Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 81 of 222
Found at i:25218061 original size:22 final size:22
Alignment explanation
Indices: 25217996--25218058 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 22
25217986 TGCAATCTTT
*
25217996 GATATGATATGCAATCTT---A
1 GATAAGATATGCAATCTTAGAA
25218015 GATAAGATATGCAATCTTAGAA
1 GATAAGATATGCAATCTTAGAA
* *
25218037 GATAAGATTTTGTAATCTTAGA
1 GATAAGA-TATGCAATCTTAGA
25218059 GATTTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 17 0.46
22 8 0.22
23 12 0.32
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (22 bp):
GATAAGATATGCAATCTTAGAA
Found at i:25219005 original size:25 final size:24
Alignment explanation
Indices: 25218966--25219016 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
25218956 CATCGTAACA
*
25218966 TTATTTTAAATTTATCATGT-ATAT
1 TTATTTTAAACTTATCAT-TAATAT
25218990 TTATTTTAAAACTTATCATTAATAT
1 TTATTTT-AAACTTATCATTAATAT
25219015 TT
1 TT
25219017 TAAATTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (24 bp):
TTATTTTAAACTTATCATTAATAT
Found at i:25225162 original size:24 final size:24
Alignment explanation
Indices: 25225134--25225185 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
25225124 TTTCAAGAAG
* *
25225134 ATTTAATATTTATGAGTATAATAT
1 ATTTAACATTTATGAGCATAATAT
* *
25225158 ATTTAGCATTTATTAGCATAATAT
1 ATTTAACATTTATGAGCATAATAT
25225182 ATTT
1 ATTT
25225186 GACTTTGATT
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:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAACATTTATGAGCATAATAT
Found at i:25229088 original size:19 final size:20
Alignment explanation
Indices: 25229052--25229090 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25229042 TTATCTTTTC
* *
25229052 TTTTCTTTTTTTAGAATAAA
1 TTTTATTTTTTTACAATAAA
25229072 TTTTATTTTTTT-CAATAAA
1 TTTTATTTTTTTACAATAAA
25229091 GTAGTGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTATTTTTTTACAATAAA
Found at i:25229622 original size:14 final size:15
Alignment explanation
Indices: 25229589--25229630 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
25229579 GATCTGGGTT
25229589 CAAATAATTTTTGTAC
1 CAAA-AATTTTTGTAC
25229605 CAAAAATTTTTGTA-
1 CAAAAATTTTTGTAC
25229619 CAAAAAGTTTTT
1 CAAAAA-TTTTT
25229631 TTTGTACCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.24
15 15 0.60
16 4 0.16
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (15 bp):
CAAAAATTTTTGTAC
Found at i:25230478 original size:25 final size:24
Alignment explanation
Indices: 25230425--25230479 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
25230415 AATCATTTTA
* *
25230425 TTTTTTAAATTTGCTTTATTTCTT
1 TTTTTTAAATTTGCTTTAGTTATT
*
25230449 CTTTTTAGAATTT-CTTTTAGTTATT
1 TTTTTTA-AATTTGC-TTTAGTTATT
25230474 TTTTTT
1 TTTTTT
25230480 CAATAAAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.71
Consensus pattern (24 bp):
TTTTTTAAATTTGCTTTAGTTATT
Found at i:25244729 original size:16 final size:17
Alignment explanation
Indices: 25244697--25244740 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
25244687 TTAATCACTT
25244697 TAATATTAAATTTAATC
1 TAATATTAAATTTAATC
*
25244714 TAATATTATA-TTAATC
1 TAATATTAAATTTAATC
*
25244730 TAATATAAAAT
1 TAATATTAAAT
25244741 ATTATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATATTAAATTTAATC
Found at i:25244768 original size:28 final size:23
Alignment explanation
Indices: 25244699--25244796 Score: 92
Period size: 23 Copynumber: 4.1 Consensus size: 23
25244689 AATCACTTTA
*
25244699 ATATTAAATTTAATCT--AATATT
1 ATATT-AATTTAATATAAAATATT
*
25244721 ATATTAATCTAATATAAAATATT
1 ATATTAATTTAATATAAAATATT
25244744 ATATTAATTTAATCACTTGATAAATATT
1 ATATTAATTTAAT-A--T-A-AAATATT
* *
25244772 ATATTAATTTAATATTAAATCTT
1 ATATTAATTTAATATAAAATATT
25244795 AT
1 AT
25244797 TAAAATAATA
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
21 8 0.12
22 5 0.08
23 26 0.41
24 1 0.02
25 1 0.02
26 1 0.02
27 2 0.03
28 20 0.31
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (23 bp):
ATATTAATTTAATATAAAATATT
Found at i:25250500 original size:26 final size:26
Alignment explanation
Indices: 25250470--25250538 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
25250460 CTCATTTGTG
*
25250470 AGTCATCTTGAGACAATCTCTCTGAA
1 AGTCATCTTGGGACAATCTCTCTGAA
25250496 AGTCATCTTGGGACAATCTCTCTGAA
1 AGTCATCTTGGGACAATCTCTCTGAA
25250522 AGTCATCTTGGGACAAT
1 AGTCATCTTGGGACAAT
25250539 GCATGATTAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (26 bp):
AGTCATCTTGGGACAATCTCTCTGAA
Found at i:25252730 original size:39 final size:40
Alignment explanation
Indices: 25252627--25252811 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
25252617 TTGAATGATG
* * * * *
25252627 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCACGAAGGCATTTGTGC-GAGTTACTAAA
* * *
25252667 TCCGGACTAAGATC-CGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCACGAAGGCATTTGTGCGAGTTACTAAA
*
25252707 TCCGGGCTAAG-CATGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCACGAAGGCATTTGTGCGAGTTACTAAA
* * *
25252746 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCACGAAGGCATTTGTGCGAGTTACTA-AA
* *
25252787 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCACGAAGGCATTTG
25252812 AATGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.27
40 77 0.63
41 11 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCACGAAGGCATTTGTGCGAGTTACTAAA
Found at i:25252833 original size:79 final size:79
Alignment explanation
Indices: 25252680--25252844 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
25252670 GGACTAAGAT
* * * **
25252680 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCATGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCACGAAGGCATTTGAACGAGTTACTAA
*
25252745 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
25252759 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CACGAAGGCATTTGAACGAGTTA-C
* *
25252822 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
25252838 CCGAAGG
1 CCGAAGG
25252845 TACGTGATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.66
80 22 0.31
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCACGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:25255294 original size:20 final size:20
Alignment explanation
Indices: 25255271--25255310 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25255261 TAATTACTTT
*
25255271 AATATTAAATTAATATAATA
1 AATACTAAATTAATATAATA
* *
25255291 AATACTATATTAATTTAATA
1 AATACTAAATTAATATAATA
25255311 TTAAATCTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AATACTAAATTAATATAATA
Found at i:25261637 original size:148 final size:148
Alignment explanation
Indices: 25261364--25261664 Score: 503
Period size: 148 Copynumber: 2.0 Consensus size: 148
25261354 TCCAGTGTGA
* * *
25261364 GTATCGATACTTTTACCTAGAATGCTAAAATTTCACAAGTTAAAACTTTTTTCATGCTCAAAACA
1 GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTTAAAACATTTTTCATGCTCAAAACA
* * * *
25261429 TATTCCTACTCAACATACAAATAATATCTATTTTAACCAAGCATACTATCATCTTTTAACCATGC
66 TATTCCTACTCAACATACAAATAATACCAAATTAAACCAAGCATACTATCATCTTTTAACCATGC
25261494 TACATGCCATATTAACAC
131 TACATGCCATATTAACAC
25261512 GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTTAAAACATTTTTCATGCTCAAAACA
1 GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTTAAAACATTTTTCATGCTCAAAACA
* * *
25261577 TATTCCTACTCAACATACAAATAATGCCAAATTAAACCAAGCATGCTATCATCTTTTAACCATTC
66 TATTCCTACTCAACATACAAATAATACCAAATTAAACCAAGCATACTATCATCTTTTAACCATGC
25261642 TACATGCCATATTAACAC
131 TACATGCCATATTAACAC
*
25261660 ATATT
1 GTATT
25261665 TGTTAAGCAA
Statistics
Matches: 142, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
148 142 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (148 bp):
GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTTAAAACATTTTTCATGCTCAAAACA
TATTCCTACTCAACATACAAATAATACCAAATTAAACCAAGCATACTATCATCTTTTAACCATGC
TACATGCCATATTAACAC
Found at i:25263537 original size:65 final size:65
Alignment explanation
Indices: 25263433--25263567 Score: 270
Period size: 65 Copynumber: 2.1 Consensus size: 65
25263423 AATTGAATTA
25263433 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
1 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
25263498 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
1 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
25263563 ACAAC
1 ACAAC
25263568 TCTAATTCGG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 70 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (65 bp):
ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
Found at i:25277851 original size:20 final size:20
Alignment explanation
Indices: 25277809--25277865 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
25277799 ATTCATATAT
* **
25277809 ATTTA-TTTTTATTTGCTTT
1 ATTTATTTTTTATTTTCTGG
25277828 ATTTATTTTTTATTTTCTGG
1 ATTTATTTTTTATTTTCTGG
25277848 ATTTATATCTTTTATTTT
1 ATTTAT-T-TTTTATTTT
25277866 ATTTTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 17 0.53
21 1 0.03
22 9 0.28
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (20 bp):
ATTTATTTTTTATTTTCTGG
Found at i:25277884 original size:47 final size:48
Alignment explanation
Indices: 25277785--25277885 Score: 109
Period size: 49 Copynumber: 2.1 Consensus size: 48
25277775 TTATTTTTTA
* * *
25277785 TTTTTATTTTTTGTATTCATATATATTTATTTTTATTTGCTTTATTTAT
1 TTTTTATTTTCTGGATTCATATATATTTATTTTTATTT-CTTTATGTAT
* *
25277834 TTTTTATTTTCTGGATTTATATCT-TTTA-TTTTATTT-TATTATGTACT
1 TTTTTATTTTCTGGATTCATATATATTTATTTTTATTTCT-TTATGTA-T
25277881 TTTTT
1 TTTTT
25277886 GTTATGTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
45 1 0.02
46 6 0.13
47 14 0.31
48 4 0.09
49 20 0.44
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (48 bp):
TTTTTATTTTCTGGATTCATATATATTTATTTTTATTTCTTTATGTAT
Found at i:25287686 original size:22 final size:23
Alignment explanation
Indices: 25287658--25287700 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
25287648 GCAATCTTAG
25287658 ATATGA-TATGTAATATTAGAAT
1 ATATGATTATGTAATATTAGAAT
* *
25287680 ATATGATTTTGTAATCTTAGA
1 ATATGATTATGTAATATTAGA
25287701 GATTTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (23 bp):
ATATGATTATGTAATATTAGAAT
Found at i:25289743 original size:3 final size:3
Alignment explanation
Indices: 25289698--25289723 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
25289688 ATAATAATAA
25289698 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
25289724 CTACTACTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:25295132 original size:28 final size:28
Alignment explanation
Indices: 25295069--25295191 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
25295059 ATATTAAGTC
*
25295069 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
25295096 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
25295124 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25295152 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25295181 CGCACACTTAG
1 CGCACACTTAG
25295192 CGCCAATCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 21 0.25
28 48 0.56
29 16 0.19
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25300507 original size:80 final size:80
Alignment explanation
Indices: 25300391--25300569 Score: 215
Period size: 80 Copynumber: 2.2 Consensus size: 80
25300381 AGTAACTCAT
* * * *
25300391 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCACACAAATGCCTTC-GGATCTTAACCCG
*
25300455 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
25300470 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCACACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCACACAAATGCCTTCGGATCTTAACCC
25300534 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
25300551 ACAAAGCCTTCGGGACTTA
1 ACAAAGCCTTCGGGACTTA
25300570 GCCCAGACAG
Statistics
Matches: 87, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 11 0.13
80 65 0.75
81 10 0.11
82 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCACACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:25300536 original size:40 final size:40
Alignment explanation
Indices: 25300356--25300523 Score: 191
Period size: 40 Copynumber: 4.2 Consensus size: 40
25300346 CTCGTTCAAG
* * *
25300356 TGCCTTCGGGACATAGCCCGG--TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGAATTA-A-TAACTCACACAAA
* * *
25300395 TGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGA-ATTAATAACTCACACAAA
* * *
25300435 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAA
*
25300475 GGCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAA
25300515 TGCCTTCGG
1 TGCCTTCGG
25300524 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
39 29 0.26
40 78 0.70
41 1 0.01
42 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAA
Found at i:25300570 original size:40 final size:41
Alignment explanation
Indices: 25300357--25300573 Score: 168
Period size: 40 Copynumber: 5.4 Consensus size: 41
25300347 TCGTTCAAGT
* * *
25300357 GCCTTCGGGACATAGCCCGG--TTATAGTAACTCA-TAC-AAT
1 GCCTTCGGGACTTAGCCCGGAATTA-A-TAACTCAGCACAAAG
* * * *
25300396 GCCTTCGGGACTTAACCCGGATTTTAA-AACTC-GCACGAAT
1 GCCTTCGGGACTTAGCCCGGA-ATTAATAACTCAGCACAAAG
* * *
25300436 GCCTTCGGGACTTAACCCGGAATTAGTATCTC-GCACAAAG
1 GCCTTCGGGACTTAGCCCGGAATTAATAACTCAGCACAAAG
* *
25300476 GCCTTCGGGACTTAACCCGGAATTAATAACTCA-CACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAATAACTCAGCACAAAG
* * * *
25300516 GCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAGCCCGGAAT-TAATAACTCAGCACAAAG
25300556 GCCTTCGGGACTTAGCCC
1 GCCTTCGGGACTTAGCCC
25300574 AGACAGCATT
Statistics
Matches: 150, Mismatches: 17, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
39 33 0.22
40 104 0.69
41 10 0.07
42 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGAATTAATAACTCAGCACAAAG
Found at i:25307857 original size:39 final size:40
Alignment explanation
Indices: 25307814--25307981 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
25307804 CTCGTTCAAG
* * * *
25307814 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
25307853 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
25307893 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
25307933 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
25307973 TGCCTTCGG
1 TGCCTTCGG
25307982 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:25307965 original size:80 final size:80
Alignment explanation
Indices: 25307849--25308034 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
25307839 AGTAACTCAT
* * *
25307849 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
25307913 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
25307928 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
25307992 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
25308009 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
25308035 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:25307994 original size:40 final size:40
Alignment explanation
Indices: 25307851--25308034 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
25307841 TAACTCATAC
* *
25307851 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
25307891 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
25307931 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
25307971 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
25308012 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25308035 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:25311608 original size:27 final size:27
Alignment explanation
Indices: 25311526--25311608 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
25311516 GTGTACTCTA
* *
25311526 AAAGGAATGCCTTTGTGCCATATTTTG
1 AAAGGAATGCCTTTGTGGCATATCTTG
* * * **
25311553 AAAAGAATGTCTTTGTAGTGTA-CTTTG
1 AAAGGAATGCCTTTGTGGCATATC-TTG
*
25311580 AAAGGAATGCCTTTGTGGCATATCCTG
1 AAAGGAATGCCTTTGTGGCATATCTTG
25311607 AA
1 AA
25311609 TGGATTGCTT
Statistics
Matches: 41, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (27 bp):
AAAGGAATGCCTTTGTGGCATATCTTG
Found at i:25311892 original size:26 final size:26
Alignment explanation
Indices: 25311852--25311903 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
25311842 TTTTCACTGC
*
25311852 GTAGGTGTTCGCCTATGAATTGTGAT
1 GTAGGTGTTCACCTATGAATTGTGAT
*
25311878 GTAGGTGTTCACCTATGAATTTTGAT
1 GTAGGTGTTCACCTATGAATTGTGAT
25311904 TGTGTACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.27, T:0.40
Consensus pattern (26 bp):
GTAGGTGTTCACCTATGAATTGTGAT
Found at i:25315058 original size:58 final size:58
Alignment explanation
Indices: 25314968--25315084 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
25314958 AGTGATTCTT
*
25314968 TCTTGGTTAATATGACCAAGTCTCAAATGTTAAAAGTACGCCTTATTAGAGTGAGAAG
1 TCTTGGTTAACATGACCAAGTCTCAAATGTTAAAAGTACGCCTTATTAGAGTGAGAAG
* *
25315026 TCTTGGTTAACATGACCAAGTCTGAAATGTTAAAGGTACGCCTTATTAGAGTGAGAAG
1 TCTTGGTTAACATGACCAAGTCTCAAATGTTAAAAGTACGCCTTATTAGAGTGAGAAG
25315084 T
1 T
25315085 TTTAAGTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (58 bp):
TCTTGGTTAACATGACCAAGTCTCAAATGTTAAAAGTACGCCTTATTAGAGTGAGAAG
Found at i:25316844 original size:22 final size:23
Alignment explanation
Indices: 25316806--25316863 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 23
25316796 CATTCCAAAT
*
25316806 CATCCATTA-AACATTCAACTAAA
1 CATCCATTATAA-GTTCAACTAAA
* *
25316829 CAT-CATTATAAGTTCACCTATA
1 CATCCATTATAAGTTCAACTAAA
25316851 CATGCCATTATAA
1 CAT-CCATTATAA
25316864 CCTTGGCCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 16 0.55
23 5 0.17
24 8 0.28
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.31
Consensus pattern (23 bp):
CATCCATTATAAGTTCAACTAAA
Found at i:25321306 original size:16 final size:17
Alignment explanation
Indices: 25321280--25321311 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
25321270 TTTAATTAGA
25321280 TAAATTAATTTTCTAAT
1 TAAATTAATTTTCTAAT
25321297 TAAA-TAATTTTCTAA
1 TAAATTAATTTTCTAA
25321312 ACCAAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATTAATTTTCTAAT
Found at i:25334073 original size:5 final size:5
Alignment explanation
Indices: 25334063--25334096 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
25334053 TTGCATACCC
* *
25334063 ATCCA ATCCA ATCCA ATGCA ATGCA ATCCA ATCC
1 ATCCA ATCCA ATCCA ATCCA ATCCA ATCCA ATCC
25334097 TCACGGTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.35, G:0.06, T:0.21
Consensus pattern (5 bp):
ATCCA
Found at i:25334332 original size:10 final size:10
Alignment explanation
Indices: 25334317--25334345 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
25334307 TCTCTCCCTC
25334317 CCTCCCTCTA
1 CCTCCCTCTA
25334327 CCTCCCTCTA
1 CCTCCCTCTA
25334337 CCTCCCTCT
1 CCTCCCTCT
25334346 CTCTCTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.07, C:0.62, G:0.00, T:0.31
Consensus pattern (10 bp):
CCTCCCTCTA
Found at i:25334349 original size:2 final size:2
Alignment explanation
Indices: 25334342--25334374 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25334332 CTCTACCTCC
25334342 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
25334375 ATAAGTGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:25334349 original size:14 final size:14
Alignment explanation
Indices: 25334306--25334368 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
25334296 TTAAGTTCAC
25334306 CTCTCTCCCTCCCT
1 CTCTCTCCCTCCCT
* *
25334320 CCCTCTACCTCCCT
1 CTCTCTCCCTCCCT
*
25334334 CTAC-CTCCCTCTCT
1 CT-CTCTCCCTCCCT
* *
25334348 CTCTCTCTCTCTCT
1 CTCTCTCCCTCCCT
25334362 CTCTCTC
1 CTCTCTC
25334369 TCTCTCATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
13 1 0.02
14 39 0.95
15 1 0.02
ACGTcount: A:0.03, C:0.59, G:0.00, T:0.38
Consensus pattern (14 bp):
CTCTCTCCCTCCCT
Found at i:25336474 original size:27 final size:26
Alignment explanation
Indices: 25336444--25336525 Score: 89
Period size: 25 Copynumber: 3.2 Consensus size: 26
25336434 ACAAAATCAA
25336444 GAAGCACTC-TCTCGAGCCATATAACAG
1 GAAGC-CTCATCT-GAGCCATATAACAG
*
25336471 GAAG-CTCATGTGAGCCATATAACAG
1 GAAGCCTCATCTGAGCCATATAACAG
* * *
25336496 GAAG-CTCATGTGAGCCATGTAACAA
1 GAAGCCTCATCTGAGCCATATAACAG
25336521 GAAGC
1 GAAGC
25336526 TTATCCGGTC
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
25 44 0.88
26 2 0.04
27 4 0.08
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
GAAGCCTCATCTGAGCCATATAACAG
Found at i:25336486 original size:25 final size:25
Alignment explanation
Indices: 25336457--25336526 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
25336447 GCACTCTCTC
25336457 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
25336482 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
* *
25336507 GAGCCATGTAACAAGAAGCT
1 GAGCCATATAACAGGAAGCT
25336527 TATCCGGTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATGT
Found at i:25336654 original size:25 final size:25
Alignment explanation
Indices: 25336600--25336658 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
25336590 GCAACCCCGA
*
25336600 AGAGCTAT-TATTAGGAAGCTTCGG
1 AGAGCCATATATTAGGAAGCTTCGG
*
25336624 ATAGCCATATATTAGGAAG-TTCAGG
1 AGAGCCATATATTAGGAAGCTTC-GG
*
25336649 CGAGCCATAT
1 AGAGCCATAT
25336659 CAGGAAGCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (25 bp):
AGAGCCATATATTAGGAAGCTTCGG
Found at i:25349050 original size:20 final size:20
Alignment explanation
Indices: 25349007--25349046 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
25348997 TATTATATAG
25349007 TTAATTAAGGTTTTAATTAA
1 TTAATTAAGGTTTTAATTAA
25349027 TTAATTAA-GTTTT-ATTAA
1 TTAATTAAGGTTTTAATTAA
25349045 TT
1 TT
25349047 TTAAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.35
19 5 0.25
20 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TTAATTAAGGTTTTAATTAA
Found at i:25350572 original size:21 final size:21
Alignment explanation
Indices: 25350548--25350588 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
25350538 TTAAAACTTT
* *
25350548 TCTTCATAATAAATCTAAATA
1 TCTTCAAAATAAATATAAATA
*
25350569 TCTTTAAAATAAATATAAAT
1 TCTTCAAAATAAATATAAAT
25350589 TTTAAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (21 bp):
TCTTCAAAATAAATATAAATA
Found at i:25356124 original size:39 final size:39
Alignment explanation
Indices: 25356070--25356149 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
25356060 TAGGGATCCT
25356070 AAGGATTAAAAATATAAATAATAGAGCATGTAAAACGTG
1 AAGGATTAAAAATATAAATAATAGAGCATGTAAAACGTG
*
25356109 AAGGATTAAGAATATAAATAATAGAGCATGTAAAACGTG
1 AAGGATTAAAAATATAAATAATAGAGCATGTAAAACGTG
25356148 AA
1 AA
25356150 ATCTATCAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.54, C:0.05, G:0.19, T:0.23
Consensus pattern (39 bp):
AAGGATTAAAAATATAAATAATAGAGCATGTAAAACGTG
Found at i:25358516 original size:269 final size:269
Alignment explanation
Indices: 25358034--25358571 Score: 916
Period size: 269 Copynumber: 2.0 Consensus size: 269
25358024 TCCAAACTTC
* *
25358034 AGCTGCTAAGAGATCAACCCCTTTCAATCTCAAAAATTCAATCGCACTATTTCTTCGTAATTCCT
1 AGCTGCTAAGAGATCAACCCCTTTCAATCTCAAAAATTCAATCGCACCATTTCTCCGTAATTCCT
* * * *
25358099 TTATTAGATCCTGTCGAACAGTAGGTGCCGATACTGTAGCAAAAGTAATTTTCGCAACACACTAA
66 TTATTAGAGCCCGTCGAACAGTAGGTGCAGATACTGTAGCAAAAGTAATTTCCGCAACACACTAA
*
25358164 AGAGCATCAGCGATAGCTCAAAGTAAATTTGAATCACCTACTCCCTCATTATTACCTTGCTCAAC
131 AGAGCATCAGCGATAGCTCAAAGTAAATTTGAATCACCTACTCCCTCATTATTACCTCGCTCAAC
* * *
25358229 ATTAGGTTGTTGAGCACTAGCTGGGTTAAAATTCAGCGTTACTGATTCAGTTTCCTCACAATCCT
196 ATTAGGTTGTTAAGCACTAGCTAGGTTAAAATTCAGCATTACTGATTCAGTTTCCTCACAATCCT
25358294 CAGTATAAT
261 CAGTATAAT
*
25358303 AGCTGCTAAGAGATCAACCCCTTTCAATCTCAAAAATTCAATCGCACCATTTCTCCGTAATTTCT
1 AGCTGCTAAGAGATCAACCCCTTTCAATCTCAAAAATTCAATCGCACCATTTCTCCGTAATTCCT
*
25358368 TTATTAGAGCCCGTCGAACAGTAGGTGTCAG-TACTGTAGCAGAAGTAATTTCCGCAACACACTA
66 TTATTAGAGCCCGTCGAACAGTAGGTG-CAGATACTGTAGCAAAAGTAATTTCCGCAACACACTA
* *
25358432 AAGAGCATCAGCGATAGCTCGAAGTAAATTTGAATCACCTACTCCCTCATTATTAGCTCGCTCAA
130 AAGAGCATCAGCGATAGCTCAAAGTAAATTTGAATCACCTACTCCCTCATTATTACCTCGCTCAA
* *
25358497 CATTAGGTTGTTAAGCACTAGCTAGGTTAACATTCAGCATTACTGATTCAGTTTCCTTACAATCC
195 CATTAGGTTGTTAAGCACTAGCTAGGTTAAAATTCAGCATTACTGATTCAGTTTCCTCACAATCC
25358562 TCAGTATAAT
260 TCAGTATAAT
25358572 CATCGCTAGA
Statistics
Matches: 252, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
269 250 0.99
270 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (269 bp):
AGCTGCTAAGAGATCAACCCCTTTCAATCTCAAAAATTCAATCGCACCATTTCTCCGTAATTCCT
TTATTAGAGCCCGTCGAACAGTAGGTGCAGATACTGTAGCAAAAGTAATTTCCGCAACACACTAA
AGAGCATCAGCGATAGCTCAAAGTAAATTTGAATCACCTACTCCCTCATTATTACCTCGCTCAAC
ATTAGGTTGTTAAGCACTAGCTAGGTTAAAATTCAGCATTACTGATTCAGTTTCCTCACAATCCT
CAGTATAAT
Found at i:25361460 original size:27 final size:27
Alignment explanation
Indices: 25361406--25361460 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
25361396 ATATATGAAT
*
25361406 TCATTTCAATATCCATATCACATTTCA
1 TCATTTCAATATCCATATCACATCTCA
* *
25361433 TCATTTC-ATATTCCATTTCCCATCTCA
1 TCATTTCAATA-TCCATATCACATCTCA
25361460 T
1 T
25361461 ATTCATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (27 bp):
TCATTTCAATATCCATATCACATCTCA
Found at i:25361469 original size:18 final size:19
Alignment explanation
Indices: 25361438--25361474 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
25361428 TTTCATCATT
25361438 TCATATTCCATTTCCCATC
1 TCATATTCCATTTCCCATC
*
25361457 TCATATT-CATTTCTCATC
1 TCATATTCCATTTCCCATC
25361475 ATTGTCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.22, C:0.32, G:0.00, T:0.46
Consensus pattern (19 bp):
TCATATTCCATTTCCCATC
Found at i:25366094 original size:137 final size:136
Alignment explanation
Indices: 25365919--25366194 Score: 480
Period size: 137 Copynumber: 2.0 Consensus size: 136
25365909 CCGGGCCCAA
*
25365919 GCCAAAAAGTGGTGCCCGAGGCCCGGCCCGTTTTCTAAACGGGCCTCGTTTTTTTGCCCAAACCC
1 GCCAAAAAGTGGTGCCCGAGGCCCGGCCCGTTTTCTAAACGGGCCTCATTTTTTTGCCCAAACCC
25365984 ATATTTAGAGCCTATATTTTTACCCGAACCCTCCCATATTTCGGGCGGACCGTCGGGCCGGGCCA
66 ATATTTAGAGCCTATATTTTTACCCGAACCCTCCCATATTTCGGGCGGACCGTCGGGCCGGGCCA
25366049 GGCCAGG
131 GGCC-GG
* * *
25366056 GCCAAAAAGTGGTGCCCGATGCCCGGCCTGTTTTCTAAACGGGCGTCATTTTTTTGCCCAAACCC
1 GCCAAAAAGTGGTGCCCGAGGCCCGGCCCGTTTTCTAAACGGGCCTCATTTTTTTGCCCAAACCC
* * *
25366121 ATATTTCGAGCCTATATTTTTACCCGAACCCTCCCATATTTCGGGCGGGCCGTCGGGCCGGGCCG
66 ATATTTAGAGCCTATATTTTTACCCGAACCCTCCCATATTTCGGGCGGACCGTCGGGCCGGGCCA
25366186 GGCCGG
131 GGCCGG
25366192 GCC
1 GCC
25366195 GCCCGACCCA
Statistics
Matches: 132, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
136 5 0.04
137 127 0.96
ACGTcount: A:0.18, C:0.32, G:0.26, T:0.24
Consensus pattern (136 bp):
GCCAAAAAGTGGTGCCCGAGGCCCGGCCCGTTTTCTAAACGGGCCTCATTTTTTTGCCCAAACCC
ATATTTAGAGCCTATATTTTTACCCGAACCCTCCCATATTTCGGGCGGACCGTCGGGCCGGGCCA
GGCCGG
Found at i:25366447 original size:9 final size:9
Alignment explanation
Indices: 25366430--25366466 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
25366420 TGAGTTTTCA
25366430 AATTCGAAT
1 AATTCGAAT
*
25366439 AACTCGAAT
1 AATTCGAAT
25366448 AATTCGAAT
1 AATTCGAAT
25366457 AATTCGAAT
1 AATTCGAAT
25366466 A
1 A
25366467 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:25366708 original size:30 final size:31
Alignment explanation
Indices: 25366674--25366733 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
25366664 AAACCTTTTA
*
25366674 TTTTCTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCCAC
*
25366704 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
25366734 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 18 0.69
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:25367476 original size:5 final size:5
Alignment explanation
Indices: 25367466--25367491 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
25367456 CTCGAAAATT
25367466 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
25367492 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:25369326 original size:24 final size:24
Alignment explanation
Indices: 25369299--25369355 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
25369289 TGCTCCGTTC
*
25369299 TGTTCTGTTCTGTT-TGAATTGCAT
1 TGTTCTGCTCTGTTCTG-ATTGCAT
* * *
25369323 TGTTTTGCTCTGTTCTGTTTGCCT
1 TGTTCTGCTCTGTTCTGATTGCAT
25369347 TGTTCTGCT
1 TGTTCTGCT
25369356 GTACTACCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.05, C:0.18, G:0.21, T:0.56
Consensus pattern (24 bp):
TGTTCTGCTCTGTTCTGATTGCAT
Found at i:25371966 original size:15 final size:15
Alignment explanation
Indices: 25371941--25371975 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
25371931 GACTCTATTT
*
25371941 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
25371955 TAATTAATATTAAGA
1 TAATTAATATTAAGA
25371970 TAATTA
1 TAATTA
25371976 TTAATGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:25376866 original size:29 final size:29
Alignment explanation
Indices: 25376791--25376873 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 29
25376781 TTCATATAAG
*
25376791 AATAATTATATT-AAGAATTATATTAAAT
1 AATAATTATATTAAAAAATTATATTAAAT
* * ** *
25376819 TATATATT-TTTTATTAAATTATATTTAAT
1 AATA-ATTATATTAAAAAATTATATTAAAT
* *
25376848 AATAATTATGTTAAAAAATTAAATTA
1 AATAATTATATTAAAAAATTATATTA
25376874 TTTATTATTT
Statistics
Matches: 40, Mismatches: 12, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
28 9 0.22
29 31 0.77
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
AATAATTATATTAAAAAATTATATTAAAT
Found at i:25377045 original size:44 final size:44
Alignment explanation
Indices: 25376996--25377089 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 44
25376986 TATTACAACA
*
25376996 TCATTCTATTCAACCGAATACAA-GAA-TA-TCATTACAGTTCTATT
1 TCATTCCATTCAACC-AA-ACAATGAATTACT-ATTACAGTTCTATT
25377040 TCATTCCATTCAACCAAACAATTGAATTACTATTACAGTTCTATT
1 TCATTCCATTCAACCAAACAA-TGAATTACTATTACAGTTCTATT
*
25377085 CCATT
1 TCATT
25377090 ACACTTCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
42 4 0.09
43 2 0.05
44 17 0.39
45 20 0.45
46 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.37
Consensus pattern (44 bp):
TCATTCCATTCAACCAAACAATGAATTACTATTACAGTTCTATT
Found at i:25377092 original size:16 final size:16
Alignment explanation
Indices: 25377071--25377142 Score: 92
Period size: 16 Copynumber: 4.5 Consensus size: 16
25377061 TTGAATTACT
*
25377071 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
25377087 ATTACA-CTTCTATTCC
1 ATTACAGC-TCTATTCC
* *
25377103 ATTAGAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
25377119 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
25377135 ATTACAGC
1 ATTACAGC
25377143 GAACCAAACG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
16 46 0.98
17 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:25377440 original size:31 final size:32
Alignment explanation
Indices: 25377375--25377440 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
25377365 GTTAACTAAA
25377375 ATTGTTTAAATAATAATTTAAAAGTTAAAAAT
1 ATTGTTTAAATAATAATTTAAAAGTTAAAAAT
*
25377407 ATTG-TTAAAT-AT-ATTTAACAATTTAAAACAT
1 ATTGTTTAAATAATAATTTAA-AAGTTAAAA-AT
25377438 ATT
1 ATT
25377441 TAAAATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 6 0.19
30 10 0.32
31 11 0.35
32 4 0.13
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (32 bp):
ATTGTTTAAATAATAATTTAAAAGTTAAAAAT
Found at i:25380429 original size:6 final size:7
Alignment explanation
Indices: 25380412--25380437 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
25380402 TTATTTTTAA
25380412 AAAAATT
1 AAAAATT
25380419 AAAAATT
1 AAAAATT
25380426 AAAAATT
1 AAAAATT
25380433 AAAAA
1 AAAAA
25380438 AATATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:25382224 original size:199 final size:201
Alignment explanation
Indices: 25381877--25382276 Score: 750
Period size: 199 Copynumber: 2.0 Consensus size: 201
25381867 TTTAAATGGT
25381877 GTTATACAGTCAATGCCACAATACACATACATGATACAATTATATGAGAGCACACACTTAAAACA
1 GTTATACAGTCAATGCCACAATACACATACATGATACAATTATATGAGAGCACACACTTAAAACA
*
25381942 CACTAGATTTTGGCGCGCCCAAGATGTCGGTGAAAAACAAACTTTGATTGAAATAGTAAAATGAA
66 CACTAGATTTTGGCGCGCCCAAGATGTCGGTGAAAAACAAACTTTGATTGAAATAATAAAATGAA
25382007 AACTATAATGTGTTAAGTTCAAACCAATGTGT-A-TTTTTTTTTATAAAGAAGATATAAAAAGAT
131 AACTATAATGTGTTAAGTTCAAACCAATGTGTAACTTTTTTTTTATAAAGAAGATATAAAAAGAT
25382070 GAACTC
196 GAACTC
*
25382076 GTTATACAGTCAATGCCACAATACACATACATGATACAATTATATGAGAGCACACACTTAAAATA
1 GTTATACAGTCAATGCCACAATACACATACATGATACAATTATATGAGAGCACACACTTAAAACA
25382141 CACTAGATTTTGGCGCGCCCAAGATGTCGGTGAAAAACAAACTTTGATTGAAATAATAAAATGAA
66 CACTAGATTTTGGCGCGCCCAAGATGTCGGTGAAAAACAAACTTTGATTGAAATAATAAAATGAA
* *
25382206 AACTATAATGTTTTAAGTTCAAATCAATGTGTAACTTTTTTTTTATAAAGAAGATATAAAAAGAT
131 AACTATAATGTGTTAAGTTCAAACCAATGTGTAACTTTTTTTTTATAAAGAAGATATAAAAAGAT
25382271 GAACTC
196 GAACTC
25382277 TCTCAAAATA
Statistics
Matches: 195, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
199 158 0.81
200 1 0.01
201 36 0.18
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (201 bp):
GTTATACAGTCAATGCCACAATACACATACATGATACAATTATATGAGAGCACACACTTAAAACA
CACTAGATTTTGGCGCGCCCAAGATGTCGGTGAAAAACAAACTTTGATTGAAATAATAAAATGAA
AACTATAATGTGTTAAGTTCAAACCAATGTGTAACTTTTTTTTTATAAAGAAGATATAAAAAGAT
GAACTC
Found at i:25382599 original size:26 final size:27
Alignment explanation
Indices: 25382558--25382610 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
25382548 TGAAAATAGA
* *
25382558 AAAAATACAATTGGAAAAA-TAGGAAG
1 AAAAATAAAATAGGAAAAAGTAGGAAG
25382584 AAAAATAAAATAGGAAAAAGTAGGAAG
1 AAAAATAAAATAGGAAAAAGTAGGAAG
25382611 TTATATGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.64, C:0.02, G:0.21, T:0.13
Consensus pattern (27 bp):
AAAAATAAAATAGGAAAAAGTAGGAAG
Found at i:25384425 original size:62 final size:62
Alignment explanation
Indices: 25384328--25384445 Score: 209
Period size: 62 Copynumber: 1.9 Consensus size: 62
25384318 AATTTCCTAG
**
25384328 AATTCTTAACGATTAGAAGATATTTGCGTATGGTGTACCAATTAATAAGCTTAATGTGTTAT
1 AATTCTTAACGATTAGAAGATATTTGCACATGGTGTACCAATTAATAAGCTTAATGTGTTAT
*
25384390 AATTCTTAACGATTAGAAGATATTTGCACATGGTGTACCAATTAATGAGCTTAATG
1 AATTCTTAACGATTAGAAGATATTTGCACATGGTGTACCAATTAATAAGCTTAATG
25384446 AGTGTTATGT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (62 bp):
AATTCTTAACGATTAGAAGATATTTGCACATGGTGTACCAATTAATAAGCTTAATGTGTTAT
Found at i:25386810 original size:23 final size:23
Alignment explanation
Indices: 25386779--25386824 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
25386769 TTATTAACAT
* *
25386779 TGTTCGTGAACATGTTCGTTTAA
1 TGTTCGTGAACATATTCGATTAA
*
25386802 TGTTTGTGAACATATTCGATTAA
1 TGTTCGTGAACATATTCGATTAA
25386825 GTTAAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (23 bp):
TGTTCGTGAACATATTCGATTAA
Found at i:25387017 original size:48 final size:48
Alignment explanation
Indices: 25386954--25387051 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
25386944 ACAAACTGAA
* * *
25386954 CACGAATAAATTTAAAAATAAACAAGTGAACATGAATAGAAGTTTATT
1 CACGAATAAACTTAAAAATAAAAAAATGAACATGAATAGAAGTTTATT
* *
25387002 CACGAATAAACTTAAAAATAAAAAAATGAACATGAATAGAGGTTTGTT
1 CACGAATAAACTTAAAAATAAAAAAATGAACATGAATAGAAGTTTATT
25387050 CA
1 CA
25387052 TTCAAATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.26
Consensus pattern (48 bp):
CACGAATAAACTTAAAAATAAAAAAATGAACATGAATAGAAGTTTATT
Found at i:25389108 original size:38 final size:36
Alignment explanation
Indices: 25389001--25389121 Score: 145
Period size: 38 Copynumber: 3.3 Consensus size: 36
25388991 CTACCTTCAT
* ** *
25389001 CCGATTTGCTTCCTTGTTTCTTTGCTTTTTTTTCTG
1 CCGATTTGCTCCCCAGTTTCTTTTCTTTTTTTTCTG
*
25389037 CCGATTTGCT-CCCAGTTTATTTTCTTTTCTTTTCTG
1 CCGATTTGCTCCCCAGTTTCTTTTCTTTT-TTTTCTG
* *
25389073 CCGATTTGCTCCCCCCGTTTCTTTTCTTTCTTTTTCGG
1 CCGATTTGCT-CCCCAGTTTCTTTTCTTT-TTTTTCTG
25389111 CCGATTTGCTC
1 CCGATTTGCTC
25389122 AATTTTTGCC
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
35 14 0.19
36 27 0.36
37 1 0.01
38 31 0.42
39 1 0.01
ACGTcount: A:0.05, C:0.28, G:0.13, T:0.54
Consensus pattern (36 bp):
CCGATTTGCTCCCCAGTTTCTTTTCTTTTTTTTCTG
Found at i:25390227 original size:69 final size:69
Alignment explanation
Indices: 25390143--25390281 Score: 199
Period size: 69 Copynumber: 2.0 Consensus size: 69
25390133 TTTGTTGGTT
*
25390143 TGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAAATGTTATT-AGTTTGTTAGTGAGTAGAAGAT
1 TGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAAATGTTATTGA-TTTGTTAGTCAGTAGAAGAT
25390207 GAAAC
65 GAAAC
* * * * * *
25390212 TGTTCTGGCAGTTGTTTTGATTGTCTGCTGGAAATTGTTCTTGATTTGTTAGTCAGTAGAATATG
1 TGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAAATGTTATTGATTTGTTAGTCAGTAGAAGATG
25390277 AAAC
66 AAAC
25390281 T
1 T
25390282 AGAACTTGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
69 61 0.98
70 1 0.02
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.42
Consensus pattern (69 bp):
TGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAAATGTTATTGATTTGTTAGTCAGTAGAAGATG
AAAC
Found at i:25391510 original size:37 final size:37
Alignment explanation
Indices: 25391467--25391555 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
25391457 ATCATAAATA
*
25391467 AATAAACTAATCAATGTTCAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
25391504 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
25391541 AATGAACTAATCAAT
1 AATAAACTAATCAAT
25391556 ATATTTATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.35
Consensus pattern (37 bp):
AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
Found at i:25391638 original size:33 final size:33
Alignment explanation
Indices: 25391601--25391673 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
25391591 AAACTTGTAG
* *
25391601 TATACATATACCAACAATTAATTTTAGGTCAAT
1 TATACATACACCAACAATTAATTTTACGTCAAT
25391634 TATACATACACCAACAATTAATTTTACGTCAAT
1 TATACATACACCAACAATTAATTTTACGTCAAT
25391667 TATACAT
1 TATACAT
25391674 GCTTTAATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (33 bp):
TATACATACACCAACAATTAATTTTACGTCAAT
Found at i:25391691 original size:138 final size:138
Alignment explanation
Indices: 25391532--25391817 Score: 529
Period size: 138 Copynumber: 2.1 Consensus size: 138
25391522 AAAACTTTGA
25391532 ACATGCTTTAATGAACTAATCAATATATTTATACGAAATTAAATGTCATAAAAGTTTTAAAACTT
1 ACATGCTTTAATGAACTAATCAATATATTTATACGAAATTAAATGTCATAAAAGTTTTAAAACTT
*
25391597 GTAGT-ATACATATACCAACAATTAATTTTAGGTCAATTATACATACACCAACAATTAATTTTAC
66 G-AATCATACATATACCAACAATTAATTTTAGGTCAATTATACATACACCAACAATTAATTTTAC
25391661 GTCAATTAT
130 GTCAATTAT
*
25391670 ACATGCTTTAATGAACTAATCAATATATTTATACGAAATTAAATGTTATAAAAGTTTTAAAACTT
1 ACATGCTTTAATGAACTAATCAATATATTTATACGAAATTAAATGTCATAAAAGTTTTAAAACTT
*
25391735 GAATCATACATATACCAACAATTAATTTTAGGTCAATTATACATACACCAACAATTAATTTTAGG
66 GAATCATACATATACCAACAATTAATTTTAGGTCAATTATACATACACCAACAATTAATTTTACG
25391800 TCAATTAT
131 TCAATTAT
25391808 ACATGCTTTA
1 ACATGCTTTA
25391818 TAATTTCTTT
Statistics
Matches: 144, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
137 2 0.01
138 142 0.99
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (138 bp):
ACATGCTTTAATGAACTAATCAATATATTTATACGAAATTAAATGTCATAAAAGTTTTAAAACTT
GAATCATACATATACCAACAATTAATTTTAGGTCAATTATACATACACCAACAATTAATTTTACG
TCAATTAT
Found at i:25391777 original size:33 final size:33
Alignment explanation
Indices: 25391740--25391811 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
25391730 AACTTGAATC
*
25391740 ATACATATACCAACAATTAATTTTAGGTCAATT
1 ATACATACACCAACAATTAATTTTAGGTCAATT
25391773 ATACATACACCAACAATTAATTTTAGGTCAATT
1 ATACATACACCAACAATTAATTTTAGGTCAATT
25391806 ATACAT
1 ATACAT
25391812 GCTTTATAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.35
Consensus pattern (33 bp):
ATACATACACCAACAATTAATTTTAGGTCAATT
Found at i:25395026 original size:25 final size:23
Alignment explanation
Indices: 25394998--25395052 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
25394988 TATTATCAAT
* *
25394998 AATTTTATGAAATTATATATTATTA
1 AATTATATGAAATAAT-TATT-TTA
*
25395023 AATTATATGTAATAATTATTTTA
1 AATTATATGAAATAATTATTTTA
25395046 AATTATA
1 AATTATA
25395053 CAAATTCATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 10 0.37
24 4 0.15
25 13 0.48
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
AATTATATGAAATAATTATTTTA
Found at i:25395060 original size:85 final size:91
Alignment explanation
Indices: 25394877--25395077 Score: 270
Period size: 85 Copynumber: 2.3 Consensus size: 91
25394867 TGATTTTAGT
* *
25394877 AAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 AAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
* * *
25394942 TTTAATATTAATTATTTTAAATTGTAT
65 TGTAATATTAATTATTTTAAATTATAC
* *
25394969 AAATTCATATAAGAAAAATTATTATCAATAATTTTATGAAA-T-TATAT-ATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
25395031 GT-A-A-TAATTATTTTAAATTATAC
66 GTAATATTAATTATTTTAAATTATAC
* *
25395054 AAATTCATGTAAGATAATTTATTA
1 AAATTCATATAAGAAAATTTATTA
25395078 GTTATAATTA
Statistics
Matches: 99, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
85 38 0.38
86 1 0.01
87 1 0.01
88 16 0.16
89 5 0.05
90 1 0.01
91 22 0.22
92 15 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
AAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
GTAATATTAATTATTTTAAATTATAC
Found at i:25395119 original size:47 final size:47
Alignment explanation
Indices: 25394998--25395119 Score: 113
Period size: 47 Copynumber: 2.6 Consensus size: 47
25394988 TATTATCAAT
* * *
25394998 AATTTTATGAAATTATATATTATTAAATTATATGTAATAATTATTTTA
1 AATTTTATCAAATCATATATT-TTAATTTATATGTAATAATTATTTTA
* * *** *
25395046 AATTATA-CAAATTCATGTAAGATAATTTAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTTATAT-GTAATAATTATTTTA
*
25395093 AATTTTATTAAATCATATATTTTAATT
1 AATTTTATCAAATCATATATTTTAATT
25395120 AAAATATATT
Statistics
Matches: 56, Mismatches: 15, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
46 1 0.02
47 41 0.73
48 14 0.25
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (47 bp):
AATTTTATCAAATCATATATTTTAATTTATATGTAATAATTATTTTA
Found at i:25395255 original size:25 final size:26
Alignment explanation
Indices: 25395227--25395281 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
25395217 TTATTAAATT
*
25395227 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
25395252 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
25395277 A-ATAT
1 ATATAT
25395282 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:25395503 original size:45 final size:44
Alignment explanation
Indices: 25395403--25395513 Score: 124
Period size: 45 Copynumber: 2.6 Consensus size: 44
25395393 TTTTCCATTA
25395403 TGCTATTACACCTCTATTCC--T---TTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * * ***
25395442 TACTATTACGCTTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
25395487 TGCTATTACACCTCTATTCCATTACAT
1 TGCTATTACACCTCTATTCCATTACAT
25395514 CTCTAATCCA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
39 17 0.30
41 1 0.02
44 14 0.25
45 25 0.44
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:25395512 original size:16 final size:16
Alignment explanation
Indices: 25395493--25395544 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
25395483 GATTTGCTAT
* *
25395493 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
*
25395509 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
25395525 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
25395541 TACA
1 TACA
25395545 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:25396092 original size:21 final size:21
Alignment explanation
Indices: 25396058--25396111 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
25396048 AATTAATATT
*
25396058 TAAAATTA-TAAAAAAAATCA
1 TAAAAATATTAAAAAAAATCA
* * **
25396078 TAAAAGTATTAAAAAATATTT
1 TAAAAATATTAAAAAAAATCA
25396099 TAAAAATATTAAA
1 TAAAAATATTAAA
25396112 CATATTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAAAATATTAAAAAAAATCA
Found at i:25396110 original size:9 final size:10
Alignment explanation
Indices: 25396078--25396124 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
25396068 AAAAAAATCA
*
25396078 TAAAAGTATT
1 TAAAAATATT
*
25396088 AAAAAATATTT
1 TAAAAATA-TT
25396099 TAAAAATA-T
1 TAAAAATATT
*
25396108 TAAACATATT
1 TAAAAATATT
25396118 TAAAAAT
1 TAAAAAT
25396125 TATCAAAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
9 8 0.27
10 13 0.43
11 9 0.30
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
TAAAAATATT
Found at i:25397449 original size:22 final size:20
Alignment explanation
Indices: 25397402--25397455 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
25397392 TATTAAATCA
25397402 TTATAATATTTTACATTTTT
1 TTATAATATTTTACATTTTT
*
25397422 TAATAAT-TGTTTACAATTTTTT
1 TTATAATAT-TTTAC-A-TTTTT
25397444 TTATAA-ATTTTA
1 TTATAATATTTTA
25397456 TAGCTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 1 0.04
20 11 0.39
21 5 0.18
22 11 0.39
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (20 bp):
TTATAATATTTTACATTTTT
Found at i:25415887 original size:27 final size:27
Alignment explanation
Indices: 25415857--25415911 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
25415847 AATATAATAC
* *
25415857 AATTA-TAAAATAATTAAATTTTACTTA
1 AATTATTAAAAT-ATCAAATTTTAATTA
*
25415884 AATTATTAACATATCAAATTTTAATTA
1 AATTATTAAAATATCAAATTTTAATTA
25415911 A
1 A
25415912 TTTTATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (27 bp):
AATTATTAAAATATCAAATTTTAATTA
Found at i:25419031 original size:35 final size:35
Alignment explanation
Indices: 25418965--25419052 Score: 117
Period size: 35 Copynumber: 2.5 Consensus size: 35
25418955 GTACACGGTT
* *
25418965 AACCATCCAGCACACCAG-ATGCTCAAGTGAGCCA
1 AACCAACCAACACACCAGAATGCTCAAGTGAGCCA
* *
25418999 GACCAACCAACACACCAGAATGCTCGTA-TGAGCCA
1 AACCAACCAACACACCAGAATGCTC-AAGTGAGCCA
25419034 AACCAACCAACACACCAGA
1 AACCAACCAACACACCAGA
25419053 GTACACTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
34 15 0.32
35 31 0.66
36 1 0.02
ACGTcount: A:0.40, C:0.36, G:0.15, T:0.09
Consensus pattern (35 bp):
AACCAACCAACACACCAGAATGCTCAAGTGAGCCA
Found at i:25422404 original size:10 final size:10
Alignment explanation
Indices: 25422389--25422419 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
25422379 TAATGTGATT
25422389 TGAATTGAAA
1 TGAATTGAAA
25422399 TGAATTGAAA
1 TGAATTGAAA
25422409 TGAATTGAAA
1 TGAATTGAAA
25422419 T
1 T
25422420 AGACAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.32
Consensus pattern (10 bp):
TGAATTGAAA
Found at i:25422633 original size:13 final size:13
Alignment explanation
Indices: 25422615--25422640 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25422605 CCCATGTGAA
25422615 CTTAGTAAAAGGT
1 CTTAGTAAAAGGT
25422628 CTTAGTAAAAGGT
1 CTTAGTAAAAGGT
25422641 TAGAGTACGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
CTTAGTAAAAGGT
Found at i:25426083 original size:31 final size:31
Alignment explanation
Indices: 25426021--25426083 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
25426011 TTTTTTAAAA
25426021 TTTAAATATATATTTTATATTTTTAAAATTT
1 TTTAAATATATATTTTATATTTTTAAAATTT
* *
25426052 TTTAGAATATCTA-TTTA-ATTTTTAAAAATT
1 TTTA-AATATATATTTTATATTTTTAAAATTT
25426082 TT
1 TT
25426084 AACATTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 14 0.48
31 8 0.28
32 7 0.24
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (31 bp):
TTTAAATATATATTTTATATTTTTAAAATTT
Found at i:25432586 original size:23 final size:23
Alignment explanation
Indices: 25432556--25432670 Score: 149
Period size: 23 Copynumber: 4.9 Consensus size: 23
25432546 CGTCATTGGA
25432556 AAAGGATGAATTGACGGAAATGT
1 AAAGGATGAATTGACGGAAATGT
*
25432579 AAAGGATGAATTGACGAAAAATGT
1 AAAGGATGAATTGACG-GAAATGT
* * * *
25432603 AAAGGAGGAACTAACGAAAATGT
1 AAAGGATGAATTGACGGAAATGT
*
25432626 AAAGGATGAATTGACGGTAATGT
1 AAAGGATGAATTGACGGAAATGT
*
25432649 AAAGGATGAATTGGCGGCAAAT
1 AAAGGATGAATTGACGG-AAAT
25432671 TATCTGAGTA
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
23 57 0.72
24 22 0.28
ACGTcount: A:0.45, C:0.06, G:0.29, T:0.20
Consensus pattern (23 bp):
AAAGGATGAATTGACGGAAATGT
Found at i:25440161 original size:23 final size:23
Alignment explanation
Indices: 25440103--25440166 Score: 101
Period size: 23 Copynumber: 2.7 Consensus size: 23
25440093 ATTGGGAAAT
*
25440103 GATGAATTGACGAAAATGTAAAG
1 GATGAATTGACGGAAATGTAAAG
*
25440126 GATGAATTGACGGTAATGTAAAG
1 GATGAATTGACGGAAATGTAAAG
25440149 GATGAATTGACGGCAAAT
1 GATGAATTGACGG-AAAT
25440167 TTTCTAAGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
23 34 0.92
24 3 0.08
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.23
Consensus pattern (23 bp):
GATGAATTGACGGAAATGTAAAG
Found at i:25441600 original size:29 final size:29
Alignment explanation
Indices: 25441558--25441616 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
25441548 GGGTTATGGG
*
25441558 TGTAAAGTCTGGTAATGCTTCGTAAAGTC
1 TGTAAAGTCTGGTAATGCTTCATAAAGTC
25441587 TGTAAAGTCTGGTAATGCTTCATAAAGTC
1 TGTAAAGTCTGGTAATGCTTCATAAAGTC
25441616 T
1 T
25441617 ATAATAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (29 bp):
TGTAAAGTCTGGTAATGCTTCATAAAGTC
Found at i:25450373 original size:23 final size:25
Alignment explanation
Indices: 25450345--25450391 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
25450335 TTTCTAATCT
*
25450345 CTTCTT-TACTTGA-AATTTTACAC
1 CTTCTTCTACTAGATAATTTTACAC
25450368 CTTCTTGCTACTAGATAATTTTAC
1 CTTCTT-CTACTAGATAATTTTAC
25450392 TTTTCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
25 6 0.30
26 8 0.40
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (25 bp):
CTTCTTCTACTAGATAATTTTACAC
Found at i:25454845 original size:25 final size:25
Alignment explanation
Indices: 25454815--25454933 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 25
25454805 GCTGTCTCTC
*
25454815 GAGCCATATAACAGGAAGCTCATAT
1 GAGCCATATAACAGGAAGCTCATAA
* * * **
25454840 GAGCCATGTAACGGGAAGCTTATCC
1 GAGCCATATAACAGGAAGCTCATAA
* ** **
25454865 GGGCTGTATAATGGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATAA
* **
25454890 GAGCCATA-ATCAGGAAGCTCATGG
1 GAGCCATATAACAGGAAGCTCATAA
*
25454914 GAGCCA-ATAACAGGTAGCTC
1 GAGCCATATAACAGGAAGCTC
25454934 TGAAGAGTCA
Statistics
Matches: 70, Mismatches: 23, Indels: 3
0.73 0.24 0.03
Matches are distributed among these distances:
23 1 0.01
24 27 0.39
25 42 0.60
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATAA
Found at i:25455075 original size:26 final size:27
Alignment explanation
Indices: 25454995--25455078 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 27
25454985 AGCGAGCCAT
* *
25454995 ATCGGGAAACTT-CGGAGAGCCAT-TA
1 ATCGGGAAGCTTACGAAGAGCCATATA
* * * * *
25455020 ATCTGGAAGCTCACAAAGGGCC-TTTA
1 ATCGGGAAGCTTACGAAGAGCCATATA
25455046 ATCGGGAAGCTTACGAAGAGCCATAT-
1 ATCGGGAAGCTTACGAAGAGCCATATA
25455072 ATCGGGA
1 ATCGGGA
25455079 CACTCATAAG
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
25 10 0.22
26 33 0.73
27 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (27 bp):
ATCGGGAAGCTTACGAAGAGCCATATA
Found at i:25459598 original size:39 final size:39
Alignment explanation
Indices: 25459481--25459742 Score: 320
Period size: 39 Copynumber: 6.6 Consensus size: 39
25459471 GCTCCTCGTT
* *
25459481 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
25459521 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
25459561 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25459600 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
25459639 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
25459678 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
25459719 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
25459743 CAACATTCAA
Statistics
Matches: 202, Mismatches: 13, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
39 130 0.64
40 61 0.30
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:25467511 original size:40 final size:40
Alignment explanation
Indices: 25467444--25467720 Score: 455
Period size: 40 Copynumber: 6.9 Consensus size: 40
25467434 ATAACCGCAA
* * * *
25467444 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
25467484 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
25467524 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
25467564 GCACAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
25467604 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
25467644 GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
25467684 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
25467721 ATGCTCATGC
Statistics
Matches: 219, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 219 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:25475768 original size:40 final size:40
Alignment explanation
Indices: 25475717--25475993 Score: 473
Period size: 40 Copynumber: 6.9 Consensus size: 40
25475707 ATAACCGCAA
* * * *
25475717 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
25475757 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
25475797 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
25475837 GCACAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
25475877 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
25475917 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
25475957 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
25475994 ATGCTCATGC
Statistics
Matches: 223, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:25479229 original size:39 final size:39
Alignment explanation
Indices: 25479112--25479373 Score: 320
Period size: 39 Copynumber: 6.6 Consensus size: 39
25479102 GCTCCTCGTT
* *
25479112 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
25479152 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
25479192 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
25479231 CAAATGCCTTCGGGCTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25479270 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
25479309 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
25479350 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
25479374 CAACATTCAA
Statistics
Matches: 202, Mismatches: 13, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
39 130 0.64
40 61 0.30
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:25479361 original size:117 final size:119
Alignment explanation
Indices: 25479112--25479370 Score: 327
Period size: 118 Copynumber: 2.2 Consensus size: 119
25479102 GCTCCTCGTT
* **
25479112 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCAGAAT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCC
* *
25479175 GGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
64 GGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
*
25479231 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
25479294 AATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
66 AATTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TAGCA
25479350 C-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
25479371 GGACAACATT
Statistics
Matches: 124, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
117 46 0.37
118 53 0.43
119 25 0.20
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
Found at i:25485481 original size:25 final size:25
Alignment explanation
Indices: 25485445--25485563 Score: 100
Period size: 25 Copynumber: 4.8 Consensus size: 25
25485435 GCTCTCTCTC
25485445 GAGCCATATAACAGGAAGCTCATAT
1 GAGCCATATAACAGGAAGCTCATAT
* * *
25485470 GAGCCATGTAACAGGAAGCTTATCCT
1 GAGCCATATAACAGGAAGCTCAT-AT
** * *
25485496 G-GCTGTATAACGGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATAT
* **
25485520 GAGCCATA-ATCAGGAAGCTCATGC
1 GAGCCATATAACAGGAAGCTCATAT
* *
25485544 GAGCCA-ATAACGGGTAGCTC
1 GAGCCATATAACAGGAAGCTC
25485564 CGGATAGCCA
Statistics
Matches: 72, Mismatches: 19, Indels: 7
0.73 0.19 0.07
Matches are distributed among these distances:
23 1 0.01
24 28 0.39
25 41 0.57
26 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATAT
Found at i:25485573 original size:48 final size:47
Alignment explanation
Indices: 25485502--25485637 Score: 146
Period size: 48 Copynumber: 2.8 Consensus size: 47
25485492 TCCTGGCTGT
** *
25485502 ATAACGGGAAGCTCATAAGAGCCATAATCAGGAAGCTCATGCGAGCC
1 ATAACGGGAAGCTCCGAAGAGCCATAATCAGGAAGCTCAAGCGAGCC
* * * * *
25485549 AATAACGGGTAGCTCCGGATAGCCATATATCGGGAAGTTCAAGCGAGCC
1 -ATAACGGGAAGCTCCGAAGAGCCATA-ATCAGGAAGCTCAAGCGAGCC
* * *
25485598 ATATCGGGAAGCTCCGAAGAGGCATAAATCAGTAAGCTCA
1 ATAACGGGAAGCTCCGAAGAGCCAT-AATCAGGAAGCTCA
25485638 GAAAGAGCCT
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
48 51 0.73
49 19 0.27
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (47 bp):
ATAACGGGAAGCTCCGAAGAGCCATAATCAGGAAGCTCAAGCGAGCC
Found at i:25485680 original size:26 final size:26
Alignment explanation
Indices: 25485501--25485689 Score: 92
Period size: 26 Copynumber: 7.6 Consensus size: 26
25485491 ATCCTGGCTG
* *
25485501 TATAACGGGAAGCTCA-TAAGAGCCA
1 TATATCGGGAAGCTCACAAAGAGCCA
* ***
25485526 TA-ATCAGGAAGCTCA-TGCGAGCCA
1 TATATCGGGAAGCTCACAAAGAGCCA
* * ** *
25485550 -ATAACGGGTAGCTC-CGGATAGCCA
1 TATATCGGGAAGCTCACAAAGAGCCA
* **
25485574 TATATCGGGAAGTTCA-AGCGAGCC-
1 TATATCGGGAAGCTCACAAAGAGCCA
* *
25485598 -ATATCGGGAAGCTC-CGAAGAGGCA
1 TATATCGGGAAGCTCACAAAGAGCCA
* * * *
25485622 TAAATCAGTAAGCTCAGAAAGAGCC-
1 TATATCGGGAAGCTCACAAAGAGCCA
* *
25485647 TTTAATCGAGAAGCTCACAAAGAGCCA
1 TAT-ATCGGGAAGCTCACAAAGAGCCA
*
25485674 TATATCGGGACGCTCA
1 TATATCGGGAAGCTCA
25485690 TAAGAGTTGC
Statistics
Matches: 118, Mismatches: 36, Indels: 19
0.68 0.21 0.11
Matches are distributed among these distances:
23 18 0.15
24 33 0.28
25 30 0.25
26 35 0.30
27 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.17
Consensus pattern (26 bp):
TATATCGGGAAGCTCACAAAGAGCCA
Found at i:25486731 original size:16 final size:13
Alignment explanation
Indices: 25486697--25486724 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25486687 TTTTATTTTA
25486697 TTATTTATCATCT
1 TTATTTATCATCT
25486710 TTATTTATCATCT
1 TTATTTATCATCT
25486723 TT
1 TT
25486725 CCAATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:25489167 original size:54 final size:53
Alignment explanation
Indices: 25489109--25489218 Score: 157
Period size: 54 Copynumber: 2.1 Consensus size: 53
25489099 ACACAGTCCG
* *
25489109 GTCCCAGCCCCTGTCCTCACCCATGTAACTCTCTAAGTAGAGTTATACGGCCGT
1 GTCCCAGCCCATGTCCTCACCCATGTAACTCTCTAAGTAGAGTTATA-GGCCAT
* * * *
25489163 GTCCCAGCCCATGTCCTCACCCGTGTAACTCTTTGAGTAGGGTTATAGGCCAT
1 GTCCCAGCCCATGTCCTCACCCATGTAACTCTCTAAGTAGAGTTATAGGCCAT
25489216 GTC
1 GTC
25489219 ACACACCCGA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 8 0.16
54 42 0.84
ACGTcount: A:0.19, C:0.33, G:0.21, T:0.27
Consensus pattern (53 bp):
GTCCCAGCCCATGTCCTCACCCATGTAACTCTCTAAGTAGAGTTATAGGCCAT
Found at i:25493737 original size:25 final size:26
Alignment explanation
Indices: 25493687--25493747 Score: 115
Period size: 25 Copynumber: 2.4 Consensus size: 26
25493677 ATAAAAAATA
25493687 ACCAAAATATTATAATTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTATTT
25493713 ACCAAAATATTATAA-TTTTTTATTT
1 ACCAAAATATTATAATTTTTTTATTT
25493738 ACCAAAATAT
1 ACCAAAATAT
25493748 ACCAAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 20 0.57
26 15 0.43
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (26 bp):
ACCAAAATATTATAATTTTTTTATTT
Found at i:25493897 original size:4 final size:4
Alignment explanation
Indices: 25493888--25493947 Score: 61
Period size: 4 Copynumber: 15.0 Consensus size: 4
25493878 GAAGGAGAGG
* *
25493888 GAAA GAAA GAAA GAAA GAAA GAAA GGAAG GAGAG GAAA GAAA G-AA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GA-AA GAAA GAAA GAAA GAAA
*
25493936 GAAG GAAA GAAA
1 GAAA GAAA GAAA
25493948 AGGAAATGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
3 4 0.08
4 37 0.77
5 7 0.15
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:25493926 original size:22 final size:18
Alignment explanation
Indices: 25493887--25493947 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
25493877 AGAAGGAGAG
25493887 GGAAAGAAAG--AAAGAA
1 GGAAAGAAAGAAAAAGAA
* * *
25493903 AGAAAGAAAG-GAAGGAGA
1 GGAAAGAAAGAAAAAGA-A
25493921 GGAAAGAAAGAAAAAGAA
1 GGAAAGAAAGAAAAAGAA
25493939 GGAAAGAAA
1 GGAAAGAAA
25493948 AGGAAATGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 9 0.24
17 4 0.11
18 20 0.54
19 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
GGAAAGAAAGAAAAAGAA
Found at i:25498051 original size:3 final size:3
Alignment explanation
Indices: 25498043--25498083 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
25498033 TCTTAATACT
25498043 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
25498084 TAATAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:25498367 original size:27 final size:26
Alignment explanation
Indices: 25498329--25498430 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
25498319 AACACGAGTA
*
25498329 GTGCCGCCAATCAGTATGGCACCATTG
1 GTGCCGCCAATCACT-TGGCACCATTG
* * *
25498356 GTGCCACCAATCTCCTTGGCACCATCG
1 GTGCCGCCAATC-ACTTGGCACCATTG
*
25498383 GTGCCGCCAATCACTTTGGCACCTTTG
1 GTGCCGCCAATCAC-TTGGCACCATTG
25498410 GTGCCGCCAATCATCTTGGCA
1 GTGCCGCCAATCA-CTTGGCA
25498431 TGACCAGGGT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 61 0.95
28 2 0.03
ACGTcount: A:0.19, C:0.34, G:0.23, T:0.25
Consensus pattern (26 bp):
GTGCCGCCAATCACTTGGCACCATTG
Found at i:25498516 original size:26 final size:27
Alignment explanation
Indices: 25498480--25498538 Score: 102
Period size: 26 Copynumber: 2.2 Consensus size: 27
25498470 GTTTTTTGGT
*
25498480 ATATTTTGGTAAATAAAAAAA-TTATA
1 ATATTTGGGTAAATAAAAAAAGTTATA
25498506 ATATTTGGGTAAATAAAAAAAGTTATA
1 ATATTTGGGTAAATAAAAAAAGTTATA
25498533 ATATTT
1 ATATTT
25498539 TGGTTATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (27 bp):
ATATTTGGGTAAATAAAAAAAGTTATA
Found at i:25502757 original size:16 final size:16
Alignment explanation
Indices: 25502736--25502766 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25502726 ATCAATAATT
*
25502736 TTAAATAATGTTTTAG
1 TTAAATAATGATTTAG
25502752 TTAAATAATGATTTA
1 TTAAATAATGATTTA
25502767 AAAAAAAATA
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:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (16 bp):
TTAAATAATGATTTAG
Found at i:25504688 original size:23 final size:23
Alignment explanation
Indices: 25504658--25504702 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
25504648 GGAAAAGAAA
*
25504658 AAAAGAAGAAAAAAACATAAAAG
1 AAAAGAAGAAAAAAACAAAAAAG
*
25504681 AAAAGAAGAACAAAACAAAAAA
1 AAAAGAAGAAAAAAACAAAAAA
25504703 AATGTTAAAC
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:0.80, C:0.07, G:0.11, T:0.02
Consensus pattern (23 bp):
AAAAGAAGAAAAAAACAAAAAAG
Found at i:25505432 original size:38 final size:38
Alignment explanation
Indices: 25505381--25505456 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
25505371 AATGCGTTAG
25505381 GACACAACGTATCAAATTCTCGATAATGAGCTTTTTAT
1 GACACAACGTATCAAATTCTCGATAATGAGCTTTTTAT
25505419 GACACAACGTATCAAATTCTCGATAATGAGCTTTTTAT
1 GACACAACGTATCAAATTCTCGATAATGAGCTTTTTAT
25505457 TTATGTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (38 bp):
GACACAACGTATCAAATTCTCGATAATGAGCTTTTTAT
Found at i:25506125 original size:48 final size:43
Alignment explanation
Indices: 25506025--25506139 Score: 117
Period size: 46 Copynumber: 2.6 Consensus size: 43
25506015 GAATATGTAT
*
25506025 ATTATAAAATAAAACAATGTAAGTATGTACATATATATATATGC
1 ATTATAAAATAAAA-AATGTAAGTATGTACATATATATATATGA
* *
25506069 A-TAT-AAATAAAAATATGAATATGTATGTAGATTTATATATATATGA
1 ATTATAAAATAAAAA-ATG--TAAGTATGTACA--TATATATATATGA
*
25506115 ATTATAAAATATAAAAATGTGAGTA
1 ATTATAAAATA-AAAAATGTAAGTA
25506140 ATTATATAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
41 1 0.02
42 11 0.19
43 3 0.05
44 11 0.19
46 17 0.29
47 3 0.05
48 8 0.14
49 4 0.07
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (43 bp):
ATTATAAAATAAAAAATGTAAGTATGTACATATATATATATGA
Found at i:25507811 original size:16 final size:16
Alignment explanation
Indices: 25507790--25507820 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25507780 CACCTAAGAC
25507790 ACACCTCAACCTTATA
1 ACACCTCAACCTTATA
*
25507806 ACACCTCAATCTTAT
1 ACACCTCAACCTTAT
25507821 CTGGATATTA
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:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
ACACCTCAACCTTATA
Found at i:25510609 original size:12 final size:12
Alignment explanation
Indices: 25510592--25510616 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25510582 CTTTGATTCG
25510592 TTCTAAATCATT
1 TTCTAAATCATT
25510604 TTCTAAATCATT
1 TTCTAAATCATT
25510616 T
1 T
25510617 GATTGAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TTCTAAATCATT
Found at i:25511098 original size:17 final size:21
Alignment explanation
Indices: 25511058--25511103 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
25511048 ATTATTTTAA
25511058 AATTATTTTTCGATCTAAATT
1 AATTATTTTTCGATCTAAATT
25511079 AATTATTTTTC-A-CT-AA-T
1 AATTATTTTTCGATCTAAATT
25511096 AATTATTT
1 AATTATTT
25511104 AATTACTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.36
18 2 0.08
19 2 0.08
20 1 0.04
21 11 0.44
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (21 bp):
AATTATTTTTCGATCTAAATT
Found at i:25515498 original size:139 final size:139
Alignment explanation
Indices: 25515297--25515572 Score: 410
Period size: 139 Copynumber: 2.0 Consensus size: 139
25515287 GGAGAACAAT
* ** * * *
25515297 AGGCTATAAGTGGATTTTTAAGCTAAAAAAGAATGGTGATGGGACTATACCCAGATATAAGGCCA
1 AGGCTAGAAGTGGATTTTTAAGCTAAAAAAGAATAATGATGGAAATATACCCAGATACAAGGCCA
25515362 AACT-AGTGGTCAAAGGGTATCTCCAAGAAACTGGTATTGATTTCCAAGAAACTTTTAGCCCTCT
66 AACTGA-TGGTCAAAGGGTATCTCCAAGAAACTGGTATTGATTTCCAAGAAACTTTTAGCCCTCT
25515426 GGTCAAACGA
130 GGTCAAACGA
* * * *
25515436 AGGCTAGAAGTGGATTTTTAATCTAAAAAAGAATAATGATGGAAATATAGCTATATACAAGGCCA
1 AGGCTAGAAGTGGATTTTTAAGCTAAAAAAGAATAATGATGGAAATATACCCAGATACAAGGCCA
* * * *
25515501 AACTGATGGTCAAAGGGTATCTCCAATAAGCTGGTATTGATTTTCAAGAAACTTTTAGTCCTCTG
66 AACTGATGGTCAAAGGGTATCTCCAAGAAACTGGTATTGATTTCCAAGAAACTTTTAGCCCTCTG
25515566 GTCAAAC
131 GTCAAAC
25515573 CAGCTACTAT
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
139 121 0.99
140 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (139 bp):
AGGCTAGAAGTGGATTTTTAAGCTAAAAAAGAATAATGATGGAAATATACCCAGATACAAGGCCA
AACTGATGGTCAAAGGGTATCTCCAAGAAACTGGTATTGATTTCCAAGAAACTTTTAGCCCTCTG
GTCAAACGA
Found at i:25516806 original size:3 final size:3
Alignment explanation
Indices: 25516800--25516882 Score: 76
Period size: 3 Copynumber: 27.7 Consensus size: 3
25516790 AGCAAGTATG
* * * * * * * * * *
25516800 AAC AAC AAC AAT AGC AAC AAC AAC AGC AGC AGC AGC AGC AGC AGC AGC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
25516848 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
25516883 TAAGAAGTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.57, C:0.31, G:0.11, T:0.01
Consensus pattern (3 bp):
AAC
Found at i:25517494 original size:33 final size:35
Alignment explanation
Indices: 25517457--25517553 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
25517447 ATGGTTATAT
25517457 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
25517490 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
25517525 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
25517554 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:25524071 original size:45 final size:45
Alignment explanation
Indices: 25524003--25524093 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
25523993 CTGTCTCGAG
**
25524003 TTTCCAAGATATCTTCCTTCTTATTCTTCTTTTTTTGCTTGTTTA
1 TTTCCAAGATATCTTCCACCTTATTCTTCTTTTTTTGCTTGTTTA
25524048 TTTCCAAGATAT-TTACCACCTTATTCTTCTTTTTTTGCTTGTTTA
1 TTTCCAAGATATCTT-CCACCTTATTCTTCTTTTTTTGCTTGTTTA
25524093 T
1 T
25524094 AATTGTTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 2 0.05
45 41 0.95
ACGTcount: A:0.15, C:0.20, G:0.07, T:0.58
Consensus pattern (45 bp):
TTTCCAAGATATCTTCCACCTTATTCTTCTTTTTTTGCTTGTTTA
Found at i:25535709 original size:16 final size:18
Alignment explanation
Indices: 25535675--25535711 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
25535665 TTATAATATA
*
25535675 ATATATTATATTATCTTT
1 ATATATTATATTATATTT
25535693 ATATATTATA-TA-ATTT
1 ATATATTATATTATATTT
25535709 ATA
1 ATA
25535712 ACACATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 2 0.11
18 10 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATATTATATTATATTT
Found at i:25535987 original size:21 final size:21
Alignment explanation
Indices: 25535945--25535987 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
25535935 ATTTTAAAAT
**
25535945 TTTAAACTTTTTGTGATGAAA
1 TTTAAACTTTTTGAAATGAAA
* *
25535966 TTTAAAGTTTTTGAAATTAAA
1 TTTAAACTTTTTGAAATGAAA
25535987 T
1 T
25535988 GACTAAAATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (21 bp):
TTTAAACTTTTTGAAATGAAA
Found at i:25536259 original size:9 final size:9
Alignment explanation
Indices: 25536245--25536269 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
25536235 TTTGGTTAAA
25536245 AATTAACCG
1 AATTAACCG
25536254 AATTAACCG
1 AATTAACCG
25536263 AATTAAC
1 AATTAAC
25536270 TAAATTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:25538327 original size:17 final size:18
Alignment explanation
Indices: 25538293--25538338 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
25538283 CCGTTATGTC
25538293 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
25538308 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
25538325 CGCGACCGCGACCG
1 CGCGACCGCGACCG
25538339 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:25539124 original size:16 final size:17
Alignment explanation
Indices: 25539099--25539132 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
25539089 ATCATTTTCT
*
25539099 TTTAATTATAT-AATTA
1 TTTAAATATATCAATTA
25539115 TTTAAATATATCAATTA
1 TTTAAATATATCAATTA
25539132 T
1 T
25539133 AAATTAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAATATATCAATTA
Found at i:25551235 original size:5 final size:5
Alignment explanation
Indices: 25551225--25551250 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
25551215 ATATATACAA
25551225 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
25551251 CTCTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:25553137 original size:25 final size:25
Alignment explanation
Indices: 25553109--25553223 Score: 135
Period size: 25 Copynumber: 4.5 Consensus size: 25
25553099 TGTGCAACAT
25553109 AAAGGCTTTCTTTACATTTCGCCAC
1 AAAGGCTTTCTTTACATTTCGCCAC
25553134 AAAGGCTTTCTTTACATTTCGCCAC
1 AAAGGCTTTCTTTACATTTCGCCAC
* *
25553159 AAAGGCTTTCTTTTCATAGATT-TCCAC
1 AAAGGCTTTCTTTACAT---TTCGCCAC
*
25553186 AAAGG-TTCTCTTTACATTTCGCAAC
1 AAAGGCTT-TCTTTACATTTCGCCAC
* *
25553211 AATGACTTTCTTT
1 AAAGGCTTTCTTT
25553224 TCTTTATTTG
Statistics
Matches: 77, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
24 2 0.03
25 52 0.68
26 4 0.05
27 17 0.22
28 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.39
Consensus pattern (25 bp):
AAAGGCTTTCTTTACATTTCGCCAC
Found at i:25571985 original size:30 final size:29
Alignment explanation
Indices: 25571936--25571999 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 29
25571926 AAATTATTAA
* *
25571936 TTTTTACTTTTCTTTGTTTAATTTTTGTATT
1 TTTTTACCTTTCTTAGTTT-ATTTTT-TATT
25571967 TTTTTACCTTT-TTAGTTTATTTTTTATT
1 TTTTTACCTTTCTTAGTTTATTTTTTATT
25571995 TTTTT
1 TTTTT
25572000 CCAAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 9 0.29
29 6 0.19
30 6 0.19
31 10 0.32
ACGTcount: A:0.12, C:0.06, G:0.05, T:0.77
Consensus pattern (29 bp):
TTTTTACCTTTCTTAGTTTATTTTTTATT
Done.