Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 127 of 190
Found at i:37817042 original size:22 final size:22
Alignment explanation
Indices: 37817000--37817049 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
37816990 CCTATATTTG
*
37817000 AAATTTAGTCTTTATACTTTTA
1 AAATTTAGTCTTTACACTTTTA
*
37817022 AAATTTAGTCTTTACACTTTTC
1 AAATTTAGTCTTTACACTTTTA
37817044 AAATTT
1 AAATTT
37817050 CAAATTTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.52
Consensus pattern (22 bp):
AAATTTAGTCTTTACACTTTTA
Found at i:37818817 original size:2 final size:2
Alignment explanation
Indices: 37818805--37818842 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
37818795 TTTATTTTTC
37818805 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37818843 GTTGTGGCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:37828972 original size:393 final size:391
Alignment explanation
Indices: 37828193--37828973 Score: 1241
Period size: 393 Copynumber: 2.0 Consensus size: 391
37828183 GTTGGTTTGG
* *
37828193 AATGAAATAGTTTGAATTGTGGTTGTCAATCTTAAATGTTTGTATGTATGTAATTAGTAGTAGAA
1 AATGAAATAGTTCGAATTGTGGTTGTCAAACTTAAATGTTTGTATGTATGTAATTAGTAGTAGAA
*
37828258 TTTGATAAATCAATGAAATGAGTTAAATAGGTAAGTATAAGTAATTGAAATACTTGTGATGTTAT
66 TTTGATAAATCAATGAAATGAGTTAAATAGGTAAGTATAAGTAATTGAAACACTTGTGATGTTAT
37828323 GTCATGTTGAGAACACGTTTTAGCTTGTATCGATTGCTTGGTTGGGATATATTGGTGTATGTGAA
131 GTCATGTTGAGAACACGTTTTAGCTTGTATCGATTGCTTGGTTGGGATATATT-GTGTATGTGAA
* *
37828388 TGTTGAGTGCAGATTAATGTCAAAATGGGTGAGAAAAGTGGCTTTAAAATGACATATTTTCGTCT
195 TGTTGAGTGCAGATTAATGTCAAAATGGGTGAGAAAAGTGACTTTAAAATGACATATTTTCGTCC
* * * * *
37828453 ACACAAGCAAAGTCACAGGCGTGTGTCTTAGCCGTGTGTGACACATGGCCTGACACATGGACGTG
260 ACACAAGCAAAGACACAGGCGTGTGTCTCAGCCATGTGTAACACACGGCCTGACACATGGACGTG
37828518 TGGTATGGTCGTGTGTTCCCTGCATCTTAAAATTTCAAACAGAATGCCAAGGTTTTTTACACACG
325 TGGTATGGTCGTGTGTTCCCTGCATCTTAAAATTTCAAACAGAATGCCAAGGTTTTTTACACACG
37828583 AC
390 AC
*
37828585 AATGAAATAGTTCGAATTGTGGTTGTGAAACTTAAATGTTTGTATGTATGTATGTAATTAGTAGT
1 AATGAAATAGTTCGAATTGTGGTTGTCAAACTTAAATG--T-T-TGTATGTATGTAATTAGTAGT
*
37828650 AGAATTTGATAAATCAATGAAATGAGTTAAATAGGTAAGTATAAGTAATTGAAACATTTGTGATG
62 AGAATTTGATAAATCAATGAAATGAGTTAAATAGGTAAGTATAAGTAATTGAAACACTTGTGATG
*
37828715 TTATGTCATGTTGAGAACACGTTTTAGCTTGTATTGATTGCTTGGTTGGGATATA-T-TGTATGT
127 TTATGTCATGTTGAGAACACGTTTTAGCTTGTATCGATTGCTTGGTTGGGATATATTGTGTATGT
*
37828778 GAATGTTGAGTGCAGATTAATGTCAAAATGGGTGAGAAAAGTGACTTTAAAATGACTTATTTTCG
192 GAATGTTGAGTGCAGATTAATGTCAAAATGGGTGAGAAAAGTGACTTTAAAATGACATATTTTCG
* * ** *
37828843 TCCACACAAGTAGAGACAC-GAGCGTGTGTCTCAGCCATGTGTAACACACGGCCTGACGTATGGG
257 TCCACACAAGCAAAGACACAG-GCGTGTGTCTCAGCCATGTGTAACACACGGCCTGACACATGGA
* * *
37828907 CGTGTGGTCTGG-C-TGTGTGTCCTCTGTA-CGTTAAAATTTCAAATAGAATGCCAAGGTTTTTT
321 CGTGTGGTATGGTCGTGTGT-TCC-CTGCATC-TTAAAATTTCAAACAGAATGCCAAGGTTTTTT
37828969 ACACA
383 ACACA
37828974 TAGCCTAGCA
Statistics
Matches: 359, Mismatches: 22, Indels: 15
0.91 0.06 0.04
Matches are distributed among these distances:
391 5 0.01
392 41 0.11
393 172 0.48
394 1 0.00
395 2 0.01
396 138 0.38
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.34
Consensus pattern (391 bp):
AATGAAATAGTTCGAATTGTGGTTGTCAAACTTAAATGTTTGTATGTATGTAATTAGTAGTAGAA
TTTGATAAATCAATGAAATGAGTTAAATAGGTAAGTATAAGTAATTGAAACACTTGTGATGTTAT
GTCATGTTGAGAACACGTTTTAGCTTGTATCGATTGCTTGGTTGGGATATATTGTGTATGTGAAT
GTTGAGTGCAGATTAATGTCAAAATGGGTGAGAAAAGTGACTTTAAAATGACATATTTTCGTCCA
CACAAGCAAAGACACAGGCGTGTGTCTCAGCCATGTGTAACACACGGCCTGACACATGGACGTGT
GGTATGGTCGTGTGTTCCCTGCATCTTAAAATTTCAAACAGAATGCCAAGGTTTTTTACACACGA
C
Found at i:37835212 original size:46 final size:46
Alignment explanation
Indices: 37835141--37835325 Score: 325
Period size: 46 Copynumber: 4.0 Consensus size: 46
37835131 CATGGCAAAG
37835141 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
*
37835187 TGTAAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
37835233 TATGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
37835279 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
37835325 T
1 T
37835326 ATAGCAATGT
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 132 1.00
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
Found at i:37839535 original size:26 final size:26
Alignment explanation
Indices: 37839506--37839559 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
37839496 TACAAGAAAC
37839506 GTACTAAATTTGAATACACTTACCAA
1 GTACTAAATTTGAATACACTTACCAA
37839532 GTACTAAATTTGAATACACTTACCAA
1 GTACTAAATTTGAATACACTTACCAA
37839558 GT
1 GT
37839560 GTCGAAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (26 bp):
GTACTAAATTTGAATACACTTACCAA
Found at i:37846203 original size:43 final size:43
Alignment explanation
Indices: 37846156--37846287 Score: 140
Period size: 43 Copynumber: 3.1 Consensus size: 43
37846146 GGCCTTGCAT
* * *
37846156 GTAATCAAATAACGATGCCATTATCCCAGACAGGGTCTTATAC
1 GTAATTAAATAACGATGCCAATATCCCAGACAGGGTCTTACAC
* * * * * *
37846199 GTAATTAAATAACAATGCCACTATCCTAGTCAGGGTTTTGCAC
1 GTAATTAAATAACGATGCCAATATCCCAGACAGGGTCTTACAC
* * **
37846242 GTAATTATAT-ACGATGCCAATGTCCCAGACTTGGTCTTACAC
1 GTAATTAAATAACGATGCCAATATCCCAGACAGGGTCTTACAC
37846284 GTAA
1 GTAA
37846288 AACTCAAATC
Statistics
Matches: 71, Mismatches: 18, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
42 27 0.38
43 44 0.62
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (43 bp):
GTAATTAAATAACGATGCCAATATCCCAGACAGGGTCTTACAC
Found at i:37848667 original size:22 final size:21
Alignment explanation
Indices: 37848639--37848686 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
37848629 TTAAATAAGT
*
37848639 AATAATAGAATGATTTAAAATA
1 AATAATAGAAAG-TTTAAAATA
*
37848661 AATAATATAAAGTTTAAAATA
1 AATAATAGAAAGTTTAAAATA
37848682 AATAA
1 AATAA
37848687 ATACATTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
AATAATAGAAAGTTTAAAATA
Found at i:37857607 original size:36 final size:36
Alignment explanation
Indices: 37857567--37857637 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
37857557 TGCTTTCAAA
*
37857567 GGATATAATCGA-TAACCACTGGAAATGGGAACATAG
1 GGATATAAT-GACTAACCACTGGAAATGGAAACATAG
* * *
37857603 GGATATAATTACTAACCATTGGAAGTGGAAACATA
1 GGATATAATGACTAACCACTGGAAATGGAAACATA
37857638 AAGATAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 1 0.03
36 29 0.97
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.23
Consensus pattern (36 bp):
GGATATAATGACTAACCACTGGAAATGGAAACATAG
Found at i:37861484 original size:2 final size:2
Alignment explanation
Indices: 37861479--37861524 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
37861469 ACCAAACACC
*
37861479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37861521 AT AT
1 AT AT
37861525 CATGAAATCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37862156 original size:43 final size:43
Alignment explanation
Indices: 37862090--37862262 Score: 185
Period size: 43 Copynumber: 4.0 Consensus size: 43
37862080 AGCTCGTACA
*
37862090 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
* * * * *
37862133 ATGCCACTGTCCAAGACAG-GGTCTTAAACGAAATCATATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGTAATCAAATATCG
*
37862175 ATGCCAATGTCCCAGA-GATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAATGTCCCAGACG-TGGTCTTACACGT-AATC-AAATATCG
* *
37862219 ATGCCAACGTCCCAGACGTGGTCTTACACG-AGATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTA-ATCAAATATCG
37862262 A
1 A
37862263 AATCCTTTGT
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
40 1 0.01
42 28 0.26
43 45 0.42
44 31 0.29
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
Found at i:37862790 original size:22 final size:22
Alignment explanation
Indices: 37862764--37862910 Score: 213
Period size: 22 Copynumber: 6.7 Consensus size: 22
37862754 CGCTTTCAAG
*
37862764 TAAGCTCTCATGTTTCACGTAC
1 TAAGCTCTCATGTTTAACGTAC
37862786 TAAGCTCTCATGTTTAACGTAC
1 TAAGCTCTCATGTTTAACGTAC
*
37862808 TAAGCTCTCATGTTTAACGAAC
1 TAAGCTCTCATGTTTAACGTAC
* * **
37862830 TAAACCCTCATGGCTAACGTAC
1 TAAGCTCTCATGTTTAACGTAC
**
37862852 TAAGCTCTCATGGCTAACGTAC
1 TAAGCTCTCATGTTTAACGTAC
*
37862874 TAAGCTCTCATGTTTCACGTAC
1 TAAGCTCTCATGTTTAACGTAC
37862896 TAAGCTCTCATGTTT
1 TAAGCTCTCATGTTT
37862911 GAACAATAAA
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 113 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
TAAGCTCTCATGTTTAACGTAC
Found at i:37863278 original size:73 final size:73
Alignment explanation
Indices: 37863170--37863324 Score: 222
Period size: 73 Copynumber: 2.1 Consensus size: 73
37863160 GCGTTTTTGG
* * *
37863170 GAAAGCGCCGCAAAAAAACCTAAGCCCAACAACGTCGTTTTCTGAGCTTTTGGGGATTTAGCAG-
1 GAAAGCGCCACAAAAAAACCTAAGCCCAACAACGTCGTTTTATGAGCTTTCGGGGATTTAGCAGC
37863234 AGTTTTTAA
66 A-TTTTTAA
* * * *
37863243 GAAAGCGCCACAAAAAAGCCTAAGCTCAACGACGTCGTTTTATGAGCTTTCGGGGATTTAGCGGC
1 GAAAGCGCCACAAAAAAACCTAAGCCCAACAACGTCGTTTTATGAGCTTTCGGGGATTTAGCAGC
*
37863308 ATTTTTAG
66 ATTTTTAA
37863316 GAAAGCGCC
1 GAAAGCGCC
37863325 GCTAATGCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
73 72 0.99
74 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (73 bp):
GAAAGCGCCACAAAAAAACCTAAGCCCAACAACGTCGTTTTATGAGCTTTCGGGGATTTAGCAGC
ATTTTTAA
Found at i:37863427 original size:114 final size:113
Alignment explanation
Indices: 37863226--37863819 Score: 770
Period size: 114 Copynumber: 5.2 Consensus size: 113
37863216 CTTTTGGGGA
* * * * * * *
37863226 TTTAGCAGAGTTTTTAAGAAAGCGCCACAAAAAAGCCTAAGCTCAACGACGTCGTTTTATGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCT
* *
37863291 TTCGGGGATTTAGCGGCATTTTTAGGAAAGCGCCGCTAATGCTCAGGAC
66 TTTGGGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGG-C
* * *
37863340 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAATGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCT
*
37863405 TTTGGGGATTTCGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAAGGC
66 TTTGGGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTC-AGGC
*
37863454 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTTTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCT
*
37863519 TTTGGGGATATT-GCGGCGTTTTTAGTAAAGCGCCGCTAATGCTCAGGGC
66 TTTGGGGAT-TTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCA-GGC
* * * ** *
37863568 ATTAGCGGCGTTTTTGGGAAAGCGCTGCAAAAAAACCTAAATCCAATG-C-TGCTGTTTTCTGAG
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGT-C-GTTTTCTGAG
* * * *
37863631 CTTTTCGGGAATTTAGCGGCGTTTTTAAGAAACCGCCGCTAATGCTGA-GC
64 CTTTT-GGGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGC
* *
37863681 TTTAGCGGCGATTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCATTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCT
*** **
37863746 TTCAAGGATTTAGCGGCGTTTTTTAATAAAGCGCCGCTAATGCT-A--C
66 TTTGGGGATTTAGCGGCG-TTTTTAGGAAAGCGCCGCTAATGCTCAGGC
*
37863792 TTTAGCGGCATTTTTGAGAAAGCGCCGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC
37863820 TAATGCTCAG
Statistics
Matches: 424, Mismatches: 46, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
111 27 0.06
112 14 0.03
113 82 0.19
114 261 0.62
115 40 0.09
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (113 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCT
TTTGGGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGC
Found at i:37863815 original size:37 final size:38
Alignment explanation
Indices: 37863754--37863826 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
37863744 CTTTCAAGGA
* *
37863754 TTTAGCGGCGTTTTTTAATAAAGCGCCGCTAATGCTAC
1 TTTAGCGGCGATTTTTAAGAAAGCGCCGCTAATGCTAC
*
37863792 TTTAGCGGC-ATTTTTGAGAAAGCGCCGCTAATGCT
1 TTTAGCGGCGATTTTTAAGAAAGCGCCGCTAATGCT
37863827 CAGGGATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 23 0.72
38 9 0.28
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (38 bp):
TTTAGCGGCGATTTTTAAGAAAGCGCCGCTAATGCTAC
Found at i:37864080 original size:22 final size:21
Alignment explanation
Indices: 37864055--37864102 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
37864045 GTGTTACCAT
*
37864055 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGGTTATGGATTAT-GG
* *
37864077 TTTAGGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
37864098 TTTAA
1 TTTAA
37864103 AGGCTGGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (21 bp):
TTTAAGGGTTATGGATTATGG
Found at i:37864122 original size:57 final size:58
Alignment explanation
Indices: 37864055--37864163 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 58
37864045 GTGTTACCAT
* * *
37864055 TTTAAGGTTT-ATGGATTATGGGTTTAGGGGTTAT-GGTTTATGGTTTAAAGGCTGGGG
1 TTTAAGGTTTAAAGG-TTATGGGTTAAGGGGTTATGGGTTTAGGGTTTAAAGGCTGGGG
* * *
37864112 TTTAAGGTTTAAAGGTTATGTGTTAAGGGTTTATGGGTTTAGGGTTTTAAGG
1 TTTAAGGTTTAAAGGTTATGGGTTAAGGGGTTATGGGTTTAGGGTTTAAAGG
37864164 TTTAAGCTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
57 26 0.59
58 18 0.41
ACGTcount: A:0.21, C:0.01, G:0.35, T:0.43
Consensus pattern (58 bp):
TTTAAGGTTTAAAGGTTATGGGTTAAGGGGTTATGGGTTTAGGGTTTAAAGGCTGGGG
Found at i:37864533 original size:14 final size:15
Alignment explanation
Indices: 37864476--37864537 Score: 51
Period size: 14 Copynumber: 4.3 Consensus size: 15
37864466 GCATTTAAGG
*
37864476 TTTAGGGGTTA-GTA
1 TTTAGGGGTTAGGGA
*
37864490 GTTAGGGGTTATGGG-
1 TTTAGGGGTTA-GGGA
* *
37864505 -TTACGAGTTAGGGA
1 TTTAGGGGTTAGGGA
37864519 TTTAGGGGTTA-GGA
1 TTTAGGGGTTAGGGA
37864533 TTTAG
1 TTTAG
37864538 AGATTCAAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
13 3 0.08
14 26 0.68
15 8 0.21
16 1 0.03
ACGTcount: A:0.21, C:0.02, G:0.40, T:0.37
Consensus pattern (15 bp):
TTTAGGGGTTAGGGA
Found at i:37864725 original size:7 final size:7
Alignment explanation
Indices: 37864713--37864737 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
37864703 GAATGGCTAA
37864713 TTTAAGG
1 TTTAAGG
37864720 TTTAAGG
1 TTTAAGG
37864727 TTTAAGG
1 TTTAAGG
37864734 TTTA
1 TTTA
37864738 TTTGAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (7 bp):
TTTAAGG
Found at i:37865804 original size:12 final size:12
Alignment explanation
Indices: 37865787--37865814 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
37865777 GAGGTTTTCT
37865787 TTTGTTTATTTA
1 TTTGTTTATTTA
37865799 TTTGTTTATTTA
1 TTTGTTTATTTA
37865811 TTTG
1 TTTG
37865815 AGTTTTCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.75
Consensus pattern (12 bp):
TTTGTTTATTTA
Found at i:37868504 original size:43 final size:43
Alignment explanation
Indices: 37868457--37868614 Score: 273
Period size: 43 Copynumber: 3.7 Consensus size: 43
37868447 AAAAAACGCT
*
37868457 GCTAAAGATCATGTTCTTTAGCGGCGTTTCT-GGTAAAAGCGCC
1 GCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGT-AAAGCGCC
*
37868500 GCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGTAAAGCGCC
1 GCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAGCGCC
*
37868543 GCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGTAAAGCGCC
1 GCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAGCGCC
37868586 GCTAAAGATCATGTTCTTTAGCGGCGTTT
1 GCTAAAGATCATGTTCTTTAGCGGCGTTT
37868615 TGTCTCATAA
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
43 108 0.97
44 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (43 bp):
GCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAGCGCC
Found at i:37880498 original size:2 final size:2
Alignment explanation
Indices: 37880491--37880520 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
37880481 GTCTTAGATA
37880491 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37880521 TGTTAAGGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37881121 original size:6 final size:6
Alignment explanation
Indices: 37881110--37881136 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
37881100 TTTTGTCTGC
37881110 TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
37881137 GTAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:37881854 original size:4 final size:4
Alignment explanation
Indices: 37881845--37881870 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
37881835 TTATAAACTT
37881845 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
37881871 CCTTAGCTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:37882264 original size:26 final size:25
Alignment explanation
Indices: 37882174--37882264 Score: 69
Period size: 25 Copynumber: 3.5 Consensus size: 25
37882164 TATAACATTT
*
37882174 TAATTTAATTTATTCACAGTATATAA
1 TAATTTAATTTAATCACA-TATATAA
*
37882200 TAA-TTAATTTAATTACCATAT-TATA
1 TAATTTAATTTAATCA-CATATATA-A
** * *
37882225 TACCTCACTATTAATCACATTATATAA
1 TAATTTAAT-TTAATCACA-TATATAA
37882252 TAATTTAATTTAA
1 TAATTTAATTTAA
37882265 ATTGATTTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
24 2 0.04
25 16 0.33
26 14 0.29
27 15 0.31
28 2 0.04
ACGTcount: A:0.43, C:0.11, G:0.01, T:0.45
Consensus pattern (25 bp):
TAATTTAATTTAATCACATATATAA
Found at i:37882422 original size:2 final size:2
Alignment explanation
Indices: 37882415--37882451 Score: 56
Period size: 2 Copynumber: 17.5 Consensus size: 2
37882405 ATATTGTATC
37882415 AT AT AT AT AT AT CAT AT AT AT GAT AT AT AT AT AT AT A
1 AT AT AT AT AT AT -AT AT AT AT -AT AT AT AT AT AT AT A
37882452 ATAAAATAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 29 0.88
3 4 0.12
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:37882429 original size:13 final size:13
Alignment explanation
Indices: 37882411--37882451 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
37882401 ACACATATTG
37882411 TATCATATATATA
1 TATCATATATATA
37882424 TATCATATATATGA
1 TATCATATATAT-A
37882438 TAT-ATATATATA
1 TATCATATATATA
37882450 TA
1 TA
37882452 ATAAAATAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 3 0.11
13 20 0.74
14 4 0.15
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (13 bp):
TATCATATATATA
Found at i:37892621 original size:27 final size:26
Alignment explanation
Indices: 37892591--37892641 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
37892581 ATGAAATTCT
*
37892591 TACAAA-CAACATGATTGATTAACAATA
1 TACAAAGCAA-ATGA-TGAATAACAATA
37892618 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
37892642 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 10 0.45
28 3 0.14
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.22
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Found at i:37892947 original size:23 final size:23
Alignment explanation
Indices: 37892903--37892947 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
37892893 ATAATACGTT
* **
37892903 TAAAAATAATTTTAAGCCAATAA
1 TAAAAATAATGTTAAAACAATAA
*
37892926 TAAAAATAATGTTAAAATAATA
1 TAAAAATAATGTTAAAACAATA
37892948 TATGAACATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
TAAAAATAATGTTAAAACAATAA
Found at i:37894520 original size:23 final size:23
Alignment explanation
Indices: 37894494--37894539 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
37894484 AATGATGATG
37894494 ATTAAATTGATAAAAAGAAATTA
1 ATTAAATTGATAAAAAGAAATTA
37894517 ATTAAATTGATAAAAAGAAATTA
1 ATTAAATTGATAAAAAGAAATTA
37894540 GAGTGATTAA
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:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (23 bp):
ATTAAATTGATAAAAAGAAATTA
Found at i:37897348 original size:24 final size:25
Alignment explanation
Indices: 37897320--37897370 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
37897310 TTTATATATA
*
37897320 TTAAATTAG-TTTTATGATTTTATT
1 TTAAATTAGATTTTAAGATTTTATT
*
37897344 TTAAATTAGATTTTAAGATTTTTTT
1 TTAAATTAGATTTTAAGATTTTATT
37897369 TT
1 TT
37897371 CTTTTTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (25 bp):
TTAAATTAGATTTTAAGATTTTATT
Found at i:37898914 original size:2 final size:2
Alignment explanation
Indices: 37898907--37898943 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
37898897 AAGTATAAGA
37898907 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37898944 CAAATTCAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37912819 original size:29 final size:29
Alignment explanation
Indices: 37912778--37912833 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
37912768 AACCTAAAAA
* * *
37912778 ATAGAAACTATATTCGTAGAAGTAAAAGT
1 ATAGAAACAATATTCCTAGAAATAAAAGT
*
37912807 ATAGAGACAATATTCCTAGAAATAAAA
1 ATAGAAACAATATTCCTAGAAATAAAA
37912834 ACAAAACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (29 bp):
ATAGAAACAATATTCCTAGAAATAAAAGT
Found at i:37916080 original size:2 final size:2
Alignment explanation
Indices: 37916073--37916107 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
37916063 ATGATAATAA
37916073 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37916108 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37917573 original size:21 final size:20
Alignment explanation
Indices: 37917543--37917581 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
37917533 ACGCCTACAA
37917543 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
37917563 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
37917582 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:37923446 original size:24 final size:24
Alignment explanation
Indices: 37923414--37923459 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
37923404 CTCTCTGCTA
*
37923414 AAGTGCTCTCCAGAGCTTCCCGTT
1 AAGTGCTCTCCAGAGCTACCCGTT
* *
37923438 AAGTTCTCTTCAGAGCTACCCG
1 AAGTGCTCTCCAGAGCTACCCG
37923460 ATATAGACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.28
Consensus pattern (24 bp):
AAGTGCTCTCCAGAGCTACCCGTT
Found at i:37926304 original size:3 final size:3
Alignment explanation
Indices: 37926296--37926325 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
37926286 TCTGTTTTCC
37926296 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37926326 TGTCAAGGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:37929526 original size:16 final size:18
Alignment explanation
Indices: 37929489--37929527 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
37929479 AGCTAAATTA
37929489 TCAAGCTTCAACTTGAGC
1 TCAAGCTTCAACTTGAGC
*
37929507 TCAAGCTT-AA-TTGAGT
1 TCAAGCTTCAACTTGAGC
37929523 TCAAG
1 TCAAG
37929528 TTTGAGTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 2 0.10
18 8 0.40
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (18 bp):
TCAAGCTTCAACTTGAGC
Found at i:37931472 original size:143 final size:143
Alignment explanation
Indices: 37931196--37931483 Score: 339
Period size: 143 Copynumber: 2.0 Consensus size: 143
37931186 CTGCATACAA
* ** *
37931196 TATGAATAAATTAATTGGTTTCAATACAAAATATATTAGAAATTTATAAAAATCCTGAGTTTGTC
1 TATGAATAAATTAATTGGTTCCAATACAAAATATATTAGAAAAGTATAAAAATCCTGAATTTGTC
* * * * ***
37931261 AAATTCATAAATACTTTTAAGAATTTCAAATTCAGTCCTAAACAAGGATTCAAAAAATCCATGGA
66 AAATTCATAAATACTTTTAAGAATTTCAAATTCACTACTAAACAAGCATTCAAAAAACCCACAAA
*
37931326 TTTAAGAAATAAT
131 TTTAACAAATAAT
* * * **
37931339 TATGAATAAATTAGTTAGGTTCCAATATAAAATGTATTCTAAAAGTATAAAAATCCTGAATTTGT
1 TATGAATAAATTAATT-GGTTCCAATACAAAATATATTAGAAAAGTATAAAAATCCTGAATTTGT
* * *
37931404 CAAGTTCATAAA-AGC-TTTAATAATTTCAAATTCACTACTAAACAAGCATAT-AACAAACCCAC
65 CAAATTCATAAATA-CTTTTAAGAATTTCAAATTCACTACTAAACAAGCAT-TCAAAAAACCCAC
*
37931466 AAATTTAACATATAAT
128 AAATTTAACAAATAAT
37931482 TA
1 TA
37931484 AAAAAGTAAC
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
143 68 0.56
144 53 0.44
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (143 bp):
TATGAATAAATTAATTGGTTCCAATACAAAATATATTAGAAAAGTATAAAAATCCTGAATTTGTC
AAATTCATAAATACTTTTAAGAATTTCAAATTCACTACTAAACAAGCATTCAAAAAACCCACAAA
TTTAACAAATAAT
Found at i:37933828 original size:23 final size:24
Alignment explanation
Indices: 37933787--37933837 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
37933777 TGTATTTGTT
* * *
37933787 TTTAAATCTAGCATTA-TTTAATA
1 TTTAAATCTAACATCATTTTAAAA
*
37933810 TTTAAATTTAACATCATTTTAAAA
1 TTTAAATCTAACATCATTTTAAAA
37933834 TTTA
1 TTTA
37933838 TCATTAGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTAAATCTAACATCATTTTAAAA
Found at i:37943301 original size:17 final size:17
Alignment explanation
Indices: 37943275--37943310 Score: 51
Period size: 14 Copynumber: 2.3 Consensus size: 17
37943265 ACAATATCCA
37943275 AATAATAAC-A-ATAA-
1 AATAATAACAACATAAC
37943289 AATAATAACAACATAAC
1 AATAATAACAACATAAC
37943306 AATAA
1 AATAA
37943311 AATGATACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.47
15 1 0.05
16 4 0.21
17 5 0.26
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.19
Consensus pattern (17 bp):
AATAATAACAACATAAC
Found at i:37943304 original size:22 final size:22
Alignment explanation
Indices: 37943278--37943354 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
37943268 ATATCCAAAT
37943278 AATAACAATAAAATAATAACAA
1 AATAACAATAAAATAATAACAA
* * *
37943300 CATAACAATAAAATGATACCAA
1 AATAACAATAAAATAATAACAA
*
37943322 AATAATAAT-AAA-AATAACAA
1 AATAACAATAAAATAATAACAA
*
37943342 GAA-AACACTAAAA
1 -AATAACAATAAAA
37943355 AAAAACCCTT
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
20 10 0.23
21 8 0.18
22 26 0.59
ACGTcount: A:0.69, C:0.12, G:0.03, T:0.17
Consensus pattern (22 bp):
AATAACAATAAAATAATAACAA
Found at i:37946145 original size:16 final size:15
Alignment explanation
Indices: 37946120--37946149 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37946110 ATATATGTGC
37946120 AATAAGTATATAAAT
1 AATAAGTATATAAAT
37946135 AATAGAGTATATAAA
1 AATA-AGTATATAAA
37946150 AATGTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (15 bp):
AATAAGTATATAAAT
Found at i:37948366 original size:45 final size:45
Alignment explanation
Indices: 37948301--37948525 Score: 256
Period size: 45 Copynumber: 5.0 Consensus size: 45
37948291 AAGACTTGTA
* * * * * *
37948301 TCTTCGATCTACTTCGCCACCAATATATGAAGACAATATATGCTT
1 TCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGATT
* *
37948346 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAATATCTGATT
1 TCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGATT
* * * * *
37948391 TCTTTGATCCACTCCACCACTAGTAT-GGAGAGACAAGATCTGATA
1 TCTTCGATCTACTTCACCACCAGTATAGGA-AGACAAGATCTGATT
* * * * *
37948436 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGATT
*
37948480 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGATT
1 TCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGATT
37948525 T
1 T
37948526 TTCCTTCGAT
Statistics
Matches: 149, Mismatches: 28, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
44 37 0.25
45 112 0.75
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGATT
Found at i:37948498 original size:89 final size:90
Alignment explanation
Indices: 37948301--37948523 Score: 245
Period size: 89 Copynumber: 2.5 Consensus size: 90
37948291 AAGACTTGTA
* * * * * * *
37948301 TCTTCGATCTACTTCGCCACCAATATATGA-AGACAATATATGCTTTCTTCGATCTACTTCACCA
1 TCTTCGATCTACTTCACCACCAGTAT-GGAGAGACAAGATCTGATATCTTCGATCTACTTCACCA
* ** *
37948365 CCAGTATGGGAAGACAATATCTGATT
65 CCAATACAGGAAGACAAGATCTGATT
* * * * *
37948391 TCTTTGATCCACTCCACCACTAGTATGGAGAGACAAGATCTGATATCTTCGATCTACTTCA-CGC
1 TCTTCGATCTACTTCACCACCAGTATGGAGAGACAAGATCTGATATCTTCGATCTACTTCACCAC
* *
37948455 CAATACATGAAGACAAGATCTGCTT
66 CAATACAGGAAGACAAGATCTGATT
37948480 TCTTCGATCTACTTCACCACCAGTATGG-GAAGACAAGATCTGAT
1 TCTTCGATCTACTTCACCACCAGTATGGAG-AGACAAGATCTGAT
37948524 TTTTCCTTCG
Statistics
Matches: 109, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
88 1 0.01
89 61 0.56
90 47 0.43
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (90 bp):
TCTTCGATCTACTTCACCACCAGTATGGAGAGACAAGATCTGATATCTTCGATCTACTTCACCAC
CAATACAGGAAGACAAGATCTGATT
Found at i:37948712 original size:132 final size:132
Alignment explanation
Indices: 37948534--37948928 Score: 616
Period size: 132 Copynumber: 3.0 Consensus size: 132
37948524 TTTTCCTTCG
* * *
37948534 ATTCCACTGCCGACCAGTGG-GATAGAATTACTGGCTTCAATATACTCCATTGCAACCTCAGGGA
1 ATTCCACTGCTGCCCAG-GGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGA
*
37948598 GGTAAAATCTGCCATCTTTGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA
65 GGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA
37948663 TCT
130 TCT
* *
37948666 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAG
* * * *
37948731 GTAAAAT-TCGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAATATCTGAAATCTTCAA
66 GTAAAATCT-GCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA
37948795 TCT
130 TCT
*
37948798 ATTCCACTGCTGCCCAGGGA-AGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGA
1 ATTCCACTGCTGCCCAGGGAGA-TAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGA
* *
37948862 GGTAAAATCCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTTAATCTTCA
65 GGTAAAAT-CTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
37948927 AT
129 AT
37948929 TTGTTCAACT
Statistics
Matches: 239, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
131 4 0.02
132 184 0.77
133 50 0.21
134 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (132 bp):
ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAG
GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
CT
Found at i:37948984 original size:50 final size:49
Alignment explanation
Indices: 37948922--37949702 Score: 445
Period size: 50 Copynumber: 15.6 Consensus size: 49
37948912 GATCTTTAAT
* **
37948922 CTTCAATTTGTTCAACTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATG-CAAGGAAACCAGATCCGCCGTCGTAG
* * * *** * * *
37948972 CTTCAATCTGTTCCACCGCACTGCTAAGGAAGTAAGATCCACCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGC-AAGGAAACCAGATCCGCCGTCGTAG
* * * * * *
37949022 CTTCAATCTTTTTAATTGCTATACAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGCAAGGAAACCAGATCCGCCGTCGTAG
* * *** * * *
37949071 CTTCAATCTGTTTC-GCTGCACTGCTAAGGAAGTAAGATCCGTCGTTGTGG
1 CTTCAATCTG-TTCAACTGCAATGC-AAGGAAACCAGATCCGCCGTCGTAG
* * * *
37949121 CTTCAATCTTTTTAATTGCAATATC-AGAGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAAT-GCAAG-GAAACCAGATCCGCCGTCGTAG
* * ** * * *
37949171 CTTCAATCTGTTTC-GCTGCACTGCTAAGGAAATAATATCCGCCGTTGTGG
1 CTTCAATCTG-TTCAACTGCAATGC-AAGGAAACCAGATCCGCCGTCGTAG
* * * * * *
37949221 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAAT-GCAAGGAAACCAGATCCGCCGTCGTAG
*** * *** * *
37949271 CTTCAATCTGTTTTGCTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGC-AAGGAAACCAGATCCGCCGTCGTAG
* * * * *
37949321 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAAT-GCAAGGAAACCAGATCCGCCGTCGTAG
* ** * *** * *
37949371 CTTCAATCTATTCCGCTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGC-AAGGAAACCAGATCCGCCGTCGTAG
* * * * *
37949421 CTTCAATCTTTTTAATTGCAATATCAAGGAAACCAGATCTGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAAT-GCAAGGAAACCAGATCCGCCGTCGTAG
* * * * *** * * *
37949471 CTTCAATCTCTTCCACTGCACTGCTAAAGAAGTAAGATCCGCTGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGC-AAGGAAACCAGATCCGCCGTCGTAG
* * * *
37949521 CTTCAATCTTTTTAATTGCAACAT-CAGGGAAACCCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGC-A-ATGCAAGGAAA-CCAGATCCGCCGTCGTAG
* * * * ** * * *
37949572 CTTCAATCTGTTCCACTACACTGCTAACGAAATAAGATCCGCTGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGC-AAGGAAACCAGATCCGCCGTCGTAG
* * * * *
37949622 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAAT-GCAAGGAAACCAGATCCGCCGTCGTAG
* *
37949672 CTTCAATCTGTTCCACTGCACTGCTAAGGAA
1 CTTCAATCTGTTCAACTGCAATGC-AAGGAA
37949703 GTAAAATTAC
Statistics
Matches: 519, Mismatches: 189, Indels: 46
0.69 0.25 0.06
Matches are distributed among these distances:
49 45 0.09
50 430 0.83
51 43 0.08
52 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (49 bp):
CTTCAATCTGTTCAACTGCAATGCAAGGAAACCAGATCCGCCGTCGTAG
Found at i:37949198 original size:100 final size:100
Alignment explanation
Indices: 37948938--37949706 Score: 1261
Period size: 100 Copynumber: 7.7 Consensus size: 100
37948928 TTTGTTCAAC
* * *
37948938 TGCAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
37949003 GTAAGATCCACCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
37949038 TGCTATA-CAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTTCGCTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
37949102 GTAAGATCCGTCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
37949137 TGCAATATCAGAGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTTCGCTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
* *
37949202 ATAATATCCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* ***
37949237 TGCAATATCAGGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTTTGCTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
37949302 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *
37949337 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTATTCCGCTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
37949402 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * * *
37949437 TGCAATATCAAGGAAACCAGATCTGCCGTCGTAGCTTCAATCTCTTCCACTGCACTGCTAAAGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
37949502 GTAAGATCCGCTGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
37949537 TGCAACATCAGGGAAACCCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACTGCTAACGA
1 TGCAATATCAGGGAAA-CCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGA
* *
37949602 AATAAGATCCGCTGTTGTGGCTTCAATCTTTTTAAT
65 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
37949638 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
37949703 GTAA
66 GTAA
37949707 AATTACTGGC
Statistics
Matches: 628, Mismatches: 39, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
99 92 0.15
100 442 0.70
101 94 0.15
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (100 bp):
TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
Found at i:37949832 original size:44 final size:44
Alignment explanation
Indices: 37949740--37949835 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
37949730 ATGCAACTTC
* ** * * **
37949740 AGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGGCAAAATCTGAAATCTTCAACCTGCTCCACTACTGCCG
*
37949784 AGGGAGGCAAGATCTGAAATCTTCAACCTGCTCCACTACCT-CCG
1 AGGGAGGCAAAATCTGAAATCTTCAACCTGCTCCACTA-CTGCCG
37949828 AGGGAGGC
1 AGGGAGGC
37949836 GAGGTTGGTG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 41 0.95
45 2 0.05
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (44 bp):
AGGGAGGCAAAATCTGAAATCTTCAACCTGCTCCACTACTGCCG
Found at i:37951179 original size:45 final size:45
Alignment explanation
Indices: 37951108--37951199 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
37951098 TAGCCTCTCT
* * *
37951108 TCTTTTTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGG
1 TCTTTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGG
*
37951153 TCTTTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGG
1 TCTTTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGG
37951198 TC
1 TC
37951200 CTACCTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (45 bp):
TCTTTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGG
Found at i:37951209 original size:46 final size:45
Alignment explanation
Indices: 37951114--37951211 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 45
37951104 CTCTTCTTTT
* * * ***
37951114 TTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTTTT
1 TTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCTACC
*
37951159 TTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCCTACC
1 TTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGT-CTACC
37951205 TTTTTTA
1 TTTTTTA
37951212 AGCAGAGTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 36 0.80
46 9 0.20
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.46
Consensus pattern (45 bp):
TTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCTACC
Found at i:37955489 original size:16 final size:15
Alignment explanation
Indices: 37955464--37955493 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37955454 ATATATGTGC
37955464 AATAAGTATATAAAT
1 AATAAGTATATAAAT
37955479 AATAGAGTATATAAA
1 AATA-AGTATATAAA
37955494 AATGTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (15 bp):
AATAAGTATATAAAT
Found at i:37966288 original size:126 final size:124
Alignment explanation
Indices: 37965940--37966441 Score: 657
Period size: 125 Copynumber: 4.0 Consensus size: 124
37965930 TAATTTTTTG
* *
37965940 GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAGACGCTTCAAGCAG
1 GGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAA-ATGCTTCAAGCAG
* * * *
37966005 GATGCTATTTGAGAAGAATTTCTGAAATCGCGCCCTTGTGGACGCGCTTTTACTACAGTT
65 GATGCTATATGAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
* * * * * *
37966065 GGTCTTGGAAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTAT-AAAATCGCTTCTACCA
1 GGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAAT-GCTTCAAGCA
* * *
37966129 GGATGCTTTATGAGAAGAATTTGTGAAATCGCG-CCTAAGTGGACGCGCTTTTGCTACAGTA
64 GGATGCTATATGAGAAGAATTTCTGAAATCGCGCCCT-CGTGGACGCGCTTTTGCTACAGTA
* * *
37966190 GGTCTTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAATGCTTCAAGCA
1 GGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTAT--AAAAATGCTTCAAGCA
* * * * * *
37966255 GGATGCGATCTGAGAAGAATTTCTGAAATCGCGCCTTCGTAGACGCTCTTTTGCTACAGTT
64 GGATGCTATATGAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
* * *
37966316 GGTCCTGAAAGAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAATTGCTTCTAGTAG
1 GGTCCTGAAA-AAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAATGCTTCAAGCAG
* * *
37966381 GATGCTTTATGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTA
65 GATGCTATATGAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
37966441 G
1 G
37966442 CATGTTTGGG
Statistics
Matches: 326, Mismatches: 43, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
124 42 0.13
125 139 0.43
126 103 0.32
127 42 0.13
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (124 bp):
GGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAATGCTTCAAGCAGG
ATGCTATATGAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
Found at i:37966387 original size:251 final size:250
Alignment explanation
Indices: 37965940--37966441 Score: 801
Period size: 251 Copynumber: 2.0 Consensus size: 250
37965930 TAATTTTTTG
*
37965940 GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAGACGCTTCAAGCAG
1 GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAG
* * * *
37966005 GATGCTATTTGAGAAGAATTTCTGAAATCGCGCCCTTGTGGACGCGCTTTTACTACAGTTGGTCT
66 GATGCGATCTGAGAAGAATTTCTGAAATCGCGCCCTTGTAGACGCGCTTTTACTACAGTTGGTCC
* * *
37966070 TGGAAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGC
131 TGAAAGAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTACCAGGATGC
*
37966135 TTTATGAGAAGAATTTGTGAAATCGCG-CCTAAGTGGACGCGCTTTTGCTACAGTA
196 TTTATGAGAAGAATTTGTGAAATCACGCCCT-AGTGGACGCGCTTTTGCTACAGTA
* * *
37966190 GGTCTTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAATGCTTCAAGCA
1 GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTAAGCAAATAGTAT-AAAAAACGCTTCAAGCA
* *
37966255 GGATGCGATCTGAGAAGAATTTCTGAAATCGCG-CCTTCGTAGACGCTCTTTTGCTACAGTTGGT
65 GGATGCGATCTGAGAAGAATTTCTGAAATCGCGCCCTT-GTAGACGCGCTTTTACTACAGTTGGT
* **
37966319 CCTGAAAGAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAATTGCTTCTAGTAGGAT
129 CCTGAAAGAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTACCAGGAT
*
37966384 GCTTTATGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTA
194 GCTTTATGAGAAGAATTTGTGAAATCACGCCCTAGTGGACGCGCTTTTGCTACAGTA
37966441 G
1 G
37966442 CATGTTTGGG
Statistics
Matches: 231, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
250 49 0.21
251 179 0.77
252 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (250 bp):
GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAG
GATGCGATCTGAGAAGAATTTCTGAAATCGCGCCCTTGTAGACGCGCTTTTACTACAGTTGGTCC
TGAAAGAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTACCAGGATGC
TTTATGAGAAGAATTTGTGAAATCACGCCCTAGTGGACGCGCTTTTGCTACAGTA
Found at i:37969699 original size:65 final size:65
Alignment explanation
Indices: 37969623--37970577 Score: 933
Period size: 65 Copynumber: 14.7 Consensus size: 65
37969613 AAACCTTTAT
* * * ***
37969623 GTTAGGGTTTTTAGGTTAAAGGTTCATGGAATTTAAGTTCAGGGTTTACAATTTTTAAGTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
* * *
37969688 GTCAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAAG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
* ** * *
37969753 GTTAGGATTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGTTTTAGGGTTTTTAGGTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
* * * * ** * *
37969818 GTTTATGGTTTTTAAGTTAAGGTTTTAGGGTTTTTAAGTTAATGGTTTAAGGTTTTTAAGTTAAG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG
37969883 G
65 G
* * * ** * * * **
37969884 GTTTAGGGTTTTTAAGTTAAGAG-TTAGGGTTTTTAGGTTAAGAGTTTATGGAATTTAAGTTAAG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG
37969948 G
65 G
*
37969949 GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
* * ** * *
37970013 GTTAGGGTTTTTAGGTTAATGGTTTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAAG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTT-AAG
37970078 G
65 G
* * * * ** * * **
37970079 TTTATGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
* *
37970143 GTTAGGGTTTTTAGGTTAAGGGTTTATAGAATTTAAGATAAGGGTTTAGGGTTTTTAAGTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
*
37970208 GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
* ** * * ** * **
37970272 GTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTATGGAATTTAAGTTAAG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG
37970337 G
65 G
* * ** * * **
37970338 GTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG
37970402 AG
65 -G
* * * ** *
37970404 TTTAGGGTTTTTAAGTTAAGGGTTT-GGGGTTTTAAGGTT-AGGGTTTAGGGTTTTTAGGTTAAG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAA-GTTAAGGGTTTAGGGTTTTTAAGTTAAG
37970467 G
65 G
* ** * * * * *
37970468 GTTTAAGGTTTTTAGGTTAAGGG-TTAAAG-TTTTTAGCTTAAGGGTTTATGGTTTTTAGGTTTA
1 G-TTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAG-TTAAGGGTTTAGGGTTTTTAAGTTAA
37970531 GG
64 GG
* * * * **
37970533 ATTTA-GCTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTT
1 -GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTT
37970578 AGGATTAGGG
Statistics
Matches: 765, Mismatches: 109, Indels: 33
0.84 0.12 0.04
Matches are distributed among these distances:
63 1 0.00
64 155 0.20
65 470 0.61
66 139 0.18
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.45
Consensus pattern (65 bp):
GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
Found at i:37969723 original size:43 final size:44
Alignment explanation
Indices: 37969624--37970577 Score: 1051
Period size: 43 Copynumber: 22.0 Consensus size: 44
37969614 AACCTTTATG
* * * * ** *
37969624 TTAGGGTTTTTAGGTTAAAGGTTCATGGAATTTAAGTTCAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
*** * *
37969668 TTACAATTTTTAAGTTAAGGG-TCAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* ** * *
37969711 TTATGGAATTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAAGG-
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* * * *
37969754 TTAGGATTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGTT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* * *
37969798 TTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGTT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* *
37969842 TTAGGGTTTTTAAGTTAATGGTTTAAGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* * *
37969886 TTAGGGTTTTTAAGTTAAGAG-TTAGGGTTTTTAGGTTAAGAGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* ** *
37969929 TTATGGAATTTAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* ** *
37969972 TTATGGAATTTAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* * *
37970014 TTAGGGTTTTTAGGTTAATGGTTTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* * *
37970058 TTATGGTTTTTAAGTTAAAGGTTTATGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* * **
37970101 TTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* ** ** *
37970144 TTAGGGTTTTTAGGTTAAGGGTTTATAGAATTTAAGATAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
*
37970188 TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* ** *
37970231 TTATGGAATTTAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* **
37970274 TTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* **
37970318 TTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
* * ** *
37970361 TTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGAGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
*
37970405 TTAGGGTTTTTAAGTTAAGGGTTT-GGGGTTTTAAGGTT-AGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA-GTTAAGGGT
* * *
37970448 TTAGGGTTTTTAGGTTAAGGGTTTAAGGTTTTTAGGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
** * * * *
37970491 TTAAAGTTTTT-AGCTTAAGGGTTTATGGTTTTTAGGTTTAGGAT
1 TTAGGGTTTTTAAG-TTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
*
37970535 TTA-GCTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
37970577 T
1 T
37970578 AGGATTAGGG
Statistics
Matches: 799, Mismatches: 98, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
42 36 0.05
43 464 0.58
44 299 0.37
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.45
Consensus pattern (44 bp):
TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT
Found at i:37970428 original size:22 final size:22
Alignment explanation
Indices: 37969624--37970577 Score: 1051
Period size: 22 Copynumber: 44.0 Consensus size: 22
37969614 AACCTTTATG
* *
37969624 TTAGGGTTTTTAGGTTAAAGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* * ** *
37969646 TCATGGAATTTAAGTTCAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
***
37969668 TTACAATTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
* *
37969689 TCAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* **
37969711 TTATGGAATTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* *
37969733 TTATGGTTTTTAAGTTAAAGG-
1 TTAGGGTTTTTAAGTTAAGGGT
* *
37969754 TTAGGATTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* *
37969776 TTATGGTTTTTAAGTTAAGGTT
1 TTAGGGTTTTTAAGTTAAGGGT
*
37969798 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* *
37969820 TTATGGTTTTTAAGTTAAGGTT
1 TTAGGGTTTTTAAGTTAAGGGT
*
37969842 TTAGGGTTTTTAAGTTAATGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
37969864 TTAAGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
37969886 TTAGGGTTTTTAAGTTAAGAG-
1 TTAGGGTTTTTAAGTTAAGGGT
* *
37969907 TTAGGGTTTTTAGGTTAAGAGT
1 TTAGGGTTTTTAAGTTAAGGGT
* **
37969929 TTATGGAATTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
37969950 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* **
37969972 TTATGGAATTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
37969993 TTAGGGTTTTTAGGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
* *
37970014 TTAGGGTTTTTAGGTTAATGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
37970036 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* *
37970058 TTATGGTTTTTAAGTTAAAGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
37970080 TTATGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
37970101 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* **
37970123 TTATGGAATTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
37970144 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
** ** *
37970166 TTATAGAATTTAAGATAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
37970188 TTAGGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
37970209 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* **
37970231 TTATGGAATTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
37970252 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* **
37970274 TTATGGAATTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
37970296 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* **
37970318 TTATGGAATTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
37970340 TTAGGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
37970361 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* ** *
37970383 TTATGGAATTTAAGTTAAGAGT
1 TTAGGGTTTTTAAGTTAAGGGT
37970405 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
37970427 TT-GGGGTTTTAAGGTT-AGGGT
1 TTAGGGTTTTTAA-GTTAAGGGT
*
37970448 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* *
37970470 TTAAGGTTTTTAGGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
**
37970491 TTAAAGTTTTT-AGCTTAAGGGT
1 TTAGGGTTTTTAAG-TTAAGGGT
* * * *
37970513 TTATGGTTTTTAGGTTTAGGAT
1 TTAGGGTTTTTAAGTTAAGGGT
*
37970535 TTA-GCTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
37970555 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
37970577 T
1 T
37970578 AGGATTAGGG
Statistics
Matches: 773, Mismatches: 141, Indels: 36
0.81 0.15 0.04
Matches are distributed among these distances:
20 4 0.01
21 265 0.34
22 503 0.65
23 1 0.00
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.45
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAAGGGT
Found at i:37971177 original size:18 final size:18
Alignment explanation
Indices: 37971154--37971193 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
37971144 GACTCGAAAA
* *
37971154 AGGATACATATAAGGGTT
1 AGGATACATAAAAGGGCT
37971172 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
37971190 AGGA
1 AGGA
37971194 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:37974665 original size:4 final size:4
Alignment explanation
Indices: 37974656--37974714 Score: 118
Period size: 4 Copynumber: 14.8 Consensus size: 4
37974646 TCACCCCTAC
37974656 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
37974704 ACAT ACAT ACA
1 ACAT ACAT ACA
37974715 AGATTTATGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:37975423 original size:14 final size:16
Alignment explanation
Indices: 37975404--37975437 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
37975394 TTATAACTTT
37975404 TTAAAAT-TAAA-TTA
1 TTAAAATGTAAATTTA
37975418 TTAAAATGTAAATTTA
1 TTAAAATGTAAATTTA
37975434 TTAA
1 TTAA
37975438 TAGTTGAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 4 0.22
16 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TTAAAATGTAAATTTA
Found at i:37978382 original size:131 final size:131
Alignment explanation
Indices: 37978235--37978506 Score: 418
Period size: 131 Copynumber: 2.1 Consensus size: 131
37978225 AATAAGCTCG
* * * *
37978235 CCTTTGTTTTTATTTAAAACACATTTATTTTAGTTTTAAAAGGATATTTAATTGTTTAGGTTCAA
1 CCTTTATTTTTATTTAAAACACAGTTATTTTAGTTTTAAAAGGATATTCAATTATTTAGGTTCAA
* * *
37978300 CGCGAGAAAAACTGAAACCCAATAAGTTAGGACACAACTTCTCGAATTTCCAAATACGGAATATT
66 CGCAAGAAAAACTGAAACCCAATAAATTAGGACACAACTTCTCGAATTTCCAAATACGGAATATA
37978365 A
131 A
**
37978366 CCTTTATTTTTATTTAAAACACAGTTATTTTAGTTTTAAAAGGATATTCGGTTATTTAGGTTCAA
1 CCTTTATTTTTATTTAAAACACAGTTATTTTAGTTTTAAAAGGATATTCAATTATTTAGGTTCAA
* * * *
37978431 CGCAAGAAAAATTGAAACCCAGTAAATTAGGGCACAACTTCTCGAATTTCTAAATACGGAATATA
66 CGCAAGAAAAACTGAAACCCAATAAATTAGGACACAACTTCTCGAATTTCCAAATACGGAATATA
37978496 A
131 A
*
37978497 TCTTTATTTT
1 CCTTTATTTT
37978507 CAAGATTTTC
Statistics
Matches: 127, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
131 127 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (131 bp):
CCTTTATTTTTATTTAAAACACAGTTATTTTAGTTTTAAAAGGATATTCAATTATTTAGGTTCAA
CGCAAGAAAAACTGAAACCCAATAAATTAGGACACAACTTCTCGAATTTCCAAATACGGAATATA
A
Found at i:37979712 original size:19 final size:19
Alignment explanation
Indices: 37979688--37979728 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
37979678 TCCTTCTTTA
*
37979688 AAATAAAATAA-AATAAACG
1 AAATAAAAAAAGAATAAA-G
37979707 AAATAAAAAAAGAATAAAG
1 AAATAAAAAAAGAATAAAG
37979726 AAA
1 AAA
37979729 CTACCTCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.12
Consensus pattern (19 bp):
AAATAAAAAAAGAATAAAG
Found at i:37980152 original size:44 final size:46
Alignment explanation
Indices: 37980084--37980209 Score: 131
Period size: 44 Copynumber: 2.9 Consensus size: 46
37980074 ACTTATCATG
* * *
37980084 GTAGATTTAATCCGAC-CTACTGCAACTTCAGAGG-TATAGGATTCA
1 GTAGCTTTAATCCGACTCCACTGCAACTTCAGAGGAGATAGGATT-A
* *
37980129 -TCGTTTTAATCC-ACTCCACTGCAACTTCAG-GGAGATAGGATTA
1 GTAGCTTTAATCCGACTCCACTGCAACTTCAGAGGAGATAGGATTA
* *
37980172 GTAGCTTCAA-CCTACTCCACTGCAACTTCAGA-GAGATA
1 GTAGCTTTAATCCGACTCCACTGCAACTTCAGAGGAGATA
37980210 AGGTTTGTTA
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
43 7 0.10
44 62 0.90
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (46 bp):
GTAGCTTTAATCCGACTCCACTGCAACTTCAGAGGAGATAGGATTA
Found at i:37980343 original size:45 final size:45
Alignment explanation
Indices: 37980279--37980398 Score: 186
Period size: 45 Copynumber: 2.6 Consensus size: 45
37980269 ATTTGCTCTA
37980279 TTGCAACTTCAGGGAAATAAGATTTGTAACCGCTCTTCAATCTGC
1 TTGCAACTTCAGGGAAATAAGATTTGTAACCGCTCTTCAATCTGC
37980324 TTGCAACTTCAGGGAAATAAGATTTGTAACCGCTCTTCAATCTGC
1 TTGCAACTTCAGGGAAATAAGATTTGTAACCGCTCTTCAATCTGC
* *
37980369 TCCACTGCAACTTCAGGGAGATAAGGTTTG
1 T----TGCAACTTCAGGGAAATAAGATTTG
37980399 ATATGATCTG
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
45 46 0.67
49 23 0.33
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (45 bp):
TTGCAACTTCAGGGAAATAAGATTTGTAACCGCTCTTCAATCTGC
Found at i:37980524 original size:136 final size:136
Alignment explanation
Indices: 37980357--37980710 Score: 507
Period size: 136 Copynumber: 2.6 Consensus size: 136
37980347 TTGTAACCGC
* **
37980357 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGATATGATCTGCTCTACTGCAACT
1 TCTTCAGTCTGCT-CACTGCAACTTCAGGGAGATAAGACTTGATATGATCTGCTCTACTGCAACT
* * *
37980422 TCAGAGAGATAAGATCCGTAACTTATAGCTTTAATC-GTTCTACTGCGACTTTAGGGAAATAAGA
65 TCAGAGAGATAAGATCCGTAACTTATAGCTTCAATCTGTTCCACTGCGACTTCAGGGAAATAAGA
37980486 TTCGCTA
130 TTCGCTA
*
37980493 TCTTCAGTCTGCTCAACTGCAACTTCAGGGAGATAAAACTTGATATGATCTGCTCTACTGCAACT
1 TCTTCAGTCTGCTC-ACTGCAACTTCAGGGAGATAAGACTTGATATGATCTGCTCTACTGCAACT
* * *
37980558 TCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGTGACTTCAGGGAAATAAGA
65 TCAGAGAGATAAGATCCGTAACTTATAGCTTCAATCTGTTCCACTGCGACTTCAGGGAAATAAGA
37980623 TTCGCTA
130 TTCGCTA
* * * *
37980630 TCTTCAGTCTGCTC-CTGCAACTTCAGGGAGATAAGACTTGTATCTTTAACCTGCTCTACTACAA
1 TCTTCAGTCTGCTCACTGCAACTTCAGGGAGATAAGACTTG-A--TATGATCTGCTCTACTGCAA
37980694 CTTCA-AGGAGATAAGAT
63 CTTCAGA-GAGATAAGAT
37980711 TTGCTATCTT
Statistics
Matches: 197, Mismatches: 15, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
135 26 0.13
136 93 0.47
137 47 0.24
138 31 0.16
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (136 bp):
TCTTCAGTCTGCTCACTGCAACTTCAGGGAGATAAGACTTGATATGATCTGCTCTACTGCAACTT
CAGAGAGATAAGATCCGTAACTTATAGCTTCAATCTGTTCCACTGCGACTTCAGGGAAATAAGAT
TCGCTA
Found at i:37980770 original size:89 final size:89
Alignment explanation
Indices: 37980606--37980842 Score: 293
Period size: 89 Copynumber: 2.7 Consensus size: 89
37980596 TTCCACTGTG
* *
37980606 ACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCT-C-CTGCAACTTCAGGGAGATAAGACTT
1 ACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT
* * *
37980669 GTATCTTTAACCTGCTCTACTACA
66 GTATCTTCAACCTGCCCCACTACA
* * * *
37980693 ACTTCAAGGAGATAAGATTTGCTATCTTTAGTCTGTTCCACTGTAACTTCAGGGAGATAAGACTT
1 ACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT
37980758 GTAAT-TTCAACCTGCCCCACTACA
66 GT-ATCTTCAACCTGCCCCACTACA
* * ** ** *
37980782 ACTTCAGGGGGGTAAGA-TTAATGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 ACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
37980843 TTCGTCATGA
Statistics
Matches: 127, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
87 32 0.25
88 37 0.29
89 56 0.44
90 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (89 bp):
ACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT
GTATCTTCAACCTGCCCCACTACA
Found at i:37980843 original size:44 final size:45
Alignment explanation
Indices: 37980142--37980844 Score: 329
Period size: 44 Copynumber: 15.6 Consensus size: 45
37980132 TTTTAATCCA
* * * *
37980142 CTCCACTGCAACTTCAGGGAGATAGGA-TTAGTAGCTTCAACCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTAATAGCTTCAATCTG
* * **
37980186 CTCCACTGCAACTTCAGAGAGATAAGGTTTGTTA-CTTCAA-CTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTAATAGCTTCAATC-TG
* * ** * ** *
37980230 CTCCACTGCAACTTCAGAGAGATAA-AGTTCGTGGCTTTGATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTAATAGCTTCAATCTG
* * * **
37980274 CTCTATTGCAACTTCAGGGAAATAAGATTTGTAACCGCTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TT-TAATAG--CTTCAATCTG
* **
37980323 CT----TGCAACTTCAGGGAAATAAGATTTGTAACCGCTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TT-TAATAG--CTTCAATCTG
* * *
37980368 CTCCACTGCAACTTCAGGGAGATAAGGTTTGATA---T-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTAATAGCTTCAATCTG
* * * *
37980409 CTCTACTGCAACTTCAGAGAGATAAGATCCGTAACTTATAGCTTTAATC-G
1 CTCCACTGCAACTTCAGGGAGATAAGAT---T---TAATAGCTTCAATCTG
* * * * * *** * *
37980459 TTCTACTGCGACTTTAGGGAAATAAGATTCGCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTAATAGCTTCAATCTG
* * * * *
37980504 CTCAACTGCAACTTCAGGGAGATAAAACTTGATA---T-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTAATAGCTTCAATCTG
* *
37980545 CTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-T-T-A---ATAGCTTCAATCTG
* ** * *** * *
37980596 TTCCACTGTGACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTAATAGCTTCAATCTG
* * * * *
37980641 CT-C-CTGCAACTTCAGGGAGATAAGACTT-GTATCTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTAATAGCTTCAATCTG
* * * ** * * *
37980683 CTCTACTACAACTTCAAGGAGATAAGATTTGCTATCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTAATAGCTTCAATCTG
* * *
37980728 TTCCACTGTAACTTCAGGGAGATAAGACTTGTAAT---TTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TT-TAATAGCTTCAATCTG
* * * * *
37980772 CCCCACTACAACTTCAGGGGGGTAAGA-TTAATGGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTAATAGCTTCAATCTG
37980816 CTCCACTGCAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
37980845 CGTCATGATG
Statistics
Matches: 502, Mismatches: 114, Indels: 85
0.72 0.16 0.12
Matches are distributed among these distances:
41 62 0.12
42 16 0.03
43 25 0.05
44 173 0.34
45 122 0.24
46 3 0.01
47 14 0.03
48 2 0.00
49 28 0.06
50 27 0.05
51 30 0.06
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTAATAGCTTCAATCTG
Found at i:37981757 original size:16 final size:18
Alignment explanation
Indices: 37981728--37981767 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
37981718 TTGGCCTCTC
*
37981728 TTTTTTCGTTTTC-TTAT
1 TTTTTTCGTGTTCTTTAT
37981745 TTTTTTC-TGTTCTTTAT
1 TTTTTTCGTGTTCTTTAT
37981762 TTTTTT
1 TTTTTT
37981768 ATGAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.80
Consensus pattern (18 bp):
TTTTTTCGTGTTCTTTAT
Found at i:37986587 original size:131 final size:131
Alignment explanation
Indices: 37986395--37986669 Score: 408
Period size: 131 Copynumber: 2.1 Consensus size: 131
37986385 GAGAATAAGC
* * * * *
37986395 TTGCTTTTGTTTTTATTTAAAACACAATTATTTTGGTTTTAAAAGGATATTCGGTTATTTAGATT
1 TTGCCTTTATTTTTATTTAAAACACAATTATTCTAGTTTTAAAAGGATATTCGATTATTTAGATT
* *
37986460 CAACGCAAGAAAAATCGAAACCCAGTAAGTTAGGGCACAACTTCTCGAATTTCCAAATAC-AGAA
66 CAACGCAAGAAAAATCGAAACCCAATAAATTAGGGCACAACTTCTCGAATTTCCAAATACGA-AA
37986524 TA
130 TA
* * *
37986526 TTGCCTTTATTTTTATTTAAAACACATTTATTCTAGTTTTAAAAGGATATTCGATTTTTTAGGTT
1 TTGCCTTTATTTTTATTTAAAACACAATTATTCTAGTTTTAAAAGGATATTCGATTATTTAGATT
* * *
37986591 CAACGCGAGAAAAATCGAAACCCAATAAATTAGGGCACAACTTCTTGAATTTCTAAATACGAAAT
66 CAACGCAAGAAAAATCGAAACCCAATAAATTAGGGCACAACTTCTCGAATTTCCAAATACGAAAT
37986656 A
131 A
*
37986657 TTACCTTTATTTT
1 TTGCCTTTATTTT
37986670 CAAGATTTTC
Statistics
Matches: 129, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 128 0.99
132 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (131 bp):
TTGCCTTTATTTTTATTTAAAACACAATTATTCTAGTTTTAAAAGGATATTCGATTATTTAGATT
CAACGCAAGAAAAATCGAAACCCAATAAATTAGGGCACAACTTCTCGAATTTCCAAATACGAAAT
A
Found at i:37986971 original size:3 final size:3
Alignment explanation
Indices: 37986963--37987011 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
37986953 AGTTAAACAC
37986963 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
37987011 T
1 T
37987012 GAAATATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:37987913 original size:19 final size:19
Alignment explanation
Indices: 37987889--37987929 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
37987879 CTTTAAAATA
*
37987889 AAATAAAATAA-AATAAACG
1 AAATAAAAAAAGAATAAA-G
37987908 AAATAAAAAAAGAATAAAG
1 AAATAAAAAAAGAATAAAG
37987927 AAA
1 AAA
37987930 CTACCTCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.12
Consensus pattern (19 bp):
AAATAAAAAAAGAATAAAG
Found at i:37987930 original size:24 final size:24
Alignment explanation
Indices: 37987884--37987930 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
37987874 TCCTTCTTTA
* *
37987884 AAATAAAATAAAATAAAATAAACG
1 AAATAAAAAAAAATAAAAGAAACG
37987908 AAATAAAAAAAGAAT-AAAGAAAC
1 AAATAAAAAAA-AATAAAAGAAAC
37987931 TACCTCTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (24 bp):
AAATAAAAAAAAATAAAAGAAACG
Found at i:37992688 original size:72 final size:72
Alignment explanation
Indices: 37992595--37992738 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
37992585 AGAGGGACTA
*
37992595 ATTTGCTCAATTTTGAAATTAAGAGGGATTAGAGAGGTCTTTTCACCTAATTGAATCAATTTGTA
1 ATTTGCTCAATTTTGAAATTAAGAGGGATTAGAGAGGTCTTTTCACCTAATTGAATCAAATTGTA
37992660 AACACAT
66 AACACAT
*
37992667 ATTTGCTCAATTTTGAAATTAAGAGGGATTGGAGAGGTCTTTTCACCTAATTGAATCAAATTGTA
1 ATTTGCTCAATTTTGAAATTAAGAGGGATTAGAGAGGTCTTTTCACCTAATTGAATCAAATTGTA
37992732 AACACAT
66 AACACAT
37992739 GTATGTTAAC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (72 bp):
ATTTGCTCAATTTTGAAATTAAGAGGGATTAGAGAGGTCTTTTCACCTAATTGAATCAAATTGTA
AACACAT
Found at i:37998306 original size:30 final size:28
Alignment explanation
Indices: 37998243--37998309 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
37998233 CGATTTCGCG
*
37998243 AAAAATGGCCCATTCCGGTAAATAATCA
1 AAAAATGGCCCATTCCGGTAAATAATAA
* **
37998271 AAAAATCGGCCCATTTCGGTAAATTTTGAA
1 AAAAAT-GGCCCATTCCGGTAAATAAT-AA
37998301 AAAAATGGC
1 AAAAATGGC
37998310 TTTTATTGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 6 0.18
29 20 0.61
30 7 0.21
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (28 bp):
AAAAATGGCCCATTCCGGTAAATAATAA
Found at i:38006872 original size:23 final size:23
Alignment explanation
Indices: 38006832--38006879 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
38006822 AATTGTCAAG
**
38006832 TTTAGACCCTGATATAGAAACAA
1 TTTAGACCCCAATATAGAAACAA
* *
38006855 TTTAGACCCCAATGTAGAAGCAA
1 TTTAGACCCCAATATAGAAACAA
38006878 TT
1 TT
38006880 ATTAAGTTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (23 bp):
TTTAGACCCCAATATAGAAACAA
Found at i:38008805 original size:17 final size:18
Alignment explanation
Indices: 38008772--38008807 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
38008762 TTTACCATTG
*
38008772 TTACAAATATTAATTTAT
1 TTACAAATATAAATTTAT
38008790 TTACAAAT-TAAATTTAT
1 TTACAAATATAAATTTAT
38008807 T
1 T
38008808 ATTGTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (18 bp):
TTACAAATATAAATTTAT
Found at i:38009931 original size:6 final size:6
Alignment explanation
Indices: 38009911--38009965 Score: 76
Period size: 6 Copynumber: 9.0 Consensus size: 6
38009901 TTTACGTCAA
*
38009911 AATTTT AATTAAT AATTAT AAATTA- AATTAT AATTAT AATTAT AATTAT
1 AATTAT AATT-AT AATTAT -AATTAT AATTAT AATTAT AATTAT AATTAT
38009960 AATTAT
1 AATTAT
38009966 CACGGTTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
5 5 0.11
6 30 0.67
7 10 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
AATTAT
Found at i:38013565 original size:2 final size:2
Alignment explanation
Indices: 38013558--38013595 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
38013548 CTCTCCACCA
*
38013558 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38013596 TCATCTCTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38019858 original size:59 final size:54
Alignment explanation
Indices: 38019785--38019921 Score: 150
Period size: 54 Copynumber: 2.4 Consensus size: 54
38019775 TAGGGTCTGA
* * * *
38019785 ATTTAGCCTGGACTGGTAATTCAGATCCAGGCTC-ATTAGAGTAATTGTCATTGCAGGGG
1 ATTTAGCCTGGACTGGTAATTCAGA-CAAGACTCTA-T-GAGT--TTAT-ATTACAGGGG
* * *
38019844 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGG
1 ATTTAGCCTGGACTGGTAATTCAGACAAGACTCTATGAGTTTATATTACAGGGG
38019898 ATTTAGCCTGGACTGGTAATTCAG
1 ATTTAGCCTGGACTGGTAATTCAG
38019922 CTGTAAGAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
54 31 0.46
55 3 0.04
57 4 0.06
58 6 0.09
59 24 0.35
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATTCAGACAAGACTCTATGAGTTTATATTACAGGGG
Found at i:38021271 original size:11 final size:10
Alignment explanation
Indices: 38021248--38021282 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
38021238 GTGACCCCTG
38021248 TTTCCAATTT
1 TTTCCAATTT
38021258 TTTCCAATTT
1 TTTCCAATTT
* *
38021268 TTTTCAACTT
1 TTTCCAATTT
38021278 TTTCC
1 TTTCC
38021283 TAAACTTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTCCAATTT
Found at i:38023018 original size:26 final size:28
Alignment explanation
Indices: 38022989--38023050 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
38022979 TCTCATCCCT
38022989 ATTTTACTCCCAG-TAAA-ATTTTGACG
1 ATTTTACTCCCAGATAAATATTTTGACG
* *
38023015 ATTTTAC-CCCCGATAAATTTTTTGACG
1 ATTTTACTCCCAGATAAATATTTTGACG
*
38023042 GTTTTACTC
1 ATTTTACTC
38023051 TGCTAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 4 0.13
26 11 0.37
27 14 0.47
28 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (28 bp):
ATTTTACTCCCAGATAAATATTTTGACG
Found at i:38024377 original size:15 final size:16
Alignment explanation
Indices: 38024359--38024396 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
38024349 CAGAAGGGAA
38024359 AAAGAAAGAAAA-AAG
1 AAAGAAAGAAAAGAAG
*
38024374 AAAGAAAGAAAAGGAG
1 AAAGAAAGAAAAGAAG
38024390 AAAGAAA
1 AAAGAAA
38024397 AGCTAAGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAAAGAAG
Found at i:38027665 original size:85 final size:85
Alignment explanation
Indices: 38027504--38027665 Score: 198
Period size: 85 Copynumber: 1.9 Consensus size: 85
38027494 CGTACTTGTG
* * * * *
38027504 TTGTTGTAGGTATGTCACAGCATCATCCGAAACTGAATTCTAACTTAATCTCTGACATTGTTTTA
1 TTGTTGCAGGTATGTCACAGCATCATCCGAAACTGAATTCTAACATAATATCTGACATTATCTTA
*
38027569 CTTATAATGAAATACTTATA
66 CCTATAATGAAATACTTATA
* * * * * * *
38027589 TTGTTGCAGGTATGTCACAGGATCATCTGAAATTGGATTCTGACATGATATCTGACGTTATCTTA
1 TTGTTGCAGGTATGTCACAGCATCATCCGAAACTGAATTCTAACATAATATCTGACATTATCTTA
*
38027654 CCTATAGTGAAA
66 CCTATAATGAAA
38027666 GCGAGTGATA
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (85 bp):
TTGTTGCAGGTATGTCACAGCATCATCCGAAACTGAATTCTAACATAATATCTGACATTATCTTA
CCTATAATGAAATACTTATA
Found at i:38028049 original size:14 final size:14
Alignment explanation
Indices: 38028013--38028051 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
38028003 TCAGAGAACA
*
38028013 TTGAAGAAAACAAC
1 TTGAAGAACACAAC
38028027 TTGAAGAACACAAC
1 TTGAAGAACACAAC
38028041 TTGAAGAACAC
1 TTGAAGAACAC
38028052 CATTGGAGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.15
Consensus pattern (14 bp):
TTGAAGAACACAAC
Found at i:38036340 original size:31 final size:32
Alignment explanation
Indices: 38036302--38036372 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 32
38036292 GGGGGATTAG
*
38036302 TTAAAATTTTTAAAGAGC-TAATTAAAATTTT
1 TTAAAATTTTTAAAGAGCATAATGAAAATTTT
*
38036333 TTAAAA-TTTTGAAGAGCATAATGAAAATTTT
1 TTAAAATTTTTAAAGAGCATAATGAAAATTTT
*
38036364 TCAAAATTT
1 TTAAAATTT
38036373 AGGCAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 10 0.29
31 23 0.66
32 2 0.06
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.42
Consensus pattern (32 bp):
TTAAAATTTTTAAAGAGCATAATGAAAATTTT
Found at i:38038153 original size:109 final size:109
Alignment explanation
Indices: 38037962--38038274 Score: 527
Period size: 109 Copynumber: 2.9 Consensus size: 109
38037952 ATGAATAATT
* * * * *
38037962 GGATAAAGTCCAACCATAGCAAATGCACACATGTTAGGATTGAAGACCCACACATCATAGATACA
1 GGATAAAATCCAACTATGGCAAATGCACACATATTAGGATTGAAGACCCACACATCATAAATACA
38038027 TACGATGAGACTCAAATTTAGGAACCAATAGAGAACACAACGCA
66 TACGATGAGACTCAAATTTAGGAACCAATAGAGAACACAACGCA
38038071 GGATAAAATCCAACTATGGCAAATGCACACATATTAGGATTGAAGACCCACACATCATAAATACA
1 GGATAAAATCCAACTATGGCAAATGCACACATATTAGGATTGAAGACCCACACATCATAAATACA
*
38038136 TACGATGAGACTCAAATTTAGGAACCAATAGAGAACACATCGCA
66 TACGATGAGACTCAAATTTAGGAACCAATAGAGAACACAACGCA
* *
38038180 GGATAAAATCCAACTATGGCAAATGCACACATATTAGGACTGGAGACCCACACATCATAAATACA
1 GGATAAAATCCAACTATGGCAAATGCACACATATTAGGATTGAAGACCCACACATCATAAATACA
* * *
38038245 TATGATGGGACTCAAATTTAGGAATCAATA
66 TACGATGAGACTCAAATTTAGGAACCAATA
38038275 CAAAATAAAT
Statistics
Matches: 193, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
109 193 1.00
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (109 bp):
GGATAAAATCCAACTATGGCAAATGCACACATATTAGGATTGAAGACCCACACATCATAAATACA
TACGATGAGACTCAAATTTAGGAACCAATAGAGAACACAACGCA
Found at i:38038293 original size:109 final size:109
Alignment explanation
Indices: 38037962--38038376 Score: 514
Period size: 109 Copynumber: 3.8 Consensus size: 109
38037952 ATGAATAATT
* * * *
38037962 GGATAAAGTCCAACCATAGCAAATGCACACATGTTAGGATTGAAGACCCACACATCATAGATACA
1 GGATAAAATCCAACCATAGCAAATGCACACATATTAGGACTGAAGACCCACACATCATAAATACA
38038027 TACGATGAGACTCAAATTTAGGAACCAATAGAGAACACAA-CGCA
66 TACGATGAGACTCAAATTTAGGAACCAATAGAGAACA-AATCGCA
* * *
38038071 GGATAAAATCCAACTATGGCAAATGCACACATATTAGGATTGAAGACCCACACATCATAAATACA
1 GGATAAAATCCAACCATAGCAAATGCACACATATTAGGACTGAAGACCCACACATCATAAATACA
*
38038136 TACGATGAGACTCAAATTTAGGAACCAATAGAGAACACATCGCA
66 TACGATGAGACTCAAATTTAGGAACCAATAGAGAACAAATCGCA
* * *
38038180 GGATAAAATCCAACTATGGCAAATGCACACATATTAGGACTGGAGACCCACACATCATAAATACA
1 GGATAAAATCCAACCATAGCAAATGCACACATATTAGGACTGAAGACCCACACATCATAAATACA
* * * * * * * *
38038245 TATGATGGGACTCAAATTTAGGAATCAATACAAAATAAATAGCT
66 TACGATGAGACTCAAATTTAGGAACCAATAGAGAACAAATCGCA
* * ** * * * * *
38038289 GGATAAAA-CCTATCCATAACAAA--CGTACATATTAAGACTAAAGACTCGCACATCACAAATAC
1 GGATAAAATCC-AACCATAGCAAATGCACACATATTAGGACTGAAGACCCACACATCATAAATAC
* *
38038351 ATATGATAAGACTCAAATTTAGGAAC
65 ATACGATGAGACTCAAATTTAGGAAC
38038377 TGGATAAAAT
Statistics
Matches: 272, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
107 54 0.20
108 3 0.01
109 215 0.79
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.20
Consensus pattern (109 bp):
GGATAAAATCCAACCATAGCAAATGCACACATATTAGGACTGAAGACCCACACATCATAAATACA
TACGATGAGACTCAAATTTAGGAACCAATAGAGAACAAATCGCA
Found at i:38042802 original size:24 final size:26
Alignment explanation
Indices: 38042781--38042837 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
38042771 TTTATGTTTT
*
38042781 GTTTTGTTTTTTTT-TTAATGTTCAG
1 GTTTGGTTTTTTTTATTAATGTTCAG
38042806 GTTTGGTTTTTTTTATTAAT-TTCA-
1 GTTTGGTTTTTTTTATTAATGTTCAG
*
38042830 ATTTGGTT
1 GTTTGGTT
38042838 CTTATAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 7 0.24
25 17 0.59
26 5 0.17
ACGTcount: A:0.14, C:0.04, G:0.16, T:0.67
Consensus pattern (26 bp):
GTTTGGTTTTTTTTATTAATGTTCAG
Found at i:38043336 original size:31 final size:32
Alignment explanation
Indices: 38043220--38043337 Score: 84
Period size: 31 Copynumber: 3.8 Consensus size: 32
38043210 TTCAGGGATT
* * * *
38043220 TAATTAA-AATTTTTAAAATTTTTGAGAGCTT
1 TAATTAAGAATTTCTAAAATTTTTGAAAGGTC
**
38043251 TAA-GGAGAATTGTC-AAAATTTTTGAAAGGTC
1 TAATTAAGAATT-TCTAAAATTTTTGAAAGGTC
* * * *
38043282 TAATTAAAAATTT-TAGAACTTTTGGAAGG-C
1 TAATTAAGAATTTCTAAAATTTTTGAAAGGTC
* *
38043312 TTATTTAGAATTTCTAAAATTTTTGA
1 TAATTAAGAATTTCTAAAATTTTTGA
38043338 GGGGGAGTTT
Statistics
Matches: 64, Mismatches: 18, Indels: 10
0.70 0.20 0.11
Matches are distributed among these distances:
30 12 0.19
31 46 0.72
32 6 0.09
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.42
Consensus pattern (32 bp):
TAATTAAGAATTTCTAAAATTTTTGAAAGGTC
Found at i:38046100 original size:78 final size:79
Alignment explanation
Indices: 38045985--38046142 Score: 246
Period size: 79 Copynumber: 2.0 Consensus size: 79
38045975 ATTTTGGATT
* *
38045985 TTTTTTATGTTTTCATTTTTACGTTAGCCAGTCAGTGAT-AAAAAAATCATAATTAAGTGACCAT
1 TTTTTGATGTTTTCATTTTTACGTTAGCCAATCAGTGATAAAAAAAATCATAATTAAGTGACCAT
*
38046049 TTTGTAACTTTTCA
66 TTTGAAACTTTTCA
* * * *
38046063 TTTTTGATGTTTTTATTTTTATGTTAGCCAATTAGTGATAAAAAAAATCATAATTAAGTGATCAT
1 TTTTTGATGTTTTCATTTTTACGTTAGCCAATCAGTGATAAAAAAAATCATAATTAAGTGACCAT
38046128 TTTGAAACTTTTCA
66 TTTGAAACTTTTCA
38046142 T
1 T
38046143 AGTTAAGTGA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
78 34 0.47
79 38 0.53
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.46
Consensus pattern (79 bp):
TTTTTGATGTTTTCATTTTTACGTTAGCCAATCAGTGATAAAAAAAATCATAATTAAGTGACCAT
TTTGAAACTTTTCA
Found at i:38046158 original size:52 final size:54
Alignment explanation
Indices: 38046096--38046233 Score: 151
Period size: 58 Copynumber: 2.5 Consensus size: 54
38046086 TTAGCCAATT
*
38046096 AGTGATAAAAAAAATCATAATTAAGTGATCATTTTGA-AAC-TTTTCATAGTT-A
1 AGTGATAAAAAAAATCATAATTAAATGATCATTTT-ATAACTTTTTCATAGTTGA
*
38046148 AGTGATAAAAAAGAAAAAAACCATAATTAAATGATCATTTTATAACTTTTTCATAGTTGA
1 AGTGAT-----A-AAAAAAATCATAATTAAATGATCATTTTATAACTTTTTCATAGTTGA
*
38046208 A-TGAT-AAAAAAATCATAATTAGATGA
1 AGTGATAAAAAAAATCATAATTAAATGA
38046234 CTATTTCATA
Statistics
Matches: 73, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
52 25 0.34
57 2 0.03
58 29 0.40
59 15 0.21
60 2 0.03
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (54 bp):
AGTGATAAAAAAAATCATAATTAAATGATCATTTTATAACTTTTTCATAGTTGA
Found at i:38046167 original size:59 final size:59
Alignment explanation
Indices: 38046103--38046218 Score: 175
Period size: 58 Copynumber: 2.0 Consensus size: 59
38046093 ATTAGTGATA
* *
38046103 AAAAAAATCATAATTAAGTGATCATTTTGA-AAC-TTTTCATAGTT-AAGTGATAAAAAAG
1 AAAAAAACCATAATTAAATGATCATTTT-ATAACTTTTTCATAGTTGAA-TGATAAAAAAG
38046161 AAAAAAACCATAATTAAATGATCATTTTATAACTTTTTCATAGTTGAATGATAAAAAA
1 AAAAAAACCATAATTAAATGATCATTTTATAACTTTTTCATAGTTGAATGATAAAAAA
38046219 ATCATAATTA
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
57 1 0.02
58 29 0.55
59 21 0.40
60 2 0.04
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.34
Consensus pattern (59 bp):
AAAAAAACCATAATTAAATGATCATTTTATAACTTTTTCATAGTTGAATGATAAAAAAG
Found at i:38047098 original size:21 final size:20
Alignment explanation
Indices: 38047065--38047104 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
38047055 ATAAAGAGCT
38047065 AAAAATATATTTT-ATTTTA
1 AAAAATATATTTTAATTTTA
38047084 AAAAATAATTATTTTAATTTT
1 AAAAAT-A-TATTTTAATTTT
38047105 TAGAGTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAAAATATATTTTAATTTTA
Found at i:38051522 original size:20 final size:20
Alignment explanation
Indices: 38051479--38051522 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
38051469 TTAAAATACT
* *
38051479 TTTAAAATAATTTTTTTATT
1 TTTAAAATAATTTTTTAATG
38051499 TTTAAAATAATTTTTTAATG
1 TTTAAAATAATTTTTTAATG
38051519 TTTA
1 TTTA
38051523 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTAAAATAATTTTTTAATG
Found at i:38051527 original size:31 final size:30
Alignment explanation
Indices: 38051461--38051528 Score: 66
Period size: 31 Copynumber: 2.2 Consensus size: 30
38051451 TTTATTTTAT
* **
38051461 TTTTAATTTTAAAATACTTTTAAAATAATTT-
1 TTTTAATTTTAAAATAATTTTTTAAT--TTTA
*
38051492 TTTTATTTTTAAAATAATTTTTTAATGTTTA
1 TTTTAATTTTAAAATAATTTTTTAAT-TTTA
38051523 TTTTAA
1 TTTTAA
38051529 AAATGGGTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (30 bp):
TTTTAATTTTAAAATAATTTTTTAATTTTA
Found at i:38052750 original size:15 final size:16
Alignment explanation
Indices: 38052719--38052752 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
38052709 TGTCAAGTGT
*
38052719 TTTATTTTTTTCTATA
1 TTTATTTTTTTCAATA
38052735 TTTATTTTTTT-AATA
1 TTTATTTTTTTCAATA
38052750 TTT
1 TTT
38052753 TAATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTTTTTCAATA
Found at i:38053045 original size:14 final size:14
Alignment explanation
Indices: 38053026--38053057 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
38053016 ATTTTAGCAA
38053026 TAATACACTGTAAT
1 TAATACACTGTAAT
38053040 TAATACACTGTAAT
1 TAATACACTGTAAT
38053054 TAAT
1 TAAT
38053058 TAATCCCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (14 bp):
TAATACACTGTAAT
Found at i:38054225 original size:22 final size:22
Alignment explanation
Indices: 38054189--38054238 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
38054179 AATCGAACAA
*
38054189 TAAATGAGTTGTAAACA-AACTT
1 TAAATGAGTTATAAA-AGAACTT
*
38054211 TAAATGATTTATAAAATGAACTT
1 TAAATGAGTTATAAAA-GAACTT
38054234 TAAAT
1 TAAAT
38054239 AAACATATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 13 0.54
23 10 0.42
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (22 bp):
TAAATGAGTTATAAAAGAACTT
Found at i:38055579 original size:9 final size:9
Alignment explanation
Indices: 38055565--38055592 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
38055555 TATAGTTTGA
38055565 TATTCGAAT
1 TATTCGAAT
38055574 TATTCGAAT
1 TATTCGAAT
38055583 TATTCGAAT
1 TATTCGAAT
38055592 T
1 T
38055593 CGAAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:38056165 original size:19 final size:19
Alignment explanation
Indices: 38056122--38056165 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
38056112 GATAGTAATA
* *
38056122 TATAAAAATTAAAAATTGT
1 TATAAAAATTAAAAAGTAT
38056141 TATAAAAATTTAAAAAGTAT
1 TATAAAAA-TTAAAAAGTAT
38056161 T-TAAA
1 TATAAA
38056166 TTTCGAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
TATAAAAATTAAAAAGTAT
Found at i:38056251 original size:22 final size:21
Alignment explanation
Indices: 38056195--38056254 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
38056185 AAACCTTGAA
38056195 TTTTAAATAAT-TTTTAGAAT
1 TTTTAAATAATATTTTAGAAT
*
38056215 TTTATAAAAAAATATTTTA-AACT
1 TTT-T-AAATAATATTTTAGAA-T
38056238 TTTTAAATATATATTTT
1 TTTTAAATA-ATATTTT
38056255 TTTACAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
20 3 0.09
21 5 0.15
22 16 0.48
23 9 0.27
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTTAAATAATATTTTAGAAT
Found at i:38056276 original size:10 final size:10
Alignment explanation
Indices: 38056247--38056299 Score: 61
Period size: 11 Copynumber: 5.0 Consensus size: 10
38056237 TTTTTAAATA
38056247 TATATTTTTT
1 TATATTTTTT
*
38056257 TACAATTTTTCT
1 TA-TATTTTT-T
38056269 TATATTTTTT
1 TATATTTTTT
*
38056279 TACAATTTTTT
1 TA-TATTTTTT
38056290 TATATTTTTT
1 TATATTTTTT
38056300 CAAGTAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 12 0.33
11 21 0.58
12 3 0.08
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.72
Consensus pattern (10 bp):
TATATTTTTT
Found at i:38056278 original size:21 final size:21
Alignment explanation
Indices: 38056247--38056299 Score: 97
Period size: 22 Copynumber: 2.5 Consensus size: 21
38056237 TTTTTAAATA
38056247 TATATTTTTTTACAATTTTTCT
1 TATATTTTTTTACAATTTTT-T
38056269 TATATTTTTTTACAATTTTTT
1 TATATTTTTTTACAATTTTTT
38056290 TATATTTTTT
1 TATATTTTTT
38056300 CAAGTAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 11 0.35
22 20 0.65
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.72
Consensus pattern (21 bp):
TATATTTTTTTACAATTTTTT
Found at i:38061196 original size:29 final size:29
Alignment explanation
Indices: 38061159--38061225 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
38061149 ATCAGAAAGT
** *
38061159 CAAACCTTTCAAAGTGCTCCAATAAGGGC
1 CAAACCTTTCAAAGTGCTAAAATAAGAGC
* * *
38061188 CAAAACTTTGAGAGTGCTAAAATAAGAGC
1 CAAACCTTTCAAAGTGCTAAAATAAGAGC
38061217 CAAACCTTT
1 CAAACCTTT
38061226 TTGAAATTGC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.22
Consensus pattern (29 bp):
CAAACCTTTCAAAGTGCTAAAATAAGAGC
Found at i:38063798 original size:16 final size:16
Alignment explanation
Indices: 38063749--38063800 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
38063739 GAAAAGCTAT
38063749 ATTTTTCATCTTTCT-
1 ATTTTTCATCTTTCTA
* *
38063764 ATTTTTCTACCCTTC-A
1 ATTTTTC-ATCTTTCTA
38063780 ATTTTTCATCTTTCTA
1 ATTTTTCATCTTTCTA
38063796 ATTTT
1 ATTTT
38063801 CTTTTCACTC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 12 0.40
16 18 0.60
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTTCATCTTTCTA
Found at i:38065474 original size:13 final size:13
Alignment explanation
Indices: 38065440--38065474 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
38065430 TGGTATGGGT
38065440 TTATAGGTTTTGG
1 TTATAGGTTTTGG
38065453 TTATAAGGTTTTGG
1 TTAT-AGGTTTTGG
38065467 TTATAGGT
1 TTATAGGT
38065475 AAATGATGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (13 bp):
TTATAGGTTTTGG
Found at i:38065628 original size:24 final size:25
Alignment explanation
Indices: 38065601--38065649 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
38065591 AAGAGGAAAG
38065601 TTTAAAAAACATAAAA-GAAAAAAT
1 TTTAAAAAACATAAAACGAAAAAAT
** *
38065625 TTTAAATTACTTAAAACGAAAAAAT
1 TTTAAAAAACATAAAACGAAAAAAT
38065650 ATGGGGATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (25 bp):
TTTAAAAAACATAAAACGAAAAAAT
Found at i:38065928 original size:25 final size:25
Alignment explanation
Indices: 38065888--38065936 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
38065878 GTTTTTAATG
38065888 TTTATATTTTTTGTT-AATTTGGTT
1 TTTATATTTTTTGTTAAATTTGGTT
*
38065912 TTTATTTTTTTTAGTTAAATTTGGT
1 TTTATATTTTTT-GTTAAATTTGGT
38065937 CTCAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
25 3 0.14
26 8 0.36
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.69
Consensus pattern (25 bp):
TTTATATTTTTTGTTAAATTTGGTT
Found at i:38065947 original size:26 final size:24
Alignment explanation
Indices: 38065891--38065947 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 24
38065881 TTTAATGTTT
* **
38065891 ATATTTTTTGTTAATTTGGTTTTT
1 ATATTTTTTGTTAATTTGGTCTCA
*
38065915 ATTTTTTTTAGTTAAATTTGGTCTCA
1 ATATTTTTT-GTT-AATTTGGTCTCA
38065941 ATATTTT
1 ATATTTT
38065948 AAAAAGAGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 8 0.31
25 3 0.12
26 15 0.58
ACGTcount: A:0.21, C:0.04, G:0.11, T:0.65
Consensus pattern (24 bp):
ATATTTTTTGTTAATTTGGTCTCA
Found at i:38067807 original size:29 final size:29
Alignment explanation
Indices: 38067731--38067813 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
38067721 CTTCAAAAAC
* * *
38067731 TTTTAAAATCTTAATTAACCCTCCAAATTC
1 TTTTAAAATTTTAATTAAACC-CCAAATTA
* * *
38067761 TTTTAAAAAATCTCATTAAACCCCAAA-TA
1 TTTT-AAAATTTTAATTAAACCCCAAATTA
38067790 TTTTGAAAATTTTAATTAAACCCC
1 TTTT-AAAATTTTAATTAAACCCC
38067814 TTCAAAACTT
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
29 21 0.50
30 9 0.21
31 12 0.29
ACGTcount: A:0.41, C:0.20, G:0.01, T:0.37
Consensus pattern (29 bp):
TTTTAAAATTTTAATTAAACCCCAAATTA
Found at i:38071390 original size:43 final size:43
Alignment explanation
Indices: 38071329--38071422 Score: 161
Period size: 43 Copynumber: 2.2 Consensus size: 43
38071319 GATGTGACAA
38071329 ACATATTATCATACATGTAATGTCATGTCATCTTATTATTTCC
1 ACATATTATCATACATGTAATGTCATGTCATCTTATTATTTCC
* * *
38071372 ACATATTATCATATATGTAATGTCGTGTCATCTTGTTATTTCC
1 ACATATTATCATACATGTAATGTCATGTCATCTTATTATTTCC
38071415 ACATATTA
1 ACATATTA
38071423 CTCACTAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.45
Consensus pattern (43 bp):
ACATATTATCATACATGTAATGTCATGTCATCTTATTATTTCC
Found at i:38072555 original size:10 final size:11
Alignment explanation
Indices: 38072539--38072568 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
38072529 ATTTACACGT
38072539 GTTTTATTTTC
1 GTTTTATTTTC
38072550 -TTTTATTTTC
1 GTTTTATTTTC
38072560 GTTTTATTT
1 GTTTTATTT
38072569 AGTATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.77
Consensus pattern (11 bp):
GTTTTATTTTC
Found at i:38073174 original size:12 final size:12
Alignment explanation
Indices: 38073138--38073176 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
38073128 TTTTTTAAAA
38073138 CATTATTATTAT
1 CATTATTATTAT
38073150 -ATTATATATTAT
1 CATTAT-TATTAT
*
38073162 CATTATTACTAT
1 CATTATTATTAT
38073174 CAT
1 CAT
38073177 CATCTCTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 5 0.21
12 14 0.58
13 5 0.21
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (12 bp):
CATTATTATTAT
Found at i:38073843 original size:12 final size:12
Alignment explanation
Indices: 38073815--38073861 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
38073805 GCAAGTTTAC
*
38073815 TTGTATACTATAC
1 TTGTATA-TATAT
38073828 TTGTATATATAT
1 TTGTATATATAT
*
38073840 TTGTAAATAT-T
1 TTGTATATATAT
38073851 TATGTATATAT
1 T-TGTATATAT
38073862 GCTTTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 2 0.07
12 21 0.70
13 7 0.23
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (12 bp):
TTGTATATATAT
Found at i:38075637 original size:19 final size:18
Alignment explanation
Indices: 38075613--38075658 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
38075603 AACGTCTCTT
*
38075613 TTTGCATTCATTTCATGCA
1 TTTGCATTCATTGCAT-CA
38075632 TTTGCATTTCATTGCATCA
1 TTTGCA-TTCATTGCATCA
*
38075651 TATGCATT
1 TTTGCATT
38075659 AAACACCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.48
Consensus pattern (18 bp):
TTTGCATTCATTGCATCA
Found at i:38080201 original size:132 final size:132
Alignment explanation
Indices: 38079843--38080729 Score: 1305
Period size: 132 Copynumber: 6.7 Consensus size: 132
38079833 NNNNGATGGT
* ** * *
38079843 GGATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAG
1 GGATTTTACCTCTCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAG
** *
38079908 CAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
66 CAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
*
38079973 GC
131 AC
* * *
38079975 AGATTTTACCTCGTCGTG--GTTACAGTGGAAGTACATTGAAGCCAGTAATTCTACTACCCTGGA
1 GGATTTTACCTC-TC-TGAAGTTACAGTGG-AGTACATTGAAGCCAGTAATTCTACTTCCCTGGG
*
38080038 CAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGGTCAAAG
63 CAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAG
38080103 ATGAC
128 ATGAC
* *
38080108 GGATTTTACCTCTCTGAAGTTGCAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAG
1 GGATTTTACCTCTCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAG
* ** * *
38080173 CAGTGAAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
66 CAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
**
38080238 GT
131 AC
* * ** *
38080240 AGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAG
1 GGATTTTACCTCTCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAG
*
38080305 CAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATG
66 CAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
38080370 AC
131 AC
* *
38080372 GGATTTTACCTCTCTGAAGTTGCAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAG
1 GGATTTTACCTCTCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAG
** * *
38080437 CAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
66 CAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
*
38080502 GC
131 AC
* *
38080504 AGATTTTACCTCCTCGTG--GTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGAC
1 GGATTTTACCT-CTC-TGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGC
* * *
38080567 AACAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGGTCAACGA
64 AGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA
38080632 TGAC
129 TGAC
* *
38080636 GGATTTTACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAG
1 GGATTTTACCTCTCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAG
* *
38080701 CAGCGGAATAGATTGTAGATTTCAGATCT
66 CAGTGGAATAGATTGAAGATTTCAGATCT
38080730 GTCTTCATGT
Statistics
Matches: 675, Mismatches: 71, Indels: 18
0.88 0.09 0.02
Matches are distributed among these distances:
130 2 0.00
131 4 0.01
132 545 0.81
133 120 0.18
134 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (132 bp):
GGATTTTACCTCTCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAG
CAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
AC
Found at i:38080395 original size:264 final size:264
Alignment explanation
Indices: 38079843--38080722 Score: 1591
Period size: 264 Copynumber: 3.3 Consensus size: 264
38079833 NNNNGATGGT
** * *
38079843 GGATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAG
1 GGATTTTACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAG
*
38079908 CAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
66 CAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
* *
38079973 GCAGATTTTACCTCGTCGTGGTTACAGTGGAAGTACATTGAAGCCAGTAATTCTACTACCCTGGA
131 GCAGATTTTACCTCCTCGTGGTTACAGTGG-AGTACATTGAAGCCAGTAATTCTACTTCCCTGGA
38080038 CAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGGTCAAAG
195 CAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGGTCAAAG
38080103 ATGAC
260 ATGAC
*
38080108 GGATTTTACCTCTCTGAAGTTGCAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAG
1 GGATTTTACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAG
*
38080173 CAGTGAAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
66 CAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
*
38080238 GTAGATTTTACCTCC-CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGA
131 GCAGATTTTACCTCCTC-GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGA
38080302 CAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGGTCAAAG
195 CAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGGTCAAAG
38080367 ATGAC
260 ATGAC
*
38080372 GGATTTTACCTCTCTGAAGTTGCAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAG
1 GGATTTTACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAG
38080437 CAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
66 CAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
38080502 GCAGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGAC
131 GCAGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGAC
* *
38080567 AACAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGGTCAACGA
196 AGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGA
38080632 TGAC
261 TGAC
*
38080636 GGATTTTACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAG
1 GGATTTTACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAG
* *
38080701 CAGCGGAATAGATTGTAGATTT
66 CAGTGGAATAGATTGAAGATTT
38080723 CAGATCTGTC
Statistics
Matches: 595, Mismatches: 18, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
264 445 0.75
265 150 0.25
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (264 bp):
GGATTTTACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAG
CAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
GCAGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGAC
AGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGA
TGAC
Found at i:38085603 original size:29 final size:30
Alignment explanation
Indices: 38085544--38085603 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
38085534 CTATATATAT
* * **
38085544 TTAGTTTAAGATTTAATTAAGTTAATTTAA
1 TTAGTTTAAGACTTAATTAAATTAAACTAA
38085574 TTAGTTTAAG-CTTAATTAAATTAAACTAA
1 TTAGTTTAAGACTTAATTAAATTAAACTAA
38085603 T
1 T
38085604 CATACATGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (30 bp):
TTAGTTTAAGACTTAATTAAATTAAACTAA
Found at i:38089040 original size:16 final size:16
Alignment explanation
Indices: 38089019--38089052 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38089009 TCAATGTTAC
38089019 TTGAAATGAAAACCAA
1 TTGAAATGAAAACCAA
* *
38089035 TTGAAATGCAAATCAA
1 TTGAAATGAAAACCAA
38089051 TT
1 TT
38089053 CAAAATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (16 bp):
TTGAAATGAAAACCAA
Found at i:38090758 original size:20 final size:21
Alignment explanation
Indices: 38090730--38090772 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
38090720 TTTAAAATAA
*
38090730 AATTTAAAAAATA-TATAAAG
1 AATTCAAAAAATAGTATAAAG
*
38090750 AATTCAAAAAATAGTATGAAG
1 AATTCAAAAAATAGTATAAAG
38090771 AA
1 AA
38090773 CACGTGGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (21 bp):
AATTCAAAAAATAGTATAAAG
Found at i:38101855 original size:29 final size:29
Alignment explanation
Indices: 38101785--38101864 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 29
38101775 TTTACAATTG
* *
38101785 TTGAAAATTGTAATTAGATCTTCTAAAGGAT
1 TTGAAAATTTTAATTAGA-CCTCTAAA-GAT
38101816 TTGAAAATTTTAATTAGACCTCTAAA-AT
1 TTGAAAATTTTAATTAGACCTCTAAAGAT
*
38101844 TATGAAAATTTTCATTA-ACCT
1 T-TGAAAATTTTAATTAGACCT
38101865 TCTCCCCACA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.16
29 14 0.31
30 7 0.16
31 17 0.38
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (29 bp):
TTGAAAATTTTAATTAGACCTCTAAAGAT
Done.