Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 269 of 290
Found at i:86469586 original size:16 final size:16
Alignment explanation
Indices: 86469555--86469591 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
86469545 ATGTGAAGAA
86469555 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
86469571 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
86469587 TATTA
1 TATTA
86469592 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:86469705 original size:14 final size:14
Alignment explanation
Indices: 86469686--86469720 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
86469676 TGGAAGTCAT
86469686 AATTTGAAAAATAA
1 AATTTGAAAAATAA
* *
86469700 AATTTGAAAACTTA
1 AATTTGAAAAATAA
86469714 AATTTGA
1 AATTTGA
86469721 TTTGTTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (14 bp):
AATTTGAAAAATAA
Found at i:86484535 original size:44 final size:44
Alignment explanation
Indices: 86484437--86484521 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 44
86484427 TTTAGCCACC
*
86484437 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
1 AGTCTTATCTCCCTGAAGTTGCA-TGGAGCAGACTGAAAATAGCA
*
86484482 AGTCTTATCTTCCTGAAGTTGC-TGGAAGCAGACTGAAAAT
1 AGTCTTATCTCCCTGAAGTTGCATGG-AGCAGACTGAAAAT
86484522 TACAGATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 3 0.08
44 13 0.35
45 21 0.57
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCATGGAGCAGACTGAAAATAGCA
Found at i:86484552 original size:178 final size:177
Alignment explanation
Indices: 86484161--86484694 Score: 734
Period size: 178 Copynumber: 3.0 Consensus size: 177
86484151 GTAACATCGG
*
86484161 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCGGATCGAAGATGGCGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATC
* * * *
86484226 TCCATGTATCAGCTATGGAGCAGATTTTAGCCACTAACCTTATCTCTCTG-AGTTTGCAG-AGAG
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTGAAG-TTGCAGTGGAG
* * * * * *
86484289 CAGGTTGAAGATATAGGTCTTATTTTCCTGAAGTTGCAGAAAGCAGAC
130 CAGGCTGAAGATACAAGTCTTATCTTCCTGAAGTTGCTGGAAGCAGAC
* * * * *
86484337 TGAAAGTTACAGATCTTATCTCCATGTATCAGCTATGGAGTAGATCGAAAATGGTGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATC
* *
86484402 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTGAAGTTGCAGTGGAGC
*
86484467 AGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCTGGAAGCAGAC
131 AGGCTGAAGATA-CAAGTCTTATCTTCCTGAAGTTGCTGGAAGCAGAC
* *
86484515 TGAAAATTACAGATTTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAATCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATC
* *
86484580 TCCATGTATCGG-TAATGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAAGTTGCAATGGAG
66 TCCATGTATCGGCT-ATGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * *
86484644 CAGGCTCAAAATTACAAATTTTATCTTCCCGAAGTTGCAAT-GAAGCAGAC
130 CAGGCTGAAGA-TACAAGTCTTATCTTCCTGAAGTTGC--TGGAAGCAGAC
86484694 T
1 T
86484695 AAGGATATGG
Statistics
Matches: 315, Mismatches: 36, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
176 110 0.35
177 17 0.05
178 175 0.56
179 12 0.04
180 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (177 bp):
TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATC
TCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTGAAGTTGCAGTGGAGC
AGGCTGAAGATACAAGTCTTATCTTCCTGAAGTTGCTGGAAGCAGAC
Found at i:86484642 original size:89 final size:87
Alignment explanation
Indices: 86484371--86484646 Score: 213
Period size: 89 Copynumber: 3.1 Consensus size: 87
86484361 TGTATCAGCT
* * * * *
86484371 ATGGAGTAGATCGAAAATGGTGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCAC
1 ATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGG-TATGGAGCAGATTTAAGCCA-
86484436 CAGTCTTATCTCCCTGAAGTTGCA
64 CAGTCTTATCTCCCTGAAGTTGCA
* * * * * **
86484460 GTGGAGCAGA-CTGAAGATAGC-AAGTCTTATCTTCC-TG-A-AGTTGCTGGAAGCAGACTGAAA
1 ATGGAGCAGATC-GAAGATGGCGAA-TCTTATC-TCCATGTATCGGT-ATGG-AGCAGA-TTTAA
*** * * * * *
86484520 ATTACAGATTTTATCTCCATGTA-TCGGCT
60 GCCACAG-TCTTATCTCCCTGAAGT-TGCA
86484549 ATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGTAATGGAGCAGATTTAAGCCAC
1 ATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGT-ATGGAGCAGATTTAAGCCAC
*
86484614 TAGCCTTATCTCCCTGAAGTTGCA
65 -AGTCTTATCTCCCTGAAGTTGCA
86484638 ATGGAGCAG
1 ATGGAGCAG
86484647 GCTCAAAATT
Statistics
Matches: 135, Mismatches: 37, Indels: 30
0.67 0.18 0.15
Matches are distributed among these distances:
86 1 0.01
87 4 0.03
88 16 0.12
89 93 0.69
90 16 0.12
91 5 0.04
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (87 bp):
ATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGTATGGAGCAGATTTAAGCCACA
GTCTTATCTCCCTGAAGTTGCA
Found at i:86493695 original size:19 final size:20
Alignment explanation
Indices: 86493667--86493705 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
86493657 TCCCATTATT
86493667 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
86493686 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
86493706 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:86493723 original size:25 final size:23
Alignment explanation
Indices: 86493686--86493731 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
86493676 TTTGTTTTAA
*
86493686 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
86493709 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
86493732 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:86497624 original size:40 final size:40
Alignment explanation
Indices: 86497568--86497654 Score: 129
Period size: 40 Copynumber: 2.1 Consensus size: 40
86497558 TAAACTTTAA
*
86497568 TTTATTTAAACTCATCTTAGTTAATAATTGAGTTGCTGGAC
1 TTTA-TTAAACTCATCTTAGTTAATAATTGAGTTGCTAGAC
* * *
86497609 TTTATTAAACTCATCTTAGTTAATTATTGATTTGTTAGAC
1 TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTAGAC
86497649 TTTATT
1 TTTATT
86497655 TTTATTAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 38 0.90
41 4 0.10
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.49
Consensus pattern (40 bp):
TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTAGAC
Found at i:86506286 original size:16 final size:16
Alignment explanation
Indices: 86506265--86506332 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
86506255 TTTGGTTCGC
*
86506265 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
86506281 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
86506297 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
86506313 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
86506329 TGTA
1 TGTA
86506333 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:86506369 original size:45 final size:44
Alignment explanation
Indices: 86506313--86506403 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
86506303 GGATTAGAGG
* *
86506313 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
86506358 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
86506402 TG
1 TG
86506404 GAATAGAGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:86506589 original size:18 final size:17
Alignment explanation
Indices: 86506568--86506602 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
86506558 TTATTATTAA
*
86506568 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
86506586 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
86506603 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:86506656 original size:157 final size:157
Alignment explanation
Indices: 86506455--86506768 Score: 574
Period size: 157 Copynumber: 2.0 Consensus size: 157
86506445 TAGAATACCC
*
86506455 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
86506520 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
86506585 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
86506612 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAATTTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
86506677 ATATCAATAATAAATAATTTAATCATATTTAAATATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
86506742 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
86506769 CTAATATTCT
Statistics
Matches: 151, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 151 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:86506724 original size:16 final size:16
Alignment explanation
Indices: 86506705--86506745 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
86506695 TTAATCATAT
*
86506705 TTAAATATAATTATTA
1 TTAAATATAATTATAA
86506721 TTAAATAT-ATTATAA
1 TTAAATATAATTATAA
86506736 TTAAAATATA
1 TT-AAATATA
86506746 TAATTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAATATAATTATAA
Found at i:86506753 original size:14 final size:15
Alignment explanation
Indices: 86506705--86506755 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
86506695 TTAATCATAT
*
86506705 TTAAATATAATTATTA
1 TTAAATAT-ATTATAA
86506721 TTAAATATATTATAA
1 TTAAATATATTATAA
86506736 TTAAA-ATA-TATAA
1 TTAAATATATTATAA
*
86506749 TTTAATA
1 TTAAATA
86506756 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 9 0.28
14 4 0.12
15 11 0.34
16 8 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAATATATTATAA
Found at i:86512734 original size:68 final size:68
Alignment explanation
Indices: 86512644--86512907 Score: 402
Period size: 68 Copynumber: 3.9 Consensus size: 68
86512634 CTAACAGATC
*
86512644 TCCTAAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCT
1 TCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCT
86512709 TCT
66 TCT
** **
86512712 TTTTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAATGGATCTCT
1 TCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCT
86512777 TCT
66 TCT
* *
86512780 TCCTGAAGTGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTCT
1 TCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCT
*
86512845 TAT
66 TCT
* * * * * *
86512848 CCCTAAAATGGCGTTGGAACGGCTAAAAGTCACAGCATATTTCCTTGAAGTTTCAGCGGA
1 TCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGA
86512908 AGAAGATCAA
Statistics
Matches: 178, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 178 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (68 bp):
TCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCT
TCT
Found at i:86513115 original size:23 final size:23
Alignment explanation
Indices: 86513087--86513132 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
86513077 AAGTTGCAGT
86513087 AAAGCAGATCAAAACAGATCTTA
1 AAAGCAGATCAAAACAGATCTTA
86513110 AAAGCAGATCAAAACAGATCTTA
1 AAAGCAGATCAAAACAGATCTTA
86513133 TCTCTCTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.13, T:0.17
Consensus pattern (23 bp):
AAAGCAGATCAAAACAGATCTTA
Found at i:86513119 original size:13 final size:10
Alignment explanation
Indices: 86513091--86513129 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 10
86513081 TGCAGTAAAG
86513091 CAGATCAAAA
1 CAGATCAAAA
86513101 CAGATCTTAAAA
1 CAGATC--AAAA
86513113 GCAGATCAAAA
1 -CAGATCAAAA
86513124 CAGATC
1 CAGATC
86513130 TTATCTCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 12 0.46
11 4 0.15
12 4 0.15
13 6 0.23
ACGTcount: A:0.51, C:0.21, G:0.13, T:0.15
Consensus pattern (10 bp):
CAGATCAAAA
Found at i:86513233 original size:45 final size:45
Alignment explanation
Indices: 86513176--86513298 Score: 156
Period size: 45 Copynumber: 2.7 Consensus size: 45
86513166 TACAAGTCTT
* *
86513176 ATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAACAAACCTC
1 ATCTCCCTGAAGTTACAGTGGAACAGAATGAAGATAACAAACCTC
* * ** * *
86513221 ATCTCCCTGAAGTTGCAGTGGAACAAAATGAAGATAGGAAATCTT
1 ATCTCCCTGAAGTTACAGTGGAACAGAATGAAGATAACAAACCTC
* *
86513266 ATTTCCCTGAAGTTACAGTGGAACAGATTGAAG
1 ATCTCCCTGAAGTTACAGTGGAACAGAATGAAG
86513299 CTAAATTATA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (45 bp):
ATCTCCCTGAAGTTACAGTGGAACAGAATGAAGATAACAAACCTC
Found at i:86513623 original size:22 final size:22
Alignment explanation
Indices: 86513595--86513636 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
86513585 AAAAATCAGA
86513595 AATTTCAAACCCTAGGTGCAGC
1 AATTTCAAACCCTAGGTGCAGC
86513617 AATTTCAAACCCTAGGTGCA
1 AATTTCAAACCCTAGGTGCA
86513637 CTGCACCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (22 bp):
AATTTCAAACCCTAGGTGCAGC
Found at i:86514953 original size:3 final size:3
Alignment explanation
Indices: 86514945--86515041 Score: 54
Period size: 3 Copynumber: 33.0 Consensus size: 3
86514935 CTTTTATTAC
* * ** * * * *
86514945 ATT ATT ATT ATT ATT ATT ACT ATT TTT ATT GCT AGT ATC ATG GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
86514993 -TT ATT ATC ATT ATT ATT TTT GTA ATT ATT ATT ACT ATT A-T ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
86515039 ATT
1 ATT
86515042 TAACATACTA
Statistics
Matches: 67, Mismatches: 25, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
2 4 0.06
3 63 0.94
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:86515229 original size:28 final size:28
Alignment explanation
Indices: 86515184--86515279 Score: 106
Period size: 28 Copynumber: 3.4 Consensus size: 28
86515174 CTATCCATCA
*
86515184 TACTTTTGTTTATATTTTTATAATTTAC
1 TACTTTTATTTATATTTTTATAATTTAC
**
86515212 TACTTTTATTCTAT-TTTTTATACATCCA-
1 TACTTTTATT-TATATTTTTATA-ATTTAC
*
86515240 TACTTTTGTTTATATTTTTATAATTAATAC
1 TACTTTTATTTATATTTTTATAATT--TAC
86515270 TACTTTTATT
1 TACTTTTATT
86515280 CATTTTACTT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
27 5 0.09
28 34 0.62
29 7 0.13
30 9 0.16
ACGTcount: A:0.26, C:0.10, G:0.02, T:0.61
Consensus pattern (28 bp):
TACTTTTATTTATATTTTTATAATTTAC
Found at i:86515300 original size:56 final size:54
Alignment explanation
Indices: 86515179--86515285 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 54
86515169 TTCCTCTATC
86515179 CATCATACTTTTGTTTATATTTTTATAATTTACTACTTTTATTCTATTTTTTATA
1 CATC-TACTTTTGTTTATATTTTTATAATTTACTACTTTTATTCTATTTTTTATA
86515234 CATCCATACTTTTGTTTATATTTTTATAATTAATACTACTTTTATTC-ATTTT
1 CAT-C-TACTTTTGTTTATATTTTTATAATT--TACTACTTTTATTCTATTTT
86515286 ACTTAACTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
55 3 0.06
56 27 0.55
57 5 0.10
58 14 0.29
ACGTcount: A:0.26, C:0.12, G:0.02, T:0.60
Consensus pattern (54 bp):
CATCTACTTTTGTTTATATTTTTATAATTTACTACTTTTATTCTATTTTTTATA
Found at i:86515340 original size:3 final size:3
Alignment explanation
Indices: 86515332--86515733 Score: 81
Period size: 3 Copynumber: 135.0 Consensus size: 3
86515322 TTTACTTAAC
* *
86515332 TAT TAT TA- TAT TAA TAT TAT TACT TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * *
86515377 TGT TAGT TA- TAT TAC TAT TAT TGT TA- TATT TAT TCT TAC TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * *** * * * * * *
86515422 TAC TAT TAC CGC TAC TAT GAT TTT TAT TAA CA- TAT TAT TGT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
86515468 T-T TAC CA- TAT TTT TAT T-T CCTAT CTTT TAT ATAT TAT TAT TGA-
1 TAT TAT TAT TAT TAT TAT TAT --TAT -TAT TAT -TAT TAT TAT T-AT
* * * * *
86515511 TAT TAA CAT ATAT TAT TAT TAA T-T TAC TAT TAGT T-T CACT T-T TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT TAT
* *
86515556 TAT TAT TAT TAC TA- TAT TAT TAT TGT TAT TAT TAT T-T TCCAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T--AT TAT
* * * * * * *
86515601 TAA TACT GA- TAT TAAT T-T TCT TCT TAT TAT TAG TAT CA- TAGG TAT
1 TAT TA-T TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * * *
86515646 TA- TAT TAC TAT TAT TAT TGT TAT TAT TAT TAT CGTCT T-T CA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT
* * * * * *
86515690 TAT TCT T-T TAT CAC TAT TTT TAT TAT CAA TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
86515734 CGTTTTCATT
Statistics
Matches: 282, Mismatches: 79, Indels: 76
0.65 0.18 0.17
Matches are distributed among these distances:
2 32 0.11
3 218 0.77
4 27 0.10
5 5 0.02
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:86519839 original size:12 final size:12
Alignment explanation
Indices: 86519822--86519846 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
86519812 ATTTTTCAAA
86519822 TATTTGATTTAT
1 TATTTGATTTAT
86519834 TATTTGATTTAT
1 TATTTGATTTAT
86519846 T
1 T
86519847 TATCTTAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TATTTGATTTAT
Found at i:86520023 original size:84 final size:85
Alignment explanation
Indices: 86519882--86520053 Score: 319
Period size: 84 Copynumber: 2.0 Consensus size: 85
86519872 AATCCGTGAC
*
86519882 TTGAACAAATTTTATGATCTGCTTCTGCATTCATCCGCACTCATCTTTATCAATATCCCTACCTC
1 TTGAACAAATTTTATGATCTGCTTCTGCATTCATCCACACTCATCTTTATCAATATCCCTACCTC
86519947 AAACTC-GTTAGACTCTTCA
66 AAACTCGGTTAGACTCTTCA
86519966 TTGAACAAATTTTATGATCTGCTTCTGCATTCATCCACACTCATCTTTATCAATATCCCTACCTC
1 TTGAACAAATTTTATGATCTGCTTCTGCATTCATCCACACTCATCTTTATCAATATCCCTACCTC
*
86520031 AAACTCGGTTGGACTCTTCA
66 AAACTCGGTTAGACTCTTCA
86520051 TTG
1 TTG
86520054 GACCACCTAG
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
84 70 0.82
85 15 0.18
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.37
Consensus pattern (85 bp):
TTGAACAAATTTTATGATCTGCTTCTGCATTCATCCACACTCATCTTTATCAATATCCCTACCTC
AAACTCGGTTAGACTCTTCA
Found at i:86520911 original size:25 final size:25
Alignment explanation
Indices: 86520864--86520912 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
86520854 CTTTTCCACA
*
86520864 TATTATATTTCTTCACCTCCATTTT
1 TATTATATTTCTTCAACTCCATTTT
* * *
86520889 TATTATTTTTCTTGAACTGCATTT
1 TATTATATTTCTTCAACTCCATTT
86520913 ACTCCAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.20, C:0.18, G:0.04, T:0.57
Consensus pattern (25 bp):
TATTATATTTCTTCAACTCCATTTT
Found at i:86521486 original size:15 final size:15
Alignment explanation
Indices: 86521466--86521495 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
86521456 AATTTTAATT
*
86521466 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
86521481 TTTTTATAATTTATA
1 TTTTTATAATTTATA
86521496 AAATATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:86521975 original size:14 final size:15
Alignment explanation
Indices: 86521956--86521984 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
86521946 TAATATTGAA
86521956 AATTTAAA-AATATT
1 AATTTAAATAATATT
86521970 AATTTAAATAATATT
1 AATTTAAATAATATT
86521985 TAAATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTAAATAATATT
Found at i:86522326 original size:13 final size:13
Alignment explanation
Indices: 86522283--86522329 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
86522273 AAAAAAATTA
*
86522283 AAATATAATTATT
1 AAATTTAATTATT
86522296 AAA-TTAATTTATT
1 AAATTTAA-TTATT
* *
86522309 GAATTTAATTAAT
1 AAATTTAATTATT
86522322 AAATTTAA
1 AAATTTAA
86522330 AATTTATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 3 0.11
13 21 0.75
14 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (13 bp):
AAATTTAATTATT
Found at i:86527154 original size:165 final size:165
Alignment explanation
Indices: 86526876--86527203 Score: 523
Period size: 165 Copynumber: 2.0 Consensus size: 165
86526866 TTTTAACCAA
* * * * *
86526876 TTTTATATTTAAAACCATGTTTCATGCATATTTAAGCATAATCATAAGTTTGTTTAGTTTCAAAC
1 TTTTATATTTAAAACCAGGTTTCATGCATATTTAAGCATAACCATAAATTTGTTCAATTTCAAAC
*
86526941 GTTTTTGCATGTAATGCAAACTAAAATCAACCAAAAATAACCCATGCCACAACCCAAATAAATTA
66 GTTTTTGCATGTAATGCAAACTAAAACCAACCAAAAATAACCCATGCCACAACCCAAATAAATTA
* *
86527006 TTACAATCCCCAAATAGAAATTGTTAAATTAAATT
131 TTACAACCCCCAAATAGAAATTGATAAATTAAATT
86527041 TTTTATATTTAAAACCAGGTTTCATGCATATTTAAGCATAACCATAAATTTGTTCAATTTCAAAC
1 TTTTATATTTAAAACCAGGTTTCATGCATATTTAAGCATAACCATAAATTTGTTCAATTTCAAAC
* * *
86527106 GTTTTTGCATGTAATGTAAACTAAAACCAA-CAGAAAATAACTCATGCCACAATCCAAATAAATT
66 GTTTTTGCATGTAATGCAAACTAAAACCAACCA-AAAATAACCCATGCCACAACCCAAATAAATT
* *
86527170 ATTACAGCCCCCAAATAGGAATTGATAAATTAAA
130 ATTACAACCCCCAAATAGAAATTGATAAATTAAA
86527204 GTAAAAATAC
Statistics
Matches: 149, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
164 2 0.01
165 147 0.99
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.33
Consensus pattern (165 bp):
TTTTATATTTAAAACCAGGTTTCATGCATATTTAAGCATAACCATAAATTTGTTCAATTTCAAAC
GTTTTTGCATGTAATGCAAACTAAAACCAACCAAAAATAACCCATGCCACAACCCAAATAAATTA
TTACAACCCCCAAATAGAAATTGATAAATTAAATT
Found at i:86530168 original size:27 final size:26
Alignment explanation
Indices: 86530121--86530278 Score: 183
Period size: 27 Copynumber: 5.9 Consensus size: 26
86530111 CGAGGCTGCT
* *
86530121 AGATATTGTGAC-GAAGTCACCAGAAAC
1 AGATATTGTGGCAG-AGCCACCAG-AAC
86530148 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
86530174 AGATATATGTGGCAGAGCCACCAGATC
1 AGATAT-TGTGGCAGAGCCACCAGAAC
* * *
86530201 AGATAATTGTGGCATAGCCACCAGGAT
1 AGAT-ATTGTGGCAGAGCCACCAGAAC
*
86530228 AGATATATGTGGCAGAGCCACCAGATC
1 AGATAT-TGTGGCAGAGCCACCAGAAC
*
86530255 AGATAATTGTGGCATAGCCACCAG
1 AGAT-ATTGTGGCAGAGCCACCAG
86530279 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
26 11 0.10
27 98 0.86
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:86530279 original size:54 final size:54
Alignment explanation
Indices: 86530138--86530281 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
86530128 GTGACGAAGT
* * *
86530138 CACCAGAAACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAG-ATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
86530192 CACCAGATCAGATAATTGTGGCATAGCCACCAGGATAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
86530246 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
86530282 GCTTCCTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 6 0.07
54 78 0.93
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:86530684 original size:8 final size:8
Alignment explanation
Indices: 86530668--86530697 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
86530658 CTCAAAATAC
86530668 CGGCTTTT
1 CGGCTTTT
*
86530676 CGGCATTT
1 CGGCTTTT
86530684 CGGCTTTT
1 CGGCTTTT
86530692 CGGCTT
1 CGGCTT
86530698 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:86533461 original size:3 final size:3
Alignment explanation
Indices: 86533455--86533630 Score: 103
Period size: 3 Copynumber: 58.0 Consensus size: 3
86533445 ACATTTCTAA
* * *
86533455 TAT TAT TAA TAT TAT TAT T-T ATAT TAT TGT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
86533500 TAA TAT TCT TGT TAT TAA CAT TGT TTT TAT TCCT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* *
86533545 T-T TCAT TAA TA- TAG TAT TAT TAT TAT TAT TAT TAT TAT T-T TAAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
* *
86533589 GTAT TAT TAT TAC TAGT TAT TATT TAT T-T CTAG TAT TAT TAT
1 -TAT TAT TAT TAT TA-T TAT TA-T TAT TAT -TAT TAT TAT TAT
86533631 ATATAATATT
Statistics
Matches: 134, Mismatches: 25, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
2 10 0.07
3 110 0.82
4 13 0.10
5 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:86533466 original size:9 final size:9
Alignment explanation
Indices: 86533437--86533506 Score: 61
Period size: 9 Copynumber: 7.4 Consensus size: 9
86533427 TATTAAATAT
86533437 TATTATTAA
1 TATTATTAA
*
86533446 CATT-TCTAA
1 TATTAT-TAA
86533455 TATTATTAA
1 TATTATTAA
86533464 TATTATTATTTA
1 TATTATTA---A
**
86533476 TATTATTGT
1 TATTATTAA
*
86533485 TATTATTAC
1 TATTATTAA
86533494 TATTATTAA
1 TATTATTAA
86533503 TATT
1 TATT
86533507 CTTGTTATTA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 1 0.02
9 39 0.80
10 1 0.02
12 8 0.16
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (9 bp):
TATTATTAA
Found at i:86533609 original size:16 final size:16
Alignment explanation
Indices: 86533559--86533630 Score: 69
Period size: 16 Copynumber: 4.6 Consensus size: 16
86533549 ATTAATATAG
*
86533559 TATTATTATTATTA-T
1 TATTATTATTACTAGT
* *
86533574 TATTATTATT-TTAAT
1 TATTATTATTACTAGT
86533589 GTATTATTATTACTAGT
1 -TATTATTATTACTAGT
*
86533606 TATTATTTATTTCTAG-
1 TATTA-TTATTACTAGT
86533622 TATTATTAT
1 TATTATTAT
86533631 ATATAATATT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
14 3 0.06
15 15 0.30
16 20 0.40
17 12 0.24
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (16 bp):
TATTATTATTACTAGT
Found at i:86533609 original size:38 final size:38
Alignment explanation
Indices: 86533535--86533612 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
86533525 TTTATTCCTT
* *
86533535 TTATTATTATTTTCATTAATATAGTATTATTATTATTA
1 TTATTATTATTTTAATTAATATAGTATTACTATTATTA
*
86533573 TTATTATTATTTTAATGT-AT-TATTATTACTAGTTATTA
1 TTATTATTATTTTAAT-TAATATAGTATTACTA-TTATTA
86533611 TT
1 TT
86533613 TATTTCTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 9 0.26
38 25 0.71
39 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.62
Consensus pattern (38 bp):
TTATTATTATTTTAATTAATATAGTATTACTATTATTA
Found at i:86533820 original size:29 final size:28
Alignment explanation
Indices: 86533733--86533820 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 28
86533723 TTATATTTGC
* * * *
86533733 TTTTTGTTATTAATATTATTACTATAT-
1 TTTTTATTATTATTATTAATAGTATATA
* *
86533760 TTATTATTATTATTATTAATAGTGTATA
1 TTTTTATTATTATTATTAATAGTATATA
86533788 -TTTT-TTATTATATATGT-ATATGTATATA
1 TTTTTATTATTAT-TAT-TAATA-GTATATA
86533816 TTTTT
1 TTTTT
86533821 GTACATAGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
26 7 0.15
27 30 0.62
28 7 0.15
29 4 0.08
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (28 bp):
TTTTTATTATTATTATTAATAGTATATA
Found at i:86534081 original size:17 final size:15
Alignment explanation
Indices: 86534049--86534079 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
86534039 TATATCATGT
86534049 TTTTTTAATACTATA
1 TTTTTTAATACTATA
*
86534064 TTTTTTAATACCATA
1 TTTTTTAATACTATA
86534079 T
1 T
86534080 ATATTGTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTTTAATACTATA
Found at i:86534118 original size:25 final size:27
Alignment explanation
Indices: 86534060--86534118 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
86534050 TTTTTAATAC
*
86534060 TATAT-TTTTTAATACCATATATATTG
1 TATATATTCTTAATACCATATATATTG
*
86534086 TGTATATTCTTAATA-C-TATATATTG
1 TATATATTCTTAATACCATATATATTG
*
86534111 TATGTATT
1 TATATATT
86534119 TTTTATTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 15 0.54
26 5 0.18
27 8 0.29
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (27 bp):
TATATATTCTTAATACCATATATATTG
Found at i:86534426 original size:25 final size:25
Alignment explanation
Indices: 86534356--86534426 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
86534346 CTTATGAATA
86534356 TATATTATTTTTAATAACTATATTATG
1 TATA-TATTTTTAAT-ACTATATTATG
* * **
86534383 CATGTATTTTTAACGCTATATTATG
1 TATATATTTTTAATACTATATTATG
86534408 TATATATTTTTAATACTAT
1 TATATATTTTTAATACTAT
86534427 GTATACACTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
25 25 0.69
26 9 0.25
27 2 0.06
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.54
Consensus pattern (25 bp):
TATATATTTTTAATACTATATTATG
Found at i:86535502 original size:25 final size:24
Alignment explanation
Indices: 86535474--86535541 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
86535464 ATAAATGGGG
86535474 TTTAAAATAAGGTATATAAAAT-AA
1 TTTAAAATAA-GTATATAAAATCAA
*
86535498 TTTTAAAATAAGTAATATATAAGTCAA
1 -TTTAAAATAAGT-ATATA-AAATCAA
86535525 TTTAAAATAA-TATATAA
1 TTTAAAATAAGTATATAA
86535542 CAAGTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 1 0.03
24 7 0.18
25 16 0.41
26 13 0.33
27 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (24 bp):
TTTAAAATAAGTATATAAAATCAA
Found at i:86535526 original size:27 final size:24
Alignment explanation
Indices: 86535474--86535554 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
86535464 ATAAATGGGG
86535474 TTTAAAATAAGGTATATAAAATAA
1 TTTAAAATAAGGTATATAAAATAA
*
86535498 TTTTAAAATAA-GTAATATATAAGTCAA
1 -TTTAAAATAAGGT-ATATA-AAAT-AA
* *
86535525 TTTAAAATAA--TATATAACA-AG
1 TTTAAAATAAGGTATATAAAATAA
86535546 TTTAAAATA
1 TTTAAAATA
86535555 TATAATATGT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
21 10 0.20
23 1 0.02
24 7 0.14
25 16 0.33
26 13 0.27
27 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (24 bp):
TTTAAAATAAGGTATATAAAATAA
Found at i:86535557 original size:20 final size:21
Alignment explanation
Indices: 86535510--86535558 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
86535500 TTAAAATAAG
86535510 TAATATATAAGTCAATTTAAAA
1 TAATATATAAG-CAATTTAAAA
86535532 TAATATATAA-CAAGTTTAAAA
1 TAATATATAAGCAA-TTTAAAA
86535553 T-ATATA
1 TAATATA
86535559 ATATGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.31
21 8 0.31
22 10 0.38
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
TAATATATAAGCAATTTAAAA
Found at i:86535890 original size:39 final size:39
Alignment explanation
Indices: 86535846--86535924 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
86535836 AAAGCAAGTT
86535846 AAAATAAATAATAATAATTTGAATAAACAGTAAATTAAA
1 AAAATAAATAATAATAATTTGAATAAACAGTAAATTAAA
86535885 AAAATAAATAATAATAATTTGAATAAACAGTAAATTAAA
1 AAAATAAATAATAATAATTTGAATAAACAGTAAATTAAA
86535924 A
1 A
86535925 TAAGTTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (39 bp):
AAAATAAATAATAATAATTTGAATAAACAGTAAATTAAA
Found at i:86537190 original size:11 final size:12
Alignment explanation
Indices: 86537169--86537202 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
86537159 TTTGGACTTT
86537169 TTGGTTTATTTA
1 TTGGTTTATTTA
86537181 TTGG-TTATTTA
1 TTGGTTTATTTA
*
86537192 TTGTTTTATTT
1 TTGGTTTATTT
86537203 GGGATAGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.71
Consensus pattern (12 bp):
TTGGTTTATTTA
Found at i:86537481 original size:44 final size:44
Alignment explanation
Indices: 86537417--86538053 Score: 587
Period size: 44 Copynumber: 14.4 Consensus size: 44
86537407 CCAATATAAT
* ** *
86537417 TTCAGGGAGA-AGAGACTTGTAGCTTGGATCTACTCCACTGCAAC
1 TTCAGGGAGATA-AGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * ** ** * *
86537461 TTCAGTGAGATGAGATTTGTATTTTCAATCTTTTTCTCTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * *
86537505 TTCAGGAAAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAAC
1 TTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAAC
* * ** * * *
86537550 TTCAGGGAGATGAGACTAATGGTTTCTATCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * *
86537594 TTCAGGGAGATAAGATTCGTAACTTCAACCTACTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * *
86537638 TTCAGGAAGTTAAGGTTTGTGGCTTCAATCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * *
86537682 TTCAGGGAGATAAGGTTTATGGCTTCAATCTACTCCACTGTAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
** * * *
86537726 TTCAGGGAGATAAGATTTGTAATTTTAACCTGCTCTACTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * *
86537770 TTTAGGGAGATAAGATTTGTAACTTCAACCTGCTCCATTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * * *
86537814 TTCAGAGAGATGAGGTTTGTGGCTTCAGTCTACTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
** *
86537858 TTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * *
86537902 TTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTACAAT
1 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* *
86537946 TTCAGGGAGATAAGATTTGTAACTTCAA-CATGCTCCACTGTAAC
1 TTCAGGGAGATAAGATTTGTAGCTTCAATC-TGCTCCACTGCAAC
* * ** * *
86537990 TTCAAGGAGATAATG-TTTGTGGTTTCTTTGATCTACTTCACTGCAAC
1 TTCAGGGAGATAA-GATTTGTAG---CTTCAATCTGCTCCACTGCAAC
86538037 TTCAGGGAGATAAGATT
1 TTCAGGGAGATAAGATT
86538054 CACCATGAAA
Statistics
Matches: 472, Mismatches: 112, Indels: 15
0.79 0.19 0.03
Matches are distributed among these distances:
43 1 0.00
44 407 0.86
45 33 0.07
46 1 0.00
47 29 0.06
48 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
Found at i:86537669 original size:88 final size:88
Alignment explanation
Indices: 86537446--86538053 Score: 658
Period size: 88 Copynumber: 6.9 Consensus size: 88
86537436 TAGCTTGGAT
* * * *** ** * *
86537446 CTACTCCACTGCAACTTCAGTGAGATGAGATTTGTATTTTCAATCTTTTTCTCTGCAACTTCAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
* * * **
86537511 AAAATAAGATTTGCTATCTTCAGT
66 GAGATAAGATTTG-TAACTTCAAC
* ** ** * *
86537535 CTACTCCACTGCAACTTCAGGGAGATGAGACTAATGGTTTCTATCTGCTCCACTGCAACTTCAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
*
86537600 GAGATAAGATTCGTAACTTCAAC
66 GAGATAAGATTTGTAACTTCAAC
* *
86537623 CTACTCCACTGCAACTTCAGGAAGTTAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
* * ** *
86537688 GAGATAAGGTTTATGGCTTCAAT
66 GAGATAAGATTTGTAACTTCAAC
* * *** * * * *
86537711 CTACTCCACTGTAACTTCAGGGAGATAAGATTTGTAATTTTAACCTGCTCTACTGCAACTTTAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
86537776 GAGATAAGATTTGTAACTTCAAC
66 GAGATAAGATTTGTAACTTCAAC
* * * * * *
86537799 CTGCTCCATTGCAACTTCAGAGAGATGAGGTTTGTGGCTTCAGTCTACTCCACTGCAACTTCAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
*
86537864 GAGATAAGATTTGTAATTTCAAC
66 GAGATAAGATTTGTAACTTCAAC
* * *
86537887 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTACAATTTCAGG
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
86537952 GAGATAAGATTTGTAACTTCAAC
66 GAGATAAGATTTGTAACTTCAAC
* * * * * ** * *
86537975 ATGCTCCACTGTAACTTCAAGGAGATAATGTTTGTGGTTTCTTTGATCTACTTCACTGCAACTTC
1 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGG---CTTCAATCTGCTCCACTGCAACTTC
86538040 AGGGAGATAAGATT
63 AGGGAGATAAGATT
86538054 CACCATGAAA
Statistics
Matches: 434, Mismatches: 82, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
88 337 0.78
89 64 0.15
91 33 0.08
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (88 bp):
CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
GAGATAAGATTTGTAACTTCAAC
Found at i:86537731 original size:132 final size:132
Alignment explanation
Indices: 86537444--86538002 Score: 652
Period size: 132 Copynumber: 4.2 Consensus size: 132
86537434 TGTAGCTTGG
* * * * ** * *
86537444 ATCTACTCCACTGCAACTTCAGTGAGATGAGATTTGTATTTTCAATCTTTTTCTCTGCAACTTCA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAACTTCA
* * * * * * * *
86537509 GGAAAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATGAGACTAATGGTT
66 GGAAGATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATGGCT
*
86537574 TCT
130 TCA
* * * *
86537577 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAACTTCAACCTACTCCACTGCAACTTCA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAACTTCA
* * * *
86537642 GGAAGTTAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTATGGCTT
66 GGAAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATGGCTT
86537707 CA
131 CA
* * * *
86537709 ATCTACTCCACTGTAACTTCAGGGAGATAAGATTTGTAATTTTAACCTGCTCTACTGCAACTTTA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAACTTCA
* * * * * * * *
86537774 GGGAGATAAGATTTGTAACTTCAACCTGCTCCATTGCAACTTCAGAGAGATGAGGTTTGTGGCTT
66 GGAAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATGGCTT
86537839 CA
131 CA
*
86537841 GTCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAACTTCA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAACTTCA
* * * * * * **
86537906 GGGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTACAATTTCAGGGAGATAAGATTTGTAACTT
66 GGAAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATGGCTT
86537971 CA
131 CA
* * *
86537973 A-CATGCTCCACTGTAACTTCAAGGAGATAA
1 ATC-TACTCCACTGCAACTTCAGGGAGATAA
86538003 TGTTTGTGGT
Statistics
Matches: 362, Mismatches: 63, Indels: 3
0.85 0.15 0.01
Matches are distributed among these distances:
131 1 0.00
132 295 0.81
133 66 0.18
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (132 bp):
ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTCAACCTGCTCCACTGCAACTTCA
GGAAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATGGCTT
CA
Found at i:86543863 original size:13 final size:13
Alignment explanation
Indices: 86543845--86543871 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
86543835 ACTATGCTTT
86543845 AAAATTTTCAGGA
1 AAAATTTTCAGGA
86543858 AAAATTTTCAGGA
1 AAAATTTTCAGGA
86543871 A
1 A
86543872 TTCCCGAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (13 bp):
AAAATTTTCAGGA
Found at i:86544878 original size:39 final size:39
Alignment explanation
Indices: 86544832--86544959 Score: 193
Period size: 39 Copynumber: 3.3 Consensus size: 39
86544822 GGTCTTTAAC
* *
86544832 CCGGATATTTTTCCAGCACATAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * * *
86544871 CCAGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
86544910 TCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
86544949 CCGGATATTTT
1 CCGGATATTTT
86544960 CAATCTCATA
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:86546157 original size:2 final size:2
Alignment explanation
Indices: 86546150--86546179 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
86546140 TCAATTTCAT
*
86546150 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
86546180 ATTTCACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:86553339 original size:25 final size:24
Alignment explanation
Indices: 86553311--86553378 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
86553301 ATAAATGGGG
86553311 TTTAAAATAAGGTATATAAAAT-AA
1 TTTAAAATAA-GTATATAAAATCAA
*
86553335 TTTTAAAATAAGTAATATATAAGTCAA
1 -TTTAAAATAAGT-ATATA-AAATCAA
86553362 TTTAAAATAA-TATATAA
1 TTTAAAATAAGTATATAA
86553379 CAAGTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 1 0.03
24 7 0.18
25 16 0.41
26 13 0.33
27 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (24 bp):
TTTAAAATAAGTATATAAAATCAA
Found at i:86553394 original size:20 final size:21
Alignment explanation
Indices: 86553347--86553389 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
86553337 TTAAAATAAG
86553347 TAATATATAAGTCAATTTAAAA
1 TAATATATAAG-CAATTTAAAA
86553369 TAATATATAA-CAAGTTTAAAA
1 TAATATATAAGCAA-TTTAAAA
86553390 CATATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 3 0.15
21 7 0.35
22 10 0.50
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (21 bp):
TAATATATAAGCAATTTAAAA
Found at i:86553515 original size:25 final size:24
Alignment explanation
Indices: 86553487--86553541 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
86553477 TGAAATACGT
*
86553487 AATATACAATAACTTAAAAATAAAC
1 AATATAAAATAA-TTAAAAATAAAC
**
86553512 AATATAAAATAATTTGAAATAAAC
1 AATATAAAATAATTAAAAATAAAC
86553536 -ATATAA
1 AATATAA
86553542 CAAAACGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 6 0.22
24 10 0.37
25 11 0.41
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (24 bp):
AATATAAAATAATTAAAAATAAAC
Found at i:86555563 original size:13 final size:13
Alignment explanation
Indices: 86555545--86555570 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
86555535 GAATATATGA
86555545 TTTTTATTTTATT
1 TTTTTATTTTATT
86555558 TTTTTATTTTATT
1 TTTTTATTTTATT
86555571 ATTAAACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:86555710 original size:36 final size:33
Alignment explanation
Indices: 86555670--86555741 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 33
86555660 ACTTTTGGTA
86555670 TTCCTACTTCAATTTGGAATTGAATTATTTACTCTT
1 TTCCTACTTCAA-TTGGAATTGAATTATTT--TCTT
* *
86555706 TTCCTATTTCCATTGGAATTGAATTATTTTCTT
1 TTCCTACTTCAATTGGAATTGAATTATTTTCTT
86555739 TTC
1 TTC
86555742 TCTTTCAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 7 0.21
35 17 0.50
36 10 0.29
ACGTcount: A:0.22, C:0.17, G:0.08, T:0.53
Consensus pattern (33 bp):
TTCCTACTTCAATTGGAATTGAATTATTTTCTT
Found at i:86556195 original size:21 final size:21
Alignment explanation
Indices: 86556154--86556201 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
86556144 ATACTATTAT
*
86556154 TATTTA-TCTATTTATAGTTC
1 TATTTATTATATTTATAGTTC
* *
86556174 TATTTATTATATTTTTATTTC
1 TATTTATTATATTTATAGTTC
86556195 TATTTAT
1 TATTTAT
86556202 ATACTAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTTATTATATTTATAGTTC
Found at i:86556227 original size:35 final size:33
Alignment explanation
Indices: 86556148--86556228 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 33
86556138 ATTCTAATAC
*
86556148 TATTATTATTTATCTATTTATAGTTCTATTTATTA
1 TATTATTA-TT-TCTATTTATAGTACTATTTATTA
* *
86556183 TATTTTTATTTCTATTTATA-TACTAATATTATTT
1 TATTATTATTTCTATTTATAGTACT-AT-TTATTA
86556217 TCATTATTATTT
1 T-ATTATTATTT
86556229 TTCTTATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
32 3 0.08
33 12 0.31
34 8 0.21
35 16 0.41
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.64
Consensus pattern (33 bp):
TATTATTATTTCTATTTATAGTACTATTTATTA
Found at i:86556431 original size:22 final size:21
Alignment explanation
Indices: 86556403--86556457 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
86556393 TTTTACACAT
* **
86556403 TATATATTTTGAATTGTTTATA
1 TATATATTTTAAAGAGTTT-TA
86556425 TATATATTTTAAAGAGTTTTA
1 TATATATTTTAAAGAGTTTTA
86556446 TATATTATTTTA
1 TATA-TATTTTA
86556458 TAAATTTAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 6 0.21
22 23 0.79
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
TATATATTTTAAAGAGTTTTA
Found at i:86558169 original size:20 final size:19
Alignment explanation
Indices: 86558126--86558163 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
86558116 CCGCATATGT
*
86558126 AATTTGTTTTATGTAAAGG
1 AATTTGTTTTATGAAAAGG
86558145 AATTTGTTTTATAGAAAAG
1 AATTTGTTTTAT-GAAAAG
86558164 TTATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (19 bp):
AATTTGTTTTATGAAAAGG
Found at i:86561028 original size:15 final size:14
Alignment explanation
Indices: 86561010--86561063 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
86561000 AAAAGCAGCG
*
86561010 AAAAAGAAAGAAAC
1 AAAAAAAAAGAAAC
86561024 AAAAAAGAAAGAAA-
1 AAAAAA-AAAGAAAC
86561038 AAACAAAAAA-AAAC
1 AAA-AAAAAAGAAAC
86561052 AACAAAAAAAGA
1 AA-AAAAAAAGA
86561064 TTGTGGAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
13 3 0.09
14 19 0.56
15 12 0.35
ACGTcount: A:0.83, C:0.07, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAC
Found at i:86561058 original size:18 final size:18
Alignment explanation
Indices: 86561020--86561058 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
86561010 AAAAAGAAAG
*
86561020 AAACAAAAAAGAAAGAAA
1 AAACAAAAAAGAAACAAA
86561038 AAACAAAAAA-AAACAACA
1 AAACAAAAAAGAAACAA-A
86561056 AAA
1 AAA
86561059 AAAGATTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (18 bp):
AAACAAAAAAGAAACAAA
Found at i:86563371 original size:86 final size:85
Alignment explanation
Indices: 86563033--86563724 Score: 1021
Period size: 85 Copynumber: 8.1 Consensus size: 85
86563023 CTGAAGATAC
*
86563033 GAGCCTTAACCCCCTAAGGAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAG
* *
86563098 TGGAACAGATCGAATACAGG
66 TGGAACAGATCGAAGACAGT
86563118 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAG
86563183 TGGAACAGATCGAAGACAGT
66 TGGAACAGATCGAAGACAGT
*
86563203 GAGCCTTAACCCCATAAGCAGTAGGGTAACAGGCT-AGAAATACAGATCTTATCCCTAAACAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGA-AAATACAGATCTTATCCCTAAACAGTA
* *
86563267 GTAGAACAGATCGAAGACAGC
65 GTGGAACAGATCGAAGACAGT
* *
86563288 AAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTTATCCCTAAACAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAAATACAGATCTTATCCCTAAACAGTA
* *
86563353 GTGGAGCAGATCGAAGACAGC
65 GTGGAACAGATCGAAGACAGT
* * *
86563374 GAGCCTTAACCCCCAAAGCAGTAGGGTAAAAGGCTAGGAAATACAGATCTTATCCCTAAACAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAAATACAGATCTTATCCCTAAACAGTA
** *
86563439 GTGGAGTAGATCGAAGACGGT
65 GTGGAACAGATCGAAGACAGT
* * *
86563460 GAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCAAGAAAATATAGAT-TTATCCCTAAACAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC-TGAAAATACAGATCTTATCCCTAAACAGTA
* * *
86563524 GTGGAACAAATCAAAGATAGT
65 GTGGAACAGATCGAAGACAGT
*
86563545 GAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAG
* *
86563610 TGGAGCAGATCGAAAACAGT
66 TGGAACAGATCGAAGACAGT
* ** *
86563630 GAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTG-AGTTACAGATCTTATCTCCCTAAGCAGT
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTA--TCCCTAAACAGT
* * *
86563694 AGTAGAGCAGATCGAGGACAGT
64 AGTGGAACAGATCGAAGACAGT
86563716 GAGCCTTAA
1 GAGCCTTAA
86563725 TAGTAGGGTA
Statistics
Matches: 552, Mismatches: 48, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
84 24 0.04
85 324 0.59
86 203 0.37
87 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (85 bp):
GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAG
TGGAACAGATCGAAGACAGT
Found at i:86563487 original size:342 final size:340
Alignment explanation
Indices: 86563032--86563724 Score: 1061
Period size: 342 Copynumber: 2.0 Consensus size: 340
86563022 GCTGAAGATA
* * *
86563032 CGAGCCTTAACCCCCTAAGGAGTAGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTA
1 CGAGCCTTAACCCCCAAAGCAGTAGGGTAAAAGGCTGAAAATACAGATCTTATCCCTAAACAGTA
* * *
86563097 GTGGAACAGATCGAATACAGGGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC-TGAAAATAC
66 GTGGAACAGATCGAAGACAGGGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCAAGAAAATAC
* *
86563161 AGATCTTATCCCTAAACAGTAGTGGAACAGATCGAAGACAGTGAGCCTTAACCCCATAAGCAGTA
131 AGAT-TTATCCCTAAACAGTAGTGGAACAAATCAAAGACAGTGAGCCTTAACCCCATAAGCAGTA
*
86563226 GGGTAACAGGCT-AGAAATACAGATCTTATCCCTAAACAGTAGTAGAACAGATCGAAGACAGCAA
195 GGGTAACAGGCTGA-AAATACAGATCTTATCCCTAAACAGTAGTAGAACAGATCGAAAACAGCAA
86563290 GCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTTA-TCCCTAAACAGTAG
259 GCCTTAACCCCTTAAGCAGTAGGGTAACAGGCT-G-AAATACAGATCTTACTCCCTAAACAGTAG
*
86563354 TGGAGCAGATCGAAGACAG
322 TAGAGCAGATCGAAGACAG
*
86563373 CGAGCCTTAACCCCCAAAGCAGTAGGGTAAAAGGCTAGGAAATACAGATCTTATCCCTAAACAGT
1 CGAGCCTTAACCCCCAAAGCAGTAGGGTAAAAGGCT-GAAAATACAGATCTTATCCCTAAACAGT
**
86563438 AGTGGAGTAGATCGAAGAC-GGTGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCAAGAAAAT
65 AGTGGAACAGATCGAAGACAGG-GAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCAAGAAAAT
* * * *
86563502 ATAGATTTATCCCTAAACAGTAGTGGAACAAATCAAAGATAGTGAGCCTTAACCCCCTAAGTAGT
129 ACAGATTTATCCCTAAACAGTAGTGGAACAAATCAAAGACAGTGAGCCTTAACCCCATAAGCAGT
* * **
86563567 AGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAAACAGTGA
194 AGGGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAGTAGAACAGATCGAAAACAGCAA
** *
86563632 GCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTGAGTTACAGATCTTATCTCCCTAAGCAGTAGT
259 GCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTGAAATACAGATCTTA-CTCCCTAAACAGTAGT
*
86563697 AGAGCAGATCGAGGACAG
323 AGAGCAGATCGAAGACAG
*
86563715 TGAGCCTTAA
1 CGAGCCTTAA
86563725 TAGTAGGGTA
Statistics
Matches: 320, Mismatches: 26, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
340 12 0.04
341 36 0.11
342 260 0.81
343 12 0.04
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (340 bp):
CGAGCCTTAACCCCCAAAGCAGTAGGGTAAAAGGCTGAAAATACAGATCTTATCCCTAAACAGTA
GTGGAACAGATCGAAGACAGGGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCAAGAAAATAC
AGATTTATCCCTAAACAGTAGTGGAACAAATCAAAGACAGTGAGCCTTAACCCCATAAGCAGTAG
GGTAACAGGCTGAAAATACAGATCTTATCCCTAAACAGTAGTAGAACAGATCGAAAACAGCAAGC
CTTAACCCCTTAAGCAGTAGGGTAACAGGCTGAAATACAGATCTTACTCCCTAAACAGTAGTAGA
GCAGATCGAAGACAG
Found at i:86563805 original size:44 final size:44
Alignment explanation
Indices: 86563736--86563826 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
86563726 AGTAGGGTAA
* * * * *
86563736 CAGGTTGAAGGTTGCAGATCTTATCTCCCTGAGCAGCAGTGGAG
1 CAGGATGAAGATTACAGATCATATCTCCCTAAGCAGCAGTGGAG
*
86563780 CAGGATGAAGATTACAGATCATATCTCCCTAAGCAGTAGTGGAG
1 CAGGATGAAGATTACAGATCATATCTCCCTAAGCAGCAGTGGAG
86563824 CAG
1 CAG
86563827 ATCGAAACGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (44 bp):
CAGGATGAAGATTACAGATCATATCTCCCTAAGCAGCAGTGGAG
Found at i:86564804 original size:15 final size:14
Alignment explanation
Indices: 86564736--86564864 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 14
86564726 TTATTGCTAT
86564736 TATTTTTATGTT-TC
1 TATTTTTAT-TTATC
*
86564750 TATTTATATTTAT-
1 TATTTTTATTTATC
*
86564763 T-TTGTTATTCTAATAC
1 TATTTTTATT-T-AT-C
*
86564779 TATTATTATTTATC
1 TATTTTTATTTATC
86564793 TAATTTTTATTTATC
1 T-ATTTTTATTTATC
* *
86564808 TATTTATATTTCTAC
1 TATTTTTATTTAT-C
*
86564823 TATTATTATATT-TC
1 TATTTTTAT-TTATC
*
86564837 TATTTATTATATT-TT
1 TATTT-TTAT-TTATC
*
86564852 TATTTCTATTTAT
1 TATTTTTATTTAT
86564865 ATACTAATAT
Statistics
Matches: 92, Mismatches: 12, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
12 6 0.07
13 6 0.07
14 32 0.35
15 37 0.40
16 4 0.04
17 7 0.08
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.66
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:86564817 original size:29 final size:28
Alignment explanation
Indices: 86564736--86564843 Score: 78
Period size: 29 Copynumber: 3.8 Consensus size: 28
86564726 TTATTGCTAT
*
86564736 TATTTTTATGTTTCTATTTATATTTAT-
1 TATTTTTATATTTCTATTTATATTTATC
* * * *
86564763 TTTGTTATTCTAATACTA-TTATTATTTATC
1 TAT-TT-TTATATTTCTATTTA-TATTTATC
*
86564793 TAATTTTTAT-TTATCTATTTATATTTCTAC
1 T-ATTTTTATATT-TCTATTTATATTTAT-C
*
86564823 TATTATTATATTTCTATTTAT
1 TATTTTTATATTTCTATTTAT
86564844 TATATTTTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
27 2 0.03
28 6 0.10
29 42 0.69
30 10 0.16
31 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (28 bp):
TATTTTTATATTTCTATTTATATTTATC
Found at i:86564849 original size:23 final size:23
Alignment explanation
Indices: 86564823--86564889 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
86564813 ATATTTCTAC
86564823 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
86564846 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
86564868 CTAATATTAT-TTTC-A-TTATTA
1 -TATTATTATATTTCTATTTATTA
86564889 T
1 T
86564890 TTTTCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 8 0.21
24 6 0.15
25 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:86564900 original size:52 final size:54
Alignment explanation
Indices: 86564779--86564900 Score: 125
Period size: 52 Copynumber: 2.4 Consensus size: 54
86564769 ATTCTAATAC
* * *
86564779 TATTATTATTTATC-TA-ATTTTTATTTATCTATTTATATTTCTACTATTATTA
1 TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
* *
86564831 TATT-TCTA--TTTATTATATTTTTA-TT-TCTATTTATA-TACTAATATTATTT
1 TATTAT-TATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
86564880 TCATTATTATTTTTCTTATAT
1 T-ATTATTATTTTTCTTATAT
86564901 ATGTTTTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
49 12 0.21
50 17 0.30
51 6 0.11
52 22 0.39
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (54 bp):
TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
Found at i:86565053 original size:25 final size:24
Alignment explanation
Indices: 86564992--86565053 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
86564982 TATAACGCTC
* *
86564992 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATACATTATAT
*
86565016 ACTTT-AATATTTTCATATATTATAT
1 A-TTTCAA-ATTTTCATACATTATAT
86565041 ATTTCAAACTTTT
1 ATTTCAAA-TTTT
86565054 TTTTACACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTTCAAATTTTCATACATTATAT
Found at i:86565425 original size:125 final size:125
Alignment explanation
Indices: 86565203--86565433 Score: 302
Period size: 125 Copynumber: 1.8 Consensus size: 125
86565193 AAAACCTCTC
* ** * *
86565203 AAAATAAGGAAATATTTCGTGTTTGGAAATTCGAGAAATTGTGCCCTGTCGTGCTGGGTTTCGAT
1 AAAATAAGGAAATATTTCGTGTTTGGAAATTCGAGAAATCGTGCCCAATCGTGCTAGGTTTCGAC
** * ** *
86565268 TTTTCGTTCAACCGAATAGCTGAATATCCTTTTGAAATTTCGTCCATGTTTTCTTAAATT
66 TTACCATTCAACCGAATAGCCAAAAATCCTTTTGAAATTTCGTCCATGTTTTCTTAAATT
* * *
86565328 AAAATGAGGCAATATTTTGTGTTTGGAAATTCGAGAAATCGTGCCCAATCGTGCTAGGTTTCGAC
1 AAAATAAGGAAATATTTCGTGTTTGGAAATTCGAGAAATCGTGCCCAATCGTGCTAGGTTTCGAC
**
86565393 TTACCATTTGACC-AGATAGCCAAAAATCCTTTTGAAATTTC
66 TTACCATTCAACCGA-ATAGCCAAAAATCCTTTTGAAATTTC
86565434 AAATGCATGA
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
124 1 0.01
125 88 0.99
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (125 bp):
AAAATAAGGAAATATTTCGTGTTTGGAAATTCGAGAAATCGTGCCCAATCGTGCTAGGTTTCGAC
TTACCATTCAACCGAATAGCCAAAAATCCTTTTGAAATTTCGTCCATGTTTTCTTAAATT
Found at i:86570796 original size:40 final size:41
Alignment explanation
Indices: 86570772--86570852 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 41
86570762 TAAAATTTTT
*
86570772 AAAAT-TTAAAAAATTATAAAAATT-ATTTTCAAAAATTAA
1 AAAATATTAAAAAAGTATAAAAATTAATTTTCAAAAATTAA
* **
86570811 AAAATATTAAAAAAGTATAAAAAATATATTTTTTAAAATTAA
1 AAAATATTAAAAAAGTATAAAAATTA-ATTTTCAAAAATTAA
86570853 TTAAATGCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 5 0.14
40 17 0.49
42 13 0.37
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (41 bp):
AAAATATTAAAAAAGTATAAAAATTAATTTTCAAAAATTAA
Found at i:86570811 original size:30 final size:30
Alignment explanation
Indices: 86570766--86570823 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
86570756 AAATTTTAAA
* *
86570766 ATTTTTAAAATTTAAAAAAT-TATAAAAATT
1 ATTTTCAAAAATTAAAAAATAT-TAAAAATT
86570796 ATTTTCAAAAATTAAAAAATATTAAAAA
1 ATTTTCAAAAATTAAAAAATATTAAAAA
86570824 AGTATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (30 bp):
ATTTTCAAAAATTAAAAAATATTAAAAATT
Found at i:86573193 original size:18 final size:18
Alignment explanation
Indices: 86573160--86573194 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
86573150 ATTTAGTGAA
* *
86573160 TAAAAGTAATGTGAATGT
1 TAAAAGTAAAGCGAATGT
86573178 TAAAAGTAAAGCGAATG
1 TAAAAGTAAAGCGAATG
86573195 AATAAAATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.23, T:0.26
Consensus pattern (18 bp):
TAAAAGTAAAGCGAATGT
Found at i:86576478 original size:22 final size:22
Alignment explanation
Indices: 86576342--86576468 Score: 218
Period size: 22 Copynumber: 5.7 Consensus size: 22
86576332 AGCTCTATTA
86576342 AGCTGAAACAGTAAGCTCTGACG
1 AGCTG-AACAGTAAGCTCTGACG
*
86576365 AGCTGAACAGTAAGCTTTGACG
1 AGCTGAACAGTAAGCTCTGACG
*
86576387 AGCTGAATAGTAAGCTCTGACG
1 AGCTGAACAGTAAGCTCTGACG
86576409 AGCTGAACAGTAAGCTCTGACG
1 AGCTGAACAGTAAGCTCTGACG
86576431 AGCTGAACAGTAAGCTCTGACG
1 AGCTGAACAGTAAGCTCTGACG
*
86576453 AGCTGAACAATAAGCT
1 AGCTGAACAGTAAGCT
86576469 TATACAAGCT
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
22 94 0.95
23 5 0.05
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (22 bp):
AGCTGAACAGTAAGCTCTGACG
Found at i:86577977 original size:22 final size:22
Alignment explanation
Indices: 86577911--86577978 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
86577901 ATAAACTGCT
86577911 AGAATATATGTGGATAAATCACC
1 AGAA-ATATGTGGATAAATCACC
* **
86577934 A-AAAT-TGTAGATAAATTGCC
1 AGAAATATGTGGATAAATCACC
*
86577954 AGAAATATGTGGATAAACCACC
1 AGAAATATGTGGATAAATCACC
86577976 AGA
1 AGA
86577979 TTGAAAATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
20 13 0.36
21 6 0.17
22 16 0.44
23 1 0.03
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.24
Consensus pattern (22 bp):
AGAAATATGTGGATAAATCACC
Found at i:86583645 original size:28 final size:28
Alignment explanation
Indices: 86583597--86583655 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
86583587 CACTAGGTGT
86583597 CATTCTCAATATCTCCCACACTGAGTGC
1 CATTCTCAATATCTCCCACACTGAGTGC
* **
86583625 CATTCTCAATATTTCGTACACTGAGTGC
1 CATTCTCAATATCTCCCACACTGAGTGC
86583653 CAT
1 CAT
86583656 ATTTGATTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.32
Consensus pattern (28 bp):
CATTCTCAATATCTCCCACACTGAGTGC
Found at i:86586674 original size:42 final size:42
Alignment explanation
Indices: 86586615--86586698 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
86586605 TGGAAACACA
86586615 ACATACTCGTAGATGATAGTTGTTAGAGGGTTGTGAATGTAT
1 ACATACTCGTAGATGATAGTTGTTAGAGGGTTGTGAATGTAT
86586657 ACATACTCGTAGATGATAGTTGTTAGAGGGTTGTGAATGTAT
1 ACATACTCGTAGATGATAGTTGTTAGAGGGTTGTGAATGTAT
86586699 GGAAAAACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (42 bp):
ACATACTCGTAGATGATAGTTGTTAGAGGGTTGTGAATGTAT
Found at i:86589888 original size:37 final size:37
Alignment explanation
Indices: 86589847--86589917 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
86589837 AATTAACCTA
86589847 AAAATTATTTAAATTAAAAATCAACTAATTTAACGAT
1 AAAATTATTTAAATTAAAAATCAACTAATTTAACGAT
*
86589884 AAAATTATTTAAATTTAAAATCAACTAATTTAAC
1 AAAATTATTTAAATTAAAAATCAACTAATTTAAC
86589918 AATTGAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.37
Consensus pattern (37 bp):
AAAATTATTTAAATTAAAAATCAACTAATTTAACGAT
Found at i:86589916 original size:21 final size:21
Alignment explanation
Indices: 86589853--86589916 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
86589843 CCTAAAAATT
*
86589853 ATTTAAATTAAAAATCAACTA
1 ATTTAAATTTAAAATCAACTA
***
86589874 ATTTAACGATAAAAT----T-
1 ATTTAAATTTAAAATCAACTA
86589890 ATTTAAATTTAAAATCAACTA
1 ATTTAAATTTAAAATCAACTA
86589911 ATTTAA
1 ATTTAA
86589917 CAATTGAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 10
0.65 0.15 0.21
Matches are distributed among these distances:
16 12 0.39
17 1 0.03
20 1 0.03
21 17 0.55
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (21 bp):
ATTTAAATTTAAAATCAACTA
Found at i:86595033 original size:157 final size:157
Alignment explanation
Indices: 86594747--86595062 Score: 578
Period size: 157 Copynumber: 2.0 Consensus size: 157
86594737 ATACAAGGCC
*
86594747 ATAACCCAAATTTAGATACTCATACAGGATTCTAGTGGTCATTTTTGGCAAACTTGAAGTAATTT
1 ATAACCCAAATTTAGATACTCATACAGGATTCTAGTGGTCATTTTTGGCAAAATTGAAGTAATTT
*
86594812 ATTCCAGCTTATACAAAGAGATTTCAAATGAGATTTCTTTCACAAACCTGATGTTCCATGACTCA
66 ATTCCAGCTTATACAAAGAGATTTCAAATAAGATTTCTTTCACAAACCTGATGTTCCATGACTCA
86594877 AGATCCCTCTCAAAATCCGCAATTGCA
131 AGATCCCTCTCAAAATCCGCAATTGCA
* *
86594904 ATAACCCAAATTTAGATCCTCATACAGGATTCTAGTGGTCATTTTTGGCAAAATTGAAGTATTTT
1 ATAACCCAAATTTAGATACTCATACAGGATTCTAGTGGTCATTTTTGGCAAAATTGAAGTAATTT
*
86594969 ATTCCAGCTTATACAAAGAGATTTCAAATAAGATTTCTTTCACGAACCTGATGTTCCATGACTCA
66 ATTCCAGCTTATACAAAGAGATTTCAAATAAGATTTCTTTCACAAACCTGATGTTCCATGACTCA
*
86595034 AGATCCCTCTCGAAATCCGCAATTGCA
131 AGATCCCTCTCAAAATCCGCAATTGCA
86595061 AT
1 AT
86595063 CAAAAGTTCA
Statistics
Matches: 153, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (157 bp):
ATAACCCAAATTTAGATACTCATACAGGATTCTAGTGGTCATTTTTGGCAAAATTGAAGTAATTT
ATTCCAGCTTATACAAAGAGATTTCAAATAAGATTTCTTTCACAAACCTGATGTTCCATGACTCA
AGATCCCTCTCAAAATCCGCAATTGCA
Found at i:86598830 original size:1 final size:1
Alignment explanation
Indices: 86598798--86598823 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
86598788 CATCAAATTT
86598798 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
86598824 GCAAAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:86610052 original size:154 final size:154
Alignment explanation
Indices: 86609751--86610053 Score: 509
Period size: 154 Copynumber: 2.0 Consensus size: 154
86609741 AGATTGCTTC
86609751 AATTCATATACAACTTCTTTTCCTGATATAGATTTTGTTTTATCTATCTGCATGCTGATAGTTCC
1 AATTCATATACAACTTCTTTTCCTGATATAGATTTTGTTTTATCTATCTGCATGCTGATAGTTCC
* *
86609816 CTTTCTTCATTTGACTATAAGTATACGGAATTAGCTTTTGCATATGCCAACTTTTTGCAGGTAAG
66 CTTTCTTCATTTGAATATAAGTATACGGAATTAGCTTTTGCATATGCCAACCTTTTGCAGGTAAG
*
86609881 ATCAAACTAAATAATCTATCATAA
131 ATCAAACCAAATAATCTATCATAA
* * *
86609905 AATTCATATACATCTTCTTTTCCTGATATAGATTTTGTTTTACTTTTTCTGCATGCTGATAGTTC
1 AATTCATATACAACTTCTTTTCCTGATATAGATTTTGTTTTA-TCTATCTGCATGCTGATAGTTC
* *
86609970 CCTTTCTTCATTTGAATATAAGTATACGGAATTAGTTTTTGCATA-GCTAACCTTTTGCAGGTAA
65 CCTTTCTTCATTTGAATATAAGTATACGGAATTAGCTTTTGCATATGCCAACCTTTTGCAGGTAA
*
86610034 GATCAAACCAAATCATCTAT
130 GATCAAACCAAATAATCTAT
86610054 GGTAGATGCT
Statistics
Matches: 139, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
154 76 0.55
155 63 0.45
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (154 bp):
AATTCATATACAACTTCTTTTCCTGATATAGATTTTGTTTTATCTATCTGCATGCTGATAGTTCC
CTTTCTTCATTTGAATATAAGTATACGGAATTAGCTTTTGCATATGCCAACCTTTTGCAGGTAAG
ATCAAACCAAATAATCTATCATAA
Found at i:86610883 original size:7 final size:7
Alignment explanation
Indices: 86610873--86610900 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
86610863 TTTACTTTTT
86610873 AATATTG
1 AATATTG
86610880 AATATTG
1 AATATTG
86610887 AATATTG
1 AATATTG
86610894 AATATTG
1 AATATTG
86610901 GTAACTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (7 bp):
AATATTG
Found at i:86612877 original size:132 final size:132
Alignment explanation
Indices: 86612634--86613430 Score: 1416
Period size: 132 Copynumber: 6.0 Consensus size: 132
86612624 GGTTATCAGC
*
86612634 TACAAACTTCATTTAGCCCTGCACCTCAAGGAAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* * *
86612699 TCACCACATCAGGAAACTTTGGCTGCAGCTGCTGCCTACACGGACTGGCTTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
86612764 TA
131 TA
*
86612766 TACAAACTTCATTTAGCCCTGCAACTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* * *
86612831 TCACCACATCAGGAAACTTCAGCTGCAGCTGCTGCCGACACAGACTGGCTTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
86612896 TA
131 TA
86612898 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* * *
86612963 TCACCACATCAGGAAACTTCAGCTGCAGCTGCTGCCGACACAGACTGGCTTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
86613028 TA
131 TA
86613030 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* * *
86613095 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCAACATGGACAGGCCTGTTGAT-AAGGATC
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAA-GATC
86613159 TTA
130 TTA
*
86613162 TACAAACTTCATTTAGCCCTGCAACTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
86613227 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
86613292 TA
131 TA
86613294 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* **
86613359 GCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACATTGACTGGCCTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
86613424 TA
131 TA
86613426 TACAA
1 TACAA
86613431 GCTTTCTTTA
Statistics
Matches: 642, Mismatches: 21, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
131 2 0.00
132 638 0.99
133 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (132 bp):
TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
TA
Found at i:86616864 original size:73 final size:74
Alignment explanation
Indices: 86616710--86617048 Score: 440
Period size: 74 Copynumber: 4.6 Consensus size: 74
86616700 TTGCTTACTT
* * * *
86616710 TTTTATATCAATAATATAGTTATTTACAATCTACGAAAAAATGGAAAAACTTGTTTGTATTTTAT
1 TTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAAACTTGTTTGTATTATAT
86616775 TCTATTGTA
66 TCTATTGTA
* *
86616784 TTTTACATCAATAATATATTTATTTACAATCTACAAAAAAATGGAAAAA-TTGTTTGTATTATAC
1 TTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAAACTTGTTTGTATTATAT
86616848 TCTATTGTA
66 TCTATTGTA
* * * *
86616857 TTTTACATCAATAATATACTTATTTACAATTTACAAAAAAAATGAAAAAAATTGTTTGTATTGTA
1 TTTTACATCAATAATATACTTATTTACAATCTAC-AAAAAAATGGAAAAACTTGTTTGTATTATA
86616922 TTCTATT-TA
65 TTCTATTGTA
* * * * * *
86616931 TTTTAAAACAATAAAATACTTATTTACAATTTACGAAAAAAT-GAAAAAGTTGTTTGTATTATAT
1 TTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAAACTTGTTTGTATTATAT
86616995 TCTATTGTA
66 TCTATTGTA
* **
86617004 TTTTTACAT---TAATATACTTATTTACAATGTACTCAAAAAT-GAAAA
1 -TTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAA
86617049 GTTATGAAAA
Statistics
Matches: 238, Mismatches: 23, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
71 32 0.13
72 25 0.11
73 63 0.26
74 99 0.42
75 19 0.08
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (74 bp):
TTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAAACTTGTTTGTATTATAT
TCTATTGTA
Found at i:86616880 original size:147 final size:147
Alignment explanation
Indices: 86616709--86617048 Score: 458
Period size: 147 Copynumber: 2.3 Consensus size: 147
86616699 TTTGCTTACT
* * * * *
86616709 TTTTTATATCAATAATATAGTTATTTACAATCTACGAAAAAATGGAAAAACTTGTTTGTATTTTA
1 TTTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAAAATTGTTTGTATTGTA
* * * *
86616774 TTCTATTGTATTTTACATCAATAATATATTTATTTACAATCTACAAAAAAATGGAAAAA-TTGTT
66 TTCTATT-TATTTTAAAACAATAAAATACTTATTTACAATCTACAAAAAAAT-GAAAAAGTTGTT
86616838 TGTATTATACTCTATTGTA
129 TGTATTATACTCTATTGTA
* *
86616857 -TTTTACATCAATAATATACTTATTTACAATTTACAAAAAAAATGAAAAAAATTGTTTGTATTGT
1 TTTTTACATCAATAATATACTTATTTACAATCTAC-AAAAAAATGGAAAAAATTGTTTGTATTGT
* *
86616921 ATTCTATTTATTTTAAAACAATAAAATACTTATTTACAATTTACGAAAAAATGAAAAAGTTGTTT
65 ATTCTATTTATTTTAAAACAATAAAATACTTATTTACAATCTACAAAAAAATGAAAAAGTTGTTT
*
86616986 GTATTATATTCTATTGTA
130 GTATTATACTCTATTGTA
* **
86617004 TTTTTACAT---TAATATACTTATTTACAATGTACTCAAAAAT-GAAAA
1 TTTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAA
86617049 GTTATGAAAA
Statistics
Matches: 171, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
143 4 0.02
144 6 0.04
145 22 0.13
146 6 0.04
147 92 0.54
148 41 0.24
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.43
Consensus pattern (147 bp):
TTTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAAAATTGTTTGTATTGTA
TTCTATTTATTTTAAAACAATAAAATACTTATTTACAATCTACAAAAAAATGAAAAAGTTGTTTG
TATTATACTCTATTGTA
Found at i:86618025 original size:15 final size:15
Alignment explanation
Indices: 86617987--86618028 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
86617977 ATATTCATGA
86617987 ATGAAAATAATGTAT
1 ATGAAAATAATGTAT
*
86618002 ATGTTAAATAATG-AT
1 ATG-AAAATAATGTAT
86618017 ATAGAAAATAAT
1 AT-GAAAATAAT
86618029 ATTTACTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (15 bp):
ATGAAAATAATGTAT
Found at i:86620778 original size:12 final size:12
Alignment explanation
Indices: 86620761--86620785 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
86620751 GCCGACTACT
86620761 GTTACTGTTACC
1 GTTACTGTTACC
86620773 GTTACTGTTACC
1 GTTACTGTTACC
86620785 G
1 G
86620786 ATTCAACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:86620813 original size:45 final size:45
Alignment explanation
Indices: 86620763--86620873 Score: 186
Period size: 45 Copynumber: 2.5 Consensus size: 45
86620753 CGACTACTGT
*
86620763 TACTGTTACCGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
* * *
86620808 TACTGTTACTGTTACCGTTATCGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
86620853 TACTGTTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
86620874 TGTTCCGGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
Found at i:86620817 original size:51 final size:49
Alignment explanation
Indices: 86620748--86620878 Score: 180
Period size: 45 Copynumber: 2.7 Consensus size: 49
86620738 CAGGCACTTA
* *
86620748 TGTGCCGACTACTGTTACTGTTACCGTTACTGTTACCGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTACCGTTACTGTT--CGATTCAACACTTTG
86620799 TGTGTCGAATACTGTTACTGTTACCGTTA----TCGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTACCGTTACTGTTCGATTCAACACTTTG
* *
86620844 TGTGTTGAATACTGTTACTGTTACTGTTACTGTTC
1 TGTGTCGAATACTGTTACTGTTACCGTTACTGTTC
86620879 CGGATTTGTT
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
45 42 0.58
47 1 0.01
49 2 0.03
51 27 0.38
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.41
Consensus pattern (49 bp):
TGTGTCGAATACTGTTACTGTTACCGTTACTGTTCGATTCAACACTTTG
Found at i:86620864 original size:6 final size:6
Alignment explanation
Indices: 86620853--86620877 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
86620843 GTGTGTTGAA
86620853 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
86620878 CCGGATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:86621080 original size:18 final size:18
Alignment explanation
Indices: 86621059--86621249 Score: 149
Period size: 18 Copynumber: 10.6 Consensus size: 18
86621049 TAACTGATTA
86621059 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
86621077 TTACTGGATAATTAACTG
1 TTACTGAATAATTGACTG
*
86621095 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * * *
86621113 TTGCTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
86621131 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* * *
86621149 TTACTGAATAACTGATTA
1 TTACTGAATAATTGACTG
*
86621167 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
86621185 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
* *
86621204 TTATTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
86621221 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
86621239 TTACTGGATAA
1 TTACTGAATAA
86621250 CCGATCAATT
Statistics
Matches: 140, Mismatches: 23, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
17 19 0.14
18 104 0.74
19 17 0.12
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.39
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:86621184 original size:72 final size:72
Alignment explanation
Indices: 86621047--86621231 Score: 171
Period size: 72 Copynumber: 2.6 Consensus size: 72
86621037 AAAGGTATAA
* * * * * * * *
86621047 AATAACTGATTATTACTGAATAATTGA-CTGTTACTGGATAATTAACTGTTACTGGATATTAGAC
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGAATAACTAACTATCACTGAATAATAGAC
*
86621111 TGTTGCTG
65 TGTTACTG
* *
86621119 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTATCACTGAATGAAT-GAC
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTAACTATCACTGAAT-AATAGAC
86621183 TGTTACTG
65 TGTTACTG
* * * *
86621191 AATAACTTAATTGTTATTGAAT-ATCTGAT-TTTACTGAATAA
1 AATAACTGAA-TATTACTGAATAAT-TGATCATTACTGAATAA
86621232 TTGACTGTTA
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
72 78 0.83
73 16 0.17
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTAACTATCACTGAATAATAGACT
GTTACTG
Found at i:86621327 original size:36 final size:36
Alignment explanation
Indices: 86621256--86621329 Score: 76
Period size: 36 Copynumber: 2.1 Consensus size: 36
86621246 ATAACCGATC
* * * *
86621256 AATTGATCGATACTGAATAACTGGTTATTATTGAAT
1 AATTGATTGTTACTGAATAACTGATTATTACTGAAT
* * * *
86621292 ATTTGATTGTTACCGAATAACTGACTGTTACTGAAT
1 AATTGATTGTTACTGAATAACTGATTATTACTGAAT
86621328 AA
1 AA
86621330 ATAATTGCTC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (36 bp):
AATTGATTGTTACTGAATAACTGATTATTACTGAAT
Found at i:86633872 original size:24 final size:24
Alignment explanation
Indices: 86633840--86633899 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
86633830 AATTTTTCTC
*
86633840 CTAAATTTTATTTTATTCAATTAT
1 CTAATTTTTATTTTATTCAATTAT
* *
86633864 CTAATTTTTCAATTTATTGAATTAT
1 CTAATTTTT-ATTTTATTCAATTAT
86633889 -TAATATTTTAT
1 CTAAT-TTTTAT
86633900 ATTAATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (24 bp):
CTAATTTTTATTTTATTCAATTAT
Found at i:86640410 original size:103 final size:102
Alignment explanation
Indices: 86640231--86640432 Score: 377
Period size: 103 Copynumber: 2.0 Consensus size: 102
86640221 GTTGTGGACG
*
86640231 GATGAGTAATCCCATTGACCTTGTTATAAAAAGGATTTAGCCTGGATGGGTAATCCCGATATAAT
1 GATGAGTAATCCCATTGACCTTGTTATAAAAAGGATTTAGCCCGGATGGGTAATCCCGATATAAT
*
86640296 ACCCCTCGAGCATACGTTGTGATTAGGGATTTAGCTCA
66 ACCCCTCGAGCATACGCTGTGATTAGGG-TTTAGCTCA
86640334 GATGAGTAATCCCATTGACCTTGTTATAAAAAGGATTTAGCCCGGATGGGTAATCCCGATATAAT
1 GATGAGTAATCCCATTGACCTTGTTATAAAAAGGATTTAGCCCGGATGGGTAATCCCGATATAAT
86640399 ACCCCTCGAGCATACGCTGTGATTAGGGTTTAGC
66 ACCCCTCGAGCATACGCTGTGATTAGGGTTTAGC
86640433 CTACACTGGT
Statistics
Matches: 97, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
102 6 0.06
103 91 0.94
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (102 bp):
GATGAGTAATCCCATTGACCTTGTTATAAAAAGGATTTAGCCCGGATGGGTAATCCCGATATAAT
ACCCCTCGAGCATACGCTGTGATTAGGGTTTAGCTCA
Found at i:86644853 original size:24 final size:24
Alignment explanation
Indices: 86644826--86644941 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
86644816 TTGACATTCC
*
86644826 AATCCGCACACATAGTGCCATATA
1 AATCCGCACACATAGTGCCATACA
* *
86644850 AATCTGCACAAATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
* * *
86644874 ATTCCACACATATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
*
86644898 AGTCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
*
86644922 AGTCCGCACACATAGTGCCA
1 AATCCGCACACATAGTGCCA
86644942 AAGTCATTTC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 82 1.00
ACGTcount: A:0.36, C:0.30, G:0.14, T:0.20
Consensus pattern (24 bp):
AATCCGCACACATAGTGCCATACA
Found at i:86645404 original size:5 final size:5
Alignment explanation
Indices: 86645394--86645421 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
86645384 TAAACTGAGA
86645394 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
86645422 GAACACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:86655538 original size:24 final size:24
Alignment explanation
Indices: 86655511--86655626 Score: 178
Period size: 24 Copynumber: 4.8 Consensus size: 24
86655501 TTGACATTCC
* *
86655511 AATCCGTACACATAGTGCCATATA
1 AATCCGCACACATAGTGCCATACA
86655535 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
* * *
86655559 ATTCTGCACATATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
86655583 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
*
86655607 AGTCCGCACACATAGTGCCA
1 AATCCGCACACATAGTGCCA
86655627 AAGTCATTTC
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 83 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.21
Consensus pattern (24 bp):
AATCCGCACACATAGTGCCATACA
Found at i:86655546 original size:72 final size:72
Alignment explanation
Indices: 86655469--86655626 Score: 183
Period size: 72 Copynumber: 2.2 Consensus size: 72
86655459 TGTTTGCCCA
* * * * * * * *
86655469 CACACATAATGCCTTAGTAATTC-ACATACATATTGACATTCCAATCCGTACACATAGTGCCATA
1 CACACATAGTGCCATA-CAATTCTACACACATAGTGACATACAAATCCGCACACATAGTGCCATA
*
86655533 TAAATCCG
65 CAAATCCG
* * *
86655541 CACACATAGTGCCATACAATTCTGCACATATAGTGCCATACAAATCCGCACACATAGTGCCATAC
1 CACACATAGTGCCATACAATTCTACACACATAGTGACATACAAATCCGCACACATAGTGCCATAC
*
86655606 AAGTCCG
66 AAATCCG
86655613 CACACATAGTGCCA
1 CACACATAGTGCCA
86655627 AAGTCATTTC
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
71 5 0.07
72 67 0.93
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.23
Consensus pattern (72 bp):
CACACATAGTGCCATACAATTCTACACACATAGTGACATACAAATCCGCACACATAGTGCCATAC
AAATCCG
Found at i:86667475 original size:20 final size:21
Alignment explanation
Indices: 86667437--86667475 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
86667427 TAGTTTTCGA
*
86667437 TTTAGTTTTCTCTAGATTTCT
1 TTTAGTTTTCTCTACATTTCT
86667458 TTTAGTTTT-TCTACATTT
1 TTTAGTTTTCTCTACATTT
86667476 TTTCTAGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.13, G:0.08, T:0.64
Consensus pattern (21 bp):
TTTAGTTTTCTCTACATTTCT
Found at i:86668830 original size:32 final size:34
Alignment explanation
Indices: 86668794--86668858 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
86668784 TAACAATGGT
*
86668794 ACTGGACCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
* **
86668826 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATA
86668859 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 5 0.19
34 13 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
Found at i:86670724 original size:26 final size:26
Alignment explanation
Indices: 86670693--86670800 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
86670683 TGAAATGCCC
86670693 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
86670719 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
86670745 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
86670771 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
86670797 ATCA
1 ATCA
86670801 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:86678358 original size:27 final size:27
Alignment explanation
Indices: 86678313--86678368 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
86678303 TTACCAAATA
*
86678313 TACCCCATGTTTAACGTCCTAGCAGAC
1 TACCCCATGTTTAACGTCCTAGCAAAC
* *
86678340 TACCCCGTGTTT-ACTGTCCTGGCAAAC
1 TACCCCATGTTTAAC-GTCCTAGCAAAC
86678367 TA
1 TA
86678369 TACTGGTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29
Consensus pattern (27 bp):
TACCCCATGTTTAACGTCCTAGCAAAC
Found at i:86680654 original size:936 final size:936
Alignment explanation
Indices: 86678365--86680880 Score: 3061
Period size: 936 Copynumber: 2.7 Consensus size: 936
86678355 GTCCTGGCAA
* ** * * *
86678365 ACTATACTGGTTGTCATAGCCGAGCCACGGTATTAAG-TTTCTACTCTTTAAGTTTTCTTCCATA
1 ACTATACTGGTTGCCATAGAAGAGCCATGGTATTAAGTTTTCTTCTCTTTAAGTTTTCTTGCATA
* * * * *
86678429 AAAATCGCAGCTTTCACATTTTTCTTAGGCTTTACTTTAATAGCTACTTTTTTTTCAATTTCCAT
66 AAAATCTCAACTTTCACATTTTTCTTAAGCTTTACTTTAATAGCTGC-TTTTTTTCCATTT-CAT
* * * * *
86678494 GTCAATTTCTTTTTCTTTGAGCATGAGTAGTTAAACCTTAAGGAAGGTTGTTTGATGGAGATATG
129 GTCCATTTCTTTTACTTTGAGCATGAGTAGCTAAACCTTAAGGAAGGTTGGTTGATGGAGATGTG
* * * * *
86678559 GGTGAAATAAAACTTTTGGAAAAAGGATTAAATCGAATAAACCTTAGAACATAGGTAGT-AA-CA
194 GGT-AAATAAAACATTTGGACAAAGGACTAAATCGAATAGACCTTAGAACTTAGGTAGTGAAGC-
* ** * *
86678622 CCCATAAGTAAATATCTAAACAAGTGAGACCAGAAGGTAATCTTGTCATGCACTTGTTTATTAGT
257 CCC-TAAGGAAATATCTAGGCAAGTGAGACCAGAAGGTAATCTTGTCATGCACCTGTTCATTAGT
* * *
86678687 -TTCAGATTAATTAGTGAGATCGGAAGATAAATAGTA-ACTAATTCATCTAA-TTCGGTAAAATT
321 CTT-AGATTAACTGGTGAGATCGAAAGATAAATAGTAGA-TAATTCATCTAAGTT-GGTAAAATT
* * *
86678749 GAGATTGAAAAATAAAATGGA-CTCACTTAGTAATTTACACAATTTAAGTCCTTTGTTTGAGTAT
383 GAGATTGAAAAA-AAAATGGAGC-CACTTAGTAATTTACACGA-TTAAGTTC-TTGTTTGAGGAT
* * * *
86678813 CGATGAACCACATCAAATTCAACCAACCAACATTAGTTATTTATTGGATACCCCCTTAGTTTTAC
444 CGATGAACCACATCGAATTCAACCAACCACCATTAGTTATTTATTGGATAGCCCATTAGTTTTAC
* * * * *
86678878 ATTATTTGCAATTAAGTCATCAGAGTAGCATATCTAATTTTCTTGCAATATTTTCTTATTATGAA
509 ATCATTTACAATTTAGTCCTTAGAGTAGCATATCTAATTTTCTTGCAATATTTTCTTATTATGAA
* * * * *
86678943 TTATCGTACTATAAGATTG--TAGTAGCCACTTAGACTCTATTGTGTATACTAGTTATTGGTCAA
574 TTGTCGTACTATAAAATTGTATAGTAGCCACTTACACTCTATTGCGTATACTAGTTATTGCTCAA
* * *
86679006 TCACCATCTCCTTTAGGTTCGACTCCTTGGAATACTTTGTATTCCATCAGAACTATAAATATAAC
639 TCACCATCTCCTTCAGGATCGACCCCTTGGAATACTTTGTATTCCATCAGAACTATAAATATAAC
** * * *
86679071 AGCTGACCTATACGCTCGTTGTAAAACTAAGCTTTAAATTATTTTTATAAGCTCGTTATTTTAAT
704 AAATGACCTATACGCTCGTAGTAAAACCAAGCTTTAAATTAGTTTTATAAGCTCGTTATTTTAAT
* ** * * *
86679136 ATGCAAATACGAAGCCGGTCAACTACTCTGTGTTTATTATCTTGGCAGACTCCATATGCTGCCAT
769 ATGCAAATACGAAGCCGGTCAACTACCCCATGCTTACTATCATGGCAGACTCCATATGCTGCCAT
***
86679201 AACCGAACTATGGTCTTAGACAATATACCCTATGTTTAACATCTTGGTGGACTACTTCGTGCTTA
834 AACCGAACTATGGTCTTAGACAATATACCCTATGTTTAACATCTTGGCAAACTACTTCGTGCTTA
* * *
86679266 CTGTCTCGGCAAACTACATCGTATTTACTATCTCAGTGG
899 CTATCTCGGCAAAC-ACATCGTATTTACTATCCCAATGG
*
86679305 ACTATACTAGTTGCCATAGAAGAGCCATGGTATTAAGTTTTCTTCTCTTTAAGTTTTCTTGCATA
1 ACTATACTGGTTGCCATAGAAGAGCCATGGTATTAAGTTTTCTTCTCTTTAAGTTTTCTTGCATA
* * *
86679370 AAACTCTCAACATTCACATTTTTCTCAAGCTTTACTTTAATAGCTGCTTTGTTTTCCATTTCTAT
66 AAAATCTCAACTTTCACATTTTTCTTAAGCTTTACTTTAATAGCTGCTTT-TTTTCCATTTC-AT
* *
86679435 GTCCATTTCTTTTACTTTGAGCATGAGTACCTAAA-CTTCAAGGAAGGTTGGTTGATGGATATGT
129 GTCCATTTCTTTTACTTTGAGCATGAGTAGCTAAACCTT-AAGGAAGGTTGGTTGATGGAGATGT
* * *
86679499 GGGTAAACTAAAACATTTGGACAAAGGACTAAACCAAATAGACCTTAGAACTTAGGTAGTGACG-
193 GGGTAAA-TAAAACATTTGGACAAAGGACTAAATCGAATAGACCTTAGAACTTAGGTAGTGAAGC
* * *
86679563 CCCTAAGGAAATATCTAGGCAAGTGAGACTAGAAGGTAATCTTTTCATGCACCTGTTCATTAGGA
257 CCCTAAGGAAATATCTAGGCAAGTGAGACCAGAAGGTAATCTTGTCATGCACCTGTTCATTA-GT
* * * *
86679628 C-CAGATTAACTGGTGAGATCGAAAGATAAAATCGTAGCTAATTCATC-AAGTCGGTAAAATTGA
321 CTTAGATTAACTGGTGAGATCGAAAGAT-AAATAGTAGATAATTCATCTAAGTTGGTAAAATTGA
* * * * * *
86679691 GATTGGAAGATAAAATAGAGTCACTTAGTAATTTACACGATATAAGTGTCTTCTTTGTGGATCGA
385 GATT-GAAAAAAAAATGGAGCCACTTAGTAATTTACACGAT-TAAGT-TCTTGTTTGAGGATCGA
* * * * *
86679756 TGAAACACATCGAATACAACCAACCACCATTAGTTATTTATTAGATAGTCCATTAATTTTACATC
447 TGAACCACATCGAATTCAACCAACCACCATTAGTTATTTATTGGATAGCCCATTAGTTTTACATC
* *
86679821 ATTTACAATTTAGTCCTTAGAGTAGCATATCTAATATTCTTGCAATATTTTCTTTTTATGAATTG
512 ATTTACAATTTAGTCCTTAGAGTAGCATATCTAATTTTCTTGCAATATTTTCTTATTATGAATTG
* * * * ** *
86679886 TCATACTATAAAATTGTAATAGAAGCCACTTACACTTTATTGCGTGTTTTAGTTATTGCTCAATG
577 TCGTACTATAAAATTGT-ATAGTAGCCACTTACACTCTATTGCGTATACTAGTTATTGCTCAATC
* * * * * *
86679951 TCCATCTCCTTCGGGATCGACCCCTTGGAATACTTTGTGTTCTATTAGAACTATAAATATTACAA
641 ACCATCTCCTTCAGGATCGACCCCTTGGAATACTTTGTATTCCATCAGAACTATAAATATAACAA
* * * * * * *
86680016 ATGACCTATATGCTTGTAGTATAACCAGGCTTTACAAAATT-GTTTTATAAGTTTGTTGTTTTAA
706 ATGACCTATACGCTCGTAGTAAAACCAAGCTTT---AAATTAGTTTTATAAGCTCGTTATTTTAA
* * * * * *
86680080 TGTGCACATGCGAAGTCGGTCAACTACCCCATGCTTACTATCATGGCGGACTCCATATGTTGCCA
768 TATGCAAATACGAAGCCGGTCAACTACCCCATGCTTACTATCATGGCAGACTCCATATGCTGCCA
*** * *
86680145 TAGTTGAGCTATGGTCTTA-ACAATATACCAC-ATGTTTAACGTCTTGGCAAACTAC-TCTGTGC
833 TAACCGAACTATGGTCTTAGACAATATACC-CTATGTTTAACATCTTGGCAAACTACTTC-GTGC
* *
86680207 TTACTATCTC-G-AAA-A-A-CGTATTTATTGTCCCAATGG
896 TTACTATCTCGGCAAACACATCGTATTTACTATCCCAATGG
* * ** *
86680243 ACTATACTGGTTGCCATAGTAGAGCCATAGCCTTAAGTTTTCTTCTTTTTAAGTTTTCTTGCATA
1 ACTATACTGGTTGCCATAGAAGAGCCATGGTATTAAGTTTTCTTCTCTTTAAGTTTTCTTGCATA
* *
86680308 AAAATCTCAACTTTCACATTTTTCTTAAGCTTTACTTTAATGGTTGCATTTTTTTCCA-TTC-TG
66 AAAATCTCAACTTTCACATTTTTCTTAAGCTTTACTTTAATAGCTGC-TTTTTTTCCATTTCATG
* * * * ** *
86680371 TCCTTTTCTTTAACTTTAAACATGAGTAGCTAAACCTTAAAAAATGTTGGTTGATGGAGATGTGG
130 TCCATTTCTTTTACTTTGAGCATGAGTAGCTAAACCTTAAGGAAGGTTGGTTGATGGAGATGTGG
*
86680436 GTAAATTAAAACCTTTGGACAAAGGACTAAATCGAATAGACCTTAGAACTTAGGTAGTGAAGCCC
195 GTAAA-TAAAACATTTGGACAAAGGACTAAATCGAATAGACCTTAGAACTTAGGTAGTGAAGCCC
*
86680501 CTAAGGGAATATCTAGGCAAGTGAGACC-GAAAGGTAATCTTGTCATGCACCTGTTCATTAGTCT
259 CTAAGGAAATATCTAGGCAAGTGAGACCAG-AAGGTAATCTTGTCATGCACCTGTTCATTAGTCT
* * *
86680565 TAGATTAACTGGTGAGATTGAAAGATAAATTGTAGAAAATTCATCTAAGTTGGTAAAATTGAGAT
323 TAGATTAACTGGTGAGATCGAAAGATAAATAGTAGATAATTCATCTAAGTTGGTAAAATTGAGAT
*
86680630 TGAAATAAAAAATGGAGCCACTTAGTAATTTACACGACTTAAGCCTCTTGTTTGAGGATCGATGA
388 TGAAA-AAAAAATGGAGCCACTTAGTAATTTACACGA-TTAAG-TTCTTGTTTGAGGATCGATGA
* *
86680695 ACCACATTG-ATGTCAACCAACCACCATTCGTTATTTATTGGATAGCCCATTAGTTTTACATTC-
450 ACCACATCGAAT-TCAACCAACCACCATTAGTTATTTATTGGATAGCCCATTAGTTTTACA-TCA
* * * *
86680758 TTTACAATTTAGACCTTAGAATAGCATATCTAATTTTCTTGCAATATTTTATTGTTATGAATTGT
513 TTTACAATTTAGTCCTTAGAGTAGCATATCTAATTTTCTTGCAATATTTTCTTATTATGAATTGT
* ** * * **
86680823 CGTACTATAAAATTGTATTAGTAGTCACTTAGTCTCAATTGTGTATGTTAGTTATTGC
578 CGTACTATAAAATTGTA-TAGTAGCCACTTACACTCTATTGCGTATACTAGTTATTGC
86680881 GTAATCGCCA
Statistics
Matches: 1348, Mismatches: 192, Indels: 76
0.83 0.12 0.05
Matches are distributed among these distances:
935 136 0.10
936 309 0.23
937 6 0.00
938 124 0.09
939 5 0.00
940 303 0.22
941 204 0.15
942 4 0.00
943 121 0.09
944 43 0.03
945 88 0.07
946 5 0.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (936 bp):
ACTATACTGGTTGCCATAGAAGAGCCATGGTATTAAGTTTTCTTCTCTTTAAGTTTTCTTGCATA
AAAATCTCAACTTTCACATTTTTCTTAAGCTTTACTTTAATAGCTGCTTTTTTTCCATTTCATGT
CCATTTCTTTTACTTTGAGCATGAGTAGCTAAACCTTAAGGAAGGTTGGTTGATGGAGATGTGGG
TAAATAAAACATTTGGACAAAGGACTAAATCGAATAGACCTTAGAACTTAGGTAGTGAAGCCCCT
AAGGAAATATCTAGGCAAGTGAGACCAGAAGGTAATCTTGTCATGCACCTGTTCATTAGTCTTAG
ATTAACTGGTGAGATCGAAAGATAAATAGTAGATAATTCATCTAAGTTGGTAAAATTGAGATTGA
AAAAAAAATGGAGCCACTTAGTAATTTACACGATTAAGTTCTTGTTTGAGGATCGATGAACCACA
TCGAATTCAACCAACCACCATTAGTTATTTATTGGATAGCCCATTAGTTTTACATCATTTACAAT
TTAGTCCTTAGAGTAGCATATCTAATTTTCTTGCAATATTTTCTTATTATGAATTGTCGTACTAT
AAAATTGTATAGTAGCCACTTACACTCTATTGCGTATACTAGTTATTGCTCAATCACCATCTCCT
TCAGGATCGACCCCTTGGAATACTTTGTATTCCATCAGAACTATAAATATAACAAATGACCTATA
CGCTCGTAGTAAAACCAAGCTTTAAATTAGTTTTATAAGCTCGTTATTTTAATATGCAAATACGA
AGCCGGTCAACTACCCCATGCTTACTATCATGGCAGACTCCATATGCTGCCATAACCGAACTATG
GTCTTAGACAATATACCCTATGTTTAACATCTTGGCAAACTACTTCGTGCTTACTATCTCGGCAA
ACACATCGTATTTACTATCCCAATGG
Found at i:86691545 original size:25 final size:25
Alignment explanation
Indices: 86691504--86691554 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
86691494 ATCTGTAGAG
86691504 AGAAAATTATCTAGAGAAATTATTTT
1 AGAAAATTATCTAGAGAAATT-TTTT
*
86691530 AGAAAATT-TCTAGAGATATTTTTT
1 AGAAAATTATCTAGAGAAATTTTTT
86691554 A
1 A
86691555 TTTATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 5 0.21
25 11 0.46
26 8 0.33
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (25 bp):
AGAAAATTATCTAGAGAAATTTTTT
Found at i:86703459 original size:24 final size:24
Alignment explanation
Indices: 86703426--86703481 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
86703416 ACTTGCAGAA
*
86703426 GCAGCAGCTCTTTGTCGAGCCTCT
1 GCAGCAGCTCTTTCTCGAGCCTCT
*
86703450 GCAGCTGCTCTTTCTCGAGCCTCT
1 GCAGCAGCTCTTTCTCGAGCCTCT
86703474 GCAGCAGC
1 GCAGCAGC
86703482 CCTCTCCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.12, C:0.36, G:0.25, T:0.27
Consensus pattern (24 bp):
GCAGCAGCTCTTTCTCGAGCCTCT
Found at i:86710989 original size:45 final size:45
Alignment explanation
Indices: 86710894--86711064 Score: 173
Period size: 45 Copynumber: 3.8 Consensus size: 45
86710884 TGACGGAAAC
* * * * **
86710894 GAGTGAGACCATAGTTGAAATACACTATGGCATCATGAT-GAAAAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATAG-AAGT
* * *
86710939 AAGTAAAACCATAGCTGAAAGACGCTATGGCGTCATGATAGAAGT
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATAGAAGT
* * * * *
86710984 GAGTAAGACCATAACCGAAAGACGCTATGGCACCAAGATGGAAGT
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATAGAAGT
* * *
86711029 GAGTAAGACCATGGCTAAAAGACGCAATGGCATCAT
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCAT
86711065 TGTAAATAGG
Statistics
Matches: 101, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
45 100 0.99
46 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.18
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATAGAAGT
Found at i:86712271 original size:181 final size:181
Alignment explanation
Indices: 86711967--86712294 Score: 426
Period size: 181 Copynumber: 1.8 Consensus size: 181
86711957 CACAACCATG
* * * * *
86711967 TGATTCTTTAATTTTGGTACAGGTTTTTCCTACAGGGTCTCAGGTTGTTACACGATCATGTGATC
1 TGATTCTTTAATTTTGGTACAAGTTTTTACTACACGATCTCAGGTTGTTACACGATCATGTGACC
* * * * ** * *
86712032 CTATTTTGAATTGCACACAGTTGGGCACACATTTGGCGACACAGTCGTGTGACCCTATTTTCGAA
66 CTATTTCGAATTGCACACAGTCGAGCACACATCTAACGACACAGCCGTGTGACCCTATTTTCAAA
*
86712097 TTATACATGCTTTGGCACGAGCTGCCACATAGTCATGTGCCTCACATGGTA
131 TTATACACGCTTTGGCACGAGCTGCCACATAGTCATGTGCCTCACATGGTA
* * *
86712148 TGATTCTTTAATTTTGGTGCAAGTTTTTACTACACGATCTCAGGTTGTTACATGA-CTGTGTGAC
1 TGATTCTTTAATTTTGGTACAAGTTTTTACTACACGATCTCAGGTTGTTACACGATC-ATGTGAC
* ** *
86712212 CCTATTTCGAATTGCACACGGTCGAGCACATGTCTAACGACAC-GACCGTGTGACCCTATTTTTA
65 CCTATTTCGAATTGCACACAGTCGAGCACACATCTAACGACACAG-CCGTGTGACCCTATTTTCA
*
86712276 AATTGTACACGCTTTGGCA
129 AATTATACACGCTTTGGCA
86712295 ACACGACCAT
Statistics
Matches: 123, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
180 2 0.02
181 121 0.98
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (181 bp):
TGATTCTTTAATTTTGGTACAAGTTTTTACTACACGATCTCAGGTTGTTACACGATCATGTGACC
CTATTTCGAATTGCACACAGTCGAGCACACATCTAACGACACAGCCGTGTGACCCTATTTTCAAA
TTATACACGCTTTGGCACGAGCTGCCACATAGTCATGTGCCTCACATGGTA
Found at i:86714418 original size:7 final size:7
Alignment explanation
Indices: 86714403--86714437 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
86714393 ATCAGTTCAA
*
86714403 CTCCTCC
1 CTCCCCC
86714410 CTCCCCC
1 CTCCCCC
86714417 CT-CCCC
1 CTCCCCC
86714423 CTCCCCC
1 CTCCCCC
86714430 CTCCCCC
1 CTCCCCC
86714437 C
1 C
86714438 CACTTAATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.00, C:0.83, G:0.00, T:0.17
Consensus pattern (7 bp):
CTCCCCC
Found at i:86714426 original size:13 final size:13
Alignment explanation
Indices: 86714403--86714436 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
86714393 ATCAGTTCAA
86714403 CTCCTCCCTCCCCC
1 CTCC-CCCTCCCCC
86714417 CTCCCCCTCCCCC
1 CTCCCCCTCCCCC
86714430 CTCCCCC
1 CTCCCCC
86714437 CCACTTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.00, C:0.82, G:0.00, T:0.18
Consensus pattern (13 bp):
CTCCCCCTCCCCC
Found at i:86719538 original size:40 final size:40
Alignment explanation
Indices: 86719483--86719623 Score: 203
Period size: 40 Copynumber: 3.5 Consensus size: 40
86719473 TATTCGGATG
86719483 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
86719523 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
86719563 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
86719603 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
86719624 ATACTTGGGT
Statistics
Matches: 89, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 13 0.15
40 76 0.85
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:86727686 original size:40 final size:40
Alignment explanation
Indices: 86727628--86727851 Score: 297
Period size: 40 Copynumber: 5.5 Consensus size: 40
86727618 TATTTGGATG
86727628 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
86727668 ATTTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* *
86727711 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
86727751 ATATCCGGGCTAAGTCCTGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
86727791 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
86727831 ATATCC-AGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
86727852 ATACTTGGGT
Statistics
Matches: 164, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 12 0.07
40 113 0.69
41 1 0.01
43 38 0.23
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:86727767 original size:83 final size:80
Alignment explanation
Indices: 86727628--86727851 Score: 299
Period size: 83 Copynumber: 2.8 Consensus size: 80
86727618 TATTTGGATG
* *
86727628 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATTTCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
** *
86727693 TTTGTGCGAGTAGTTACT
66 TTCATGC---TAGTGACT
* *
86727711 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCTGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
86727776 TTCATGCTAGTGACT
66 TTCATGCTAGTGACT
* * * *
86727791 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-AGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
86727852 ATACTTGGGT
Statistics
Matches: 128, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 12 0.09
80 48 0.38
81 2 0.02
83 66 0.52
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTCATGCTAGTGACT
Found at i:86738908 original size:19 final size:20
Alignment explanation
Indices: 86738881--86738921 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
86738871 GTCCCTTGTA
*
86738881 TTTTGAAAAAAATTC-TAAG
1 TTTTCAAAAAAATTCTTAAG
*
86738900 TTTTCAAAAAATTTCTTAAG
1 TTTTCAAAAAAATTCTTAAG
86738920 TT
1 TT
86738922 ATCAGTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (20 bp):
TTTTCAAAAAAATTCTTAAG
Found at i:86740542 original size:6 final size:6
Alignment explanation
Indices: 86740525--86740579 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
86740515 AAAAAATGTC
* *
86740525 AAAATT -AAATT AAAATT AAAATTT AAAA-T ATATACT -AAATT AAAATT
1 AAAATT AAAATT AAAATT AAAA-TT AAAATT A-AAATT AAAATT AAAATT
86740572 AAAATT AA
1 AAAATT AA
86740580 TATATCACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
5 10 0.24
6 24 0.59
7 7 0.17
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (6 bp):
AAAATT
Found at i:86749192 original size:25 final size:25
Alignment explanation
Indices: 86749154--86749203 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
86749144 TTTTTGGCTA
*
86749154 AGGGTCAGTTTTTTTGGCTGGTCTG
1 AGGGTCAGTATTTTTGGCTGGTCTG
86749179 AGGGTCAGTATTTTTGGCTGGTCTG
1 AGGGTCAGTATTTTTGGCTGGTCTG
86749204 CTGGGGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.10, C:0.12, G:0.36, T:0.42
Consensus pattern (25 bp):
AGGGTCAGTATTTTTGGCTGGTCTG
Found at i:86756848 original size:35 final size:35
Alignment explanation
Indices: 86756802--86756877 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
86756792 TTTTACACCT
86756802 CATTTCATCACTTTTTCTAGCCCAAATATAAGAAA
1 CATTTCATCACTTTTTCTAGCCCAAATATAAGAAA
* *
86756837 CATTTCATCACTTTTTCTAGTCCAAATATGAGAAA
1 CATTTCATCACTTTTTCTAGCCCAAATATAAGAAA
86756872 CATTTC
1 CATTTC
86756878 CACTCCTCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (35 bp):
CATTTCATCACTTTTTCTAGCCCAAATATAAGAAA
Done.