Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 87 of 196
Found at i:25108169 original size:45 final size:46
Alignment explanation
Indices: 25108105--25108218 Score: 187
Period size: 45 Copynumber: 2.5 Consensus size: 46
25108095 TCATAGTGAT
25108105 ATGTAG-TCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTG-A
1 ATGTAGCT-GAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAA
*
25108150 ATGTAGCTGAAGCTACCACTAATATGTAGCCGTAGCTACCACTGAA
1 ATGTAGCTGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAA
*
25108196 ATGTAGCCGAAGCTACCACTGAT
1 ATGTAGCTGAAGCTACCACTGAT
25108219 CAATAACACT
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
45 41 0.64
46 23 0.36
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (46 bp):
ATGTAGCTGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAA
Found at i:25108469 original size:18 final size:17
Alignment explanation
Indices: 25108444--25108481 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
25108434 TTTTCCTTCT
25108444 ACATTC-AATATTAATTC
1 ACATTCAAATA-TAATTC
25108461 ACATATCAAATATAATTC
1 ACAT-TCAAATATAATTC
25108479 ACA
1 ACA
25108482 AATTATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (17 bp):
ACATTCAAATATAATTC
Found at i:25108714 original size:30 final size:29
Alignment explanation
Indices: 25108666--25108727 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
25108656 TCCTTGACTC
25108666 AAACTTTGGCAAAATTACAACTTTGCCCCT
1 AAACTTTGGCAAAATTAC-ACTTTGCCCCT
* * * **
25108696 AAACTTTTGCATATTTACACTTTTTCCCT
1 AAACTTTGGCAAAATTACACTTTGCCCCT
25108725 AAA
1 AAA
25108728 GCTCGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.37
Consensus pattern (29 bp):
AAACTTTGGCAAAATTACACTTTGCCCCT
Found at i:25114086 original size:29 final size:28
Alignment explanation
Indices: 25114050--25114127 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
25114040 TCATGAGATT
25114050 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
25114080 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
25114107 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
25114128 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:25114401 original size:173 final size:174
Alignment explanation
Indices: 25114080--25114406 Score: 566
Period size: 173 Copynumber: 1.9 Consensus size: 174
25114070 AAATTGTACA
* *
25114080 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
25114145 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
25114210 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
25114254 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
25114319 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
25114383 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
25114407 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:25122230 original size:29 final size:28
Alignment explanation
Indices: 25122194--25122271 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
25122184 TCATGAGATT
25122194 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
25122224 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
25122251 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
25122272 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:25122545 original size:173 final size:174
Alignment explanation
Indices: 25122224--25122550 Score: 566
Period size: 173 Copynumber: 1.9 Consensus size: 174
25122214 AAATTGTACA
* *
25122224 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
25122289 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
25122354 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
25122398 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
25122463 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
25122527 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
25122551 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:25124954 original size:50 final size:50
Alignment explanation
Indices: 25124893--25125076 Score: 219
Period size: 50 Copynumber: 3.7 Consensus size: 50
25124883 TGAAAGTGCT
* *
25124893 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAAATGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAGATGATA
* * * *
25124943 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCG-GATAGTTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAGAT-G-ATA
* * * * *
25124994 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-AGATGGTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAGATGATA
*
25125043 GGGTCACATGTGTAGCACTATGTGCAGGCTACTA
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTA
25125077 TGTGAACCGA
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
49 3 0.03
50 71 0.63
51 39 0.35
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAGATGATA
Found at i:25125014 original size:101 final size:101
Alignment explanation
Indices: 25124895--25125078 Score: 298
Period size: 101 Copynumber: 1.8 Consensus size: 101
25124885 AAAGTGCTGG
* *
25124895 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGAAATGATA-GGTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACC-AAATGATAGGGTCACATGTGTAGCA
25124959 CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* * * *
25124996 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGTAGGGTCACATGTGTAGCAC
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAAATGATAGGGTCACATGTGTAGCAC
25125061 TATGTGCAGGCTACTATG
66 TATGTGCAGGCTACTATG
25125079 TGAACCGAAC
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
100 6 0.08
101 70 0.92
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAAATGATAGGGTCACATGTGTAGCAC
TATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:25125156 original size:45 final size:45
Alignment explanation
Indices: 25125082--25125176 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
25125072 TACTATGTGA
* * * *
25125082 ACCGAACATTATTGATTAGTAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
25125127 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
25125172 ACCGA
1 ACCGA
25125177 GTATCTGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:25130145 original size:41 final size:41
Alignment explanation
Indices: 25130100--25130286 Score: 178
Period size: 41 Copynumber: 4.5 Consensus size: 41
25130090 GTTACTCGAT
* *
25130100 GGAATCAGCACTTAGCAACCACTTTATATTCAGTGATACAG
1 GGAATCAGCACTTAGCAACCACTTTATAATCAGTGATACGG
* * * *
25130141 GGAATCAGCACATAGCAACCCCTTCCACAATCAAG-GATACGG
1 GGAATCAGCACTTAGCAACCACTT-TATAATC-AGTGATACGG
* * * ***
25130183 TGGAATCAGCACTTAGCAACCACTTTTAGAATCAATAATTTTG
1 -GGAATCAGCACTTAGCAACCAC-TTTATAATCAGTGATACGG
* * * *
25130226 GGAATCAGCACTTAGCAACCCCTTTTTGATCAGTGATTCGG
1 GGAATCAGCACTTAGCAACCACTTTATAATCAGTGATACGG
*
25130267 GGAATCTGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
25130287 CCTTACATTC
Statistics
Matches: 117, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
41 53 0.45
42 32 0.27
43 30 0.26
44 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCACTTTATAATCAGTGATACGG
Found at i:25133161 original size:50 final size:50
Alignment explanation
Indices: 25133102--25133294 Score: 192
Period size: 50 Copynumber: 3.8 Consensus size: 50
25133092 AAAGTGATGA
* *
25133102 TCACGTGTGTAGTACTATGTGCAGGTTACTACGTGTACCGAAATGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATGATAGG
* * * * * * *
25133152 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCG-GATAGTTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAT-G-ATAGG
* ** * *
25133203 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-TTAGATGGTAGGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATGATA-GG
* * *
25133253 TCACATGTGTAGCACTATGTGCAGGCTACTATGTGAACCGAA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
25133295 CATTATTGAT
Statistics
Matches: 113, Mismatches: 25, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
49 3 0.03
50 71 0.63
51 39 0.35
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATGATAGG
Found at i:25133218 original size:101 final size:101
Alignment explanation
Indices: 25133100--25133285 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 101
25133090 TGAAAGTGAT
* *
25133100 GATCACGTGTGTAGTACTATGTGCAGGTTACTACGTGTACCGAAATGATA-GGTCGCATGTGTAG
1 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGAAATGATAGGGTCACATGTGTAG
*
25133164 TACTATGTGCAGGCTACTATGCGTACCGGATAGTTTC
65 CACTATGTGCAGGCTACTATGCGTACCGGATAGTTTC
** * *
25133201 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTAGATGGTAGGGTCACATGTGTAGC
1 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACGAAATGATAGGGTCACATGTGTAGC
25133266 ACTATGTGCAGGCTACTATG
66 ACTATGTGCAGGCTACTATG
25133286 TGAACCGAAC
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 6 0.08
101 71 0.92
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (101 bp):
GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACGAAATGATAGGGTCACATGTGTAGC
ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTC
Found at i:25133363 original size:45 final size:45
Alignment explanation
Indices: 25133289--25133383 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
25133279 TACTATGTGA
* * *
25133289 ACCGAACATTATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
* *
25133334 ACCGGACATCATTGATTAATAATGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
25133379 ACCGA
1 ACCGA
25133384 GTATCTGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:25143089 original size:50 final size:49
Alignment explanation
Indices: 25143029--25143393 Score: 184
Period size: 50 Copynumber: 7.3 Consensus size: 49
25143019 AGATTGGTCA
*
25143029 TTGTGACTTTAATCCTTTTAGCTGCAATGTCAGAAAAGCAAGATTCACTG
1 TTGTGGCTTTAATCCTTTTA-CTGCAATGTCAGAAAAGCAAGATTCACTG
* * * * * * ** *
25143079 TTATGGCTTTAAT-CTGCTCTACTGCACTGGCTGAGAGAGTGAGATTC-GTCG
1 TTGTGGCTTTAATCCT--TTTACTGCAATGTCAGA-AAAGCAAGATTCACT-G
* ** * *
25143130 TGGTCACTTTAATCCTTTTAACTGGAATGTC-GAGAAAGCAAGATTTACTG
1 TTGTGGCTTTAATCCTTTT-ACTGCAATGTCAGA-AAAGCAAGATTCACTG
* * * * ** * * * *
25143180 TTGTGACTTTAAT-CTGCTTCACTGCATTGCCAGGGAAGTAACACTCACAG
1 TTGTGGCTTTAATCCT--TTTACTGCAATGTCAGAAAAGCAAGATTCACTG
* * * *
25143230 CTGTGGCTTTAATCTTTTTAACTGCAATGTCAG-AGAGACAAGATTCACCG
1 TTGTGGCTTTAATCCTTTT-ACTGCAATGTCAGAAAAG-CAAGATTCACTG
* * * * ** * * *
25143280 TTGTGGCTTTAAT-CTGTTCCACTGCACTGCCTGGGAAGTAAGATTCGCTA
1 TTGTGGCTTTAATCCT-TT-TACTGCAATGTCAGAAAAGCAAGATTCACTG
* * *
25143330 TTGTAGCTTTAATCCTTTTAGCTGCAATGTCGGGAAAGCAAGATTCACTG
1 TTGTGGCTTTAATCCTTTTA-CTGCAATGTCAGAAAAGCAAGATTCACTG
*
25143380 ATGTGGCTTTAATC
1 TTGTGGCTTTAATC
25143394 TGTTTCACTG
Statistics
Matches: 226, Mismatches: 71, Indels: 36
0.68 0.21 0.11
Matches are distributed among these distances:
49 10 0.04
50 175 0.77
51 39 0.17
52 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (49 bp):
TTGTGGCTTTAATCCTTTTACTGCAATGTCAGAAAAGCAAGATTCACTG
Found at i:25143283 original size:100 final size:100
Alignment explanation
Indices: 25142983--25143515 Score: 476
Period size: 100 Copynumber: 5.3 Consensus size: 100
25142973 TGCTGTTGTA
* ** *
25142983 GCTTCAATCTG-TTCCACTGCACCGCCTGGGAAAGTAAGATTGGTCA-TTGT-GACTTTAATCCT
1 GCTTTAATCTGCTT-CACTGCATTGCCTGGG-AAGTAAGATTCG-CAGTTGTAG-CTTTAATCCT
* * * *
25143045 TTTAGCTGCAATGTC-AGAAAAGCAAGATTCACTGTTATG
62 TTTAACTGCAATGTCGAG-AAAGCAAGATTCACCGATGTG
* * * * *
25143084 GCTTTAATCTGC-TCTACTGCACTGGCTGAGAGAGTGAGATTCGTC-GTGGTCA-CTTTAATCCT
1 GCTTTAATCTGCTTC-ACTGCATTGCCTGGGA-AGTAAGATTCG-CAGTTGT-AGCTTTAATCCT
* * * *
25143146 TTTAACTGGAATGTCGAGAAAGCAAGATTTACTGTTGTG
62 TTTAACTGCAATGTCGAGAAAGCAAGATTCACCGATGTG
* * * * * * * *
25143185 ACTTTAATCTGCTTCACTGCATTGCCAGGGAAGTAACACTCACAGCTGTGGCTTTAATCTTTTTA
1 GCTTTAATCTGCTTCACTGCATTGCCTGGGAAGTAAGATTCGCAGTTGTAGCTTTAATCCTTTTA
* *
25143250 ACTGCAATGTC-AGAGAGACAAGATTCACCGTTGTG
66 ACTGCAATGTCGAGAAAG-CAAGATTCACCGATGTG
*
25143285 GCTTTAATCTG-TTCCACTGCACTGCCTGGGAAGTAAGATTCGCTA-TTGTAGCTTTAATCCTTT
1 GCTTTAATCTGCTT-CACTGCATTGCCTGGGAAGTAAGATTCGC-AGTTGTAGCTTTAATCCTTT
* * *
25143348 TAGCTGCAATGTCGGGAAAGCAAGATTCACTGATGTG
64 TAACTGCAATGTCGAGAAAGCAAGATTCACCGATGTG
* ** * * *
25143385 GCTTTAATCTGTTTCACTGCATCACCTGGGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTA
1 GCTTTAATCTGCTTCACTGCATTGCCTGGGAAGTAAGATTCGCAGTTGTAGCTTTAATCCTTTTA
* * * * *
25143450 ACTGCAATATCGGGGAAGCAAGATTCACCAATGTC
66 ACTGCAATGTCGAGAAAGCAAGATTCACCGATGTG
* *
25143485 GCTTTAATCTGC-TCTACTGCATCGCTTGGGA
1 GCTTTAATCTGCTTC-ACTGCATTGCCTGGGA
25143516 GATAGGATTA
Statistics
Matches: 357, Mismatches: 58, Indels: 35
0.79 0.13 0.08
Matches are distributed among these distances:
99 10 0.03
100 234 0.66
101 109 0.31
102 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (100 bp):
GCTTTAATCTGCTTCACTGCATTGCCTGGGAAGTAAGATTCGCAGTTGTAGCTTTAATCCTTTTA
ACTGCAATGTCGAGAAAGCAAGATTCACCGATGTG
Found at i:25143403 original size:200 final size:201
Alignment explanation
Indices: 25143030--25143505 Score: 573
Period size: 200 Copynumber: 2.4 Consensus size: 201
25143020 GATTGGTCAT
* * * * * *
25143030 TGTGACTTTAATCCTTTTAGCTGCAATGTCAGAAAAGCAAGATTCACTGTTATGGCTTTAATCTG
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCAGAGAAGCAAGATTCACCGTTGTGGCTTTAATCTG
* * * *
25143095 CTCTACTGCACTGGCTGAGAGAGTGAGATTCGTCGTGGTCACTTTAATCCTTTTAACTGGAATGT
66 CTCTACTGCACTGCCTGAGAGAGTAAGATTCGTCATGGTCACTTTAATCCTTTTAACTGCAATGT
* * **
25143160 CGAGAAAGCAAGATTTACTGTTGTGACTTTAATCTGCTTCACTGCATTGCCAGGGAAGTAACACT
131 CGAGAAAGCAAGATTCACTGATGTGACTTTAATCTGCTTCACTGCATCACCAGGGAAGTAACACT
25143225 CACAGC
196 CACAGC
25143231 TGTGGCTTTAATCTTTTTAACTGCAATGTCAGAG-AGACAAGATTCACCGTTGTGGCTTTAATCT
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCAGAGAAG-CAAGATTCACCGTTGTGGCTTTAATCT
* * * * *
25143295 GTTCCACTGCACTGCCTGGGA-AGTAAGATTCG-CTATTGT-AGCTTTAATCCTTTTAGCTGCAA
65 GCTCTACTGCACTGCCTGAGAGAGTAAGATTCGTC-ATGGTCA-CTTTAATCCTTTTAACTGCAA
* * * * * *
25143357 TGTCGGGAAAGCAAGATTCACTGATGTGGCTTTAATCTGTTTCACTGCATCACCTGGGGAGTAAG
128 TGTCGAGAAAGCAAGATTCACTGATGTGACTTTAATCTGCTTCACTGCATCACCAGGGAAGTAAC
* * * *
25143422 ATTCGCTGT
193 ACTCACAGC
* * * * ** *
25143431 TGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATTCACCAATGTCGCTTTAATCTG
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCAGAGAAGCAAGATTCACCGTTGTGGCTTTAATCTG
25143496 CTCTACTGCA
66 CTCTACTGCA
25143506 TCGCTTGGGA
Statistics
Matches: 233, Mismatches: 38, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
199 2 0.01
200 157 0.67
201 74 0.32
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (201 bp):
TGTGGCTTTAATCTTTTTAACTGCAATGTCAGAGAAGCAAGATTCACCGTTGTGGCTTTAATCTG
CTCTACTGCACTGCCTGAGAGAGTAAGATTCGTCATGGTCACTTTAATCCTTTTAACTGCAATGT
CGAGAAAGCAAGATTCACTGATGTGACTTTAATCTGCTTCACTGCATCACCAGGGAAGTAACACT
CACAGC
Found at i:25143405 original size:50 final size:49
Alignment explanation
Indices: 25143136--25143495 Score: 226
Period size: 50 Copynumber: 7.2 Consensus size: 49
25143126 GTCGTGGTCA
* * * * *
25143136 CTTTAATCCT-TTTAACTGGAATGTCGAGAAAGCAAGATTTACTGTTGTGA
1 CTTTAAT-CTGTTTAACTGCAATGTCG-GGAAGCAAGATTCACTGATGTGG
* * * * * * * * *
25143186 CTTTAATCTGCTTCACTGCATTGCCAGGGAAGTAACACTCACAGCTGTGG
1 CTTTAATCTGTTTAACTGCAATGTC-GGGAAGCAAGATTCACTGATGTGG
* * * *
25143236 CTTTAATCTTTTTAACTGCAATGTC-AGAGAGACAAGATTCACCGTTGTGG
1 CTTTAATCTGTTTAACTGCAATGTCGGGA-AG-CAAGATTCACTGATGTGG
** * * * * *
25143286 CTTTAATCTGTTCCACTGCACTGCCTGGGAAGTAAGATTCGCT-ATTGTAG
1 CTTTAATCTGTTTAACTGCAATGTC-GGGAAGCAAGATTCACTGA-TGTGG
*
25143336 CTTTAATCCT-TTTAGCTGCAATGTCGGGAAAGCAAGATTCACTGATGTGG
1 CTTTAAT-CTGTTTAACTGCAATGTCGGG-AAGCAAGATTCACTGATGTGG
* ** * * * * *
25143386 CTTTAATCTGTTTCACTGC-ATCACCTGGGGAGTAAGATTCGCTGTTGTAG
1 CTTTAATCTGTTTAACTGCAAT-GTC-GGGAAGCAAGATTCACTGATGTGG
* * ** *
25143436 CTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATTCACCAATGTCG
1 CTTTAATCTGTTTAACTGCAATGTC-GGGAAGCAAGATTCACTGATGTGG
25143486 CTTTAATCTG
1 CTTTAATCTG
25143496 CTCTACTGCA
Statistics
Matches: 232, Mismatches: 64, Indels: 28
0.72 0.20 0.09
Matches are distributed among these distances:
48 2 0.01
49 11 0.05
50 206 0.89
51 11 0.05
52 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (49 bp):
CTTTAATCTGTTTAACTGCAATGTCGGGAAGCAAGATTCACTGATGTGG
Found at i:25143673 original size:142 final size:142
Alignment explanation
Indices: 25143512--25143852 Score: 565
Period size: 142 Copynumber: 2.4 Consensus size: 142
25143502 TGCATCGCTT
*
25143512 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGATTTCTGGCTT
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTT
* * *
25143577 CAATCTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTGC
66 CAATCTGATGAGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
25143642 ACTGTAATCTCA
131 ACTGTAATCTCA
* * *
25143654 GGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATTTTTGGCTT
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTT
* *
25143719 CAATCTGATGAGATCTACTTTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCC
66 CAATCTGATGAGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
*
25143784 ACTGTAATCTTA
131 ACTGTAATCTCA
* * *
25143796 AGCAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTTATCTCAGGGAGATAAGATT
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
25143853 CACCATCTCC
Statistics
Matches: 184, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
142 184 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (142 bp):
GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTT
CAATCTGATGAGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
ACTGTAATCTCA
Found at i:25146313 original size:37 final size:37
Alignment explanation
Indices: 25146263--25146341 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
25146253 TTATTACGAA
* *
25146263 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
25146300 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
25146337 GTCTT
1 GTCTT
25146342 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:25146537 original size:47 final size:47
Alignment explanation
Indices: 25146459--25147047 Score: 946
Period size: 47 Copynumber: 12.5 Consensus size: 47
25146449 CCCTTCGGGA
* * * * * * *
25146459 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25146506 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25146553 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25146600 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25146647 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25146694 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25146741 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25146788 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25146835 CTTATCACATATATATACACTTTCACATTCATCATATCGG-CATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25146883 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25146930 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25146979 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25147026 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
25147048 TTGGCTGAAT
Statistics
Matches: 514, Mismatches: 23, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
46 29 0.06
47 395 0.77
48 16 0.03
49 74 0.14
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25150026 original size:20 final size:20
Alignment explanation
Indices: 25150003--25150042 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25149993 TTAGCCTCTC
25150003 CATTTTT-ACTTTTTAATTTT
1 CATTTTTCA-TTTTTAATTTT
*
25150023 CATTTTTCATTTTTCATTTT
1 CATTTTTCATTTTTAATTTT
25150043 TCACCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.70
Consensus pattern (20 bp):
CATTTTTCATTTTTAATTTT
Found at i:25150029 original size:14 final size:14
Alignment explanation
Indices: 25150012--25150045 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
25150002 CCATTTTTAC
25150012 TTTTT-AATTTTCA
1 TTTTTCAATTTTCA
*
25150025 TTTTTCATTTTTCA
1 TTTTTCAATTTTCA
25150039 TTTTTCA
1 TTTTTCA
25150046 CCTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTCAATTTTCA
Found at i:25150044 original size:7 final size:7
Alignment explanation
Indices: 25150019--25150045 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25150009 TACTTTTTAA
25150019 TTTTCAT
1 TTTTCAT
25150026 TTTTCAT
1 TTTTCAT
25150033 TTTTCAT
1 TTTTCAT
25150040 TTTTCA
1 TTTTCA
25150046 CCTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTCAT
Found at i:25151019 original size:32 final size:31
Alignment explanation
Indices: 25150980--25151040 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 31
25150970 GACCTTGATT
25150980 TTGATTTTTCTTTT-TCTTCTTT-ATTTTTTTGA
1 TTGATTTTT-TTTTAT-TT-TTTGATTTTTTTGA
25151012 TTGATTTTTTTTTATTTTTTGATTTTTTT
1 TTGATTTTTTTTTATTTTTTGATTTTTTT
25151041 TGAGCTCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 3 0.11
31 14 0.52
32 10 0.37
ACGTcount: A:0.10, C:0.05, G:0.07, T:0.79
Consensus pattern (31 bp):
TTGATTTTTTTTTATTTTTTGATTTTTTTGA
Found at i:25151041 original size:22 final size:23
Alignment explanation
Indices: 25150990--25151041 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
25150980 TTGATTTTTC
*
25150990 TTTTTCTTCTTTATTTTTTTGAT
1 TTTTTTTTCTTTATTTTTTTGAT
*
25151013 TGATTTTTT-TTTA-TTTTTTGAT
1 T-TTTTTTTCTTTATTTTTTTGAT
25151035 TTTTTTT
1 TTTTTTT
25151042 GAGCTCATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 5 0.20
22 10 0.40
23 5 0.20
24 5 0.20
ACGTcount: A:0.10, C:0.04, G:0.06, T:0.81
Consensus pattern (23 bp):
TTTTTTTTCTTTATTTTTTTGAT
Found at i:25154095 original size:27 final size:27
Alignment explanation
Indices: 25154065--25154267 Score: 241
Period size: 27 Copynumber: 7.6 Consensus size: 27
25154055 ATATTGAGTC
* * * *
25154065 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25154092 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25154119 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25154147 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25154174 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25154201 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25154228 CGCACACTTAGTG-TAC-TAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25154253 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25154268 GTACAATTTA
Statistics
Matches: 154, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
25 22 0.14
26 3 0.02
27 105 0.68
28 24 0.16
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25154204 original size:82 final size:79
Alignment explanation
Indices: 25154086--25154267 Score: 231
Period size: 82 Copynumber: 2.3 Consensus size: 79
25154076 TGCTATATAA
* * *
25154086 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAAATCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
* *
25154151 CACTTAGTGCCGCATGG
65 CACTTAGTG-CAC-TAG
* * **
25154168 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAAATCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
25154232 CACTTAGTGTACTAG
65 CACTTAGTGCACTAG
25154247 TCAAATCGCACACTTAGTGCT
1 TCAAATCGCACACTTAGTGCT
25154268 GTACAATTTA
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
79 21 0.24
80 1 0.01
81 15 0.17
82 51 0.58
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (79 bp):
TCAAATCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCACTAG
Found at i:25164052 original size:27 final size:27
Alignment explanation
Indices: 25164022--25164226 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
25164012 ATATTGAGTC
* * * *
25164022 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25164049 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25164076 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25164104 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25164131 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25164158 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25164185 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25164212 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25164227 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25172009 original size:27 final size:27
Alignment explanation
Indices: 25171979--25172183 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
25171969 ATATTGAGTC
* * * *
25171979 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25172006 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25172033 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25172061 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25172088 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25172115 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25172142 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25172169 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25172184 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25179256 original size:324 final size:324
Alignment explanation
Indices: 25178643--25179286 Score: 1040
Period size: 324 Copynumber: 2.0 Consensus size: 324
25178633 TCGAGTCTTA
*
25178643 TGCTGCACTGAGGAGTGCTTATTTTTACCACCTATACAGTGAGGTGGTAGAGTTGGACTGGAATA
1 TGCTACACTGAGGAGTGCTTATTTTTACCACCTATACAGTGAGGTGGTAGAGTTGGACTGGAATA
*
25178708 CTGCTTAATGGAGTTTGAACTGGTCATAGAAGGAGTTGAGAAGGATTTGATGGAGTAAATCAAGG
66 CTGCTTAATGGAGTTTGAACTGGTCATAGAAGGAGTTGAGAAGGATTTGATGGAATAAATCAAGG
* *
25178773 AGGGATAAAGGGAGAGATTTGTGGAGGAAATTAAGGAATTTGATGAGAGGGGGAGTACGTGTCGT
131 AGGGATAAAGGGAGAGATTTGTGAAGGAAATTAAGGAATTTGATGAGAGGGGGAGTACGTGTCAT
25178838 TTGGGGTATTCAAACAGTGAGAATTCAGTTGGGGGAGGGTGTTTGTGAAGAATTTAGTCACTTAG
196 TTGGGGTATTCAAACAGTGAGAATTCAGTTGGGGGAGGGTGTTTGTGAAGAATTTAGTCACTTAG
25178903 CACTAAAGGTTTTCAGTTTTGGTTTTTTTTGGGTTTTCTCTCAGTTTGCTTTGATTGAGTCATG
261 CACTAAAGGTTTTCAGTTTTGGTTTTTTTTGGGTTTTCTCTCAGTTTGCTTTGATTGAGTCATG
* * *
25178967 TGCTACACTGAGGAGTGTTTATTTTTACCACCTGTACAGTGAGGTGGTGGAGTTGGACTGGAATA
1 TGCTACACTGAGGAGTGCTTATTTTTACCACCTATACAGTGAGGTGGTAGAGTTGGACTGGAATA
* *
25179032 CTGCTTAATGGAGTTTGAACTGGTCATAGAGGGAGTTGAGGAGGATTTGATGGAATAAATCAAGG
66 CTGCTTAATGGAGTTTGAACTGGTCATAGAAGGAGTTGAGAAGGATTTGATGGAATAAATCAAGG
* * * **
25179097 AGGGATAAGGGGAGAGATTTGTGAAGGAAATTAAGTAGTTTGATGAGAGGGGGGAGTGTGTGTCA
131 AGGGATAAAGGGAGAGATTTGTGAAGGAAATTAAGGAATTTGATGAGA-GGGGGAGTACGTGTCA
* **
25179162 TTTGGGGTATTCCAACAGTGAGAATTCTA-TTGGGGGAGGGTGTTTGTGCTGAATTTAGTCACTT
195 TTTGGGGTATTCAAACAGTGAGAATTC-AGTTGGGGGAGGGTGTTTGTGAAGAATTTAGTCACTT
* * *
25179226 AGCACTAAAGGTTTTC-GATTTTGGTTTTTTTTTGGGAGTTTTCTTTCTGCTTGCTTTGATT
259 AGCACTAAAGGTTTTCAG-TTTTGG-TTTTTTTT-GG-GTTTTCTCTCAGTTTGCTTTGATT
25179287 TCGGGGAGTT
Statistics
Matches: 294, Mismatches: 20, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
324 168 0.57
325 94 0.32
326 9 0.03
327 2 0.01
328 21 0.07
ACGTcount: A:0.25, C:0.09, G:0.32, T:0.34
Consensus pattern (324 bp):
TGCTACACTGAGGAGTGCTTATTTTTACCACCTATACAGTGAGGTGGTAGAGTTGGACTGGAATA
CTGCTTAATGGAGTTTGAACTGGTCATAGAAGGAGTTGAGAAGGATTTGATGGAATAAATCAAGG
AGGGATAAAGGGAGAGATTTGTGAAGGAAATTAAGGAATTTGATGAGAGGGGGAGTACGTGTCAT
TTGGGGTATTCAAACAGTGAGAATTCAGTTGGGGGAGGGTGTTTGTGAAGAATTTAGTCACTTAG
CACTAAAGGTTTTCAGTTTTGGTTTTTTTTGGGTTTTCTCTCAGTTTGCTTTGATTGAGTCATG
Found at i:25179492 original size:35 final size:35
Alignment explanation
Indices: 25179427--25179495 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
25179417 CCTCATTTTA
*
25179427 CTTTCTTTTCTTTTTCTTTTTTCTTCTGGCCGAAC
1 CTTTCTTCTCTTTTTCTTTTTTCTTCTGGCCGAAC
25179462 CTTTCTTCTCTTCTTT-TTTTCTTCTT-TGGCCGAA
1 CTTTCTTCTCTT-TTTCTTTT-TTCTTCTGGCCGAA
25179496 TAATCTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 23 0.74
36 8 0.26
ACGTcount: A:0.06, C:0.26, G:0.09, T:0.59
Consensus pattern (35 bp):
CTTTCTTCTCTTTTTCTTTTTTCTTCTGGCCGAAC
Found at i:25180341 original size:54 final size:52
Alignment explanation
Indices: 25180178--25180520 Score: 298
Period size: 54 Copynumber: 6.4 Consensus size: 52
25180168 AAAATTATCG
* * * *
25180178 AAATACCCTCGAAGGGTAAAATTACTGAAA-ACTCTCGAAGGGTAAAATTACCA
1 AAATACCC-CGAAGGGTAAAATTACTAAAATACCCT-GAATGGTAAAATGACCA
** * * * * *
25180231 AAATACCCTTAAAGGTAAAATTACTAAAATACCCCGAATGGTAAAATTATCG
1 AAATACCCCGAAGGGTAAAATTACTAAAATACCCTGAATGGTAAAATGACCA
* *
25180283 AAATACCCTCGAAGGGTAAAATTACCAAAATATCCCTGAATGGTAAAATGATCA
1 AAATACCC-CGAAGGGTAAAATTACTAAAATA-CCCTGAATGGTAAAATGACCA
* * * *
25180337 AAATACCCCTGAAGGGTAAAATGT-CTGAAATACCCCCGAAGGGTAAAATGACTA
1 AAATACCCC-GAAGGGTAAAAT-TACTAAAATA-CCCTGAATGGTAAAATGACCA
* * * * *
25180391 AAATACCCCTATAGGGTAAAATTACCAAAAAATTCCTAAATGGTAAAATGACCA
1 AAATACCCCGA-AGGGTAAAATTACTAAAATA-CCCTGAATGGTAAAATGACCA
* * *
25180445 AAATACCCCCAAAGGGTAAAATGT-CTGAAATACCCCTGAA-GGATAAAATGACCG
1 AAATA-CCCCGAAGGGTAAAAT-TACTAAAATA-CCCTGAATGG-TAAAATGACCA
*
25180499 AAATACCCCTATAGGGTAAAAT
1 AAATACCCCGA-AGGGTAAAAT
25180521 AACCGTTATA
Statistics
Matches: 237, Mismatches: 42, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
52 39 0.16
53 40 0.17
54 151 0.64
55 7 0.03
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.21
Consensus pattern (52 bp):
AAATACCCCGAAGGGTAAAATTACTAAAATACCCTGAATGGTAAAATGACCA
Found at i:25180412 original size:108 final size:108
Alignment explanation
Indices: 25180149--25180520 Score: 400
Period size: 108 Copynumber: 3.5 Consensus size: 108
25180139 TAATGGGACC
** * * ** *
25180149 GAAATACCAACGAACGGGTAAAATTA-TCGAAATACCCTCGA-AGGGTAAAATTACTGAAAACTC
1 GAAATACCCCCGAA-GGGTAAAATGACT-GAAATACCC-CTATAGGGTAAAATTACCAAAAAATC
* * * * *
25180212 TC-GAAGGGTAAAATTACCAAAATACCCTTAAA-GGTAAAAT-TACT
63 CCTAAATGGTAAAATGACCAAAATACCCCTAAAGGGTAAAATGT-CT
* * * * *
25180256 AAAATA-CCCCGAATGGTAAAATTA-TCGAAATACCCTCGA-AGGGTAAAATTACCAAAATATCC
1 GAAATACCCCCGAAGGGTAAAATGACT-GAAATACCC-CTATAGGGTAAAATTACCAAAAAATCC
* * *
25180318 CTGAATGGTAAAATGATCAAAATACCCCTGAAGGGTAAAATGTCT
64 CTAAATGGTAAAATGACCAAAATACCCCTAAAGGGTAAAATGTCT
* *
25180363 GAAATACCCCCGAAGGGTAAAATGACTAAAATACCCCTATAGGGTAAAATTACCAAAAAATTCCT
1 GAAATACCCCCGAAGGGTAAAATGACTGAAATACCCCTATAGGGTAAAATTACCAAAAAATCCCT
*
25180428 AAATGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGTCT
66 AAATGGTAAAATGACCAAAATACCCCTAAAGGGTAAAATGTCT
* * *
25180471 GAAATACCCCTGAAGGATAAAATGACCGAAATACCCCTATAGGGTAAAAT
1 GAAATACCCCCGAAGGGTAAAATGACTGAAATACCCCTATAGGGTAAAAT
25180521 AACCGTTATA
Statistics
Matches: 230, Mismatches: 29, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
105 44 0.19
106 30 0.13
107 22 0.10
108 133 0.58
109 1 0.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (108 bp):
GAAATACCCCCGAAGGGTAAAATGACTGAAATACCCCTATAGGGTAAAATTACCAAAAAATCCCT
AAATGGTAAAATGACCAAAATACCCCTAAAGGGTAAAATGTCT
Found at i:25180525 original size:27 final size:26
Alignment explanation
Indices: 25180164--25180520 Score: 261
Period size: 27 Copynumber: 13.3 Consensus size: 26
25180154 ACCAACGAAC
* * *
25180164 GGGTAAAATTATCGAAATACCCTCGAA
1 GGGTAAAATTACCAAAATACCC-CTAA
** * *
25180191 GGGTAAAATTACTGAAA-ACTCTCGAA
1 GGGTAAAATTACCAAAATAC-CCCTAA
*
25180217 GGGTAAAATTACCAAAATACCCTTAA
1 GGGTAAAATTACCAAAATACCCCTAA
* * *
25180243 AGGTAAAATTACTAAAATACCCCGAA
1 GGGTAAAATTACCAAAATACCCCTAA
* * * *
25180269 TGGTAAAATTATCGAAATACCCTCGAA
1 GGGTAAAATTACCAAAATACCC-CTAA
*
25180296 GGGTAAAATTACCAAAATATCCCTGAA
1 GGGTAAAATTACCAAAATACCCCT-AA
* * *
25180323 TGGTAAAATGATCAAAATACCCCTGAA
1 GGGTAAAATTACCAAAATACCCCT-AA
** *
25180350 GGGTAAAATGT-CTGAAATACCCCCGAA
1 GGGTAAAAT-TACCAAAATA-CCCCTAA
* *
25180377 GGGTAAAATGACTAAAATACCCCTATA
1 GGGTAAAATTACCAAAATACCCCTA-A
* **
25180404 GGGTAAAATTACCAAAAAATTCCTAAA
1 GGGTAAAATTACCAAAATACCCCT-AA
* * *
25180431 TGGTAAAATGACCAAAATACCCCCAAA
1 GGGTAAAATTACCAAAATA-CCCCTAA
**
25180458 GGGTAAAATGT-CTGAAATACCCCTGAA
1 GGGTAAAAT-TACCAAAATACCCCT-AA
* * *
25180485 GGATAAAATGACCGAAATACCCCTATA
1 GGGTAAAATTACCAAAATACCCCTA-A
25180512 GGGTAAAAT
1 GGGTAAAAT
25180521 AACCGTTATA
Statistics
Matches: 262, Mismatches: 54, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
26 75 0.29
27 180 0.69
28 7 0.03
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (26 bp):
GGGTAAAATTACCAAAATACCCCTAA
Found at i:25180661 original size:32 final size:32
Alignment explanation
Indices: 25180615--25180680 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
25180605 TACTGAGTAC
*
25180615 GACACACTACATACACGTATGGTTTATGACAT
1 GACACACTACATACACGTATGATTTATGACAT
* *
25180647 GACATACTACATACACGTGTGATTTATGACAT
1 GACACACTACATACACGTATGATTTATGACAT
25180679 GA
1 GA
25180681 GATTTTGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (32 bp):
GACACACTACATACACGTATGATTTATGACAT
Found at i:25180760 original size:26 final size:26
Alignment explanation
Indices: 25180728--25180781 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
25180718 ATGCCACATA
*
25180728 TACTGTTACTGGTAGCTTTGTTGCAT
1 TACTGTTACTCGTAGCTTTGTTGCAT
25180754 TACTGTTACTCGTAGCTTTGTTGCAT
1 TACTGTTACTCGTAGCTTTGTTGCAT
25180780 TA
1 TA
25180782 TTATTACTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (26 bp):
TACTGTTACTCGTAGCTTTGTTGCAT
Found at i:25180788 original size:26 final size:26
Alignment explanation
Indices: 25180728--25180798 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
25180718 ATGCCACATA
* *
25180728 TACTGTTACTGGTAGCTTTGTTGCAT
1 TACTATTACTAGTAGCTTTGTTGCAT
* *
25180754 TACTGTTACTCGTAGCTTTGTTGCAT
1 TACTATTACTAGTAGCTTTGTTGCAT
* *
25180780 TATTATTACTAGCAGCTTT
1 TACTATTACTAGTAGCTTT
25180799 TACTGGTGGC
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:0.18, C:0.17, G:0.18, T:0.46
Consensus pattern (26 bp):
TACTATTACTAGTAGCTTTGTTGCAT
Found at i:25180960 original size:28 final size:28
Alignment explanation
Indices: 25180915--25181008 Score: 136
Period size: 28 Copynumber: 3.4 Consensus size: 28
25180905 ACTGCATTGT
*
25180915 ACTGATTACTGTACTGGGCTAAGGCCCAC
1 ACTG-TTACTGTAATGGGCTAAGGCCCAC
* * *
25180944 ATTGTTACTATATTGGGCTAAGGCCCAC
1 ACTGTTACTGTAATGGGCTAAGGCCCAC
25180972 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTAATGGGCTAAGGCCCAC
25181000 ACTG-TACTG
1 ACTGTTACTG
25181009 GTACTAGATA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.08
28 51 0.86
29 3 0.05
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (28 bp):
ACTGTTACTGTAATGGGCTAAGGCCCAC
Found at i:25181823 original size:17 final size:16
Alignment explanation
Indices: 25181796--25181828 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
25181786 TAGTTAGAGT
25181796 AAACTGAAACTGTAGG
1 AAACTGAAACTGTAGG
25181812 AAACTGGAAACTGTAGG
1 AAACT-GAAACTGTAGG
25181829 GAGACTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.18
Consensus pattern (16 bp):
AAACTGAAACTGTAGG
Found at i:25188030 original size:27 final size:27
Alignment explanation
Indices: 25187998--25188185 Score: 180
Period size: 27 Copynumber: 7.0 Consensus size: 27
25187988 CCGTAATGGG
* *
25187998 ACCGAAATACGCTCGAAGGGTAAAATT
1 ACCGAAATACCCTCAAAGGGTAAAATT
*
25188025 ATCGAAATACCCTCAAAGGGTAAAATT
1 ACCGAAATACCCTCAAAGGGTAAAATT
* *
25188052 ACCGAAATACCTTCAAAAGGTAAAATT
1 ACCGAAATACCCTCAAAGGGTAAAATT
* * * * *
25188079 ACTGAAATACCCCCGAAGGGAAAAATG
1 ACCGAAATACCCTCAAAGGGTAAAATT
*** *
25188106 ATTAAAATACCCTCAAAAGGTAAAATT
1 ACCGAAATACCCTCAAAGGGTAAAATT
* * * **
25188133 ACCAAAATACCCTCGAATGGTAAAAGG
1 ACCGAAATACCCTCAAAGGGTAAAATT
*
25188160 ACCAAAATA-CCTCCAAAGGGTAAAAT
1 ACCGAAATACCCT-CAAAGGGTAAAAT
25188186 GTCTAAAATA
Statistics
Matches: 131, Mismatches: 29, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
26 3 0.02
27 128 0.98
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.19
Consensus pattern (27 bp):
ACCGAAATACCCTCAAAGGGTAAAATT
Found at i:25188086 original size:54 final size:54
Alignment explanation
Indices: 25188016--25188214 Score: 197
Period size: 54 Copynumber: 3.7 Consensus size: 54
25188006 ACGCTCGAAG
* * *
25188016 GGTAAAATTA-TCGAAATACCCTCAAAGGGTAAAATTACCGAAATACCTTCAAAA
1 GGTAAAATTACT-AAAATACCCTCAAAGGGTAAAATGACCAAAATACCTTCAAAA
* * * * ** *
25188070 GGTAAAATTACTGAAATACCCCCGAAGGGAAAAATGATTAAAATACCCTCAAAA
1 GGTAAAATTACTAAAATACCCTCAAAGGGTAAAATGACCAAAATACCTTCAAAA
* * * * * *
25188124 GGTAAAATTACCAAAATACCCTCGAATGGTAAAAGGACCAAAATACCTCCAAAG
1 GGTAAAATTACTAAAATACCCTCAAAGGGTAAAATGACCAAAATACCTTCAAAA
*
25188178 GGTAAAATGT-CTAAAATACCC-CTATAGGGTAAAATGA
1 GGTAAAAT-TACTAAAATACCCTC-AAAGGGTAAAATGA
25188215 TCGTTATACC
Statistics
Matches: 118, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
53 1 0.01
54 115 0.97
55 2 0.02
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (54 bp):
GGTAAAATTACTAAAATACCCTCAAAGGGTAAAATGACCAAAATACCTTCAAAA
Found at i:25188141 original size:81 final size:81
Alignment explanation
Indices: 25187996--25188198 Score: 237
Period size: 81 Copynumber: 2.5 Consensus size: 81
25187986 GGCCGTAATG
* * * ** * *
25187996 GGACCGAAATACGCTCGAAGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACCGAAATA
1 GGACCGAAATACCCCCGAAGGGTAAAATGATTAAAATACCCTCAAAAGGTAAAATTACCAAAATA
*
25188061 CCTTCAAAAGGTAAAA
66 CCCTCAAAAGGTAAAA
** * *
25188077 TTACTGAAATACCCCCGAAGGGAAAAATGATTAAAATACCCTCAAAAGGTAAAATTACCAAAATA
1 GGACCGAAATACCCCCGAAGGGTAAAATGATTAAAATACCCTCAAAAGGTAAAATTACCAAAATA
* *
25188142 CCCTCGAATGGTAAAA
66 CCCTCAAAAGGTAAAA
* * *
25188158 GGACCAAAATACCTCCAAAGGGTAAAATG-TCTAAAATACCC
1 GGACCGAAATACCCCCGAAGGGTAAAATGAT-TAAAATACCC
25188199 CTATAGGGTA
Statistics
Matches: 100, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
80 1 0.01
81 99 0.99
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (81 bp):
GGACCGAAATACCCCCGAAGGGTAAAATGATTAAAATACCCTCAAAAGGTAAAATTACCAAAATA
CCCTCAAAAGGTAAAA
Found at i:25188193 original size:27 final size:27
Alignment explanation
Indices: 25188013--25188213 Score: 137
Period size: 27 Copynumber: 7.4 Consensus size: 27
25188003 AATACGCTCG
* *
25188013 AAGGGTAAAAT-TATCGAAATACCCTCA
1 AAGGGTAAAATGTACCAAAATACCC-CA
* *
25188040 AAGGGTAAAAT-TACCGAAATACCTTCA
1 AAGGGTAAAATGTACCAAAATACC-CCA
* ** *
25188067 AAAGGTAAAAT-TACTGAAATACCCCCG
1 AAGGGTAAAATGTACCAAAATA-CCCCA
* **
25188094 AAGGGAAAAATG-ATTAAAATACCCTCA
1 AAGGGTAAAATGTACCAAAATACCC-CA
* *
25188121 AAAGGTAAAAT-TACCAAAATACCCTCG
1 AAGGGTAAAATGTACCAAAATACCC-CA
* *
25188148 AATGGTAAAA-GGACCAAAATACCTCCA
1 AAGGGTAAAATGTACCAAAATACC-CCA
*
25188175 AAGGGTAAAATGT-CTAAAATACCCCTA
1 AAGGGTAAAATGTACCAAAATACCCC-A
*
25188202 TAGGGTAAAATG
1 AAGGGTAAAATG
25188214 ATCGTTATAC
Statistics
Matches: 142, Mismatches: 23, Indels: 18
0.78 0.13 0.10
Matches are distributed among these distances:
26 5 0.04
27 133 0.94
28 4 0.03
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.20
Consensus pattern (27 bp):
AAGGGTAAAATGTACCAAAATACCCCA
Found at i:25188610 original size:28 final size:28
Alignment explanation
Indices: 25188562--25188649 Score: 140
Period size: 28 Copynumber: 3.1 Consensus size: 28
25188552 ACTGTATTAT
*
25188562 ACTGATTACTGTATTGAGCTAAGGCCCAC
1 ACTG-TTACTGTATTGGGCTAAGGCCCAC
*
25188591 ATTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
*
25188619 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
25188647 ACT
1 ACT
25188650 ATACTGATAC
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
28 52 0.95
29 3 0.05
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:25188670 original size:33 final size:30
Alignment explanation
Indices: 25188560--25188678 Score: 97
Period size: 28 Copynumber: 4.0 Consensus size: 30
25188550 TCACTGTATT
* *
25188560 ATACTGATTACTGTATTGAGCTAAGGCCCAC
1 ATACTGA-TACTGTATAGGGCTAAGGCCCAC
* *
25188591 AT--TGTTACTGTATTGGGCTAAGGCCCAC
1 ATACTGATACTGTATAGGGCTAAGGCCCAC
*
25188619 --ACTGTTACTGTA-ATGGGCTAAGGCCCACAC
1 ATACTGATACTGTATA-GGGCTAAGG-CC-CAC
25188649 TATACTGATACTGTATAGGGCTCAA-GCCCA
1 -ATACTGATACTGTATAGGGCT-AAGGCCCA
25188679 GACTGATTCT
Statistics
Matches: 74, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
28 41 0.55
29 4 0.05
30 3 0.04
31 4 0.05
32 2 0.03
33 17 0.23
34 3 0.04
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (30 bp):
ATACTGATACTGTATAGGGCTAAGGCCCAC
Found at i:25190456 original size:64 final size:64
Alignment explanation
Indices: 25190355--25190483 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
25190345 CCTAAGCTAC
25190355 AGAGCTTCAAATTAAGATCCATTAATTTTCCCTGAAACTAGATTCACATATCTTCTTACTATAA
1 AGAGCTTCAAATTAAGATCCATTAATTTTCCCTGAAACTAGATTCACATATCTTCTTACTATAA
25190419 AGAGCTTCAAATTAAGATCCATTAATTTTCCCTGAAACTAGATTCACATATCTTCTTACTATAA
1 AGAGCTTCAAATTAAGATCCATTAATTTTCCCTGAAACTAGATTCACATATCTTCTTACTATAA
25190483 A
1 A
25190484 ATTTTTAGAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (64 bp):
AGAGCTTCAAATTAAGATCCATTAATTTTCCCTGAAACTAGATTCACATATCTTCTTACTATAA
Found at i:25191102 original size:23 final size:23
Alignment explanation
Indices: 25191076--25191196 Score: 199
Period size: 23 Copynumber: 5.3 Consensus size: 23
25191066 ATAAGTGTCA
25191076 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
25191099 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
25191122 CACTGA-ATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
25191144 CACTAATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
25191167 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
25191190 CACTGAT
1 CACTGAT
25191197 CAATAACACT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
22 20 0.22
23 69 0.78
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:25191141 original size:45 final size:45
Alignment explanation
Indices: 25191076--25191196 Score: 215
Period size: 45 Copynumber: 2.6 Consensus size: 45
25191066 ATAAGTGTCA
25191076 CACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGA-ATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
*
25191122 CACTGAATGTAGCCGAAGCTACCACTAATATGTAGCCGTAGCTAC
1 CACTGAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
25191167 CACTGAAATGTAGCCGAAGCTACCACTGAT
1 CACTG-AATGTAGCCGAAGCTACCACTGAT
25191197 CAATAACACT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
45 43 0.60
46 29 0.40
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (45 bp):
CACTGAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
Found at i:25191440 original size:18 final size:17
Alignment explanation
Indices: 25191414--25191452 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
25191404 ATTTTCCTTC
25191414 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
25191431 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
25191449 CACA
1 CACA
25191453 AATTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:25193916 original size:20 final size:20
Alignment explanation
Indices: 25193893--25193948 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
25193883 ATCATGCTTT
25193893 AAATACTAAATTCTATCTAC
1 AAATACTAAATTCTATCTAC
*
25193913 AAATAC-AACATT-TATTGTAC
1 AAATACTAA-ATTCTA-TCTAC
25193933 -AATACTAAATATCTAT
1 AAATACTAAAT-TCTAT
25193949 GAAGATCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
19 11 0.37
20 17 0.57
21 2 0.07
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (20 bp):
AAATACTAAATTCTATCTAC
Found at i:25196398 original size:50 final size:50
Alignment explanation
Indices: 25196328--25196531 Score: 198
Period size: 50 Copynumber: 4.1 Consensus size: 50
25196318 ATGTAAAAGT
* *
25196328 GAAAGTGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC
1 GAAA-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC
* **
25196378 GAAATGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCATACC
1 GAAATGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC
* * * * * * * *
25196428 G-GATAGTTTCGATCACGTGTGTAGAACTATGTGCAGGCTACTAAGTGTATC
1 GAAAT-G-ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC
* * * *
25196479 -AGATGGTAGGGTCACATGTGTAGCACTATGTGCAGGCTACTATGTGAACC
1 GAAATGATA-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC
25196529 GAA
1 GAA
25196532 CATTATTGAT
Statistics
Matches: 123, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
49 7 0.06
50 78 0.63
51 38 0.31
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (50 bp):
GAAATGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC
Found at i:25196459 original size:101 final size:101
Alignment explanation
Indices: 25196339--25196522 Score: 289
Period size: 101 Copynumber: 1.8 Consensus size: 101
25196329 AAAGTGATGG
* * * *
25196339 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATGATA-GGTCGCATGTGTAGTA
1 TCACGTGTGTAGAACTATGTGCAGGCTACTAAGTGTACC-AAATGATAGGGTCACATGTGTAGCA
25196403 CTATGTGCAGGCTACTATGCATACCGGATAGTTTCGA
65 CTATGTGCAGGCTACTATGCATACCGGATAGTTTCGA
* * *
25196440 TCACGTGTGTAGAACTATGTGCAGGCTACTAAGTGTATCAGATGGTAGGGTCACATGTGTAGCAC
1 TCACGTGTGTAGAACTATGTGCAGGCTACTAAGTGTACCAAATGATAGGGTCACATGTGTAGCAC
25196505 TATGTGCAGGCTACTATG
66 TATGTGCAGGCTACTATG
25196523 TGAACCGAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
100 6 0.08
101 69 0.92
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGAACTATGTGCAGGCTACTAAGTGTACCAAATGATAGGGTCACATGTGTAGCAC
TATGTGCAGGCTACTATGCATACCGGATAGTTTCGA
Found at i:25196600 original size:45 final size:45
Alignment explanation
Indices: 25196526--25196620 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
25196516 TACTATGTGA
* * *
25196526 ACCGAACATTATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
25196571 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
25196616 ACCGA
1 ACCGA
25196621 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:25199104 original size:51 final size:51
Alignment explanation
Indices: 25199045--25199158 Score: 228
Period size: 51 Copynumber: 2.2 Consensus size: 51
25199035 CTTTCGTTCA
25199045 GTGATATGTGATGAATTGACGAAAAAGACCATGGTTAGACCATGGCAACAT
1 GTGATATGTGATGAATTGACGAAAAAGACCATGGTTAGACCATGGCAACAT
25199096 GTGATATGTGATGAATTGACGAAAAAGACCATGGTTAGACCATGGCAACAT
1 GTGATATGTGATGAATTGACGAAAAAGACCATGGTTAGACCATGGCAACAT
25199147 GTGATATGTGAT
1 GTGATATGTGAT
25199159 TTCCGTATAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.25
Consensus pattern (51 bp):
GTGATATGTGATGAATTGACGAAAAAGACCATGGTTAGACCATGGCAACAT
Found at i:25199446 original size:14 final size:14
Alignment explanation
Indices: 25199397--25199456 Score: 68
Period size: 14 Copynumber: 4.1 Consensus size: 14
25199387 TCGAGTAAGT
25199397 AAATTCATTGTGTA
1 AAATTCATTGTGTA
*
25199411 AAATT-ATGGGTGATAGA
1 AAATTCAT-TGTG-T--A
25199428 AAATTCATTGTGTA
1 AAATTCATTGTGTA
25199442 AAATTCATTGTGTA
1 AAATTCATTGTGTA
25199456 A
1 A
25199457 GTTAGAGGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 2 0.05
14 24 0.62
15 1 0.03
16 1 0.03
17 9 0.23
18 2 0.05
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (14 bp):
AAATTCATTGTGTA
Found at i:25200330 original size:26 final size:26
Alignment explanation
Indices: 25200293--25200351 Score: 109
Period size: 26 Copynumber: 2.2 Consensus size: 26
25200283 CCTCGTCATA
25200293 TGAATTTATAAATTTTCACTTACTTGT
1 TGAA-TTATAAATTTTCACTTACTTGT
25200320 TGAATTATAAATTTTCACTTACTTGT
1 TGAATTATAAATTTTCACTTACTTGT
25200346 TGAATT
1 TGAATT
25200352 CATCCTGAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (26 bp):
TGAATTATAAATTTTCACTTACTTGT
Found at i:25201573 original size:41 final size:40
Alignment explanation
Indices: 25201528--25201725 Score: 157
Period size: 41 Copynumber: 4.8 Consensus size: 40
25201518 GTTACTCGGT
* *
25201528 GGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACAG
1 GGAATCAGCACTTAGCAACC-CCTTACATTCAGTGATACGG
* * *
25201569 GGAATTAGCACATAGCAACCCCTTCCACAATCAAG-GATACGG
1 GGAATCAGCACTTAGCAACCCCTT--ACATTC-AGTGATACGG
* * * * * **
25201611 TGGAATCAGCACTTAGCAACCACTTTTAGAATCAATAATTTGG
1 -GGAATCAGCACTTAGCAACC-C-CTTACATTCAGTGATACGG
** *
25201654 GGAATCAGCACTTAGCAACCCCTT-TTTGATCAGTGATTCGG
1 GGAATCAGCACTTAGCAACCCCTTACAT--TCAGTGATACGG
*
25201695 GGAATCTGCACTTAGCAACCCCTTACATTCA
1 GGAATCAGCACTTAGCAACCCCTTACATTCA
25201726 ATGAATCCCG
Statistics
Matches: 124, Mismatches: 23, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
40 9 0.07
41 51 0.41
42 32 0.26
43 29 0.23
44 1 0.01
45 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (40 bp):
GGAATCAGCACTTAGCAACCCCTTACATTCAGTGATACGG
Found at i:25204902 original size:50 final size:51
Alignment explanation
Indices: 25204769--25204902 Score: 162
Period size: 51 Copynumber: 2.6 Consensus size: 51
25204759 TGAAAGTGAT
* * * *
25204769 GGTCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTTC
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGGTAC
* * * * *
25204820 GATCACGTGTGTAGTACTATGTGCAGGGTACTACGTGTATCAGAT-GGTAG
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGGTAC
* *
25204870 GGTCACATGTGTAGCACTATGTGCAGGCTACTA
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTA
25204903 TGTGAACCGA
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
50 31 0.44
51 39 0.56
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (51 bp):
GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGGTAC
Found at i:25205027 original size:23 final size:22
Alignment explanation
Indices: 25205001--25205044 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
25204991 AATTGACTAA
25205001 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
25205024 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
25205045 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:25214611 original size:101 final size:101
Alignment explanation
Indices: 25214506--25214726 Score: 235
Period size: 101 Copynumber: 2.2 Consensus size: 101
25214496 CTATTGTAGT
* * * * * *
25214506 TTTAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTTGTCATTGTGACTTTAATCCTTTTAG
1 TTTAATCTGCTCCACTGCACCGCCTGAGAAAGTAAGATTCGTCATGGTCACTTTAATCCTTTTAA
* *
25214571 CTGCAATGTCGAAAAAGTAAGATTCACTGTTATGGC
66 CTGCAATGTCGAAAAAGCAAGATTCACCGTTATGGC
* * * * * * *
25214607 TTTAATCTGCTCTACTGCACTGGCTGAGAGAGTGAGATTCGTCGTGGTCACTTTAATCTTTTTAA
1 TTTAATCTGCTCCACTGCACCGCCTGAGAAAGTAAGATTCGTCATGGTCACTTTAATCCTTTTAA
* ** * * *
25214672 CTGGAATGTCGGGAATGCAAGATTTACCGTTGTGGC
66 CTGCAATGTCGAAAAAGCAAGATTCACCGTTATGGC
* *
25214708 TTTAATCTACTTCACTGCA
1 TTTAATCTGCTCCACTGCA
25214727 TTGCCAGGGA
Statistics
Matches: 96, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
101 96 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.35
Consensus pattern (101 bp):
TTTAATCTGCTCCACTGCACCGCCTGAGAAAGTAAGATTCGTCATGGTCACTTTAATCCTTTTAA
CTGCAATGTCGAAAAAGCAAGATTCACCGTTATGGC
Found at i:25214711 original size:50 final size:49
Alignment explanation
Indices: 25214657--25214815 Score: 149
Period size: 50 Copynumber: 3.2 Consensus size: 49
25214647 GTCGTGGTCA
* *
25214657 CTTTAATCTTTTTAACTGGAATGTCGGGAATGCAAGATTTACCGTTGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGAA-GCAAGATTCACCGTTGTGG
** * * * * * * *
25214707 CTTTAATCTACTTCACTGCATTGCCAGGGAAGTAACACTCACAGTTGTGG
1 CTTTAATCTTTTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTGG
* *
25214757 CTTTAGTCTTTTTAACTGCAATGTTAGGG-AGACAAGATTCACCGTTGTGG
1 CTTTAATCTTTTTAACTGCAATG-TCGGGAAG-CAAGATTCACCGTTGTGG
*
25214807 TTTTAATCT
1 CTTTAATCT
25214816 ACTCTACTGC
Statistics
Matches: 82, Mismatches: 24, Indels: 6
0.73 0.21 0.05
Matches are distributed among these distances:
49 2 0.02
50 75 0.91
51 5 0.06
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (49 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGAAGCAAGATTCACCGTTGTGG
Found at i:25214982 original size:44 final size:44
Alignment explanation
Indices: 25214953--25215173 Score: 142
Period size: 44 Copynumber: 4.8 Consensus size: 44
25214943 CCTTTATTTT
* * *
25214953 AATCTGCTGCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * *
25214997 AATCTACTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * *
25215041 AATCTGATGAGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTT
1 AATC---T---A-CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTC
** *** *
25215095 AATCCGCTCCACTGTAATCTCAAACAGATAGGATTACTAGCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* *
25215139 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGATT
25215174 CACCATCTCC
Statistics
Matches: 135, Mismatches: 26, Indels: 32
0.70 0.13 0.17
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 92 0.68
45 2 0.01
46 1 0.01
47 3 0.02
50 1 0.01
51 2 0.01
52 1 0.01
53 2 0.01
54 26 0.19
55 1 0.01
56 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTACTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:25215063 original size:142 final size:142
Alignment explanation
Indices: 25214833--25215173 Score: 574
Period size: 142 Copynumber: 2.4 Consensus size: 142
25214823 TGCACCACTT
* * *
25214833 GGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGCAATCTCAAGGAGATAAGATTTCTAGCTT
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTAGCTT
* * * *
25214898 CAATCTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCTGCTGC
66 CAATCTGATGAGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
25214963 ACTGTAATCTCA
131 ACTGTAATCTCA
* *
25214975 GGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTT
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTAGCTT
25215040 CAATCTGATGAGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
66 CAATCTGATGAGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
25215105 ACTGTAATCTCA
131 ACTGTAATCTCA
***
25215117 AACAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
25215174 CACCATCTCC
Statistics
Matches: 186, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 186 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (142 bp):
GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTAGCTT
CAATCTGATGAGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
ACTGTAATCTCA
Found at i:25216574 original size:7 final size:7
Alignment explanation
Indices: 25216555--25216597 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
25216545 TTAGCCTCTC
25216555 CATTTTT
1 CATTTTT
25216562 -ACTTTTT
1 CA-TTTTT
25216569 CA-TTTT
1 CATTTTT
25216575 CATTTTT
1 CATTTTT
25216582 CATTTTT
1 CATTTTT
25216589 CATTTTT
1 CATTTTT
25216596 CA
1 CA
25216598 CCTTTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 7 0.21
7 25 0.76
8 1 0.03
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:25216578 original size:20 final size:20
Alignment explanation
Indices: 25216555--25216594 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
25216545 TTAGCCTCTC
25216555 CATTTTT-ACTTTTTCATTTT
1 CATTTTTCA-TTTTTCATTTT
25216575 CATTTTTCATTTTTCATTTT
1 CATTTTTCATTTTTCATTTT
25216595 TCACCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (20 bp):
CATTTTTCATTTTTCATTTT
Found at i:25217449 original size:22 final size:22
Alignment explanation
Indices: 25217425--25217468 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
25217415 CCTGGCCTCT
*
25217425 TTTTTTCTTTT-ATTTTTCTCA
1 TTTTTTATTTTGATTTTTCTCA
*
25217446 TTTTTTATTTTGATTTTTTTCA
1 TTTTTTATTTTGATTTTTCTCA
25217468 T
1 T
25217469 CTAGATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTTTATTTTGATTTTTCTCA
Found at i:25217566 original size:32 final size:30
Alignment explanation
Indices: 25217530--25217590 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25217520 GACCTTGATT
* *
25217530 TTGATTTTGATTTTTCTTCTTTGTTTTTTTTA
1 TTGATTTT--TTTTTATTCTTTGATTTTTTTA
*
25217562 TTGATTTTTTTTTATTTTTTGATTTTTTT
1 TTGATTTTTTTTTATTCTTTGATTTTTTT
25217591 GAGCTCATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 18 0.69
32 8 0.31
ACGTcount: A:0.10, C:0.03, G:0.08, T:0.79
Consensus pattern (30 bp):
TTGATTTTTTTTTATTCTTTGATTTTTTTA
Found at i:25217569 original size:13 final size:12
Alignment explanation
Indices: 25217524--25217574 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
25217514 CATTTTGACC
**
25217524 TTGATTTTGATT
1 TTGATTTTTTTT
25217536 TTGATTTTTCTTCT
1 TTGATTTTT-TT-T
25217550 TTG-TTTTTTTT
1 TTGATTTTTTTT
25217561 ATTGATTTTTTTT
1 -TTGATTTTTTTT
25217574 T
1 T
25217575 ATTTTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 1 0.03
12 14 0.42
13 14 0.42
14 4 0.12
ACGTcount: A:0.10, C:0.04, G:0.10, T:0.76
Consensus pattern (12 bp):
TTGATTTTTTTT
Found at i:25217583 original size:18 final size:17
Alignment explanation
Indices: 25217553--25217590 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
25217543 TTCTTCTTTG
25217553 TTTTTTTTATTGATTTT
1 TTTTTTTTATTGATTTT
*
25217570 TTTTTATTTTTTGATTTT
1 TTTTT-TTTATTGATTTT
25217588 TTT
1 TTT
25217591 GAGCTCATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (17 bp):
TTTTTTTTATTGATTTT
Found at i:25219580 original size:15 final size:14
Alignment explanation
Indices: 25219555--25219602 Score: 62
Period size: 15 Copynumber: 3.4 Consensus size: 14
25219545 AATGGATTTT
25219555 AATGCATGTAATGC
1 AATGCATGTAATGC
25219569 AATGCAATGTAATGC
1 AATGC-ATGTAATGC
*
25219584 AAATGCATGAAATG-
1 -AATGCATGTAATGC
25219598 AATGC
1 AATGC
25219603 CTAAAGAGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
13 5 0.16
14 5 0.16
15 16 0.52
16 5 0.16
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (14 bp):
AATGCATGTAATGC
Found at i:25225029 original size:40 final size:40
Alignment explanation
Indices: 25224985--25225249 Score: 340
Period size: 40 Copynumber: 6.7 Consensus size: 40
25224975 GCTCCTCGTT
*
25224985 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
25225025 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
25225065 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
25225105 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
25225145 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
25225184 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
25225225 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25225250 CATCATTCAA
Statistics
Matches: 201, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
38 2 0.01
39 31 0.15
40 155 0.77
41 13 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:25235940 original size:27 final size:27
Alignment explanation
Indices: 25235897--25236244 Score: 291
Period size: 27 Copynumber: 13.0 Consensus size: 27
25235887 CTATAATGGG
** *
25235897 ACCGAAATACCAACGAATGGTAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
25235924 ACCGAAATACCCTCGAAGGGTAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
* *
25235951 ACTGAAA-ACTCTCGAAGGGTAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
** *
25235977 ACTAAAATACCC-CGAAAGGTAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
*
25236003 ATCGAAATACCCTCGAAGGGTAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
* * *
25236030 ACCAAAATATCCCT-GAATGGTAAAATG
1 ACCGAAATA-CCCTCGAAGGGTAAAATT
* *
25236057 ATCAAAATACCC-CTGAAGGGTAAAATGT
1 ACCGAAATACCCTC-GAAGGGTAAAAT-T
** *
25236085 -CTAAAATACCCTCGAAGGGTAAAATG
1 ACCGAAATACCCTCGAAGGGTAAAATT
* *
25236111 ACTGAAATACCCT-TATAGGGTAAAATT
1 ACCGAAATACCCTCGA-AGGGTAAAATT
* * * *
25236138 ACCAAAATATCCCT-AAATGGTAAAATG
1 ACCGAAATA-CCCTCGAAGGGTAAAATT
* * *
25236165 ACCAAAATACCCCCAAAGGGTAAAATGT
1 ACCGAAATACCCTCGAAGGGTAAAAT-T
* * * *
25236193 -CTGAAATACCCCCGAAGGATAAAATG
1 ACCGAAATACCCTCGAAGGGTAAAATT
*
25236219 ACCGAAATACCC-CTATAGGGTAAAAT
1 ACCGAAATACCCTCGA-AGGGTAAAAT
25236245 GACTATTATA
Statistics
Matches: 266, Mismatches: 41, Indels: 28
0.79 0.12 0.08
Matches are distributed among these distances:
26 55 0.21
27 201 0.76
28 10 0.04
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (27 bp):
ACCGAAATACCCTCGAAGGGTAAAATT
Found at i:25236133 original size:108 final size:107
Alignment explanation
Indices: 25235915--25236244 Score: 400
Period size: 108 Copynumber: 3.1 Consensus size: 107
25235905 ACCAACGAAT
* * * * ** * *
25235915 GGTAAAATTACCGAAATA-CCCTCGAAGGGTAAAATTACTGAAA-ACTCTCGAAGGGTAAAAT-T
1 GGTAAAATTACCAAAATATCCCT-AAATGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGT
* * *
25235977 ACTAAAATACCCCGAAAGGTAAAATTA-TCGAAATACCCTCGA-AG
65 -CTAAAATACCCCGAAGGGTAAAATGACT-GAAATACCCT-TATAG
* * *
25236021 GGTAAAATTACCAAAATATCCCTGAATGGTAAAATGATCAAAATACCCCTGAAGGGTAAAATGTC
1 GGTAAAATTACCAAAATATCCCTAAATGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGTC
25236086 TAAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTTATAG
66 TAAAATACCC-CGAAGGGTAAAATGACTGAAATACCCTTATAG
*
25236129 GGTAAAATTACCAAAATATCCCTAAATGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGTC
1 GGTAAAATTACCAAAATATCCCTAAATGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGTC
* * * *
25236194 TGAAATACCCCCGAAGGATAAAATGACCGAAATACCCCTATAG
66 TAAAATA-CCCCGAAGGGTAAAATGACTGAAATACCCTTATAG
25236237 GGTAAAAT
1 GGTAAAAT
25236245 GACTATTATA
Statistics
Matches: 197, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
106 32 0.16
107 31 0.16
108 130 0.66
109 4 0.02
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (107 bp):
GGTAAAATTACCAAAATATCCCTAAATGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGTC
TAAAATACCCCGAAGGGTAAAATGACTGAAATACCCTTATAG
Found at i:25236385 original size:32 final size:32
Alignment explanation
Indices: 25236339--25236404 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
25236329 TACTGAGTAC
*
25236339 GACATACTACATACACGTATGGTTTATGACAT
1 GACATACTACATACACGTATGATTTATGACAT
*
25236371 GACATACTAGATACACGTATGATTTATGACAT
1 GACATACTACATACACGTATGATTTATGACAT
25236403 GA
1 GA
25236405 GATTCTGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (32 bp):
GACATACTACATACACGTATGATTTATGACAT
Found at i:25236505 original size:26 final size:26
Alignment explanation
Indices: 25236452--25236525 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
25236442 ATGCCACATA
* * *
25236452 TACTGTTACTGGTAGCTTTGTTGCAT
1 TACTGTTACTAGCAGCTTTGCTGCAT
* *
25236478 TACTGTTACTCGCAGCTTTGCTGTAT
1 TACTGTTACTAGCAGCTTTGCTGCAT
* * *
25236504 TATTATTACTAGCAGCGTTGCT
1 TACTGTTACTAGCAGCTTTGCT
25236526 ACGATATTAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (26 bp):
TACTGTTACTAGCAGCTTTGCTGCAT
Found at i:25236742 original size:33 final size:28
Alignment explanation
Indices: 25236634--25236724 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
25236624 ACTGCATTGT
* *
25236634 ACTGATTACTGTACTGGACTAAGGCCCAC
1 ACTG-TTACTGTAATGGGCTAAGGCCCAC
* * * * *
25236663 ATTATTACTATATTGAGCTAAGGCCCAC
1 ACTGTTACTGTAATGGGCTAAGGCCCAC
25236691 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTAATGGGCTAAGGCCCAC
25236719 ACTGTT
1 ACTGTT
25236725 CTGGTACTGG
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 49 0.96
29 2 0.04
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (28 bp):
ACTGTTACTGTAATGGGCTAAGGCCCAC
Found at i:25237541 original size:17 final size:16
Alignment explanation
Indices: 25237514--25237546 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
25237504 TAGTTAGAGT
25237514 AAACTGAAACTGTAGG
1 AAACTGAAACTGTAGG
25237530 AAACTGGAAACTGTAGG
1 AAACT-GAAACTGTAGG
25237547 GAGACTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.18
Consensus pattern (16 bp):
AAACTGAAACTGTAGG
Found at i:25243502 original size:27 final size:27
Alignment explanation
Indices: 25243472--25243649 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25243462 ATATTGAGTC
* * * *
25243472 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25243499 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25243526 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25243554 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25243581 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25243608 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25243635 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25243650 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25243611 original size:82 final size:81
Alignment explanation
Indices: 25243493--25243648 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25243483 TGCTATATAA
* *
25243493 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25243558 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25243575 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25243639 CACTTAGTGC
65 CACTTAGTGC
25243649 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25243684 original size:109 final size:109
Alignment explanation
Indices: 25243472--25243686 Score: 256
Period size: 109 Copynumber: 2.0 Consensus size: 109
25243462 ATATTGAGTC
* *
25243472 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAG
1 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
* * *
25243537 TGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
66 TGCTACATAGTCAAACCCGCACACTTAGCGCCGAATGGTCAATT
* * ** *
25243581 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
1 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTA
* * * *
25243645 GTGCTGTACA-ATTTAATCCCGCGCACTTAGCGCC-AATGGTCA
65 GTGC--TACATAGTCAAACCCGCACACTTAGCGCCGAATGGTCA
25243687 TAAATGGTTA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
108 2 0.02
109 65 0.73
110 18 0.20
111 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (109 bp):
CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
TGCTACATAGTCAAACCCGCACACTTAGCGCCGAATGGTCAATT
Found at i:25251675 original size:27 final size:27
Alignment explanation
Indices: 25251645--25251822 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25251635 ATATTGAGTC
* * * *
25251645 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25251672 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25251699 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25251727 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25251754 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25251781 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25251808 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25251823 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25251784 original size:82 final size:81
Alignment explanation
Indices: 25251666--25251821 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25251656 TGCTATATAA
* *
25251666 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25251731 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25251748 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25251812 CACTTAGTGC
65 CACTTAGTGC
25251822 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25254099 original size:35 final size:35
Alignment explanation
Indices: 25254060--25254128 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
25254050 CCTCATTTTA
*
25254060 CTTTCTTTTCTT-TTTCTTTT-TTCTTCTGGCCGAAC
1 CTTTCTTCTCTTCTTT-TTTTCTTCTT-TGGCCGAAC
25254095 CTTTCTTCTCTTCTTTTTTTCTTCTTTGGCCGAA
1 CTTTCTTCTCTTCTTTTTTTCTTCTTTGGCCGAA
25254129 TAATCTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 23 0.74
36 8 0.26
ACGTcount: A:0.06, C:0.26, G:0.09, T:0.59
Consensus pattern (35 bp):
CTTTCTTCTCTTCTTTTTTTCTTCTTTGGCCGAAC
Found at i:25254815 original size:27 final size:27
Alignment explanation
Indices: 25254781--25254999 Score: 219
Period size: 27 Copynumber: 8.1 Consensus size: 27
25254771 GCGTAATGGG
* **
25254781 ACCGAAATACGCTTGAAGGGTAAAATT
1 ACCGAAATACCCTCAAAGGGTAAAATT
* *
25254808 ATCAAAATACCCTCAAAGGGTAAAATT
1 ACCGAAATACCCTCAAAGGGTAAAATT
* *
25254835 ATCGAAATACCCTCAAAAGGTAAAATT
1 ACCGAAATACCCTCAAAGGGTAAAATT
* * * *
25254862 ACTGAAATACCCCCGAAGGGTAAAATG
1 ACCGAAATACCCTCAAAGGGTAAAATT
25254889 ACCGAAATACCCTCAAAGGGTAAAATT
1 ACCGAAATACCCTCAAAGGGTAAAATT
* * * **
25254916 ACCAAAATACCCTCGAATGGTAAAAGG
1 ACCGAAATACCCTCAAAGGGTAAAATT
*
25254943 ACCAAAATACCC-CAAAGGGTAAAATGT
1 ACCGAAATACCCTCAAAGGGTAAAAT-T
* * *
25254970 -CTGAAATACCC-CTATAGGGTAAAATG
1 ACCGAAATACCCTC-AAAGGGTAAAATT
25254996 ACCG
1 ACCG
25255000 TTATACCTCT
Statistics
Matches: 158, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
26 20 0.13
27 138 0.87
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.19
Consensus pattern (27 bp):
ACCGAAATACCCTCAAAGGGTAAAATT
Found at i:25254870 original size:54 final size:54
Alignment explanation
Indices: 25254780--25254999 Score: 241
Period size: 54 Copynumber: 4.1 Consensus size: 54
25254770 GGCGTAATGG
* **
25254780 GACCGAAATACGCTTGAAGGGTAAAATTA-TCAAAATACCCTCAAAGGGTAAAAT
1 GACCGAAATACCCTCAAAGGGTAAAATTACT-AAAATACCCTCAAAGGGTAAAAT
* * * * * *
25254834 TATCGAAATACCCTCAAAAGGTAAAATTACTGAAATACCCCCGAAGGGTAAAAT
1 GACCGAAATACCCTCAAAGGGTAAAATTACTAAAATACCCTCAAAGGGTAAAAT
* * * *
25254888 GACCGAAATACCCTCAAAGGGTAAAATTACCAAAATACCCTCGAATGGTAAAAG
1 GACCGAAATACCCTCAAAGGGTAAAATTACTAAAATACCCTCAAAGGGTAAAAT
* * *
25254942 GACCAAAATACCC-CAAAGGGTAAAATGT-CTGAAATACCC-CTATAGGGTAAAAT
1 GACCGAAATACCCTCAAAGGGTAAAAT-TACTAAAATACCCTC-AAAGGGTAAAAT
25254995 GACCG
1 GACCG
25255000 TTATACCTCT
Statistics
Matches: 138, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
52 1 0.01
53 34 0.25
54 102 0.74
55 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (54 bp):
GACCGAAATACCCTCAAAGGGTAAAATTACTAAAATACCCTCAAAGGGTAAAAT
Found at i:25255392 original size:28 final size:28
Alignment explanation
Indices: 25255344--25255431 Score: 131
Period size: 28 Copynumber: 3.1 Consensus size: 28
25255334 ACTGTATTGT
*
25255344 ACTGATTACTGTATTGAGCTAAGGCCCAC
1 ACTG-TTACTGTATTGGGCTAAGGCCCAC
* *
25255373 ATTGTTACTGTATTGGGCTAGGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
*
25255401 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
25255429 ACT
1 ACT
25255432 ATACTAATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 50 0.94
29 3 0.06
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:25258306 original size:28 final size:28
Alignment explanation
Indices: 25258266--25258320 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
25258256 GTAAGGGGAA
25258266 GACTCATTTTCTTGATGATGATGATTAT
1 GACTCATTTTCTTGATGATGATGATTAT
25258294 GACTCATTTTCTTGATGATGATGATTA
1 GACTCATTTTCTTGATGATGATGATTA
25258321 CGAGGAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.45
Consensus pattern (28 bp):
GACTCATTTTCTTGATGATGATGATTAT
Found at i:25259611 original size:15 final size:15
Alignment explanation
Indices: 25259556--25259612 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
25259546 TTTATACTAC
*
25259556 AAAATATTTATTAGT
1 AAAATATTTATTATT
* *
25259571 AATATATTTATAATTGT
1 AAAATATTTATTA-T-T
25259588 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
25259605 AAAATATT
1 AAAATATT
25259613 AATGTTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 18 0.55
16 1 0.03
17 2 0.06
18 2 0.06
19 10 0.30
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:25259676 original size:13 final size:14
Alignment explanation
Indices: 25259640--25259686 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
25259630 ATAATATGTG
*
25259640 AATAATATTATTTAA
1 AATATTATT-TTTAA
25259655 AATCATTATTTTTAA
1 AAT-ATTATTTTTAA
*
25259670 AAT-TTATTATTAA
1 AATATTATTTTTAA
25259683 AATA
1 AATA
25259687 AAATTGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 12 0.43
15 11 0.39
16 5 0.18
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
AATATTATTTTTAA
Found at i:25259678 original size:16 final size:16
Alignment explanation
Indices: 25259645--25259685 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 16
25259635 ATGTGAATAA
25259645 TATTATTTAAAATCAT
1 TATTATTTAAAATCAT
25259661 TATT-TTTAAAAT--T
1 TATTATTTAAAATCAT
25259674 TATTA-TTAAAAT
1 TATTATTTAAAAT
25259686 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 12 0.50
15 8 0.33
16 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTATTTAAAATCAT
Found at i:25276271 original size:71 final size:70
Alignment explanation
Indices: 25276138--25276292 Score: 184
Period size: 71 Copynumber: 2.2 Consensus size: 70
25276128 GGTTTATCCA
* * * * *
25276138 GTGCAAAACATTGTCAATTTATCTGACTATGAAGGGCAGACCTATTGTCGATTTATCCGACTAGC
1 GTGCAAAACATTGTCAATTTACCCGACCATGAAGGGCACACCTATTGTCGATTAATCCGACTAGC
25276203 GCTGG
66 GCTGG
* ** * * *
25276208 GTGCAAAACATTGTCAGTTTACCCGACCAGTGCTGGGCACATCTATTGTCGCTTAATCTGACTAG
1 GTGCAAAACATTGTCAATTTACCCGACCA-TGAAGGGCACACCTATTGTCGATTAATCCGACTAG
25276273 CGCTGG
65 CGCTGG
**
25276279 GCACAAAACATTGT
1 GTGCAAAACATTGT
25276293 TACGGTTTAT
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
70 25 0.35
71 46 0.65
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (70 bp):
GTGCAAAACATTGTCAATTTACCCGACCATGAAGGGCACACCTATTGTCGATTAATCCGACTAGC
GCTGG
Found at i:25278638 original size:46 final size:46
Alignment explanation
Indices: 25278588--25278763 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
25278578 TGATTGAGCA
25278588 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
25278634 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
25278679 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
25278727 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25278764 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:25278744 original size:93 final size:93
Alignment explanation
Indices: 25278585--25278756 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
25278575 GGATGATTGA
*
25278585 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
25278650 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
25278678 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
25278742 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
25278757 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:25284554 original size:17 final size:17
Alignment explanation
Indices: 25284534--25284576 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
25284524 CGAGATATGA
25284534 TTATATGCTAGCTGCAT
1 TTATATGCTAGCTGCAT
* * **
25284551 TTATAAGCAAGCTGGGT
1 TTATATGCTAGCTGCAT
25284568 TTATATGCT
1 TTATATGCT
25284577 TATTGAGTCA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (17 bp):
TTATATGCTAGCTGCAT
Found at i:25289948 original size:47 final size:47
Alignment explanation
Indices: 25289848--25289950 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 47
25289838 CGGTTGGACC
* * * *
25289848 ATGGCAACATGTGATATGTGATTTCTGTATAAGACCATATCCGGGAT
1 ATGGCATCATGTGATATGTGACTACTGTATAAGACCATAGCCGGGAT
* * *
25289895 ATGGCATCAGTGTGATATGTG-CTACTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCA-TGTGATATGTGACTACTGTATAAGACCATAGCCGGGAT
25289942 ATGGCATCA
1 ATGGCATCA
25289951 ATATGTAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 37 0.77
48 11 0.23
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (47 bp):
ATGGCATCATGTGATATGTGACTACTGTATAAGACCATAGCCGGGAT
Found at i:25292849 original size:51 final size:50
Alignment explanation
Indices: 25292720--25292902 Score: 154
Period size: 51 Copynumber: 3.6 Consensus size: 50
25292710 AAAGTGATGG
* * *
25292720 TCACGTGTGTAGTACGATGTGCAGGCTACTACGTGTACCGGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGATAGA
* * * * * *
25292770 TCGCATGTGTAGTACTATATGCAGGCTACTATGCGTACCGG-ATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAAT-G-ATAGA
* * * * * *
25292821 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATC-GTATGGTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGAT-A-GA
* * *
25292872 TCACATGTATAGTACTATGTGCAGACTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
25292903 TATGAACTGA
Statistics
Matches: 105, Mismatches: 23, Indels: 9
0.77 0.17 0.07
Matches are distributed among these distances:
49 3 0.03
50 38 0.36
51 64 0.61
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGATAGA
Found at i:25292964 original size:45 final size:45
Alignment explanation
Indices: 25292913--25292998 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
25292903 TATGAACTGA
* * *
25292913 ACATCATTGATTAGTAAGGTGTTTGCTATGTGCTGATTCCATTGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCATTGG
25292958 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
25292999 CCGAGTCTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCATTGG
Found at i:25302147 original size:65 final size:65
Alignment explanation
Indices: 25302068--25302198 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
25302058 ATTAACCACC
* *
25302068 ATAGGCTTGCTTGTCCATCTTACCTTAAACATAATACATAAAATTTCATAAATATAATCAAGGCT
1 ATAGGCTTGCTTGTCCATCTTACCCTAAACATAATACATAAAAATTCATAAATATAATCAAGGCT
*
25302133 ATAGGCTTGCTTGTCCATCTTACCCTAAACATAATACATAAAAATTCATAAATATAATCGAGGCT
1 ATAGGCTTGCTTGTCCATCTTACCCTAAACATAATACATAAAAATTCATAAATATAATCAAGGCT
25302198 A
1 A
25302199 AATAAAGGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (65 bp):
ATAGGCTTGCTTGTCCATCTTACCCTAAACATAATACATAAAAATTCATAAATATAATCAAGGCT
Found at i:25312113 original size:15 final size:14
Alignment explanation
Indices: 25312089--25312121 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
25312079 ACCATGCAAT
25312089 GTTTTTAATTTTTG
1 GTTTTTAATTTTTG
25312103 GTTTTTGAATTTTTG
1 GTTTTT-AATTTTTG
25312118 GTTT
1 GTTT
25312122 CAATCATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.12, C:0.00, G:0.18, T:0.70
Consensus pattern (14 bp):
GTTTTTAATTTTTG
Found at i:25320420 original size:26 final size:23
Alignment explanation
Indices: 25320391--25320453 Score: 56
Period size: 23 Copynumber: 2.6 Consensus size: 23
25320381 TTCTAACTTT
25320391 TAATTTATATTATATAATACTTATTA
1 TAATTTATATTATATAAT--TT-TTA
* *
25320417 TAATCTTTTAAT-TATAATTTTTA
1 TAAT-TTATATTATATAATTTTTA
25320440 TAATTTAATATTAT
1 TAATTT-ATATTAT
25320454 TTACTAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
22 2 0.07
23 10 0.33
24 3 0.10
26 10 0.33
27 5 0.17
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (23 bp):
TAATTTATATTATATAATTTTTA
Found at i:25323617 original size:47 final size:47
Alignment explanation
Indices: 25323551--25323944 Score: 736
Period size: 47 Copynumber: 8.4 Consensus size: 47
25323541 CAGCCAAGAC
* *
25323551 AGTGCATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
25323598 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
25323645 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
25323692 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
25323739 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGT-AA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
25323785 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
25323832 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
25323879 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
25323926 AGTGTATATATGTGATAAG
1 AGTGTATATGTGTGATAAG
25323945 TCCCGAAGGG
Statistics
Matches: 343, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
46 46 0.13
47 297 0.87
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:25323819 original size:24 final size:24
Alignment explanation
Indices: 25323746--25323820 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
25323736 GAAAGTGTAT
25323746 ATGTGTGATAAGGCCTAATGGCCG
1 ATGTGTGATAAGGCCTAATGGCCG
* * ***
25323770 A--TGTGATGAATG--TAAAGTGTAT
1 ATGTGTGAT-AAGGCCTAATG-GCCG
25323792 ATGTGTGATAAGGCCTAATGGCCG
1 ATGTGTGATAAGGCCTAATGGCCG
25323816 ATGTG
1 ATGTG
25323821 ATGAATGTGA
Statistics
Matches: 35, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
21 4 0.11
22 8 0.23
23 6 0.17
24 13 0.37
25 4 0.11
ACGTcount: A:0.28, C:0.11, G:0.32, T:0.29
Consensus pattern (24 bp):
ATGTGTGATAAGGCCTAATGGCCG
Found at i:25323877 original size:187 final size:188
Alignment explanation
Indices: 25323551--25323944 Score: 745
Period size: 187 Copynumber: 2.1 Consensus size: 188
25323541 CAGCCAAGAC
*
25323551 AGTGCATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
*
25323616 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
25323681 ATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
131 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
25323739 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGT-AAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
25323803 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
25323868 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
131 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
25323926 AGTGTATATATGTGATAAG
1 AGTGTATATATGTGATAAG
25323945 TCCCGAAGGG
Statistics
Matches: 201, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
187 159 0.79
188 42 0.21
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (188 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:25324119 original size:37 final size:37
Alignment explanation
Indices: 25324063--25324141 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
25324053 CCGAGCTCTA
* * *
25324063 AAGACTCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
25324100 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
25324137 AAGAC
1 AAGAC
25324142 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:25328481 original size:9 final size:9
Alignment explanation
Indices: 25328467--25328526 Score: 57
Period size: 9 Copynumber: 6.2 Consensus size: 9
25328457 ATATACTATC
25328467 ATATATGTA
1 ATATATGTA
25328476 ATATATGTA
1 ATATATGTA
*
25328485 ATTTATGTGTCA
1 A--TATATGT-A
* *
25328497 ATATACTATC
1 ATATA-TGTA
25328507 ATATATGTA
1 ATATATGTA
25328516 ATATATGTA
1 ATATATGTA
25328525 AT
1 AT
25328527 TTAAATTAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
9 23 0.56
10 8 0.20
11 8 0.20
12 2 0.05
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (9 bp):
ATATATGTA
Found at i:25328504 original size:40 final size:40
Alignment explanation
Indices: 25328449--25328529 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
25328439 TACAACTCTA
25328449 ATGTGTCAATATACTATCATATATGTAATATATGTAATTT
1 ATGTGTCAATATACTATCATATATGTAATATATGTAATTT
25328489 ATGTGTCAATATACTATCATATATGTAATATATGTAATTT
1 ATGTGTCAATATACTATCATATATGTAATATATGTAATTT
25328529 A
1 A
25328530 AATTAAGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.44
Consensus pattern (40 bp):
ATGTGTCAATATACTATCATATATGTAATATATGTAATTT
Found at i:25334497 original size:27 final size:27
Alignment explanation
Indices: 25334467--25334642 Score: 174
Period size: 27 Copynumber: 6.5 Consensus size: 27
25334457 ATTAAGTCCA
* *
25334467 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAATCAACTCG
*
25334494 CACACTTAGTGCCACATAATCAAACTCG
1 CACACTTAGTGCTACATAATC-AACTCG
* *
25334522 CACACTTAGTGCTACGTAGTCAACTCG
1 CACACTTAGTGCTACATAATCAACTCG
** ** *
25334549 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAATCAACTCG
* **
25334576 CACACTTAGTGC-ATCATATTCATTTCG
1 CACACTTAGTGCTA-CATAATCAACTCG
* * *
25334603 CACACTTAGTGCAACATAGTCAAATCG
1 CACACTTAGTGCTACATAATCAACTCG
*
25334630 CATACTTAGTGCT
1 CACACTTAGTGCT
25334643 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 101 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CACACTTAGTGCTACATAATCAACTCG
Found at i:25334604 original size:54 final size:54
Alignment explanation
Indices: 25334467--25334642 Score: 210
Period size: 54 Copynumber: 3.2 Consensus size: 54
25334457 ATTAAGTCCA
* * * *
25334467 CACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACTCG
1 CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAGTCAAA-TCG
* * * *
25334522 CACACTTAGTGCTACGTAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAGTCAAATCG
* ** *
25334576 CACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCG
1 CACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATAGTCAAATCG
*
25334630 CATACTTAGTGCT
1 CACACTTAGTGCT
25334643 GTACAATTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.01
54 58 0.57
55 43 0.42
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAGTCAAATCG
Found at i:25334631 original size:81 final size:82
Alignment explanation
Indices: 25334486--25334641 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 82
25334476 TGCTATATAA
* * *
25334486 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACGTAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
25334551 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
25334568 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
*
25334631 ATACTTAGTGC
65 ACACTTAGTGC
25334642 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 41 0.63
82 24 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:25342687 original size:27 final size:27
Alignment explanation
Indices: 25342655--25342830 Score: 194
Period size: 27 Copynumber: 6.6 Consensus size: 27
25342645 TATATTAGTC
* * * *
25342655 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25342682 CGCACACTTAGTGC-ACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
25342708 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
** * *
25342735 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25342762 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25342789 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25342816 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25342831 GTACAATTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.18
27 103 0.81
28 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25342819 original size:81 final size:80
Alignment explanation
Indices: 25342676--25342829 Score: 236
Period size: 81 Copynumber: 1.9 Consensus size: 80
25342666 TGCTATATAA
* * *
25342676 TCAACTCGCACACTTAGTGCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAACTCGCACA
1 TCAACTCGCACACTTAGTGCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACA
25342741 CTTAGTGCCGCATGG
66 CTTAGTGCCGCATGG
* * **
25342756 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
25342821 ACTTAGTGC
65 ACTTAGTGC
25342830 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
80 20 0.30
81 46 0.70
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACA
CTTAGTGCCGCATGG
Found at i:25347342 original size:51 final size:50
Alignment explanation
Indices: 25347287--25347420 Score: 173
Period size: 51 Copynumber: 2.6 Consensus size: 50
25347277 AAGTGACGGC
25347287 CACGTGTGTAGTACTATGTGCAGGATACTATGCGTATCGGATAGCT-TCGAT
1 CACGTGTGTAGTACTATGTGCAGGATACTATGCGTATCGGATAG-TAT-GAT
* * * *
25347338 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGT
1 CACGTGTGTAGTACTATGTGCAGGATACTATGCGTATCGGATAGT-ATGAT
*
25347389 CACATGTGTAGTACTATGTGCA-GACTACTATG
1 CACGTGTGTAGTACTATGTGCAGGA-TACTATG
25347421 TGAATAGGTA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
50 2 0.03
51 70 0.96
52 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGCAGGATACTATGCGTATCGGATAGTATGAT
Found at i:25347667 original size:16 final size:16
Alignment explanation
Indices: 25347646--25347677 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25347636 TGATTGAAAG
*
25347646 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
25347662 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
25347678 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:25349824 original size:39 final size:39
Alignment explanation
Indices: 25349620--25349842 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
25349610 TTGAATGCTG
* * * * * *
25349620 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
25349660 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
25349700 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
25349740 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
25349780 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
25349819 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25349843 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:25349862 original size:79 final size:80
Alignment explanation
Indices: 25349700--25349877 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
25349690 AGATACAAGT
* * * *
25349700 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
25349765 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
25349780 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
25349844 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
25349859 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
25349878 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:25357617 original size:29 final size:28
Alignment explanation
Indices: 25357581--25357658 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
25357571 TCATGAGATT
25357581 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
25357611 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
25357638 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
25357659 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:25357883 original size:174 final size:175
Alignment explanation
Indices: 25357611--25357939 Score: 554
Period size: 174 Copynumber: 1.9 Consensus size: 175
25357601 AAATTGTACA
* *
25357611 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
25357676 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
25357741 TTTTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * **
25357785 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACGTTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
25357850 TGTGC-AACCCAATATATATTTTCTATAAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
66 TGTGCGAACCCAATATATATTTTCTAT-AAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
25357914 ATTTTGGACAGCGGAAAAAGGTAAGT
130 ATTTTGGACAGCGGAAAAAGGTAAGT
25357940 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
173 21 0.15
174 112 0.78
175 11 0.08
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (175 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:25362322 original size:56 final size:51
Alignment explanation
Indices: 25362226--25362400 Score: 183
Period size: 50 Copynumber: 3.4 Consensus size: 51
25362216 ATTTGGGTAA
* * * * **
25362226 AGAGATCCCATGTAAGACCATGTCTAGGACATCTCATTGGCATTATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATCGCGTTGGCA--ACCGAG---ATG
*
25362282 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC-ACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATCGCGTTGGCAACCGAGATG
* *
25362332 AGAGGTCCCATGCAAGACCATGTCTGGGACATTGCGTTGGC-ACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATCGCGTTGGCAACCGAGATG
* * *
25362382 AAAGGTCTCATCTAAGACC
1 AGAGGTCCCATGTAAGACC
25362401 GCACCGAGAT
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
50 66 0.62
53 4 0.04
56 36 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATCGCGTTGGCAACCGAGATG
Found at i:25362337 original size:50 final size:50
Alignment explanation
Indices: 25362279--25362400 Score: 199
Period size: 50 Copynumber: 2.4 Consensus size: 50
25362269 TATTGAGATT
25362279 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* *
25362329 ATGAGAGGTCCCATGCAAGACCATGTCTGGGACATTGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * *
25362379 ATGAAAGGTCTCATCTAAGACC
1 ATGAGAGGTCCCATGTAAGACC
25362401 GCACCGAGAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Done.