score: 325
Period size: 79 Copynumber: 2.3 Consensus size: 80
52660762 CTTGTGGTTA
52660772 TATCC-GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
52660836 TTCGTGCTAGTGATG
66 TTCGTGCTAGTGATG
*
52660851 TATCCGGGCTAAATTCC-AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
52660915 TTCGTGCTAGTGATG
66 TTCGTGCTAGTGATG
*
52660930 TATCCGGGCT-AGGTCCGAAGAGCA
1 TATCCGGGCTAAGTTCCGAAGAGCA
52660954 ATCATGCTGG
Statistics
Matches: 98, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
78 4 0.04
79 84 0.86
80 10 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
TTCGTGCTAGTGATG
Found at i:52663534 original size:99 final size:98
Alignment explanation
Indices: 52663408--52663605 Score: 378
Period size: 99 Copynumber: 2.0 Consensus size: 98
52663398 ACCCGCACTA
*
52663408 TCATACTTTAGGGTATTTGAACTAAACGTTTTGAATTATGGCATGTATAGTAGGCTTAATTATTT
1 TCATACTTCAGGGTATTTGAACTAAACGTTTTGAATTATGGCATGTATAGTAGGCTTAATTATTT
52663473 TGTTACGTGTCATATTTGTCTAGGTTAAAATAT
66 TGTTACGTGTCATATTTGTCTAGGTTAAAATAT
52663506 TCATACTTACAGGGTATTTGAACTAAACGTTTTGAATTATGGCATGTATAGTAGGCTTAATTATT
1 TCATACTT-CAGGGTATTTGAACTAAACGTTTTGAATTATGGCATGTATAGTAGGCTTAATTATT
52663571 TTGTTACGTGTCATATTTGTCTAGGTTAAAATAT
65 TTGTTACGTGTCATATTTGTCTAGGTTAAAATAT
52663605 T
1 T
52663606 AGTTACAGTA
Statistics
Matches: 98, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
98 8 0.08
99 90 0.92
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (98 bp):
TCATACTTCAGGGTATTTGAACTAAACGTTTTGAATTATGGCATGTATAGTAGGCTTAATTATTT
TGTTACGTGTCATATTTGTCTAGGTTAAAATAT
Found at i:52667418 original size:49 final size:47
Alignment explanation
Indices: 52667208--52667539 Score: 531
Period size: 47 Copynumber: 7.0 Consensus size: 47
52667198 TGTAGGAGAT
52667208 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
52667255 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
* *
52667302 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT-AAAGT
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
* *
52667348 GTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGT
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
52667397 GTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
* *
52667446 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTA
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG-A
* *
52667494 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 -GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
52667540 CATATGTGTG
Statistics
Matches: 270, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
46 5 0.02
47 130 0.48
48 40 0.15
49 95 0.35
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (47 bp):
GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
Found at i:52667587 original size:48 final size:48
Alignment explanation
Indices: 52667531--52667730 Score: 355
Period size: 48 Copynumber: 4.2 Consensus size: 48
52667521 CGATGTGATG
*
52667531 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
52667579 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
52667627 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
52667675 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
52667723 AATGTGAA
1 AATGTGAA
52667731 TGTTGTAACA
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:52667587 original size:144 final size:143
Alignment explanation
Indices: 52667209--52667539 Score: 574
Period size: 144 Copynumber: 2.3 Consensus size: 143
52667199 GTAGGAGATG
*
52667209 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA-GTATATATGTGATAAGGC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAATATGTATATATGTGATAAGGC
52667273 CTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
66 CTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52667338 AATGTAAAGTGTA
131 AATGTAAAGTATA
* * *
52667351 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-ATATGTATATATGTGATAAGG
52667416 CCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
65 CCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
52667481 GAATGTGAAGGTATA
130 GAATGT-AAAGTATA
*
52667496 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
52667540 CATATGTGTG
Statistics
Matches: 178, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
142 43 0.24
144 87 0.49
145 48 0.27
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (143 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAATATGTATATATGTGATAAGGC
CTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
AATGTAAAGTATA
Found at i:52667592 original size:96 final size:98
Alignment explanation
Indices: 52667209--52667555 Score: 478
Period size: 96 Copynumber: 3.6 Consensus size: 98
52667199 GTAGGAGATG
* *
52667209 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG-AAAGA-GTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATGTATATATGTGATAAGG
* *
52667272 CCTAATGGCC-AATGTGATGAATGTGAAAGA-G
66 CCTAATGGCCGAATGTGATGAATGTGAAATATA
* * *
52667303 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT-AAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATGTATATATGTGATAAGG
* *
52667367 CCTAATGGCC-AATGTGATGAATGTGAAGGTGTA
66 CCTAATGGCCGAATGTGATGAATGTGAA-ATATA
* *
52667400 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG-AAAGA-GTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATGTATATATGTGATAAGG
*
52667463 CCTAATGGCCG-ATGTGATGAATGTGAAGGTATA
66 CCTAATGGCCGAATGTGATGAATGTGAA-ATATA
*
52667496 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAACATATGTGTGATATGT
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-ATATGTAT-ATATGT
52667556 ATATGTGGTA
Statistics
Matches: 225, Mismatches: 18, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
94 41 0.18
95 43 0.19
96 87 0.39
97 43 0.19
98 2 0.01
99 3 0.01
100 6 0.03
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (98 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATGTATATATGTGATAAGG
CCTAATGGCCGAATGTGATGAATGTGAAATATA
Found at i:52670010 original size:20 final size:20
Alignment explanation
Indices: 52669985--52670022 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
52669975 ATGTCCCAGA
52669985 CATGGTCTTACACTAGCTAT
1 CATGGTCTTACACTAGCTAT
*
52670005 CATGGTCTTACAGTAGCT
1 CATGGTCTTACACTAGCT
52670023 CTCAAATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (20 bp):
CATGGTCTTACACTAGCTAT
Found at i:52670170 original size:46 final size:46
Alignment explanation
Indices: 52670040--52670255 Score: 169
Period size: 46 Copynumber: 4.7 Consensus size: 46
52670030 AACCGTCCCA
* *
52670040 ATGCTATGTCCCAGACATGGTCTTACACTAACACATC-T-T-GTA-GCCG
1 ATGC-ATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTCG-AGGCTG
* *
52670086 ATGCATGTCCCAGACATGTCTTATACTAGTTTA-T-GTCTCGAGGCTG
1 ATGCATGTCCCAGACATGTCTTACACTAG--CACTCGTCTCGAGGCTG
* * *
52670132 ATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAATG-TCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGAGGCT-G
* * * * * *
52670178 ATGCCATGTCCCAGACATGGTCTTACACTCGCTCTCATAAT-GTGGCCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGT-CTCGAGGCTG
52670226 ATGCATGTCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
52670256 TCACACAAAT
Statistics
Matches: 138, Mismatches: 19, Indels: 26
0.75 0.10 0.14
Matches are distributed among these distances:
44 13 0.09
45 17 0.12
46 59 0.43
47 27 0.20
48 21 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGAGGCTG
Found at i:52680725 original size:16 final size:17
Alignment explanation
Indices: 52680679--52680727 Score: 57
Period size: 15 Copynumber: 3.0 Consensus size: 17
52680669 TGATTTTTTT
*
52680679 TATTTTGTTATATTAGA
1 TATTTTTTTATATTAGA
**
52680696 TAAATTTTTA-ATTA-A
1 TATTTTTTTATATTAGA
52680711 TATTTTTTTATATTAGA
1 TATTTTTTTATATTAGA
52680728 AAATATATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
15 9 0.36
16 8 0.32
17 8 0.32
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TATTTTTTTATATTAGA
Found at i:52689131 original size:34 final size:34
Alignment explanation
Indices: 52689088--52689155 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
52689078 GTAAGTTAGG
52689088 GCACAATCCCTCGATGTTCTAAAACACAAAACAT
1 GCACAATCCCTCGATGTTCTAAAACACAAAACAT
*
52689122 GCACAATCCCTCGATGTTCTAAAACGCAAAACAT
1 GCACAATCCCTCGATGTTCTAAAACACAAAACAT
52689156 TGCCTTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.40, C:0.29, G:0.10, T:0.21
Consensus pattern (34 bp):
GCACAATCCCTCGATGTTCTAAAACACAAAACAT
Found at i:52689704 original size:26 final size:26
Alignment explanation
Indices: 52689643--52689762 Score: 100
Period size: 26 Copynumber: 4.5 Consensus size: 26
52689633 CGAAAGTTTG
**
52689643 AAATAAATAATATACAGAAA-AAGTTTA
1 AAATAAATAATATGTA-AAATAA-TTTA
*
52689670 AAATGAATAATATGTAAAATAATTTA
1 AAATAAATAATATGTAAAATAATTTA
* * *
52689696 AGATAAATAATATAT-AAATGAGTTTA
1 AAATAAATAATATGTAAAAT-AATTTA
** *
52689722 AAATAAATGTTATGTAAAAAGAAATTTA
1 AAATAAATAATATGT-AAAA-TAATTTA
52689750 AAATAAATAATAT
1 AAATAAATAATAT
52689763 ACAAGACATT
Statistics
Matches: 73, Mismatches: 15, Indels: 9
0.75 0.15 0.09
Matches are distributed among these distances:
25 4 0.05
26 35 0.48
27 15 0.21
28 19 0.26
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (26 bp):
AAATAAATAATATGTAAAATAATTTA
Found at i:52689736 original size:52 final size:55
Alignment explanation
Indices: 52689634--52689765 Score: 153
Period size: 54 Copynumber: 2.4 Consensus size: 55
52689624 TAATATAGGC
* *
52689634 GAAAGTTTGAAATAAATAATATACAGAAAAAGTTTAAAATGAATAATATGT-AAAA
1 GAAA-TTTAAAATAAATAATATACAGAAAAAGTTTAAAATAAATAATATGTAAAAA
* * * ** **
52689689 -TAATTTAAGATAAATAATATATA-AATGAGTTTAAAATAAATGTTATGTAAAAA
1 GAAATTTAAAATAAATAATATACAGAAAAAGTTTAAAATAAATAATATGTAAAAA
52689742 GAAATTTAAAATAAATAATATACA
1 GAAATTTAAAATAAATAATATACA
52689766 AGACATTTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
52 20 0.32
53 21 0.33
54 22 0.35
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.31
Consensus pattern (55 bp):
GAAATTTAAAATAAATAATATACAGAAAAAGTTTAAAATAAATAATATGTAAAAA
Found at i:52691154 original size:15 final size:16
Alignment explanation
Indices: 52691134--52691163 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
52691124 CGGATGTATG
52691134 TTTTATTATT-TTTCT
1 TTTTATTATTATTTCT
52691149 TTTTATTATTATTTC
1 TTTTATTATTATTTC
52691164 GTGAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTATTATTATTTCT
Found at i:52692225 original size:44 final size:44
Alignment explanation
Indices: 52692142--52692226 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
52692132 AAGATCTGTA
* * **
52692142 ACTTCGATCTACTCCTCTACAACTTCAAGGAGATGAGATTCACG
1 ACTTCAATCTACTCCACTACAACTTCAAGGAGACAAGATTCACG
* *
52692186 ACTTCAATCTGCTCCACTACAACTTCAGGGAGACAAGATTC
1 ACTTCAATCTACTCCACTACAACTTCAAGGAGACAAGATTC
52692227 GCCATTGTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (44 bp):
ACTTCAATCTACTCCACTACAACTTCAAGGAGACAAGATTCACG
Found at i:52693775 original size:40 final size:39
Alignment explanation
Indices: 52693711--52693898 Score: 223
Period size: 39 Copynumber: 4.8 Consensus size: 39
52693701 GCTACTCGTT
* * * ** *
52693711 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* * *
52693751 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGTA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
52693791 CAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * *
52693830 CAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
52693869 CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
52693899 CTCGAACATT
Statistics
Matches: 131, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 87 0.66
40 44 0.34
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:52693819 original size:39 final size:39
Alignment explanation
Indices: 52693747--52693899 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
52693737 TATGGTAACC
* *
52693747 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
52693787 CGTACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
52693826 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
52693865 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
52693900 TCGAACATTC
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 88 0.85
40 16 0.15
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:52699768 original size:40 final size:39
Alignment explanation
Indices: 52699704--52699891 Score: 223
Period size: 39 Copynumber: 4.8 Consensus size: 39
52699694 GCTACACGTT
* * * ** *
52699704 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
52699744 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
52699784 CAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * *
52699823 CAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* *
52699862 CAATTACCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
52699892 CTCGAACATT
Statistics
Matches: 132, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 87 0.66
40 45 0.34
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:52699821 original size:39 final size:39
Alignment explanation
Indices: 52699740--52699892 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
52699730 TATGGTAACC
* *
52699740 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
52699780 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
52699819 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
52699858 CGCACAATTACCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
52699893 TCGAACATTC
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:52712481 original size:26 final size:27
Alignment explanation
Indices: 52712443--52712539 Score: 108
Period size: 26 Copynumber: 3.6 Consensus size: 27
52712433 ACAGAAAAAG
*
52712443 TTTAAAATGAATAATATGTAAAAT-AA
1 TTTAAAATAAATAATATGTAAAATGAA
* * *
52712469 TTTAAGATAAATAATATAT-AAATGAG
1 TTTAAAATAAATAATATGTAAAATGAA
* *
52712495 TTTAAAATAAATATTATGTAAAAAGAAA
1 TTTAAAATAAATAATATGTAAAATG-AA
*
52712523 CTTAAAATAAATAATAT
1 TTTAAAATAAATAATAT
52712540 ACAAGACATT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 4 0.07
26 33 0.58
27 4 0.07
28 16 0.28
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (27 bp):
TTTAAAATAAATAATATGTAAAATGAA
Found at i:52718251 original size:17 final size:18
Alignment explanation
Indices: 52718231--52718273 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
52718221 ATATATAATA
52718231 TTAAAAATTC-TTAA-AAT
1 TTAAAAA-TCATTAAGAAT
52718248 TTAAAAATCATTAAGAAT
1 TTAAAAATCATTAAGAAT
52718266 TATAAAAA
1 T-TAAAAA
52718274 AGCGATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 2 0.09
17 11 0.48
18 4 0.17
19 6 0.26
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (18 bp):
TTAAAAATCATTAAGAAT
Found at i:52723860 original size:24 final size:24
Alignment explanation
Indices: 52723832--52723888 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
52723822 TTTACTAATC
*
52723832 AGAGTTTAAG-TGGGAAACTAAAAT
1 AGAGTTTAAGCT-AGAAACTAAAAT
52723856 AGAGTTT-AGCCTAGAAACTAAAAT
1 AGAGTTTAAG-CTAGAAACTAAAAT
52723880 AGAGTTTAA
1 AGAGTTTAA
52723889 CTTAATAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 2 0.07
24 25 0.86
25 2 0.07
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (24 bp):
AGAGTTTAAGCTAGAAACTAAAAT
Found at i:52727909 original size:93 final size:93
Alignment explanation
Indices: 52727797--52727968 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
52727787 GCCCATAAGT
* *
52727797 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52727862 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
52727890 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52727955 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
52727969 CAAATATCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:52727964 original size:46 final size:46
Alignment explanation
Indices: 52727789--52727964 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
52727779 TGTAACCCGC
* *
52727789 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
52727835 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
52727881 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
52727928 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
52727965 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:52730370 original size:15 final size:15
Alignment explanation
Indices: 52730348--52730425 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
52730338 AAGAAAACGA
52730348 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
52730363 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
52730377 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
52730392 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
52730408 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
52730423 ATA
1 ATA
52730426 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:52730380 original size:30 final size:30
Alignment explanation
Indices: 52730346--52730425 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
52730336 ACAAGAAAAC
*
52730346 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
* *
52730376 GAATAAAGAAATCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
* *
52730406 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
52730426 CGATACTATG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 2 0.05
30 39 0.91
31 2 0.05
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Found at i:52734682 original size:80 final size:79
Alignment explanation
Indices: 52734547--52734750 Score: 214
Period size: 80 Copynumber: 2.5 Consensus size: 79
52734537 TGAATGATAC
* * * * *
52734547 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATA-CTCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGACCCGAAGGCA-TTGTGCTAGTTG-TTATATC-CGGGCCAAGACCCGAAGGCAAT
* ****
52734610 TATGCTAGTTGGTAAAT
63 TATGCAAGTCACCAAAT
* *
52734627 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCCAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATT-GTGCTAGTTGTTATATCCGGGCCAAGACCCGAAGGCAATTA
52734692 TGCAAGTCACCAAAT
65 TGCAAGTCACCAAAT
* * *
52734707 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTAGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGC-ATTGTGCTAGTTGTTATATCCGG
52734751 TTGAATCCCG
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
79 2 0.02
80 96 0.92
81 6 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCTAGTTGTTATATCCGGGCCAAGACCCGAAGGCAATTAT
GCAAGTCACCAAAT
Found at i:52734749 original size:40 final size:40
Alignment explanation
Indices: 52734547--52734750 Score: 182
Period size: 40 Copynumber: 5.1 Consensus size: 40
52734537 TGAATGATAC
* * *
52734547 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGT-GATTATA-
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAG-TTATAT
* * * * * *
52734586 CTCGGGCTAAGTCCCGAAGGCATTTATGCTAGTTGGTAAAT
1 C-CGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTTATAT
* *
52734627 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTTATAT
* * ** *
52734667 CCGGGCCAAGACCCGAAGGCAATTGTGCAAGTCA-CCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGT-AGTTATAT
* *
52734707 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTAGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTTATAT
52734747 CCGG
1 CCGG
52734751 TTGAATCCCG
Statistics
Matches: 137, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
39 4 0.03
40 128 0.93
41 5 0.04
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTTATAT
Found at i:52742734 original size:38 final size:40
Alignment explanation
Indices: 52742651--52742850 Score: 169
Period size: 39 Copynumber: 5.1 Consensus size: 40
52742641 TGAATGATAC
*
52742651 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTTG-TTATAT
* *
52742691 -C-GGCTAAG-TCCGAAGGCATTTATGCTAGTTG-TAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTTGTTATAT
** *
52742727 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTTGTTATAT
* * * **** *
52742767 CCGGGC-AAGACCCGAAGGCAATTGTGCAAGTCACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTTGTTATAT
* * * * *
52742806 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGAGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGT-TGTTATAT
52742847 CCGG
1 CCGG
52742851 TTGAATCCCG
Statistics
Matches: 130, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
36 4 0.03
37 20 0.15
38 16 0.12
39 50 0.38
40 33 0.25
41 7 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTTGTTATAT
Found at i:52742742 original size:76 final size:78
Alignment explanation
Indices: 52742651--52742847 Score: 204
Period size: 76 Copynumber: 2.5 Consensus size: 78
52742641 TGAATGATAC
* * * *
52742651 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATC-GGCTAAG-TCCGAAGGCATTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCGGGC-AAGACCCGAAGGCAATTAT
* ***
52742714 GCTAGT-TGTAAAT
65 GCAAGTCACCAAAT
* * *
52742727 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATCCGGGCAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT-CGGGCAAGACCCGAAGGCAATTA
52742791 TGCAAGTCACCAAAT
64 TGCAAGTCACCAAAT
* * *
52742806 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGAGTTATATC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA-TTATATC
52742848 CGGTTGAATC
Statistics
Matches: 98, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
76 33 0.34
77 6 0.06
78 22 0.22
79 31 0.32
80 6 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCGGGCAAGACCCGAAGGCAATTATG
CAAGTCACCAAAT
Found at i:52742825 original size:40 final size:39
Alignment explanation
Indices: 52742723--52742833 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 39
52742713 TGCTAGTTGT
* ****
52742723 AAATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 AAATCCGGG-TAAGACCCGAAGGCAATT-GTGCAAGTCACC
* *
52742763 ATATCCGGGCAAGACCCGAAGGCAATTGTGCAAGTCACC
1 AAATCCGGGTAAGACCCGAAGGCAATTGTGCAAGTCACC
52742802 AAATCCGGGTTAAGACCCGAAGGCAATTGTGC
1 AAATCCGGG-TAAGACCCGAAGGCAATTGTGC
52742834 TTGTGAGTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
39 28 0.47
40 32 0.53
ACGTcount: A:0.29, C:0.24, G:0.28, T:0.19
Consensus pattern (39 bp):
AAATCCGGGTAAGACCCGAAGGCAATTGTGCAAGTCACC
Found at i:52750745 original size:40 final size:40
Alignment explanation
Indices: 52750690--52750838 Score: 165
Period size: 40 Copynumber: 3.7 Consensus size: 40
52750680 TGAATGATAC
* * *
52750690 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTTGGTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTATGCTAGTTGCTAAAT
* * *
52750730 CCGGGCTAAGACCCGAAGGC-ATTCGTGCTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-ATGCTAGTTGCTAAAT
* * * ** *
52750770 CCGGGCCAAGACCCGAAGGCAATTGTGCAAGTCACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTATGCTAGTTGCTAAAT
*
52750810 CCGGGTTAAGACCCGAAGGCAATTATGCT
1 CCGGGCTAAGACCCGAAGGCAATTATGCT
52750839 TGTAGTTATA
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTATGCTAGTTGCTAAAT
Found at i:52752906 original size:93 final size:93
Alignment explanation
Indices: 52752793--52752961 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
52752783 GCCCATAAGT
* * *
52752793 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
52752857 ACGAGCTCGGATACCTAGTTACATCTCTC
65 ACGAGCTCGGATACCTAGTTACATCTCTC
*
52752886 GAACTCGGACTGAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52752951 CGAGTTCGGAT
66 CGAGCTCGGAT
52752962 GCCCAAATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATACCTAGTTACATCTCTC
Found at i:52752955 original size:46 final size:46
Alignment explanation
Indices: 52752785--52752960 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
52752775 TGTAACCCGC
* * *
52752785 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTAGCAT
* * * *
52752831 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATACCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACA-TTAGCAT
* *** * *
52752877 ACATCTCTCGAACTCGGACTGAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTAGCAT
52752924 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52752961 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
45 1 0.01
46 68 0.65
47 35 0.34
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTAGCAT
Found at i:52757065 original size:96 final size:97
Alignment explanation
Indices: 52756900--52757092 Score: 307
Period size: 96 Copynumber: 2.0 Consensus size: 97
52756890 AAGGAGGAAT
* *
52756900 ACAATTGAGCGATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAGGGTTTCCG
1 ACAATTGAGCGATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAGAGTTTCCA
52756965 ATGTCCAATTAAACATCCAAATAGAG-AGAAA
66 ATGTCCAATTAAACATCCAAATAGAGAAGAAA
** * *
52756996 ACAATTGAGTTATCACCTTTTGTGCAATGTTATTGGTGTAGTTTAGAAGATCATAAGAGTTTCCA
1 ACAATTGAGCGATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAGAGTTTCCA
* *
52757061 ATGTCCAATTAAATATCCAACTAGAGAAGAAA
66 ATGTCCAATTAAACATCCAAATAGAGAAGAAA
52757093 GTAAGTATGA
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
96 83 0.94
97 5 0.06
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (97 bp):
ACAATTGAGCGATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAGAGTTTCCA
ATGTCCAATTAAACATCCAAATAGAGAAGAAA
Found at i:52760152 original size:47 final size:47
Alignment explanation
Indices: 52760098--52760386 Score: 389
Period size: 47 Copynumber: 6.1 Consensus size: 47
52760088 TTAGGATTTT
** * *
52760098 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
52760145 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--TATATAT--GTGATAAGGCCGAATGGCCA
** * *
52760196 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
** * *
52760243 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
52760290 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
52760337 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
52760384 ATG
1 ATG
52760387 CGAAATGTGT
Statistics
Matches: 219, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
47 171 0.78
49 11 0.05
51 37 0.17
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:52760223 original size:23 final size:23
Alignment explanation
Indices: 52760196--52760270 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
52760186 CGAATGGCCA
52760196 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* **
52760219 ATGTG-TGATAAG-GCCAA-ATGGCCA
1 ATGTGATGA-ATGTG--AACAT-GCGT
52760243 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
52760266 ATGTG
1 ATGTG
52760271 TGATAAGGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 4 0.10
23 18 0.46
24 13 0.33
25 4 0.10
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:52760490 original size:46 final size:46
Alignment explanation
Indices: 52760360--52760478 Score: 193
Period size: 46 Copynumber: 2.6 Consensus size: 46
52760350 GAACATGTAT
*
52760360 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
* * *
52760406 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
*
52760452 ATATGTGGTAAAGCCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
52760479 TGAGATATGT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.24
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
Found at i:52760706 original size:37 final size:37
Alignment explanation
Indices: 52760676--52760823 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
52760666 GTGGTGACTA
52760676 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
52760713 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* *
52760750 TGTACGTGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* * *
52760787 TGTCCGGGTAAGACCGGATAACTTCGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
52760824 CATCTGAGCT
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (37 bp):
TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
Found at i:52763225 original size:43 final size:42
Alignment explanation
Indices: 52763173--52763312 Score: 142
Period size: 43 Copynumber: 3.3 Consensus size: 42
52763163 TCTGGCACTG
* *
52763173 TAGTGCATCATCGGATAAATCGAATGAAATATTGTGGCACACA
1 TAGTGCATCATCGGATAAAT-GAATGAAATATTCTGGCATACA
* * * *
52763216 TAGTGCATCATCAGAT-AA-GACATAGAAATAATACTTGCATACG
1 TAGTGCATCATCGGATAAATGA-AT-GAAAT-ATTCTGGCATACA
*
52763259 TAGTGCATCATCGGATATATAGAA-GAAAATATTCTGGCATACA
1 TAGTGCATCATCGGATAAAT-GAATG-AAATATTCTGGCATACA
52763302 TAGTGCATCAT
1 TAGTGCATCAT
52763313 TGATTAAACC
Statistics
Matches: 79, Mismatches: 11, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
40 2 0.03
41 2 0.03
42 7 0.09
43 60 0.76
44 5 0.06
45 1 0.01
46 2 0.03
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (42 bp):
TAGTGCATCATCGGATAAATGAATGAAATATTCTGGCATACA
Found at i:52765293 original size:17 final size:18
Alignment explanation
Indices: 52765271--52765306 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
52765261 GTACTGGGCC
52765271 GTGTGGGCC-ACACGGGT
1 GTGTGGGCCTACACGGGT
52765288 GTGTGGGCCTACACGGGT
1 GTGTGGGCCTACACGGGT
52765306 G
1 G
52765307 AACCACACGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.22, G:0.47, T:0.19
Consensus pattern (18 bp):
GTGTGGGCCTACACGGGT
Found at i:52767189 original size:46 final size:46
Alignment explanation
Indices: 52767139--52767314 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
52767129 TGGTTGGGCA
*
52767139 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCG
* * * *
52767185 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C-AAGCG
*
52767232 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCG
*
52767278 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52767315 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 4 0.04
45 3 0.03
46 66 0.59
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCG
Found at i:52767294 original size:93 final size:93
Alignment explanation
Indices: 52767135--52767306 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
52767125 AGGATGGTTG
* *
52767135 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
52767200 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
52767228 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG-CTCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGA
52767292 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
52767307 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 74 0.99
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:52771272 original size:80 final size:81
Alignment explanation
Indices: 52771135--52771320 Score: 218
Period size: 80 Copynumber: 2.3 Consensus size: 81
52771125 TCGAACGATG
* * *
52771135 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAGATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
52771199 CGTGCGAGTTAATAGA
66 CGTGCGAGTCAATAGA
* **
52771215 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAA-CCCGGACTAAGAT-CCGAAGGCA
* *
52771277 TTCGTGCGAGTCACTATA
64 TTCGTGCGAGTCAATAGA
* **
52771295 ACCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52771321 AGCGAGTCGT
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
79 19 0.21
80 57 0.63
81 14 0.16
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATAGA
Found at i:52771326 original size:40 final size:40
Alignment explanation
Indices: 52771136--52771328 Score: 135
Period size: 40 Copynumber: 4.8 Consensus size: 40
52771126 CGAACGATGT
* * * * *
52771136 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAGAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * * *
52771176 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAGAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
52771216 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAACC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAA-C
*
52771256 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
52771296 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
52771329 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
39 23 0.18
40 69 0.55
41 32 0.25
42 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:52773164 original size:20 final size:21
Alignment explanation
Indices: 52773141--52773180 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
52773131 AGTTTTATTT
52773141 AATTAAATAA-AGGTTAATTA
1 AATTAAATAACAGGTTAATTA
* *
52773161 AATTAATTAACATGTTAATT
1 AATTAAATAACAGGTTAATT
52773181 TAGCTATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (21 bp):
AATTAAATAACAGGTTAATTA
Found at i:52773475 original size:24 final size:24
Alignment explanation
Indices: 52773448--52773505 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
52773438 ACAATTATTC
* *
52773448 ATGAGGTAATTATATAATGCTTGT
1 ATGAGGTAAGTATATAAAGCTTGT
*
52773472 ATGAGGTAAGTGTATAAAGCTTGT
1 ATGAGGTAAGTATATAAAGCTTGT
*
52773496 ATGAGTTAAG
1 ATGAGGTAAG
52773506 ATAAGATGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.36
Consensus pattern (24 bp):
ATGAGGTAAGTATATAAAGCTTGT
Found at i:52775330 original size:22 final size:24
Alignment explanation
Indices: 52775296--52775340 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
52775286 AATCCAAATA
*
52775296 ATTAACATCTTTAA-CT-ATTTTG
1 ATTAAAATCTTTAATCTAATTTTG
*
52775318 ATTAAAATTTTTAATCTAATTTT
1 ATTAAAATCTTTAATCTAATTTT
52775341 AATAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 2 0.11
24 5 0.26
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTAAAATCTTTAATCTAATTTTG
Found at i:52775348 original size:24 final size:22
Alignment explanation
Indices: 52775305--52775348 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
52775295 AATTAACATC
* *
52775305 TTTAACTATTTTGATTAAAATT
1 TTTAACTATTTTAATAAAAATT
52775327 TTTAATCTAATTTTAATAAAAA
1 TTTAA-CT-ATTTTAATAAAAA
52775349 ATATCATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 2 0.11
24 11 0.61
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTAACTATTTTAATAAAAATT
Found at i:52776780 original size:18 final size:18
Alignment explanation
Indices: 52776757--52776795 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
52776747 ATATTTTTTT
*
52776757 ATTTTAAATTGATTTATA
1 ATTTTAAATAGATTTATA
* *
52776775 ATTTTATATAGTTTTATA
1 ATTTTAAATAGATTTATA
52776793 ATT
1 ATT
52776796 CTATATCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTAAATAGATTTATA
Found at i:52776867 original size:9 final size:10
Alignment explanation
Indices: 52776846--52776881 Score: 56
Period size: 9 Copynumber: 3.6 Consensus size: 10
52776836 AAAAAATAAT
52776846 TTTTTAAATA
1 TTTTTAAATA
52776856 TTTTTAAA-A
1 TTTTTAAATA
52776865 TTTTTAAATAA
1 TTTTTAAAT-A
52776876 TTTTTA
1 TTTTTA
52776882 TGATTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.38
10 8 0.33
11 7 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTTAAATA
Found at i:52778671 original size:20 final size:19
Alignment explanation
Indices: 52778613--52778665 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
52778603 GAATCTATTG
* * *
52778613 TCTTTTTGTTTGAATCGAT
1 TCTTTTTTTTTAAATCAAT
*
52778632 TC-ATTTTTTTAAATCAAT
1 TCTTTTTTTTTAAATCAAT
52778650 TCTTTTTTATTTAAAT
1 TCTTTTTT-TTTAAAT
52778666 TGATTCAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 14 0.52
19 6 0.22
20 7 0.26
ACGTcount: A:0.25, C:0.09, G:0.06, T:0.60
Consensus pattern (19 bp):
TCTTTTTTTTTAAATCAAT
Found at i:52782819 original size:49 final size:48
Alignment explanation
Indices: 52782711--52782974 Score: 175
Period size: 49 Copynumber: 5.6 Consensus size: 48
52782701 TACGATGCCG
* * * * * ***
52782711 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCT-AAGTTG
1 ATGCCATGTCCCAGACA-GGTCTTACACTGACTCTCATATATGAGGCCA
*
52782759 ATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATAT-GAGGCCA
* * * * * *
52782808 ATGCCATGTCCCAGGCAGGTCTTACATTGGCTCTCATCTATCG-GTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATAT-GAG-GCCA
* * * * * * *
52782857 ATGCCATGTCCTAGACAGGTCTTGCACT-AAT-ACATGT-T-AAGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATGAGGCCA
* * * * *
52782901 ACGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATA-ATGTGGCTA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATGAGGCCA
* *
52782948 ATG-CATGTCCTAGACATGTCTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
52782975 AGCAAACATA
Statistics
Matches: 166, Mismatches: 42, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
44 27 0.16
45 1 0.01
46 26 0.16
47 29 0.17
48 17 0.10
49 66 0.40
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (48 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATGAGGCCA
Found at i:52783664 original size:20 final size:18
Alignment explanation
Indices: 52783627--52783669 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
52783617 CTATAGAAAC
52783627 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
52783644 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
52783664 TTACAA
1 TCACAA
52783670 ACTTTACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:52786539 original size:38 final size:38
Alignment explanation
Indices: 52786472--52786546 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
52786462 GATGTGCATT
* * * * *
52786472 CGGGTTAAATCCCGTAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTACTGGTATTATATC
52786510 CGGGATAAATCCCGCAGGCCTAGTACTGGTATTATAT
1 CGGGATAAATCCCGCAGGCCTAGTACTGGTATTATAT
52786547 TCAGGCCTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTACTGGTATTATATC
Found at i:52786601 original size:43 final size:43
Alignment explanation
Indices: 52786544--52786754 Score: 350
Period size: 43 Copynumber: 4.9 Consensus size: 43
52786534 ACTGGTATTA
*
52786544 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
52786587 TATTCGGGCATTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
52786630 TATTCGGGCCTTCGTGCCTGGCAGGCTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
52786673 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
52786716 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
52786755 AATGATATGT
Statistics
Matches: 157, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 157 1.00
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:52787138 original size:45 final size:42
Alignment explanation
Indices: 52787071--52787178 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 42
52787061 TTAACTTGAT
* *
52787071 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
**
52787116 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
52787158 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
52787179 ACAGGCGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 34 0.60
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:52795562 original size:137 final size:137
Alignment explanation
Indices: 52795316--52795589 Score: 539
Period size: 137 Copynumber: 2.0 Consensus size: 137
52795306 ATTAATCACT
*
52795316 TTAATTACATGAACAATAGAAGTTATGAATTACGTCAGGGATTAAATTGAGCATACAAACATAGA
1 TTAATTACATGAACAATAGAAGTTATGAATTACGTCAGGGATTAAATCGAGCATACAAACATAGA
52795381 TTAATAAAATTGAGCATGAATTAAAGACAAACTCGAAAATTTTCAAAAGTTTGAACCAAGTATTG
66 TTAATAAAATTGAGCATGAATTAAAGACAAACTCGAAAATTTTCAAAAGTTTGAACCAAGTATTG
52795446 ATACTAA
131 ATACTAA
52795453 TTAATTACATGAACAATAGAAGTTATGAATTACGTCAGGGATTAAATCGAGCATACAAACATAGA
1 TTAATTACATGAACAATAGAAGTTATGAATTACGTCAGGGATTAAATCGAGCATACAAACATAGA
52795518 TTAATAAAATTGAGCATGAATTAAAGACAAACTCGAAAATTTTCAAAAGTTTGAACCAAGTATTG
66 TTAATAAAATTGAGCATGAATTAAAGACAAACTCGAAAATTTTCAAAAGTTTGAACCAAGTATTG
52795583 ATACTAA
131 ATACTAA
52795590 AGAAATAAGT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 136 1.00
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (137 bp):
TTAATTACATGAACAATAGAAGTTATGAATTACGTCAGGGATTAAATCGAGCATACAAACATAGA
TTAATAAAATTGAGCATGAATTAAAGACAAACTCGAAAATTTTCAAAAGTTTGAACCAAGTATTG
ATACTAA
Found at i:52802563 original size:47 final size:47
Alignment explanation
Indices: 52802510--52803086 Score: 1001
Period size: 47 Copynumber: 12.3 Consensus size: 47
52802500 ATAAGATATG
* *
52802510 TATATGTGGTAAAGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
* *
52802557 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATATGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
52802604 TATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
52802651 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
52802698 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
52802745 TATATGTGATAAGGCCGAATGGCCAATGTGAGGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
52802792 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
* *
52802839 TATATGTGATAAGGCCTAATGGACAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
52802886 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
52802933 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
52802980 TATATGTGATACGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
* * *
52803027 TATATGTGATAAGGCCAAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
52803074 TAAATGTGATAAG
1 TATATGTGATAAG
52803087 TCCCGAAGGG
Statistics
Matches: 506, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 506 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
Done.