Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 398 of 433
Found at i:123573717 original size:40 final size:38
Alignment explanation
Indices: 123573668--123573775 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
123573658 ATCACGATTT
*
123573668 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
123573708 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
123573748 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
123573776 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:123582962 original size:24 final size:24
Alignment explanation
Indices: 123582930--123582990 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
123582920 AAAATCCAAT
* * *
123582930 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTATAAT-TA
123582954 GCACTATGTGTGCGAGTATAATTA
1 GCACTATGTGTGCGAGTATAATTA
123582978 GCACTATGTGTGC
1 GCACTATGTGTGC
123582991 AAATTCGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTATAATTA
Found at i:123588426 original size:22 final size:21
Alignment explanation
Indices: 123588392--123588432 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
123588382 TAATCTATGC
* *
123588392 CATTTTATCAAAATAAGATTA
1 CATTTTACCAAAACAAGATTA
123588413 CATTTATACCAAAACAAGAT
1 CATTT-TACCAAAACAAGAT
123588433 GGAGGATAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.32
Consensus pattern (21 bp):
CATTTTACCAAAACAAGATTA
Found at i:123589078 original size:24 final size:24
Alignment explanation
Indices: 123589038--123589083 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
123589028 CCATAATCGA
*
123589038 GAAGTTCACAAAGAACCTTATCAG
1 GAAGTTCACAAAGAACCATATCAG
123589062 GAAGTTCACAACA-AACCATATC
1 GAAGTTCACAA-AGAACCATATC
123589084 GGGAGGCTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.43, C:0.24, G:0.13, T:0.20
Consensus pattern (24 bp):
GAAGTTCACAAAGAACCATATCAG
Found at i:123594456 original size:27 final size:27
Alignment explanation
Indices: 123594416--123594556 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
123594406 AGGAAGCGTC
*
123594416 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
123594443 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
123594469 CCTGATGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
123594497 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
123594524 CTAGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
123594551 CTGGTG
1 CTGGTG
123594557 ACTTCGTCAC
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
26 11 0.11
27 83 0.85
28 4 0.04
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:123594495 original size:54 final size:54
Alignment explanation
Indices: 123594413--123594556 Score: 229
Period size: 54 Copynumber: 2.7 Consensus size: 54
123594403 TGGAGGAAGC
*
123594413 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGATGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
123594467 GTCCTGATGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGATGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
123594521 GTTCT-AGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGA-TGGCTATGCCACAATTATCTG-ATCTGGTG
123594557 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
53 7 0.08
54 78 0.92
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGATGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:123594568 original size:81 final size:80
Alignment explanation
Indices: 123594416--123594574 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 80
123594406 AGGAAGCGTC
* *
123594416 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGATGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTCCTGATGACTAT
123594481 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * *
123594497 CTGGTGGCTCTGCCAC-ATATATCTGTTCTAGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTAGTGGCTCTGCCACATATATCTGT-CCTGATGACT
*
123594560 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
123594575 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
80 17 0.25
81 51 0.75
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTCCTGATGACTAT
GCCACAATATCTGAT
Found at i:123602473 original size:27 final size:27
Alignment explanation
Indices: 123602376--123602480 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
123602366 AGGAAGCGTC
*
123602376 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
123602403 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
123602430 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
123602457 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
123602481 CAGCCTCGCT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 9 0.13
27 61 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:123603719 original size:21 final size:21
Alignment explanation
Indices: 123603694--123603736 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
123603684 ATACGCCAAG
123603694 TAAAACAATTTCATGCTAACA
1 TAAAACAATTTCATGCTAACA
123603715 TAAAACAATTTCATGCTAACA
1 TAAAACAATTTCATGCTAACA
123603736 T
1 T
123603737 GTGGCAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.30
Consensus pattern (21 bp):
TAAAACAATTTCATGCTAACA
Found at i:123606811 original size:2 final size:2
Alignment explanation
Indices: 123606804--123606860 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
123606794 CCCAATGTGT
123606804 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
123606846 TT TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
123606861 GTTTCAGAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:123613623 original size:29 final size:29
Alignment explanation
Indices: 123613590--123613663 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
123613580 GTGACGAGAT
123613590 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
123613619 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
123613648 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
123613664 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:123613679 original size:29 final size:29
Alignment explanation
Indices: 123613647--123613722 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
123613637 CTGGAAATAT
* *
123613647 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
123613676 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
123613705 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
123613723 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:123613690 original size:58 final size:58
Alignment explanation
Indices: 123613590--123613722 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
123613580 GTGACGAGAT
* * * * * *
123613590 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
123613648 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
123613706 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
123613723 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:123621494 original size:29 final size:29
Alignment explanation
Indices: 123621461--123621534 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
123621451 GTGACGAGAT
123621461 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
123621490 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
123621519 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
123621535 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:123621550 original size:29 final size:28
Alignment explanation
Indices: 123621518--123621592 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
123621508 CTGGAAATAT
* *
123621518 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
123621547 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
123621575 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
123621593 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:123621561 original size:58 final size:57
Alignment explanation
Indices: 123621461--123621592 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
123621451 GTGACGAGAT
* * * * * *
123621461 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
123621519 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
123621576 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
123621593 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:123628719 original size:122 final size:120
Alignment explanation
Indices: 123628396--123628997 Score: 913
Period size: 119 Copynumber: 5.0 Consensus size: 120
123628386 AGGCCGCAGT
* * *
123628396 ATGGCAGATCTAGCTTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
* ** *
123628461 TTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCA-AAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGAAC
* * * *
123628515 ATAGCAAATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTAT
1 ATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
* *
123628580 TTATAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACAC
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA-AC
* **
123628636 ATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCTAAGATGATTTGACATTCTTGTG
1 ATGGCAGATCTAACCTTCAGATGTTTATACTGAAG-CAGATCCAAGATGATTTGGTATTCTTGTG
* *
123628701 TTTACAAGGAACAAATCGAGGACATAACAGATTTGACTCTCAGATGTTCTCAG-AT
65 TTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGAAC
* * *
123628756 ATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAAATCCAAGATGATTTGGTATTCTTGTGT
1 ATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
* *
123628821 TTACAAGGAACAAATCGAGGATAGAGCAGATTTGACTCTCAGATGTTCTCAGACAC
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA-AC
**
123628877 ATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTG
1 ATGGCAGATCTAACCTTCAGATGTTTATACTGAAG-CAGATCCAAGATGATTTGGTATTCTTGTG
*
123628942 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA-AAC
65 TTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGAAC
123628997 A
1 A
123628998 GACTCAAGAT
Statistics
Matches: 435, Mismatches: 42, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
119 179 0.41
120 38 0.09
121 68 0.16
122 150 0.34
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (120 bp):
ATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGAAC
Found at i:123628818 original size:241 final size:241
Alignment explanation
Indices: 123628396--123628995 Score: 1040
Period size: 241 Copynumber: 2.5 Consensus size: 241
123628386 AGGCCGCAGT
* * * **
123628396 ATGGCAGATCTAGCTTTCAGATGTTTATACTGAA-ACAGATCCAAGATGATTTGGTATTCTTGTG
1 ATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTG
**
123628460 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAATATAGCAAATC
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAAATC
* *
123628525 TAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTATTTATAAGGAA
131 TAAACTTCAGATGTTTATACTGAAGCAAATCCAAGATGATTTGGTATTCTTGTATTTACAAGGAA
*
123628590 CAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACAC
196 CAAATCGAGGATAGAGCAGATTTGACTCTCAGATGTTCTCAGACAC
*
123628636 ATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCTAAGATGATTTGACATTCTTGTG
1 ATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTG
* * * *
123628701 TTTACAAGGAACAAATCGAGGACATAACAGATTTGACTCTCAGATGTTCTCAGATATAGCAGATC
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAAATC
* *
123628766 TAAGCTTCAGATGTTTATACTGAAGCAAATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAA
131 TAAACTTCAGATGTTTATACTGAAGCAAATCCAAGATGATTTGGTATTCTTGTATTTACAAGGAA
123628831 CAAATCGAGGATAGAGCAGATTTGACTCTCAGATGTTCTCAGACAC
196 CAAATCGAGGATAGAGCAGATTTGACTCTCAGATGTTCTCAGACAC
123628877 ATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTG
1 ATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTG
123628942 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
123628996 CAGACTCAAG
Statistics
Matches: 338, Mismatches: 21, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
240 32 0.09
241 306 0.91
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (241 bp):
ATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTG
TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAAATC
TAAACTTCAGATGTTTATACTGAAGCAAATCCAAGATGATTTGGTATTCTTGTATTTACAAGGAA
CAAATCGAGGATAGAGCAGATTTGACTCTCAGATGTTCTCAGACAC
Found at i:123630803 original size:20 final size:20
Alignment explanation
Indices: 123630774--123630826 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
123630764 TTAATTCTCT
123630774 CATA-ATTATTAT-TTTTATA
1 CATATATTATTATATTTT-TA
*
123630793 TATATATTATTATATTTTTA
1 CATATATTATTATATTTTTA
123630813 CATATATTA-TATAT
1 CATATATTATTATAT
123630827 ACATATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 8 0.27
20 18 0.60
21 4 0.13
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
CATATATTATTATATTTTTA
Found at i:123631000 original size:20 final size:19
Alignment explanation
Indices: 123630975--123631017 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
123630965 ACATATTACC
123630975 AATTATAT-TATTTATGTTTA
1 AATTATATATA-TTAT-TTTA
123630995 AATTATATATATTATTTTA
1 AATTATATATATTATTTTA
123631014 AATT
1 AATT
123631018 TGTAAATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 12 0.55
21 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTATATATATTATTTTA
Found at i:123631441 original size:30 final size:30
Alignment explanation
Indices: 123631407--123631465 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
123631397 CTTCTATTTG
* *
123631407 TATATCATACATTATTTAATTATTGTTTTT
1 TATATCATACATCATTTAATTATTATTTTT
*
123631437 TATATCATGCATCATTTAATTATTATTTT
1 TATATCATACATCATTTAATTATTATTTT
123631466 ATATGTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (30 bp):
TATATCATACATCATTTAATTATTATTTTT
Found at i:123634743 original size:41 final size:41
Alignment explanation
Indices: 123634689--123634768 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
123634679 AGATACTACA
123634689 AAGTAAGTAGATGAAAGTGTAATTATTAGTATAGAAATTAC
1 AAGTAAGTAGATGAAAGTGTAATTATTAGTATAGAAATTAC
* *
123634730 AAGTAATTAGATGAAAGTGTAATTATTATTATAGAAATT
1 AAGTAAGTAGATGAAAGTGTAATTATTAGTATAGAAATT
123634769 GCACTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.46, C:0.01, G:0.17, T:0.35
Consensus pattern (41 bp):
AAGTAAGTAGATGAAAGTGTAATTATTAGTATAGAAATTAC
Found at i:123646001 original size:17 final size:17
Alignment explanation
Indices: 123645956--123646003 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
123645946 CTTTTCTTTT
*
123645956 CTTTACCCTCCCCCGCC
1 CTTTACCCTCTCCCGCC
* *
123645973 CTTAACCTTCTCCCGCC
1 CTTTACCCTCTCCCGCC
*
123645990 CTTTCCCCTCTCCC
1 CTTTACCCTCTCCC
123646004 TAGATCAGCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.06, C:0.60, G:0.04, T:0.29
Consensus pattern (17 bp):
CTTTACCCTCTCCCGCC
Found at i:123646340 original size:30 final size:31
Alignment explanation
Indices: 123646306--123646363 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
123646296 CTATTTATTG
*
123646306 ATTATGTTATTTCTTTAGT-TTTATTATTTT
1 ATTATATTATTTCTTTAGTGTTTATTATTTT
*
123646336 ATTATATTATTTCTTTATTGTTTATTAT
1 ATTATATTATTTCTTTAGTGTTTATTAT
123646364 CATGATTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.69
Consensus pattern (31 bp):
ATTATATTATTTCTTTAGTGTTTATTATTTT
Found at i:123656486 original size:19 final size:19
Alignment explanation
Indices: 123656458--123656494 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
123656448 ACCTGCCAGA
*
123656458 AGTAAATAAAAGAAAATTT
1 AGTAAATAAAAAAAAATTT
*
123656477 AGTAATTAAAAAAAAATT
1 AGTAAATAAAAAAAAATT
123656495 AAATTGCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (19 bp):
AGTAAATAAAAAAAAATTT
Found at i:123659298 original size:38 final size:38
Alignment explanation
Indices: 123659255--123659330 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
123659245 ATCATGAGAT
123659255 AAAATTAGTAAATTAGGAATGTTAACACCCGGGTTTCC
1 AAAATTAGTAAATTAGGAATGTTAACACCCGGGTTTCC
*
123659293 AAAATTAGTAAATTAGGAATGTTAACGCCCGGGTTTCC
1 AAAATTAGTAAATTAGGAATGTTAACACCCGGGTTTCC
123659331 TCCCGAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (38 bp):
AAAATTAGTAAATTAGGAATGTTAACACCCGGGTTTCC
Found at i:123662383 original size:16 final size:16
Alignment explanation
Indices: 123662362--123662393 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
123662352 ATGAACGCAA
123662362 CATAGGTTTCATCTTC
1 CATAGGTTTCATCTTC
123662378 CATAGGTTTCATCTTC
1 CATAGGTTTCATCTTC
123662394 AATTTACTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (16 bp):
CATAGGTTTCATCTTC
Found at i:123679094 original size:8 final size:8
Alignment explanation
Indices: 123679081--123679126 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
123679071 ACTTAAGTAT
123679081 ATAATATA
1 ATAATATA
123679089 ATAATATA
1 ATAATATA
*
123679097 TTAATATATA
1 AT-A-ATATA
*
123679107 ATAATTTA
1 ATAATATA
123679115 ATAATATA
1 ATAATATA
123679123 ATAA
1 ATAA
123679127 AACATAAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 24 0.75
9 2 0.06
10 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATAATATA
Found at i:123679107 original size:18 final size:18
Alignment explanation
Indices: 123679081--123679126 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
123679071 ACTTAAGTAT
123679081 ATAATATAATAATATATTA
1 ATAATATAATAATATA-TA
123679100 AT-ATATAATAAT-T-TA
1 ATAATATAATAATATATA
123679115 ATAATATAATAA
1 ATAATATAATAA
123679127 AACATAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.15
16 9 0.35
17 1 0.04
18 10 0.38
19 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAATATAATAATATATA
Found at i:123679133 original size:26 final size:26
Alignment explanation
Indices: 123679081--123679133 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
123679071 ACTTAAGTAT
* * *
123679081 ATAATATAATAATATATTAATATATA
1 ATAATATAATAATATAATAAAACATA
*
123679107 ATAATTTAATAATATAATAAAACATA
1 ATAATATAATAATATAATAAAACATA
123679133 A
1 A
123679134 AGGAATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
ATAATATAATAATATAATAAAACATA
Found at i:123679833 original size:2 final size:2
Alignment explanation
Indices: 123679826--123679856 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
123679816 TTGCATTCAT
123679826 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
123679857 GGTAAGTGGT
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:123682987 original size:23 final size:23
Alignment explanation
Indices: 123682952--123683014 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
123682942 TTTATTATAA
*
123682952 AAAATA-TACTTATATTATTACT
1 AAAATACTATTTATATTATTACT
123682974 AAAATACTATTTATA-TATTTA-T
1 AAAATACTATTTATATTA-TTACT
123682996 AAAA-ACT-TTTAT-TTATTAC
1 AAAATACTATTTATATTATTAC
123683015 ACATTGTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
19 3 0.08
20 7 0.19
21 3 0.08
22 13 0.36
23 10 0.28
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAATACTATTTATATTATTACT
Found at i:123683012 original size:20 final size:20
Alignment explanation
Indices: 123682937--123683013 Score: 75
Period size: 23 Copynumber: 3.6 Consensus size: 20
123682927 TCTTTATATA
*
123682937 ATTTATTTATTATAAAAAAT
1 ATTTATTTATTATAAAAACT
123682957 ATACTTATATTATTACTAAAATACT
1 AT--TTAT-TTATTA-TAAAA-ACT
*
123682982 ATTTATATATTTATAAAAACT
1 ATTTATTTA-TTATAAAAACT
123683003 -TTTATTTATTA
1 ATTTATTTATTA
123683014 CACATTGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
19 3 0.06
20 9 0.19
21 3 0.06
22 11 0.23
23 13 0.27
24 5 0.10
25 4 0.08
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTATTTATTATAAAAACT
Found at i:123683105 original size:2 final size:2
Alignment explanation
Indices: 123683098--123683126 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
123683088 CTTATTATTT
123683098 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 T
123683127 CACATATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:123683260 original size:14 final size:15
Alignment explanation
Indices: 123683230--123683266 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
123683220 TTATATACCC
123683230 ATTTCATTATTATTT
1 ATTTCATTATTATTT
123683245 ATTT-ATTA-TATATT
1 ATTTCATTATTAT-TT
123683259 ATTTCATT
1 ATTTCATT
123683267 TTAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.15
14 10 0.50
15 7 0.35
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTCATTATTATTT
Found at i:123683696 original size:16 final size:17
Alignment explanation
Indices: 123683675--123683708 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
123683665 CATTTTTTTG
*
123683675 CTTTATAT-GTATTATT
1 CTTTATATCGTAGTATT
123683691 CTTTATATCGTAGTATT
1 CTTTATATCGTAGTATT
123683708 C
1 C
123683709 ATTTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTTTATATCGTAGTATT
Found at i:123695284 original size:119 final size:119
Alignment explanation
Indices: 123695068--123695288 Score: 363
Period size: 119 Copynumber: 1.9 Consensus size: 119
123695058 TTGAAGACAA
*
123695068 CAGATCTAGACTTCAGACATTTATGCTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
1 CAGATCTAGACTTCAGACATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
*
123695133 AAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTTAAATATAG
66 AAGAAACAAATCGAGGACATAGCAGATATGACTCTCAGACGTTCTTAAATATAG
**
123695187 CAGATCTA-ACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTA
1 CAGATCTAGA-CTTCAGACATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTA
* * *
123695251 CAAGGAACAAATCGAGGACATTGTAGATATGACTCTCA
65 CAAGAAACAAATCGAGGACATAGCAGATATGACTCTCA
123695289 AATGTTCTCA
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
118 1 0.01
119 93 0.99
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (119 bp):
CAGATCTAGACTTCAGACATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
AAGAAACAAATCGAGGACATAGCAGATATGACTCTCAGACGTTCTTAAATATAG
Found at i:123695371 original size:83 final size:83
Alignment explanation
Indices: 123695224--123695547 Score: 486
Period size: 83 Copynumber: 3.9 Consensus size: 83
123695214 GAAGCAGATC
* * * * *
123695224 CAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATTGTAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
123695289 AATGTTCTCAAACAAACT
66 AATGTTCTCAAACAAACT
* * * *
123695307 CAAAATGGTTTGGCATCCTTGTGCTTATAAGGAACAAATCAAAGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
* *
123695372 AATGTTCTTAAACAGACT
66 AATGTTCTCAAACAAACT
*
123695390 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATCGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
123695455 AATGTTCTCAAACAAACT
66 AATGTTCTCAAACAAACT
* * * *
123695473 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGATTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
* *
123695538 GACGTTCTCA
66 AATGTTCTCA
123695548 GATATAGCAG
Statistics
Matches: 217, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 217 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAAACT
Found at i:123695701 original size:83 final size:82
Alignment explanation
Indices: 123695586--123695773 Score: 286
Period size: 83 Copynumber: 2.3 Consensus size: 82
123695576 TATACTGAAG
* *
123695586 TAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATATAA
1 TAGAT-CAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATATAA
*
123695651 CTCTCAAAAGTTTTCAAA
65 CTCTCAAAAGTTCTCAAA
* * * *
123695669 TAGATCAAAGACGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAGGACATAGTAGATATGA
1 TAGATC-AAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATATAA
*
123695734 TTCTCAAAAGTTCTCAAA
65 CTCTCAAAAGTTCTCAAA
123695752 TAGATCAAGATGATTTGGCATC
1 TAGATCAAGATGATTTGGCATC
123695774 TCTACAAATC
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
82 15 0.16
83 79 0.84
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (82 bp):
TAGATCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATATAAC
TCTCAAAAGTTCTCAAA
Found at i:123697392 original size:23 final size:23
Alignment explanation
Indices: 123697357--123697417 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 23
123697347 TTTATTATAA
* *
123697357 AAAATA-TACTTATATTATTGCT
1 AAAATACTATTTATATTATTGAT
*
123697379 AAAATACTATTTATA-TATTTAT
1 AAAATACTATTTATATTATTGAT
123697401 AAAA-ACT-TTTAT-TTATT
1 AAAATACTATTTATATTATT
123697418 ACACATTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 9 0.26
21 3 0.09
22 15 0.44
23 7 0.21
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.49
Consensus pattern (23 bp):
AAAATACTATTTATATTATTGAT
Found at i:123697417 original size:20 final size:22
Alignment explanation
Indices: 123697342--123697417 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
123697332 TCTTTATATA
* *
123697342 ATTTATTTATTATAAAAAATA-T
1 ATTTATATATT-TATAAAATACT
* **
123697364 ACTTATATTATTGCTAAAATACT
1 ATTTATA-TATTTATAAAATACT
123697387 ATTTATATATTTATAAAA-ACT
1 ATTTATATATTTATAAAATACT
*
123697408 -TTTATTTATT
1 ATTTATATATT
123697418 ACACATTGTT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
20 9 0.21
21 3 0.07
22 20 0.47
23 11 0.26
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.51
Consensus pattern (22 bp):
ATTTATATATTTATAAAATACT
Found at i:123697514 original size:25 final size:25
Alignment explanation
Indices: 123697453--123697524 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
123697443 TTATATTTTA
* *
123697453 TTTTAT-TATATAACATTTATTATG
1 TTTTATATATATATCACTTATTATG
* * *
123697477 TTTTATTTTTATATTACTTATTAT-
1 TTTTATATATATATCACTTATTATG
*
123697501 TTTATATATATATATCACATATTA
1 TTT-TATATATATATCACTTATTA
123697525 CCAATTATAC
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
24 9 0.24
25 29 0.76
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (25 bp):
TTTTATATATATATCACTTATTATG
Found at i:123697634 original size:4 final size:4
Alignment explanation
Indices: 123697625--123697665 Score: 55
Period size: 4 Copynumber: 9.5 Consensus size: 4
123697615 ACACATTTCA
123697625 TTAT TTAT TTAT TTAT TTAT TTAT TATAT ATTAT TTCAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT T-TAT -TTAT TT-AT TT
123697666 TAAATTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
4 23 0.68
5 10 0.29
6 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:123698094 original size:16 final size:17
Alignment explanation
Indices: 123698073--123698106 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
123698063 ATTTTTTTTG
*
123698073 CTTTATAT-GTATTATT
1 CTTTATATCGTAGTATT
123698089 CTTTATATCGTAGTATT
1 CTTTATATCGTAGTATT
123698106 C
1 C
123698107 ATTTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTTTATATCGTAGTATT
Found at i:123698957 original size:14 final size:14
Alignment explanation
Indices: 123698920--123698958 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
123698910 AAAATGGTTT
* *
123698920 ATGCAAATGGATGT
1 ATGCAAATGTATGA
123698934 ATGCAAATGTATGA
1 ATGCAAATGTATGA
123698948 ATGCAAATGTA
1 ATGCAAATGTA
123698959 CCAACTCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (14 bp):
ATGCAAATGTATGA
Found at i:123700019 original size:5 final size:6
Alignment explanation
Indices: 123699991--123700024 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
123699981 GAAAACCCAA
123699991 AAAAAT AAAGAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAA
123700025 TGAAAAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:123709230 original size:3 final size:3
Alignment explanation
Indices: 123709218--123709289 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
123709208 ATACAATCCC
123709218 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
123709265 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
123709290 TGAGAGGGGT
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 66 0.97
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:123716300 original size:6 final size:6
Alignment explanation
Indices: 123716289--123716358 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
123716279 TACTTTAGCG
* * * *
123716289 ATTTTT ATTTTT A-TTGT A-TTTT ATTTTT GTTTTT AGTTTA ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
123716335 ATTTTCT AAATTTTT A-TTTT ATTT
1 ATTTT-T --ATTTTT ATTTTT ATTT
123716359 GCTTCTAGCA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
5 13 0.25
6 31 0.61
7 1 0.02
8 1 0.02
9 5 0.10
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:123718092 original size:43 final size:42
Alignment explanation
Indices: 123717942--123718099 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 42
123717932 AGCGCGTACA
* * *
123717942 ATGCCAACGTCCCAGATGTGGTCTTACATGTAACCAAATATCG
1 ATGCCAACGTCCCAAATGTGGTCTTACACGTAATCAAAT-TCG
* *
123717985 ATGCC-ACTGTCCCAGACA-G-GGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCCA-A-ATGTGGTCTTACACGTAATCAAATTCG
*** * **
123718027 ATGTTGATGTCCCAAAAATGGTCTTACACGTAATCATAATTCG
1 ATGCCAACGTCCCAAATGTGGTCTTACACGTAATCA-AATTCG
*
123718070 ATGCCAACGTGCCAAATGTGGTCTTACACG
1 ATGCCAACGTCCCAAATGTGGTCTTACACG
123718100 AGAACACATA
Statistics
Matches: 90, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 29 0.32
43 57 0.63
44 1 0.01
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAAATGTGGTCTTACACGTAATCAAATTCG
Found at i:123718493 original size:8 final size:8
Alignment explanation
Indices: 123718480--123718509 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
123718470 AGTCCCTATT
123718480 TCACAAAA
1 TCACAAAA
123718488 TCACAAAA
1 TCACAAAA
123718496 TCACAAAA
1 TCACAAAA
123718504 TACACA
1 T-CACA
123718510 TAATTTCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (8 bp):
TCACAAAA
Found at i:123723135 original size:20 final size:20
Alignment explanation
Indices: 123723112--123723150 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
123723102 TTATTTACTT
123723112 ATTATATTAATTCTTATTTA
1 ATTATATTAATTCTTATTTA
* * *
123723132 ATTATGTTGATTTTTATTT
1 ATTATATTAATTCTTATTT
123723151 TGTTGTAGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (20 bp):
ATTATATTAATTCTTATTTA
Found at i:123724523 original size:6 final size:6
Alignment explanation
Indices: 123724503--123724564 Score: 65
Period size: 6 Copynumber: 10.3 Consensus size: 6
123724493 ATTAAGTCCA
* *
123724503 TTTA-T TTTATT TTTAGC TTTAGT TTTAGT TTTAGT TTTAGT TTT-GT
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT
*
123724549 TTCTATT TTTATGT TT
1 TT-TAGT TTTA-GT TT
123724565 ATTGTTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
5 8 0.17
6 34 0.71
7 6 0.12
ACGTcount: A:0.15, C:0.03, G:0.11, T:0.71
Consensus pattern (6 bp):
TTTAGT
Found at i:123726461 original size:26 final size:26
Alignment explanation
Indices: 123726432--123726565 Score: 214
Period size: 26 Copynumber: 5.2 Consensus size: 26
123726422 TGGTACAAAT
*
123726432 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
123726458 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
123726484 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
123726510 TGATAATGGGTTAGGTAAATGCTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
123726536 TGATAATGGTTTAGGTCAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
123726562 TGAT
1 TGAT
123726566 GGGCATTTCA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 100 1.00
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:123728456 original size:34 final size:32
Alignment explanation
Indices: 123728411--123728475 Score: 85
Period size: 34 Copynumber: 2.0 Consensus size: 32
123728401 CTATGGGCCA
*
123728411 TATTGTTATCTGAATAAGAGGCTAAGGCCCAGTT
1 TATTGTAATCTGAA-AAG-GGCTAAGGCCCAGTT
**
123728445 TATTGTAATCTGAAAAGGGCTCTGGCCCAGT
1 TATTGTAATCTGAAAAGGGCTAAGGCCCAGT
123728476 ACCACTGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 12 0.43
33 3 0.11
34 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (32 bp):
TATTGTAATCTGAAAAGGGCTAAGGCCCAGTT
Found at i:123735266 original size:5 final size:5
Alignment explanation
Indices: 123735256--123735281 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
123735246 ATATTATCTA
123735256 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
123735282 GGTTTTTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:123736444 original size:30 final size:30
Alignment explanation
Indices: 123736410--123736467 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
123736400 CATGTCCATG
* *
123736410 ACACATGAGCGTGTCGCCTACCCGTGTGTC
1 ACACACGAGCGTGTCGACTACCCGTGTGTC
* * *
123736440 ACACACGGGCGTGTGGATTACCCGTGTG
1 ACACACGAGCGTGTCGACTACCCGTGTG
123736468 GAAGTGCCTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.22
Consensus pattern (30 bp):
ACACACGAGCGTGTCGACTACCCGTGTGTC
Found at i:123738990 original size:15 final size:15
Alignment explanation
Indices: 123738970--123739000 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
123738960 CTGTATCAGT
123738970 AATGAATCAGACCAC
1 AATGAATCAGACCAC
*
123738985 AATGAATCAGAGCAC
1 AATGAATCAGACCAC
123739000 A
1 A
123739001 CGGAACCGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.23, G:0.16, T:0.13
Consensus pattern (15 bp):
AATGAATCAGACCAC
Found at i:123740253 original size:16 final size:16
Alignment explanation
Indices: 123740232--123740273 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
123740222 GACTAATAAT
123740232 AATTAAAAAAATAAGG
1 AATTAAAAAAATAAGG
* *
123740248 AATTAAATAACTAAGG
1 AATTAAAAAAATAAGG
123740264 AATTATAAAA
1 AATTA-AAAA
123740274 TAAAAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (16 bp):
AATTAAAAAAATAAGG
Found at i:123740389 original size:18 final size:17
Alignment explanation
Indices: 123740362--123740396 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
123740352 CTGACGGCGT
*
123740362 TAAGGGTGGTGGTTGGAG
1 TAAGGATGGTGG-TGGAG
123740380 TAAGGATGGTGGTGGAG
1 TAAGGATGGTGGTGGAG
123740397 GGGGTAGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.20, C:0.00, G:0.54, T:0.26
Consensus pattern (17 bp):
TAAGGATGGTGGTGGAG
Found at i:123751053 original size:6 final size:7
Alignment explanation
Indices: 123751036--123751063 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
123751026 TTTGAATAAT
123751036 AAAAAAG
1 AAAAAAG
123751043 AAAAAAG
1 AAAAAAG
123751050 AAAAAAG
1 AAAAAAG
123751057 AAAAAAG
1 AAAAAAG
123751064 CCAAGTATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:123761126 original size:12 final size:12
Alignment explanation
Indices: 123761093--123761127 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
123761083 TCAAAATTAG
123761093 GAAAACAAAAAA
1 GAAAACAAAAAA
123761105 GAAAA-AAAAAA
1 GAAAACAAAAAA
*
123761116 GAAAACTAAAAA
1 GAAAACAAAAAA
123761128 CTTCTAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.83, C:0.06, G:0.09, T:0.03
Consensus pattern (12 bp):
GAAAACAAAAAA
Found at i:123762747 original size:26 final size:25
Alignment explanation
Indices: 123762717--123762766 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
123762707 TTCAAGAGGT
123762717 GATTTTAGAGTTTACTTTTTTCTTTC
1 GATTTTAGAGTTTA-TTTTTTCTTTC
* **
123762743 GATTTTGGTTTTTATTTTTTCTTT
1 GATTTTAGAGTTTATTTTTTCTTT
123762767 GACTTTCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.12, C:0.08, G:0.12, T:0.68
Consensus pattern (25 bp):
GATTTTAGAGTTTATTTTTTCTTTC
Found at i:123783712 original size:46 final size:46
Alignment explanation
Indices: 123783639--123783912 Score: 433
Period size: 46 Copynumber: 6.0 Consensus size: 46
123783629 AGTGTGCTCT
* *
123783639 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
123783685 CTGATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
123783731 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
123783777 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
123783823 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
123783869 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
123783913 TCATGTCAAA
Statistics
Matches: 214, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 213 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:123787667 original size:55 final size:55
Alignment explanation
Indices: 123787581--123787710 Score: 138
Period size: 55 Copynumber: 2.4 Consensus size: 55
123787571 CCCGTGTTAA
* * * *
123787581 TTTAACAGGTTCGACCATGGGTGTTCTACACGAGT-GTGTCGAACG-CCTGTGCTGT
1 TTTAACAGGTTTGACCACGGGTCTTCCACACG-GTCGTGTCGAACGTCC-GTGCTGT
* * * *
123787636 TTTAACAGGTTTGCCCACGGTTCTTCCACACGGTCGTGTCGCACGTCCGTGTTGT
1 TTTAACAGGTTTGACCACGGGTCTTCCACACGGTCGTGTCGAACGTCCGTGCTGT
* *
123787691 TTTAGCAGGCTTGACCACGG
1 TTTAACAGGTTTGACCACGG
123787711 CCATATCGCA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
54 2 0.03
55 58 0.94
56 2 0.03
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (55 bp):
TTTAACAGGTTTGACCACGGGTCTTCCACACGGTCGTGTCGAACGTCCGTGCTGT
Found at i:123793079 original size:40 final size:40
Alignment explanation
Indices: 123793034--123793201 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
123793024 CGGAATATAA
123793034 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
123793074 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
123793114 CCGGATATAGCCACTAGCACAATTGCCATCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
123793154 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
123793194 CCGGATAT
1 CCGGATAT
123793202 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:123793184 original size:80 final size:80
Alignment explanation
Indices: 123793034--123793201 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
123793024 CGGAATATAA
* *
123793034 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCATCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
*
123793099 CCTTCGGGTCTTAGC
66 CCTTCGGGGCTTAGC
* * * ** *
123793114 CCGGATATAGCCAC-TAGCACAATTGCCATCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCATCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
123793176 TTGTCTTCGGGGCTTAGC
64 -TGCCTTCGGGGCTTAGC
123793194 CCGGATAT
1 CCGGATAT
123793202 CATTCAATTT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 4 0.05
80 71 0.95
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACCACGTGCACAAATGCCATCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGGCTTAGC
Found at i:123795848 original size:17 final size:18
Alignment explanation
Indices: 123795826--123795860 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
123795816 TAATTTGGGC
123795826 CATGTGGG-CCACACAGG
1 CATGTGGGTCCACACAGG
123795843 CATGTGGGTCCACACAGG
1 CATGTGGGTCCACACAGG
123795861 TAAGCCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.23, C:0.29, G:0.34, T:0.14
Consensus pattern (18 bp):
CATGTGGGTCCACACAGG
Found at i:123798503 original size:26 final size:25
Alignment explanation
Indices: 123798474--123798532 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 25
123798464 TTTTCCTTTC
123798474 TTTTTTTATCGTTTCTCTTTCGTTCAT
1 TTTTTTTATCGTTTCT-TTTC-TTCAT
* *
123798501 TTTTCTTTTTCTTTTCTTTTCTTCAT
1 TTTT-TTTATCGTTTCTTTTCTTCAT
123798527 TTTTTT
1 TTTTTT
123798533 CTTTTCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 2 0.07
26 9 0.31
27 8 0.28
28 10 0.34
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (25 bp):
TTTTTTTATCGTTTCTTTTCTTCAT
Found at i:123798515 original size:5 final size:5
Alignment explanation
Indices: 123798501--123798549 Score: 53
Period size: 5 Copynumber: 9.2 Consensus size: 5
123798491 TTTCGTTCAT
* *
123798501 TTTTC TTTTTC TTTTC TTTTC TTCATTT TTTTC TTTTC TTTTT TTTTC
1 TTTTC -TTTTC TTTTC TTTTC TT--TTC TTTTC TTTTC TTTTC TTTTC
123798549 T
1 T
123798550 CCTCTTTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
5 28 0.76
6 5 0.14
7 4 0.11
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:123798520 original size:17 final size:16
Alignment explanation
Indices: 123798501--123798547 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 16
123798491 TTTCGTTCAT
*
123798501 TTTTCTTTTTCTTTTC
1 TTTTCTTTTTTTTTTC
*
123798517 TTTTCTTCATTTTTTTC
1 TTTTCTT-TTTTTTTTC
123798534 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
123798548 CTCCTCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCTTTTTTTTTTC
Found at i:123798537 original size:27 final size:26
Alignment explanation
Indices: 123798485--123798549 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 26
123798475 TTTTTTATCG
123798485 TTTCTCTTTCGTTCATTTTTCTTTTTCT
1 TTTCT-TTTC-TTCATTTTTCTTTTTCT
*
123798513 TTTCTTTTCTTCATTTTTTTCTTTTCT
1 TTTCTTTTCTTCATTTTTCT-TTTTCT
*
123798540 TTTTTTTTCT
1 TTTCTTTTCT
123798550 CCTCTTTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 10 0.29
27 19 0.56
28 5 0.15
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (26 bp):
TTTCTTTTCTTCATTTTTCTTTTTCT
Found at i:123799582 original size:75 final size:75
Alignment explanation
Indices: 123799455--123799606 Score: 268
Period size: 75 Copynumber: 2.0 Consensus size: 75
123799445 CCGTATCACC
*
123799455 TAACTATGAATTGAATCTGAATAACTGTGCATATGCTCTTGACATCGGTAATCTACATTTGCATT
1 TAACTATGAATTGAATCTGAATAACTGTGCATATGCTCTTGACATCGATAATCTACATTTGCATT
123799520 AGATGGGAAT
66 AGATGGGAAT
* *
123799530 TAACTATGAATTGAATCTGAATAACTGTGTATATGCTCTTGACTTCGATAATCTACATTTGCATT
1 TAACTATGAATTGAATCTGAATAACTGTGCATATGCTCTTGACATCGATAATCTACATTTGCATT
*
123799595 GGATGGGAAT
66 AGATGGGAAT
123799605 TA
1 TA
123799607 TGTAAAGGGT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (75 bp):
TAACTATGAATTGAATCTGAATAACTGTGCATATGCTCTTGACATCGATAATCTACATTTGCATT
AGATGGGAAT
Found at i:123805041 original size:12 final size:12
Alignment explanation
Indices: 123805024--123805048 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
123805014 TTTAAGTCAA
123805024 GTAAATTTCGAG
1 GTAAATTTCGAG
123805036 GTAAATTTCGAG
1 GTAAATTTCGAG
123805048 G
1 G
123805049 CCGAAATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (12 bp):
GTAAATTTCGAG
Found at i:123806855 original size:92 final size:92
Alignment explanation
Indices: 123806698--123806876 Score: 349
Period size: 92 Copynumber: 1.9 Consensus size: 92
123806688 TGTCGGACCA
*
123806698 ACACTATATGGTGTGTAGGGCTGGATGGGTATTAAATGCCCTTAATGATATGTTGGAATGGTCAG
1 ACACTATATGGTGTGTAGGGCTGGATGGGTATTAAATGCCCTTAATGATATGTTGGAATAGTCAG
123806763 AGAAGGTGTGTAGTGGATGGGGAACCG
66 AGAAGGTGTGTAGTGGATGGGGAACCG
123806790 ACACTATATGGTGTGTAGGGCTGGATGGGTATTAAATGCCCTTAATGATATGTTGGAATAGTCAG
1 ACACTATATGGTGTGTAGGGCTGGATGGGTATTAAATGCCCTTAATGATATGTTGGAATAGTCAG
123806855 AGAAGGTGTGTAGTGGATGGGG
66 AGAAGGTGTGTAGTGGATGGGG
123806877 GTGGGCAGGA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 86 1.00
ACGTcount: A:0.26, C:0.09, G:0.36, T:0.29
Consensus pattern (92 bp):
ACACTATATGGTGTGTAGGGCTGGATGGGTATTAAATGCCCTTAATGATATGTTGGAATAGTCAG
AGAAGGTGTGTAGTGGATGGGGAACCG
Found at i:123820069 original size:39 final size:39
Alignment explanation
Indices: 123820022--123820206 Score: 307
Period size: 39 Copynumber: 4.7 Consensus size: 39
123820012 TTCCAACACA
* *
123820022 AATGCCTTCGGGACTTAGCCCGAATATAACACCAACACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
123820061 AATACCTTCGGGACTTAGCCCGGATATAACACCAGCATG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
123820100 AATACCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
123820139 AATGCCTTTGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
123820178 AATGCCTTCGGGACTTAGCCCAGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
123820207 ATCTCACACA
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 137 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.20
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:123824746 original size:18 final size:19
Alignment explanation
Indices: 123824723--123824774 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
123824713 AGCCCGAATA
*
123824723 TATTATGTT-ATTAAAATT
1 TATTATATTAATTAAAATT
123824741 TATTATATTAATTAAAATT
1 TATTATATTAATTAAAATT
123824760 TA-TAT-TTATATTAAA
1 TATTATATTA-ATTAAA
123824775 TTACTAACCC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 3 0.10
18 17 0.55
19 11 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TATTATATTAATTAAAATT
Found at i:123826741 original size:21 final size:21
Alignment explanation
Indices: 123826681--123826742 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
123826671 TTTTATTTTT
123826681 ATATAATATGTAATTTATATAA-A
1 ATATAA-ATGTAA--TATATAATA
123826704 AT-TAAAT-TAAATATATAATA
1 ATATAAATGT-AATATATAATA
*
123826724 ATATAAATGTAATGTATAA
1 ATATAAATGTAATATATAA
123826743 AAGATATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
19 7 0.21
20 4 0.12
21 17 0.50
22 4 0.12
23 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
ATATAAATGTAATATATAATA
Found at i:123828808 original size:44 final size:44
Alignment explanation
Indices: 123828759--123828851 Score: 186
Period size: 44 Copynumber: 2.1 Consensus size: 44
123828749 TATCCTAACC
123828759 TTTACTAAGTTCATAGGGGCCCCTTTTTCAATTATAATCAACAT
1 TTTACTAAGTTCATAGGGGCCCCTTTTTCAATTATAATCAACAT
123828803 TTTACTAAGTTCATAGGGGCCCCTTTTTCAATTATAATCAACAT
1 TTTACTAAGTTCATAGGGGCCCCTTTTTCAATTATAATCAACAT
123828847 TTTAC
1 TTTAC
123828852 AATTTTGTCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (44 bp):
TTTACTAAGTTCATAGGGGCCCCTTTTTCAATTATAATCAACAT
Found at i:123831761 original size:3 final size:3
Alignment explanation
Indices: 123831753--123831789 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
123831743 ATAATTCTTT
123831753 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
123831790 ACACCCTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:123836387 original size:16 final size:16
Alignment explanation
Indices: 123836360--123836398 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
123836350 TTCATACTAA
123836360 TTTTAA-ATTTTAAAT
1 TTTTAATATTTTAAAT
**
123836375 TTTTAATATTTTATTT
1 TTTTAATATTTTAAAT
123836391 TTTTAATA
1 TTTTAATA
123836399 AAATAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTAATATTTTAAAT
Found at i:123836525 original size:17 final size:18
Alignment explanation
Indices: 123836503--123836540 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
123836493 ACTCTTATAT
*
123836503 AATATTTTTT-TATGAAA
1 AATATTTTTTATATAAAA
123836520 AATATTTTTTATATAAAA
1 AATATTTTTTATATAAAA
123836538 AAT
1 AAT
123836541 TTAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
AATATTTTTTATATAAAA
Found at i:123836537 original size:16 final size:16
Alignment explanation
Indices: 123836497--123836542 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
123836487 CCAATAACTC
*
123836497 TTATATAATAT-TTTT
1 TTATATAAAATATTTT
123836512 TTATGA-AAAATATTTT
1 TTAT-ATAAAATATTTT
*
123836528 TTATATAAAAAATTT
1 TTATATAAAATATTT
123836543 AAATTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TTATATAAAATATTTT
Found at i:123838330 original size:20 final size:21
Alignment explanation
Indices: 123838305--123838344 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
123838295 TGTGTCTTTA
*
123838305 TTTAAA-TTTATTAAAATATG
1 TTTAAAGTTAATTAAAATATG
*
123838325 TTTAAAGTTAATTAATATAT
1 TTTAAAGTTAATTAAAATAT
123838345 TACTTATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTAAAGTTAATTAAAATATG
Found at i:123840075 original size:6 final size:6
Alignment explanation
Indices: 123840035--123840075 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
123840025 GCTAATGAAG
* * *
123840035 AAAAAT TAAAAT TAAAAT TAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
123840076 ACATGGCATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:123840075 original size:12 final size:12
Alignment explanation
Indices: 123840035--123840075 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
123840025 GCTAATGAAG
123840035 AAAAATTAAAAT
1 AAAAATTAAAAT
*
123840047 TAAAATTAAAAT
1 AAAAATTAAAAT
*
123840059 AAAAATAAAAAT
1 AAAAATTAAAAT
123840071 AAAAA
1 AAAAA
123840076 ACATGGCATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAAATTAAAAT
Found at i:123845412 original size:29 final size:29
Alignment explanation
Indices: 123845356--123845412 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
123845346 GTTGGTGTCA
* * *
123845356 CCTTTAATCGAGATATCAACTTAGTTATG
1 CCTTTAATCGAGATACCAACTCAATTATG
* *
123845385 CCTTTATTTGAGATACCAACTCAATTAT
1 CCTTTAATCGAGATACCAACTCAATTAT
123845413 AAAACTATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (29 bp):
CCTTTAATCGAGATACCAACTCAATTATG
Found at i:123845546 original size:31 final size:31
Alignment explanation
Indices: 123845511--123845569 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
123845501 TTTTGGTCAC
123845511 TGAACTATTCGAAAGT-TTTCATTTAAGTTAT
1 TGAACTATTC-AAAGTCTTTCATTTAAGTTAT
* *
123845542 TGAACTATTCAAATTCTTTTATTTAAGT
1 TGAACTATTCAAAGTCTTTCATTTAAGT
123845570 CACTATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.47
Consensus pattern (31 bp):
TGAACTATTCAAAGTCTTTCATTTAAGTTAT
Found at i:123859215 original size:43 final size:43
Alignment explanation
Indices: 123859081--123859215 Score: 141
Period size: 42 Copynumber: 3.1 Consensus size: 43
123859071 TGTGTTTTCG
* * * * *
123859081 TGTAAGACCACGTTTGGGA-TGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGA-TATTTGA-TTACA
* * *
123859125 TGTAAGACCATGTCTGGGACATTGGCATC-ATATTTCATTTCA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTACA
*
123859167 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTACA
123859210 TGTAAG
1 TGTAAG
123859216 TCCACGTATG
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 31 0.41
43 21 0.28
44 24 0.32
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTACA
Found at i:123859236 original size:43 final size:43
Alignment explanation
Indices: 123859081--123859237 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
123859071 TGTGTTTTCG
* * *
123859081 TGTAAGACCACGTTTGGGATGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGATGTTGGCATCGA-TATTTGA-TTACA
* ** * *
123859125 TGTAAGACCATGTCTGGGACATTGGCATC-ATATTTCATTTCA
1 TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTACA
*
123859167 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGA-TGTTGGCATCGATATTTGATTACA
* *
123859210 TGTAAGTCCACGTATGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGATGTTGGCAT
123859238 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 29 0.32
43 36 0.40
44 26 0.29
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTACA
Found at i:123862645 original size:14 final size:14
Alignment explanation
Indices: 123862622--123862653 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
123862612 GCCATGTCAA
123862622 TTTA-AGTTTAGGG
1 TTTAGAGTTTAGGG
123862635 TTTAGAGTTTAGGG
1 TTTAGAGTTTAGGG
123862649 TTTAG
1 TTTAG
123862654 GATAGCCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (14 bp):
TTTAGAGTTTAGGG
Found at i:123873316 original size:31 final size:31
Alignment explanation
Indices: 123873281--123873342 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
123873271 AACTATGGGT
* *
123873281 AAGTTTTCGTTTTGGTCA-CTGAACTATTAAA
1 AAGTTTTCATTTTAGTCATC-GAACTATTAAA
*
123873312 AAGTTTTCATTTTAGTCATCGGACTATTAAA
1 AAGTTTTCATTTTAGTCATCGAACTATTAAA
123873343 GTTAATACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (31 bp):
AAGTTTTCATTTTAGTCATCGAACTATTAAA
Found at i:123873672 original size:30 final size:31
Alignment explanation
Indices: 123873627--123873692 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 31
123873617 TTAGTAGTCT
*
123873627 AGTGACTTAAATGAAAACTTTTGAATGGTTC
1 AGTGACTTAAATGAAAACTTTTGAATAGTTC
123873658 AGTGACTT-AATGAAAACTTTTGAATAGTTC
1 AGTGACTTAAATGAAAACTTTTGAATAGTTC
123873688 AGTGA
1 AGTGA
123873693 TCAAATTGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 26 0.76
31 8 0.24
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (31 bp):
AGTGACTTAAATGAAAACTTTTGAATAGTTC
Found at i:123878030 original size:40 final size:40
Alignment explanation
Indices: 123877942--123878018 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
123877932 ACACTATGTG
*
123877942 GGGATAAAATCGACCCATCCGGCCCTACACACCAAGTATA
1 GGGATAAAATCGACCCATCCAGCCCTACACACCAAGTATA
123877982 GGGATAAAATCGACCCATCCAGCCCTACACACCAAGT
1 GGGATAAAATCGACCCATCCAGCCCTACACACCAAGT
123878019 GGTATTGTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.34, G:0.17, T:0.14
Consensus pattern (40 bp):
GGGATAAAATCGACCCATCCAGCCCTACACACCAAGTATA
Found at i:123880078 original size:17 final size:16
Alignment explanation
Indices: 123880043--123880078 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
123880033 CTCCCACTTG
*
123880043 CCCACTTGCGCCGAAC
1 CCCACTTGCGCCCAAC
123880059 CCCACTTGCGCACCAAC
1 CCCACTTGCGC-CCAAC
123880076 CCC
1 CCC
123880079 CTACCATCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.19, C:0.56, G:0.14, T:0.11
Consensus pattern (16 bp):
CCCACTTGCGCCCAAC
Found at i:123881341 original size:2 final size:2
Alignment explanation
Indices: 123881334--123881361 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
123881324 TAGTTTCAAC
123881334 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
123881362 TATGTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123881806 original size:35 final size:31
Alignment explanation
Indices: 123881741--123881834 Score: 89
Period size: 35 Copynumber: 2.8 Consensus size: 31
123881731 CTAGATTTTA
* *
123881741 TATTCTTATATGTATATTATTACATTTATTT
1 TATTCTTATATATATATTATTACATGTATTT
123881772 TATTCTTATCATATATATTATCAATACATGTATTT
1 TATTCTTAT-ATATATATTAT---TACATGTATTT
*
123881807 TATTATATGTATATATATATTATGTACA
1 TA-T-TCT-TATATATATATTAT-TACA
123881835 CATATTAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
31 9 0.17
32 10 0.19
35 16 0.31
36 1 0.02
37 13 0.25
38 3 0.06
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.54
Consensus pattern (31 bp):
TATTCTTATATATATATTATTACATGTATTT
Found at i:123890389 original size:83 final size:83
Alignment explanation
Indices: 123890236--123890435 Score: 267
Period size: 83 Copynumber: 2.4 Consensus size: 83
123890226 ATATGTTATG
** * *
123890236 CACTCACAACAAGTGGCAGTAACTATAAATATGTGGCTTATCCAAAAACCCAGTGGCGGTTTGTT
1 CACTCACAACAAGTGGCAGTAACT-GCAA-ATGTGGCTTATCCAAAAACCCAGTGACAGTTTGTT
123890301 TAATTTGCAACCATGTTGTA
64 TAATTTGCAACCATGTTGTA
* *
123890321 CACTTACAACAAGTGGCAGTAACTGCAAATGTGGCTTGT-CAACAAACCCAGTGACAGTTTGTTT
1 CACTCACAACAAGTGGCAGTAACTGCAAATGTGGCTTATCCAA-AAACCCAGTGACAGTTTGTTT
* *
123890385 AATTTGCAACTATGTTGTG
65 AATTTGCAACCATGTTGTA
* * *
123890404 CACTCACAACCAGTGGCAATAACAGCAAATGT
1 CACTCACAACAAGTGGCAGTAACTGCAAATGT
123890436 TTTTATCTAA
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
82 3 0.03
83 74 0.73
84 2 0.02
85 23 0.23
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (83 bp):
CACTCACAACAAGTGGCAGTAACTGCAAATGTGGCTTATCCAAAAACCCAGTGACAGTTTGTTTA
ATTTGCAACCATGTTGTA
Found at i:123893395 original size:23 final size:21
Alignment explanation
Indices: 123893360--123893419 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
123893350 CCTATTACTG
123893360 TTATAT-CTATTTTATACATGTA
1 TTATATACT-TTTTATACA-GTA
*
123893382 TATATATACTTTTTATATAGTA
1 T-TATATACTTTTTATACAGTA
123893404 TTAT-TATCTTTTTATA
1 TTATATA-CTTTTTATA
123893420 TATTATGGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 2 0.06
21 12 0.35
22 5 0.15
23 13 0.38
24 2 0.06
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (21 bp):
TTATATACTTTTTATACAGTA
Found at i:123893416 original size:21 final size:22
Alignment explanation
Indices: 123893361--123893422 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 22
123893351 CTATTACTGT
*
123893361 TATATCTATTTTATACATGTATA
1 TATATCT-TTTTATATATGTATA
123893384 TATATACTTTTTATATA-GTAT-
1 TATAT-CTTTTTATATATGTATA
123893405 TATTATCTTTTTATATAT
1 TA-TATCTTTTTATATAT
123893423 TATGGTGCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
21 13 0.37
22 7 0.20
23 13 0.37
24 2 0.06
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (22 bp):
TATATCTTTTTATATATGTATA
Found at i:123894047 original size:14 final size:15
Alignment explanation
Indices: 123894028--123894056 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
123894018 TTCATTATCA
123894028 TTGCCAT-TTTTATT
1 TTGCCATGTTTTATT
123894042 TTGCCATGTTTTATT
1 TTGCCATGTTTTATT
123894057 CACTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.62
Consensus pattern (15 bp):
TTGCCATGTTTTATT
Found at i:123904606 original size:41 final size:41
Alignment explanation
Indices: 123904561--123904678 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
123904551 TGAAAGATAA
123904561 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
123904602 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
123904632 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
123904673 ATGTAG
1 ATGTAG
123904679 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:123904617 original size:71 final size:71
Alignment explanation
Indices: 123904529--123904692 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
123904519 GAGATGTATC
123904529 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
123904594 AGGACA
66 AGGACA
123904600 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
123904665 AGGACA
66 AGGACA
123904671 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
123904693 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:123912103 original size:41 final size:41
Alignment explanation
Indices: 123912058--123912175 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
123912048 TGAAAGATAA
123912058 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
123912099 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
123912129 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
123912170 ATGTAG
1 ATGTAG
123912176 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:123912114 original size:71 final size:71
Alignment explanation
Indices: 123912026--123912189 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
123912016 GAGATGTATC
123912026 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
123912091 AGGACA
66 AGGACA
123912097 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
123912162 AGGACA
66 AGGACA
123912168 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
123912190 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:123915377 original size:127 final size:125
Alignment explanation
Indices: 123915094--123915652 Score: 530
Period size: 127 Copynumber: 4.4 Consensus size: 125
123915084 AACGGTAAAC
* ** ** * * * * * *
123915094 CGAAACCCAGCACGATTGGGCACGATTTATCGAATTTCCAAATACGAAACATTGCCACATTTTAA
1 CGAAACCCAACACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATATTGCCTCATTTTAT
* * * * ***
123915159 ATTGAGAAAACATGGATGAAATTTCAAAAGGATATTATGTATTTTAGTCGAATGAAAAAT
66 TTTAAGAAAGCGTGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAAAAAT
* * * * *
123915219 CGAAACCCAGCACAATTGGGCATGACCTCCCAAACTTCCAAGCACGAAATATTACCTCATTTTAT
1 CGAAACCCAACACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATATTGCCTCATTTTAT
*
123915284 TTTAAGAAAGCGTGGATGAAATTTCAAAAAAGGATATTCCATATTTTAGTCGAATGGAAAAT
66 TTTAAGAAAGCGTGGATGAAATTTC--AAAAGGATATTCCATATTTTAGTCGAATGAAAAAT
* * * * *
123915346 TGAAGCCCAACATGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCGTTTTAT
1 CGAAACCCAACACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATATTGCCTCATTTTAT
** * * *
123915411 TTTAAGAAAATGCGGATG-AATTTAAAAAAAAAGGATATTCCATA-TTTAGTCGAATGAACAAAA
66 TTTAAGAAAGCGTGGATGAAATTT----CAAAAGGATATTCCATATTTTAGTCGAATGAA-AAAT
* * * * *
123915474 CGAAACCCAACACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTGCCTCCTTTTA
1 CGAAACCCAACACGATTGGGCACGACCTCCCAAACT-TCCAAACACGAAATATTGCCTCATTTT-
* * * ** * *
123915539 ATTTTTTAA-AAAGCATGGACGAAATTTCCAAAGGATATTCTGTATTTTAGCCGAATGGAAAAT
64 A--TTTTAAGAAAGCGTGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAAAAAT
* * * * * *
123915602 TGAAGCCCAGCACGAGTGGGCACGGCCTCCCAAACTTCCCAACACGAAATA
1 CGAAACCCAACACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATA
123915653 CTGCATTATG
Statistics
Matches: 352, Mismatches: 69, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
125 72 0.20
126 5 0.01
127 126 0.36
128 94 0.27
129 36 0.10
130 1 0.00
131 7 0.02
132 11 0.03
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (125 bp):
CGAAACCCAACACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATATTGCCTCATTTTAT
TTTAAGAAAGCGTGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAAAAAT
Found at i:123925815 original size:81 final size:81
Alignment explanation
Indices: 123925680--123925846 Score: 291
Period size: 81 Copynumber: 2.1 Consensus size: 81
123925670 TTTTATTTAA
*
123925680 TTAAAAACCTATTTTCATCCCAGCATCTGGATATCCAAGTTGGCATTTAAAACTCATTTGGACGG
1 TTAAAAACCTATTTTCATCCCAGCATCTGGATATCCAAGTTAGCATTTAAAACTCATTTGGACGG
*
123925745 CCACGTA-GAGCCGCTG
66 CCACGTAGGA-CCGATG
*
123925761 TTAAAAACCTATTTTCATCCCAGCATCTGGATATCCAAGTTAGCATTTAAAACTCATTTGGACTG
1 TTAAAAACCTATTTTCATCCCAGCATCTGGATATCCAAGTTAGCATTTAAAACTCATTTGGACGG
123925826 CCACGTAGGACCGATG
66 CCACGTAGGACCGATG
123925842 TTAAA
1 TTAAA
123925847 GAGATAACGG
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
81 80 0.98
82 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (81 bp):
TTAAAAACCTATTTTCATCCCAGCATCTGGATATCCAAGTTAGCATTTAAAACTCATTTGGACGG
CCACGTAGGACCGATG
Found at i:123929162 original size:41 final size:40
Alignment explanation
Indices: 123929117--123929207 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 40
123929107 TATTGGCACA
* * *
123929117 AAGCCTTCTAGGTATC-CAGCTTGATAAAATACACCCACACG
1 AAGCCTGCTAGGT-TCTAAGCTCGAT-AAATACACCCACACG
* *
123929158 AAGCCTGCTAGGTTCTAAGCTCGATAAATACACCGACACT
1 AAGCCTGCTAGGTTCTAAGCTCGATAAATACACCCACACG
*
123929198 AAGCTTGCTA
1 AAGCCTGCTA
123929208 AACACTATGC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
40 24 0.56
41 19 0.44
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (40 bp):
AAGCCTGCTAGGTTCTAAGCTCGATAAATACACCCACACG
Found at i:123930933 original size:17 final size:17
Alignment explanation
Indices: 123930911--123930949 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
123930901 ATTCACAATC
*
123930911 AATTTT-CATTTTATATA
1 AATTTTGCAATTTAT-TA
123930928 AATTTTGCAATTTATTA
1 AATTTTGCAATTTATTA
123930945 AATTT
1 AATTT
123930950 AGTCCCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (17 bp):
AATTTTGCAATTTATTA
Found at i:123932173 original size:12 final size:13
Alignment explanation
Indices: 123932146--123932174 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
123932136 ATCAAGTCTA
123932146 GTATTGATCGATC
1 GTATTGATCGATC
123932159 GTATTGATC-ATC
1 GTATTGATCGATC
123932171 GTAT
1 GTAT
123932175 CGTTGCTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (13 bp):
GTATTGATCGATC
Found at i:123932839 original size:17 final size:18
Alignment explanation
Indices: 123932819--123932852 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
123932809 AAGTGAATTG
123932819 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
123932836 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
123932853 ATGAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:123933588 original size:10 final size:10
Alignment explanation
Indices: 123933569--123933618 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
123933559 TGAAATTCTA
123933569 AAAGATAAAT
1 AAAGATAAAT
123933579 ACAA-ATAAAT
1 A-AAGATAAAT
*
123933589 AAAGATAATT
1 AAAGATAAAT
123933599 AAAGATAAAT
1 AAAGATAAAT
123933609 GAAA-ATAAAT
1 -AAAGATAAAT
123933619 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:123937448 original size:21 final size:21
Alignment explanation
Indices: 123937410--123937451 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
123937400 CTGAAAAATA
123937410 AAAAAATAAAATTAAGAATTTG
1 AAAAAATAAAA-TAAGAATTTG
123937432 AAAAAATAAAA-ACAGAATTT
1 AAAAAATAAAATA-AGAATTT
123937452 AAAGTGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.05
21 7 0.37
22 11 0.58
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (21 bp):
AAAAAATAAAATAAGAATTTG
Found at i:123938244 original size:10 final size:10
Alignment explanation
Indices: 123938213--123938271 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
123938203 TAAAATTCTA
123938213 AAAGATAAAT
1 AAAGATAAAT
123938223 ACAA-AT-AAT
1 A-AAGATAAAT
*
123938232 AAAGATAATT
1 AAAGATAAAT
123938242 AAAGATAAAT
1 AAAGATAAAT
123938252 AAAGATAAAT
1 AAAGATAAAT
123938262 GAAA-ATAAAT
1 -AAAGATAAAT
123938272 CCTAAAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 2 0.05
9 6 0.14
10 30 0.70
11 5 0.12
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:123938906 original size:10 final size:10
Alignment explanation
Indices: 123938891--123938916 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
123938881 TTAATATGTC
123938891 TTTTTTTTCT
1 TTTTTTTTCT
123938901 TTTTTTTTCT
1 TTTTTTTTCT
123938911 TTTTTT
1 TTTTTT
123938917 AAATAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:123939109 original size:95 final size:95
Alignment explanation
Indices: 123938939--123939125 Score: 284
Period size: 95 Copynumber: 2.0 Consensus size: 95
123938929 AATTTTATTT
* *
123938939 ATTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCC
1 ATTTATTTTTACTTAAGAATATATTAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCC
* *
123939004 ACCCCGGTTACTCAGCCCAACATATTCCTA
66 ACCCCAGTTACTCAGCCCAACACATTCCTA
* * * **
123939034 ATTTTTTTTTTCTTAAGAATATATTAAACCTTTTGACGTGAAGAGAGATGACAGCCAAGCACTTC
1 ATTTATTTTTACTTAAGAATATATTAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCC
*
123939099 ACCCCAGTTACTTAGCCCAACACATTC
66 ACCCCAGTTACTCAGCCCAACACATTC
123939126 TTAAAAATTA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (95 bp):
ATTTATTTTTACTTAAGAATATATTAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCC
ACCCCAGTTACTCAGCCCAACACATTCCTA
Found at i:123946154 original size:17 final size:18
Alignment explanation
Indices: 123946134--123946167 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
123946124 AAGTGAATTG
123946134 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
123946151 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
123946168 ATGAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:123946900 original size:10 final size:10
Alignment explanation
Indices: 123946881--123946940 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
123946871 TAAAATTCTA
123946881 AAAGATAAAT
1 AAAGATAAAT
123946891 ACAA-ATAAAT
1 A-AAGATAAAT
*
123946901 AAAGATAATT
1 AAAGATAAAT
123946911 AAAGATAAAT
1 AAAGATAAAT
123946921 AAAGATAAAT
1 AAAGATAAAT
123946931 GAAA-ATAAAT
1 -AAAGATAAAT
123946941 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:123947509 original size:22 final size:21
Alignment explanation
Indices: 123947484--123947524 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
123947474 TTAATTATTC
123947484 TTTTAAAATTTTAAAAAAATAT
1 TTTTAAAA-TTTAAAAAAATAT
**
123947506 TTTTTTAATTTAAAAAAAT
1 TTTTAAAATTTAAAAAAAT
123947525 TAATTGTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTAAAATTTAAAAAAATAT
Found at i:123949834 original size:16 final size:16
Alignment explanation
Indices: 123949793--123949835 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
123949783 AACTAATCAC
*
123949793 ACACACACACACACTT
1 ACACACACATACACTT
123949809 ACACACACATACACTT
1 ACACACACATACACTT
123949825 ACACACACATA
1 ACACACACATA
123949836 TATATGACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.14
Consensus pattern (16 bp):
ACACACACATACACTT
Found at i:123957005 original size:3 final size:3
Alignment explanation
Indices: 123956997--123957025 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
123956987 ATACCTTTAA
123956997 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
123957026 AAACTTACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Done.