Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 69 of 235
Found at i:23674465 original size:54 final size:53
Alignment explanation
Indices: 23674407--23674716 Score: 168
Period size: 54 Copynumber: 5.7 Consensus size: 53
23674397 ATTACTGTTT
*
23674407 TACCCTCGATTTACAAAATTAGTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTT-CAAAATTACCAAAA
* * * * * *
23674461 TACCCTCGA-TCAGTAAAATTACCAAAATACAC-TGGTCTGT-AAAATTGCTAAAA
1 TACCCTCGATTTA-CAAAATTACTAAAATACCCTTGGT-T-TCAAAATTACCAAAA
* ** * * * * *
23674514 TACCC-CTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAGTTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAATACCCTTGGTTT-CAAAATTACCAAAA
* *** * **
23674568 TACCACT-GGTTTGTGAAATTA-TCGAAATACCCTTAATTTCTAAAATTACCAAAA
1 TACC-CTCGATTTACAAAATTACT-AAAATACCCTTGGTTTC-AAAATTACCAAAA
* * **
23674622 TACCC-CTAATTTACAAAATTA-TAGAAATACCCTTGACTTTCTAAAAATTATAAAAA
1 TACCCTC-GATTTACAAAATTACTA-AAATACCCTTG-GTTTC--AAAATTACCAAAA
* * * *
23674678 TACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTT
23674717 GTAGATTTAC
Statistics
Matches: 196, Mismatches: 41, Indels: 37
0.72 0.15 0.14
Matches are distributed among these distances:
52 3 0.02
53 42 0.21
54 103 0.53
55 9 0.05
56 38 0.19
57 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (53 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTCAAAATTACCAAAA
Found at i:23674532 original size:80 final size:80
Alignment explanation
Indices: 23674421--23674627 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
23674411 CTCGATTTAC
* *
23674421 AAAATTAGTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATT-GTAAAATACCCTTAGTTTATAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
23674485 AAATA-CACTGGTCTGT
64 AAATACCACTGGTCTGT
* * * ** *
23674501 AAAATTGCTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAGTTACCAA
1 AAAATTG-TAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
*
23674566 AATACCACTGGTTTGT
65 AATACCACTGGTCTGT
* * * * *
23674582 GAAATTATCGAAATACCCTTAATTTCTAAAATTACCAAAATACCCC
1 AAAATTGT-AAAATACCCTTAGTTTATAAAATTACCAAAATACCCC
23674628 TAATTTACAA
Statistics
Matches: 108, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
79 3 0.03
80 57 0.53
81 48 0.44
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTGTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAAA
ATACCACTGGTCTGT
Found at i:23674622 original size:81 final size:81
Alignment explanation
Indices: 23674421--23674629 Score: 239
Period size: 81 Copynumber: 2.6 Consensus size: 81
23674411 CTCGATTTAC
* *
23674421 AAAATTAG-TAAAATACCCTTGGTTTAC-AAAATTACCAAAATA-CCCTCGATCAGTAAAATTAC
1 AAAATT-GCTAAAATACCCTTAGTTT-CTAAAATTACCAAAATACCCCTAGATCAGTAAAATTAC
23674483 CAAAATACACTGGTCTGT
64 CAAAATACACTGGTCTGT
* * ** *
23674501 AAAATTGCTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAGTTACCA
1 AAAATTGCTAAAATACCCTTAGTTTCTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
*
23674565 AAATACCACTGGTTTGT
66 AAATA-CACTGGTCTGT
* * * *
23674582 GAAATT-ATCGAAATACCCTTAATTTCTAAAATTACCAAAATACCCCTA
1 AAAATTGCT-AAAATACCCTTAGTTTCTAAAATTACCAAAATACCCCTA
23674630 ATTTACAAAA
Statistics
Matches: 110, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
79 1 0.01
80 54 0.49
81 55 0.50
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTGCTAAAATACCCTTAGTTTCTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
AAATACACTGGTCTGT
Found at i:23674713 original size:27 final size:27
Alignment explanation
Indices: 23674380--23674716 Score: 141
Period size: 27 Copynumber: 12.4 Consensus size: 27
23674370 ATTACTACTT
* * ****
23674380 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGGTTTACAAAATTACTAAAA
* * *
23674407 TACCCTCGATTTACAAAATTAGTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*
23674434 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * * * *
23674461 TACCC-TCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-CAAAATTACTAAAA
* * ** *
23674488 TACAC-TGGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * ** *
23674514 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * ** * *
23674541 TACCCCTAGTTTGTAAAGTTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*** *
23674568 TACCAC-TGGTTTGTGAAATTA-TCGAAA
1 TACC-CTTGGTTTACAAAATTACT-AAAA
** *
23674595 TACCCTTAATTT-CTAAAATTACCAAAA
1 TACCCTTGGTTTAC-AAAATTACTAAAA
* **
23674622 TACCCCTAATTTACAAAATTA-TAGAAA
1 TACCCTTGGTTTACAAAATTACTA-AAA
*
23674649 TACCCTTGACTTT-CTAAAAATTA-TAAAAA
1 TACCCTTG-GTTTAC--AAAATTACT-AAAA
* *
23674678 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
23674705 TACCCTTGGTTT
1 TACCCTTGGTTT
23674717 GTAGATTTAC
Statistics
Matches: 246, Mismatches: 49, Indels: 30
0.76 0.15 0.09
Matches are distributed among these distances:
26 22 0.09
27 195 0.79
28 9 0.04
29 19 0.08
30 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTAAAA
Found at i:23675683 original size:52 final size:50
Alignment explanation
Indices: 23675606--23675729 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 50
23675596 GGAGGAAGCG
23675606 CAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTAC
1 CAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTAC
23675657 CAAAATGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAA-GGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTAC
23675708 CGAAAAGGGCTT-TGCCCCAGTT
1 C-AAAAGGGCTTATGCCCCAGTT
23675730 ATTAAAGAGG
Statistics
Matches: 71, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
50 10 0.14
51 25 0.35
52 36 0.51
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (50 bp):
CAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTAC
Found at i:23675704 original size:25 final size:26
Alignment explanation
Indices: 23675607--23675729 Score: 180
Period size: 26 Copynumber: 4.8 Consensus size: 26
23675597 GAGGAAGCGC
*
23675607 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
23675633 AAAAGGGCTTATGCCCCAGTTTA-CC
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
23675658 AAAATGGGCTTATGCCCCAGTTTATTG
1 AAAA-GGGCTTATGCCCCAGTTTATCG
*
23675685 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
23675710 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
23675730 ATTAAAGAGG
Statistics
Matches: 89, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
25 37 0.42
26 48 0.54
27 4 0.04
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:23675985 original size:31 final size:31
Alignment explanation
Indices: 23675947--23676051 Score: 192
Period size: 31 Copynumber: 3.4 Consensus size: 31
23675937 GTTTACAATA
*
23675947 AAGGCTTCGGCCCAGAGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
23675978 AAGGCTTCGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
*
23676009 AAGGCTTCGGCCCAGTGATATGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
23676040 AAGGCTTCGGCC
1 AAGGCTTCGGCC
23676052 TAGTAACCGT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGATTTATGAT
Found at i:23678563 original size:39 final size:39
Alignment explanation
Indices: 23678509--23678659 Score: 248
Period size: 39 Copynumber: 3.9 Consensus size: 39
23678499 AGTGATGAAG
* *
23678509 TATATCCGGACTTAAGGTCTGCAGGATATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
23678548 TATATCCGGACTTAAGGTCCGCAAGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
23678587 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTAGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
23678626 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCT
23678660 AAAATATGTC
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 105 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:23686775 original size:39 final size:39
Alignment explanation
Indices: 23686721--23686846 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
23686711 AGTGATGAAG
*
23686721 TATATCCGGACTTAAGGTCCGTAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
23686760 TATATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * *
23686799 TATAACCGGACTTAAGGTCCACAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
23686838 TATGTCCGG
1 TATATCCGG
23686847 GTTAAAGTCC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:23686860 original size:39 final size:39
Alignment explanation
Indices: 23686721--23686864 Score: 128
Period size: 39 Copynumber: 3.7 Consensus size: 39
23686711 AGTGATGAAG
* * ** * *
23686721 TATATCCGGACTTAAGGTCCGTAGGCTATGTGCTGGAAT
1 TATAACCGGACTTAAAGTCCACAGGCTACGTGCTGGAAA
* * * * * *
23686760 TATATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATAACCGGACTTAAAGTCCACAGGCTACGTGCTGGAAA
*
23686799 TATAACCGGACTTAAGGTCCACAGGCTACGTGCTGGAAA
1 TATAACCGGACTTAAAGTCCACAGGCTACGTGCTGGAAA
** *
23686838 TATGTCCGG-GTTAAAGTCCCACAGGCT
1 TATAACCGGACTTAAAGT-CCACAGGCT
23686865 TCGAGCTAGT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 6 0.06
39 87 0.94
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TATAACCGGACTTAAAGTCCACAGGCTACGTGCTGGAAA
Found at i:23686863 original size:78 final size:78
Alignment explanation
Indices: 23686721--23686864 Score: 182
Period size: 78 Copynumber: 1.8 Consensus size: 78
23686711 AGTGATGAAG
* ** * * * * *
23686721 TATATCCGGACTTAAGGTCCGTAGGCTATGTGCTGGAATTATATCTGGACTTAAGGTCCGCAGGC
1 TATAACCGGACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCACAGGC
23686786 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* *
23686799 TATAACCGGACTTAAGGTCCACAGGCTACGTGCTGGAAATATGTCCGG-GTTAAAGTCCCACAGG
1 TATAACCGGACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCACAGG
23686863 CT
65 CT
23686865 TCGAGCTAGT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
77 6 0.11
78 49 0.89
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (78 bp):
TATAACCGGACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCACAGGC
TATGTGCTGGAAT
Found at i:23692584 original size:24 final size:27
Alignment explanation
Indices: 23692552--23692612 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
23692542 TATTAGAAAA
*
23692552 ATTATATT-AATTTAAT-TT-TTTAAT
1 ATTAAATTAAATTTAATATTATTTAAT
23692576 ATTAAATTAAATTTAATACTTAATTTAAT
1 ATTAAATTAAATTTAATA-TT-ATTTAAT
23692605 ATTAAATT
1 ATTAAATT
23692613 GACTATCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 7 0.23
25 8 0.26
27 2 0.06
29 14 0.45
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
ATTAAATTAAATTTAATATTATTTAAT
Found at i:23692602 original size:12 final size:11
Alignment explanation
Indices: 23692555--23692644 Score: 65
Period size: 12 Copynumber: 7.5 Consensus size: 11
23692545 TAGAAAAATT
23692555 ATATTAATTTA
1 ATATTAATTTA
*
23692566 ATTTTTTAATATTA
1 A--TATTAAT-TTA
23692580 A-ATTAAATTTA
1 ATATT-AATTTA
23692591 ATACTTAATTTA
1 ATA-TTAATTTA
*
23692603 ATATTAAATTGA
1 ATATT-AATTTA
*
23692615 CTATCTTAATATTA
1 --ATATTAAT-TTA
23692629 ATATTAATTTA
1 ATATTAATTTA
23692640 ATATT
1 ATATT
23692645 TATATCGTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
11 17 0.27
12 25 0.40
13 11 0.17
14 10 0.16
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (11 bp):
ATATTAATTTA
Found at i:23692631 original size:6 final size:6
Alignment explanation
Indices: 23692571--23692649 Score: 60
Period size: 6 Copynumber: 13.2 Consensus size: 6
23692561 ATTTAATTTT
*
23692571 TTAATA TTAA-A TTAA-A TTTAATA CTTAAT- TTAATA TTAA-A TTGACTATC
1 TTAATA TTAATA TTAATA -TTAATA -TTAATA TTAATA TTAATA TT-A--ATA
*
23692620 TTAATA TTAATA TTAAT- TTAATA TTTATA T
1 TTAATA TTAATA TTAATA TTAATA TTAATA T
23692650 CGTAGATAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
5 19 0.31
6 32 0.52
7 6 0.10
8 2 0.03
9 2 0.03
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (6 bp):
TTAATA
Found at i:23692649 original size:17 final size:17
Alignment explanation
Indices: 23692553--23692649 Score: 72
Period size: 17 Copynumber: 5.4 Consensus size: 17
23692543 ATTAGAAAAA
*
23692553 TTATATTAATTTAATTTT
1 TTATATTAATTTAA-TAT
*
23692571 TTAATATTAAATTAA-AT
1 TT-ATATTAATTTAATAT
23692588 TTAATACTTAATTTAATA-
1 TT-ATA-TTAATTTAATAT
*
23692606 TTAAATTGACTATCTTAATAT
1 TTATATT-A--AT-TTAATAT
*
23692627 TAATATTAATTTAATAT
1 TTATATTAATTTAATAT
23692644 TTATAT
1 TTATAT
23692650 CGTAGATAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
16 2 0.03
17 22 0.34
18 14 0.22
19 14 0.22
20 7 0.11
21 5 0.08
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (17 bp):
TTATATTAATTTAATAT
Found at i:23696119 original size:13 final size:13
Alignment explanation
Indices: 23696101--23696130 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23696091 TTGTTTCCAT
*
23696101 TTTTATGTTTTTC
1 TTTTATGTTTTTA
23696114 TTTTATGTTTTTA
1 TTTTATGTTTTTA
23696127 TTTT
1 TTTT
23696131 CAATTGTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.80
Consensus pattern (13 bp):
TTTTATGTTTTTA
Found at i:23702407 original size:39 final size:40
Alignment explanation
Indices: 23702308--23702451 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
23702298 CGAATGATGT
* * *
23702308 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAA
* * *
23702348 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-A
*
23702388 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
*
23702427 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23702452 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
39 34 0.39
40 43 0.49
41 10 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
Found at i:23702465 original size:40 final size:39
Alignment explanation
Indices: 23702360--23702458 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
23702350 AGACTAAGAT
** * *
23702360 CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAGC
1 CCGAAGGCATTTGAACGAGTTACTATA-ACCGGGCTAAGC
** *
23702399 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAG-C
23702439 CCGAAGGCATTTGAACGAGT
1 CCGAAGGCATTTGAACGAGT
23702459 AGCTATATCC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 33 0.62
40 20 0.38
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAGC
Found at i:23702470 original size:79 final size:80
Alignment explanation
Indices: 23702307--23702457 Score: 182
Period size: 79 Copynumber: 1.9 Consensus size: 80
23702297 TCGAATGATG
*
23702307 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
**
23702372 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * * *
23702387 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCAGACTAAGAT-CCGAAGGCAT
23702449 TTGAACGAG
64 TTGAACGAG
23702458 TAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.02
79 41 0.68
80 18 0.30
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:23711509 original size:16 final size:16
Alignment explanation
Indices: 23711488--23711518 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23711478 GTAACGCCAT
*
23711488 AAAAATCCTGAAATCC
1 AAAAATCCCGAAATCC
23711504 AAAAATCCCGAAATC
1 AAAAATCCCGAAATC
23711519 TTGAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.26, G:0.06, T:0.16
Consensus pattern (16 bp):
AAAAATCCCGAAATCC
Found at i:23712768 original size:24 final size:24
Alignment explanation
Indices: 23712732--23712783 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
23712722 AACGAATCGA
* *
23712732 AAAAAGCCGAAATGCCGAAAAGCC
1 AAAAAGCCAAAATGCCGAAAAACC
* *
23712756 AAAAAGCTAAAATGCTGAAAAACC
1 AAAAAGCCAAAATGCCGAAAAACC
23712780 AAAA
1 AAAA
23712784 GTTGGGCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.19, G:0.15, T:0.08
Consensus pattern (24 bp):
AAAAAGCCAAAATGCCGAAAAACC
Found at i:23713037 original size:29 final size:29
Alignment explanation
Indices: 23712993--23713111 Score: 143
Period size: 29 Copynumber: 4.2 Consensus size: 29
23712983 ATGAGCATGA
*
23712993 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
*
23713021 ATATGAATATGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* * **
23713050 ATAAGAATATGAACTGGGCCGGATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* * *
23713079 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
23713107 ATATG
1 ATATG
23713112 CATGTATGTA
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 21 0.28
29 54 0.72
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:23716001 original size:16 final size:16
Alignment explanation
Indices: 23715980--23716012 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23715970 TTGTAACTCC
*
23715980 CCAAAAATTCTGAAAT
1 CCAAAAATCCTGAAAT
23715996 CCAAAAATCCTGAAAT
1 CCAAAAATCCTGAAAT
23716012 C
1 C
23716013 TTGAGTTTTT
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:0.48, C:0.24, G:0.06, T:0.21
Consensus pattern (16 bp):
CCAAAAATCCTGAAAT
Found at i:23722041 original size:29 final size:29
Alignment explanation
Indices: 23722000--23722071 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
23721990 GCATGAATAT
* *
23722000 AATATGATTTGGGCCTAATGGGCCATAAG
1 AATATGAATTGGGCCTAATGGACCATAAG
* *
23722029 AATGTGAATTGGGCCTAGTGGACCATAAG
1 AATATGAATTGGGCCTAATGGACCATAAG
*
23722058 AATATGAACTGGGC
1 AATATGAATTGGGC
23722072 TGGATGAGCC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (29 bp):
AATATGAATTGGGCCTAATGGACCATAAG
Found at i:23725338 original size:35 final size:35
Alignment explanation
Indices: 23725285--23725354 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
23725275 ATCTGAATCA
* *
23725285 CTCTTTCTGGCTGACCATCGGTTTGTGGGTGAAAT
1 CTCTTTCCGACTGACCATCGGTTTGTGGGTGAAAT
*
23725320 CTCTTTCCGACTGGCCATCGGTTTGTGGGTGAAAT
1 CTCTTTCCGACTGACCATCGGTTTGTGGGTGAAAT
23725355 GCTGTGCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.14, C:0.21, G:0.29, T:0.36
Consensus pattern (35 bp):
CTCTTTCCGACTGACCATCGGTTTGTGGGTGAAAT
Found at i:23730876 original size:46 final size:48
Alignment explanation
Indices: 23730788--23730961 Score: 159
Period size: 46 Copynumber: 3.8 Consensus size: 48
23730778 GTATATTTGT
* *
23730788 GCCGATGCCATGGCCCAGACATGGTCTTACACT-G-A-TAGATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACT-CATCTCGTA
* *
23730834 GCCGATG-CATGTCCGAGACAT-GTCTTACACTAGCACTCATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGTA
* * * * * *
23730879 TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCAT-CTCGTA
*
23730928 GCCGATG-CATGTCCCAGACAT-GTTTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
23730962 TCACCCAAGT
Statistics
Matches: 104, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
44 10 0.10
45 14 0.13
46 30 0.29
47 26 0.25
48 23 0.22
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGTA
Found at i:23747957 original size:29 final size:28
Alignment explanation
Indices: 23747915--23747985 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 28
23747905 AATGAGATTG
*
23747915 GCACTAAGTGTGCGAGTTTAAATT-GTATA
1 GCACTAAGTGTGCGAGTTT-AATTATTA-A
*
23747944 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
23747972 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
23747986 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
28 18 0.46
29 21 0.54
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:23747983 original size:28 final size:29
Alignment explanation
Indices: 23747915--23747985 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
23747905 AATGAGATTG
23747915 GCACTAAGTGTGCGAGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTTAAATTGTATA
* *
23747944 GCACTAAGTGTGCGAGTTT-GATTAT-TAA
1 GCACTAAGTGTGCGAGTTTAAATTGTAT-A
23747972 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
23747986 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 1 0.03
28 19 0.49
29 19 0.49
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAATTGTATA
Found at i:23752686 original size:40 final size:40
Alignment explanation
Indices: 23752641--23753072 Score: 548
Period size: 40 Copynumber: 10.8 Consensus size: 40
23752631 ATAACCACAA
* * * *
23752641 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
23752681 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
23752721 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
23752761 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
23752801 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
23752841 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
23752881 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
23752921 GCACAAATGCCTTCGAGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
23752961 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
23753001 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
23753041 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
23753073 CATTCAAATG
Statistics
Matches: 336, Mismatches: 49, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
39 10 0.03
40 313 0.93
41 13 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:23753072 original size:80 final size:80
Alignment explanation
Indices: 23752621--23753068 Score: 747
Period size: 80 Copynumber: 5.6 Consensus size: 80
23752611 TCTTCGGAAT
* * *
23752621 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
23752685 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
23752700 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
23752765 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
23752780 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
23752845 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
23752860 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
*
23752925 AAATGCCTTCGAGTC
66 AAATGCCTTCGGGTC
* * * * * *
23752940 TTAGCCCGGAT-ATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
1 TTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCA
23753004 CAAATGCCTTCGGGTC
65 CAAATGCCTTCGGGTC
* * * *
23753020 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGG
23753069 ATATCATTCA
Statistics
Matches: 351, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
79 8 0.02
80 339 0.97
81 4 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:23754722 original size:44 final size:44
Alignment explanation
Indices: 23754672--23754817 Score: 127
Period size: 44 Copynumber: 3.3 Consensus size: 44
23754662 ATGTTTCATG
23754672 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
1 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
* ** * * ** **** **
23754716 ACATGTTTTGCCCAT-CATC-CCTTGTA-ATGGCCGGCCACTAGTT
1 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAAC-A-CA
23754759 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
1 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
*
23754803 ACATATTTTGCCCAT
1 ACATGTTTTGCCCAT
23754818 CATCCCTTGT
Statistics
Matches: 70, Mismatches: 27, Indels: 10
0.65 0.25 0.09
Matches are distributed among these distances:
41 5 0.07
42 5 0.07
43 18 0.26
44 32 0.46
45 5 0.07
46 5 0.07
ACGTcount: A:0.22, C:0.25, G:0.10, T:0.42
Consensus pattern (44 bp):
ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
Found at i:23754773 original size:43 final size:43
Alignment explanation
Indices: 23754715--23754887 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
23754705 CCATTAACAC
23754715 AACATGTTTTGCCCATCATCCCTTGTAATGGCCGGCCACTAGT
1 AACATGTTTTGCCCATCATCCCTTGTAATGGCCGGCCACTAGT
* * ** * * ** **** *
23754758 TACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAAC-A-C
1 AACATGTTTTGCCCAT-CATC-CCTTGTA-ATGGCCGGCCACTAGT
* *
23754802 AACATATTTTGCCCATCATCCCTTGTCATGGCCGGCCACTAGT
1 AACATGTTTTGCCCATCATCCCTTGTAATGGCCGGCCACTAGT
23754845 AACATGTTTTGCCCATCATCCCTTGTAATGGCCGGCCACTAGT
1 AACATGTTTTGCCCATCATCCCTTGTAATGGCCGGCCACTAGT
23754888 TCTTAAATGG
Statistics
Matches: 95, Mismatches: 30, Indels: 10
0.70 0.22 0.07
Matches are distributed among these distances:
41 5 0.05
42 4 0.04
43 59 0.62
44 17 0.18
45 5 0.05
46 5 0.05
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (43 bp):
AACATGTTTTGCCCATCATCCCTTGTAATGGCCGGCCACTAGT
Found at i:23754818 original size:87 final size:87
Alignment explanation
Indices: 23754672--23754860 Score: 351
Period size: 87 Copynumber: 2.2 Consensus size: 87
23754662 ATGTTTCATG
*
23754672 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTTGCCCATCATCCC
1 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATATTTTGCCCATCATCCC
*
23754737 TTGTAATGGCCGGCCACTAGTT
66 TTGTAATGGCCGGCCACTAGTA
23754759 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATATTTTGCCCATCATCCC
1 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATATTTTGCCCATCATCCC
*
23754824 TTGTCATGGCCGGCCACTAGTA
66 TTGTAATGGCCGGCCACTAGTA
23754846 ACATGTTTTGCCCAT
1 ACATGTTTTGCCCAT
23754861 CATCCCTTGT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 99 1.00
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (87 bp):
ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATATTTTGCCCATCATCCC
TTGTAATGGCCGGCCACTAGTA
Found at i:23756467 original size:16 final size:16
Alignment explanation
Indices: 23756446--23756476 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23756436 GTAACGCCAT
*
23756446 AAAAATCCTGAAATCC
1 AAAAATCCCGAAATCC
23756462 AAAAATCCCGAAATC
1 AAAAATCCCGAAATC
23756477 TTGAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.26, G:0.06, T:0.16
Consensus pattern (16 bp):
AAAAATCCCGAAATCC
Found at i:23757726 original size:24 final size:24
Alignment explanation
Indices: 23757690--23757741 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
23757680 AACGAATCGA
* *
23757690 AAAAAGCCGAAATGCCGAAAAGCC
1 AAAAAGCCAAAATGCCGAAAAACC
* *
23757714 AAAAAGCTAAAATGCTGAAAAACC
1 AAAAAGCCAAAATGCCGAAAAACC
23757738 AAAA
1 AAAA
23757742 GTTGGGCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.19, G:0.15, T:0.08
Consensus pattern (24 bp):
AAAAAGCCAAAATGCCGAAAAACC
Found at i:23757995 original size:29 final size:29
Alignment explanation
Indices: 23757951--23758069 Score: 143
Period size: 29 Copynumber: 4.2 Consensus size: 29
23757941 ATGAGCATGA
*
23757951 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
*
23757979 ATATGAATATGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* * **
23758008 ATAAGAATATGAACTGGGCCGGATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* * *
23758037 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
23758065 ATATG
1 ATATG
23758070 CATGTATGTA
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 21 0.28
29 54 0.72
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:23760959 original size:16 final size:16
Alignment explanation
Indices: 23760938--23760970 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23760928 TTGTAACTCC
*
23760938 CCAAAAATTCTGAAAT
1 CCAAAAATCCTGAAAT
23760954 CCAAAAATCCTGAAAT
1 CCAAAAATCCTGAAAT
23760970 C
1 C
23760971 TTGAGTTTTT
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:0.48, C:0.24, G:0.06, T:0.21
Consensus pattern (16 bp):
CCAAAAATCCTGAAAT
Found at i:23766999 original size:29 final size:29
Alignment explanation
Indices: 23766958--23767029 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
23766948 GCATGAATAT
* *
23766958 AATATGATTTGGGCCTAATGGGCCATAAG
1 AATATGAATTGGGCCTAATGGACCATAAG
* *
23766987 AATGTGAATTGGGCCTAGTGGACCATAAG
1 AATATGAATTGGGCCTAATGGACCATAAG
*
23767016 AATATGAACTGGGC
1 AATATGAATTGGGC
23767030 TGGATGAGCC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (29 bp):
AATATGAATTGGGCCTAATGGACCATAAG
Found at i:23775840 original size:46 final size:48
Alignment explanation
Indices: 23775752--23775925 Score: 159
Period size: 46 Copynumber: 3.8 Consensus size: 48
23775742 GTATATTTGT
* *
23775752 GCCGATGCCATGGCCCAGACATGGTCTTACACT-G-A-TAGATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACT-CATCTCGTA
* *
23775798 GCCGATG-CATGTCCGAGACAT-GTCTTACACTAGCACTCATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGTA
* * * * * *
23775843 TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCAT-CTCGTA
*
23775892 GCCGATG-CATGTCCCAGACAT-GTTTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
23775926 TCACCCAAGT
Statistics
Matches: 104, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
44 10 0.10
45 14 0.13
46 30 0.29
47 26 0.25
48 23 0.22
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGTA
Found at i:23792921 original size:29 final size:28
Alignment explanation
Indices: 23792879--23792949 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 28
23792869 AATGAGATTG
*
23792879 GCACTAAGTGTGCGAGTTTAAATT-GTATA
1 GCACTAAGTGTGCGAGTTT-AATTATTA-A
*
23792908 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
23792936 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
23792950 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
28 18 0.46
29 21 0.54
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:23792947 original size:28 final size:29
Alignment explanation
Indices: 23792879--23792949 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
23792869 AATGAGATTG
23792879 GCACTAAGTGTGCGAGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTTAAATTGTATA
* *
23792908 GCACTAAGTGTGCGAGTTT-GATTAT-TAA
1 GCACTAAGTGTGCGAGTTTAAATTGTAT-A
23792936 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
23792950 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 1 0.03
28 19 0.49
29 19 0.49
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAATTGTATA
Found at i:23797604 original size:40 final size:40
Alignment explanation
Indices: 23797559--23797830 Score: 368
Period size: 40 Copynumber: 6.8 Consensus size: 40
23797549 ATAACCACAA
* * * *
23797559 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
23797599 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
23797639 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
23797679 GCACAAATGCCTTCGAGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
23797719 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
23797759 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
23797799 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
23797831 CATTCAAATG
Statistics
Matches: 204, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 4 0.02
40 193 0.95
41 7 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:23797642 original size:80 final size:80
Alignment explanation
Indices: 23797539--23797826 Score: 427
Period size: 80 Copynumber: 3.6 Consensus size: 80
23797529 TCTTCGGAAT
* * * *
23797539 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
23797603 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
23797618 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
*
23797683 AAATGCCTTCGAGTC
66 AAATGCCTTCGGGTC
* * * * *
23797698 TTAGCCCGGAT-ATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCA
23797762 CAAATGCCTTCGGGTC
65 CAAATGCCTTCGGGTC
* * *
23797778 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGG
23797827 ATATCATTCA
Statistics
Matches: 191, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
79 8 0.04
80 179 0.94
81 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:23805032 original size:49 final size:50
Alignment explanation
Indices: 23804960--23805088 Score: 154
Period size: 49 Copynumber: 2.6 Consensus size: 50
23804950 AAATGGCAAA
* * * *
23804960 GCCATATCCCAGACATGGTCTTACATGGGATTTTTCCT-GTACTGC-CAAT
1 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATAGTACTGCTC-AT
* **
23805009 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGGTGCTCAT
1 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATAGTACTGCTCAT
* *
23805059 GCCATGTCCCAGATATGGTCTTACAGGGGA
1 GCCATATCCCAGATATGGTCTTACATGGGA
23805089 CCTCTCAACT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
49 34 0.49
50 34 0.49
51 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (50 bp):
GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATAGTACTGCTCAT
Found at i:23805073 original size:50 final size:51
Alignment explanation
Indices: 23805002--23805199 Score: 197
Period size: 50 Copynumber: 3.8 Consensus size: 51
23804992 TTTCCTGTAC
* ** *
23805002 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATA-TTGG
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATACTCGG
*
23805052 TGCTC-ATGCCATGTCCCAGATATGGTCTTACAGGGGACCTCTCA-ACTCGG
1 TGC-CAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATACTCGG
* * *
23805102 TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATAGTCTCAATGAG
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATA--CTC---G-G
* * * *
23805159 -GCCAATGCCATGTCCCAGACATGGTCTGAAATGGGATCTCT
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCT
23805200 TTACAAAAAT
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
49 2 0.02
50 79 0.64
51 2 0.02
53 3 0.02
56 37 0.30
57 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATACTCGG
Found at i:23812067 original size:42 final size:43
Alignment explanation
Indices: 23812001--23812084 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 43
23811991 TACAGGGATT
23812001 GACTACACTGACCTTTGCGCATTACGACTTCGATATC-CCCTC
1 GACTACACTGACCTTTGCGCATTACGACTTCGATATCTCCCTC
* * *
23812043 GACTACACTGACCTTTGTGTATTACGACTTGGATATCTCCCT
1 GACTACACTGACCTTTGCGCATTACGACTTCGATATCTCCCT
23812085 GCACAGAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 34 0.89
43 4 0.11
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.32
Consensus pattern (43 bp):
GACTACACTGACCTTTGCGCATTACGACTTCGATATCTCCCTC
Found at i:23812509 original size:236 final size:238
Alignment explanation
Indices: 23812092--23812560 Score: 807
Period size: 236 Copynumber: 2.0 Consensus size: 238
23812082 CCTGCACAGA
*
23812092 GCTTCAATACTGATACCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATG
1 GCTTCAATACTGATACCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATA
23812157 GCATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAG
66 GCATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAG
* * *
23812222 AAACCGTTCTGGCCCTGTCTCACGAAAACTTTAGCATCTCATAATATACTGTTCATATGAACGTT
131 AAACCGTTCTGGCCCTGTCTCACGAAAACTTGAACATCTCATAACATACTGTTCATATGAACGTT
*
23812287 T-TTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGATTAC
196 TCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGATTAC
*
23812329 GCTTCAATACTGATTCCGTTTGTTTCT-TAGAAACTAGACTCAGAGAGGAATCTATACATATATA
1 GCTTCAATACTGATACCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATA
* * *
23812393 GCATGACTCGTAATTGTCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAATAGGGAATCCAG
66 GCATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAG
* * * *
23812458 AAACCGTTCTGGCCCTGTCTCACGAGAACTTGAATATCTCTTAACATACTGTTCATATGAATGTT
131 AAACCGTTCTGGCCCTGTCTCACGAAAACTTGAACATCTCATAACATACTGTTCATATGAACGTT
23812523 TCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCG
196 TCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCG
23812561 TTTGCATAAT
Statistics
Matches: 218, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
236 157 0.72
237 61 0.28
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (238 bp):
GCTTCAATACTGATACCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATA
GCATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAG
AAACCGTTCTGGCCCTGTCTCACGAAAACTTGAACATCTCATAACATACTGTTCATATGAACGTT
TCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGATTAC
Found at i:23813181 original size:49 final size:49
Alignment explanation
Indices: 23813116--23813213 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
23813106 GCACAAATTT
*
23813116 TCAATATCATACTTACTTCACATTACCAACCCTTTTATTCATACACAAA
1 TCAATATCATAATTACTTCACATTACCAACCCTTTTATTCATACACAAA
23813165 TCAATATCATAATTACTTCACATTACCAACCCTTTTATTCATACACAAA
1 TCAATATCATAATTACTTCACATTACCAACCCTTTTATTCATACACAAA
23813214 GATCAACTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.35
Consensus pattern (49 bp):
TCAATATCATAATTACTTCACATTACCAACCCTTTTATTCATACACAAA
Found at i:23813598 original size:40 final size:40
Alignment explanation
Indices: 23813394--23813598 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
23813384 CGGAATTTAA
** *
23813394 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
23813434 CCGGTTATAGTAACTCGCATAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
23813474 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
23813514 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
23813554 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
23813594 CCGGA
1 CCGGA
23813599 CATCATTCGA
Statistics
Matches: 141, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
39 4 0.03
40 125 0.89
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:23814794 original size:56 final size:56
Alignment explanation
Indices: 23814727--23814958 Score: 437
Period size: 56 Copynumber: 4.1 Consensus size: 56
23814717 TATTAGTTTA
*
23814727 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
23814783 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
23814839 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
23814895 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
23814951 TTGCCCAT
1 TTGCCCAT
23814959 CATCCCTTGT
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 172 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:23816114 original size:37 final size:37
Alignment explanation
Indices: 23816064--23816135 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
23816054 AATGTTGTGC
*
23816064 TTCATGATAATTAGACTCATGCAATTTTAATGATTGT
1 TTCATGATAATTAGACTCATGCAATTTTAACGATTGT
*
23816101 TTCATGATCATTAGACTCATGCAATTTTAACGATT
1 TTCATGATAATTAGACTCATGCAATTTTAACGATT
23816136 CCACCTCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (37 bp):
TTCATGATAATTAGACTCATGCAATTTTAACGATTGT
Found at i:23816691 original size:75 final size:75
Alignment explanation
Indices: 23816568--23816717 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
23816558 ATATCCTGAA
*
23816568 TTAGGGCTTAATCGGAATAGTAGTTTCGTGACCACAAATCCGAGATAGAAATAATTATTTTATAA
1 TTAGGGCCTAATCGGAATAGTAGTTTCGTGACCACAAATCCGAGATAGAAATAATTATTTTATAA
23816633 CTATTTTGAT
66 CTATTTTGAT
23816643 TTAGGGCCTAATCGGAATAGTAGTTTCGTGACCACAAATCCGAGATAGAAATAATTATTTTATAA
1 TTAGGGCCTAATCGGAATAGTAGTTTCGTGACCACAAATCCGAGATAGAAATAATTATTTTATAA
23816708 CTATTTTGAT
66 CTATTTTGAT
23816718 GATTATGATA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (75 bp):
TTAGGGCCTAATCGGAATAGTAGTTTCGTGACCACAAATCCGAGATAGAAATAATTATTTTATAA
CTATTTTGAT
Found at i:23817815 original size:20 final size:20
Alignment explanation
Indices: 23817790--23817829 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23817780 ATACAACAAC
23817790 GATAAGGTGGTAAGATGATG
1 GATAAGGTGGTAAGATGATG
23817810 GATAAGGTGGTAAGATGATG
1 GATAAGGTGGTAAGATGATG
23817830 AATGATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.40, T:0.25
Consensus pattern (20 bp):
GATAAGGTGGTAAGATGATG
Found at i:23820198 original size:22 final size:21
Alignment explanation
Indices: 23820173--23820216 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
23820163 TGATAATCTC
23820173 TAATCTATA-ATTATATCTATTA
1 TAATCTATATATTA-ATCT-TTA
*
23820195 TAATTTATATATTAATCTTTA
1 TAATCTATATATTAATCTTTA
23820216 T
1 T
23820217 CAACTTAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
TAATCTATATATTAATCTTTA
Found at i:23820937 original size:25 final size:27
Alignment explanation
Indices: 23820880--23820937 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 27
23820870 AGTTTTCTCT
*
23820880 TAATTTTAATTTTATTCAATTAATTAA
1 TAATTTTAATTTCATTCAATTAATTAA
* *
23820907 T-TTTTTAA-TTCATTGAATT-ATTAA
1 TAATTTTAATTTCATTCAATTAATTAA
23820931 TAATTTT
1 TAATTTT
23820938 TATTAAATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 6 0.23
25 13 0.50
26 6 0.23
27 1 0.04
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (27 bp):
TAATTTTAATTTCATTCAATTAATTAA
Found at i:23831859 original size:20 final size:20
Alignment explanation
Indices: 23831830--23831875 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
23831820 GAGAAATTCT
* *
23831830 TTTTAT-TGTTTTAATATTA
1 TTTTATGTGTTATAATATGA
*
23831849 TTTTATGTGTTATAGTATGA
1 TTTTATGTGTTATAATATGA
23831869 TTTTATG
1 TTTTATG
23831876 AGTGCATGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.63
Consensus pattern (20 bp):
TTTTATGTGTTATAATATGA
Found at i:23834791 original size:17 final size:19
Alignment explanation
Indices: 23834766--23834801 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23834756 GTAAAACTCG
23834766 TGAGTATGAACT-TTGGTA
1 TGAGTATGAACTCTTGGTA
23834784 TGAG-ATGAACTCTTGGTA
1 TGAGTATGAACTCTTGGTA
23834802 AGAATGCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (19 bp):
TGAGTATGAACTCTTGGTA
Found at i:23836910 original size:93 final size:93
Alignment explanation
Indices: 23836780--23836952 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
23836770 TGCCCATAAG
* * *
23836780 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
23836845 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
23836873 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGGCTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
23836938 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
23836953 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:23836948 original size:46 final size:46
Alignment explanation
Indices: 23836773--23836948 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
23836763 TGTAACCTGC
* * *
23836773 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
23836819 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
23836869 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
23836912 CCATAAGTGAACTCGGGCTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
23836949 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 66 0.61
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:23836967 original size:46 final size:45
Alignment explanation
Indices: 23836824--23836967 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 45
23836814 CGCATCCATA
* * *
23836824 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
23836872 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
* *
23836917 AGTGAACTCGGGCTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
23836963 AGTGA
1 AGTGA
23836968 CATGTCACTT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 36 0.47
47 30 0.39
48 5 0.07
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:23837379 original size:16 final size:17
Alignment explanation
Indices: 23837358--23837390 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
23837348 TCAAATTGAC
23837358 CCAAAATCATA-TTTTT
1 CCAAAATCATAGTTTTT
*
23837374 CCAAAATTATAGTTTTT
1 CCAAAATCATAGTTTTT
23837391 GCCCCTAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.36, C:0.15, G:0.03, T:0.45
Consensus pattern (17 bp):
CCAAAATCATAGTTTTT
Found at i:23852973 original size:38 final size:38
Alignment explanation
Indices: 23852922--23853071 Score: 219
Period size: 38 Copynumber: 3.9 Consensus size: 38
23852912 TCTGGGCTTA
* * *
23852922 AAATCCCGTAGGCTTCGTGCTGGTAATATAACCGGGTT
1 AAATCCCGCAGGCTTCGTACTGGTAATATATCCGGGTT
23852960 AAATCCCGCAGGCTTCGTACTGGTAATATATCCGGGTT
1 AAATCCCGCAGGCTTCGTACTGGTAATATATCCGGGTT
*
23852998 AAATCCCGCAGGCTTCGTACTGGTATTATATCCGGGTT
1 AAATCCCGCAGGCTTCGTACTGGTAATATATCCGGGTT
* * * * *
23853036 AAATCCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 AAATCCCGCAGGCTTCGTACTGGTAATATATCCGGG
23853072 CCTTTGAGCC
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 104 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (38 bp):
AAATCCCGCAGGCTTCGTACTGGTAATATATCCGGGTT
Found at i:23853135 original size:46 final size:44
Alignment explanation
Indices: 23853064--23853192 Score: 167
Period size: 46 Copynumber: 3.0 Consensus size: 44
23853054 GCTGGTATTA
*
23853064 TATTCGGGCCTTT-GAGCCTAGCAGGCTATTATGCCGGTGAGACAT
1 TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A-AT
23853109 TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT
1 TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT
* * *
23853153 GATACCGGGCC--TCGAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TAT-TCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
23853193 TGAATAAAAG
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
42 12 0.15
43 16 0.21
44 4 0.05
45 20 0.26
46 26 0.33
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (44 bp):
TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT
Found at i:23855682 original size:30 final size:30
Alignment explanation
Indices: 23855646--23855703 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
23855636 TGAAAGCTAT
23855646 TTTTTTCCCTTTTTCCCAACTCTTGACCTA
1 TTTTTTCCCTTTTTCCCAACTCTTGACCTA
23855676 TTTTTTCCCTTTTTCCCAACTCTTGACC
1 TTTTTTCCCTTTTTCCCAACTCTTGACC
23855704 GATTGATCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.12, C:0.34, G:0.03, T:0.50
Consensus pattern (30 bp):
TTTTTTCCCTTTTTCCCAACTCTTGACCTA
Found at i:23856629 original size:75 final size:75
Alignment explanation
Indices: 23856450--23856630 Score: 229
Period size: 75 Copynumber: 2.3 Consensus size: 75
23856440 ATTAAGTACA
*
23856450 TAAAAAATAATAATGTTAAAGAAACATAAACTATCAAAAAACAAATAAACTCAATAGGATCATAT
1 TAAAAAAT-A-AATGTTAAA-AAA-A-AAACTATCAAAAAACAAATAAACTCAATAGGATCATAC
* * *
23856515 GTTATTTGCATTTAC
61 CTTACTTGCATCTAC
* * *
23856530 TAAAAAAACAAATGTT-AAAAAAAAACTATCAAAAAATAAATAAACTCAATGGGATCATACCTTA
1 T-AAAAAATAAATGTTAAAAAAAAAACTATCAAAAAACAAATAAACTCAATAGGATCATACCTTA
23856594 CTTGCATCTAC
65 CTTGCATCTAC
*
23856605 TAAAAAATAAATATTAAAAAAAAAAC
1 TAAAAAATAAATGTTAAAAAAAAAAC
23856631 AGAAACATAT
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
74 12 0.13
75 58 0.64
76 1 0.01
77 3 0.03
78 2 0.02
79 6 0.07
80 2 0.02
81 6 0.07
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.25
Consensus pattern (75 bp):
TAAAAAATAAATGTTAAAAAAAAAACTATCAAAAAACAAATAAACTCAATAGGATCATACCTTAC
TTGCATCTAC
Found at i:23857653 original size:11 final size:11
Alignment explanation
Indices: 23857633--23857661 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
23857623 AATTTTTAAA
23857633 AAATTATTTTT
1 AAATTATTTTT
23857644 -AATTATTTTT
1 AAATTATTTTT
23857654 AAATTATT
1 AAATTATT
23857662 ATATACTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
AAATTATTTTT
Found at i:23858762 original size:17 final size:19
Alignment explanation
Indices: 23858729--23858763 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
23858719 TAAATTTAAA
23858729 TTAAAAATAATATAATATT
1 TTAAAAATAATATAATATT
23858748 TTAAAAA-AA-ATAATAT
1 TTAAAAATAATATAATAT
23858764 GAGTGAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TTAAAAATAATATAATATT
Found at i:23861753 original size:93 final size:93
Alignment explanation
Indices: 23861594--23861765 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
23861584 CGCCCATAAG
*
23861594 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
23861659 ACGAGTTTGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
23861687 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
23861751 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
23861766 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:23861760 original size:46 final size:46
Alignment explanation
Indices: 23861587--23861762 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
23861577 TGTAACCCGC
* *
23861587 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * *
23861633 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
23861683 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
23861726 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
23861763 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:23864112 original size:16 final size:15
Alignment explanation
Indices: 23864087--23864130 Score: 65
Period size: 13 Copynumber: 3.0 Consensus size: 15
23864077 AGTATTTAAG
23864087 TATATAATATAATAA
1 TATATAATATAATAA
23864102 TATATTAATATAAT-A
1 TATA-TAATATAATAA
23864117 -ATATAATATAATAA
1 TATATAATATAATAA
23864131 AACATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.33
14 4 0.15
15 5 0.19
16 9 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TATATAATATAATAA
Found at i:23864130 original size:8 final size:8
Alignment explanation
Indices: 23864090--23864124 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
23864080 ATTTAAGTAT
23864090 ATAATATA
1 ATAATATA
23864098 ATAATATA
1 ATAATATA
*
23864106 TTAATATA
1 ATAATATA
23864114 ATAATATA
1 ATAATATA
23864122 ATA
1 ATA
23864125 TAATAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATATA
Found at i:23865134 original size:44 final size:44
Alignment explanation
Indices: 23865049--23865135 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
23865039 TGTTCAGGAA
* * *
23865049 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTTGTACTGT
1 TACTTCGACCTTGAGTCGATAAGGCACCATAAGTGTCGTACTGT
**
23865093 TACTTCGA-CTTCGAGTCGATAAGGCACCATGTGTGTCGTACTG
1 TACTTCGACCTT-GAGTCGATAAGGCACCATAAGTGTCGTACTG
23865136 CTATTGTTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.08
44 34 0.92
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCGATAAGGCACCATAAGTGTCGTACTGT
Found at i:23874418 original size:24 final size:24
Alignment explanation
Indices: 23874368--23874421 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
23874358 AATCGAATTT
*
23874368 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
23874392 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
23874416 GCACAC
1 GCACAC
23874422 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:23882154 original size:3 final size:3
Alignment explanation
Indices: 23882146--23882179 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
23882136 ACTTCCTTTG
*
23882146 TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23882180 GTTTGTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23882189 original size:12 final size:12
Alignment explanation
Indices: 23882143--23882179 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
23882133 GTGACTTCCT
23882143 TTGTTATTATTA
1 TTGTTATTATTA
23882155 TTGTTATTATTA
1 TTGTTATTATTA
*
23882167 TTATTATTATTA
1 TTGTTATTATTA
23882179 T
1 T
23882180 GTTTGTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (12 bp):
TTGTTATTATTA
Found at i:23892388 original size:13 final size:13
Alignment explanation
Indices: 23892370--23892411 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
23892360 TTTAATATTT
23892370 TTATTTTCAAATA
1 TTATTTTCAAATA
23892383 TTATTTT-ATAGATA
1 TTATTTTCA-A-ATA
23892397 TTATTTTCAAATA
1 TTATTTTCAAATA
23892410 TT
1 TT
23892412 TTTAATCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.04
13 13 0.50
14 11 0.42
15 1 0.04
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (13 bp):
TTATTTTCAAATA
Found at i:23893145 original size:23 final size:21
Alignment explanation
Indices: 23893101--23893145 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
23893091 TTTTTATTTC
*
23893101 ATTTTTATATTTTAACTTAAT
1 ATTTTTATATTTTAACTAAAT
*
23893122 ATTTTTATAATTTTTACGTAAAT
1 ATTTTTAT-ATTTTAAC-TAAAT
23893145 A
1 A
23893146 GGAGAAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 7 0.35
23 5 0.25
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTTATATTTTAACTAAAT
Found at i:23898045 original size:21 final size:21
Alignment explanation
Indices: 23898020--23898074 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
23898010 AGCATTTTAT
23898020 ACTTATTTTCAACTCCCCCAA
1 ACTTATTTTCAACTCCCCCAA
*
23898041 ACTTATTTTCAATTCCCCCAA
1 ACTTATTTTCAACTCCCCCAA
23898062 ACTTATTTTCAAC
1 ACTTATTTTCAAC
23898075 AAATACTTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.38
Consensus pattern (21 bp):
ACTTATTTTCAACTCCCCCAA
Found at i:23901393 original size:50 final size:50
Alignment explanation
Indices: 23901329--23901437 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 50
23901319 TAAATGACCA
* * *
23901329 TGTATATTCGGCCACACAGGTTTG-AGCATATGTGATGTTATATTTGATCT
1 TGTATATTCAGCCACACAGGTATGTA-CATATGTGATGTTATATTTGATAT
*
23901379 TGTATATTCAGCCACATAGGTATGTACATATGTGATGTTATATTTGATAT
1 TGTATATTCAGCCACACAGGTATGTACATATGTGATGTTATATTTGATAT
*
23901429 TGTGTATTC
1 TGTATATTC
23901438 GGTTAAATGA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
50 52 0.98
51 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (50 bp):
TGTATATTCAGCCACACAGGTATGTACATATGTGATGTTATATTTGATAT
Found at i:23903291 original size:24 final size:24
Alignment explanation
Indices: 23903244--23903291 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
23903234 CACAAAATTT
* *
23903244 ATTAATAATTCAGTAAACTGAAAA
1 ATTAATAATTCAATAAAATGAAAA
* *
23903268 ATTAATAATTGAATAAAATTAAAA
1 ATTAATAATTCAATAAAATGAAAA
23903292 TTTGGGAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.31
Consensus pattern (24 bp):
ATTAATAATTCAATAAAATGAAAA
Found at i:23904055 original size:29 final size:29
Alignment explanation
Indices: 23903997--23904056 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
23903987 GCCTTTTGAC
* * **
23903997 AATATTTACAAAAAGAGGCATCTAGTTTT
1 AATATTTACAAAAAGAGGCACCAAAATTT
23904026 AATATTTACAAAAAGA-GCAACCAAAATTT
1 AATATTTACAAAAAGAGGC-ACCAAAATTT
23904055 AA
1 AA
23904057 AAATAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (29 bp):
AATATTTACAAAAAGAGGCACCAAAATTT
Found at i:23915134 original size:14 final size:14
Alignment explanation
Indices: 23915115--23915142 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23915105 GCGGGCAATA
23915115 AGTGTTCACGGTTG
1 AGTGTTCACGGTTG
23915129 AGTGTTCACGGTTG
1 AGTGTTCACGGTTG
23915143 TGAGATTGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.36, T:0.36
Consensus pattern (14 bp):
AGTGTTCACGGTTG
Found at i:23915670 original size:40 final size:40
Alignment explanation
Indices: 23915626--23915862 Score: 384
Period size: 40 Copynumber: 5.9 Consensus size: 40
23915616 GAGTTACTAA
23915626 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
23915666 ATCCGGGCTAAGTCCCGAAGGGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
23915706 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
23915746 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
23915786 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
23915826 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
23915863 CGTGTATTCG
Statistics
Matches: 184, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 184 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:23915684 original size:80 final size:79
Alignment explanation
Indices: 23915547--23915862 Score: 368
Period size: 80 Copynumber: 3.9 Consensus size: 79
23915537 TCGAATGATG
** * *
23915547 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATATCCGGGCTAAG-TCCCGAAGGCA
** * * **
23915609 TTGGTGCGAGTTACTAAA
63 TTCATGCTAGTGA-TGTA
*
23915627 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGGGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAA-GGCATT
*
23915692 CATGCTAGCGATGTA
65 CATGCTAGTGATGTA
* *
23915707 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAG-GCATT
23915772 CATGCTAGTGATGTA
65 CATGCTAGTGATGTA
* * * * *
23915787 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCCGAAGAGCAAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAG-GCATT
*
23915852 CATGCTGGTGA
65 CATGCTAGTGA
23915863 CGTGTATTCG
Statistics
Matches: 209, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.01
80 182 0.87
81 19 0.09
82 6 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGGCATTC
ATGCTAGTGATGTA
Found at i:23919194 original size:40 final size:40
Alignment explanation
Indices: 23918917--23919180 Score: 349
Period size: 40 Copynumber: 6.6 Consensus size: 40
23918907 CGAATGATGT
* * * *
23918917 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
23918957 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
23918997 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
23919035 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
23919076 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
23919116 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
23919156 CCGGGCTATGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23919181 AACGAGTAGC
Statistics
Matches: 201, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
39 33 0.16
40 158 0.79
41 10 0.05
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:23919211 original size:159 final size:159
Alignment explanation
Indices: 23918917--23919213 Score: 379
Period size: 159 Copynumber: 1.9 Consensus size: 159
23918907 CGAATGATGT
*
23918917 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTG
* * ** *
23918982 TGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGAGTTAAGT
66 TGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAATCCGAGTTAAAT
23919047 CCCGAAGGCATTTGTGCGAGTTACTATAA
131 CCCGAAGGCATTTGTGCGAGTTACTATAA
* * * *
23919076 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATT
* * * *
23919139 TGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGCTATATCCG-GT
64 TGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-CTAAATCCGAGT
*
23919201 TAAATTCCGAAGG
126 TAAATCCCGAAGG
23919214 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
158 3 0.03
159 84 0.71
160 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (159 bp):
CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAATCCGAGTTAAAT
CCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:23923701 original size:37 final size:35
Alignment explanation
Indices: 23923637--23923705 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
23923627 ATTTCAAAAA
*
23923637 TAATATTATTTTAATAGTTTAATATTAAATTTAATT
1 TAATATTATATTAATAGTTTAATATT-AATTTAATT
*
23923673 TAATACTTATATTAATAGTATTTA-ATTAATTTA
1 TAATA-TTATATTAATAGT-TTAATATTAATTTA
23923706 TCATTAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 11 0.38
37 15 0.52
38 3 0.10
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (35 bp):
TAATATTATATTAATAGTTTAATATTAATTTAATT
Found at i:23923780 original size:53 final size:55
Alignment explanation
Indices: 23923717--23923839 Score: 130
Period size: 53 Copynumber: 2.3 Consensus size: 55
23923707 CATTAAAGTG
* ** * *
23923717 ATTATCTTAATATTAAATTTAA-ATTTAATGTTTATCTAA-A-AGATAAATATTCT
1 ATTATTTTAATATTAAATTTAATA-TTAAAATTAATCTAATATAGATAAATATTAT
* *
23923770 ATTATTTTAATA--AGATTTAATATTAAAATTAATCTAATATTGATAAATATTAT
1 ATTATTTTAATATTAAATTTAATATTAAAATTAATCTAATATAGATAAATATTAT
*
23923823 ATTAATTTAATATTAAA
1 ATTATTTTAATATTAAA
23923840 GTAATTAAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
51 19 0.34
52 2 0.04
53 33 0.59
55 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (55 bp):
ATTATTTTAATATTAAATTTAATATTAAAATTAATCTAATATAGATAAATATTAT
Found at i:23923833 original size:26 final size:26
Alignment explanation
Indices: 23923758--23923836 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
23923748 TTATCTAAAA
* * *
23923758 GATAAATATTCTATTATTTTAATA-A
1 GATAAATATTATATTAATTTAATATT
* * *
23923783 GATTTAATATTAAAATTAATCTAATATT
1 GA-TAAATATT-ATATTAATTTAATATT
23923811 GATAAATATTATATTAATTTAATATT
1 GATAAATATTATATTAATTTAATATT
23923837 AAAGTAATTA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
25 2 0.05
26 21 0.50
27 17 0.40
28 2 0.05
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (26 bp):
GATAAATATTATATTAATTTAATATT
Found at i:23928317 original size:140 final size:140
Alignment explanation
Indices: 23928064--23928344 Score: 472
Period size: 140 Copynumber: 2.0 Consensus size: 140
23928054 ATATAGTGTA
* *
23928064 GGAACTTATAAACTTACTAATTAGGATTAAACTCATAGGATGTAAGTGAATCTACAAGAAGAAGG
1 GGAACTTATAAACTTACTAATTAGGATTAAACTCATAGGATGTAAGTGAACCTACAAGAAGAAGA
*
23928129 GAAATGCGAAAGGAAAAATAGAAACACACAAAGCTAGACTTGTTGGGAAAGGTTACACATAGAAA
66 GAAATGCGAAAGGAAAAATAGAAACACACAAAGCTAGACTTGTAGGGAAAGGTTACACATAGAAA
23928194 GAAGGCATCG
131 GAAGGCATCG
* *
23928204 GGAACTTATAGACTTACTAATTAGGATTAAACTCATAGGGTGTAAGTGAACCTACAAGAAGAAGA
1 GGAACTTATAAACTTACTAATTAGGATTAAACTCATAGGATGTAAGTGAACCTACAAGAAGAAGA
* * * *
23928269 GAAATGCGGACGGGAAAATAGAAGCACACAAAGCTAGACTTGTAGGGAAAGGTTACACATAGAAA
66 GAAATGCGAAAGGAAAAATAGAAACACACAAAGCTAGACTTGTAGGGAAAGGTTACACATAGAAA
*
23928334 GAGGGCATCG
131 GAAGGCATCG
23928344 G
1 G
23928345 TTACGANNNN
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
140 131 1.00
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (140 bp):
GGAACTTATAAACTTACTAATTAGGATTAAACTCATAGGATGTAAGTGAACCTACAAGAAGAAGA
GAAATGCGAAAGGAAAAATAGAAACACACAAAGCTAGACTTGTAGGGAAAGGTTACACATAGAAA
GAAGGCATCG
Found at i:23934972 original size:44 final size:45
Alignment explanation
Indices: 23934916--23935221 Score: 203
Period size: 46 Copynumber: 6.6 Consensus size: 45
23934906 TACGCGTGCT
23934916 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCT-TAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCTGTAGCC
* * * * * **
23934960 AATGCGTGTCCCAGACACGTCTTACACTGGC-TATCTCTGTCAAGGT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCTGT--AGCC
**
23935006 GATGCATGTCTTAGACATGTCTTACACTAGCACTCATCTCTGT-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCA--CATCTCTGTAGCC
* * * * *
23935052 GATGCCATGTCTCAGACATGGTCTTACACTGGC-TATCAT-AGTATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACATC-TCTGTA--GCC
* * * *
23935100 GATGCATGTCCCAGATATGTCTTACACTAGC-CCTCGTCTGGATGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATC-TCTGTA-GCC
* * * ** *
23935146 GATGCCATGTCCCAGACATAGTCTTACATTGGCTATAAT-AATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-A-CATCTCTGTAGCC
*
23935194 GATGCATGTCCCAGACATATCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
23935222 GGCGCACAAG
Statistics
Matches: 200, Mismatches: 44, Indels: 34
0.72 0.16 0.12
Matches are distributed among these distances:
43 6 0.03
44 28 0.14
45 5 0.03
46 61 0.31
47 54 0.27
48 35 0.17
49 10 0.05
51 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCTGTAGCC
Found at i:23935105 original size:94 final size:94
Alignment explanation
Indices: 23934862--23935221 Score: 387
Period size: 94 Copynumber: 3.9 Consensus size: 94
23934852 TGGGATATAT
* * *
23934862 TGCCGATGCCATGTCCCAGACATGGTCTTCCACTGGCTCTCATA-TACGCGTGCTGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCTGATGCATGTC
23934926 CCAGACATGTCTTACACTAGCA--CATCTCT-
63 CCAGACATGTCTTACACTAGCACTCATCTCTG
* * * * *
23934955 TAGCCAATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCAAGG-TGATGCATGTC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT-ATGGCTGATGCATGTC
**
23935016 TTAGACATGTCTTACACTAGCACTCATCTCTG
63 CCAGACATGTCTTACACTAGCACTCATCTCTG
*
23935048 TGCCGATGCCATGTCTCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCA
* * * *
23935113 GATATGTCTTACACTAGCCCTCGTCT-GG
66 GACATGTCTTACACTAGCACTCATCTCTG
* * * * * * *
23935141 ATGTCGATGCCATGTCCCAGACATAGTCTTACATTGGCTATAATAATGTGGCCGATGCATGTCCC
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCC
*
23935206 AGACATATCTTACACT
65 AGACATGTCTTACACT
23935222 GGCGCACAAG
Statistics
Matches: 224, Mismatches: 31, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
90 31 0.14
91 2 0.01
92 29 0.13
93 30 0.13
94 131 0.58
95 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCA
GACATGTCTTACACTAGCACTCATCTCTG
Found at i:23935606 original size:30 final size:30
Alignment explanation
Indices: 23935565--23935622 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
23935555 AAATTTACAT
* * * *
23935565 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATAACAATTTTACCCCTAGA
23935595 CTTTGGCAAAATAACAATTTTACCCCTA
1 CTTTGGCAAAATAACAATTTTACCCCTA
23935623 TGCCCGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATAACAATTTTACCCCTAGA
Found at i:23949752 original size:21 final size:22
Alignment explanation
Indices: 23949680--23949750 Score: 81
Period size: 21 Copynumber: 3.2 Consensus size: 22
23949670 AACACTTAAA
* *
23949680 AATTAAATAAAACGCTAAACCCTT
1 AATTTAAT-AAACGCTAGACCC-T
**
23949704 AATTTAATAAACAATAG-CCCT
1 AATTTAATAAACGCTAGACCCT
23949725 AATTTAATAAACGCTAGACCCT
1 AATTTAATAAACGCTAGACCCT
23949747 AATT
1 AATT
23949751 AAACAATTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 16 0.40
22 11 0.28
23 6 0.15
24 7 0.17
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (22 bp):
AATTTAATAAACGCTAGACCCT
Found at i:23951628 original size:26 final size:27
Alignment explanation
Indices: 23951576--23951631 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 27
23951566 TTTCTCGAGC
23951576 ATTTTTTTACTTTTAATTCATGTTGTTTT
1 ATTTTTTTACTTTTAATTCA--TTGTTTT
*
23951605 ATTTTTTTATTTTTAATTCA-TGTTTT
1 ATTTTTTTACTTTTAATTCATTGTTTT
23951631 A
1 A
23951632 ATTACTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.27
29 19 0.73
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (27 bp):
ATTTTTTTACTTTTAATTCATTGTTTT
Found at i:23951866 original size:27 final size:27
Alignment explanation
Indices: 23951812--23951867 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
23951802 CATTTTTAAT
* *
23951812 TAATAAATTTTATTTATATAGATAAAA
1 TAATAAATTGTAATTATATAGATAAAA
*
23951839 TAATAAATATGTAATTATAT-GATGAAA
1 TAATAAAT-TGTAATTATATAGATAAAA
23951866 TA
1 TA
23951868 TATATTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (27 bp):
TAATAAATTGTAATTATATAGATAAAA
Found at i:23962151 original size:5 final size:5
Alignment explanation
Indices: 23962141--23962182 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
23962131 GTTGCGAAAC
23962141 TCAAT TCAAT TCAAT TCAAT TCAAT TCAAT TCAAT TCAAT TC
1 TCAAT TCAAT TCAAT TCAAT TCAAT TCAAT TCAAT TCAAT TC
23962183 GAGTTGGATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (5 bp):
TCAAT
Found at i:23966569 original size:43 final size:43
Alignment explanation
Indices: 23966516--23966613 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
23966506 TTCATATTCT
*
23966516 AGAAATATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAG
1 AGAACTATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAG
* *
23966559 AGAACTATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAG
1 AGAACTATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAG
*
23966602 GGAACTATTTTC
1 AGAACTATTTTC
23966614 CCAATTAGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 49 0.98
44 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (43 bp):
AGAACTATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAG
Found at i:23971307 original size:43 final size:42
Alignment explanation
Indices: 23971259--23971351 Score: 141
Period size: 43 Copynumber: 2.2 Consensus size: 42
23971249 ATTCTAGAAA
23971259 TATTTTTATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
23971302 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTT-TTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
*
23971345 TAATTTT
1 TATTTTT
23971352 CCAATTAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 1 0.02
43 44 0.96
44 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (42 bp):
TATTTTTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:23984535 original size:37 final size:37
Alignment explanation
Indices: 23984485--23984563 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
23984475 TTATTACGAA
* * *
23984485 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
23984522 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
23984559 GTCTT
1 GTCTT
23984564 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:23984769 original size:47 final size:47
Alignment explanation
Indices: 23984682--23985304 Score: 886
Period size: 47 Copynumber: 13.1 Consensus size: 47
23984672 CCTTTCGGGA
** * * * * * * *
23984682 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
23984729 CTTGTCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23984776 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23984823 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
23984870 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
23984917 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23984964 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23985011 CTTATCACATATATACACTTTCGCATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23985058 CTTATCACACATATACACTTTCACATTCATCACGTTGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23985105 CTTATCATACATACACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23985152 CTTATCACACATATACACTTTCACATTCATCACATCGTCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23985199 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACACAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23985250 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCAC--ACAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
23985301 CTTA
1 CTTA
23985305 CTATCATTTC
Statistics
Matches: 533, Mismatches: 37, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
47 443 0.83
48 1 0.00
49 7 0.01
50 1 0.00
51 81 0.15
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23989467 original size:80 final size:80
Alignment explanation
Indices: 23989330--23989514 Score: 232
Period size: 80 Copynumber: 2.3 Consensus size: 80
23989320 TTGAATGCTG
* *
23989330 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGTTCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAATAAATCCGGATTAAGTCCCGAAGGCATT
**
23989394 CGTGCGAGTTGTTAAA
66 -GTGCGAGTTACTAAA
* * * * *
23989410 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTG-TTAAATCCGGGTTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAG-TGAATAAATCCGGATTAAGTCCCGAAGGCAT
*
23989473 TGTGTGAGTTACTAAA
65 TGTGCGAGTTACTAAA
*
23989489 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23989515 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 36 0.40
80 46 0.51
81 9 0.10
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAATAAATCCGGATTAAGTCCCGAAGGCATT
GTGCGAGTTACTAAA
Found at i:23989489 original size:39 final size:39
Alignment explanation
Indices: 23989330--23989512 Score: 204
Period size: 40 Copynumber: 4.6 Consensus size: 39
23989320 TTGAATGCTG
* * * * * *
23989330 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTATTAAA
* * *
23989370 TCCGGATTAAGTTCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTATTAAA
*
23989410 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTATTAAA
* * *
23989450 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTATTAAA
* *
23989489 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
23989513 TGAACGAGGA
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.30
40 82 0.66
41 6 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTATTAAA
Found at i:23989532 original size:79 final size:80
Alignment explanation
Indices: 23989330--23989547 Score: 219
Period size: 79 Copynumber: 2.8 Consensus size: 80
23989320 TTGAATGCTG
** * * * *
23989330 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-ATATATCCGGATTAAGTTCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAAC-GAG-GAGCTATATCCGGGTTAAGTCCCGAAGGCAT
**
23989393 TCGTGCGAGTTGTTAAA
64 TCGTGCGAGTTACTAAA
* ** ** * * *
23989410 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGGTTAAGTCCCGAAGGCATTC
*
23989474 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
23989489 TCCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGGTTAAGTCCCGAAGG
23989548 TACGTGATTT
Statistics
Matches: 114, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
78 14 0.12
79 47 0.41
80 46 0.40
81 7 0.06
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:23990563 original size:83 final size:83
Alignment explanation
Indices: 23990424--23990591 Score: 327
Period size: 83 Copynumber: 2.0 Consensus size: 83
23990414 AGTAAGAGAT
23990424 ATTCGGGTTCTTGTGGAACAGGGCCAGAACAGTTTCTGGATTCCCTGTTCCGACTTTGGAAATTC
1 ATTCGGGTTCTTGTGGAACAGGGCCAGAACAGTTTCTGGATTCCCTGTTCCGACTTTGGAAATTC
23990489 ACTATAAATTGACCAGAG
66 ACTATAAATTGACCAGAG
23990507 ATTCGGGTTCTTGTGGAACAGGGCCAGAACAGTTTCTGGATTCCCTGTTCCGACTTTGGAAATTC
1 ATTCGGGTTCTTGTGGAACAGGGCCAGAACAGTTTCTGGATTCCCTGTTCCGACTTTGGAAATTC
*
23990572 ACTATAAATTGACTAGAG
66 ACTATAAATTGACCAGAG
23990590 AT
1 AT
23990592 AATTAGGGGT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (83 bp):
ATTCGGGTTCTTGTGGAACAGGGCCAGAACAGTTTCTGGATTCCCTGTTCCGACTTTGGAAATTC
ACTATAAATTGACCAGAG
Found at i:23993580 original size:72 final size:72
Alignment explanation
Indices: 23993463--23993608 Score: 265
Period size: 72 Copynumber: 2.0 Consensus size: 72
23993453 GTTCATTGAT
23993463 GACATTTTGGTCTATTCAAGAGACGAGACCGAACATGCTGAGCATCTGAGGCTAGTGCTGCAAAT
1 GACATTTTGGTCTATTCAAGAGACGAGACCGAACATGCTGAGCATCTGAGGCTAGTGCTGCAAAT
23993528 TTTACGG
66 TTTACGG
* *
23993535 GACATTTTGGTCTATTCAAGAGATGAGACCGAACATGCTGGGCATCTGAGGCTAGTGCTGCAAAT
1 GACATTTTGGTCTATTCAAGAGACGAGACCGAACATGCTGAGCATCTGAGGCTAGTGCTGCAAAT
*
23993600 TTTGCGG
66 TTTACGG
23993607 GA
1 GA
23993609 TAAGCAGTTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (72 bp):
GACATTTTGGTCTATTCAAGAGACGAGACCGAACATGCTGAGCATCTGAGGCTAGTGCTGCAAAT
TTTACGG
Found at i:23997634 original size:39 final size:40
Alignment explanation
Indices: 23997430--23997652 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
23997420 TTGAATGCTG
* * * * * *
23997430 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
23997470 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
23997510 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
23997550 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
23997590 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
23997629 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
23997653 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 34 0.21
40 118 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:23997672 original size:79 final size:80
Alignment explanation
Indices: 23997505--23997687 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
23997495 GTGCGAGATA
** * *
23997505 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACAAAAACCGGGCTAAGTCCCGAAGG
** **
23997570 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
23997585 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACAAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACAAAAACCGGGCTAAGTCCCGAAGG
*
23997649 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
23997664 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
23997688 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACAAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:24009645 original size:15 final size:13
Alignment explanation
Indices: 24009616--24009642 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24009606 GCTCGGCAAG
24009616 GACACGCCTGTGT
1 GACACGCCTGTGT
24009629 GACACGCCTGTGT
1 GACACGCCTGTGT
24009642 G
1 G
24009643 TGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACACGCCTGTGT
Found at i:24013670 original size:26 final size:26
Alignment explanation
Indices: 24013606--24013671 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
24013596 ATATTAATTG
* * *
24013606 TAAAAGAA-TTAAATTTTTATAAGCAA
1 TAAAA-AATTTAAATTGTAATAAGAAA
*
24013632 T-AAAAATAATAAATTGTAATAAGAAA
1 TAAAAAAT-TTAAATTGTAATAAGAAA
24013658 TAAAAAATTTAAAT
1 TAAAAAATTTAAAT
24013672 CAATTCATCT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
24 2 0.06
25 3 0.09
26 21 0.66
27 6 0.19
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.32
Consensus pattern (26 bp):
TAAAAAATTTAAATTGTAATAAGAAA
Found at i:24015044 original size:46 final size:45
Alignment explanation
Indices: 24014944--24015077 Score: 169
Period size: 46 Copynumber: 2.9 Consensus size: 45
24014934 ATTTAGTAAT
* *
24014944 TTTTGTTTTAGGGTTCATATGAAATTGGGTTTTTTTAATTTGCAA
1 TTTTGTTTTAGGGTTCATATGAAATTGGGATTTTTTAGTTTGCAA
* * * *
24014989 TATTATTTTAGGGTTTATACGAAATTGAGGATTTTTTAGTTTGCAA
1 TTTTGTTTTAGGGTTCATATGAAATTG-GGATTTTTTAGTTTGCAA
* * *
24015035 TTTTGTTTTAAGGTTCATATGAATTTGGGGAGTTTTTAGTTTG
1 TTTTGTTTTAGGGTTCATATGAAATT-GGGATTTTTTAGTTTG
24015078 TTTGATTTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
45 23 0.31
46 50 0.68
47 1 0.01
ACGTcount: A:0.23, C:0.04, G:0.22, T:0.51
Consensus pattern (45 bp):
TTTTGTTTTAGGGTTCATATGAAATTGGGATTTTTTAGTTTGCAA
Found at i:24017946 original size:16 final size:17
Alignment explanation
Indices: 24017925--24017965 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
24017915 ATATTTTTTT
24017925 AAAAATTATTAGTAT-A
1 AAAAATTATTAGTATGA
24017941 AAAAATTATTAGTATGA
1 AAAAATTATTAGTATGA
*
24017958 TAAAATTA
1 AAAAATTA
24017966 AATACTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (17 bp):
AAAAATTATTAGTATGA
Found at i:24025984 original size:48 final size:46
Alignment explanation
Indices: 24025886--24026104 Score: 234
Period size: 47 Copynumber: 4.7 Consensus size: 46
24025876 TTTGTGTGCT
* *
24025886 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATT---ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-G--GCATTGAGACGAGAGCC
* *
24025932 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACGAGAGCC
* *
24025980 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATT---ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-G--GCATTGAGACGAGAGCC
* *
24026026 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACGAGAGCC
24026074 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
24026105 TACGAGATGT
Statistics
Matches: 147, Mismatches: 13, Indels: 26
0.79 0.07 0.14
Matches are distributed among these distances:
45 8 0.05
46 38 0.26
47 55 0.37
48 42 0.29
49 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGAGCC
Found at i:24026044 original size:94 final size:94
Alignment explanation
Indices: 24025883--24026101 Score: 438
Period size: 94 Copynumber: 2.3 Consensus size: 94
24025873 TTATTTGTGT
24025883 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTT
24025948 TGGGACATGGCATCGGCATTGAGACGAGA
66 TGGGACATGGCATCGGCATTGAGACGAGA
24025977 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTT
24026042 TGGGACATGGCATCGGCATTGAGACGAGA
66 TGGGACATGGCATCGGCATTGAGACGAGA
24026071 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
24026102 GGCTACGAGA
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 125 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTT
TGGGACATGGCATCGGCATTGAGACGAGA
Found at i:24026326 original size:47 final size:47
Alignment explanation
Indices: 24025886--24026342 Score: 216
Period size: 47 Copynumber: 9.7 Consensus size: 47
24025876 TTTGTGTGCT
24025886 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATT-AT-GAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTGATGGAGAGCC
* * *
24025932 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGA-GACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATG--GAGAGCC
24025980 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATT-AT-GAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTGATGGAGAGCC
* * *
24026026 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGA-GACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATG--GAGAGCC
* * *
24026074 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--T-A-CGAGATGTATC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATGGAGA-G--CC
*** * * * * * * **
24026118 AACATAAGACCATGCCTAGGACAAGGCATC-AGCA-CGTATAGAGGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CATTG-ATGGA-GAGCC
* ** * * * *
24026166 TGTGTAAGACTGTGTCTGGGAGATGGCATCGGCATGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTG--ATG-GAGAGCC
* * * * * *
24026216 AGTGTAAGACCATGTCTGGGACATGGCGTC-AGCCTCGATTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CATTGA--TGGAGAGCC
* * *
24026265 AGTGTAAAACCATGTTTGGGACATAGCATCGAC-TTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATGGA-GAGCC
* * *
24026312 AGTGTAAGACCATGTTTGGGATATGTCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
24026343 GTATTATACC
Statistics
Matches: 312, Mismatches: 63, Indels: 71
0.70 0.14 0.16
Matches are distributed among these distances:
41 4 0.01
42 1 0.00
43 1 0.00
44 7 0.02
45 19 0.06
46 48 0.15
47 85 0.27
48 68 0.22
49 37 0.12
50 39 0.12
51 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATGGAGAGCC
Found at i:24036476 original size:37 final size:37
Alignment explanation
Indices: 24036416--24036493 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
24036406 TATTACGAAA
* *
24036416 TCTTACCCGGACATAATCTCCACACGAAGTTATCGAG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGAG
* *
24036453 TCTTACCCGGACAAAAT-TCCCACACGCAGTCATCGGG
1 TCTTACCCGGACAAAATCT-CCACACGAAGTCATCGAG
24036490 TCTT
1 TCTT
24036494 TAGTTTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 1 0.03
37 35 0.97
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGAG
Found at i:24036823 original size:117 final size:117
Alignment explanation
Indices: 24036668--24036901 Score: 450
Period size: 117 Copynumber: 2.0 Consensus size: 117
24036658 CATTCAGCCT
*
24036668 CTAATTCAAATCCATGAATTTAAGGTGATTTTCTAAATTCATGTTACTGCTGCTGTTCTGAGCAG
1 CTAATTCAAATCCATGAATTTAAGGTGATTTTCTAAATTCATGTTACTGCTGCTGTCCTGAGCAG
24036733 GTTTATCACAATTTTACTCTTCTGACATATCCTTTCAGCACTTCATAATATC
66 GTTTATCACAATTTTACTCTTCTGACATATCCTTTCAGCACTTCATAATATC
*
24036785 CTAATTCAAATCCATGAATTTATGGTGATTTTCTAAATTCATGTTACTGCTGCTGTCCTGAGCAG
1 CTAATTCAAATCCATGAATTTAAGGTGATTTTCTAAATTCATGTTACTGCTGCTGTCCTGAGCAG
24036850 GTTTATCACAATTTTACTCTTCTGACATATCCTTTCAGCACTTCATAATATC
66 GTTTATCACAATTTTACTCTTCTGACATATCCTTTCAGCACTTCATAATATC
24036902 ATATCCATTT
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 115 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (117 bp):
CTAATTCAAATCCATGAATTTAAGGTGATTTTCTAAATTCATGTTACTGCTGCTGTCCTGAGCAG
GTTTATCACAATTTTACTCTTCTGACATATCCTTTCAGCACTTCATAATATC
Found at i:24039878 original size:40 final size:38
Alignment explanation
Indices: 24039838--24040059 Score: 167
Period size: 40 Copynumber: 5.6 Consensus size: 38
24039828 TATGATTGCT
* *
24039838 CTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATATCACC-GCACGAATGC
* * ** *
24039877 TCTTCGGAACTTAGTCCGGATACCTCACTAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATATATCAC-CGCACGAATGC
** * * * *
24039917 TCTTCGAAATTTAGCCCGGATTTAGTAACTCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATA-TCAC-CGCACGAATGC
* *
24039958 CTTCGGGTCTTAGCCCGGATATATCAACTTGCAC-AATTGC
1 CTTCGGGACTTAGCCCGGATATATC-AC-CGCACGAA-TGC
* * *
24039998 CTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATATC-A-CCGCACGAATGC
*
24040038 CTTCGGGTCTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
24040060 CATTCAAATG
Statistics
Matches: 151, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
39 3 0.02
40 133 0.88
41 15 0.10
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (38 bp):
CTTCGGGACTTAGCCCGGATATATCACCGCACGAATGC
Found at i:24039970 original size:80 final size:80
Alignment explanation
Indices: 24039848--24040058 Score: 209
Period size: 80 Copynumber: 2.6 Consensus size: 80
24039838 CTTCGGGACC
* * ** * *
24039848 TAGCCCGGATATAAC-AC-CAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCTC-ACTAGCA
1 TAGCCCGGATATATCAACTC-GCACAAATGC-CTTCGGGTCTTAGCCCGGATACATCAACTAGCA
24039910 CGAA-TGCTCTTCGAAAT-T
64 C-AATTGC-CTTCG-AATCT
* * * *
24039928 TAGCCCGGATTTAGT-AACTCGCACCAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCAC
1 TAGCCCGGATATA-TCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATACATCAACTAGCAC
**
24039992 AATTGCCTTCGGGTCT
65 AATTGCCTTCGAATCT
*
24040008 TAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA
1 TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA
24040059 TCATTCAAAT
Statistics
Matches: 110, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
79 2 0.02
80 86 0.78
81 21 0.19
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (80 bp):
TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATACATCAACTAGCACA
ATTGCCTTCGAATCT
Found at i:24040389 original size:29 final size:29
Alignment explanation
Indices: 24040347--24040425 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
24040337 CTTAATAATC
*
24040347 AACCACGCACACTTAGTGCCATGGACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
* *
24040377 AACTCGGACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
24040406 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
24040426 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.23
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Done.