Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 119 of 211
Found at i:33619024 original size:24 final size:25
Alignment explanation
Indices: 33618997--33619059 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
33618987 AAAATTATCC
33618997 AAAATATTTAATTTCTTACAA-ATT
1 AAAATATTTAATTTCTTACAACATT
* *
33619021 AAAATTATTAAATCTCTTACAACATT
1 AAAA-TATTTAATTTCTTACAACATT
**
33619047 TTAAT-TTTAATTT
1 AAAATATTTAATTT
33619060 ATTAAAAGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
24 10 0.32
25 16 0.52
26 5 0.16
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (25 bp):
AAAATATTTAATTTCTTACAACATT
Found at i:33619507 original size:43 final size:43
Alignment explanation
Indices: 33619460--33619554 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
33619450 GAACATGACA
*
33619460 TTTAGTGACGCTTCTCA-TAAAAACGCTACTAAATGTCATGTTC
1 TTTAGTGACG-TTCTCAGTAAAAACGCCACTAAATGTCATGTTC
* * * * * * *
33619503 TTTAGCGGCGTTTTTAGTAACAGCGCCGCTAAATGTCATGTTC
1 TTTAGTGACGTTCTCAGTAAAAACGCCACTAAATGTCATGTTC
33619546 TTTAGTGAC
1 TTTAGTGAC
33619555 ACTTTTACTA
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
42 4 0.10
43 37 0.90
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (43 bp):
TTTAGTGACGTTCTCAGTAAAAACGCCACTAAATGTCATGTTC
Found at i:33619561 original size:43 final size:43
Alignment explanation
Indices: 33619477--33619595 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 43
33619467 ACGCTTCTCA
** * ** *
33619477 TAAAAACGCTACTAAATGTCATGTTCTTTAGCGGCGTTTTTAG
1 TAAAAACGCCGCTAAATGTCATGTTCTTTAGCGACACTTTTAC
* * *
33619520 TAACAGCGCCGCTAAATGTCATGTTCTTTAGTGACACTTTTAC
1 TAAAAACGCCGCTAAATGTCATGTTCTTTAGCGACACTTTTAC
* * * *
33619563 TAAAAATGTCGCGAAAGGTCATGTTCTTTAGCG
1 TAAAAACGCCGCTAAATGTCATGTTCTTTAGCG
33619596 GCATTTGTGG
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (43 bp):
TAAAAACGCCGCTAAATGTCATGTTCTTTAGCGACACTTTTAC
Found at i:33619950 original size:66 final size:65
Alignment explanation
Indices: 33619874--33620007 Score: 180
Period size: 66 Copynumber: 2.0 Consensus size: 65
33619864 ATTTTGAAGC
* * * * *
33619874 TGTAGCTGGAGTTCGTCATATTTTCTGCTT-GCCTCTGTTTCTCTCGCTGCTACCTCTGCTTTGA
1 TGTAGCTGGAGTTCATCATATTTTCT--TTAGCCTCTGCTTCTCTCGATGCTACCTCCGCTTTAA
33619938 GT
64 GT
*
33619940 TGTAGCTGGAGTTCATCATATTTTCTTTGAGCCTCTGCTTCTCTCGATGCTGCCTCCGCTTTAAG
1 TGTAGCTGGAGTTCATCATATTTTCTTT-AGCCTCTGCTTCTCTCGATGCTACCTCCGCTTTAAG
33620005 T
65 T
33620006 TG
1 TG
33620008 AGCAATTTGC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
64 2 0.03
66 58 0.97
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.43
Consensus pattern (65 bp):
TGTAGCTGGAGTTCATCATATTTTCTTTAGCCTCTGCTTCTCTCGATGCTACCTCCGCTTTAAGT
Found at i:33625917 original size:28 final size:29
Alignment explanation
Indices: 33625886--33625986 Score: 77
Period size: 28 Copynumber: 3.5 Consensus size: 29
33625876 TTATTCCTAC
33625886 AATT-ATCATAAAATATGATTATTTATTT
1 AATTAATCATAAAATATGATTATTTATTT
* * *
33625914 AATTAATC-GAAAAT-TAATTAATTATTCAT
1 AATTAATCATAAAATATGATTATTTATT--T
* * *
33625943 AGAATT-ATTATGAAATATGGTTATTTATTT
1 --AATTAATCATAAAATATGATTATTTATTT
33625973 AATTAATCA-AAAAT
1 AATTAATCATAAAAT
33625987 TAATTAATTA
Statistics
Matches: 54, Mismatches: 11, Indels: 16
0.67 0.14 0.20
Matches are distributed among these distances:
27 10 0.19
28 17 0.31
29 7 0.13
30 3 0.06
31 8 0.15
32 9 0.17
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (29 bp):
AATTAATCATAAAATATGATTATTTATTT
Found at i:33625927 original size:59 final size:59
Alignment explanation
Indices: 33625780--33626150 Score: 427
Period size: 59 Copynumber: 6.4 Consensus size: 59
33625770 TATGATAATC
* * * *
33625780 ATTATGAAATATGATCATTTA--T--TTAACCGAAGATAAATTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * * *
33625835 ATTATGAAACATGATTATTTA--T--TTAATCTAAAATAAATTAATTATTCCTACAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * * *
33625890 ATCATAAAATATGATTATTTATTTAATTAATCGAAAATTAATTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * * *
33625949 ATTATGAAATATGGTTATTTATTTAATTAATCAAAAATTAATTAATTATTCGTATAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * * *
33626008 ATTATGATATAAGAATA-TTATTTAATTAATCTAAAATAAATTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * * * * *
33626066 ATTATGAAATATGGTTATTTATTTAATTAATTAAAAATTAATTAATTATTCGTATACTT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* *
33626125 ATTATGAAATAAGAATATTTATTTAA
1 ATTATGAAATATGATTATTTATTTAA
33626151 AGTTTCTTCA
Statistics
Matches: 270, Mismatches: 41, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
55 66 0.24
57 1 0.00
58 50 0.19
59 153 0.57
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (59 bp):
ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
Found at i:33626068 original size:117 final size:118
Alignment explanation
Indices: 33625796--33626150 Score: 513
Period size: 117 Copynumber: 3.1 Consensus size: 118
33625786 AAATATGATC
* * * * *
33625796 ATTTATTTAACCGAAGATAAATTAATTATTCATAGAATTATTATGAAACAT-G--A-TTATTTAT
1 ATTTAATTAATCGAAAATAAATTAATTATTCATAGAATTATTATGAAATATGGTTATTTATTTAA
* * * * * * * *
33625857 TTAATCTAAAATAAATTAATTATTCCTACAATTATCATAAAATATGATTATTT
66 TTAATCAAAAATTAATTAATTATTCGTATAATTATTATGAAATAAGAATATTT
*
33625910 ATTTAATTAATCGAAAATTAATTAATTATTCATAGAATTATTATGAAATATGGTTATTTATTTAA
1 ATTTAATTAATCGAAAATAAATTAATTATTCATAGAATTATTATGAAATATGGTTATTTATTTAA
*
33625975 TTAATCAAAAATTAATTAATTATTCGTATAATTATTATGATATAAGAATA-TT
66 TTAATCAAAAATTAATTAATTATTCGTATAATTATTATGAAATAAGAATATTT
*
33626027 ATTTAATTAATCTAAAATAAATTAATTATTCATAGAATTATTATGAAATATGGTTATTTATTTAA
1 ATTTAATTAATCGAAAATAAATTAATTATTCATAGAATTATTATGAAATATGGTTATTTATTTAA
* *
33626092 TTAATTAAAAATTAATTAATTATTCGTATACTTATTATGAAATAAGAATATTT
66 TTAATCAAAAATTAATTAATTATTCGTATAATTATTATGAAATAAGAATATTT
33626145 ATTTAA
1 ATTTAA
33626151 AGTTTCTTCA
Statistics
Matches: 216, Mismatches: 20, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
114 46 0.21
115 1 0.00
117 113 0.52
118 56 0.26
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.45
Consensus pattern (118 bp):
ATTTAATTAATCGAAAATAAATTAATTATTCATAGAATTATTATGAAATATGGTTATTTATTTAA
TTAATCAAAAATTAATTAATTATTCGTATAATTATTATGAAATAAGAATATTT
Found at i:33626078 original size:176 final size:173
Alignment explanation
Indices: 33625815--33626150 Score: 476
Period size: 176 Copynumber: 1.9 Consensus size: 173
33625805 ACCGAAGATA
* *
33625815 AATTAATTATTCATAGAATTATTATGAAACATGATTATTTATTTAATCTAAAATAAATTAATTAT
1 AATTAATTATTCATAGAATTATTATGAAAAATGATTATTTAATTAATCTAAAATAAATTAATTAT
* *
33625880 TCCTACAATTATCATAAAATATGATTATTTATTTAATTAATCGAAAATTAATTAATTATTCATAG
66 TCATACAATTATCATAAAATATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTCATAG
* **
33625945 AATTATTATGAAATATGGTTATTTATTTAATTAATCAAAAATT
131 AATTATTATGAAATAAGAATATTTATTTAATTAATCAAAAATT
* *
33625988 AATTAATTATTCGTATAATTATTATGATATAAGAAT-ATTATTTAATTAATCTAAAATAAATTAA
1 AATTAATTATTCATAGAATTATTATG--A-AA-AATGATTATTTAATTAATCTAAAATAAATTAA
* * * * *
33626052 TTATTCATAGAATTATTATGAAATATGGTTATTTATTTAATTAATTAAAAATTAATTAATTATTC
62 TTATTCATACAATTATCATAAAATATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTC
* * *
33626117 GTATACTTATTATGAAATAAGAATATTTATTTAA
127 ATAGAATTATTATGAAATAAGAATATTTATTTAA
33626151 AGTTTCTTCA
Statistics
Matches: 142, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
173 24 0.17
175 1 0.01
176 115 0.81
177 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (173 bp):
AATTAATTATTCATAGAATTATTATGAAAAATGATTATTTAATTAATCTAAAATAAATTAATTAT
TCATACAATTATCATAAAATATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTCATAG
AATTATTATGAAATAAGAATATTTATTTAATTAATCAAAAATT
Found at i:33627193 original size:25 final size:25
Alignment explanation
Indices: 33627132--33627193 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
33627122 CGATGCAGCA
* * * *
33627132 GACTGTCGACAGTGATGCAGCAGAT
1 GACTTTCGACGGTAATGCAGCAGAG
*
33627157 GACTTTCAACGGTAATGCAGCAGAG
1 GACTTTCGACGGTAATGCAGCAGAG
33627182 GACTTTCGACGG
1 GACTTTCGACGG
33627194 CGACGGCGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (25 bp):
GACTTTCGACGGTAATGCAGCAGAG
Found at i:33639295 original size:17 final size:17
Alignment explanation
Indices: 33639263--33639296 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33639253 TCTTGTTGAC
*
33639263 ATTAAACTCCTAAATAA
1 ATTAAACTACTAAATAA
*
33639280 ATTAAACTACTTAATAA
1 ATTAAACTACTAAATAA
33639297 TTATTAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (17 bp):
ATTAAACTACTAAATAA
Found at i:33643683 original size:149 final size:149
Alignment explanation
Indices: 33643413--33643699 Score: 493
Period size: 149 Copynumber: 1.9 Consensus size: 149
33643403 CCAAATGCTT
* *
33643413 TCCTAAGTATAAAAACATGAATCTAAAGGATTAGAAGCATCGAATTTATCATTAACATTGAATAA
1 TCCTAAGTATAAAAACATGAATCTAAAGGATTAAAAGCATCAAATTTATCATTAACATTGAATAA
*
33643478 TCACCCAAAAACGCATTAAGAATTAGATTAAAACATGTTACTTTTAGCATTTATCAAATATCCCC
66 TCACCCAAAAACGCATTAAGAATTAGATTAAAACATGTTACTTTTAGCACTTATCAAATATCCCC
33643543 ACACTTAAACGTTTGTTTC
131 ACACTTAAACGTTTGTTTC
*
33643562 TCCTAAGTATAAAAACATGAATTTAAAGGATTAAAAGCATCAAATTTATCATTAACATTGAATAA
1 TCCTAAGTATAAAAACATGAATCTAAAGGATTAAAAGCATCAAATTTATCATTAACATTGAATAA
* * * *
33643627 TCAGCCAAAAATGCATTAAGAGTTAGATTAAAACATGTTACTTTTAGCACTTATCAAATATCCCG
66 TCACCCAAAAACGCATTAAGAATTAGATTAAAACATGTTACTTTTAGCACTTATCAAATATCCCC
*
33643692 ATACTTAA
131 ACACTTAA
33643700 GCGCTTGCTT
Statistics
Matches: 129, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
149 129 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (149 bp):
TCCTAAGTATAAAAACATGAATCTAAAGGATTAAAAGCATCAAATTTATCATTAACATTGAATAA
TCACCCAAAAACGCATTAAGAATTAGATTAAAACATGTTACTTTTAGCACTTATCAAATATCCCC
ACACTTAAACGTTTGTTTC
Found at i:33647345 original size:17 final size:20
Alignment explanation
Indices: 33647309--33647347 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
33647299 TTTCTTTTTA
33647309 AAATAACATGAAAGTAAAAT
1 AAATAACATGAAAGTAAAAT
33647329 AAATAA-AT-AAA-TAAAAT
1 AAATAACATGAAAGTAAAAT
33647346 AA
1 AA
33647348 GAACACTCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 3 0.16
19 2 0.11
20 6 0.32
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AAATAACATGAAAGTAAAAT
Found at i:33653390 original size:40 final size:40
Alignment explanation
Indices: 33653340--33653461 Score: 178
Period size: 40 Copynumber: 3.1 Consensus size: 40
33653330 TTAAAAAATT
* *
33653340 AAACCCTAAACCTTAATTTATTTTTTCTTATACCTTAAAC
1 AAACCTTAAACCTTAATTTATTTTTTCTTAAACCTTAAAC
33653380 AAACCTTAAACCTTAATTTATTTTTTCTTAAACCTTAAAC
1 AAACCTTAAACCTTAATTTATTTTTTCTTAAACCTTAAAC
* * *
33653420 AAACCTTAAACCCTAA--T-TTTTTTCCTAAACCCTAAAC
1 AAACCTTAAACCTTAATTTATTTTTTCTTAAACCTTAAAC
33653457 AAACC
1 AAACC
33653462 CTAACCCTAA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
37 23 0.30
38 1 0.01
40 53 0.69
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (40 bp):
AAACCTTAAACCTTAATTTATTTTTTCTTAAACCTTAAAC
Found at i:33654451 original size:31 final size:32
Alignment explanation
Indices: 33654414--33654479 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
33654404 TTGAAAATTT
33654414 AAAATTT-AATTTTTTTATATTTTT-ATTTTTA
1 AAAATTTAAATTTTTTTA-ATTTTTAATTTTTA
33654445 AAAATTTAAATTTTTTTAATTTTTAATTTTTA
1 AAAATTTAAATTTTTTTAATTTTTAATTTTTA
33654477 AAA
1 AAA
33654480 TTCAGATCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (32 bp):
AAAATTTAAATTTTTTTAATTTTTAATTTTTA
Found at i:33654480 original size:31 final size:30
Alignment explanation
Indices: 33654411--33654481 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 30
33654401 TTTTTGAAAA
33654411 TTTAAAATTTAATTTTTTTATATTTTTATT
1 TTTAAAATTTAATTTTTTTATATTTTTATT
33654441 TTTAAAAATTTAAATTTTTTTA-ATTTTTAATT
1 TTT-AAAATTT-AATTTTTTTATATTTTT-ATT
33654473 TTTAAAATT
1 TTTAAAATT
33654482 CAGATCTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
30 3 0.08
31 19 0.50
32 16 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
TTTAAAATTTAATTTTTTTATATTTTTATT
Found at i:33654481 original size:16 final size:16
Alignment explanation
Indices: 33654418--33654481 Score: 58
Period size: 16 Copynumber: 4.0 Consensus size: 16
33654408 AAATTTAAAA
* *
33654418 TTTAATTTTTTTATATT
1 TTTAA-TTTTTAAAATT
*
33654435 TTT-ATTTTTAAAAAT
1 TTTAATTTTTAAAATT
* **
33654450 TTAAATTTTTTTAATT
1 TTTAATTTTTAAAATT
33654466 TTTAATTTTTAAAATT
1 TTTAATTTTTAAAATT
33654482 CAGATCTAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
15 10 0.28
16 23 0.64
17 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTAATTTTTAAAATT
Found at i:33659302 original size:23 final size:23
Alignment explanation
Indices: 33659229--33659304 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
33659219 AATGCTATTG
*
33659229 ATCAATGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
33659252 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
33659275 TTCAGTGGTAGATTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
33659298 ATCAGTG
1 ATCAGTG
33659305 TGGCACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:33659476 original size:38 final size:37
Alignment explanation
Indices: 33659434--33659506 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
33659424 ATGTGTGGAA
* *
33659434 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
33659472 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
33659507 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:33664555 original size:6 final size:6
Alignment explanation
Indices: 33664544--33664569 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
33664534 AAATGGGTAG
33664544 AAGCTA AAGCTA AAGCTA AAGCTA AA
1 AAGCTA AAGCTA AAGCTA AAGCTA AA
33664570 ATTGTAGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (6 bp):
AAGCTA
Found at i:33665426 original size:18 final size:18
Alignment explanation
Indices: 33665403--33665448 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
33665393 GGCAACCCAC
33665403 ATTTATTTTCATTTA-GTA
1 ATTTATTTT-ATTTATGTA
*
33665421 ATTTATTTTATTTATTTA
1 ATTTATTTTATTTATGTA
33665439 ATTTAATTTT
1 ATTT-ATTTT
33665449 GGATTCTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 5 0.20
18 15 0.60
19 5 0.20
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTTATTTTATTTATGTA
Found at i:33668328 original size:11 final size:11
Alignment explanation
Indices: 33668312--33668337 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33668302 ACTATGTTTG
33668312 AAAAAATTAAA
1 AAAAAATTAAA
33668323 AAAAAATTAAA
1 AAAAAATTAAA
33668334 AAAA
1 AAAA
33668338 TATACAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAATTAAA
Found at i:33668353 original size:18 final size:18
Alignment explanation
Indices: 33668332--33668366 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33668322 AAAAAAATTA
33668332 AAAAAATATACAAATAAT
1 AAAAAATATACAAATAAT
*
33668350 AAAAAATATATAAATAA
1 AAAAAATATACAAATAA
33668367 AAGTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAAATATACAAATAAT
Found at i:33668955 original size:18 final size:18
Alignment explanation
Indices: 33668902--33668951 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
33668892 AACTCTATAA
33668902 TTAGTTTAAATTTAATTT
1 TTAGTTTAAATTTAATTT
*
33668920 TTAGTTTAAATTTGATTT
1 TTAGTTTAAATTTAATTT
33668938 TTAAGTTTTAAATT
1 TT-AG-TTTAAATT
33668952 ATTTAGTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 19 0.66
19 2 0.07
20 8 0.28
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (18 bp):
TTAGTTTAAATTTAATTT
Found at i:33671005 original size:19 final size:19
Alignment explanation
Indices: 33670968--33671022 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
33670958 TTTTTAAAAA
*
33670968 TATAAAT-TTTAGAACTTTT
1 TATAAATATTTTGAA-TTTT
33670987 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
33671005 TAAAAATTATTTTGAATT
1 TATAAA-TATTTTGAATT
33671023 ATTTTGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 8 0.26
19 16 0.52
20 7 0.23
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:33671011 original size:18 final size:19
Alignment explanation
Indices: 33670984--33671022 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
33670974 TTTTAGAACT
*
33670984 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
33671002 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTGAA
33671021 TT
1 TT
33671023 ATTTTGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:33674712 original size:11 final size:11
Alignment explanation
Indices: 33674690--33674747 Score: 80
Period size: 11 Copynumber: 5.2 Consensus size: 11
33674680 AACTAATCCT
33674690 CTCTCAAATTTC
1 CTCTC-AATTTC
33674702 CTCTCAATTTC
1 CTCTCAATTTC
*
33674713 CTCTAAATTTC
1 CTCTCAATTTC
*
33674724 CTCTCAATTTG
1 CTCTCAATTTC
*
33674735 CTCTCAAATTC
1 CTCTCAATTTC
33674746 CT
1 CT
33674748 TCCAAATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 36 0.88
12 5 0.12
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:33674723 original size:22 final size:23
Alignment explanation
Indices: 33674690--33674765 Score: 97
Period size: 22 Copynumber: 3.4 Consensus size: 23
33674680 AACTAATCCT
33674690 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
*
33674713 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATTTCCTCTCAATTTC
33674735 CTCTCAAA-TTCCT-TCCAAATTT-
1 CTCTCAAATTTCCTCT-C-AATTTC
33674757 CTCTCAAAT
1 CTCTCAAAT
33674766 CCATATTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
21 1 0.02
22 35 0.73
23 12 0.25
ACGTcount: A:0.25, C:0.32, G:0.01, T:0.42
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:33674739 original size:33 final size:33
Alignment explanation
Indices: 33674689--33674763 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 33
33674679 AAACTAATCC
* *
33674689 TCTCTCAAATTTCCTCTCAATTTCC-TCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCCTTCCAAATT
*
33674722 TCCTCTCAATTTGCTCTCAAATTCCTTCCAAATT
1 T-CTCTCAATTTCCTCTCAAATTCCTTCCAAATT
33674756 TCTCTCAA
1 TCTCTCAA
33674764 ATCCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 24 0.65
34 13 0.35
ACGTcount: A:0.24, C:0.32, G:0.01, T:0.43
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCCTTCCAAATT
Found at i:33674764 original size:11 final size:11
Alignment explanation
Indices: 33674689--33674765 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
33674679 AAACTAATCC
33674689 TCTCTCAAATT
1 TCTCTCAAATT
33674700 TCCTCTC-AATT
1 T-CTCTCAAATT
33674711 TC-CTCTAAATT
1 TCTCTC-AAATT
33674722 TCCTCTC-AATT
1 T-CTCTCAAATT
33674733 TGCTCTCAAATT
1 T-CTCTCAAATT
*
33674745 CCT-TCCAAATT
1 TCTCT-CAAATT
33674756 TCTCTCAAAT
1 TCTCTCAAAT
33674766 CCATATTTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
9 3 0.05
10 2 0.04
11 36 0.65
12 11 0.20
13 3 0.05
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:33674783 original size:51 final size:51
Alignment explanation
Indices: 33674725--33674824 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
33674715 CTAAATTTCC
33674725 TCTCAATTTGCTCTCAAATTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * *
33674776 TCTCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
33674825 TTAAATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.03, T:0.44
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:33676954 original size:21 final size:21
Alignment explanation
Indices: 33676930--33676978 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
33676920 AGATGTCCTA
*
33676930 CCGGAAGAACCAGAATCC-CCG
1 CCGGAAGAACCACAA-CCACCG
*
33676951 CCGGAGGAACCACAACCACCG
1 CCGGAAGAACCACAACCACCG
33676972 CCGGAAG
1 CCGGAAG
33676979 CTGGACAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.33, C:0.39, G:0.27, T:0.02
Consensus pattern (21 bp):
CCGGAAGAACCACAACCACCG
Found at i:33677246 original size:22 final size:22
Alignment explanation
Indices: 33677221--33677708 Score: 643
Period size: 22 Copynumber: 22.5 Consensus size: 22
33677211 TGACAAAACT
33677221 TAAACCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
*
33677243 TAAACCCTTAACTT-AAAACCAA
1 TAAACCCTTAACTTAAAAACC-C
*
33677265 TAAACCCTTAACCTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
*
33677287 T-AACTCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
*
33677308 TAAACCCTTAACCTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
33677330 TAAACCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
*
33677352 T-AACCCTTAACTTTAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* *
33677373 TAAACCCTTAACTTAAAAATCA
1 TAAACCCTTAACTTAAAAACCC
*
33677395 T-AACCCTTAAATTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
*
33677416 TAAACCCTTAACTTTAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* * *
33677438 TACACCCCTAACTTAAAAACCT
1 TAAACCCTTAACTTAAAAACCC
*
33677460 TAACCCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* * *
33677482 T-AACCCTTAAATTTAAAACCA
1 TAAACCCTTAACTTAAAAACCC
* *
33677503 TAAACCCTTAACTTAAAAATCG
1 TAAACCCTTAACTTAAAAACCC
* *
33677525 T-AACCCTTAAATTAAAAACCA
1 TAAACCCTTAACTTAAAAACCC
*
33677546 TAAACCCTTAACTTTAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* *
33677568 TACACCCCTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
**
33677590 T-AACCCATTAACTTAAAAACAT
1 TAAACCC-TTAACTTAAAAACCC
33677612 TAAACCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
*
33677634 T-AATCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
33677655 T-AACCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
*
33677676 TAAACCCTTAACTTAAAAACCT
1 TAAACCCTTAACTTAAAAACCC
*
33677698 TAAAACCTTAA
1 TAAACCCTTAA
33677709 AACCTTAAAC
Statistics
Matches: 404, Mismatches: 52, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
21 142 0.35
22 251 0.62
23 11 0.03
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAACCCTTAACTTAAAAACCC
Found at i:33677312 original size:43 final size:44
Alignment explanation
Indices: 33677221--33677837 Score: 768
Period size: 43 Copynumber: 14.4 Consensus size: 44
33677211 TGACAAAACT
*
33677221 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTT-AAAACCAA
1 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACC-C
* *
33677265 TAAACCCTTAACCTAAAAACCCT-AACTCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC
*
33677308 TAAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC
* * *
33677352 T-AACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATCA
1 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC
* *
33677395 T-AACCCTTAAATTAAAAACCCTAAACCCTTAACTTTAAAACCC
1 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC
* * * *
33677438 TACACCCCTAACTTAAAAACCTTAACCCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC
* * * * *
33677482 T-AACCCTTAAATTTAAAACCATAAACCCTTAACTTAAAAATCG
1 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC
* * *
33677525 T-AACCCTTAAATTAAAAACCATAAACCCTTAACTTTAAAACCC
1 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC
* * **
33677568 TACACCCCTAACTTAAAAACCCT-AACCCATTAACTTAAAAACAT
1 TAAACCCTTAACTTAAAAACCCTAAACCC-TTAACTTAAAAACCC
*
33677612 TAAACCCTTAACTTAAAAACCCT-AATCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC
*
33677655 T-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCT
1 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC
* * *
33677698 TAAA-----ACCTT-AAAACCTTAAACCCTTAAATT-AAAACCC
1 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC
* * *
33677735 TAAACCCTTAACTTTAAAACCCT-AACCCTTAACTTTAAAACCT
1 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC
*
33677778 TAAACCCTTAACTTAAAAA--CTATAACCCTTAAATTAAAAACCC
1 TAAACCCTTAACTTAAAAACCCTA-AACCCTTAACTTAAAAACCC
33677821 TAAACCCTTAACTTAAA
1 TAAACCCTTAACTTAAA
33677838 TATAATTTTA
Statistics
Matches: 500, Mismatches: 57, Indels: 33
0.85 0.10 0.06
Matches are distributed among these distances:
37 10 0.02
38 19 0.04
39 4 0.01
41 2 0.00
42 36 0.07
43 288 0.58
44 141 0.28
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (44 bp):
TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC
Found at i:33677374 original size:130 final size:131
Alignment explanation
Indices: 33677221--33677837 Score: 789
Period size: 130 Copynumber: 4.8 Consensus size: 131
33677211 TGACAAAACT
* *
33677221 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTT-AAAACCAATAAACCCTTAACCTAAAAAC
1 TAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAACC-AT-AACCCTTAACTTAAAAAC
* * *
33677285 CCT-AACTCTTAACTTAAAAACCCTAAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAA
64 CCTAAACCCTTAACTTAAAAACCCTAAACCCCTAACTTAAAAACCCTAAACCCTTAACTTAAAAA
33677349 CCC
129 CCC
* *
33677352 T-AACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATCATAACCCTTAAATTAAAAACCC
1 TAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAACCATAACCCTTAACTTAAAAACCC
* * * *
33677416 TAAACCCTTAACTTTAAAACCCTACACCCCTAACTTAAAAACCTTAACCCCTTAACTTAAAAACC
66 TAAACCCTTAACTTAAAAACCCTAAACCCCTAACTTAAAAACCCTAAACCCTTAACTTAAAAACC
33677481 C
131 C
* * * * * *
33677482 T-AACCCTTAAATTTAAAACCATAAACCCTTAACTTAAAAATCGTAACCCTTAAATTAAAAACCA
1 TAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAACCATAACCCTTAACTTAAAAACCC
* *
33677546 TAAACCCTTAACTTTAAAACCCTACACCCCTAACTTAAAAACCCT-AACCCATTAACTTAAAAAC
66 TAAACCCTTAACTTAAAAACCCTAAACCCCTAACTTAAAAACCCTAAACCC-TTAACTTAAAAAC
**
33677610 AT
130 CC
* * *
33677612 TAAACCCTTAACTTAAAAACCCT-AATCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAACCATAACCCTTAACTTAAAAACCC
* * * *
33677676 TAAACCCTTAACTTAAAAACCTTAAA-----ACCTT-AAAACCTTAAACCCTTAAATT-AAAACC
66 TAAACCCTTAACTTAAAAACCCTAAACCCCTAACTTAAAAACCCTAAACCCTTAACTTAAAAACC
33677734 C
131 C
* *
33677735 TAAACCCTTAACTTTAAAACCCT-AACCCTTAACTTTAAAACCTTAAACCCTTAACTTAAAAA--
1 TAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAACCAT-AACCCTTAACTTAAAAACC
* *
33677797 CTATAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAA
65 CTA-AACCCTTAACTTAAAAACCCTAAACCCCTAACTTAAA
33677838 TATAATTTTA
Statistics
Matches: 431, Mismatches: 42, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
122 3 0.01
123 67 0.16
124 30 0.07
125 9 0.02
128 4 0.01
129 25 0.06
130 269 0.62
131 24 0.06
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (131 bp):
TAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAACCATAACCCTTAACTTAAAAACCC
TAAACCCTTAACTTAAAAACCCTAAACCCCTAACTTAAAAACCCTAAACCCTTAACTTAAAAACC
C
Found at i:33677704 original size:8 final size:8
Alignment explanation
Indices: 33677691--33677788 Score: 68
Period size: 8 Copynumber: 13.2 Consensus size: 8
33677681 CCTTAACTTA
33677691 AAAACCTT
1 AAAACCTT
33677699 AAAACCTT
1 AAAACCTT
33677707 AAAACCTT
1 AAAACCTT
*
33677715 AAACCCTT
1 AAAACCTT
33677723 -AAA--TT
1 AAAACCTT
*
33677728 AAAACCCT
1 AAAACCTT
*
33677736 AAACCCTT
1 AAAACCTT
*
33677744 --AACTTT
1 AAAACCTT
*
33677750 AAAACCCT
1 AAAACCTT
*
33677758 -AACCCTT
1 AAAACCTT
*
33677765 --AACTTT
1 AAAACCTT
33677771 AAAACCTT
1 AAAACCTT
*
33677779 AAACCCTT
1 AAAACCTT
33677787 AA
1 AA
33677789 CTTAAAAACT
Statistics
Matches: 68, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
5 2 0.03
6 11 0.16
7 7 0.10
8 48 0.71
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.27
Consensus pattern (8 bp):
AAAACCTT
Found at i:33677836 original size:22 final size:22
Alignment explanation
Indices: 33677707--33677837 Score: 171
Period size: 21 Copynumber: 6.1 Consensus size: 22
33677697 TTAAAACCTT
* *
33677707 AAAACCTTAAACCCTTAAATT-
1 AAAACCCTAAACCCTTAACTTA
*
33677728 AAAACCCTAAACCCTTAACTTT
1 AAAACCCTAAACCCTTAACTTA
*
33677750 AAAACCCT-AACCCTTAACTTT
1 AAAACCCTAAACCCTTAACTTA
*
33677771 AAAACCTTAAACCCTTAACTTA
1 AAAACCCTAAACCCTTAACTTA
*
33677793 AAAA--CTATAACCCTTAAATTA
1 AAAACCCTA-AACCCTTAACTTA
33677814 AAAACCCTAAACCCTTAACTTA
1 AAAACCCTAAACCCTTAACTTA
33677836 AA
1 AA
33677838 TATAATTTTA
Statistics
Matches: 98, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
20 2 0.02
21 55 0.56
22 38 0.39
23 3 0.03
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAACCCTAAACCCTTAACTTA
Found at i:33681318 original size:127 final size:125
Alignment explanation
Indices: 33680906--33681461 Score: 683
Period size: 126 Copynumber: 4.4 Consensus size: 125
33680896 CAAACATGCT
* * *
33680906 ACTGTAGCAAAAGTGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
* * * *
33680971 GAAGCGATTTTAT-ACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAAGACCT
66 GAAGCGTTTTTTTAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACCA
* * * * *
33681030 ACTGTAGCAAAAACACGTCCACAAGGGCACGATTTCAAAAATTCTTCTCA-AATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCT
* * * * *
33681094 TGCAGCATTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGA-CA
65 TGAAGCGTTTTTTTA-ACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACCA
* * *
33681155 TACTGTAGCAAAAGCACGTCCACGTA-GGCGCAATTTCACAAAATT-TTCTTATAAAGCATCCTG
1 -ACTGTAGCAAAAGCGCGTCCACG-AGGGCGCGATTTCAC-AAATTCTTCTCATAAAGCATCCTG
* *
33681218 CTT-AGAGCGTTTTTTTTAACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGACC
63 CTTGA-AGCG-TTTTTTTAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGACC
33681282 A
125 A
* *
33681283 ACTGTAGTAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
* *
33681348 GAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACCT
66 GAAGCGTTTTTTTAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACCA
* * * * * * * * *
33681408 ATTGTAGCAAAAGCGTGTACACGTGGGCGCAACTTCAAAAATCCTTCTGATAAA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAA
33681462 TCATTTTGCT
Statistics
Matches: 370, Mismatches: 48, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
123 2 0.01
124 62 0.17
125 53 0.14
126 172 0.46
127 78 0.21
128 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
GAAGCGTTTTTTTAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACCA
Found at i:33681380 original size:252 final size:251
Alignment explanation
Indices: 33680905--33681461 Score: 757
Period size: 252 Copynumber: 2.2 Consensus size: 251
33680895 CCAAACATGC
* *
33680905 TACTGTAGCAAAAGTGCGTCCACGTGGGCGCGATTTCAC-AAATTCTTCTCATAAAGCATCCTGC
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCACAAAATTCTTCTCATAAAGCATCCTGC
* * *
33680969 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAAGACCTACTG
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAAGACCAACTG
* *
33681034 TAGCAAAAACACGTCCACAAGGGCACGATTTCAAAAATTCTTCTCAAATAGCATCCTGCTTGCAG
131 TAGCAAAAACACATCCACAAGGGCACGATTTCAAAAATTCTTCTCAAATAGCATCCTGCTTGAAG
* * *
33681099 CATTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACA
196 CATTGTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACA
* * *
33681155 TACTGTAGCAAAAGCACGTCCACGTAGGCGCAATTTCACAAAATT-TTCTTATAAAGCATCCTGC
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCACAAAATTCTTCTCATAAAGCATCCTGC
* * *
33681219 TTAG-AGCGTTTTTTTTAACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGACCA
66 -TAGAAGCG-ATTTTAT-ACTATTTGCTCAGAAACATCAACTCGAAATTATTT-TTCCAAGACCA
* * * * * *
33681283 ACTGTAGTAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCT
127 ACTGTAGCAAAAACACATCCACAAGGGCACGATTTCAAAAATTCTTCTCA-AATAGCATCCTGCT
* *
33681347 TGAAGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACC
191 TGAAGCATTGTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACA
* * * * * *
33681407 TATTGTAGCAAAAGCGTGTACACGTGGGCGCAACTTCA-AAAATCCTTCTGATAAA
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCACAAAATTCTTCTCATAAA
33681462 TCATTTTGCT
Statistics
Matches: 268, Mismatches: 32, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
250 57 0.21
251 18 0.07
252 121 0.45
253 70 0.26
254 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (251 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCACAAAATTCTTCTCATAAAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAAGACCAACTG
TAGCAAAAACACATCCACAAGGGCACGATTTCAAAAATTCTTCTCAAATAGCATCCTGCTTGAAG
CATTGTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACA
Found at i:33688150 original size:29 final size:30
Alignment explanation
Indices: 33688091--33688148 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
33688081 TCCGAGCCTT
*
33688091 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
33688121 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
33688149 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:33688378 original size:13 final size:13
Alignment explanation
Indices: 33688360--33688391 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
33688350 TTTCCAGCAA
33688360 TTATGAATTTATT
1 TTATGAATTTATT
33688373 TTATGAATTTATT
1 TTATGAATTTATT
*
33688386 TGATGA
1 TTATGA
33688392 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:33688576 original size:50 final size:50
Alignment explanation
Indices: 33688485--33688726 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
33688475 ATTTGGGTAA
* * *
33688485 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC----GA-CATG
* * *
33688541 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
* * *
33688591 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
* *
33688641 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-CATG
**
33688691 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
33688727 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 93 0.56
51 31 0.19
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
Found at i:33688672 original size:100 final size:103
Alignment explanation
Indices: 33688485--33688734 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 103
33688475 ATTTGGGTAA
*
33688485 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
33688550 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
33688591 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
33688653 TAAGACCATGTCTGGGACATGGCATGGGCACCATCATG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
33688691 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
33688735 GTTATTATCA
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 39 0.30
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:33691084 original size:15 final size:15
Alignment explanation
Indices: 33691033--33691088 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
33691023 CCCTTTTTTA
*
33691033 TTATTATTATTTA-G
1 TTATTATTATTAATG
* * *
33691047 TTCATTGTTTTTATTG
1 TT-ATTATTATTAATG
*
33691063 CTATTATTATTAATG
1 TTATTATTATTAATG
33691078 TTATTATTATT
1 TTATTATTATT
33691089 GTTTCTACAT
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
14 2 0.06
15 27 0.87
16 2 0.06
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.64
Consensus pattern (15 bp):
TTATTATTATTAATG
Found at i:33706456 original size:21 final size:21
Alignment explanation
Indices: 33706418--33706457 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33706408 CCACATCTTT
*
33706418 TTCATTTGTTTCTTTTTCTAA
1 TTCATTTGTCTCTTTTTCTAA
33706439 TTCATTT-TCTCTTCTTTCT
1 TTCATTTGTCTCTT-TTTCT
33706458 TCAATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.20, G:0.03, T:0.68
Consensus pattern (21 bp):
TTCATTTGTCTCTTTTTCTAA
Found at i:33712952 original size:15 final size:15
Alignment explanation
Indices: 33712932--33712961 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33712922 TATTTTGATT
33712932 TTAAAATTTAATTAC
1 TTAAAATTTAATTAC
*
33712947 TTAAAATTTGATTAC
1 TTAAAATTTAATTAC
33712962 AAATCCAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAAAATTTAATTAC
Found at i:33713799 original size:13 final size:13
Alignment explanation
Indices: 33713783--33713810 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33713773 TTTTAAATAA
33713783 TTTTAAAATTTTT
1 TTTTAAAATTTTT
33713796 TTTTAAAATTTTT
1 TTTTAAAATTTTT
33713809 TT
1 TT
33713811 AAACCGTAAA
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTAAAATTTTT
Found at i:33716005 original size:45 final size:45
Alignment explanation
Indices: 33715956--33716043 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
33715946 ATATTTTGAA
* *
33715956 TATTTTGATATTATTTTATGTAATAAAATAGAAATTTTTTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
*
33716001 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGA
33716044 TGTAATAAAA
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:0.36, C:0.00, G:0.12, T:0.51
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
Found at i:33716039 original size:25 final size:25
Alignment explanation
Indices: 33715966--33716068 Score: 99
Period size: 25 Copynumber: 4.3 Consensus size: 25
33715956 TATTTTGATA
*
33715966 TTATTTTATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAAT
* ** * *
33715991 TTTTTTGA-GT--T-ATTTTGATA-
1 TTATTTGATGTAATAAAATAGAAAT
*
33716011 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAAT
33716036 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAAT
*
33716061 TTTTTTGA
1 TTATTTGA
33716069 GTTATTTTGA
Statistics
Matches: 59, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
20 7 0.12
21 7 0.12
22 1 0.02
23 1 0.02
24 6 0.10
25 37 0.63
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.49
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAAT
Found at i:33716047 original size:70 final size:70
Alignment explanation
Indices: 33715966--33716096 Score: 253
Period size: 70 Copynumber: 1.9 Consensus size: 70
33715956 TATTTTGATA
*
33715966 TTATTTTATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
33716031 GAAGT
66 GAAGT
33716036 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAA
1 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAA
33716097 CATGAGCTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (70 bp):
TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
GAAGT
Found at i:33716138 original size:70 final size:70
Alignment explanation
Indices: 33715973--33716112 Score: 212
Period size: 70 Copynumber: 2.0 Consensus size: 70
33715963 ATATTATTTT
* *
33715973 ATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTT
1 ATGTAATAAAATAGAAATTATTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGCTT
* *
33716038 ATTTG
66 AATTA
* *
33716043 ATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACAT-G-AGCTT
1 ATGTAATAAAATAGAAATTATTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGCTT
33716106 AATTA
66 AATTA
33716111 AT
1 AT
33716113 TTGTATAAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
68 9 0.14
69 1 0.02
70 56 0.85
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (70 bp):
ATGTAATAAAATAGAAATTATTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGCTT
AATTA
Found at i:33716796 original size:11 final size:11
Alignment explanation
Indices: 33716780--33716804 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33716770 TGGTGTTTTC
33716780 CCTCGCCTTGG
1 CCTCGCCTTGG
33716791 CCTCGCCTTGG
1 CCTCGCCTTGG
33716802 CCT
1 CCT
33716805 TGTTAATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.48, G:0.24, T:0.28
Consensus pattern (11 bp):
CCTCGCCTTGG
Found at i:33719413 original size:124 final size:124
Alignment explanation
Indices: 33719238--33719612 Score: 624
Period size: 124 Copynumber: 3.0 Consensus size: 124
33719228 CCAAACATGT
* * *
33719238 TACTATAGCAAAAGCACGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
*
33719303 AGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACC
66 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACC
* * *
33719362 TACTGTAGCAAAAGCGCGTCCACGAGAGCACGATTTTACAAATTCTTCTCAAATAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
33719427 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACC
66 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACC
33719486 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
* * *** *
33719551 AGAAGCGATTTTATACTATTTGATCACAAACGTCAACTCGAAATTATTTCTTCCAGGACC
66 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA-AAAAAATTATTTCTTCCATGACC
33719611 TA
1 TA
33719613 AAAACCCTAA
Statistics
Matches: 234, Mismatches: 16, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
124 213 0.91
125 21 0.09
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (124 bp):
TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACC
Found at i:33720445 original size:14 final size:15
Alignment explanation
Indices: 33720426--33720454 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
33720416 AAGAGTTTTC
33720426 AAATATATAT-ATAT
1 AAATATATATGATAT
33720440 AAATATATATGATAT
1 AAATATATATGATAT
33720455 TTATGTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
AAATATATATGATAT
Found at i:33725357 original size:26 final size:29
Alignment explanation
Indices: 33725286--33725375 Score: 105
Period size: 26 Copynumber: 3.1 Consensus size: 29
33725276 ATAAATTTGG
33725286 ATAACTTATTTAATTATTTAAATAATAAAAA
1 ATAAC-TATTT-ATTATTTAAATAATAAAAA
*
33725317 ATAATGCTATTTATTATTTAAATTAT-AAAA
1 ATAA--CTATTTATTATTTAAATAATAAAAA
*
33725347 AT-A-TATTTATTATTTAAATAATGAAAA
1 ATAACTATTTATTATTTAAATAATAAAAA
33725374 AT
1 AT
33725376 TTTAGAAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
26 18 0.33
27 6 0.11
29 1 0.02
30 6 0.11
31 17 0.31
32 5 0.09
33 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (29 bp):
ATAACTATTTATTATTTAAATAATAAAAA
Found at i:33726712 original size:30 final size:28
Alignment explanation
Indices: 33726651--33726711 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
33726641 GATTTCCCTG
33726651 AAAATGGCCCATTCCGGTAAATAATAAA
1 AAAATGGCCCATTCCGGTAAATAATAAA
* **
33726679 AAAATTGGCCCATTTCGGTAAATTTTAAA
1 AAAA-TGGCCCATTCCGGTAAATAATAAA
33726708 AAAA
1 AAAA
33726712 ACGGCTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (28 bp):
AAAATGGCCCATTCCGGTAAATAATAAA
Found at i:33738967 original size:37 final size:37
Alignment explanation
Indices: 33738917--33738988 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
33738907 AAGGAATAAA
*
33738917 TAAATGGTTTCTACAATGTGAAGGATTTGTATCTGGC
1 TAAATGGTTTCTACAATGTGAAGCATTTGTATCTGGC
33738954 TAAATGGTTTCTACAATGTGAAGCATTTGTATCTG
1 TAAATGGTTTCTACAATGTGAAGCATTTGTATCTG
33738989 ACCTTTTAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (37 bp):
TAAATGGTTTCTACAATGTGAAGCATTTGTATCTGGC
Found at i:33742976 original size:25 final size:26
Alignment explanation
Indices: 33742948--33743012 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
33742938 ATAAAATTTA
*
33742948 TATTTTATATATTA-TCATATTAAAT
1 TATTTTAAATATTATTCATATTAAAT
* *
33742973 TA-TTTAAATATTATTTATTTTAAAT
1 TATTTTAAATATTATTCATATTAAAT
*
33742998 TA-TTTAAATCTTATT
1 TATTTTAAATATTATT
33743013 TGTTACTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 10 0.29
25 25 0.71
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTTTAAATATTATTCATATTAAAT
Found at i:33743090 original size:25 final size:24
Alignment explanation
Indices: 33743045--33743095 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
33743035 AAATGTTCTA
* *
33743045 TATATTATTAATTTTACAAATAGTT
1 TATATTATTAATTTAAAAAATA-TT
33743070 TATATTAATT-ATTTAAAAAATATT
1 TATATT-ATTAATTTAAAAAATATT
33743094 TA
1 TA
33743096 AATTTGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 16 0.70
26 3 0.13
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TATATTATTAATTTAAAAAATATT
Found at i:33743229 original size:19 final size:20
Alignment explanation
Indices: 33743205--33743243 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
33743195 TAATTTAATA
*
33743205 TAATAGAAATTTC-ATTTAT
1 TAATAGAAACTTCTATTTAT
33743224 TAATAGAAACTTCTATTTAT
1 TAATAGAAACTTCTATTTAT
33743244 AGAAGTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (20 bp):
TAATAGAAACTTCTATTTAT
Found at i:33745135 original size:51 final size:51
Alignment explanation
Indices: 33745072--33745175 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
33745062 TAAACCTTTC
33745072 ATCTATTATAGAGGTGGATTACTTACCTTACACGAATTATATAAACAATAA
1 ATCTATTATAGAGGTGGATTACTTACCTTACACGAATTATATAAACAATAA
33745123 ATCTATTATAGAGGTGGATTACTTACCTTACACGAATTATATAAACAATAA
1 ATCTATTATAGAGGTGGATTACTTACCTTACACGAATTATATAAACAATAA
33745174 AT
1 AT
33745176 TTACAACACA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (51 bp):
ATCTATTATAGAGGTGGATTACTTACCTTACACGAATTATATAAACAATAA
Found at i:33747213 original size:20 final size:20
Alignment explanation
Indices: 33747177--33747223 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
33747167 ACAATCAGAG
* *
33747177 ATAA-TAAAGTATGAATAAT
1 ATAATTAAAATATAAATAAT
*
33747196 ATAATTAAAATATAAATATT
1 ATAATTAAAATATAAATAAT
33747216 AT-ATTAAA
1 ATAATTAAA
33747224 TTAAAGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (20 bp):
ATAATTAAAATATAAATAAT
Found at i:33747671 original size:43 final size:43
Alignment explanation
Indices: 33747604--33747705 Score: 143
Period size: 43 Copynumber: 2.4 Consensus size: 43
33747594 ATATCCCATA
* *
33747604 ATAATATCCTATAATATCTCATTAGGAATCAAATTGTTAAGAG
1 ATAATATCCTATAATATCTCATTAGGAATCAAATTATTAAAAG
* * *
33747647 ATAATATCTTGTAATATC-CTATTAGGAATCAAATTATTAAAAT
1 ATAATATCCTATAATATCTC-ATTAGGAATCAAATTATTAAAAG
33747690 ATAATATCCTATAATA
1 ATAATATCCTATAATA
33747706 ATATCCTAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 50 0.98
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (43 bp):
ATAATATCCTATAATATCTCATTAGGAATCAAATTATTAAAAG
Found at i:33751823 original size:46 final size:45
Alignment explanation
Indices: 33751767--33751891 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 45
33751757 TTTGATCTCT
**
33751767 TGCATATGTTGTAGACGCGAGAATACATGAATAGGTTTCGAGCTCC
1 TGCATATGTTG-AGACTTGAGAATACATGAATAGGTTTCGAGCTCC
* * * * * * *
33751813 TGTATATGTTGCGAACTTGAGAATAAAGGATTAGGTTTTGAGCTCT
1 TGCATATGTTGAG-ACTTGAGAATACATGAATAGGTTTCGAGCTCC
*
33751859 TGCATATGTTGCGGACTTGAGAATACATGAATA
1 TGCATATGTTG-AGACTTGAGAATACATGAATA
33751892 TTAAGACCTG
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
45 1 0.02
46 61 0.97
47 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.32
Consensus pattern (45 bp):
TGCATATGTTGAGACTTGAGAATACATGAATAGGTTTCGAGCTCC
Found at i:33755553 original size:50 final size:48
Alignment explanation
Indices: 33755430--33755623 Score: 158
Period size: 50 Copynumber: 3.9 Consensus size: 48
33755420 ATAGTACCAT
* * * *
33755430 GCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTT-TCCTGTGC
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATGC
* * *
33755478 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGAC
1 -GCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATAT-G-C
* * ** ** * *
33755529 GCCCATGCCATGTCCCAGATATGGTCTTACGGGGGACCTCTCATCTTGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-AT-GC
* *
33755579 GCCAACGCCATGTCCCAGACATGGTCTTACCTGGGA-TCTCTCATA
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGT-TCTCATA
33755624 ACCTTAATAA
Statistics
Matches: 118, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
48 3 0.03
49 37 0.31
50 75 0.64
51 3 0.03
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (48 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATGC
Found at i:33757804 original size:46 final size:46
Alignment explanation
Indices: 33757751--33757881 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 46
33757741 AGTAGTTACA
* *
33757751 TAGGAATCAAATTACTAAAATATAATAACCTATAATAATATCCTAT
1 TAGGAATCAAATTACTAAAAGATAATAACCTATAATAATATCCCAT
* * *
33757797 TAGGAATCAAATTGCTAAGAGATAAT-ATCT-T-ATAATATCCCAT
1 TAGGAATCAAATTACTAAAAGATAATAACCTATAATAATATCCCAT
** * * *
33757840 TAAAAATTAAATTATTAAAAGATAATATCCTATAATAATATC
1 TAGGAATCAAATTACTAAAAGATAATAACCTATAATAATATC
33757882 TTAACACATG
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
43 31 0.45
44 3 0.04
45 4 0.06
46 31 0.45
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (46 bp):
TAGGAATCAAATTACTAAAAGATAATAACCTATAATAATATCCCAT
Found at i:33763125 original size:9 final size:9
Alignment explanation
Indices: 33763111--33763138 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
33763101 GATTTTGGAT
33763111 TAAATTAAG
1 TAAATTAAG
33763120 TAAATTAAG
1 TAAATTAAG
33763129 TAAATTAAG
1 TAAATTAAG
33763138 T
1 T
33763139 TTAATTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.36
Consensus pattern (9 bp):
TAAATTAAG
Found at i:33767954 original size:38 final size:38
Alignment explanation
Indices: 33767903--33767992 Score: 155
Period size: 38 Copynumber: 2.4 Consensus size: 38
33767893 TAATTGTTGT
*
33767903 ACATTTATGGTATGCTCATACACTTCGCTAAAATTTGC
1 ACATTTATGGTATGCTCATACACTTCGCTAAAATTTAC
*
33767941 ACATTTATGGTATGCTCATACACTTTGCTAAAATTTAC
1 ACATTTATGGTATGCTCATACACTTCGCTAAAATTTAC
33767979 ACATTTAT-GTATGC
1 ACATTTATGGTATGC
33767993 AAATAAAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 6 0.12
38 44 0.88
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (38 bp):
ACATTTATGGTATGCTCATACACTTCGCTAAAATTTAC
Found at i:33771251 original size:42 final size:42
Alignment explanation
Indices: 33771192--33771418 Score: 167
Period size: 42 Copynumber: 5.4 Consensus size: 42
33771182 TTCCCCGAGG
* * * *
33771192 GGTTACTAAGTGCTGATTTCCCGAATTATTGACTCTAAAGGT
1 GGTTACTAAGTGCTGATTCCCCGTATTATTGAATATAAAGGT
* *
33771234 GGTTACTAAGTGCTGATTCCACCGTATCT-TTGATTGTGAAAGG-
1 GGTTACTAAGTGCTGATTCC-CCGTAT-TATTGAATAT-AAAGGT
* * * *
33771277 GGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGT
1 GGTTACTAAGTGCTGATTCCCCGTATTATTGAATATAAAGGT
* * * *
33771319 GGTTGCTAAGTGCTGATTCTACCGTATCT-TTGATTGTGAAAGG-
1 GGTTACTAAGTGCTGATTC-CCCGTAT-TATTGAATAT-AAAGGT
* * * * * * *
33771362 GGTTGCTATGTGTTGATTCCCCGTATCACTAAAT-TTAAGGT
1 GGTTACTAAGTGCTGATTCCCCGTATTATTGAATATAAAGGT
*
33771403 GGTTGCTAAGTGCTGA
1 GGTTACTAAGTGCTGA
33771419 ATCCACCGAG
Statistics
Matches: 149, Mismatches: 26, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
40 4 0.03
41 20 0.13
42 57 0.38
43 57 0.38
44 11 0.07
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (42 bp):
GGTTACTAAGTGCTGATTCCCCGTATTATTGAATATAAAGGT
Found at i:33771293 original size:43 final size:43
Alignment explanation
Indices: 33771192--33771418 Score: 209
Period size: 43 Copynumber: 5.4 Consensus size: 43
33771182 TTCCCCGAGG
* * * * *
33771192 GGTTACTAAGTGCTGATTTCCCGAAT-TATTGACTCT-AAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCT-TTGATTGTGAAAGGT
*
33771234 GGTTACTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCTTTGATTGTGAAAGGT
* ** * *
33771277 GGTTGCTATGTGCTGATTCCCCGTATCACTGAATAT-AAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTGTGAAAGGT
*
33771319 GGTTGCTAAGTGCTGATTCTACCGTATCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTC-CCCGTATCTTTGATTGTGAAAGGT
* * * **
33771362 GGTTGCTATGTGTTGATTCCCCGTATCACTAAATT-T--AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATC-TTTGATTGTGAAAGGT
33771403 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
33771419 ATCCACCGAG
Statistics
Matches: 153, Mismatches: 24, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
40 4 0.03
41 19 0.12
42 57 0.37
43 62 0.41
44 11 0.07
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTGTGAAAGGT
Found at i:33771332 original size:85 final size:84
Alignment explanation
Indices: 33771189--33771426 Score: 341
Period size: 85 Copynumber: 2.8 Consensus size: 84
33771179 AAATTCCCCG
* * * * * * * *
33771189 AGGGGTTACTAAGTGCTGATTTCCCGAATTATTGACTCTAAAGGTGGTTACTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
33771254 ACCGTATCTTTGATTGTGAA
65 ACCGTATCTTTGATTGTGAA
*
33771274 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCT
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
33771339 ACCGTATCTTTGATTGTGAA
65 ACCGTATCTTTGATTGTGAA
* * * *
33771359 AGGGGTTGCTATGTGTTGATTCCCCGTATCACTAAATTTAAGGTGGTTGCTAAGTGCTGAATCCA
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
33771424 CCG
66 CCG
33771427 AGTAACGGAT
Statistics
Matches: 138, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
84 28 0.20
85 110 0.80
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (84 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
CCGTATCTTTGATTGTGAA
Found at i:33785831 original size:49 final size:49
Alignment explanation
Indices: 33785777--33785871 Score: 181
Period size: 49 Copynumber: 1.9 Consensus size: 49
33785767 ATATGACTAC
33785777 TGGTAAGTTAAATTCTATGTTATATGAACTTACTAAGTTTAAATGCCAA
1 TGGTAAGTTAAATTCTATGTTATATGAACTTACTAAGTTTAAATGCCAA
*
33785826 TGGTAAGTTAAATTCTATTTTATATGAACTTACTAAGTTTAAATGC
1 TGGTAAGTTAAATTCTATGTTATATGAACTTACTAAGTTTAAATGC
33785872 TTACTCTGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (49 bp):
TGGTAAGTTAAATTCTATGTTATATGAACTTACTAAGTTTAAATGCCAA
Found at i:33788911 original size:79 final size:81
Alignment explanation
Indices: 33788787--33788970 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
33788777 GCTACTCGTT
* *
33788787 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTC-GGATCTTAACCCG
* *
33788850 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
33788866 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAC-AATGCCTTCGGATCTTAACCCG
* *
33788929 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
33788946 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33788971 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 48 0.53
80 19 0.21
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:33788970 original size:40 final size:40
Alignment explanation
Indices: 33788768--33788970 Score: 229
Period size: 39 Copynumber: 5.1 Consensus size: 40
33788758 CGGAATTTAA
** *
33788768 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33788808 CCGGTTATAGTAACTCGCAC-AATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
33788847 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33788886 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
33788926 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33788966 CCGGA
1 CCGGA
33788971 CATCATTCAA
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.01
39 68 0.49
40 57 0.41
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33794556 original size:38 final size:40
Alignment explanation
Indices: 33794455--33794631 Score: 183
Period size: 38 Copynumber: 4.6 Consensus size: 40
33794445 TGAATGATGT
* *
33794455 CGGGCTAAGTCCGAAGGC-TTTGTGCTA-AGTGACCATATC
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGAGT-ACTATATC
*
33794494 CGGACTAAGATCCGAAGGCA-TTGTGCGAGA-TACTA-ATC
1 CGGGCTAAG-TCCGAAGGCATTTGTGCGAGAGTACTATATC
* * *
33794532 CGGGCTAAGCCCGAAGGCATTTGTGCG-GATTACTAAATC
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGAGTACTATATC
* *
33794571 CGGG-TAAGTCCGAAGGCA-TTGTGCGAG-TTACTATAAC
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGAGTACTATATC
*
33794608 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGT-CCGAAGGCATTTG
33794632 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
37 30 0.25
38 41 0.34
39 27 0.23
40 20 0.17
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGTCCGAAGGCATTTGTGCGAGAGTACTATATC
Found at i:33794649 original size:77 final size:75
Alignment explanation
Indices: 33794489--33794664 Score: 201
Period size: 77 Copynumber: 2.3 Consensus size: 75
33794479 CTAAGTGACC
*
33794489 ATATCCGGACTAAGATCCGAAGGCATTGTGCGAGATACTAATCCGGGCTAAGCCCGAAGGCATTT
1 ATATCCGG-CTAAG-TCCGAAGGCATTGTGCGAGATACTAAACCGGGCTAAGCCCGAAGGCATTT
** *
33794554 GTGCGGATTACT
64 GAACGGAGTACT
* * * *
33794566 AAATCCGGGTAAGTCCGAAGGCATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 ATATCCGGCTAAGTCCGAAGGCATTGTGCGAGATACTA-AACCGGGCTAAG-CCCGAAGGCATTT
33794631 GAAC-GAGTAGCT
64 GAACGGAGTA-CT
* *
33794643 ATATCCGGTTAAATTCCGAAGG
1 ATATCCGGCT-AAGTCCGAAGG
33794665 TACGTGATTT
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
75 24 0.29
76 18 0.21
77 32 0.38
78 10 0.12
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (75 bp):
ATATCCGGCTAAGTCCGAAGGCATTGTGCGAGATACTAAACCGGGCTAAGCCCGAAGGCATTTGA
ACGGAGTACT
Found at i:33802520 original size:79 final size:81
Alignment explanation
Indices: 33802384--33802567 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
33802374 TTGAATGATG
*
33802384 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
33802448 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
33802463 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
33802525 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
33802543 ACC-GGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33802568 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 7 0.08
79 65 0.71
80 19 0.21
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:33802574 original size:39 final size:40
Alignment explanation
Indices: 33802384--33802567 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
33802374 TTGAATGATG
* * * *
33802384 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
33802424 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
33802464 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33802503 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33802544 -CC-GGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33802568 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
39 55 0.44
40 61 0.48
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33802574 original size:79 final size:78
Alignment explanation
Indices: 33802437--33802600 Score: 199
Period size: 79 Copynumber: 2.1 Consensus size: 78
33802427 GGACTAAGAT
* **
33802437 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAG-TAGCTA
*
33802501 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
* *
33802516 CCGAAGGCATTTGTGCGAGTTACT-ATAACC-GGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTAGCT
* *
33802579 ATATCCGGTTAAATT
64 AAATCCGGTTAAATC
33802594 CCGAAGG
1 CCGAAGG
33802601 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
78 24 0.32
79 50 0.68
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:33802598 original size:39 final size:39
Alignment explanation
Indices: 33802391--33802600 Score: 196
Period size: 39 Copynumber: 5.3 Consensus size: 39
33802381 ATGTCCGGGC
* * * *
33802391 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGG-T
* *
33802431 TAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGC
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCC-GGT
*
33802471 TAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-GGT
* *
33802510 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGT
* **
33802549 TATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGT
* *
33802588 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
33802601 TACGTGATTT
Statistics
Matches: 145, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.01
39 78 0.54
40 55 0.38
41 10 0.07
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGT
Found at i:33813285 original size:62 final size:63
Alignment explanation
Indices: 33813179--33813303 Score: 189
Period size: 62 Copynumber: 2.0 Consensus size: 63
33813169 ATATCTCTGC
* *
33813179 TGAGCATATATGAGACACATGTGGAGATTCAAAATCATTGATTACCGAGC-TGCCTAAGACGT
1 TGAGCATATATGAGACACATGTGGAGATTCAAAATAATTAATTACCGAGCTTGCCTAAGACGT
* ** *
33813241 TGAGTATATATGAGATGCATGTGGAGATTCAAAATAATTAATTACCGAGCTTTCCTAAGACGT
1 TGAGCATATATGAGACACATGTGGAGATTCAAAATAATTAATTACCGAGCTTGCCTAAGACGT
33813304 CAAATCCTAG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
62 45 0.80
63 11 0.20
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (63 bp):
TGAGCATATATGAGACACATGTGGAGATTCAAAATAATTAATTACCGAGCTTGCCTAAGACGT
Found at i:33822270 original size:25 final size:25
Alignment explanation
Indices: 33822242--33822389 Score: 144
Period size: 25 Copynumber: 5.9 Consensus size: 25
33822232 ATAAGCCATG
*
33822242 AATCAGTATGCTC-TCACGAGCTGCA
1 AATCAGTAAGCTCAT-ACGAGCTGCA
*
33822267 AATCGGTAAGCTCATACGAGCTG-A
1 AATCAGTAAGCTCATACGAGCTGCA
* *
33822291 GAATCAGTAAGCTC-TCATGAGCTACA
1 -AATCAGTAAGCTCAT-ACGAGCTGCA
* *
33822317 AATCGGTAAGCTCATACGAGTTG-A
1 AATCAGTAAGCTCATACGAGCTGCA
* *
33822341 GAATCTGTAAGCTC-TCACAAGCTGCA
1 -AATCAGTAAGCTCAT-ACGAGCTGCA
33822367 AATCAGTAAGCTCATACGAGCTG
1 AATCAGTAAGCTCATACGAGCTG
33822390 TGGTGTGTTA
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
24 4 0.04
25 91 0.91
26 5 0.05
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (25 bp):
AATCAGTAAGCTCATACGAGCTGCA
Found at i:33822319 original size:50 final size:50
Alignment explanation
Indices: 33822241--33822389 Score: 235
Period size: 50 Copynumber: 3.0 Consensus size: 50
33822231 TATAAGCCAT
*
33822241 GAATCAGTATGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCTGA
1 GAATCAGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCTGA
* * *
33822291 GAATCAGTAAGCTCTCATGAGCTACAAATCGGTAAGCTCATACGAGTTGA
1 GAATCAGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCTGA
* * *
33822341 GAATCTGTAAGCTCTCACAAGCTGCAAATCAGTAAGCTCATACGAGCTG
1 GAATCAGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCTG
33822390 TGGTGTGTTA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 89 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (50 bp):
GAATCAGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCTGA
Found at i:33827843 original size:43 final size:43
Alignment explanation
Indices: 33827794--33827941 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 43
33827784 TATCTTAGAT
* * * *
33827794 ATGGTCTTACATGTTATCACATATCGATGCCCCTGTCCCAGAT
1 ATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGAC
* * * * * *
33827837 AGGGTCTTACACG-AATCATATA-CGGTGCGACTATCTCAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGAC
* *
33827878 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGAC
* *
33827921 ATGGTCTTACATGAAATCACA
1 ATGGTCTTACACGTAATCACA
33827942 CCTCAAAAGT
Statistics
Matches: 82, Mismatches: 21, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
41 25 0.30
42 14 0.17
43 43 0.52
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGAC
Found at i:33831425 original size:20 final size:20
Alignment explanation
Indices: 33831400--33831545 Score: 82
Period size: 20 Copynumber: 7.3 Consensus size: 20
33831390 TAAATACGTT
33831400 CAGGGGTATCGAAGTACAAA
1 CAGGGGTATCGAAGTACAAA
* * *
33831420 CAGGGGCA-C-ATACGTGCAAT
1 CAGGGGTATCGA-A-GTACAAA
* * *
33831440 CAGGGGTATTGAAATACTAA
1 CAGGGGTATCGAAGTACAAA
** * * *
33831460 CAGGGGTATATATGTGCAAT
1 CAGGGGTATCGAAGTACAAA
* *
33831480 CAGGGGTACCAAAGTACAAA
1 CAGGGGTATCGAAGTACAAA
* * * *
33831500 CAGGGGCA-CGTATGTTCAAT
1 CAGGGGTATCG-AAGTACAAA
*
33831520 CAGGGGTACCGAAGTACAAA
1 CAGGGGTATCGAAGTACAAA
33831540 CAGGGG
1 CAGGGG
33831546 CGCGTATGTG
Statistics
Matches: 89, Mismatches: 31, Indels: 12
0.67 0.23 0.09
Matches are distributed among these distances:
18 1 0.01
19 3 0.03
20 81 0.91
21 3 0.03
22 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (20 bp):
CAGGGGTATCGAAGTACAAA
Found at i:33831443 original size:40 final size:40
Alignment explanation
Indices: 33831399--33831559 Score: 205
Period size: 40 Copynumber: 4.0 Consensus size: 40
33831389 CTAAATACGT
* *
33831399 TCAGGGGTATCGAAGTACAAACAGGGGCACATACGTGCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
** * * * *
33831439 TCAGGGGTATTGAAATACTAACAGGGGTATATATGTGCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
* * *
33831479 TCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTTCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
* *
33831519 TCAGGGGTACCGAAGTACAAACAGGGGCGCGTATGTGCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
33831559 T
1 T
33831560 AATTCAACTA
Statistics
Matches: 103, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (40 bp):
TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
Found at i:33832421 original size:45 final size:45
Alignment explanation
Indices: 33832357--33832589 Score: 385
Period size: 45 Copynumber: 5.2 Consensus size: 45
33832347 CATGAAATTA
*
33832357 AGGAAGCATTTGACCAACATCATGCATAATTCATGGGAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
33832402 AGGAAGTATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
33832447 AGGAAGCATTTCACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
33832492 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * *
33832537 AGGAAGCATTTGGCCAACATCATGCATAATTTATGGAACAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
33832582 AGGGAGCA
1 AGGAAGCA
33832590 CCATGGCCGA
Statistics
Matches: 176, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 176 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:33838829 original size:45 final size:45
Alignment explanation
Indices: 33838765--33838997 Score: 394
Period size: 45 Copynumber: 5.2 Consensus size: 45
33838755 CATGAAATTA
*
33838765 AGGAAGCATTTGACCAACATCATGCATAATTCATGGGAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
33838810 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
33838855 AGGAAGCATTTGGCCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
33838900 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * * *
33838945 AGGAAGCATTTGGCCAACATCATGTATAATTTATGGAACAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
33838990 AGGAAGCA
1 AGGAAGCA
33838998 CCATGGCCGA
Statistics
Matches: 178, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 178 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:33856529 original size:24 final size:25
Alignment explanation
Indices: 33856463--33856548 Score: 104
Period size: 25 Copynumber: 3.5 Consensus size: 25
33856453 ATGCTCTTAT
* * *
33856463 GAGCTATGAATCGGTAAGCTTATAT
1 GAGCTAAGAATCGGTAAGCTCATAC
*
33856488 GAGCTGAGAATCGGTAAGCTC-TCAC
1 GAGCTAAGAATCGGTAAGCTCAT-AC
*
33856513 GAGCTAA-AATCGTTAAGCTCATAC
1 GAGCTAAGAATCGGTAAGCTCATAC
33856537 GAGCTAAGAATC
1 GAGCTAAGAATC
33856549 AATAATCCCT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
24 22 0.42
25 30 0.58
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (25 bp):
GAGCTAAGAATCGGTAAGCTCATAC
Found at i:33862728 original size:28 final size:28
Alignment explanation
Indices: 33862697--33862754 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
33862687 TAGTATTAGT
* * *
33862697 ATAGTGTGGGCCTTAGCCCATTACAGTA
1 ATAGTGTGGGCCCTAGCCCAATAAAGTA
33862725 ATAGTGTGGGCCCTAGCCCAATAAAGTA
1 ATAGTGTGGGCCCTAGCCCAATAAAGTA
33862753 AT
1 AT
33862755 CAGTACAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (28 bp):
ATAGTGTGGGCCCTAGCCCAATAAAGTA
Found at i:33862919 original size:26 final size:26
Alignment explanation
Indices: 33862869--33862939 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
33862859 ATATCGCAAT
* * *
33862869 AAAGCTGCCAGCAATAATAACGCAGC
1 AAAGCTGCCAGTAACAGTAACGCAGC
*
33862895 AAAGCTGCCAGTAACAGTAATGCAGC
1 AAAGCTGCCAGTAACAGTAACGCAGC
*
33862921 AAAGCTGCTAGTAACAGTA
1 AAAGCTGCCAGTAACAGTA
33862940 TATGTGGCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (26 bp):
AAAGCTGCCAGTAACAGTAACGCAGC
Found at i:33862958 original size:27 final size:27
Alignment explanation
Indices: 33862890--33862967 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 27
33862880 CAATAATAAC
** *
33862890 GCAGCAAAGCTGCCAGTAACAGTA-AT
1 GCAGCAAAGCCACTAGTAACAGTATAT
**
33862916 GCAGCAAAGCTGCTAGTAACAGTATAT
1 GCAGCAAAGCCACTAGTAACAGTATAT
**
33862943 GTGGCAAAGCCACTAGT-ACAGTATA
1 GCAGCAAAGCCACTAGTAACAGTATA
33862968 CTACACTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 31 0.67
27 15 0.33
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
GCAGCAAAGCCACTAGTAACAGTATAT
Found at i:33863151 original size:27 final size:26
Alignment explanation
Indices: 33863121--33863340 Score: 219
Period size: 27 Copynumber: 8.2 Consensus size: 26
33863111 TACAACAGTT
*
33863121 ATTTTACCCTATAAGGGTATTTTGATC
1 ATTTTACCCT-TGAGGGTATTTTGATC
*
33863148 ATTTTACCCTTTGGGGGTATTTTGATC
1 ATTTTACCC-TTGAGGGTATTTTGATC
*
33863175 ATTTTACCCATTG-GCGGTATTTTAATC
1 ATTTTACCC-TTGAG-GGTATTTTGATC
*
33863202 ATTTTACCCTTTGAGGGTATTTTGGTC
1 ATTTTACCC-TTGAGGGTATTTTGATC
* *
33863229 ATTTTACCCTTCGATGGTATTTCGATC
1 ATTTTACCCTT-GAGGGTATTTTGATC
* *
33863256 ATTTTACCTTTTGAGGGTATTTCGATC
1 ATTTTACC-CTTGAGGGTATTTTGATC
* * *
33863283 ATTTTACTCTTCAAGGGTATTTTGGTC
1 ATTTTACCCTT-GAGGGTATTTTGATC
* *
33863310 ATTTGT-CCCTTCAAGGGTATTTTGGTC
1 ATTT-TACCCTT-GAGGGTATTTTGATC
33863337 ATTT
1 ATTT
33863341 GTGGCCCATT
Statistics
Matches: 168, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
26 5 0.03
27 158 0.94
28 5 0.03
ACGTcount: A:0.19, C:0.16, G:0.18, T:0.47
Consensus pattern (26 bp):
ATTTTACCCTTGAGGGTATTTTGATC
Found at i:33863194 original size:54 final size:54
Alignment explanation
Indices: 33863136--33863340 Score: 243
Period size: 54 Copynumber: 3.8 Consensus size: 54
33863126 ACCCTATAAG
* *
33863136 GGTATTTTGATCATTTTACCCTTTGGGGGTATTTTGATCATTTTACCCATT-GGC
1 GGTATTTTGATCATTTTACCCTTTGAGGGTATTTTGATCATTTTACCC-TTCGAC
* * *
33863190 GGTATTTTAATCATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCGAT
1 GGTATTTTGATCATTTTACCCTTTGAGGGTATTTTGATCATTTTACCCTTCGAC
* * * * * *
33863244 GGTATTTCGATCATTTTACCTTTTGAGGGTATTTCGATCATTTTACTCTTCAAG
1 GGTATTTTGATCATTTTACCCTTTGAGGGTATTTTGATCATTTTACCCTTCGAC
* ** *
33863298 GGTATTTTGGTCATTTGT-CCCTTCAAGGGTATTTTGGTCATTT
1 GGTATTTTGATCATTT-TACCCTTTGAGGGTATTTTGATCATTT
33863341 GTGGCCCATT
Statistics
Matches: 129, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 2 0.02
54 126 0.98
55 1 0.01
ACGTcount: A:0.18, C:0.16, G:0.19, T:0.47
Consensus pattern (54 bp):
GGTATTTTGATCATTTTACCCTTTGAGGGTATTTTGATCATTTTACCCTTCGAC
Found at i:33863256 original size:81 final size:81
Alignment explanation
Indices: 33863121--33863340 Score: 273
Period size: 81 Copynumber: 2.7 Consensus size: 81
33863111 TACAACAGTT
* * * *
33863121 ATTTTACCCTATAAGGGTATTTTGATCATTTTACCCTTTGGGGGTATTTTGATCATTTTACCCAT
1 ATTTTACCCTTTAAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTTGATCATTTTACCCAT
*
33863186 TG-GCGGTATTTTAATC
66 TGAG-GGTATTTCAATC
* * * **
33863202 ATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCGATGGTATTTCGATCATTTTACCTTT
1 ATTTTACCCTTTAAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTTGATCATTTTACCCAT
*
33863267 TGAGGGTATTTCGATC
66 TGAGGGTATTTCAATC
* * * *
33863283 ATTTTACTCTTCAAGGGTATTTTGGTCATTTGT-CCCTTCAAGGGTATTTTGGTCATTT
1 ATTTTACCCTTTAAGGGTATTTTGGTCATTT-TACCCTTCGAGGGTATTTTGATCATTT
33863341 GTGGCCCATT
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
81 117 0.98
82 2 0.02
ACGTcount: A:0.19, C:0.16, G:0.18, T:0.47
Consensus pattern (81 bp):
ATTTTACCCTTTAAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTTGATCATTTTACCCAT
TGAGGGTATTTCAATC
Found at i:33877046 original size:14 final size:15
Alignment explanation
Indices: 33877014--33877046 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
33877004 ATAGGATACC
*
33877014 TTAATACCCATCAAT
1 TTAACACCCATCAAT
33877029 TTAACACCCATC-AT
1 TTAACACCCATCAAT
33877043 TTAA
1 TTAA
33877047 GTACTTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAACACCCATCAAT
Found at i:33879967 original size:21 final size:21
Alignment explanation
Indices: 33879928--33879969 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33879918 AACCCTATAC
* *
33879928 AAGAGTTTTATGATGGATTAT
1 AAGAGTTTGATGATAGATTAT
*
33879949 AAGAGTTTGATGTTAGATTAT
1 AAGAGTTTGATGATAGATTAT
33879970 TATGTTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (21 bp):
AAGAGTTTGATGATAGATTAT
Found at i:33890416 original size:26 final size:26
Alignment explanation
Indices: 33890378--33890428 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
33890368 GGATTGAGTT
*
33890378 TGGTGAGCGACGTGTTCTGGGTCCTA
1 TGGTGAGCCACGTGTTCTGGGTCCTA
33890404 TGGTGAGCCACGTGTTCTGGGTCCT
1 TGGTGAGCCACGTGTTCTGGGTCCT
33890429 GAGTTGGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.10, C:0.22, G:0.37, T:0.31
Consensus pattern (26 bp):
TGGTGAGCCACGTGTTCTGGGTCCTA
Found at i:33893066 original size:23 final size:24
Alignment explanation
Indices: 33893040--33893084 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
33893030 ATATCCCCAC
*
33893040 ATGGAGTGTA-AGGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
33893063 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
33893085 GTAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.22, C:0.02, G:0.49, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:33894249 original size:20 final size:20
Alignment explanation
Indices: 33894190--33894249 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
33894180 TAAAAACATC
*
33894190 GGCACTAAAGTGCAATTAGG
1 GGCACTGAAGTGCAATTAGG
* * *
33894210 GGTACTGAAGTACAAATAGG
1 GGCACTGAAGTGCAATTAGG
*
33894230 GGCAC-GTATGTGCAATTAGG
1 GGCACTG-AAGTGCAATTAGG
33894250 AGTACCAAAG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (20 bp):
GGCACTGAAGTGCAATTAGG
Found at i:33894261 original size:40 final size:40
Alignment explanation
Indices: 33894199--33894375 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 40
33894189 CGGCACTAAA
* * * *
33894199 GTGCAATTAGGGGTACTGAAGTACAAATAGGGGCACGTAT
1 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACGTAT
* * * *
33894239 GTGCAATTAGGAGTACCAAAGTATGAACA---G---GTAT
1 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACGTAT
*
33894273 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACATAT
1 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACGTAT
*
33894313 GTGCAATCAGGGGTACCAAAGTACGAACAGGGGCACGTAT
1 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACGTAT
33894353 GTGCAATCAGGGGTACCGAAGTA
1 GTGCAATCAGGGGTACCGAAGTA
33894376 TAATAATTTT
Statistics
Matches: 117, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
34 29 0.25
37 2 0.02
40 86 0.74
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.19
Consensus pattern (40 bp):
GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACGTAT
Found at i:33894305 original size:20 final size:20
Alignment explanation
Indices: 33894276--33894375 Score: 71
Period size: 20 Copynumber: 5.0 Consensus size: 20
33894266 CAGGTATGTG
33894276 CAATCAGGGGTACCGAAGTA
1 CAATCAGGGGTACCGAAGTA
* ** * *
33894296 CGAA-CAGGGGCACATATGTG
1 C-AATCAGGGGTACCGAAGTA
*
33894316 CAATCAGGGGTACCAAAGTA
1 CAATCAGGGGTACCGAAGTA
* * *
33894336 CGAA-CAGGGGCA-CGTATGTG
1 C-AATCAGGGGTACCG-AAGTA
33894356 CAATCAGGGGTACCGAAGTA
1 CAATCAGGGGTACCGAAGTA
33894376 TAATAATTTT
Statistics
Matches: 57, Mismatches: 17, Indels: 12
0.66 0.20 0.14
Matches are distributed among these distances:
19 5 0.09
20 46 0.81
21 6 0.11
ACGTcount: A:0.33, C:0.20, G:0.32, T:0.15
Consensus pattern (20 bp):
CAATCAGGGGTACCGAAGTA
Found at i:33894329 original size:74 final size:76
Alignment explanation
Indices: 33894199--33894375 Score: 232
Period size: 74 Copynumber: 2.3 Consensus size: 76
33894189 CGGCACTAAA
* * * * * *
33894199 GTGCAATTAGGGGTACTGAAGTACAAATAGGGGCACGTATGTGCAATTAGGAGTACCAAAGTATG
1 GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATCAGGAGTACCAAAGTACG
33894264 AACA-G-GTAT
66 AACAGGCGTAT
* *
33894273 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACATATGTGCAATCAGGGGTACCAAAGTACG
1 GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATCAGGAGTACCAAAGTACG
33894338 AACAGGGGCACGTAT
66 AACA--GG--CGTAT
33894353 GTGCAATCAGGGGTACCGAAGTA
1 GTGCAATCAGGGGTACCGAAGTA
33894376 TAATAATTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
74 61 0.69
77 1 0.01
80 27 0.30
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.19
Consensus pattern (76 bp):
GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATCAGGAGTACCAAAGTACG
AACAGGCGTAT
Found at i:33904837 original size:18 final size:17
Alignment explanation
Indices: 33904804--33904842 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
33904794 TTTTATAAAT
33904804 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
33904822 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
33904839 TGTG
1 TGTG
33904843 GAAGTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:33918367 original size:8 final size:8
Alignment explanation
Indices: 33918354--33918391 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
33918344 TAGGAATTTG
33918354 AAAATAAC
1 AAAATAAC
33918362 AAAATAAC
1 AAAATAAC
33918370 AAAATAA-
1 AAAATAAC
* *
33918377 AAAAAAAT
1 AAAATAAC
33918385 AAAATAA
1 AAAATAA
33918392 AATAAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAATAAC
Found at i:33918388 original size:15 final size:15
Alignment explanation
Indices: 33918354--33918393 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
33918344 TAGGAATTTG
*
33918354 AAAATAACAAAATAAC
1 AAAATAA-AAAAAAAC
*
33918370 AAAATAAAAAAAAAT
1 AAAATAAAAAAAAAC
33918385 AAAATAAAA
1 AAAATAAAA
33918394 TAAATTTAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAATAAAAAAAAAC
Found at i:33923769 original size:15 final size:15
Alignment explanation
Indices: 33923746--33923777 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33923736 CTCCACACTG
33923746 ACCAACACCTCTACC
1 ACCAACACCTCTACC
*
33923761 ACCATCACCTCTACC
1 ACCAACACCTCTACC
33923776 AC
1 AC
33923778 GGCCCCACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.53, G:0.00, T:0.16
Consensus pattern (15 bp):
ACCAACACCTCTACC
Found at i:33925698 original size:45 final size:43
Alignment explanation
Indices: 33925567--33925705 Score: 143
Period size: 45 Copynumber: 3.1 Consensus size: 43
33925557 AAAATAAATA
* * *
33925567 TGGTTGCTATGTGTTGATTTCACCAGATGCCAATGGTTATATAGG
1 TGGTTGCTATGTGTTGATTTCACCAG-TACCATTGG-TATAAAGG
* **
33925612 TCGTTGCTATGTACTGATTTCACCCAGTACCATTGAGTATAAAGG
1 TGGTTGCTATGTGTTGATTTCA-CCAGTACCATTG-GTATAAAGG
* * *
33925657 TGGTTGCTGTGTGTTGATTTCACCGAGTACTATTGGCTATAAGGG
1 TGGTTGCTATGTGTTGATTTCACC-AGTACCATTGG-TATAAAGG
33925702 TGGT
1 TGGT
33925706 GTTGTATGCT
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
44 3 0.04
45 70 0.90
46 5 0.06
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.37
Consensus pattern (43 bp):
TGGTTGCTATGTGTTGATTTCACCAGTACCATTGGTATAAAGG
Found at i:33933564 original size:70 final size:72
Alignment explanation
Indices: 33933451--33933601 Score: 243
Period size: 70 Copynumber: 2.1 Consensus size: 72
33933441 GGGGAATCAT
* *
33933451 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
33933515 GATATC-
66 GATATCG
***
33933521 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
33933586 GATATCG
66 GATATCG
33933593 CACTTAGCA
1 CACTTAGCA
33933602 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 45 0.61
71 20 0.27
72 9 0.12
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
GATATCG
Found at i:33933633 original size:77 final size:70
Alignment explanation
Indices: 33933451--33933638 Score: 225
Period size: 70 Copynumber: 2.6 Consensus size: 70
33933441 GGGGAATCAT
* * *
33933451 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
33933516 ATATC
66 ATATC
* ***
33933521 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
33933586 GATATC
65 GATATC
*
33933592 GCACTTAGC-ACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCC
1 -CACTTAGCAACC-CC--T---CCGGGGAATCAGCACATAGCAACCCC
33933639 TCGGGGGAAT
Statistics
Matches: 103, Mismatches: 7, Indels: 9
0.87 0.06 0.08
Matches are distributed among these distances:
70 45 0.44
71 23 0.22
72 10 0.10
74 1 0.01
77 24 0.23
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (70 bp):
CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
ATATC
Found at i:33933650 original size:104 final size:104
Alignment explanation
Indices: 33933521--33933743 Score: 376
Period size: 104 Copynumber: 2.1 Consensus size: 104
33933511 AATGGATATC
33933521 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
33933586 GAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAG
66 GATCA-CGCACATAGCACCACCAATAAACCGGGGAATCAG
33933625 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
33933690 GATCACGCACATAGCACCACCCATAAATCGGGGAATCAG
66 GATCACGCACATAGCACCACCAATAAACCGGGGAATCAG
**
33933729 CACACAGCAACCCCT
1 CACTTAGCAACCCCT
33933744 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 111 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATCACGCACATAGCACCACCAATAAACCGGGGAATCAG
Found at i:33940654 original size:70 final size:72
Alignment explanation
Indices: 33940540--33940690 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
33940530 GGGGAATCAT
* *
33940540 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
33940604 GATATCG
66 GATATCG
***
33940611 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
33940675 GATATCG
66 GATATCG
33940682 CACTTAGCA
1 CACTTAGCA
33940691 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 28 0.38
71 46 0.62
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
GATATCG
Found at i:33940794 original size:104 final size:103
Alignment explanation
Indices: 33940610--33940832 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
33940600 AATGGATATC
33940610 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
33940675 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
33940713 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
33940778 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
65 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
33940817 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
33940833 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 17 0.15
104 94 0.84
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:33942254 original size:45 final size:44
Alignment explanation
Indices: 33942071--33942268 Score: 166
Period size: 45 Copynumber: 4.4 Consensus size: 44
33942061 GTTAAAAAAA
* * ** * * *
33942071 GTGGATGCTATGTGCTGATTCCACCTAATATTAATGAAAATAAAG
1 GTGGTTGCTATGTGCTGATTTCACC-GGTACTATTGAATATAAAG
* * * *
33942116 GTGGTTGCTATGTGCTGATTTCACTGGATACCAATTG-TTATATAG
1 GTGGTTGCTATGTGCTGATTTCACCGG-TA-CTATTGAATATAAAG
** * * *
33942161 GTCATTGCTATGTGGTGATTTCACCCGGTACCATTGAGTATAAAG
1 GTGGTTGCTATGTGCTGATTTCA-CCGGTACTATTGAATATAAAG
* *
33942206 GTGGTTGCTATGTGCTGATTTCACCGAGTACTATTGACTATAAGG
1 GTGGTTGCTATGTGCTGATTTCACCG-GTACTATTGAATATAAAG
*
33942251 GTGG-TGCTGTGTGCTGAT
1 GTGGTTGCTATGTGCTGAT
33942269 CCACCATGTA
Statistics
Matches: 123, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
44 21 0.17
45 96 0.78
46 6 0.05
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (44 bp):
GTGGTTGCTATGTGCTGATTTCACCGGTACTATTGAATATAAAG
Found at i:33947037 original size:6 final size:6
Alignment explanation
Indices: 33947026--33947063 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
33947016 CTAAGCTTTC
*
33947026 ATACAT ATACAT ATACAT ATACAT ATACAT ATATAT AT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT AT
33947064 CCAAACAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (6 bp):
ATACAT
Found at i:33951413 original size:50 final size:50
Alignment explanation
Indices: 33951283--33951436 Score: 254
Period size: 50 Copynumber: 3.0 Consensus size: 50
33951273 ATAGGGGATA
* *
33951283 AAAGCTAAACGAGCAAATAAGAGGGAATCTACTTTTACAAAGTGAAAGAC
1 AAAGCTAAACGAGCAGATAAGAGGGAATCTGCTTTTACAAAGTGAAAGAC
33951333 ATCAAGCTAAACGAGCAGATAAGAGGGAATCTGCTTTTACAAAGTGAAAGAC
1 A--AAGCTAAACGAGCAGATAAGAGGGAATCTGCTTTTACAAAGTGAAAGAC
* *
33951385 AAAGCTAAACGAGCAGATAAGAGAGAATCTGCTTTTACAAAATGAAAGAC
1 AAAGCTAAACGAGCAGATAAGAGGGAATCTGCTTTTACAAAGTGAAAGAC
33951435 AA
1 AA
33951437 TTATTCATAT
Statistics
Matches: 98, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
50 50 0.51
52 48 0.49
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.18
Consensus pattern (50 bp):
AAAGCTAAACGAGCAGATAAGAGGGAATCTGCTTTTACAAAGTGAAAGAC
Found at i:33971642 original size:24 final size:24
Alignment explanation
Indices: 33971615--33971681 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
33971605 TACAATTCAT
*
33971615 AGACAAAACAGTCATTTAAATCAC
1 AGACAAAACAATCATTTAAATCAC
* **
33971639 AGACAAATCAATCATTTTCATCAC
1 AGACAAAACAATCATTTAAATCAC
*
33971663 GGA-AAAATCAATCATTTAA
1 AGACAAAA-CAATCATTTAA
33971682 CCTCGAGGGT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
23 3 0.09
24 31 0.91
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.25
Consensus pattern (24 bp):
AGACAAAACAATCATTTAAATCAC
Found at i:33971722 original size:28 final size:26
Alignment explanation
Indices: 33971682--33971872 Score: 134
Period size: 27 Copynumber: 7.1 Consensus size: 26
33971672 AATCATTTAA
33971682 CCTCGAGGGTAAAATT-TACTGAAATAC
1 CCTCGAGGGTAAAATTAT-C-GAAATAC
33971709 CCTCGATGGGTAAAATTATCGAAATACC
1 CCTCGA-GGGTAAAATTATCGAAATA-C
** * * *
33971737 CCTAAAGGATAAAATTACCAAAATATC
1 CCTCGAGGGTAAAATTATCGAAATA-C
* ** * *
33971764 CTTAAAGGGTAAAATTACCAAAATAC
1 CCTCGAGGGTAAAATTATCGAAATAC
* ** *
33971790 CC-CTGAAGCGTAAAACGACCGAAATAC
1 CCTC-G-AGGGTAAAATTATCGAAATAC
*
33971817 CCTCGAAGGGTAAAATTATTGAAATAC
1 CCTCG-AGGGTAAAATTATCGAAATAC
**
33971844 CCTTAAAGGGTAAAATTATCGAAATAC
1 CC-TCGAGGGTAAAATTATCGAAATAC
33971871 CC
1 CC
33971873 AATCCAACCA
Statistics
Matches: 134, Mismatches: 23, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
26 2 0.01
27 113 0.84
28 18 0.13
29 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (26 bp):
CCTCGAGGGTAAAATTATCGAAATAC
Found at i:33971761 original size:54 final size:53
Alignment explanation
Indices: 33971689--33971872 Score: 206
Period size: 54 Copynumber: 3.4 Consensus size: 53
33971679 TAACCTCGAG
* *
33971689 GGTAAAATTTACTGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCTAAA
1 GGTAAAA-TTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCCTAAA
* * ** * * *
33971743 GGATAAAATTACCAAAATATCCTTAAAGGGTAAAATTACCAAAATACCCCTGAA
1 GG-TAAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCCTAAA
** * *
33971797 GCGTAAAACGACCGAAATACCCTCGAAGGGTAAAATTATTGAAATACCCTTAAA
1 G-GTAAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCCTAAA
*
33971851 GGGTAAAATTATCGAAATACCC
1 -GGTAAAATTACCGAAATACCC
33971873 AATCCAACCA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
54 97 0.93
55 7 0.07
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (53 bp):
GGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCCTAAA
Found at i:33971803 original size:81 final size:82
Alignment explanation
Indices: 33971687--33971872 Score: 207
Period size: 81 Copynumber: 2.3 Consensus size: 82
33971677 TTTAACCTCG
* * * ** *
33971687 AGGGTAAAATTTACTGAAATA-CCCTCGATGGGTAAAATTATCGAAATACCC-CTAAAGGATAAA
1 AGGGTAAAA-TTACCGAAATACCCCTCGAAGCGTAAAACGACCGAAATACCCTC-AAAGGATAAA
*
33971750 ATTACCAAAATATCCTTAA
64 ATTACCAAAATACCCTTAA
* * *
33971769 AGGGTAAAATTACCAAAATACCCCT-GAAGCGTAAAACGACCGAAATACCCTCGAAGGGTAAAAT
1 AGGGTAAAATTACCGAAATACCCCTCGAAGCGTAAAACGACCGAAATACCCTCAAAGGATAAAAT
***
33971833 TATTGAAATACCCTTAA
66 TACCAAAATACCCTTAA
*
33971850 AGGGTAAAATTATCGAAATACCC
1 AGGGTAAAATTACCGAAATACCC
33971873 AATCCAACCA
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 73 0.84
82 14 0.16
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.23
Consensus pattern (82 bp):
AGGGTAAAATTACCGAAATACCCCTCGAAGCGTAAAACGACCGAAATACCCTCAAAGGATAAAAT
TACCAAAATACCCTTAA
Found at i:33977331 original size:21 final size:22
Alignment explanation
Indices: 33977296--33977346 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
33977286 GTTTTTACTC
* *
33977296 AAAACATGTGATTTAATGGCTA
1 AAAACATGTGATTTAAAGACTA
*
33977318 AAAACATG-GTTTTAAAGACTA
1 AAAACATGTGATTTAAAGACTA
33977339 AATAACAT
1 AA-AACAT
33977347 TTAAAACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (22 bp):
AAAACATGTGATTTAAAGACTA
Done.