Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 88 of 427
Found at i:22959474 original size:27 final size:27
Alignment explanation
Indices: 22959263--22959474 Score: 241
Period size: 27 Copynumber: 7.9 Consensus size: 27
22959253 AATTACAAAG
*
22959263 TACCCCCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* * *
22959290 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
22959317 TACCC-CTGATTTACATAATTA-TCGTTT
1 TACCCTC-GATTTACAGAATTACT-GTTT
* *
22959344 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* **
22959371 TAACCTCGATTTACAGAATTACAATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
22959398 TGCCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
22959425 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
22959452 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
22959475 AAAATACCCT
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 158 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:22959482 original size:27 final size:27
Alignment explanation
Indices: 22959374--22959675 Score: 116
Period size: 27 Copynumber: 11.1 Consensus size: 27
22959364 ACCGTTTTAA
* ** *
22959374 CCTCGATTTACAGAATTAC-AATTTTGC
1 CCTCGATTTACAAAATTACTAA-AATAC
* * ***
22959401 CCTCGATTTATAGAATTACTATTTTAC
1 CCTCGATTTACAAAATTACTAAAATAC
* * ****
22959428 CCTTGATTTACAGAATTACTGTTTTAC
1 CCTCGATTTACAAAATTACTAAAATAC
22959455 CCTCGATTTACAAAATTACTAAAATAC
1 CCTCGATTTACAAAATTACTAAAATAC
* ** *
22959482 CCT-TAGTTTGTAAAATTACCAAAATAC
1 CCTCGA-TTTACAAAATTACTAAAATAC
* **
22959509 CC-CTAGTTTGTAAAATTA-TCAAAATAC
1 CCTCGA-TTTACAAAATTACT-AAAATAC
* * *** **
22959536 CCTTGGTTTGTGAAATTACCGAAATAC
1 CCTCGATTTACAAAATTACTAAAATAC
* ** *
22959563 CCTCAATTTGTAAAATTACCAAAATAC
1 CCTCGATTTACAAAATTACTAAAATAC
*
22959590 CC-CTGATTTACAAAGTTAC-AGAAATAC
1 CCTC-GATTTACAAAATTACTA-AAATAC
*
22959617 CCTTGACTTT-CTAAAAATTA-TAGAAATAC
1 CCTCGA-TTTAC--AAAATTACTA-AAATAC
* * *
22959646 CATTGGTTTACAAAATTACTAAAATAC
1 CCTCGATTTACAAAATTACTAAAATAC
22959673 CCT
1 CCT
22959676 TGGTTTGTAG
Statistics
Matches: 223, Mismatches: 37, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
26 3 0.01
27 192 0.86
28 9 0.04
29 19 0.09
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
CCTCGATTTACAAAATTACTAAAATAC
Found at i:22959499 original size:81 final size:81
Alignment explanation
Indices: 22959263--22959500 Score: 196
Period size: 81 Copynumber: 2.9 Consensus size: 81
22959253 AATTACAAAG
* * * * * * ** **
22959263 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCCT-GAT
1 TACCCTCGACTTACAGAATTACCGTTTTAACCTCGATTTACAAAATTACAATAATA-CCCTAGAT
* * *
22959327 TTACATAATTA-TCGTTT
65 TTATAAAATTACT-ATTT
* ** * *
22959344 TACCCTCGACTTACAGAATTACCGTTTTAACCTCGATTTACAGAATTACAATTTTGCCCTCGATT
1 TACCCTCGACTTACAGAATTACCGTTTTAACCTCGATTTACAAAATTACAATAATACCCTAGATT
*
22959409 TATAGAATTACTATTT
66 TATAAAATTACTATTT
* * * *
22959425 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAA-AATACCCTTAG-
1 TACCCTCGACTTACAGAATTACCGTTTTAACCTCGATTTACAAAATTAC-AATAATACCC-TAGA
*
22959488 TTTGTAAAATTAC
64 TTTATAAAATTAC
22959501 CAAAATACCC
Statistics
Matches: 130, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
80 4 0.03
81 121 0.93
82 5 0.04
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (81 bp):
TACCCTCGACTTACAGAATTACCGTTTTAACCTCGATTTACAAAATTACAATAATACCCTAGATT
TATAAAATTACTATTT
Found at i:22959678 original size:27 final size:27
Alignment explanation
Indices: 22959425--22959681 Score: 144
Period size: 27 Copynumber: 9.4 Consensus size: 27
22959415 ATTACTATTT
* * ****
22959425 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGGTTTACAAAATTACTAAAA
* *
22959452 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* ** *
22959479 TACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * **
22959506 TACCCCTAGTTTGTAAAATTA-TCAAAA
1 TACCCTTGGTTTACAAAATTACT-AAAA
*** **
22959533 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*** ** *
22959560 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * *
22959587 TACCCCTGATTTACAAAGTTAC-AGAAA
1 TACCCTTGGTTTACAAAATTACTA-AAA
*
22959614 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACTA-AAA
*
22959643 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
22959670 TACCCTTGGTTT
1 TACCCTTGGTTT
22959682 GTAGATTTAC
Statistics
Matches: 185, Mismatches: 36, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
26 1 0.01
27 157 0.85
28 8 0.04
29 19 0.10
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTAAAA
Found at i:22959691 original size:27 final size:27
Alignment explanation
Indices: 22959466--22959704 Score: 203
Period size: 27 Copynumber: 8.8 Consensus size: 27
22959456 CTCGATTTAC
* *
22959466 AAAATTACTAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
22959493 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
22959520 AAAATTATCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * ***
22959547 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
22959574 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
22959601 AAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCA-AAATACCCTTG-GTTTGT
* * **
22959629 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACCA-AAATACCCTTGGTTTGT
*
22959657 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
22959684 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
22959705 TAGGATGAAA
Statistics
Matches: 172, Mismatches: 36, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
26 2 0.01
27 144 0.84
28 8 0.05
29 18 0.10
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:22959772 original size:27 final size:27
Alignment explanation
Indices: 22959722--22959798 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
22959712 AAATGACTAA
* *
22959722 AATACCCCTATA-GGTAAAAAGACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
*
22959748 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
*
22959775 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
22959799 GAATATGCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
25 1 0.02
26 9 0.21
27 32 0.74
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:22961054 original size:9 final size:9
Alignment explanation
Indices: 22961042--22961118 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
22961032 TTTGATAAAC
22961042 ATGATATGT
1 ATGATATGT
*
22961051 ATGATATGCAC
1 ATGATATG--T
22961062 ATGATATGT
1 ATGATATGT
* *
22961071 ATGATGTGCAC
1 ATGATATG--T
*
22961082 ATGACATGT
1 ATGATATGT
*
22961091 ATGATATGCAC
1 ATGATATG--T
22961102 ATGATATGT
1 ATGATATGT
22961111 ATGATATG
1 ATGATATG
22961119 CACACGAGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:22961067 original size:11 final size:11
Alignment explanation
Indices: 22961051--22961122 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
22961041 CATGATATGT
22961051 ATGATATGCAC
1 ATGATATGCAC
*
22961062 ATGATATG--T
1 ATGATATGCAC
*
22961071 ATGATGTGCAC
1 ATGATATGCAC
* *
22961082 ATGACATG--T
1 ATGATATGCAC
22961091 ATGATATGCAC
1 ATGATATGCAC
*
22961102 ATGATATG--T
1 ATGATATGCAC
22961111 ATGATATGCAC
1 ATGATATGCAC
22961122 A
1 A
22961123 CGAGATGTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
9 22 0.49
11 23 0.51
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:22961130 original size:20 final size:20
Alignment explanation
Indices: 22961040--22961122 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
22961030 ATTTTGATAA
22961040 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
22961060 ACATGATATGTATGATGTGC
1 ACATGATATGTATGATATGC
*
22961080 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
22961100 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
22961120 ACA
1 ACA
22961123 CGAGATGTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:22961233 original size:24 final size:24
Alignment explanation
Indices: 22961177--22961366 Score: 260
Period size: 24 Copynumber: 8.0 Consensus size: 24
22961167 GAGGAAGTGA
*
22961177 AAAAGGGCTTATGCCCTAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
22961200 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
22961224 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
22961248 AAAAGGGCTTATGCCCAAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
22961272 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
22961295 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
22961319 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
22961343 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
22961367 ATGATAAAGC
Statistics
Matches: 150, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
23 42 0.28
24 97 0.65
25 11 0.07
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:22961246 original size:47 final size:47
Alignment explanation
Indices: 22961177--22961345 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
22961167 GAGGAAGTGA
*
22961177 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* *
22961224 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCAAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* *
22961272 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
22961319 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
22961346 AGAGGCTAGG
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
47 68 0.61
48 44 0.39
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:22961300 original size:71 final size:71
Alignment explanation
Indices: 22961176--22961366 Score: 260
Period size: 71 Copynumber: 2.7 Consensus size: 71
22961166 GGAGGAAGTG
* * *
22961176 AAAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCAAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
22961241 AGTTAT
66 AGTTAT
* *
22961247 CAAAAGGGCTTATGCCCAAGTTATCAAAAGGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCCC
1 AAAAAGGGCTTATGCCCAAGTTAT-AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
22961311 CAGTTAT
65 CAGTTAT
* * *
22961318 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCAAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
22961367 ATGATAAAGC
Statistics
Matches: 107, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
71 74 0.69
72 33 0.31
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (71 bp):
AAAAAGGGCTTATGCCCAAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:22961598 original size:31 final size:31
Alignment explanation
Indices: 22961560--22961623 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22961550 CGTTTACCGT
*
22961560 AAAGGCTTCAGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
**
22961591 AAAGGCTTCAGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
22961622 AA
1 AA
22961624 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:22963401 original size:40 final size:40
Alignment explanation
Indices: 22963338--22963415 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
22963328 CGCGGTACCT
22963338 TATGGTGTGTAGGATTGGATGGGTTGATTAAATCCCCATA
1 TATGGTGTGTAGGATTGGATGGGTTGATTAAATCCCCATA
* **
22963378 TATGGTGTGTAGGGA-TGGGTGGGTTGATTTTATCCCCA
1 TATGGTGTGTA-GGATTGGATGGGTTGATTAAATCCCCA
22963416 CATGGTGTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 31 0.91
41 3 0.09
ACGTcount: A:0.21, C:0.10, G:0.33, T:0.36
Consensus pattern (40 bp):
TATGGTGTGTAGGATTGGATGGGTTGATTAAATCCCCATA
Found at i:22973660 original size:21 final size:21
Alignment explanation
Indices: 22973636--22973705 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
22973626 TGATCTGAAC
22973636 TCATTAAGTTGTGGTCTGAGT
1 TCATTAAGTTGTGGTCTGAGT
* *
22973657 TCATGATA-TATGTGGCATCTGAACT
1 TCATTA-AGT-TGTGG--TCTG-AGT
*
22973682 T-ATTGAGTTGTGGTCTGAGT
1 TCATTAAGTTGTGGTCTGAGT
22973702 TCAT
1 TCAT
22973706 GATGTATGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
20 3 0.08
21 12 0.32
22 6 0.16
23 6 0.16
24 7 0.19
25 3 0.08
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.41
Consensus pattern (21 bp):
TCATTAAGTTGTGGTCTGAGT
Found at i:22973691 original size:45 final size:45
Alignment explanation
Indices: 22973628--22973715 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
22973618 GAACTATGTG
22973628 ATCTGAACTCATTAAGTTGTGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTCATTAAGTTGTGGTCTGAGTTCATGATATATGTGGC
* * *
22973673 ATCTGAACTTATTGAGTTGTGGTCTGAGTTCATGATGTATGTG
1 ATCTGAACTCATTAAGTTGTGGTCTGAGTTCATGATATATGTG
22973716 ACACATGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (45 bp):
ATCTGAACTCATTAAGTTGTGGTCTGAGTTCATGATATATGTGGC
Found at i:22976240 original size:54 final size:54
Alignment explanation
Indices: 22976181--22976291 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
22976171 ATTTATACAA
22976181 ACATTCAATTAATAAAATTATTGAATGCAATATAAGTGGAAGAATAAAGGGACG
1 ACATTCAATTAATAAAATTATTGAATGCAATATAAGTGGAAGAATAAAGGGACG
22976235 ACATTCAATTAATAAAATTATTGAATGCAATATAAGTGGAAGAATAAAGGGACG
1 ACATTCAATTAATAAAATTATTGAATGCAATATAAGTGGAAGAATAAAGGGACG
22976289 ACA
1 ACA
22976292 ATGCTCAAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.25
Consensus pattern (54 bp):
ACATTCAATTAATAAAATTATTGAATGCAATATAAGTGGAAGAATAAAGGGACG
Found at i:22991547 original size:27 final size:28
Alignment explanation
Indices: 22991491--22991558 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 28
22991481 AAATTTGTAC
22991491 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
22991519 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
22991546 AGCACTGAGTGTG
1 AGCACTAAGTGTG
22991559 TGGACTCACT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:22998705 original size:93 final size:93
Alignment explanation
Indices: 22998593--22998764 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
22998583 GCCCATAAGT
*
22998593 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACGCTCACATCCATAAGTGAACTCGGACTCAACTCA
22998657 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* *
22998686 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCGGACTCAACTCAA
22998751 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
22998765 CAAATATCCC
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:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:22998758 original size:46 final size:46
Alignment explanation
Indices: 22998585--22998760 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
22998575 TGTAACCCGC
* * *
22998585 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGCTCGCAT
* *
22998631 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
22998681 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
22998724 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
22998761 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 4 0.04
46 66 0.59
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:23001083 original size:27 final size:26
Alignment explanation
Indices: 23001036--23001086 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
23001026 CGAGGCTGCT
*
23001036 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
23001062 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
23001087 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:23001917 original size:30 final size:31
Alignment explanation
Indices: 23001847--23001931 Score: 129
Period size: 30 Copynumber: 2.8 Consensus size: 31
23001837 TCAATCTCAA
23001847 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* * *
23001877 CATGTCACTGGGCCGAAGGCTTTTCATTA-T
1 CATATCACTGGGCCGAAGCCTTTACATTATT
23001907 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
23001932 TGTAAACGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
30 27 0.56
31 21 0.44
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:23002196 original size:25 final size:23
Alignment explanation
Indices: 23002123--23002196 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 23
23002113 GCTTTATCAT
** *
23002123 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCC-CTTTTG
23002148 ATAACTGGGGCAAAGCCCTTTTTG
1 ATAACTGGGGCAAAGCCC-TTTTG
*
23002172 ATAAACTGGGGCAAAATCCCTTTTG
1 AT-AACTGGGGC-AAAGCCCTTTTG
23002197 CACTTCCTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
23 1 0.02
24 13 0.31
25 22 0.52
26 6 0.14
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (23 bp):
ATAACTGGGGCAAAGCCCTTTTG
Found at i:23010356 original size:29 final size:30
Alignment explanation
Indices: 23010300--23010404 Score: 103
Period size: 29 Copynumber: 3.6 Consensus size: 30
23010290 GTGAGCATGA
* * *
23010300 ATATGAATGTGA-CTGGGCCT-AACGGGCC
1 ATATAAATGTGATTTGGGCCTAAAAGGGCC
23010328 ATATAAATGTGATTTGGGCC-AAATA-GGCC
1 ATATAAATGTGATTTGGGCCTAAA-AGGGCC
* *
23010357 ATATACAGGTGATTTGGGCCTAAAAGGGCC
1 ATATAAATGTGATTTGGGCCTAAAAGGGCC
* *
23010387 ATATGAATATGA-TTGGGC
1 ATATAAATGTGATTTGGGC
23010405 TTAATGGGCC
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
28 11 0.17
29 37 0.59
30 15 0.24
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (30 bp):
ATATAAATGTGATTTGGGCCTAAAAGGGCC
Found at i:23010403 original size:58 final size:58
Alignment explanation
Indices: 23010313--23010424 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
23010303 TGAATGTGAC
* * *
23010313 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCAAATAGGCCATATACAGGTGATT
1 TGGGCCTAAAGGGCCATATAAATATGATTTGGGCCAAATAGGCCAGATACAGGTGATT
* ** *
23010371 TGGGCCTAAAAGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCT-AAAGGGCCATATAAATATGATTTGGGCCAAATAGGCCAGATACAGGT
23010425 ATGTGAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
58 29 0.63
59 17 0.37
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (58 bp):
TGGGCCTAAAGGGCCATATAAATATGATTTGGGCCAAATAGGCCAGATACAGGTGATT
Found at i:23010733 original size:26 final size:27
Alignment explanation
Indices: 23010704--23010755 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
23010694 TAATTAAGGG
* * *
23010704 AAAATTACTAAAATGCCCCTAAGGGTA
1 AAAATGACCAAAATACCCCTAAGGGTA
23010731 AAAATGACCAAAATACCCCT-AGGGT
1 AAAATGACCAAAATACCCCTAAGGGT
23010756 TTGAATGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.19
Consensus pattern (27 bp):
AAAATGACCAAAATACCCCTAAGGGTA
Found at i:23012405 original size:17 final size:17
Alignment explanation
Indices: 23012380--23012414 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
23012370 GGAGCGGGTC
23012380 ACTTAGGAGTTTTTCAA
1 ACTTAGGAGTTTTTCAA
*
23012397 ACTTGGGAGTTTTTCAA
1 ACTTAGGAGTTTTTCAA
23012414 A
1 A
23012415 GCTGCATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (17 bp):
ACTTAGGAGTTTTTCAA
Found at i:23014843 original size:39 final size:39
Alignment explanation
Indices: 23014743--23014965 Score: 263
Period size: 39 Copynumber: 5.6 Consensus size: 39
23014733 TCGAATGATG
* * *
23014743 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TTAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
23014782 ATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
*
23014823 TCCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
23014862 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
23014901 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
23014939 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
23014966 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
38 1 0.01
39 104 0.65
40 44 0.28
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:23023084 original size:39 final size:40
Alignment explanation
Indices: 23022983--23023204 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
23022973 TCGAATGATG
* * *
23022983 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TTAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
23023022 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
23023063 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
23023102 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAG-TACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
23023140 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
23023178 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
23023205 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
38 37 0.23
39 70 0.43
40 46 0.28
41 11 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:23023152 original size:77 final size:79
Alignment explanation
Indices: 23022983--23023202 Score: 295
Period size: 77 Copynumber: 2.8 Consensus size: 79
23022973 TCGAATGATG
* * * * *
23022983 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGATTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
* *
23023047 TGTGCGAGTTACTAAT
64 GGTGCGAGTTACTAAA
23023063 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATTG
23023126 GTGCGAG-TACTAAA
65 GTGCGAGTTACTAAA
* * *
23023140 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
23023203 TGAACGAGTA
Statistics
Matches: 127, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
77 52 0.41
78 32 0.25
79 25 0.20
80 18 0.14
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTGG
TGCGAGTTACTAAA
Found at i:23028124 original size:17 final size:17
Alignment explanation
Indices: 23028102--23028139 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
23028092 TGATTATTGT
23028102 GCTATGGGATATATGTA
1 GCTATGGGATATATGTA
23028119 GCTATGGGATATATGTA
1 GCTATGGGATATATGTA
23028136 GCTA
1 GCTA
23028140 GGTCGCATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (17 bp):
GCTATGGGATATATGTA
Found at i:23030862 original size:16 final size:16
Alignment explanation
Indices: 23030841--23030872 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23030831 GTTGTAACGC
23030841 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
*
23030857 CCCAAAAGTCTCGAAA
1 CCCAAAAATCTCGAAA
23030873 TCTTAGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.31, G:0.09, T:0.12
Consensus pattern (16 bp):
CCCAAAAATCTCGAAA
Found at i:23050083 original size:46 final size:46
Alignment explanation
Indices: 23050033--23050208 Score: 175
Period size: 46 Copynumber: 3.8 Consensus size: 46
23050023 TGGTTGAGCA
23050033 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23050079 TCCGAACTCGTTGACTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
23050124 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23050172 -CCTGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23050209 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 12, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
42 6 0.06
43 5 0.05
45 4 0.04
46 55 0.52
47 24 0.23
48 2 0.02
50 4 0.04
51 6 0.06
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:23050191 original size:93 final size:93
Alignment explanation
Indices: 23050030--23050199 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
23050020 GGATGGTTGA
* *
23050030 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGACT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGACT
23050095 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
* *
23050123 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAC
*
23050187 TTGAGTTCGAGTT
65 TTGAGTCCGAGTT
23050200 CGCTTATGGG
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGACT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:23054048 original size:40 final size:40
Alignment explanation
Indices: 23053920--23054050 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
23053910 TATGCTGGAA
* * * *
23053920 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
23053960 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
23054000 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
23054040 ATTATATCCGG
1 ATTATATCCGG
23054051 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:23059935 original size:28 final size:28
Alignment explanation
Indices: 23059866--23059966 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
23059856 GACAAGATTG
* * * *
23059866 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
23059896 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
23059924 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
23059953 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
23059967 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:23097316 original size:68 final size:70
Alignment explanation
Indices: 23097244--23097441 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
23097234 ACACCCTGTA
* * * *
23097244 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
23097306 ATAAAT
65 ATAAAT
*
23097312 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
23097377 ATAAAT
65 ATAAAT
*
23097383 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
23097442 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:23097355 original size:41 final size:41
Alignment explanation
Indices: 23097310--23097427 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
23097300 TGAAAGATAA
23097310 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
23097351 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23097381 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23097422 ATGTAG
1 ATGTAG
23097428 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:23097367 original size:71 final size:71
Alignment explanation
Indices: 23097278--23097441 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
23097268 GAGATGTATC
23097278 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23097343 AGGACA
66 AGGACA
23097349 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23097414 AGGACA
66 AGGACA
23097420 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
23097442 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:23100397 original size:27 final size:27
Alignment explanation
Indices: 23100299--23100388 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
23100289 TTTAGTTTAC
* * *
23100299 TAAAATTACTGAAACACCCT-TAGTTTG
1 TAAAATTACTGAAATACCCTCGA-CTTG
* *
23100326 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGACTTG
*
23100353 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCGACTTG
23100380 TAAAATTAC
1 TAAAATTAC
23100389 CAAAGTACCC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGACTTG
Found at i:23100398 original size:54 final size:53
Alignment explanation
Indices: 23100299--23100404 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
23100289 TTTAGTTTAC
* *
23100299 TAAAATTACTGAAACACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAACACCCTTAGCTTGTAAAAATACTCAAATACCC-CGATTTG
* * *
23100353 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCGATTT
1 TAAAATTACTGAAACACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCGATTT
23100405 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 14 0.31
54 31 0.69
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (53 bp):
TAAAATTACTGAAACACCCTTAGCTTGTAAAAATACTCAAATACCCCGATTTG
Found at i:23100439 original size:27 final size:27
Alignment explanation
Indices: 23100394--23100576 Score: 224
Period size: 27 Copynumber: 6.8 Consensus size: 27
23100384 ATTACCAAAG
* *
23100394 TACCC-CGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * * *
23100420 TACCCCCAATTTATATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
23100447 TACCCTCGATTTACAAAATTACCCTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
23100474 TACCTTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
23100501 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * * *
23100528 TACCTTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
23100555 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
23100577 TAAAATACCC
Statistics
Matches: 131, Mismatches: 25, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
26 5 0.04
27 126 0.96
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:23100467 original size:54 final size:54
Alignment explanation
Indices: 23100394--23100576 Score: 260
Period size: 54 Copynumber: 3.4 Consensus size: 54
23100384 ATTACCAAAG
* * ** * * * *
23100394 TACCC-CGATTTACAGAATTATCGTTTTACCCCCAATTTATATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCTTCGATTTACAGAATTACTGTTT
*
23100447 TACCCTCGATTTACAAAATTACCCTTTTACCTTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCTTCGATTTACAGAATTACTGTTT
* *
23100501 TACCCTCGATTTATAAAATTACCGTTTTACCTTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCTTCGATTTACAGAATTACTGTTT
23100555 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
23100577 TAAAATACCC
Statistics
Matches: 116, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 5 0.04
54 111 0.96
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCTTCGATTTACAGAATTACTGTTT
Found at i:23100501 original size:81 final size:82
Alignment explanation
Indices: 23100394--23100577 Score: 257
Period size: 81 Copynumber: 2.3 Consensus size: 82
23100384 ATTACCAAAG
*
23100394 TACCC-CGATTTACAGAATTA-TCGTTTTACCCCCAATTTATATAATTACCGTTTTACCCTCGAT
1 TACCCTCGATTTACAGAATTACTCGTTTTACCCCCAATTTATAAAATTACCGTTTTACCCTCGAT
23100457 TTACAAAATTACCCTTT
66 TTACAAAATTACCCTTT
* * * * *
23100474 TACCTTCGATTTACAGAATTACT-GTTTTACCCTCGATTTATAAAATTACCGTTTTACCTTTGAT
1 TACCCTCGATTTACAGAATTACTCGTTTTACCCCCAATTTATAAAATTACCGTTTTACCCTCGAT
* **
23100538 TTACAGAATTACTGTTT
66 TTACAAAATTACCCTTT
*
23100555 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
23100578 AAAATACCCT
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 4 0.04
81 86 0.95
82 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.41
Consensus pattern (82 bp):
TACCCTCGATTTACAGAATTACTCGTTTTACCCCCAATTTATAAAATTACCGTTTTACCCTCGAT
TTACAAAATTACCCTTT
Found at i:23100586 original size:81 final size:81
Alignment explanation
Indices: 23100428--23100605 Score: 212
Period size: 81 Copynumber: 2.2 Consensus size: 81
23100418 TTTACCCCCA
* * *
23100428 ATTTATATAATTACCGTTTTACCCTCGATTTACAAAATTACCCTTTTACCTTCGATTTACAGAAT
1 ATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCCTTTTACCCTCGATTTACAAAAT
****
23100493 TACTGTTTTACCCTCG
66 TACTAAAATACCCTCG
* * * **
23100509 ATTTATAAAATTACCGTTTTACCTTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAAT
1 ATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCCTTTTACCCTCGATTTACAAAAT
*
23100574 TACTAAAATACCCTTG
66 TACTAAAATACCCTCG
* * *
23100590 GTTTGTGAAATTACCG
1 ATTTATAAAATTACCG
23100606 CAATACCCTC
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (81 bp):
ATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCCTTTTACCCTCGATTTACAAAAT
TACTAAAATACCCTCG
Found at i:23101830 original size:25 final size:25
Alignment explanation
Indices: 23101801--23101848 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
23101791 TTATAATATG
* *
23101801 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
23101826 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
23101849 GTTTATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:23101915 original size:20 final size:20
Alignment explanation
Indices: 23101890--23101973 Score: 150
Period size: 20 Copynumber: 4.2 Consensus size: 20
23101880 ATAAACATGT
23101890 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
23101910 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
23101930 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
23101950 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
23101970 ATGT
1 ATGT
23101974 TCATAAATGC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:23101930 original size:11 final size:11
Alignment explanation
Indices: 23101894--23101968 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
23101884 ACATGTATGT
23101894 ATGATATGCAC
1 ATGATATGCAC
* *
23101905 ATGACATG--T
1 ATGATATGCAC
23101914 ATGATATGCAC
1 ATGATATGCAC
*
23101925 ATGATATG--T
1 ATGATATGCAC
23101934 ATGATATGCAC
1 ATGATATGCAC
* *
23101945 ATGACATG--T
1 ATGATATGCAC
23101954 ATGATATGCAC
1 ATGATATGCAC
23101965 ATGA
1 ATGA
23101969 GATGTTCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:23102063 original size:23 final size:24
Alignment explanation
Indices: 23102019--23102184 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
23102009 GAGGAAGTGA
23102019 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
23102043 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
23102066 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
23102090 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
23102113 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
23102137 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
23102161 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
23102185 ATGATAAAGC
Statistics
Matches: 133, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
23 46 0.35
24 76 0.57
25 11 0.08
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:23102088 original size:47 final size:47
Alignment explanation
Indices: 23102019--23102184 Score: 246
Period size: 47 Copynumber: 3.5 Consensus size: 47
23102009 GAGGAAGTGA
23102019 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATG-CCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
23102065 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
** *
23102113 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
*
23102161 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
23102185 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
47 80 0.72
48 20 0.18
49 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:23102135 original size:71 final size:70
Alignment explanation
Indices: 23102019--23102185 Score: 246
Period size: 71 Copynumber: 2.3 Consensus size: 70
23102009 GAGGAAGTGA
23102019 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCAGTTATCAAAAGGGCTTATGCCCCA
23102084 GTTATC
65 GTTATC
** *
23102090 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTATGCCCCA
*
23102155 GTTATT
65 GTTATC
*
23102161 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
23102186 TGATAAAGCA
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
70 13 0.15
71 63 0.72
72 12 0.14
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (70 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCAGTTATCAAAAGGGCTTATGCCCCAG
TTATC
Found at i:23105171 original size:27 final size:27
Alignment explanation
Indices: 23105122--23105198 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
23105112 TTAGAATACT
* *
23105122 TTAGTTTACTAAAATTACCGAAACACCC
1 TTAGTTT-GTAAAATTACTGAAACACCC
* *
23105150 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTGTAAAATTACTGAAACACCC
*
23105177 -TCGATTTGTAAAATTACTGAAA
1 TTAG-TTTGTAAAATTACTGAAA
23105199 TACCTCGACT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.05
27 33 0.79
28 7 0.17
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.32
Consensus pattern (27 bp):
TTAGTTTGTAAAATTACTGAAACACCC
Found at i:23105204 original size:26 final size:27
Alignment explanation
Indices: 23105131--23105235 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 27
23105121 TTTAGTTTAC
* * *
23105131 TAAAATTACCGAAACACCCT-TAGTTTG
1 TAAAATTACTGAAATACCCTCGA-TTTG
*
23105158 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
*
23105185 TAAAATTACTGAAATA-CCTCGACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
*
23105211 TAAAATTAC-CAAAGTACCC-CGATTT
1 TAAAATTACTGAAA-TACCCTCGATTT
23105236 ACAGAATTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
25 3 0.04
26 25 0.37
27 38 0.57
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTG
Found at i:23105270 original size:27 final size:26
Alignment explanation
Indices: 23105225--23105404 Score: 222
Period size: 27 Copynumber: 6.8 Consensus size: 26
23105215 ATTACCAAAG
*
23105225 TACCC-CGATTTACAGAATTATCATTT
1 TACCCTCGATTTACAGAATTA-CGTTT
* * *
23105251 TACCCCCGATTTATATAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
*
23105278 TACCCTCGATTTACA-AATTACCATTT
1 TACCCTCGATTTACAGAATTA-CGTTT
23105304 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTAC-GTTT
*
23105331 TACCCTCGATTTATA-AATTACGTTT
1 TACCCTCGATTTACAGAATTACGTTT
*
23105356 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTAC-GTTT
*
23105383 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
23105405 TAAAATACCC
Statistics
Matches: 136, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
25 17 0.12
26 43 0.32
27 76 0.56
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (26 bp):
TACCCTCGATTTACAGAATTACGTTT
Found at i:23105378 original size:52 final size:53
Alignment explanation
Indices: 23105225--23105404 Score: 256
Period size: 53 Copynumber: 3.4 Consensus size: 53
23105215 ATTACCAAAG
* * * * *
23105225 TACCC-CGATTTACAGAATTATCATTTTACCCCCGATTTATATAATTACCGTTT
1 TACCCTCGATTTACA-AATTACCATTTTACCCTCGATTTACAGAATTACTGTTT
23105278 TACCCTCGATTTACAAATTACCATTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAATTACCATTTTACCCTCGATTTACAGAATTACTGTTT
* * *
23105331 TACCCTCGATTTATAAATTA-CGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAATTACCATTTTACCCTCGATTTACAGAATTACTGTTT
23105383 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTAC-AAATTAC
23105405 TAAAATACCC
Statistics
Matches: 115, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
52 43 0.37
53 63 0.55
54 9 0.08
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (53 bp):
TACCCTCGATTTACAAATTACCATTTTACCCTCGATTTACAGAATTACTGTTT
Found at i:23106661 original size:25 final size:25
Alignment explanation
Indices: 23106632--23106679 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
23106622 TTATAATATG
* *
23106632 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
23106657 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
23106680 GTTTATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:23106746 original size:20 final size:20
Alignment explanation
Indices: 23106723--23106806 Score: 141
Period size: 20 Copynumber: 4.2 Consensus size: 20
23106713 TAAACATGGT
23106723 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
* *
23106743 ATGTATGATATGCAGATGAT
1 ATGTATGATATGCACATGAC
23106763 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
23106783 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
23106803 ATGT
1 ATGT
23106807 TCATAAATGC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:23106781 original size:11 final size:11
Alignment explanation
Indices: 23106727--23106801 Score: 54
Period size: 11 Copynumber: 7.4 Consensus size: 11
23106717 CATGGTATGT
23106727 ATGATATGCAC
1 ATGATATGCAC
* *
23106738 ATGACATG--T
1 ATGATATGCAC
*
23106747 ATGATATGCAG
1 ATGATATGCAC
*
23106758 ATGATATG--T
1 ATGATATGCAC
23106767 ATGATATGCAC
1 ATGATATGCAC
* *
23106778 ATGACATG--T
1 ATGATATGCAC
23106787 ATGATATGCAC
1 ATGATATGCAC
23106798 ATGA
1 ATGA
23106802 GATGTTCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:23106880 original size:24 final size:24
Alignment explanation
Indices: 23106853--23107019 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
23106843 GAGGAAGTGA
23106853 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
23106877 AAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
23106901 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
23106925 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
23106948 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
23106972 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
23106996 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
23107020 ATGATAAAGC
Statistics
Matches: 133, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
23 23 0.17
24 99 0.74
25 11 0.08
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:23118272 original size:7 final size:7
Alignment explanation
Indices: 23118260--23118294 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
23118250 TGGCTAGTTG
23118260 CTTCGTT
1 CTTCGTT
23118267 CTTCGTT
1 CTTCGTT
23118274 CTTCGTT
1 CTTCGTT
*
23118281 CTTCATT
1 CTTCGTT
23118288 CTTCGTT
1 CTTCGTT
23118295 GCCCTCGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.03, C:0.29, G:0.11, T:0.57
Consensus pattern (7 bp):
CTTCGTT
Found at i:23135830 original size:27 final size:27
Alignment explanation
Indices: 23135800--23135946 Score: 134
Period size: 27 Copynumber: 5.4 Consensus size: 27
23135790 ACCCTTAATC
* *
23135800 GGGTAAACTGACCGAAATAACCCCATA
1 GGGTAAAATGACCGAAATACCCCCATA
*
23135827 GGGTAAAATGACCGGAATACCCCCATA
1 GGGTAAAATGACCGAAATACCCCCATA
* * *
23135854 AGGTAAAATCATCGAAATACCCCCATA
1 GGGTAAAATGACCGAAATACCCCCATA
* * * *
23135881 GGATAAAATGACCAAAATATCCCTATA
1 GGGTAAAATGACCGAAATACCCCCATA
* * * * **
23135908 AGGTATAATGA-CTATAATTCCCCTGTA
1 GGGTAAAATGACCGA-AATACCCCCATA
23135935 GGGTAAAATGAC
1 GGGTAAAATGAC
23135947 TGTTTTGCCC
Statistics
Matches: 95, Mismatches: 23, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
26 2 0.02
27 93 0.98
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (27 bp):
GGGTAAAATGACCGAAATACCCCCATA
Found at i:23139033 original size:29 final size:29
Alignment explanation
Indices: 23138991--23139175 Score: 186
Period size: 29 Copynumber: 6.4 Consensus size: 29
23138981 TCATCGACCA
*
23138991 ATGAAAAGGGATAGCTTCAGCTACCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
23139020 ATGAAAAGGGATAGCTTCAGCTATC-AATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAA-T
* *
23139049 ATG-AAAGGGAT-G-TTGACGACCATC-AACT
1 ATGAAAAGGGATAGCTTCA-G-CTATCGAA-T
* * *
23139077 ATGAAAAGGGAT-GGTGAT-AACCATCGAAT
1 ATGAAAAGGGATAGCT--TCAGCTATCGAAT
* *
23139106 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
*
23139135 ATGAAAAGGGATAGTTTCAGCTATCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
23139164 ATGAAAAGGGAT
1 ATGAAAAGGGAT
23139176 GGTGATGACT
Statistics
Matches: 133, Mismatches: 13, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
26 3 0.02
27 2 0.02
28 21 0.16
29 100 0.75
30 5 0.04
31 1 0.01
32 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAAT
Found at i:23139123 original size:115 final size:117
Alignment explanation
Indices: 23138990--23139234 Score: 363
Period size: 115 Copynumber: 2.1 Consensus size: 117
23138980 ATCATCGACC
23138990 AATGAAAAGGGATAGCTTCAGCTACCGAATATGAAAAGGGATAGCTTCAGCTATC-AATTATG-A
1 AATGAAAAGGGATAGCTTCAGCTACCGAATATGAAAAGGGATAGCTTCAGCTATCGAA-TATGAA
* *
23139053 AAGGGATGTTGACGACCATCAACTATGAAAAGGGATGGTGATAACCATCGAA-T
65 AAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATC-AATT
* * * *
23139106 -ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTTTCAGCTATCGAATATGAAA
1 AATGAAAAGGGATAGCTTCAGCTACCGAATATGAAAAGGGATAGCTTCAGCTATCGAATATGAAA
* * *
23139170 AGGGATGGTGATGACTATCAACTATGAAAAGGGATGGTGACGACCATCAATT
66 AGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCAATT
23139222 AATGAAAAGGGAT
1 AATGAAAAGGGAT
23139235 GGTGATGACT
Statistics
Matches: 116, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
115 56 0.48
116 48 0.41
117 12 0.10
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (117 bp):
AATGAAAAGGGATAGCTTCAGCTACCGAATATGAAAAGGGATAGCTTCAGCTATCGAATATGAAA
AGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCAATT
Found at i:23139187 original size:29 final size:29
Alignment explanation
Indices: 23139040--23139296 Score: 238
Period size: 29 Copynumber: 8.8 Consensus size: 29
23139030 ATAGCTTCAG
* * *
23139040 CTATCAATTATG-AAAGGGATGTTGACGA
1 CTATCAACTATGAAAAGGGATGGTGATGA
* *
23139068 CCATCAACTATGAAAAGGGATGGTGATAA
1 CTATCAACTATGAAAAGGGATGGTGATGA
* * *
23139097 CCATCGAA-TATGAAAAGGGATAGCT--TCGG
1 CTATC-AACTATGAAAAGGGAT-GGTGAT-GA
* * * * *
23139126 CTATCGATTATGAAAAGGGATAGT-TTCA
1 CTATCAACTATGAAAAGGGATGGTGATGA
23139154 GCTATCGAA-TATGAAAAGGGATGGTGATGA
1 -CTATC-AACTATGAAAAGGGATGGTGATGA
*
23139184 CTATCAACTATGAAAAGGGATGGTGACGA
1 CTATCAACTATGAAAAGGGATGGTGATGA
* *
23139213 CCATCAATTAATGAAAAGGGATGGTGATGA
1 CTATCAACT-ATGAAAAGGGATGGTGATGA
*
23139243 CTATCAACTATGAAAAGGGATGGTGACGA
1 CTATCAACTATGAAAAGGGATGGTGATGA
* *
23139272 CCATCAATTAATGAAAAGGGATGGT
1 CTATCAACT-ATGAAAAGGGATGGT
23139297 TTCGATCATT
Statistics
Matches: 190, Mismatches: 27, Indels: 22
0.79 0.11 0.09
Matches are distributed among these distances:
28 15 0.08
29 127 0.67
30 48 0.25
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (29 bp):
CTATCAACTATGAAAAGGGATGGTGATGA
Found at i:23139240 original size:59 final size:58
Alignment explanation
Indices: 23139042--23139296 Score: 288
Period size: 58 Copynumber: 4.4 Consensus size: 58
23139032 AGCTTCAGCT
* * * **
23139042 ATCAATTATG-AAAGGGATGTTGACGACCATCAACTATGAAAAGGGATGGTGATAACC
1 ATCAATTATGAAAAGGGATGGTGATGACTATCAACTATGAAAAGGGATGGTGACGACC
* * * * * ** *
23139099 ATCGAA-TATGAAAAGGGATAGCT--TCGGCTATCGATTATGAAAAGGGATAGTTTC-AGCT
1 ATC-AATTATGAAAAGGGAT-GGTGAT-GACTATCAACTATGAAAAGGGATGGTGACGA-CC
23139157 ATCGAA-TATGAAAAGGGATGGTGATGACTATCAACTATGAAAAGGGATGGTGACGACC
1 ATC-AATTATGAAAAGGGATGGTGATGACTATCAACTATGAAAAGGGATGGTGACGACC
23139215 ATCAATTAATGAAAAGGGATGGTGATGACTATCAACTATGAAAAGGGATGGTGACGACC
1 ATCAATT-ATGAAAAGGGATGGTGATGACTATCAACTATGAAAAGGGATGGTGACGACC
23139274 ATCAATTAATGAAAAGGGATGGT
1 ATCAATT-ATGAAAAGGGATGGT
23139297 TTCGATCATT
Statistics
Matches: 169, Mismatches: 19, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
57 12 0.07
58 79 0.47
59 78 0.46
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.24
Consensus pattern (58 bp):
ATCAATTATGAAAAGGGATGGTGATGACTATCAACTATGAAAAGGGATGGTGACGACC
Found at i:23139314 original size:59 final size:59
Alignment explanation
Indices: 23139042--23139336 Score: 265
Period size: 59 Copynumber: 5.1 Consensus size: 59
23139032 AGCTTCAGCT
* * **
23139042 ATCAATT-ATG-AAAGGGATGTTGA-CGACCATCAACTATGAAAAGGGATGGTGATAACC
1 ATCAATTAATGAAAAGGGATGGTGATC-ACTATCAACTATGAAAAGGGATGGTGACGACC
* * * * * ** *
23139099 ATCGAA-T-ATGAAAAGGGATAGCT--TCGGCTATCGATTATGAAAAGGGATAGTTTC-AGCT
1 ATC-AATTAATGAAAAGGGAT-GGTGATC-ACTATCAACTATGAAAAGGGATGGTGACGA-CC
*
23139157 ATCGAA-T-ATGAAAAGGGATGGTGATGACTATCAACTATGAAAAGGGATGGTGACGACC
1 ATC-AATTAATGAAAAGGGATGGTGATCACTATCAACTATGAAAAGGGATGGTGACGACC
*
23139215 ATCAATTAATGAAAAGGGATGGTGATGACTATCAACTATGAAAAGGGATGGTGACGACC
1 ATCAATTAATGAAAAGGGATGGTGATCACTATCAACTATGAAAAGGGATGGTGACGACC
* * *
23139274 ATCAATTAATGAAAAGGGATGGTTTCGATCA-T-TGAA-TATGAAAAGGGACGGTTACGACC
1 ATCAATTAATGAAAAGGGATGG--T-GATCACTATCAACTATGAAAAGGGATGGTGACGACC
23139333 ATCA
1 ATCA
23139337 TTTAGCACAC
Statistics
Matches: 202, Mismatches: 23, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
57 12 0.06
58 79 0.39
59 102 0.50
60 3 0.01
61 2 0.01
62 4 0.02
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.24
Consensus pattern (59 bp):
ATCAATTAATGAAAAGGGATGGTGATCACTATCAACTATGAAAAGGGATGGTGACGACC
Found at i:23148427 original size:27 final size:26
Alignment explanation
Indices: 23148386--23148490 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 26
23148376 AGGAAGCGTC
23148386 CTGGTGGCTAC-GCCACAATTATCTAAT
1 CTGGTGGCT-CTGCCAC-ATTATCTAAT
***
23148413 CTGGTGGCTCTGCCACATATATCGGTT
1 CTGGTGGCTCTGCCACAT-TATCTAAT
*
23148440 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCT-AAT
*
23148468 CTGGTGACTCTGCCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
23148491 GTTCTGGTAG
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
26 3 0.04
27 46 0.69
28 18 0.27
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTAAT
Found at i:23148495 original size:54 final size:54
Alignment explanation
Indices: 23148386--23148498 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
23148376 AGGAAGCGTC
*
23148386 CTGGTGGCTACGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCGGTT
1 CTGGTGGCTACGCCACAATTATCTAATCTGGTGACTCTGCCACATATATCGGTT
* * *
23148440 CTGGTGGCT-CTGCCACGATTATCTGTATCTGGTGACTCTGCCACAT-TATCTGTT
1 CTGGTGGCTAC-GCCACAATTATCT-AATCTGGTGACTCTGCCACATATATCGGTT
23148494 CTGGT
1 CTGGT
23148499 AGCCATGCTG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
53 1 0.02
54 33 0.62
55 19 0.36
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATCTAATCTGGTGACTCTGCCACATATATCGGTT
Found at i:23155745 original size:8 final size:8
Alignment explanation
Indices: 23155732--23155761 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
23155722 ATAGATCGGC
23155732 AAAAGCCG
1 AAAAGCCG
23155740 AAAAGCCG
1 AAAAGCCG
*
23155748 AAATGCCG
1 AAAAGCCG
23155756 AAAAGC
1 AAAAGC
23155762 TGGTATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:23156220 original size:27 final size:26
Alignment explanation
Indices: 23156178--23156282 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 26
23156168 AGGAAGCGTC
23156178 CTGGTGGCTACT-CCACAATTATCTGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGAT
*
23156205 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
23156232 CTGGTGGCTCTGCCACGATTATCTGTAC
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
23156260 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
23156283 ATTCTGGCAG
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.06
27 49 0.71
28 16 0.23
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:23156282 original size:54 final size:54
Alignment explanation
Indices: 23156178--23156289 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
23156168 AGGAAGCGTC
* * *
23156178 CTGGTGGCTACTCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTACTCCACAATTATCTGACCTGGTGACTCTGCCACATATATCTATT
* *
23156232 CTGGTGGCT-CTGCCACGATTATCTGTACCTGGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTACT-CCACAATTATCTG-ACCTGGTGACTCTGCCACATATATCTATT
23156286 CTGG
1 CTGG
23156290 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 2 0.04
54 32 0.63
55 17 0.33
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTACTCCACAATTATCTGACCTGGTGACTCTGCCACATATATCTATT
Found at i:23159179 original size:48 final size:48
Alignment explanation
Indices: 23159041--23159181 Score: 158
Period size: 48 Copynumber: 2.9 Consensus size: 48
23159031 TCATTAGGGA
* * * **
23159041 GATTTGGCATCGAGCCATGATATTGGCACTTCGAGTTTGAG-TTACATT
1 GATTTGGCTTCGAGCCATGATATTGGCACTTAGGGTAAGAGATT-CATT
* **
23159089 GATTTGGCTTCGAGCCATGATATTGGCACTTTGGGTGCGAGATTCATT
1 GATTTGGCTTCGAGCCATGATATTGGCACTTAGGGTAAGAGATTCATT
* * * *
23159137 TATTTGGCTTTGGGCCATGATATTGGTACTTAGGGTAAGAGATTC
1 GATTTGGCTTCGAGCCATGATATTGGCACTTAGGGTAAGAGATTC
23159182 TCGAGCATCT
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
48 78 0.98
49 2 0.03
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (48 bp):
GATTTGGCTTCGAGCCATGATATTGGCACTTAGGGTAAGAGATTCATT
Found at i:23164005 original size:40 final size:40
Alignment explanation
Indices: 23163956--23164119 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
23163946 TCTTCGGAAT
* * **
23163956 TTAG-CCGGATATAACCACAAGCACAGTTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
23163995 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
23164035 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
23164075 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
23164115 TTAGC
1 TTAGC
23164120 TCGGGTATCA
Statistics
Matches: 102, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 3 0.03
40 98 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:23169436 original size:18 final size:18
Alignment explanation
Indices: 23169396--23169434 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23169386 AAATCATTCC
* *
23169396 AAACCATTCCATCTACTT
1 AAACCATTTCATATACTT
23169414 AAACCATTTCATATCACTT
1 AAACCATTTCATAT-ACTT
23169433 AA
1 AA
23169435 CCTTTCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.33
Consensus pattern (18 bp):
AAACCATTTCATATACTT
Found at i:23179218 original size:29 final size:29
Alignment explanation
Indices: 23179186--23179317 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
23179176 ATAGTGAATC
23179186 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
23179215 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
23179245 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
23179274 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
23179303 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23179318 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:23179327 original size:59 final size:59
Alignment explanation
Indices: 23179186--23179317 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
23179176 ATAGTGAATC
23179186 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
23179245 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
23179303 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23179318 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:23180640 original size:19 final size:18
Alignment explanation
Indices: 23180616--23180651 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23180606 CCCCCTTTTT
*
23180616 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
23180635 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
23180652 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:23181850 original size:40 final size:40
Alignment explanation
Indices: 23181746--23181926 Score: 166
Period size: 40 Copynumber: 4.5 Consensus size: 40
23181736 TTCGAATGAT
* * * *
23181746 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
* * * *
23181787 ATCCGGGTCAATTCCCAAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
23181827 AACCGAGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * * * *
23181867 ATCCGGGCTAATTCCCGAAGGCAATTGTACGAATCACTATA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
23181908 A-CCGGGCTATGTCCCGAAG
1 ATCCGGGTTAAGTCCCGAAG
23181927 ACAATCGAGC
Statistics
Matches: 113, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
40 86 0.76
41 27 0.24
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:23181911 original size:80 final size:81
Alignment explanation
Indices: 23181752--23181926 Score: 201
Period size: 80 Copynumber: 2.2 Consensus size: 81
23181742 TGATATCCGG
* * * *
23181752 GCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCAAAGGCATTTGTGC
1 GCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCAAAGGCAATTGTAC
* *
23181817 GAGTTACCAAAACCGA
66 GAATCACCAAAACCGA
* * * *
23181833 GTTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTA
1 GCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTC-AATTCCCAAAGGCAATTGTA
* * *
23181896 CGAATCACTATAACCGG
65 CGAATCACCAAAACCGA
*
23181913 GCTATGTCCCGAAG
1 GCTAAGTCCCGAAG
23181927 ACAATCGAGC
Statistics
Matches: 78, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.01
80 56 0.72
81 21 0.27
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (81 bp):
GCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCAAAGGCAATTGTAC
GAATCACCAAAACCGA
Found at i:23187156 original size:25 final size:25
Alignment explanation
Indices: 23187122--23187171 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
23187112 CGATACACGG
23187122 GACCAAAGTATTGATAATTTATAGC
1 GACCAAAGTATTGATAATTTATAGC
23187147 GACCAAAGTATTGATAATTTATAGC
1 GACCAAAGTATTGATAATTTATAGC
23187172 AAGTACCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (25 bp):
GACCAAAGTATTGATAATTTATAGC
Found at i:23188569 original size:28 final size:27
Alignment explanation
Indices: 23188514--23188570 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
23188504 TCATGATGAC
* *
23188514 ATTTATAAAAACCTAAAATATCTCTAA
1 ATTTATAAAAACCTAAAATATATATAA
* *
23188541 ATTTTTAAAAACTTAAAAATATATATAA
1 ATTTATAAAAACCT-AAAATATATATAA
23188569 AT
1 AT
23188571 AAAATTATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (27 bp):
ATTTATAAAAACCTAAAATATATATAA
Found at i:23188614 original size:9 final size:8
Alignment explanation
Indices: 23188595--23188626 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
23188585 ATATAATTGT
23188595 TTAAAAAA
1 TTAAAAAA
23188603 TTAAAAATA
1 TTAAAAA-A
23188612 TTAAAAAA
1 TTAAAAAA
23188620 TTAAAAA
1 TTAAAAA
23188627 TATGTTAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
TTAAAAAA
Found at i:23188617 original size:17 final size:17
Alignment explanation
Indices: 23188595--23188629 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
23188585 ATATAATTGT
23188595 TTAAAAAATTAAAAATA
1 TTAAAAAATTAAAAATA
23188612 TTAAAAAATTAAAAATA
1 TTAAAAAATTAAAAATA
23188629 T
1 T
23188630 GTTAGAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAAAATTAAAAATA
Found at i:23188721 original size:20 final size:20
Alignment explanation
Indices: 23188643--23188723 Score: 53
Period size: 19 Copynumber: 4.2 Consensus size: 20
23188633 AGAATTTTTT
*
23188643 AAAATTATAAAATTTATTA-
1 AAAATTATAAAAATTATTAG
* * *
23188662 AAAACTATAAAAAAT-TTAT
1 AAAATTATAAAAATTATTAG
* * *
23188681 AAAAGTCAT-TAGA-TATGTAG
1 AAAA-TTATAAAAATTAT-TAG
23188701 AAAATTATAAAAATTATTAG
1 AAAATTATAAAAATTATTAG
23188721 AAA
1 AAA
23188724 TCATAAATAC
Statistics
Matches: 45, Mismatches: 11, Indels: 11
0.67 0.16 0.16
Matches are distributed among these distances:
18 4 0.09
19 22 0.49
20 16 0.36
21 3 0.07
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.33
Consensus pattern (20 bp):
AAAATTATAAAAATTATTAG
Found at i:23188758 original size:19 final size:19
Alignment explanation
Indices: 23188736--23188772 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23188726 ATAAATACTG
*
23188736 TAAAAAATTTTAAAATTTT
1 TAAAAAATTGTAAAATTTT
*
23188755 TAAAAACTTGTAAAATTT
1 TAAAAAATTGTAAAATTT
23188773 GTTGCATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (19 bp):
TAAAAAATTGTAAAATTTT
Found at i:23188925 original size:13 final size:13
Alignment explanation
Indices: 23188907--23188962 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
23188897 AAATTTGAAT
23188907 AAATTTCTATATC
1 AAATTTCTATATC
* *
23188920 AAATTTTTAATATA
1 AAATTTCT-ATATC
*
23188934 AAATTT-GA-AT-
1 AAATTTCTATATC
23188944 AAATTTCTATATC
1 AAATTTCTATATC
23188957 AAATTT
1 AAATTT
23188963 TTAATATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 6 0.17
11 3 0.09
12 3 0.09
13 13 0.37
14 10 0.29
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (13 bp):
AAATTTCTATATC
Found at i:23188935 original size:37 final size:37
Alignment explanation
Indices: 23188894--23188969 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
23188884 AAATATTTTA
23188894 ATAAAATTTGAATAAATTTCTATATCAAATTTTTAAT
1 ATAAAATTTGAATAAATTTCTATATCAAATTTTTAAT
23188931 ATAAAATTTGAATAAATTTCTATATCAAATTTTTAAT
1 ATAAAATTTGAATAAATTTCTATATCAAATTTTTAAT
23188968 AT
1 AT
23188970 TCAAAATACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (37 bp):
ATAAAATTTGAATAAATTTCTATATCAAATTTTTAAT
Found at i:23201433 original size:39 final size:39
Alignment explanation
Indices: 23201389--23201466 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
23201379 AAAGTATGTA
*
23201389 TCTTAGAGCTAAACTAGGATGATGCCATGATCTTTATAT
1 TCTTAGAGCTAAACTAGGATGATGCCATGATCTTAATAT
23201428 TCTTAGAGCTAAACTAGGATGATGCCATGATCTTAATAT
1 TCTTAGAGCTAAACTAGGATGATGCCATGATCTTAATAT
23201467 GATAAGAAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (39 bp):
TCTTAGAGCTAAACTAGGATGATGCCATGATCTTAATAT
Found at i:23214655 original size:28 final size:27
Alignment explanation
Indices: 23214592--23214661 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
23214582 ATAGTGAGTC
*
23214592 CGCACACTTAGTGCCATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
23214619 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
23214647 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23214662 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:23222385 original size:28 final size:27
Alignment explanation
Indices: 23222322--23222391 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
23222312 ATAGTGAGTC
23222322 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
23222349 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
23222377 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23222392 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:23227315 original size:27 final size:28
Alignment explanation
Indices: 23227285--23227352 Score: 106
Period size: 26 Copynumber: 2.5 Consensus size: 28
23227275 ATAGTGAGTC
23227285 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
23227312 CGCACACTTAGTG--ATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
23227338 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23227353 GTACAAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 7 0.19
26 17 0.46
27 13 0.35
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:23229745 original size:8 final size:8
Alignment explanation
Indices: 23229732--23229756 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23229722 TTATCAGCTC
23229732 TTATTATT
1 TTATTATT
23229740 TTATTATT
1 TTATTATT
23229748 TTATTATT
1 TTATTATT
23229756 T
1 T
23229757 CAAATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTATT
Found at i:23231503 original size:39 final size:39
Alignment explanation
Indices: 23231449--23231525 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
23231439 ATCTTCAGCC
*
23231449 AAAAACAACTATAGAAGAGCTCCTTAAGCTAGTTTTTCT
1 AAAAACAACCATAGAAGAGCTCCTTAAGCTAGTTTTTCT
* *
23231488 AAAAACAGCCATAGAAGAGCTCCTTAAGCTGGTTTTTC
1 AAAAACAACCATAGAAGAGCTCCTTAAGCTAGTTTTTC
23231526 ATAATTTAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (39 bp):
AAAAACAACCATAGAAGAGCTCCTTAAGCTAGTTTTTCT
Found at i:23234519 original size:18 final size:19
Alignment explanation
Indices: 23234475--23234523 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
23234465 GGTATCAATT
**
23234475 TCACATTTTATCTTTAAAA
1 TCACATTTTATCTAAAAAA
*
23234494 TAAC-TTTTAT-TAAAAAA
1 TCACATTTTATCTAAAAAA
23234511 TCACATTTT-TCTA
1 TCACATTTTATCTA
23234524 TTTAATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
17 9 0.38
18 12 0.50
19 3 0.12
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (19 bp):
TCACATTTTATCTAAAAAA
Found at i:23243162 original size:17 final size:18
Alignment explanation
Indices: 23243140--23243174 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23243130 TTACATTGAA
23243140 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
23243157 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
23243175 CTTGTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:23243359 original size:20 final size:20
Alignment explanation
Indices: 23243334--23243376 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
23243324 CTCGTAATTA
23243334 CAATGGAAATAATAATACTT
1 CAATGGAAATAATAATACTT
23243354 CAATGGAAATAATAATACTT
1 CAATGGAAATAATAATACTT
23243374 CAA
1 CAA
23243377 GTAATAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (20 bp):
CAATGGAAATAATAATACTT
Found at i:23244290 original size:29 final size:29
Alignment explanation
Indices: 23244227--23244318 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
23244217 TATATACATG
* *
23244227 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATGGACCACTAGGCCCAATTCATATT
* * *
23244255 CAAATGGACCATTTGGCCCAATTCATATT
1 CATATGGACCACTAGGCCCAATTCATATT
* * *
23244284 CTTATGGCCCACTAGGCCCAATTCACATT
1 CATATGGACCACTAGGCCCAATTCATATT
23244313 CATATG
1 CATATG
23244319 ACCCATTAGA
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
28 17 0.33
29 34 0.67
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.29
Consensus pattern (29 bp):
CATATGGACCACTAGGCCCAATTCATATT
Found at i:23244323 original size:29 final size:29
Alignment explanation
Indices: 23244222--23244332 Score: 91
Period size: 29 Copynumber: 3.9 Consensus size: 29
23244212 ACCCCTATAT
* *
23244222 ACATGCATATGGCCCACTAGGCCCAA-TC
1 ACATTCATATGACCCACTAGGCCCAATTC
** * * *
23244250 TTATTCAAATGGA-CCATTTGGCCCAATTC
1 ACATTCATAT-GACCCACTAGGCCCAATTC
* * *
23244279 ATATTCTTATGGCCCACTAGGCCCAATTC
1 ACATTCATATGACCCACTAGGCCCAATTC
* *
23244308 ACATTCATATGACCCATTAGACCCA
1 ACATTCATATGACCCACTAGGCCCA
23244333 GATCATATTA
Statistics
Matches: 62, Mismatches: 18, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
28 18 0.29
29 44 0.71
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGACCCACTAGGCCCAATTC
Found at i:23244615 original size:24 final size:24
Alignment explanation
Indices: 23244557--23244607 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
23244547 GTAGCCCAAC
* *
23244557 TTTCTACTTTTCGGCATTTCAGTA
1 TTTCGACTTTTCGGCATTTCAGCA
* *
23244581 TTTCGACTTTTCGGCTTTTCGGCA
1 TTTCGACTTTTCGGCATTTCAGCA
23244605 TTT
1 TTT
23244608 TGGCTTTTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.22, G:0.16, T:0.51
Consensus pattern (24 bp):
TTTCGACTTTTCGGCATTTCAGCA
Found at i:23245738 original size:16 final size:16
Alignment explanation
Indices: 23245712--23245749 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
23245702 ATAAAGAAAA
23245712 TTTGAGATTTCGAGATT
1 TTTG-GATTTCGAGATT
*
23245729 TTTGGATTTCGGGATT
1 TTTGGATTTCGAGATT
23245745 TTTGG
1 TTTGG
23245750 GGCATTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.16, C:0.05, G:0.29, T:0.50
Consensus pattern (16 bp):
TTTGGATTTCGAGATT
Found at i:23248058 original size:22 final size:22
Alignment explanation
Indices: 23248023--23248071 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
23248013 TAATCGTATA
23248023 TTTATTATTCTATTTTAATTAT
1 TTTATTATTCTATTTTAATTAT
*
23248045 TTTAGTTATT-TATTTTAATTGT
1 TTTA-TTATTCTATTTTAATTAT
23248067 TTTAT
1 TTTAT
23248072 CTAACTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.76
23 5 0.20
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTATTATTCTATTTTAATTAT
Found at i:23249856 original size:43 final size:43
Alignment explanation
Indices: 23249782--23250056 Score: 412
Period size: 43 Copynumber: 6.4 Consensus size: 43
23249772 ACATATCATT
* *
23249782 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
23249825 TCACTGGTA-TGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACT-AAGCCTGCTAGGCACGAAGGCCCGAATACACA
* * *
23249868 TCACCAGCACGAAGCCTGCTAGGCATGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
23249911 TCACCGGCACTAAGCCTGCTAGGTATGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
23249954 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
23249997 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
23250039 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
23250057 AGGATTTATC
Statistics
Matches: 214, Mismatches: 16, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
41 15 0.07
42 3 0.01
43 196 0.92
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:23250082 original size:38 final size:38
Alignment explanation
Indices: 23250028--23250111 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
23250018 GGCACGAAGG
* * *
23250028 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
* *
23250066 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
23250104 CCCGAATA
1 CCCGAATA
23250112 CAAATCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
Found at i:23256746 original size:23 final size:23
Alignment explanation
Indices: 23256719--23256763 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
23256709 AATTTCAAAG
23256719 TTTCTTTTTATACATTGCAAGTC
1 TTTCTTTTTATACATTGCAAGTC
* *
23256742 TTTCTTTTTGTACATTGTAAGT
1 TTTCTTTTTATACATTGCAAGT
23256764 ATTGAACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.13, G:0.11, T:0.56
Consensus pattern (23 bp):
TTTCTTTTTATACATTGCAAGTC
Found at i:23259555 original size:44 final size:44
Alignment explanation
Indices: 23259506--23259589 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
23259496 TTCTTATAAA
23259506 ATGGGTTTTGTTTATAAATTTTGCACATTATTCAGTAAAATTTC
1 ATGGGTTTTGTTTATAAATTTTGCACATTATTCAGTAAAATTTC
* *
23259550 ATGGGTTTTGTTTATAAATTTTGCATATTTTTCAGTAAAA
1 ATGGGTTTTGTTTATAAATTTTGCACATTATTCAGTAAAA
23259590 CGTCATACTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (44 bp):
ATGGGTTTTGTTTATAAATTTTGCACATTATTCAGTAAAATTTC
Found at i:23262877 original size:23 final size:23
Alignment explanation
Indices: 23262847--23262963 Score: 80
Period size: 23 Copynumber: 5.0 Consensus size: 23
23262837 AGTTTACTAT
23262847 TTTCAGCTCATTAGAGCTTACCG
1 TTTCAGCTCATTAGAGCTTACCG
**
23262870 TTTCAGCT--TCTATGAGCTTATTG
1 TTTCAGCTCAT-TA-GAGCTTACCG
* *
23262893 -TTCAGCTTGA-TAGAGGTTACCG
1 TTTCAGC-TCATTAGAGCTTACCG
* *
23262915 TTTCAGCTCATTAGAGTTTACTG
1 TTTCAGCTCATTAGAGCTTACCG
**
23262938 TTCATCAGCTCAGGAAGAGCTTACCG
1 TT--TCAGCTCA-TTAGAGCTTACCG
23262964 ACCATAGCTT
Statistics
Matches: 72, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
21 1 0.01
22 17 0.24
23 37 0.51
25 8 0.11
26 9 0.12
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (23 bp):
TTTCAGCTCATTAGAGCTTACCG
Found at i:23264650 original size:93 final size:93
Alignment explanation
Indices: 23264538--23264709 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
23264528 CGCCCATAAG
* *
23264538 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
23264603 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
23264631 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
23264696 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
23264710 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:23264706 original size:46 final size:46
Alignment explanation
Indices: 23264531--23264706 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
23264521 TGTAACCCGC
* * *
23264531 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
23264577 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
23264627 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
23264670 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
23264707 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:23272230 original size:93 final size:93
Alignment explanation
Indices: 23272118--23272289 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
23272108 CGCCCATAAG
* *
23272118 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
23272183 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
23272211 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
23272276 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
23272290 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:23272286 original size:46 final size:46
Alignment explanation
Indices: 23272111--23272286 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
23272101 TGTAACCCGC
* * *
23272111 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
23272157 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
23272207 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
23272250 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
23272287 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:23275240 original size:43 final size:43
Alignment explanation
Indices: 23275174--23275330 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 43
23275164 AGCTCATACA
*
23275174 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCG
* * *
23275217 ATGCC-ACTGTCCCAGACAAGGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCAAATATCG
* * * * * *
23275259 ATGCCGATGTCCTAAACATGGTCTTATATGTAAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGT-AATC-AAATATCG
* *
23275303 ATGCCAACGTCCTAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
23275331 GGACAACACA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 25 0.27
43 41 0.45
44 26 0.28
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCG
Found at i:23282882 original size:43 final size:44
Alignment explanation
Indices: 23282835--23282960 Score: 118
Period size: 43 Copynumber: 2.9 Consensus size: 44
23282825 CTCAGACGTG
23282835 GTCTTAAATGTAATCAAATATCGATGCC-ACTGTCCTAGACAAA
1 GTCTTAAATGTAATCAAATATCGATGCCAACTGTCCTAGACAAA
* * * * * **
23282878 GTCTTACACGAAATCAAATAT-GATGCCGA-TGTCCTAAACATG
1 GTCTTAAATGTAATCAAATATCGATGCCAACTGTCCTAGACAAA
* *
23282920 GTCTTATATGTAAATCTCAA-ATCGATGCCAAC-GTCCTAGAC
1 GTCTTAAATGT-AATC-AAATATCGATGCCAACTGTCCTAGAC
23282961 GTGGTCTTAT
Statistics
Matches: 66, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
42 24 0.36
43 25 0.38
44 17 0.26
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (44 bp):
GTCTTAAATGTAATCAAATATCGATGCCAACTGTCCTAGACAAA
Found at i:23289111 original size:21 final size:21
Alignment explanation
Indices: 23289085--23289126 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
23289075 CTGTAACACC
23289085 ACAAACCCAGCCTAGATGTTA
1 ACAAACCCAGCCTAGATGTTA
23289106 ACAAACCCAGCCTAGATGTTA
1 ACAAACCCAGCCTAGATGTTA
23289127 TGGCTGAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.29, G:0.14, T:0.19
Consensus pattern (21 bp):
ACAAACCCAGCCTAGATGTTA
Found at i:23298846 original size:26 final size:26
Alignment explanation
Indices: 23298810--23298861 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
23298800 CCAATATTCA
23298810 GTAATCCATATTCGAACCATGCCCCT
1 GTAATCCATATTCGAACCATGCCCCT
23298836 GTAATCCATATTCGAACCATGCCCCT
1 GTAATCCATATTCGAACCATGCCCCT
23298862 AAAGCCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.35, G:0.12, T:0.27
Consensus pattern (26 bp):
GTAATCCATATTCGAACCATGCCCCT
Found at i:23301075 original size:40 final size:40
Alignment explanation
Indices: 23301030--23301196 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
23301020 CGGAATATAA
23301030 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
23301070 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
23301110 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
23301150 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
23301189 CCGGATAT
1 CCGGATAT
23301197 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:23305844 original size:40 final size:40
Alignment explanation
Indices: 23305770--23305915 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
23305760 CCGCACCAAG
* * * * * *
23305770 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
23305810 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
23305850 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
23305890 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
23305916 TTTCAGCATA
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:23316752 original size:40 final size:39
Alignment explanation
Indices: 23316625--23316769 Score: 155
Period size: 40 Copynumber: 3.6 Consensus size: 39
23316615 TGCTGGAAAT
* * * *
23316625 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * *
23316664 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* *
23316704 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * *
23316744 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
23316770 TTGGTGCGGG
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 88 0.99
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
Found at i:23323414 original size:25 final size:25
Alignment explanation
Indices: 23323386--23323443 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
23323376 GATATGTAGT
23323386 TGTTAAATGAATGGATTATACATGA
1 TGTTAAATGAATGGATTATACATGA
23323411 TGTTAAATGAATGGATTATACATGA
1 TGTTAAATGAATGGATTATACATGA
23323436 TGTTAAAT
1 TGTTAAAT
23323444 AGGTATTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.38
Consensus pattern (25 bp):
TGTTAAATGAATGGATTATACATGA
Found at i:23324329 original size:27 final size:27
Alignment explanation
Indices: 23324299--23324360 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
23324289 CTACAAGTCG
**
23324299 TGCTTTATATCTTATGACTTCAGTTTT
1 TGCTTTATATCTTACAACTTCAGTTTT
*
23324326 TGCTTTATATCTTACAACTTCATTTTT
1 TGCTTTATATCTTACAACTTCAGTTTT
*
23324353 TACTTTAT
1 TGCTTTAT
23324361 TTTTGCACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.21, C:0.16, G:0.06, T:0.56
Consensus pattern (27 bp):
TGCTTTATATCTTACAACTTCAGTTTT
Found at i:23327683 original size:20 final size:19
Alignment explanation
Indices: 23327658--23327706 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
23327648 CATAAAATAT
23327658 CTGTTAATAAAATATCAAAA
1 CTGTTAATAAAATAT-AAAA
**
23327678 CTGTTAACTAATGTATAAAA
1 CTGTTAA-TAAAATATAAAA
23327698 CTGTTAATA
1 CTGTTAATA
23327707 TAGATAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 2 0.08
20 18 0.69
21 6 0.23
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (19 bp):
CTGTTAATAAAATATAAAA
Done.