Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 254 of 322
Found at i:84429193 original size:79 final size:80
Alignment explanation
Indices: 84428912--84429208 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
84428902 TGAATGCTGT
* ** * * * **
84428912 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
84428975 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
84428992 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
84429056 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
84429072 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
84429136 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
84429151 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
84429209 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:84440053 original size:24 final size:24
Alignment explanation
Indices: 84440021--84440069 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
84440011 ACTGAATGTG
84440021 CCTCTTATTTATTTAAAATCTTTT
1 CCTCTTATTTATTTAAAATCTTTT
84440045 CCTCTTATTTATTTAAAATCTTTT
1 CCTCTTATTTATTTAAAATCTTTT
84440069 C
1 C
84440070 TAAGGCATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.57
Consensus pattern (24 bp):
CCTCTTATTTATTTAAAATCTTTT
Found at i:84441378 original size:21 final size:20
Alignment explanation
Indices: 84441348--84441390 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
84441338 TAATATTGGT
* *
84441348 AAGTGGATTAGAAAATAAAAG
1 AAGTGAATTA-AAAAGAAAAG
84441369 AAGTGAATTAAAAAGAAAAG
1 AAGTGAATTAAAAAGAAAAG
84441389 AA
1 AA
84441391 AGGATGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (20 bp):
AAGTGAATTAAAAAGAAAAG
Found at i:84442164 original size:13 final size:13
Alignment explanation
Indices: 84442146--84442170 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84442136 TAATGGTATA
84442146 TTGAATCCATGAC
1 TTGAATCCATGAC
84442159 TTGAATCCATGA
1 TTGAATCCATGA
84442171 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:84442749 original size:27 final size:27
Alignment explanation
Indices: 84442718--84442895 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
84442708 TAAATTGTAC
84442718 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
84442745 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
84442771 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
84442799 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
84442827 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
84442854 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
84442881 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84442896 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:84442832 original size:82 final size:81
Alignment explanation
Indices: 84442719--84442874 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
84442709 AAATTGTACA
* *
84442719 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
84442783 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
84442800 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
84442865 TGCGAGTTGA
65 TGCGAATTGA
84442875 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:84442886 original size:82 final size:81
Alignment explanation
Indices: 84442715--84442895 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
84442705 GATTAAATTG
* *
84442715 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
84442780 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
84442796 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
84442860 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
84442878 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
84442896 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:84445663 original size:25 final size:23
Alignment explanation
Indices: 84445635--84445711 Score: 55
Period size: 25 Copynumber: 3.1 Consensus size: 23
84445625 AATGCTTTCT
84445635 AAATGACTTGCCACAAGGGCTCCCC
1 AAAT-ACTTGCCACAA-GGCTCCCC
* * ***
84445660 AAATAATACGCCACATAGGCTTTTC
1 AAATACT-TGCCACA-AGGCTCCCC
84445685 AAATAACTTGCCACAAAGGCTCCCC
1 AAAT-ACTTGCCAC-AAGGCTCCCC
84445710 AA
1 AA
84445712 GTAATACGCC
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
24 2 0.05
25 32 0.84
26 4 0.11
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.19
Consensus pattern (23 bp):
AAATACTTGCCACAAGGCTCCCC
Found at i:84445722 original size:25 final size:25
Alignment explanation
Indices: 84445644--84445724 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
84445634 TAAATGACTT
*
84445644 GCCACAAGGGCTCCCCAAATAATAC
1 GCCACAAAGGCTCCCCAAATAATAC
* *** *
84445669 GCCACATAGGCTTTTCAAATAACT-T
1 GCCACAAAGGCTCCCCAAATAA-TAC
*
84445694 GCCACAAAGGCTCCCCAAGTAATAC
1 GCCACAAAGGCTCCCCAAATAATAC
84445719 GCCACA
1 GCCACA
84445725 TAACTTTTTA
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
24 1 0.02
25 40 0.95
26 1 0.02
ACGTcount: A:0.35, C:0.33, G:0.15, T:0.17
Consensus pattern (25 bp):
GCCACAAAGGCTCCCCAAATAATAC
Found at i:84445758 original size:49 final size:50
Alignment explanation
Indices: 84445640--84445803 Score: 249
Period size: 50 Copynumber: 3.3 Consensus size: 50
84445630 TTTCTAAATG
* * *
84445640 ACTTGCCACAAGGGCTCCCCAAATAATACGCCACATAGGCTTTTCAAATA
1 ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
* *
84445690 ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATA-ACTTTTTAGATA
1 ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
* * *
84445739 ACTTGCCACAAAAGTTCCCCAAGTAATACGCAACATAGGCTTTTCAGATA
1 ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
84445789 ACTTGCCACAAAGGC
1 ACTTGCCACAAAGGC
84445804 CCTATGTGGT
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 43 0.43
50 58 0.57
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.23
Consensus pattern (50 bp):
ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
Found at i:84452569 original size:28 final size:28
Alignment explanation
Indices: 84452529--84452583 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
84452519 CCGACAAAGA
*
84452529 AAGTGACGTTTCATAACTCTAACTCGAT
1 AAGTGACATTTCATAACTCTAACTCGAT
*
84452557 AAGTGACATTTCATAACTCTGACTCGA
1 AAGTGACATTTCATAACTCTAACTCGA
84452584 CGATCGAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (28 bp):
AAGTGACATTTCATAACTCTAACTCGAT
Found at i:84457812 original size:16 final size:16
Alignment explanation
Indices: 84457793--84457823 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84457783 GAAGGCACTT
84457793 TTGAGTTATAAAAATG
1 TTGAGTTATAAAAATG
*
84457809 TTGAGTTATGAAAAT
1 TTGAGTTATAAAAAT
84457824 TAAAGACGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (16 bp):
TTGAGTTATAAAAATG
Found at i:84458541 original size:12 final size:12
Alignment explanation
Indices: 84458524--84458549 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84458514 CAAAATTGTG
84458524 AAAAATAAAATA
1 AAAAATAAAATA
84458536 AAAAATAAAATA
1 AAAAATAAAATA
84458548 AA
1 AA
84458550 GAACACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:84464814 original size:13 final size:13
Alignment explanation
Indices: 84464798--84464830 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
84464788 TGAGAGAATT
84464798 TAAATAAATAAAA
1 TAAATAAATAAAA
*
84464811 TAAATAAATAATA
1 TAAATAAATAAAA
84464824 -AAATAAA
1 TAAATAAA
84464831 CAAACGACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:84464819 original size:8 final size:9
Alignment explanation
Indices: 84464799--84464830 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
84464789 GAGAGAATTT
84464799 AAATAAATA
1 AAATAAATA
84464808 AAATAAAT-
1 AAATAAATA
84464816 AAAT-AATA
1 AAATAAATA
84464824 AAATAAA
1 AAATAAA
84464831 CAAACGACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 3 0.14
8 8 0.38
9 10 0.48
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAATAAATA
Found at i:84466510 original size:18 final size:18
Alignment explanation
Indices: 84466487--84466524 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
84466477 GACTTATGAC
84466487 TTAGTATGCATTCGCTGG
1 TTAGTATGCATTCGCTGG
*
84466505 TTAGTATGCATTTGCTGG
1 TTAGTATGCATTCGCTGG
84466523 TT
1 TT
84466525 TAAGTAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.13, G:0.26, T:0.45
Consensus pattern (18 bp):
TTAGTATGCATTCGCTGG
Found at i:84467246 original size:37 final size:36
Alignment explanation
Indices: 84467192--84467327 Score: 121
Period size: 37 Copynumber: 3.6 Consensus size: 36
84467182 CCAGATACAG
* *
84467192 ATATTGTGGCTAGGCCACCAGAACAGATATATATAT
1 ATATTGTGGCGAAGCCACCAGAACAGATATATATAT
* ** * *
84467228 ATATATGTGGCGAAGCCACCAGATTGCAG-TGAGGCTGTCAA
1 ATAT-TGTGGCGAAGCCACCAGA--ACAGAT-A-TATAT-AT
* *
84467269 ATATTGTGACGAAGTCACCAGAACAGATATATATAT
1 ATATTGTGGCGAAGCCACCAGAACAGATATATATAT
84467305 ATATATGTGGCGAAGCCACCAGA
1 ATAT-TGTGGCGAAGCCACCAGA
84467328 TTGCAGTGAG
Statistics
Matches: 76, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
36 9 0.12
37 34 0.45
38 5 0.07
39 5 0.07
40 18 0.24
41 5 0.07
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (36 bp):
ATATTGTGGCGAAGCCACCAGAACAGATATATATAT
Found at i:84467319 original size:77 final size:77
Alignment explanation
Indices: 84467207--84467377 Score: 342
Period size: 77 Copynumber: 2.2 Consensus size: 77
84467197 GTGGCTAGGC
84467207 CACCAGAACAGATATATATATATATATGTGGCGAAGCCACCAGATTGCAGTGAGGCTGTCAAATA
1 CACCAGAACAGATATATATATATATATGTGGCGAAGCCACCAGATTGCAGTGAGGCTGTCAAATA
84467272 TTGTGACGAAGT
66 TTGTGACGAAGT
84467284 CACCAGAACAGATATATATATATATATGTGGCGAAGCCACCAGATTGCAGTGAGGCTGTCAAATA
1 CACCAGAACAGATATATATATATATATGTGGCGAAGCCACCAGATTGCAGTGAGGCTGTCAAATA
84467349 TTGTGACGAAGT
66 TTGTGACGAAGT
84467361 CACCAGAACAGATATAT
1 CACCAGAACAGATATAT
84467378 GTGGCGAGGC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 94 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (77 bp):
CACCAGAACAGATATATATATATATATGTGGCGAAGCCACCAGATTGCAGTGAGGCTGTCAAATA
TTGTGACGAAGT
Found at i:84467662 original size:8 final size:8
Alignment explanation
Indices: 84467649--84467680 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
84467639 TACCAAAGTG
84467649 GGCCCATT
1 GGCCCATT
84467657 GGCCCATT
1 GGCCCATT
84467665 GGCCCATT
1 GGCCCATT
*
84467673 AGCCCATT
1 GGCCCATT
84467681 TTCAGCCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.16, C:0.38, G:0.22, T:0.25
Consensus pattern (8 bp):
GGCCCATT
Found at i:84468029 original size:26 final size:27
Alignment explanation
Indices: 84468000--84468053 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
84467990 TCACACAAGT
*
84468000 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
84468026 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
84468053 T
1 T
84468054 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:84468085 original size:27 final size:27
Alignment explanation
Indices: 84468054--84468253 Score: 283
Period size: 27 Copynumber: 7.4 Consensus size: 27
84468044 GGGGCAAAAT
* * * *
84468054 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
84468081 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84468108 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84468135 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
84468162 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
84468189 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84468216 GGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
84468243 GGTAATTCTAC
1 GGTAATTCTAC
84468254 AACTTATCCA
Statistics
Matches: 152, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 152 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:84479238 original size:18 final size:18
Alignment explanation
Indices: 84479215--84479250 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
84479205 AAGAAGATAG
84479215 TTACAAAAATTGATTATA
1 TTACAAAAATTGATTATA
84479233 TTACAAAAATTGATTATA
1 TTACAAAAATTGATTATA
84479251 GAATAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (18 bp):
TTACAAAAATTGATTATA
Found at i:84479258 original size:18 final size:18
Alignment explanation
Indices: 84479217--84479258 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
84479207 GAAGATAGTT
**
84479217 ACAAAAATTGATTATATT
1 ACAAAAATTGATTATAGA
84479235 ACAAAAATTGATTATAGA
1 ACAAAAATTGATTATAGA
*
84479253 ATAAAA
1 ACAAAA
84479259 TTATACGCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (18 bp):
ACAAAAATTGATTATAGA
Found at i:84483282 original size:11 final size:11
Alignment explanation
Indices: 84483220--84483290 Score: 63
Period size: 11 Copynumber: 6.5 Consensus size: 11
84483210 CTGAACTAAA
* *
84483220 AGAATTAAGTG
1 AGAATTGAGAG
*
84483231 AGAATTAAGAG
1 AGAATTGAGAG
*
84483242 AGAATTGAAAG
1 AGAATTGAGAG
*
84483253 AGGATTGAGA-
1 AGAATTGAGAG
84483263 ATGAATTGAGAG
1 A-GAATTGAGAG
*
84483275 AGAGTTGAGAG
1 AGAATTGAGAG
*
84483286 TGAAT
1 AGAAT
84483291 AAAAAAAGTG
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
10 1 0.02
11 47 0.96
12 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (11 bp):
AGAATTGAGAG
Found at i:84484630 original size:15 final size:15
Alignment explanation
Indices: 84484610--84484658 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
84484600 ATAATTTAAG
84484610 TTCAATACTTAAATT
1 TTCAATACTTAAATT
**
84484625 TTCAATACTTATTTT
1 TTCAATACTTAAATT
** *
84484640 TTCAGCATTTAAATT
1 TTCAATACTTAAATT
84484655 TTCA
1 TTCA
84484659 GTTTATCAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.51
Consensus pattern (15 bp):
TTCAATACTTAAATT
Found at i:84486751 original size:19 final size:19
Alignment explanation
Indices: 84486709--84486745 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
84486699 AAAATATTAT
84486709 AAAAATTATTAAATTTTAG
1 AAAAATTATTAAATTTTAG
84486728 AAAAATTATTAAATTTTA
1 AAAAATTATTAAATTTTA
84486746 ATAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
AAAAATTATTAAATTTTAG
Found at i:84486792 original size:40 final size:38
Alignment explanation
Indices: 84486738--84486829 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
84486728 AAAAATTATT
* * *
84486738 AAATTTTAATAAAAATATAAAAAA-TTAAATTTTTTTATAA
1 AAATCTTAAAAAAAATA-AAAAAATTTAAA--ATTTTATAA
84486778 AAATCTTAAAAAAAATAAAAAAATTTAAAATTTTATAA
1 AAATCTTAAAAAAAATAAAAAAATTTAAAATTTTATAA
*
84486816 AAATCATAAAAAAA
1 AAATCTTAAAAAAA
84486830 TTAGTGACCT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 21 0.45
39 6 0.13
40 20 0.43
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (38 bp):
AAATCTTAAAAAAAATAAAAAAATTTAAAATTTTATAA
Found at i:84487052 original size:10 final size:10
Alignment explanation
Indices: 84487039--84487101 Score: 69
Period size: 10 Copynumber: 6.5 Consensus size: 10
84487029 CTTCATAAAA
84487039 TTTTATAATT
1 TTTTATAATT
*
84487049 TTTT-TTATAT
1 TTTTATAAT-T
* *
84487059 TTCTAT-ATA
1 TTTTATAATT
84487068 TTTTATAATT
1 TTTTATAATT
84487078 TTTTATAA-T
1 TTTTATAATT
84487087 TTTTATAATT
1 TTTTATAATT
84487097 TTTTA
1 TTTTA
84487102 ATATTTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
9 17 0.39
10 26 0.59
11 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTATAATT
Found at i:84487070 original size:29 final size:27
Alignment explanation
Indices: 84487037--84487112 Score: 89
Period size: 29 Copynumber: 2.7 Consensus size: 27
84487027 AACTTCATAA
84487037 AATTTTATAATTTTTTTTATATTTCTAT
1 AATTTTATAATTTTTTTTA-ATTTCTAT
* *
84487065 ATATTTTATAATTTTTTATAATTTTTAT
1 A-ATTTTATAATTTTTTTTAATTTCTAT
*
84487093 AATTTTTTAATATTTATTTT
1 AATTTTATAAT-TTT-TTTT
84487113 TTAATTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 9 0.22
28 12 0.29
29 20 0.49
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.68
Consensus pattern (27 bp):
AATTTTATAATTTTTTTTAATTTCTAT
Found at i:84487084 original size:17 final size:17
Alignment explanation
Indices: 84487051--84487107 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 17
84487041 TTATAATTTT
*
84487051 TTTTAT-ATTTCTATATA
1 TTTTATAATTT-TTTATA
84487068 TTTTATAATTTTTTATAA
1 TTTTATAATTTTTTAT-A
84487086 TTTTTATAATTTTTTAATA
1 -TTTTATAATTTTTT-ATA
84487105 TTT
1 TTT
84487108 ATTTTTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
17 10 0.29
18 8 0.23
19 15 0.43
20 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATAATTTTTTATA
Found at i:84487099 original size:19 final size:19
Alignment explanation
Indices: 84486965--84487101 Score: 77
Period size: 19 Copynumber: 7.1 Consensus size: 19
84486955 TTTTGGTACG
84486965 ATAATTTTTATAAAGTTTTTT
1 ATAATTTTTAT-AA-TTTTTT
*
84486986 ACTAA-ATTTAT-ATTTCTTT
1 A-TAATTTTTATAATTT-TTT
* *
84487005 A-CATTTTGTATAACTTTCTT
1 ATAATTTT-TATAA-TTTTTT
* * **
84487025 ATAA-CTTCATAAAATTTT
1 ATAATTTTTATAATTTTTT
* * *
84487043 ATAATTTTTTTTATATTTCT
1 ATAATTTTTATAAT-TTTTT
84487063 AT-ATATTTTATAATTTTTT
1 ATAAT-TTTTATAATTTTTT
84487082 ATAATTTTTATAATTTTTT
1 ATAATTTTTATAATTTTTT
84487101 A
1 A
84487102 ATATTTATTT
Statistics
Matches: 85, Mismatches: 20, Indels: 24
0.66 0.16 0.19
Matches are distributed among these distances:
17 1 0.01
18 12 0.14
19 39 0.46
20 20 0.24
21 10 0.12
22 3 0.04
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (19 bp):
ATAATTTTTATAATTTTTT
Found at i:84487299 original size:89 final size:90
Alignment explanation
Indices: 84487181--84487405 Score: 312
Period size: 89 Copynumber: 2.5 Consensus size: 90
84487171 TTTAATAAAT
* *
84487181 GTAGGGGCTTAATTGCTTTTATTTTTGAAAAAGTTTGAGGATCTTTTTGATGTATTTTGAAAGTT
1 GTAGGGGCTTAATTGC--TT-TTTTTGAAAAAGTTTGAGGATCTTTTTGATGCATTTTGAAAATT
* * *
84487246 CAAGTACCCAATTGAATGC-GAAAAAGA
63 CAAATACCCAAATGAATGCAAAAAAAGA
* * * *
84487273 GTAGGGGCTTAATTGGTTTTTTTGAAAAGGTCTGAGGGTCTTTTTGATGCATTTTGAAAATTCAA
1 GTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGATCTTTTTGATGCATTTTGAAAATTCAA
*
84487338 ATACCCAAATGAGTGCAAAAAAAGA
66 ATACCCAAATGAATGCAAAAAAAGA
84487363 GTAGGGGCTTAATTGCTTTTTTTG-AAAAGTTTGAGGA-CTTTTT
1 GTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGATCTTTTT
84487406 ACACCCTCAA
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
88 6 0.05
89 65 0.55
90 32 0.27
92 15 0.13
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (90 bp):
GTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGATCTTTTTGATGCATTTTGAAAATTCAA
ATACCCAAATGAATGCAAAAAAAGA
Found at i:84492662 original size:55 final size:55
Alignment explanation
Indices: 84492579--84492688 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
84492569 CTTGGAATGC
84492579 ATATATTCACTCCATAAGATATGAGAGGAATGAAAGGTTTTTTTGGGTGGTCTTT
1 ATATATTCACTCCATAAGATATGAGAGGAATGAAAGGTTTTTTTGGGTGGTCTTT
* *
84492634 ATATATTCACTCCATACGATATGAGAGGAATGAAAGGTTTTTTTTGGTGGTCTTT
1 ATATATTCACTCCATAAGATATGAGAGGAATGAAAGGTTTTTTTGGGTGGTCTTT
84492689 TTTTGCTGCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (55 bp):
ATATATTCACTCCATAAGATATGAGAGGAATGAAAGGTTTTTTTGGGTGGTCTTT
Found at i:84493739 original size:18 final size:17
Alignment explanation
Indices: 84493712--84493759 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
84493702 AGAAAAGAGG
*
84493712 TATTTCTATTTTCATATT
1 TATTTATATTTTCAT-TT
84493730 TATTTATATTTTCATTT
1 TATTTATATTTTCATTT
* *
84493747 CATTTATACTTTC
1 TATTTATATTTTC
84493760 CAACATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTATATTTTCATTT
Found at i:84493753 original size:17 final size:18
Alignment explanation
Indices: 84493713--84493759 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
84493703 GAAAAGAGGT
* *
84493713 ATTTCTATTTTCATATTT
1 ATTTATATTTTCATATTC
84493731 ATTTATATTTTCAT-TTC
1 ATTTATATTTTCATATTC
*
84493748 ATTTATACTTTC
1 ATTTATATTTTC
84493760 CAACATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTATATTTTCATATTC
Found at i:84502498 original size:17 final size:17
Alignment explanation
Indices: 84502476--84502512 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
84502466 AGAACTAAAT
84502476 ATTATGTTGCTACGACG
1 ATTATGTTGCTACGACG
84502493 ATTATGTTGCTACGACG
1 ATTATGTTGCTACGACG
84502510 ATT
1 ATT
84502513 CTAACATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (17 bp):
ATTATGTTGCTACGACG
Found at i:84505248 original size:27 final size:27
Alignment explanation
Indices: 84505177--84505335 Score: 146
Period size: 27 Copynumber: 5.9 Consensus size: 27
84505167 GCGAGGCTGC
* * * *
84505177 CAGATAT-TGTGACGGAGTCACTAGATA
1 CAGATATATGTGGCAGAGCCACCAGA-A
84505204 CAGATAT-TGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAA
* *
84505230 CAGATATATGCGGCAGAGCCACCAGAT
1 CAGATATATGTGGCAGAGCCACCAGAA
* * * *
84505257 CAGATA-ATTGTTGCATAGCCACCGGGA
1 CAGATATA-TGTGGCAGAGCCACCAGAA
*
84505284 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATATATGTGGCAGAGCCACCAGAA
* *
84505311 CAGATA-ATTATGGCATAGCCACCAG
1 CAGATATA-TGTGGCAGAGCCACCAG
84505336 GACGCTTCCT
Statistics
Matches: 109, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
26 10 0.09
27 98 0.90
28 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATATGTGGCAGAGCCACCAGAA
Found at i:84505287 original size:54 final size:54
Alignment explanation
Indices: 84505199--84505338 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 54
84505189 CGGAGTCACT
* *
84505199 AGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGCGGCAGAGCCACC
1 AGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAGAGCCACC
* * *
84505253 AGATCAGATAATTGTTGCATAGCCACCGGGACAGATATATGTGGCAGAGCCACC
1 AGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAGAGCCACC
*
84505307 AGATCAGATAATTATGGCATAGCCACCAGGAC
1 AGATCAGATAATTGTGGCATAGCCACCAGGAC
84505339 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 5 0.06
54 72 0.94
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
AGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAGAGCCACC
Found at i:84510947 original size:27 final size:26
Alignment explanation
Indices: 84510899--84511057 Score: 169
Period size: 27 Copynumber: 5.9 Consensus size: 26
84510889 GCGAGGCTGC
* *
84510899 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
*
84510925 ACAGATATTGTGGCAGAGCCACCAGAA
1 -CAGATATTGTGGCAGAGCCACCAGAT
84510952 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
* * *
84510979 CAGATAATTGTGGTATAGCCACCGGGAT
1 CAGAT-ATTGTGGCAGAGCCACC-AGAT
84511007 -AGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
* *
84511033 CAGATAATTATGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
84511058 GACCCTTCCT
Statistics
Matches: 113, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
26 12 0.11
27 93 0.82
28 8 0.07
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:84510989 original size:54 final size:54
Alignment explanation
Indices: 84510917--84511057 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 54
84510907 GTGACGAAGT
*
84510917 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * * *
84510971 CACCAGATCAGATAATTGTGGTATAGCCACCGGGATAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
84511025 CACCAGATCAGATAATTATGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
84511058 GACCCTTCCT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 5 0.06
54 73 0.94
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:84512671 original size:26 final size:26
Alignment explanation
Indices: 84512640--84512903 Score: 447
Period size: 26 Copynumber: 10.2 Consensus size: 26
84512630 TGAAATGCCC
*
84512640 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
84512666 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
84512692 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
84512718 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
84512744 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
84512770 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
84512796 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
84512822 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
84512848 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
84512874 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
84512900 ATCA
1 ATCA
84512904 ATTTGTACCA
Statistics
Matches: 221, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 221 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:84512717 original size:52 final size:52
Alignment explanation
Indices: 84512640--84512903 Score: 510
Period size: 52 Copynumber: 5.1 Consensus size: 52
84512630 TGAAATGCCC
* *
84512640 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
84512692 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
84512744 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
84512796 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
84512848 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
84512900 ATCA
1 ATCA
84512904 ATTTGTACCA
Statistics
Matches: 210, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 210 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
Found at i:84514507 original size:40 final size:42
Alignment explanation
Indices: 84514434--84514511 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 42
84514424 CCTGGAAAAT
* * *
84514434 AAATAATATAAAAAATGAGAAGATAATCTTGGGTTGTTCAAA
1 AAATAATATAAAAAATGAGAAGAAAAACATGGGTTGTTCAAA
*
84514476 AAATAAT-TTAAAAA-GAGAAGAAAAACATGGGTTGTT
1 AAATAATATAAAAAATGAGAAGAAAAACATGGGTTGTT
84514512 GGAGTTACCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 19 0.59
41 6 0.19
42 7 0.22
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.27
Consensus pattern (42 bp):
AAATAATATAAAAAATGAGAAGAAAAACATGGGTTGTTCAAA
Found at i:84515042 original size:29 final size:29
Alignment explanation
Indices: 84515000--84515057 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
84514990 AAGGGTTTGA
84515000 TTGGTTAGATTAAAATTAAATGAAATGAG
1 TTGGTTAGATTAAAATTAAATGAAATGAG
84515029 TTGGTTAGATTAAAATTAAATGAAATGAG
1 TTGGTTAGATTAAAATTAAATGAAATGAG
84515058 CAAGTATCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (29 bp):
TTGGTTAGATTAAAATTAAATGAAATGAG
Found at i:84517432 original size:43 final size:43
Alignment explanation
Indices: 84517365--84517533 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 43
84517355 AAAGCTCGTA
* * * *
84517365 CAATGCC-ATATCCCAAATATGGTCTTACATGTTATCACATAT
1 CAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACATAT
* * ** * *
84517407 CAATGCCACTGTCCCAGATAGGGTCTTACACAAAATCAAATAA
1 CAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACATAT
* ** *
84517450 CGACACCAATGTCCCAGACATGGTCTTACACGTAATCACA-AT
1 CAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACATAT
* * *
84517492 ACAATGCCAATGTCCTAGAAATGGTCTTACATGTAATCACAT
1 -CAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACAT
84517534 CTTGGTAATC
Statistics
Matches: 98, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
42 8 0.08
43 90 0.92
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACATAT
Found at i:84519055 original size:56 final size:56
Alignment explanation
Indices: 84518969--84519101 Score: 196
Period size: 56 Copynumber: 2.4 Consensus size: 56
84518959 ATGGTATCGA
* * * *
84518969 TATATCTGTGCAAGTAAGACCACGTTTAATACTTTGGCA-TCGATATGTGATTCCGT
1 TATATGTGTGCGAGTAAGACCACGTTTAATACATTGG-AGTCGATATGTGACTCCGT
*
84519025 TATATGTGTGCGAGTAAGACCACGTTTAATAGATTGGAGTCGATATGTGACTCCGT
1 TATATGTGTGCGAGTAAGACCACGTTTAATACATTGGAGTCGATATGTGACTCCGT
*
84519081 CATATGTGTGCGAGTAAGACC
1 TATATGTGTGCGAGTAAGACC
84519102 CTGTCTGGGA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
55 1 0.01
56 69 0.99
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (56 bp):
TATATGTGTGCGAGTAAGACCACGTTTAATACATTGGAGTCGATATGTGACTCCGT
Found at i:84520728 original size:38 final size:38
Alignment explanation
Indices: 84520677--84520753 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
84520667 TTCGGTTATG
84520677 TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
1 TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
84520715 TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
1 TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
84520753 T
1 T
84520754 TATTGATTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (38 bp):
TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
Found at i:84520944 original size:15 final size:15
Alignment explanation
Indices: 84520924--84520957 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
84520914 ATATTTAGCC
84520924 GAATATGTGATTATT
1 GAATATGTGATTATT
84520939 GAATATGTGATTATT
1 GAATATGTGATTATT
84520954 GAAT
1 GAAT
84520958 TAGTTTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (15 bp):
GAATATGTGATTATT
Found at i:84522768 original size:19 final size:19
Alignment explanation
Indices: 84522730--84522771 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
84522720 TGATTTGCTT
84522730 TCACTAGCCTCATCAATTTC
1 TCACTAGCCTCA-CAATTTC
84522750 TCACATAGCCTCA-AATTTC
1 TCAC-TAGCCTCACAATTTC
84522769 TCA
1 TCA
84522772 ACTTTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.29, C:0.33, G:0.05, T:0.33
Consensus pattern (19 bp):
TCACTAGCCTCACAATTTC
Found at i:84523598 original size:24 final size:24
Alignment explanation
Indices: 84523571--84523617 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
84523561 AAATATGTAG
*
84523571 ACTTATTT-AAACAGCCAATAATAT
1 ACTT-TTTCAAACAGCCAAAAATAT
*
84523595 ACTTTTTCAAACAGTCAAAAATA
1 ACTTTTTCAAACAGCCAAAAATA
84523618 GTTCAGGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (24 bp):
ACTTTTTCAAACAGCCAAAAATAT
Found at i:84530238 original size:4 final size:4
Alignment explanation
Indices: 84530229--84530256 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
84530219 AAGTTTTATT
84530229 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
84530257 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:84539741 original size:29 final size:28
Alignment explanation
Indices: 84539691--84539778 Score: 131
Period size: 28 Copynumber: 3.1 Consensus size: 28
84539681 TTGCATGACA
84539691 ATGAATGTGATTGGGCCTAATGGGCCAT
1 ATGAATGTGATTGGGCCTAATGGGCCAT
84539719 ATGAATGTGATTTGGGCCTAATGGGCCAT
1 ATGAATGTGA-TTGGGCCTAATGGGCCAT
* * * *
84539748 ATGAAAGAGATTGGGCCTAGTGGGCCTT
1 ATGAATGTGATTGGGCCTAATGGGCCAT
84539776 ATG
1 ATG
84539779 CATATATGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 29 0.53
29 26 0.47
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.28
Consensus pattern (28 bp):
ATGAATGTGATTGGGCCTAATGGGCCAT
Found at i:84539771 original size:28 final size:28
Alignment explanation
Indices: 84539699--84539778 Score: 115
Period size: 29 Copynumber: 2.8 Consensus size: 28
84539689 CAATGAATGT
* *
84539699 GATTGGGCCTAATGGGCCATATGAATGT
1 GATTGGGCCTAATGGGCCATATGAAAGA
84539727 GATTTGGGCCTAATGGGCCATATGAAAGA
1 GA-TTGGGCCTAATGGGCCATATGAAAGA
* *
84539756 GATTGGGCCTAGTGGGCCTTATG
1 GATTGGGCCTAATGGGCCATATG
84539779 CATATATGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
28 21 0.45
29 26 0.55
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.28
Consensus pattern (28 bp):
GATTGGGCCTAATGGGCCATATGAAAGA
Found at i:84557115 original size:17 final size:17
Alignment explanation
Indices: 84557089--84557127 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
84557079 AAACAGTCTA
* *
84557089 CCAAACCTTAAAGTTTG
1 CCAAAACTTAAAGTTCG
*
84557106 CCAAAACTTAGAGTTCG
1 CCAAAACTTAAAGTTCG
84557123 CCAAA
1 CCAAA
84557128 TAGAGAATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (17 bp):
CCAAAACTTAAAGTTCG
Found at i:84558832 original size:25 final size:23
Alignment explanation
Indices: 84558780--84558844 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 23
84558770 TTGGAAAGAC
*
84558780 ATTT-TGGCTAATTCTCTAAAAG
1 ATTTGTGGTTAATTCTCTAAAAG
84558802 ATTTTGTGGTTAATTCTCTAAAAAG
1 A-TTTGTGGTTAATTCTCT-AAAAG
*
84558827 TATTTGTGGTAAATTCTC
1 -ATTTGTGGTTAATTCTC
84558845 CGAAAAGCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 1 0.03
23 3 0.08
24 12 0.32
25 20 0.54
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (23 bp):
ATTTGTGGTTAATTCTCTAAAAG
Found at i:84558850 original size:25 final size:25
Alignment explanation
Indices: 84558804--84558851 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
84558794 TCTAAAAGAT
* *
84558804 TTTGTGGTTAATTCTCTAAAAAGTA
1 TTTGTGGTAAATTCTCCAAAAAGTA
*
84558829 TTTGTGGTAAATTCTCCGAAAAG
1 TTTGTGGTAAATTCTCCAAAAAG
84558852 CCATTGTGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (25 bp):
TTTGTGGTAAATTCTCCAAAAAGTA
Found at i:84559323 original size:14 final size:14
Alignment explanation
Indices: 84559304--84559330 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
84559294 ACGCCATCCG
84559304 ATCAAATATAGAAA
1 ATCAAATATAGAAA
84559318 ATCAAATATAGAA
1 ATCAAATATAGAA
84559331 GGGTGAGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (14 bp):
ATCAAATATAGAAA
Found at i:84563010 original size:48 final size:48
Alignment explanation
Indices: 84562939--84563180 Score: 412
Period size: 48 Copynumber: 5.0 Consensus size: 48
84562929 CAAGATAAAT
* * *
84562939 ATATATATGTGTGGTAAAGCCGAATGGGTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
84562987 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
84563035 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
84563083 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
84563131 ATATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
84563179 AT
1 AT
84563181 GTGTGTATAT
Statistics
Matches: 185, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 185 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:84563371 original size:37 final size:37
Alignment explanation
Indices: 84563321--84563423 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
84563311 GGAAATATAT
84563321 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
84563358 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
84563395 TCTGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
84563424 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:84569799 original size:28 final size:28
Alignment explanation
Indices: 84569765--84569818 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
84569755 CAATACAGTT
84569765 TGGGCCTAAGCCCA-TATCAGTAACAGAC
1 TGGGCCTAAGCCCATTA-CAGTAACAGAC
* *
84569793 TGGGCCTGAGCCTATTACAGTAACAG
1 TGGGCCTAAGCCCATTACAGTAACAG
84569819 TAATAGTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (28 bp):
TGGGCCTAAGCCCATTACAGTAACAGAC
Found at i:84575011 original size:51 final size:50
Alignment explanation
Indices: 84574932--84575081 Score: 196
Period size: 49 Copynumber: 3.0 Consensus size: 50
84574922 TATTGTGAGG
*
84574932 TCACGTGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-GATAACTTCGA
* * *
84574983 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC-A-GACTGTTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGATAACT-TCGA
* * *
84575032 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTCG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-GATAACTTCG
84575082 GCTACAAGTG
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
48 3 0.04
49 40 0.47
51 40 0.47
52 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGATAACTTCGA
Found at i:84576467 original size:20 final size:20
Alignment explanation
Indices: 84576393--84576511 Score: 125
Period size: 20 Copynumber: 6.0 Consensus size: 20
84576383 TGTCAGTATA
84576393 TGGCACAAAGCCAT-AAGTAG
1 TGGCACAAAGCCATCAA-TAG
* * * *
84576413 CGGCTCGAAGCCATCAGTAG
1 TGGCACAAAGCCATCAATAG
*
84576433 CGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAG
84576453 TGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAG
** *
84576473 TGGCA-AATTTCCATGAATAG
1 TGGCACAA-AGCCATCAATAG
*
84576493 TGGCACAAAGCCATAAATA
1 TGGCACAAAGCCATCAATA
84576512 TCACAGTAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.02
20 77 0.94
21 3 0.04
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TGGCACAAAGCCATCAATAG
Found at i:84577212 original size:8 final size:8
Alignment explanation
Indices: 84577199--84577225 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
84577189 AAGGCCATCC
84577199 TTTCGGCT
1 TTTCGGCT
84577207 TTTCGGCT
1 TTTCGGCT
84577215 TTTCGGCT
1 TTTCGGCT
84577223 TTT
1 TTT
84577226 GCGGATCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.22, G:0.22, T:0.56
Consensus pattern (8 bp):
TTTCGGCT
Found at i:84581145 original size:6 final size:6
Alignment explanation
Indices: 84581134--84581163 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
84581124 TTTTTTCTCG
*
84581134 TTTTGA TTTTGA TTTTGA TTTTCA TTTTGA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
84581164 GAAAACTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.13, T:0.67
Consensus pattern (6 bp):
TTTTGA
Found at i:84584311 original size:51 final size:51
Alignment explanation
Indices: 84584233--84584336 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
84584223 TCATGTTAAT
*
84584233 TGTATGCTTAACATTAATAAATGTAATTAGTAAGTTTTAACTCCTATTATA
1 TGTATGCTTAACATTAATAAATATAATTAGTAAGTTTTAACTCCTATTATA
*
84584284 TGTATGCTTAACATTAATAAATATAATTGGTAAGTTTTAACTCCTATTATA
1 TGTATGCTTAACATTAATAAATATAATTAGTAAGTTTTAACTCCTATTATA
84584335 TG
1 TG
84584337 AACTTACTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.43
Consensus pattern (51 bp):
TGTATGCTTAACATTAATAAATATAATTAGTAAGTTTTAACTCCTATTATA
Found at i:84584845 original size:15 final size:15
Alignment explanation
Indices: 84584825--84584859 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
84584815 AGACAGAGGC
84584825 GTGTGTCTCAGCCGT
1 GTGTGTCTCAGCCGT
84584840 GTGTGTCTCAGCCGT
1 GTGTGTCTCAGCCGT
*
84584855 TTGTG
1 GTGTG
84584860 CTACATGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.23, G:0.34, T:0.37
Consensus pattern (15 bp):
GTGTGTCTCAGCCGT
Found at i:84592674 original size:49 final size:50
Alignment explanation
Indices: 84592607--84592853 Score: 309
Period size: 49 Copynumber: 5.0 Consensus size: 50
84592597 AGCTATTGTG
* *
84592607 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * *
84592657 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT
* * * * *
84592707 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * *
84592757 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * *
84592807 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
84592854 CTTCGGCTAC
Statistics
Matches: 167, Mismatches: 28, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 81 0.49
50 48 0.29
51 38 0.23
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:84592744 original size:28 final size:28
Alignment explanation
Indices: 84592712--84592795 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
84592702 AACTTCGATC
84592712 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
84592740 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
84592762 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
84592790 ACGTGT
1 ACGTGT
84592796 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:84598348 original size:26 final size:26
Alignment explanation
Indices: 84598319--84598376 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
84598309 GAATTTTTGA
84598319 TGAAATGAGCTATTTG-GGG-TAAATTG
1 TGAAATGAG-T-TTTGAGGGATAAATTG
84598345 TGAAAATGAGTTTTGAGGGATTAAATTG
1 TG-AAATGAGTTTTGAGGGA-TAAATTG
84598373 TGAA
1 TGAA
84598377 TTAAATGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
25 4 0.14
26 6 0.21
27 9 0.32
28 9 0.32
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (26 bp):
TGAAATGAGTTTTGAGGGATAAATTG
Found at i:84598352 original size:27 final size:27
Alignment explanation
Indices: 84598321--84598376 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 27
84598311 ATTTTTGATG
84598321 AAATGAGCTATTTG-GGG-TAAATTGTGA
1 AAATGAG-T-TTTGAGGGATAAATTGTGA
84598348 AAATGAGTTTTGAGGGATTAAATTGTGA
1 AAATGAGTTTTGAGGGA-TAAATTGTGA
84598376 A
1 A
84598377 TTAAATGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 4 0.15
26 4 0.15
27 7 0.27
28 11 0.42
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.34
Consensus pattern (27 bp):
AAATGAGTTTTGAGGGATAAATTGTGA
Found at i:84599982 original size:13 final size:13
Alignment explanation
Indices: 84599964--84599989 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84599954 AGTATCATTG
84599964 TTATATAATATCT
1 TTATATAATATCT
84599977 TTATATAATATCT
1 TTATATAATATCT
84599990 GTGATTCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATATAATATCT
Found at i:84601764 original size:38 final size:38
Alignment explanation
Indices: 84601710--84601785 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
84601700 TATCTATTTT
84601710 CCTGCTGATCTAATGCTTTTGCCTTTTGATGAATTTGA
1 CCTGCTGATCTAATGCTTTTGCCTTTTGATGAATTTGA
*
84601748 CCTGCTGATCTGATGCTTTTGCCTTTTGATGAATTTGA
1 CCTGCTGATCTAATGCTTTTGCCTTTTGATGAATTTGA
84601786 TATAATTCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (38 bp):
CCTGCTGATCTAATGCTTTTGCCTTTTGATGAATTTGA
Found at i:84609927 original size:38 final size:39
Alignment explanation
Indices: 84609875--84610083 Score: 172
Period size: 38 Copynumber: 5.0 Consensus size: 39
84609865 CGGAATGAAA
84609875 AACGTGGTGCTAAGTGGATATACCACGGTTATAA-ATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATAACATGT
* * *
84609913 AACGTGGTGGTAAGTGGATATACCACGATTACACATATTGATACATAT
1 AACGTGGTGCTAAGTGGATATACCACG-GT-----TA-T-A-ACATGT
* * *
84609961 AACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCGTT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATA-A--CA-T-G-T
84610008 AACGTGGTGCTAAGTGGATATACCACGGTTA-AACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATAACATGT
* *
84610046 AACGTGGTGCTATGTGGATATGCCACGGTTAT-ACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATAACATGT
84610084 TAGCCCAATA
Statistics
Matches: 139, Mismatches: 14, Indels: 36
0.74 0.07 0.19
Matches are distributed among these distances:
38 62 0.45
39 2 0.01
40 1 0.01
41 1 0.01
42 4 0.03
43 2 0.01
44 5 0.04
45 3 0.02
46 1 0.01
47 31 0.22
48 27 0.19
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (39 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATAACATGT
Found at i:84610034 original size:47 final size:48
Alignment explanation
Indices: 84609912--84610043 Score: 185
Period size: 48 Copynumber: 2.8 Consensus size: 48
84609902 GTTATAAATG
* *
84609912 TAACGTGGTGGTAAGTGGATATACCACGATTACACATATTGATACATA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATA
* * * * *
84609960 TAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCGT-
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATA
*
84610007 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
84610044 GTAACGTGGT
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 33 0.45
48 40 0.55
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (48 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATA
Found at i:84616379 original size:37 final size:36
Alignment explanation
Indices: 84616329--84616486 Score: 124
Period size: 37 Copynumber: 4.2 Consensus size: 36
84616319 AATCAAGTTA
*
84616329 AAATC-AGCAAACTGTAAAAATGATAGTCGCGATCTT
1 AAATCAAGCGAACTGTAAAAATGA-AGTCGCGATCTT
84616365 AAATCAAGCGAACTGTTAGAAAATTGAATGTCGCGATCTT
1 AAATCAAGCGAACTG-TA-AAAA-TGAA-GTCGCGATCTT
* * * * *
84616405 AAATC-AGTGAACTGTAAAAATAAAAGTTGTGATATT
1 AAATCAAGCGAACTGTAAAAAT-GAAGTCGCGATCTT
* * * *
84616441 AAAT-AGAGCGAACCGTAGAAATGACAGACGCAATCTT
1 AAATCA-AGCGAACTGTAAAAATGA-AGTCGCGATCTT
*
84616478 AAACCAAGC
1 AAATCAAGC
84616487 AACCTGTTAG
Statistics
Matches: 96, Mismatches: 16, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
36 19 0.20
37 40 0.42
38 5 0.05
39 13 0.14
40 19 0.20
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.23
Consensus pattern (36 bp):
AAATCAAGCGAACTGTAAAAATGAAGTCGCGATCTT
Found at i:84616520 original size:77 final size:76
Alignment explanation
Indices: 84616433--84617007 Score: 321
Period size: 77 Copynumber: 7.5 Consensus size: 76
84616423 AATAAAAGTT
* * * ** *
84616433 GTGATATTAAAT-AGAGCGAACCGTAGAAATGACAGACGCAATCTTAAACCAAGCAACCTGTTAG
1 GTGATCTTAAATCA-AGCAAACCGTAAAAATGACAGTTGCAATCTTAAACCAAGCAAACTGTTAG
84616497 AATATCAAAGGTC
65 AATA-CAAAGGTC
** * * ** * ** *
84616510 GTGATCTTAAATTGAGCAAACCTTAAAAATAACAGTTGTGATATTAAACCGGGCAAATTGTTAGA
1 GTGATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCAATCTTAAACCAAGCAAACTGTTAGA
84616575 ATACTAAAGGTC
66 ATAC-AAAGGTC
*** * * * * * * ** *
84616587 ACAATCTTAAATCGAGAAAATCGTAAAAAGGACAGTTACAATCTTAAATCAATTAAACTATTAGA
1 GTGATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCAATCTTAAACCAAGCAAACTGTTAGA
*
84616652 ATAACGAAGGTC
66 AT-ACAAAGGTC
* ** * ** * *
84616664 GTGATCCTAAATCAAGCAAATAG-AAAAATGACAGTTGAAATCTTAAATAAATCAAACTATTAGA
1 GTGATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCAATCTTAAACCAAGCAAACTGTTAGA
84616728 ATATCAAAGGTC
66 ATA-CAAAGGTC
** * ** * *
84616740 -TCGATCTTAAATCAAGTGAACCTTAAAAATGACAGGCGCAATCTTAAATCGAA-TAAACTGTTA
1 GT-GATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCAATCTTAAA-CCAAGCAAACTGTTA
84616803 GAATACAAAGGTC
64 GAATACAAAGGTC
** * ** * * * ** *
84616816 ACGATCTTCAATCAAGTGAACCGTAAAAATGACAG-T-CATGATATTAAATCGAGTGAACTATTA
1 GTGATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCA--ATCTTAAACCAAGCAAACTGTTA
*
84616879 GAATACCAAAAGTC
64 GAATA-CAAAGGTC
* * * *
84616893 -TCGATCTTAAATCAAGCGAACCATAAAAAT-A-A-TAGCCATGATATTCAATA-C-AGCAAACT
1 GT-GATCTTAAATCAAGCAAACCGTAAAAATGACAGTTG-CA--ATCTT-AA-ACCAAGCAAACT
84616952 GTTAGAATACTAAAGGTC
60 GTTAGAATAC-AAAGGTC
** * *
84616970 ACGATCTTAAATTTAA-TAAACCGTAAAAATGACAGTTG
1 GTGATCTTAAA-TCAAGCAAACCGTAAAAATGACAGTTG
84617008 TGATTGATCG
Statistics
Matches: 386, Mismatches: 88, Indels: 45
0.74 0.17 0.09
Matches are distributed among these distances:
74 2 0.01
75 4 0.01
76 122 0.32
77 243 0.63
78 11 0.03
79 2 0.01
80 2 0.01
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (76 bp):
GTGATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCAATCTTAAACCAAGCAAACTGTTAGA
ATACAAAGGTC
Found at i:84616711 original size:76 final size:77
Alignment explanation
Indices: 84616611--84616908 Score: 245
Period size: 76 Copynumber: 3.9 Consensus size: 77
84616601 AGAAAATCGT
* *
84616611 AAAAAGGACAGTT-ACAATCTTAAATCAATTAAACTATTAGAATAACGAAGGTCGT-GATCCTAA
1 AAAAATGACAGTTGA-AATCTTAAATCAATTAAACTATTAGAATAACAAAGGTC-TCGATCCTAA
84616674 ATCAAG-CAA-ATAG
64 ATCAAGTCAACAT-G
* * * *
84616687 AAAAATGACAGTTGAAATCTTAAATAAATCAAACTATTAGAATATCAAAGGTCTCGATCTTAAAT
1 AAAAATGACAGTTGAAATCTTAAATCAATTAAACTATTAGAATAACAAAGGTCTCGATCCTAAAT
* * *
84616752 CAAGTGAACCTT
66 CAAGTCAACATG
** * * * * *
84616764 AAAAATGACAGGCGCAATCTTAAATCGAA-TAAACTGTTAGAAT-ACAAAGGTCACGATCTTCAA
1 AAAAATGACAGTTGAAATCTTAAATC-AATTAAACTATTAGAATAACAAAGGTCTCGATCCTAAA
* *
84616827 TCAAGTGAAC-CG
65 TCAAGTCAACATG
* * * * * * *
84616839 TAAAAATGACAGTCATG--ATATTAAATCGAGTGAACTATTAGAATACCAAAAGTCTCGATCTTA
1 -AAAAATGACAGT--TGAAATCTTAAATCAATTAAACTATTAGAATAACAAAGGTCTCGATCCTA
84616902 AATCAAG
63 AATCAAG
84616909 CGAACCATAA
Statistics
Matches: 182, Mismatches: 30, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
75 2 0.01
76 118 0.65
77 58 0.32
78 4 0.02
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.25
Consensus pattern (77 bp):
AAAAATGACAGTTGAAATCTTAAATCAATTAAACTATTAGAATAACAAAGGTCTCGATCCTAAAT
CAAGTCAACATG
Found at i:84616767 original size:153 final size:151
Alignment explanation
Indices: 84616570--84616921 Score: 343
Period size: 153 Copynumber: 2.3 Consensus size: 151
84616560 GGGCAAATTG
* * * * * * **
84616570 TTAGAATACTAAAGGTCACAATCTTAAATCGAGAAAATCGTAAAAAGGACAGTTACAATCTTAAA
1 TTAGAATAC-AAAGGTCTCGATCTTAAATCAAGAGAACCATAAAAAGGACAGGCACAATCTTAAA
* ** *
84616635 TC-AATTAAACTATTAGAATAACGAAGGTCGTGATCCTAAATCAAGCAAATAG-AAAAATGACAG
65 TCGAA-TAAACTATTAGAAT-ACAAAGGTCACGATCCTAAATCAAGCAAACAGTAAAAATGACAG
*
84616698 T-TGAAATCTTAAAT-AAATCAAACTA
128 TATG--ATATTAAATCAAAT-AAACTA
* * * *
84616723 TTAGAATATCAAAGGTCTCGATCTTAAATCAAGTGAACCTTAAAAATGACAGGCGCAATCTTAAA
1 TTAGAATA-CAAAGGTCTCGATCTTAAATCAAGAGAACCATAAAAAGGACAGGCACAATCTTAAA
* * * ** *
84616788 TCGAATAAACTGTTAGAATACAAAGGTCACGATCTTCAATCAAGTGAACCGTAAAAATGACAGTC
65 TCGAATAAACTATTAGAATACAAAGGTCACGATCCTAAATCAAGCAAACAGTAAAAATGACAGT-
* * *
84616853 ATGATATTAAATCGAGTGAACTA
129 ATGATATTAAATCAAATAAACTA
* *
84616876 TTAGAATACCAAAAGTCTCGATCTTAAATCAAGCGAACCATAAAAA
1 TTAGAATA-CAAAGGTCTCGATCTTAAATCAAGAGAACCATAAAAA
84616922 TAATAGCCAT
Statistics
Matches: 164, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
152 23 0.14
153 134 0.82
154 5 0.03
155 2 0.01
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (151 bp):
TTAGAATACAAAGGTCTCGATCTTAAATCAAGAGAACCATAAAAAGGACAGGCACAATCTTAAAT
CGAATAAACTATTAGAATACAAAGGTCACGATCCTAAATCAAGCAAACAGTAAAAATGACAGTAT
GATATTAAATCAAATAAACTA
Found at i:84616922 original size:153 final size:153
Alignment explanation
Indices: 84616718--84617005 Score: 386
Period size: 153 Copynumber: 1.9 Consensus size: 153
84616708 AAATAAATCA
* * * * *
84616718 AACTATTAGAATATCAAAGGTCTCGATCTTAAATCAAGTGAACCTTAAAAATGACAGGCGCA-AT
1 AACTATTAGAATACCAAAAGTCTCGATCTTAAATCAAGCGAACCATAAAAATAACA-GC-CAGAT
* * * *
84616782 CTTAAAT-CGAATAAACTGTTAGAATAC-AAAGGTCACGATCTTCAA-TCAAGTGAACCGTAAAA
64 ATTAAATAC-AACAAACTGTTAGAATACTAAAGGTCACGATCTTAAATTCAA-TAAACCGTAAAA
84616844 ATGACAGTCATGATATTAAATCGAGTG
127 ATGACAGTCATGATATTAAATCGAGTG
*
84616871 AACTATTAGAATACCAAAAGTCTCGATCTTAAATCAAGCGAACCATAAAAATAATAGCCATGATA
1 AACTATTAGAATACCAAAAGTCTCGATCTTAAATCAAGCGAACCATAAAAATAACAGCCA-GATA
* * *
84616936 TTCAATACAGCAAACTGTTAGAATACTAAAGGTCACGATCTTAAATTTAATAAACCGTAAAAATG
65 TTAAATACAACAAACTGTTAGAATACTAAAGGTCACGATCTTAAATTCAATAAACCGTAAAAATG
84617001 ACAGT
130 ACAGT
84617006 TGTGATTGAT
Statistics
Matches: 117, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
151 2 0.02
152 2 0.02
153 73 0.62
154 37 0.32
155 3 0.03
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (153 bp):
AACTATTAGAATACCAAAAGTCTCGATCTTAAATCAAGCGAACCATAAAAATAACAGCCAGATAT
TAAATACAACAAACTGTTAGAATACTAAAGGTCACGATCTTAAATTCAATAAACCGTAAAAATGA
CAGTCATGATATTAAATCGAGTG
Found at i:84624636 original size:40 final size:40
Alignment explanation
Indices: 84624543--84624767 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
84624533 GCTCCTCGTT
* * * *
84624543 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
84624583 C-AATGCCTTCGGGACTTAACCCAGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
84624622 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
84624662 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
84624702 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
84624743 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
84624768 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 104 0.66
41 15 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:84624776 original size:41 final size:41
Alignment explanation
Indices: 84624699--84624776 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
84624689 TTTGTATCTC
* * *
84624699 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
84624740 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
84624777 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:84628111 original size:40 final size:40
Alignment explanation
Indices: 84628025--84628122 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
84628015 TTTATTAGTG
* *
84628025 ATCTTAAATCAAGTGAACTATTAGAATACCGAATGTCACA
1 ATCTTAAATCAAGTGAACTATTAGAATACAGAAGGTCACA
* * * *
84628065 ATCTTAAATCGAGTGAACTGTTAGAATATAGAAGGTCTCGA
1 ATCTTAAATCAAGTGAACTATTAGAATACAGAAGGTCAC-A
*
84628106 A-CTTAAATCAAGAGAAC
1 ATCTTAAATCAAGTGAAC
84628123 CTTAAAAATG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 47 0.96
41 2 0.04
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (40 bp):
ATCTTAAATCAAGTGAACTATTAGAATACAGAAGGTCACA
Found at i:84628463 original size:25 final size:25
Alignment explanation
Indices: 84628435--84628483 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
84628425 ATATTTTTTA
* *
84628435 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
84628460 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
84628484 ATAGACTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:84659548 original size:20 final size:19
Alignment explanation
Indices: 84659522--84659580 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
84659512 AGCAATGAAT
*
84659522 CTGTTCACCAAGAGATATAA
1 CTGTTCA-CAAGAGATACAA
*
84659542 TTGTTCA-AA-AGATACAA
1 CTGTTCACAAGAGATACAA
*
84659559 CTGTTCATCAAGAGATAGAA
1 CTGTTCA-CAAGAGATACAA
84659579 CT
1 CT
84659581 ATTGTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 13 0.41
18 2 0.06
19 2 0.06
20 15 0.47
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (19 bp):
CTGTTCACAAGAGATACAA
Found at i:84660124 original size:52 final size:52
Alignment explanation
Indices: 84660046--84660152 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
84660036 TAGGGACCTT
84660046 TGGTTGAGTCACTAATAATCAAGTGTTTTTTTTAAAATAATAAAATGAACTA
1 TGGTTGAGTCACTAATAATCAAGTGTTTTTTTTAAAATAATAAAATGAACTA
* *
84660098 TGGTTGAGTCACTAATAATCAAGTGTTTTTTTTTAAATGATAAAATGAACTA
1 TGGTTGAGTCACTAATAATCAAGTGTTTTTTTTAAAATAATAAAATGAACTA
84660150 TGG
1 TGG
84660153 ATCTTATAGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.39
Consensus pattern (52 bp):
TGGTTGAGTCACTAATAATCAAGTGTTTTTTTTAAAATAATAAAATGAACTA
Found at i:84661242 original size:27 final size:28
Alignment explanation
Indices: 84661179--84661244 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
84661169 TAAACGTGAG
*
84661179 TCTTATTTAGATATATTTCAATTATTAA
1 TCTTATTTATATATATTTCAATTATTAA
*
84661207 T-TTATTTATATATAATTT-AATT-TTTA
1 TCTTATTTATATAT-ATTTCAATTATTAA
84661233 TCTTATTTATAT
1 TCTTATTTATAT
84661245 GAATGTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 4 0.12
27 25 0.74
28 5 0.15
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (28 bp):
TCTTATTTATATATATTTCAATTATTAA
Found at i:84663626 original size:20 final size:19
Alignment explanation
Indices: 84663590--84663628 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
84663580 TGATTCATGT
84663590 TTTTAAAATTTAGTATTAA
1 TTTTAAAATTTAGTATTAA
* *
84663609 TTTTACAATTATATTATTAA
1 TTTTAAAATT-TAGTATTAA
84663629 AAAAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTAAAATTTAGTATTAA
Found at i:84666386 original size:15 final size:16
Alignment explanation
Indices: 84666366--84666409 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
84666356 GTTAAACTAT
84666366 TTATTTTTATTT-TTA
1 TTATTTTTATTTATTA
84666381 TTATTTCTTTATTTATTA
1 TTA-TT-TTTATTTATTA
*
84666399 TTATTTATATT
1 TTATTTTTATT
84666410 ATTTCTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 3 0.12
16 7 0.28
17 9 0.36
18 6 0.24
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATTTTTATTTATTA
Found at i:84666401 original size:18 final size:17
Alignment explanation
Indices: 84666371--84666404 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
84666361 ACTATTTATT
84666371 TTTATTTTTATTATTTC
1 TTTATTTTTATTATTTC
84666388 TTTATTTATTATTATTT
1 TTTATTT-TTATTATTT
84666405 ATATTATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTTATTATTTC
Found at i:84666402 original size:27 final size:27
Alignment explanation
Indices: 84666363--84666417 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
84666353 AGGGTTAAAC
* *
84666363 TATTTATTTTTATTTTTATTATTTCTT
1 TATTTATTATTATTTATATTATTTCTT
84666390 TATTTATTATTATTTATATTATTTCTT
1 TATTTATTATTATTTATATTATTTCTT
84666417 T
1 T
84666418 CCCTATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (27 bp):
TATTTATTATTATTTATATTATTTCTT
Found at i:84666424 original size:27 final size:27
Alignment explanation
Indices: 84666367--84666427 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
84666357 TTAAACTATT
* * **
84666367 TATTTTTATTTTTATTATTTCTTTATT
1 TATTATTATTTATATTATTTCTTTACC
*
84666394 TATTATTATTTATATTATTTCTTTCCC
1 TATTATTATTTATATTATTTCTTTACC
84666421 TATTATT
1 TATTATT
84666428 TCTTTTCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.70
Consensus pattern (27 bp):
TATTATTATTTATATTATTTCTTTACC
Found at i:84666448 original size:17 final size:17
Alignment explanation
Indices: 84666421--84666463 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
84666411 TTTCTTTCCC
84666421 TATTATTTCTTTTCTT-TT
1 TATT-TTTC-TTTCTTCTT
*
84666439 TCTTTTTCTTTCTTCTT
1 TATTTTTCTTTCTTCTT
84666456 TATTTTTC
1 TATTTTTC
84666464 AGCAACCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 13 0.59
18 3 0.14
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (17 bp):
TATTTTTCTTTCTTCTT
Found at i:84667519 original size:13 final size:14
Alignment explanation
Indices: 84667491--84667538 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
84667481 CATAAAAGAG
*
84667491 ATAAATATCATAAA
1 ATAAATAACATAAA
84667505 ATAAATAAC-TAAA
1 ATAAATAACATAAA
84667518 ATAAATAAACAATAAA
1 ATAAAT-AAC-ATAAA
84667534 ATAAA
1 ATAAA
84667539 CAAACAACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 10 0.33
14 11 0.37
16 9 0.30
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (14 bp):
ATAAATAACATAAA
Found at i:84667535 original size:16 final size:16
Alignment explanation
Indices: 84667500--84667550 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
84667490 GATAAATATC
84667500 ATAAAATAAAT-AAC-
1 ATAAAATAAATAAACA
84667514 -TAAAATAAATAAACA
1 ATAAAATAAATAAACA
*
84667529 ATAAAATAAACAAACA
1 ATAAAATAAATAAACA
84667545 ACTAAA
1 A-TAAA
84667551 CCAATTAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
13 10 0.31
14 3 0.09
16 15 0.47
17 4 0.12
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.18
Consensus pattern (16 bp):
ATAAAATAAATAAACA
Found at i:84668176 original size:16 final size:16
Alignment explanation
Indices: 84668155--84668185 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
84668145 TAAAAGACGA
84668155 CCTAGTTACATCAAAT
1 CCTAGTTACATCAAAT
84668171 CCTAGTTACATCAAA
1 CCTAGTTACATCAAA
84668186 CCCTTAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (16 bp):
CCTAGTTACATCAAAT
Found at i:84670177 original size:20 final size:20
Alignment explanation
Indices: 84670154--84670205 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
84670144 TTATAAAAAC
* *
84670154 AATTCAAATTGATTTTCAAA
1 AATTCAAAATAATTTTCAAA
84670174 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTTCAAA
*
84670194 AAGTTCTAAATA
1 AA-TTCAAAATA
84670206 TATATGAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (20 bp):
AATTCAAAATAATTTTCAAA
Found at i:84673365 original size:90 final size:90
Alignment explanation
Indices: 84673254--84673436 Score: 312
Period size: 90 Copynumber: 2.0 Consensus size: 90
84673244 GTTAAATAAT
* *
84673254 TAAATCATTAATTATACAAAAATATATAGAAGAGTACAAAATCATTTTTAACTTTAAAGTTTAAG
1 TAAATCATTAATTATACAAAAATATATAGAAGAGTACAAAACCATTTTTAACTTTAAAGTTTAAA
*
84673319 AACCAATTTAAAATGAGAATTACAG
66 AACCAATTTAAAATGAAAATTACAG
* *
84673344 TAAATTATTAATTATATAAAAATATATAGAAGAGTACAAAACCATTTTTAACTTTAAAGTTTAAA
1 TAAATCATTAATTATACAAAAATATATAGAAGAGTACAAAACCATTTTTAACTTTAAAGTTTAAA
*
84673409 AATCAATTTAAAATGAAAATTACAG
66 AACCAATTTAAAATGAAAATTACAG
84673434 TAA
1 TAA
84673437 TTAACTTTAA
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (90 bp):
TAAATCATTAATTATACAAAAATATATAGAAGAGTACAAAACCATTTTTAACTTTAAAGTTTAAA
AACCAATTTAAAATGAAAATTACAG
Found at i:84676710 original size:23 final size:22
Alignment explanation
Indices: 84676670--84676716 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
84676660 TGTCATTAAT
84676670 AAAAATTTAAAAATATATCTTA
1 AAAAATTTAAAAATATATCTTA
*
84676692 AAAAATTTGAATAAA-ATATTTTA
1 AAAAATTT-AA-AAATATATCTTA
84676715 AA
1 AA
84676717 TTTAATTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 11 0.50
24 3 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAAATTTAAAAATATATCTTA
Found at i:84677179 original size:21 final size:21
Alignment explanation
Indices: 84677141--84677180 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
84677131 TAAAAACATC
* * *
84677141 AAACCCGAAATTTGAAATTAG
1 AAACCCAAAATCTCAAATTAG
84677162 AAACCCAAAATCTCAAATT
1 AAACCCAAAATCTCAAATT
84677181 TAAACTTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (21 bp):
AAACCCAAAATCTCAAATTAG
Found at i:84678933 original size:6 final size:6
Alignment explanation
Indices: 84678922--84678947 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
84678912 TAATTTTTTT
84678922 AACCTA AACCTA AACCTA AACCTA AA
1 AACCTA AACCTA AACCTA AACCTA AA
84678948 TCTTAACCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCTA
Found at i:84678955 original size:18 final size:18
Alignment explanation
Indices: 84678922--84678960 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
84678912 TAATTTTTTT
*
84678922 AACCTAAACCTAAACCTA
1 AACCTAAACCTAAACCCA
* *
84678940 AACCTAAATCTTAACCCA
1 AACCTAAACCTAAACCCA
84678958 AAC
1 AAC
84678961 TCGAACCCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (18 bp):
AACCTAAACCTAAACCCA
Found at i:84679076 original size:29 final size:29
Alignment explanation
Indices: 84679013--84679078 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
84679003 AAAGTTCAAG
*
84679013 TTAAAAAATTATTAAAATTATGATAATGA
1 TTAAAAAATTATTAAAATTATGATAATAA
*
84679042 TATAAAAAA-TATTAAAA-TATTATTAAATAA
1 T-TAAAAAATTATTAAAATTATGA-T-AATAA
84679072 TTAAAAA
1 TTAAAAA
84679079 GAGATGTTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 4 0.12
29 16 0.50
30 12 0.38
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (29 bp):
TTAAAAAATTATTAAAATTATGATAATAA
Found at i:84679579 original size:20 final size:21
Alignment explanation
Indices: 84679544--84679592 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
84679534 CACATTAATA
* *
84679544 TAATATTTAC-TTTTTATGAT
1 TAATATTTACAATTTAATGAT
*
84679564 TAATATTTACAATTTAATTAT
1 TAATATTTACAATTTAATGAT
84679585 TAA-ATTTA
1 TAATATTTA
84679593 TTAATATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (21 bp):
TAATATTTACAATTTAATGAT
Found at i:84680938 original size:12 final size:11
Alignment explanation
Indices: 84680921--84680965 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 11
84680911 ATTAGAGAAA
84680921 AATAAAATGAAT
1 AATAAAAT-AAT
84680933 AATAAAATAAAT
1 AATAAAAT-AAT
*
84680945 AATAACAATAAC
1 AATAA-AATAAT
84680957 AATAAAATA
1 AATAAAATA
84680966 GGCATCAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 4 0.13
12 23 0.77
13 3 0.10
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:84681188 original size:20 final size:19
Alignment explanation
Indices: 84681145--84681202 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
84681135 TAGAAGTAAT
* * *
84681145 AAACAAATAATATGAACAAT
1 AAACAAATAA-ATAAATAAA
*
84681165 AAACGAATAAATAACATAAA
1 AAACAAATAAATAA-ATAAA
*
84681185 AAACAAATGAATAAATAA
1 AAACAAATAAATAAATAA
84681203 CTAAAATAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 7 0.23
20 24 0.77
ACGTcount: A:0.69, C:0.09, G:0.05, T:0.17
Consensus pattern (19 bp):
AAACAAATAAATAAATAAA
Found at i:84682124 original size:99 final size:99
Alignment explanation
Indices: 84681953--84682143 Score: 303
Period size: 99 Copynumber: 1.9 Consensus size: 99
84681943 CGGCCACTTT
* * * * *
84681953 TCATCGGAAGTGGCTACCTCGGCCGTTCTCGGCGATGAAGCGCGGAGGTTTGTTTTCTTTAACCC
1 TCATCGGAAGTGGCTACCTCAGCCGTTCCCGGCGACGAAGCGCGAAGGTTTGTTTTCTTTAACAC
84682018 TTTTTTGCTTTTTTGTTCTATTTACAAGAGTGAG
66 TTTTTTGCTTTTTTGTTCTATTTACAAGAGTGAG
*
84682052 TCATCGGAAGTGGCTACCTCAGCCGTTCCCGGTGACGAAGCGCGAAGGTTTGTTTT-TTCTAACA
1 TCATCGGAAGTGGCTACCTCAGCCGTTCCCGGCGACGAAGCGCGAAGGTTTGTTTTCTT-TAACA
*
84682116 TTTTTTTGCTTTTTTGTTCTATTTACAA
65 CTTTTTTGCTTTTTTGTTCTATTTACAA
84682144 TAATAAATCC
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 2 0.02
99 82 0.98
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.39
Consensus pattern (99 bp):
TCATCGGAAGTGGCTACCTCAGCCGTTCCCGGCGACGAAGCGCGAAGGTTTGTTTTCTTTAACAC
TTTTTTGCTTTTTTGTTCTATTTACAAGAGTGAG
Found at i:84682814 original size:66 final size:66
Alignment explanation
Indices: 84682689--84682820 Score: 158
Period size: 66 Copynumber: 2.0 Consensus size: 66
84682679 TGCTCGGTCT
* * * *
84682689 TGCTGAGTCTTGACTTCTTGATGCTTCCTTTCTTCAAGTAGCCTCACTTTAACCCACTGCATCTT
1 TGCTGAATCTCGACTTCTTGATGCTTCCTTTCTTCAAGTAGCCTCACTTCAACCCACTGCAACTT
84682754 C
66 C
* * * * * *
84682755 TGCTGAATCTCGACTTTTTGGTGCTTCTTTTCTTCAAGTGGCCTC-GTTCCAACCTACTGCAACT
1 TGCTGAATCTCGACTTCTTGATGCTTCCTTTCTTCAAGTAGCCTCACTT-CAACCCACTGCAACT
84682819 TC
65 TC
84682821 AAGGTTATAG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 2 0.04
66 53 0.96
ACGTcount: A:0.16, C:0.30, G:0.15, T:0.39
Consensus pattern (66 bp):
TGCTGAATCTCGACTTCTTGATGCTTCCTTTCTTCAAGTAGCCTCACTTCAACCCACTGCAACTT
C
Found at i:84682882 original size:44 final size:45
Alignment explanation
Indices: 84682810--84682919 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 45
84682800 GTTCCAACCT
* * *
84682810 ACTGCAACTTCAAGGTTATAGGAATTGTTG-CTTTAATATGCTCC
1 ACTGCAACTTCAAGGATATAAGAATTGTTGTCTTTAACATGCTCC
* * * *
84682854 ACTGCATCTTCAAGGATATAAGACTTGTTGTTTTTAACCTGCTCC
1 ACTGCAACTTCAAGGATATAAGAATTGTTGTCTTTAACATGCTCC
* * *
84682899 ATTGTAACTTCAAGGAGATAA
1 ACTGCAACTTCAAGGATATAA
84682920 TGTTTGGCTT
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
44 26 0.48
45 28 0.52
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (45 bp):
ACTGCAACTTCAAGGATATAAGAATTGTTGTCTTTAACATGCTCC
Found at i:84683164 original size:96 final size:96
Alignment explanation
Indices: 84682951--84683165 Score: 315
Period size: 96 Copynumber: 2.2 Consensus size: 96
84682941 ATCTGACATA
** * **
84682951 TTGCAACTTCAAAGAGATAAGATCCGTAACTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGG
1 TTGCAACTTCAGGGAGATAAGGTCCGTAACTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGG
*
84683016 AAATGAAATTCATTATCTTCAGTCTGCTTTG
66 AAATGAAATTCACTATCTTCAGTCTGCTTTG
* * *
84683047 CTGCAACTTTAGGGAGATAAGGTCCGTAACTTGTAGCTTCAATTTGCTCCACTACAACTTTAGGG
1 TTGCAACTTCAGGGAGATAAGGTCCGTAACTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGG
* *
84683112 AAATGAGATTCGCTATCTTCAGTCTGCTCTT-
66 AAATGAAATTCACTATCTTCAGTCTGCT-TTG
84683143 TTGCAACTTCAGGGAGATAAGGT
1 TTGCAACTTCAGGGAGATAAGGT
84683166 TGGTGGTTTC
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
96 103 0.98
97 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (96 bp):
TTGCAACTTCAGGGAGATAAGGTCCGTAACTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGG
AAATGAAATTCACTATCTTCAGTCTGCTTTG
Found at i:84683436 original size:44 final size:45
Alignment explanation
Indices: 84683315--84683436 Score: 117
Period size: 45 Copynumber: 2.7 Consensus size: 45
84683305 AGGCTTTTGG
* * *
84683315 CTTCAATCTGCTCCACTGCAACTTCAG-GAAGATAAGATCCGCCAT
1 CTTCAATCTGCTCCACTGCTACTTCAGAG-AGATAAGATCCGACAA
* * * *
84683360 CTTCGATCTACTCCACTG-TAACTTTA-AGGAGATAAGAT-CTACAA
1 CTTCAATCTGCTCCACTGCT-ACTTCAGA-GAGATAAGATCCGACAA
*
84683404 CTTCAATTTGCTCCACTGCTACTTCAGAGAGAT
1 CTTCAATCTGCTCCACTGCTACTTCAGAGAGAT
84683437 GGGATTTGTG
Statistics
Matches: 61, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
44 28 0.46
45 32 0.52
46 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCTACTTCAGAGAGATAAGATCCGACAA
Found at i:84684036 original size:65 final size:65
Alignment explanation
Indices: 84683926--84684049 Score: 176
Period size: 65 Copynumber: 1.9 Consensus size: 65
84683916 AATGATGGAC
* * * * * * *
84683926 AAGAAGGAAATTGATTGAGAGTATAGCTCTAGACGAATAAGTTAATCAAAGATGGCAAATACAAT
1 AAGAAAGAAATTGATTGAGAGCATAGCTCGAAACGAACAAATTAATCAAAGATAGCAAATACAAT
*
84683991 AAGAAAGAAATTGATTGAGAGCATAGCTCGAAATGAACAAATTAATCAAAGATAGCAAA
1 AAGAAAGAAATTGATTGAGAGCATAGCTCGAAACGAACAAATTAATCAAAGATAGCAAA
84684050 CTTTGCTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 51 1.00
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.21
Consensus pattern (65 bp):
AAGAAAGAAATTGATTGAGAGCATAGCTCGAAACGAACAAATTAATCAAAGATAGCAAATACAAT
Found at i:84684502 original size:1 final size:1
Alignment explanation
Indices: 84684492--84684558 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
84684482 TGGCCTCTCC
* * * * * * * *
84684492 TTTTTCTTTTTTCTTTTTTTCTTTTCTTTTTCTTTTTTTTTCTTTTTTTCTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
84684557 TT
1 TT
84684559 GAAGTGAAGT
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:84684504 original size:7 final size:7
Alignment explanation
Indices: 84684492--84684558 Score: 77
Period size: 7 Copynumber: 9.4 Consensus size: 7
84684482 TGGCCTCTCC
84684492 TTTTTCT
1 TTTTTCT
84684499 TTTTTCTT
1 TTTTTC-T
84684507 TTTTTCT
1 TTTTTCT
84684514 TTTCTT-T
1 TTT-TTCT
84684521 TTCTTT-T
1 TT-TTTCT
84684528 TTTTTCTT
1 TTTTTC-T
84684536 TTTTTCT
1 TTTTTCT
84684543 TTTTTCT
1 TTTTTCT
84684550 TTTTT-T
1 TTTTTCT
84684556 TTT
1 TTT
84684559 GAAGTGAAGT
Statistics
Matches: 55, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.13
7 31 0.56
8 17 0.31
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:84684540 original size:29 final size:27
Alignment explanation
Indices: 84684491--84684558 Score: 100
Period size: 29 Copynumber: 2.4 Consensus size: 27
84684481 TTGGCCTCTC
84684491 CTTTTTCTTTTTTCTTTTTTTCTTTTCTT
1 CTTTTT-TTTTTTCTTTTTTTCTTTT-TT
*
84684520 TTTCTTTTTTTTTCTTTTTTTCTTTTTT
1 CTT-TTTTTTTTTCTTTTTTTCTTTTTT
84684548 CTTTTTTTTTT
1 CTTTTTTTTTT
84684559 GAAGTGAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
27 8 0.22
28 4 0.11
29 21 0.58
30 3 0.08
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (27 bp):
CTTTTTTTTTTTCTTTTTTTCTTTTTT
Found at i:84689589 original size:16 final size:15
Alignment explanation
Indices: 84689568--84689597 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
84689558 CAATTAGAGA
84689568 AAAATAAATGAATAAT
1 AAAATAAAT-AATAAT
84689584 AAAATAAATAATAA
1 AAAATAAATAATAA
84689598 CAATAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AAAATAAATAATAAT
Found at i:84690276 original size:24 final size:24
Alignment explanation
Indices: 84690244--84690306 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
84690234 AGGAGTAATA
* * * *
84690244 AATAAATAATATGAACAATAAACG
1 AATAAATAACATAAAAAACAAACG
*
84690268 AATAAATAACATAAAAAACAAATG
1 AATAAATAACATAAAAAACAAACG
84690292 AATAAATAAC-TAAAA
1 AATAAATAACATAAAA
84690307 TAAGAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 5 0.15
24 29 0.85
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.19
Consensus pattern (24 bp):
AATAAATAACATAAAAAACAAACG
Found at i:84690882 original size:2 final size:2
Alignment explanation
Indices: 84690871--84690900 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
84690861 TTCAAAAACA
84690871 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
84690901 CCCTCCAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:84706164 original size:46 final size:44
Alignment explanation
Indices: 84706021--84706164 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
84706011 CCCGCCCATA
* *
84706021 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
84706070 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
*
84706113 AAGTGAACTCGGACACAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
84706160 AGTGA
1 AGTGA
84706165 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 32 0.42
47 28 0.37
48 4 0.05
49 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:84706997 original size:49 final size:49
Alignment explanation
Indices: 84706924--84707021 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
84706914 TCGAGCTACC
*
84706924 GGGACTCCAAAAACGTAAATATCGTTAAAAACGAGGCTAGAACGGACTT
1 GGGACTCCAAAAACGTAAAAATCGTTAAAAACGAGGCTAGAACGGACTT
84706973 GGGACTCCAAAAACGTAAAAATCGTTAAAAACGAGGCTAGAACGGACTT
1 GGGACTCCAAAAACGTAAAAATCGTTAAAAACGAGGCTAGAACGGACTT
84707022 ACAATCGAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.17
Consensus pattern (49 bp):
GGGACTCCAAAAACGTAAAAATCGTTAAAAACGAGGCTAGAACGGACTT
Found at i:84708625 original size:30 final size:30
Alignment explanation
Indices: 84708581--84708669 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
84708571 CAAAGATAAT
84708581 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * *
84708610 GAGAAACCCAGAATAAAGAGATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
84708640 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
84708670 CAATATTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 9 0.19
30 37 0.77
31 2 0.04
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Done.