Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 44 of 211
Found at i:11821629 original size:206 final size:205
Alignment explanation
Indices: 11821274--11821684 Score: 574
Period size: 206 Copynumber: 2.0 Consensus size: 205
11821264 ATCATACAAA
* *
11821274 GCGCCGCAAAAAATCTTAACCAAAACGCATTGTTCTGGGTTGGTGTATTTTAGAATTAGTGGCGC
1 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTCTGGGTTGGTATATTTTAGAATTAGTGGCGC
* * * * *
11821339 TTAAGTAAAAACGCCGCTAAAGCACACTATTAGCGGCGCATCATACAAAGCGCTGCAAAAAATCT
66 TTAAGGAAAAACGCCGCTAAAGAACACAATTAGCGGCGCATCATACAAAGCGCCGCAAAAAAACT
* * * *
11821404 TAACCGAAATGCATCGTTTTGGGTTGAGGTATATTAGAATTAGTGGCGCT-TACGGATAAATGCC
131 TAACCAAAACGCATCGTTTTGGATTGAGGTATATTAGAATTAGTGGCGCTATA-GGA-AAACGCC
11821468 GCTAAAGCACAT
194 GCTAAAGCACAT
* *
11821480 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTTTGGGTTGAG-ATATTTTAGATTTAGTGGCG
1 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTCTGGGTTG-GTATATTTTAGAATTAGTGGCG
* * * *
11821544 CTTAAGGATAAATGCCGCTAAAGAACACAATTAGCGGCGCATTATTCAAAGCGCCGCAAAAAAAC
65 CTTAAGGAAAAACGCCGCTAAAGAACACAATTAGCGGCGCATCATACAAAGCGCCGCAAAAAAAC
* ** * *
11821609 TTAACCAAAACGCGTCGTTTTTTATTGAGGTATTTTAGAATTAGTGGCGCTATAGTAAAACGCCG
130 TTAACCAAAACGCATCGTTTTGGATTGAGGTATATTAGAATTAGTGGCGCTATAGGAAAACGCCG
*
11821674 CTAAAGTACAT
195 CTAAAGCACAT
11821685 CATTAGCGGC
Statistics
Matches: 180, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
205 17 0.09
206 160 0.89
207 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (205 bp):
GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTCTGGGTTGGTATATTTTAGAATTAGTGGCGC
TTAAGGAAAAACGCCGCTAAAGAACACAATTAGCGGCGCATCATACAAAGCGCCGCAAAAAAACT
TAACCAAAACGCATCGTTTTGGATTGAGGTATATTAGAATTAGTGGCGCTATAGGAAAACGCCGC
TAAAGCACAT
Found at i:11821726 original size:114 final size:114
Alignment explanation
Indices: 11821480--11821743 Score: 372
Period size: 114 Copynumber: 2.3 Consensus size: 114
11821470 TAAAGCACAT
* *
11821480 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTTTGGGTTGAGATATTTTAGATTTAGTGGCGC
1 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTTTGGATTGAGATATTTTAGAATTAGTGGCGC
* *
11821545 TTAAGGATAAATGCCGCTAAAGAACACAATTAGCGGCGCATTATTCAAA
66 TTAAGGATAAACGCCGCTAAAGAACACAATTAGCGGCGCATTATACAAA
* * ** *
11821594 GCGCCGCAAAAAAACTTAACCAAAACGCGTCGTTTTTTATTGAGGTATTTTAGAATTAGTGGCGC
1 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTTTGGATTGAGATATTTTAGAATTAGTGGCGC
* *
11821659 -TATAGTA-AAACGCCGCTAAAGTACATC-ATTAGCGGCGCATTATACAAA
66 TTA-AGGATAAACGCCGCTAAAGAACA-CAATTAGCGGCGCATTATACAAA
*
11821707 GCGCCGCGAATAAATCTTAACCAAAACGCATCGTTTT
1 GCGCCGC-AAAAAATCTTAACCAAAACGCATCGTTTT
11821744 AAACCGAAAC
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
113 45 0.34
114 88 0.66
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (114 bp):
GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTTTGGATTGAGATATTTTAGAATTAGTGGCGC
TTAAGGATAAACGCCGCTAAAGAACACAATTAGCGGCGCATTATACAAA
Found at i:11822395 original size:7 final size:7
Alignment explanation
Indices: 11822385--11822418 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
11822375 TTTAGGGGAC
11822385 AAGGGTG
1 AAGGGTG
11822392 AAGGGTG
1 AAGGGTG
11822399 AAGGGTG
1 AAGGGTG
*
11822406 AAGGGTT
1 AAGGGTG
11822413 AAGGGT
1 AAGGGT
11822419 ACTTGGTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.53, T:0.18
Consensus pattern (7 bp):
AAGGGTG
Found at i:11822447 original size:21 final size:21
Alignment explanation
Indices: 11822423--11822466 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11822413 AAGGGTACTT
* *
11822423 GGTTTA-ATGGTTTGAGTTTAA
1 GGTTTAGA-GGTTGGAGATTAA
11822444 GGTTTAGAGGTTGGAGATTAA
1 GGTTTAGAGGTTGGAGATTAA
11822465 GG
1 GG
11822467 GATAGGGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (21 bp):
GGTTTAGAGGTTGGAGATTAA
Found at i:11823467 original size:191 final size:191
Alignment explanation
Indices: 11823129--11823477 Score: 520
Period size: 191 Copynumber: 1.8 Consensus size: 191
11823119 GCAAATCCCT
* ** * *
11823129 AGACCTTTCACCTTTTCAACGGCAATTTCCCCTCTTCTCGATCGAATATCGGTTCTCGTCTGGGC
1 AGACCATTCACCCCTTCAACGACAATTTCCCCTCTTCTCGATCGAATATCGCTTCTCGTCTGGGC
* * * * *
11823194 TGACTGGTAAAACACTTTCGAAATCCCTAATTTCTCCGTTGACTCCGTATATGGCTGTTCATTTT
66 TGACTGGTAAAACACTTTCCAAATCCCTAATTTATCCGTTGAATACGTATATGGCTATTCATTTT
11823259 TATGTTCGATTTTTTCTTTCTATAATGCCCGCTTTGTTTTTCCTTTCTCTTTAAATTCCAG
131 TATGTTCGATTTTTTCTTTCTATAATGCCCGCTTTGTTTTTCCTTTCTCTTTAAATTCCAG
* * * *
11823320 AGACCATTCACCCCTTCAACGACGATTTCCCCTTTTTTCGATCGAATATTGCTTCTCGTCTGGGC
1 AGACCATTCACCCCTTCAACGACAATTTCCCCTCTTCTCGATCGAATATCGCTTCTCGTCTGGGC
*
11823385 TGACTGGTAAAA-ATCTTTCCAAATCCCTAATTTATTCGTTGAATACGTATATGGCTATTCATTT
66 TGACTGGTAAAACA-CTTTCCAAATCCCTAATTTATCCGTTGAATACGTATATGGCTATTCATTT
* * *
11823449 TTCTGTTTGATTTTTTCTTTCTCTAATGC
130 TTATGTTCGATTTTTTCTTTCTATAATGC
11823478 TCGCACAAAT
Statistics
Matches: 139, Mismatches: 18, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
190 1 0.01
191 138 0.99
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.42
Consensus pattern (191 bp):
AGACCATTCACCCCTTCAACGACAATTTCCCCTCTTCTCGATCGAATATCGCTTCTCGTCTGGGC
TGACTGGTAAAACACTTTCCAAATCCCTAATTTATCCGTTGAATACGTATATGGCTATTCATTTT
TATGTTCGATTTTTTCTTTCTATAATGCCCGCTTTGTTTTTCCTTTCTCTTTAAATTCCAG
Found at i:11825009 original size:17 final size:17
Alignment explanation
Indices: 11824989--11825038 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
11824979 TTAATATCTA
11824989 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
11825006 TATAAGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
11825020 -ATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
11825036 TAT
1 TAT
11825039 TTGTATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.38
14 2 0.07
16 2 0.07
17 14 0.48
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:11825025 original size:13 final size:13
Alignment explanation
Indices: 11825007--11825034 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11824997 TTCTAAATTT
11825007 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
11825020 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
11825033 AT
1 AT
11825035 TTATTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (13 bp):
ATAAGTTTTCTAA
Found at i:11825065 original size:15 final size:15
Alignment explanation
Indices: 11825030--11825068 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
11825020 ATAAGTTTTC
*
11825030 TAAATTTATTTGTAT
1 TAAATTTATTAGTAT
11825045 TAAAATTTATTAGTAT
1 T-AAATTTATTAGTAT
11825061 TAAATTTA
1 TAAATTTA
11825069 CTTCGTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:11825141 original size:9 final size:9
Alignment explanation
Indices: 11825127--11825508 Score: 281
Period size: 9 Copynumber: 41.9 Consensus size: 9
11825117 GTGTATTAAG
11825127 TTACATAAC
1 TTACATAAC
*
11825136 TTACATAAA
1 TTACATAAC
*
11825145 TTAAAT-AC
1 TTACATAAC
**
11825153 TTATGTAAAC
1 TTACAT-AAC
* *
11825163 TTGCATAAA
1 TTACATAAC
* *
11825172 TTAAATAAT
1 TTACATAAC
11825181 TTACATAAC
1 TTACATAAC
*
11825190 TTACATAAA
1 TTACATAAC
*
11825199 TTAAATAAC
1 TTACATAAC
*
11825208 TTAAATAA-
1 TTACATAAC
*
11825216 TTGACATAAA
1 TT-ACATAAC
* * *
11825226 TTTCGTGGAC
1 TTACAT-AAC
11825236 TTACATAAC
1 TTACATAAC
11825245 TTACATAAAC
1 TTACAT-AAC
* *
11825255 TTGCATAAA
1 TTACATAAC
*
11825264 TTAAATAAC
1 TTACATAAC
11825273 TTACATAAAC
1 TTACAT-AAC
*
11825283 -TAAATAAC
1 TTACATAAC
11825291 TTACATAAC
1 TTACATAAC
*
11825300 TTACATAAA
1 TTACATAAC
*
11825309 TTAAATAAC
1 TTACATAAC
11825318 TTACATAAC
1 TTACATAAC
11825327 TTACATAAAC
1 TTACAT-AAC
* *
11825337 TTGCATAAA
1 TTACATAAC
* *
11825346 TTAAATTAC
1 TTACATAAC
11825355 TTACATAAC
1 TTACATAAC
*
11825364 TTACATAAA
1 TTACATAAC
*
11825373 TTAAATAAC
1 TTACATAAC
*
11825382 TTAAATAA-
1 TTACATAAC
*
11825390 TTGACATAAA
1 TT-ACATAAC
* *
11825400 TT-CTGTGGAC
1 TTAC-AT-AAC
11825410 TTACATAAC
1 TTACATAAC
11825419 TTACATAAAC
1 TTACAT-AAC
* *
11825429 TTGCATAAA
1 TTACATAAC
*
11825438 TTAAATAAC
1 TTACATAAC
11825447 TTACATAAAC
1 TTACAT-AAC
*
11825457 -TAAATAAC
1 TTACATAAC
*
11825465 TTACATATC
1 TTACATAAC
*
11825474 TTACATAAA
1 TTACATAAC
*
11825483 TTAAATAAC
1 TTACATAAC
11825492 TTACATAAC
1 TTACATAAC
11825501 TTACATAA
1 TTACATAA
11825509 TACATAAAAA
Statistics
Matches: 288, Mismatches: 68, Indels: 34
0.74 0.17 0.09
Matches are distributed among these distances:
8 16 0.06
9 223 0.77
10 48 0.17
11 1 0.00
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (9 bp):
TTACATAAC
Found at i:11825254 original size:92 final size:92
Alignment explanation
Indices: 11825158--11825454 Score: 429
Period size: 92 Copynumber: 3.3 Consensus size: 92
11825148 AATACTTATG
*
11825158 TAAACTTGCATAAATTAAATAATTTACATAACTTACATAAATTAAATAACTTAAATAATTGACAT
1 TAAACTTGCATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTAAATAATTGACAT
11825223 AAATTTCGTGGACTTACATAACTTACA
66 AAATTTCGTGGACTTACATAACTTACA
*
11825250 TAAACTTGCATAAATTAAATAACTTACATAA---AC------TAAATAACTTACATAACTT-ACA
1 TAAACTTGCATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTAAATAA-TTGACA
*** *
11825305 TAAATTAAAT-AACTTACATAACTTACA
65 TAAATTTCGTGGACTTACATAACTTACA
*
11825332 TAAACTTGCATAAATTAAATTACTTACATAACTTACATAAATTAAATAACTTAAATAATTGACAT
1 TAAACTTGCATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTAAATAATTGACAT
11825397 AAA-TTCTGTGGACTTACATAACTTACA
66 AAATTTC-GTGGACTTACATAACTTACA
11825424 TAAACTTGCATAAATTAAATAACTTACATAA
1 TAAACTTGCATAAATTAAATAACTTACATAA
11825455 ACTAAATAAC
Statistics
Matches: 179, Mismatches: 13, Indels: 26
0.82 0.06 0.12
Matches are distributed among these distances:
82 46 0.26
83 25 0.14
84 2 0.01
85 2 0.01
89 2 0.01
90 3 0.02
91 23 0.13
92 76 0.42
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (92 bp):
TAAACTTGCATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTAAATAATTGACAT
AAATTTCGTGGACTTACATAACTTACA
Found at i:11825371 original size:174 final size:174
Alignment explanation
Indices: 11825127--11825508 Score: 660
Period size: 174 Copynumber: 2.2 Consensus size: 174
11825117 GTGTATTAAG
* * * * ** *
11825127 TTACATAACTTACATAAATTAAAT-ACTTATGTAAACTTGCATAAATTAAATAATTTACATAACT
1 TTACATAAATTAAATAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACT
11825191 TACATAAATTAAATAACTTAAATAATTGACATAAATT-TCGTGGACTTACATAACTTACATAAAC
66 TACATAAATTAAATAACTTAAATAATTGACATAAATTCT-GTGGACTTACATAACTTACATAAAC
11825255 TTGCATAAATTAAATAACTTACATAAACTAAATAACTTACATAAC
130 TTGCATAAATTAAATAACTTACATAAACTAAATAACTTACATAAC
*
11825300 TTACATAAATTAAATAACTTACATAACTTACATAAACTTGCATAAATTAAATTACTTACATAACT
1 TTACATAAATTAAATAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACT
11825365 TACATAAATTAAATAACTTAAATAATTGACATAAATTCTGTGGACTTACATAACTTACATAAACT
66 TACATAAATTAAATAACTTAAATAATTGACATAAATTCTGTGGACTTACATAACTTACATAAACT
*
11825430 TGCATAAATTAAATAACTTACATAAACTAAATAACTTACATATC
131 TGCATAAATTAAATAACTTACATAAACTAAATAACTTACATAAC
11825474 TTACATAAATTAAATAACTTACATAACTTACATAA
1 TTACATAAATTAAATAACTTACATAACTTACATAA
11825509 TACATAAAAA
Statistics
Matches: 198, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
173 20 0.10
174 177 0.89
175 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (174 bp):
TTACATAAATTAAATAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACT
TACATAAATTAAATAACTTAAATAATTGACATAAATTCTGTGGACTTACATAACTTACATAAACT
TGCATAAATTAAATAACTTACATAAACTAAATAACTTACATAAC
Found at i:11831080 original size:21 final size:21
Alignment explanation
Indices: 11831056--11831105 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
11831046 CTACAACTTA
*
11831056 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* * *
11831077 AAGCAGAAGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAACGAGAG
11831098 AAGCAGAG
1 AAGCAGAG
11831106 CAGGCCAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.18, G:0.42, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:11831493 original size:42 final size:42
Alignment explanation
Indices: 11831442--11831631 Score: 236
Period size: 42 Copynumber: 4.5 Consensus size: 42
11831432 CACTATTTTT
* **** * *
11831442 CATGTTCTTTAGCGGCGCTTTAGAATAAACGCCACTAAAGAA
1 CATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAA
* *
11831484 CATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGTA
1 CATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAA
* *
11831526 CATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCAAAAGAA
1 CATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAA
* * *
11831568 CATGTTCTTTAGCGGCATTTTTTTCAAAGCGTCGCTAAAGAA
1 CATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAA
* *
11831610 CATGGTCTTTAGCGGCATTTTT
1 CATGTTCTTTAGCGGCGTTTTT
11831632 GTTTGTAAAC
Statistics
Matches: 130, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 130 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (42 bp):
CATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAA
Found at i:11832226 original size:43 final size:43
Alignment explanation
Indices: 11832147--11832347 Score: 271
Period size: 43 Copynumber: 4.7 Consensus size: 43
11832137 ATAATTTTTT
* * * **
11832147 TAAAGGTTAT-GTTTTTAGTGGCGTTTGTGACAAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTG-GGAAAAGCGCCGC
11832190 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
11832233 TAAAGGT-ATTTGTCTTTAGTGGCGTTTGTGGGAAAAACGCCGC
1 TAAAGGTCA-TGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
*
11832276 TAAAGGTCATGGTCTTTAGCTGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
11832319 TAAAGGTCTTGTTCTTTAGCGGCGTTTGT
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGT
11832348 TTCTAAAAAC
Statistics
Matches: 140, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.01
43 121 0.86
44 18 0.13
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:11832292 original size:86 final size:85
Alignment explanation
Indices: 11832147--11832367 Score: 325
Period size: 86 Copynumber: 2.6 Consensus size: 85
11832137 ATAATTTTTT
* *
11832147 TAAAGGTTATGTTTTTAGTGGCGTTTGTGACAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGG
1 TAAAGGTTTTGTCTTTAGTGGCGTTTGTGACAAAAA-CGCCGCTAAAGGTCATGGTCTTTAGCGG
11832212 CGTTTGTGGGAAAAGCGCCGC
65 CGTTTGTGGGAAAAGCGCCGC
** *
11832233 TAAAGGTATTTGTCTTTAGTGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATGGTCTTTAGCTG
1 TAAAGGT-TTTGTCTTTAGTGGCGTTTGTGACAAAAACGCCGCTAAAGGTCATGGTCTTTAGCGG
11832298 CGTTTGTGGGAAAAGCGCCGC
65 CGTTTGTGGGAAAAGCGCCGC
* * **
11832319 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTTTCTAAAAACGCCGCTAAAG
1 TAAAGGTTTTG-TCTTTAGTGGCGTTTGTGAC-AAAAACGCCGCTAAAG
11832368 TTAGCGATGC
Statistics
Matches: 122, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
85 3 0.02
86 78 0.64
87 41 0.34
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (85 bp):
TAAAGGTTTTGTCTTTAGTGGCGTTTGTGACAAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGC
GTTTGTGGGAAAAGCGCCGC
Found at i:11836952 original size:13 final size:13
Alignment explanation
Indices: 11836934--11836958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11836924 CTCGTATTAA
11836934 ATTTTTTTATATT
1 ATTTTTTTATATT
11836947 ATTTTTTTATAT
1 ATTTTTTTATAT
11836959 AAAATAAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTTTTATATT
Found at i:11847013 original size:24 final size:25
Alignment explanation
Indices: 11846976--11847022 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
11846966 CAAATCCTTA
*
11846976 ATAAATTATATAAAAAATATTTTTT
1 ATAAAGTATATAAAAAATATTTTTT
* *
11847001 ATAAAGTA-ATAAATATTATTTT
1 ATAAAGTATATAAAAAATATTTT
11847023 AAAATCTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
ATAAAGTATATAAAAAATATTTTTT
Found at i:11848179 original size:3 final size:3
Alignment explanation
Indices: 11848173--11848201 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
11848163 GTTGCTGCTA
11848173 GTG GTG GTG GTG GTG GTG GTG GTG G-G GTG
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
11848202 TATGGGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (3 bp):
GTG
Found at i:11849126 original size:16 final size:16
Alignment explanation
Indices: 11849093--11849126 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11849083 TTTAATTGTT
* *
11849093 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
11849109 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
11849125 AA
1 AA
11849127 TACAAAGTGG
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:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:11851950 original size:21 final size:21
Alignment explanation
Indices: 11851924--11851964 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11851914 AGACGAGCAA
* *
11851924 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
11851945 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
11851965 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:11853903 original size:16 final size:16
Alignment explanation
Indices: 11853870--11853903 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11853860 GGAGATTGTT
* *
11853870 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
11853886 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
11853902 AA
1 AA
11853904 TACAAAGTGG
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:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:11854950 original size:8 final size:8
Alignment explanation
Indices: 11854937--11854962 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
11854927 TTATATATTT
11854937 TTTTAAAA
1 TTTTAAAA
11854945 TTTTAAAA
1 TTTTAAAA
11854953 TTTTAAAA
1 TTTTAAAA
11854961 TT
1 TT
11854963 ATGACTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTTTAAAA
Found at i:11862138 original size:40 final size:40
Alignment explanation
Indices: 11862093--11862227 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
11862083 GTTTGGAACA
*
11862093 AAAGCGCCACAAAAAATTGAGCATTAGCGGCGATTTATCC
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCC
* **
11862133 AAAGCGCCACTAAAGGTAGAGC-TTCAGCGGCGA-TTATCC
1 AAAGCGCCACAAAAAATAGAGCATT-AGCGGCGATTTATCC
* * * * *
11862172 TAAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA-CAT
1 -AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATC-C
11862212 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
11862228 CATAAGACCA
Statistics
Matches: 78, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
39 31 0.40
40 47 0.60
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (40 bp):
AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCC
Found at i:11862323 original size:41 final size:41
Alignment explanation
Indices: 11862266--11862566 Score: 378
Period size: 41 Copynumber: 7.4 Consensus size: 41
11862256 TTTTTTAAAC
* *
11862266 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGGAT
* * * *
11862307 CTTTAACGGCGTTTTTGTCTAGGCGTCGCTAGTGCT-TGAGT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGGA-T
* *
11862348 CTTTAGCGGCGTTTTCGTGTAGGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGGAT
*
11862389 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTC-GAGT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGGA-T
* * * *
11862430 CTTTAGCGGCGTTTTCGTGTAGGCGCTGCTAATGCTCGAAT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGGAT
*
11862471 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGGAT
* * * *
11862512 CTTTAGCGGCGTTTTTATAC-AAGCGCCGCTAATACTCAGAT
1 CTTTAGCGGCGTTTTTGT-CTAGGCGCCGCTAATGCTCGGAT
11862553 -TTTAGCGGC-TTTTT
1 CTTTAGCGGCGTTTTT
11862567 AACTGAGCGC
Statistics
Matches: 226, Mismatches: 29, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
39 5 0.02
40 13 0.06
41 204 0.90
42 4 0.02
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGGAT
Found at i:11862403 original size:82 final size:82
Alignment explanation
Indices: 11862266--11862566 Score: 428
Period size: 82 Copynumber: 3.7 Consensus size: 82
11862256 TTTTTTAAAC
* * *
11862266 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCGGATCTTTAACGGCGTTTTTGTCTAGGC
1 CTTTAGCGGCGTTTTCGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTATGC
* * *
11862331 GTCGCTAGTGCTTGAGT
66 GCCGCTAATGCTCGAGT
*
11862348 CTTTAGCGGCGTTTTCGTGTAGGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTATGC
1 CTTTAGCGGCGTTTTCGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTATGC
11862413 GCCGCTAATGCTCGAGT
66 GCCGCTAATGCTCGAGT
* * *
11862430 CTTTAGCGGCGTTTTCGTGTAGGCGCTGCTAATGCTCGAATCTTTAGCGGCGTTTTTGTCTATGC
1 CTTTAGCGGCGTTTTCGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTATGC
11862495 GCCGCTAATGCTCG-GAT
66 GCCGCTAATGCTCGAG-T
** ** * *
11862512 CTTTAGCGGCGTTTTTATACAAGCGCCGCTAATACTCAGAT-TTTAGCGGC-TTTTT
1 CTTTAGCGGCGTTTTCGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTT
11862567 AACTGAGCGC
Statistics
Matches: 200, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
80 5 0.03
81 10 0.05
82 185 0.93
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTCGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTATGC
GCCGCTAATGCTCGAGT
Found at i:11862485 original size:123 final size:124
Alignment explanation
Indices: 11862266--11862566 Score: 416
Period size: 123 Copynumber: 2.5 Consensus size: 124
11862256 TTTTTTAAAC
* * *
11862266 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCG-GATCTTTAACGGCGTTTTTGTCTAGG
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGAGATCTTTAGCGGCGTTTTCGTCTAGG
* * * *
11862330 CGTCGCTAGTGCTTGAGTCTTTAGCGGCGTTTTCGTGTAGGCGCCGCTAATGCTCGGAT
66 CGTCGCTAATGCTCGAATCTTTAGCGGCGTTTTCGTCTAGGCGCCGCTAATGCTCGGAT
* *
11862389 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGAG-TCTTTAGCGGCGTTTTCGTGTAGG
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGAGATCTTTAGCGGCGTTTTCGTCTAGG
* *
11862453 CG-CTGCTAATGCTCGAATCTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGAT
66 CGTC-GCTAATGCTCGAATCTTTAGCGGCGTTTTCGTCTAGGCGCCGCTAATGCTCGGAT
* * *
11862512 CTTTAGCGGCGTTTTTATAC-AAGCGCCGCTAATACTC-AGAT-TTTAGCGGCTTTTT
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAATGCTCGAGATCTTTAGCGGCGTTTT
11862567 AACTGAGCGC
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
122 16 0.10
123 141 0.89
124 2 0.01
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (124 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGAGATCTTTAGCGGCGTTTTCGTCTAGG
CGTCGCTAATGCTCGAATCTTTAGCGGCGTTTTCGTCTAGGCGCCGCTAATGCTCGGAT
Found at i:11867557 original size:23 final size:23
Alignment explanation
Indices: 11867524--11867570 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
11867514 AATATTATAC
11867524 ATAACTGACAACTTACATAACTT
1 ATAACTGACAACTTACATAACTT
*
11867547 ATAACTTACAACTTACATAACTT
1 ATAACTGACAACTTACATAACTT
11867570 A
1 A
11867571 ATTTTATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAACTGACAACTTACATAACTT
Found at i:11867570 original size:16 final size:16
Alignment explanation
Indices: 11867521--11867556 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11867511 ATTAATATTA
11867521 TACATAACTGACAACT
1 TACATAACTGACAACT
* *
11867537 TACATAACTTATAACT
1 TACATAACTGACAACT
11867553 TACA
1 TACA
11867557 ACTTACATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.31
Consensus pattern (16 bp):
TACATAACTGACAACT
Found at i:11867610 original size:22 final size:21
Alignment explanation
Indices: 11867582--11867651 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 21
11867572 TTTTATGTTC
11867582 TTATACATAACTTACATTAATA
1 TTATACATAA-TTACATTAATA
*
11867604 TTATACATAAATTACA-TAA-C
1 TTATACAT-AATTACATTAATA
*
11867624 TTA-A-TTAATTA-ATTAATA
1 TTATACATAATTACATTAATA
11867642 TTATACATAA
1 TTATACATAA
11867652 ATTATATAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
16 1 0.03
17 8 0.21
18 4 0.10
19 2 0.05
20 6 0.15
21 3 0.08
22 13 0.33
23 2 0.05
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (21 bp):
TTATACATAATTACATTAATA
Found at i:11867619 original size:56 final size:57
Alignment explanation
Indices: 11867559--11867963 Score: 229
Period size: 56 Copynumber: 6.7 Consensus size: 57
11867549 AACTTACAAC
* *
11867559 TTACATAACTTAATT-TT-ATGTTCTTATACATAACTTACATTAATATTATACATAAA
1 TTACATAACTTAATTATTAAT-TTATTATACATAACTTACATTAATATGATACATAAA
* *
11867615 TTACATAACTTAATTAATTAATTAATATTATACATAAATTATATAACTTAGTTAATTAATATTAT
1 TTACATAACTTAATT-ATTAATT--TATTATAC---------ATAACTTA---CATTAATATGAT
11867680 ACATAAA
51 ACATAAA
* * *
11867687 TTACATAACTTAATTAATTAATATACATAACTTACATAACTTACATCAATATGATACATAAA
1 TTACATAACTTAATT-ATTAAT-T-TATTA--TACATAACTTACATTAATATGATACATAAA
** **
11867749 TTAGTTAA-TTAA-TATTATACATATGT-TACATAACTTACATTAATATGATACATAAA
1 TTACATAACTTAATTATTA-ATTTAT-TATACATAACTTACATTAATATGATACATAAA
* *** *
11867805 TTACATAACTTAGTTAATTAA--TATTATACATAACTTACAACTTACATAACTTACATAAC
1 TTACATAACTTAATT-ATTAATTTATTATACATAACTTAC-A-TTA-ATATGATACATAAA
*** * * *
11867864 TTACATTTTTTTAATTATTCA-TAAAT-TACATAACTTA-ATTAATTAAT-ATACATAAA
1 TTACA-TAACTTAATTATTAATTTATTATACATAACTTACATTAA-T-ATGATACATAAA
*
11867920 TTACATAACTTAATTAATTAATTAATATTATACATAAATTACAT
1 TTACATAACTTAATT-ATTAATT--TATTATACATAACTTACAT
11867964 AACTTAGTTA
Statistics
Matches: 272, Mismatches: 38, Indels: 73
0.71 0.10 0.19
Matches are distributed among these distances:
55 9 0.03
56 85 0.31
57 7 0.03
58 10 0.04
59 42 0.15
60 27 0.10
61 6 0.02
62 22 0.08
65 8 0.03
69 8 0.03
72 44 0.16
73 1 0.00
74 3 0.01
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (57 bp):
TTACATAACTTAATTATTAATTTATTATACATAACTTACATTAATATGATACATAAA
Found at i:11867675 original size:34 final size:34
Alignment explanation
Indices: 11867597--11867996 Score: 248
Period size: 34 Copynumber: 11.7 Consensus size: 34
11867587 CATAACTTAC
*
11867597 ATTAATATTATACATAAATTACATAACTTAATTAATTA
1 ATTAATATTATACATAAATTACATAAC----TTAGTTA
*
11867635 ATTAATATTATACATAAATTATATAACTTAGTTA
1 ATTAATATTATACATAAATTACATAACTTAGTTA
*
11867669 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTAGTTA
* *
11867703 ATT-A-A-TATACATAACTTACATAACTTA---C
1 ATTAATATTATACATAAATTACATAACTTAGTTA
* *
11867731 ATCAATATGATAC----A-T--A-AA-TTAGTTA
1 ATTAATATTATACATAAATTACATAACTTAGTTA
** *
11867756 ATTAATATTATACATATGTTACATAACTTA---C
1 ATTAATATTATACATAAATTACATAACTTAGTTA
*
11867787 ATTAATATGATACATAAATTACATAACTTAGTTA
1 ATTAATATTATACATAAATTACATAACTTAGTTA
* **
11867821 ATTAATATTATACATAACTTAC--AACTTACATA
1 ATTAATATTATACATAAATTACATAACTTAGTTA
* * * **
11867853 ACTTACATAACT-TACATTTTTTTAATTATTCATAAATTACATA
1 A-TTA-AT-ATTATACA-----TAAATTA--CATAACTTAGTTA
*
11867896 ACTTAATTAATTAATATACATAAATTACATAACTTAATTAATTA
1 A-TTAA-T-A-T--TATACATAAATTACATAAC----TTAGTTA
11867940 ATTAATATTATACATAAATTACATAACTTAGTTA
1 ATTAATATTATACATAAATTACATAACTTAGTTA
*
11867974 ATTAATATTATACATAATTTACA
1 ATTAATATTATACATAAATTACA
11867997 ACTTACATAA
Statistics
Matches: 290, Mismatches: 33, Indels: 82
0.72 0.08 0.20
Matches are distributed among these distances:
22 3 0.01
23 2 0.01
24 1 0.00
25 11 0.04
26 1 0.00
28 2 0.01
29 1 0.00
30 2 0.01
31 52 0.18
32 11 0.04
33 6 0.02
34 98 0.34
35 2 0.01
38 45 0.16
39 5 0.02
40 6 0.02
41 2 0.01
42 8 0.03
43 21 0.07
44 6 0.02
46 1 0.00
47 4 0.01
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (34 bp):
ATTAATATTATACATAAATTACATAACTTAGTTA
Found at i:11867758 original size:87 final size:87
Alignment explanation
Indices: 11867657--11867816 Score: 252
Period size: 87 Copynumber: 1.8 Consensus size: 87
11867647 CATAAATTAT
* *
11867657 ATAACTTAGTTAATTAATATTATACATAAATTACATAACTTA-ATTAATTAAT-ATACATAACTT
1 ATAAATTAGTTAATTAATATTATACATAAATTACATAACTTACATTAA-T-ATGATACATAAATT
11867720 ACATAACTTACATCAATATGATAC
64 ACATAACTTACATCAATATGATAC
**
11867744 ATAAATTAGTTAATTAATATTATACATATGTTACATAACTTACATTAATATGATACATAAATTAC
1 ATAAATTAGTTAATTAATATTATACATAAATTACATAACTTACATTAATATGATACATAAATTAC
11867809 ATAACTTA
66 ATAACTTA
11867817 GTTAATTAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
86 2 0.03
87 60 0.90
88 5 0.07
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (87 bp):
ATAAATTAGTTAATTAATATTATACATAAATTACATAACTTACATTAATATGATACATAAATTAC
ATAACTTACATCAATATGATAC
Found at i:11867779 original size:65 final size:61
Alignment explanation
Indices: 11867710--11867969 Score: 200
Period size: 65 Copynumber: 4.2 Consensus size: 61
11867700 TTAATTAATA
**
11867710 TACATAACTTACATAACTTACATCAATATGATACATAAATTAGTTAATTAATATTATACATATGT
1 TACATAACTTACATAACTTACAT-AA-AT--TACATAAATTAGTTAATTAATATTATACATAACT
* *
11867775 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAACT
1 TACATAACTTACA-TAA-CT--TACATAAATTACATAAATTAGTTAATTAATATTATACATAACT
* ** * *
11867840 TAC--AACTTACATAACTTACATAACTTACAT---TTTTTTAATTATTCATAAATTACATAACT
1 TACATAACTTACATAACTTACATAAATTACATAAATTAGTTAATTAAT-AT-TA-TACATAACT
* *
11867899 TA-ATTAA-TTA-AT-A--TACATAAATTACATAACTTAATTAATTAATTAATATTATACATAAA
1 TACA-TAACTTACATAACTTACATAAATTACAT-A---AATTAGTTAATTAATATTATACATAAC
11867958 T
61 T
11867959 TACATAACTTA
1 TACATAACTTA
11867970 GTTAATTAAT
Statistics
Matches: 160, Mismatches: 16, Indels: 42
0.73 0.07 0.19
Matches are distributed among these distances:
56 23 0.14
57 2 0.01
58 2 0.01
59 26 0.16
60 16 0.10
61 8 0.05
62 5 0.03
63 18 0.11
65 47 0.29
66 3 0.02
67 3 0.02
68 2 0.01
69 5 0.03
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (61 bp):
TACATAACTTACATAACTTACATAAATTACATAAATTAGTTAATTAATATTATACATAACT
Found at i:11867800 original size:22 final size:22
Alignment explanation
Indices: 11867769--11867810 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11867759 AATATTATAC
* *
11867769 ATATGTTACATAACTTACATTA
1 ATATGATACATAAATTACATTA
11867791 ATATGATACATAAATTACAT
1 ATATGATACATAAATTACAT
11867811 AACTTAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (22 bp):
ATATGATACATAAATTACATTA
Found at i:11867852 original size:16 final size:17
Alignment explanation
Indices: 11867831--11867869 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
11867821 ATTAATATTA
11867831 TACATAACTTAC-AACT
1 TACATAACTTACAAACT
11867847 TACATAACTTACATAACT
1 TACATAACTTACA-AACT
11867865 TACAT
1 TACAT
11867870 TTTTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.57
18 9 0.43
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (17 bp):
TACATAACTTACAAACT
Found at i:11867855 original size:9 final size:9
Alignment explanation
Indices: 11867774--11868192 Score: 87
Period size: 9 Copynumber: 48.3 Consensus size: 9
11867764 TATACATATG
11867774 TTACATAAC
1 TTACATAAC
*
11867783 TTACATTAATA
1 TTACA-TAA-C
*
11867794 TGATACATAAA
1 T--TACATAAC
11867805 TTACATAAC
1 TTACATAAC
**
11867814 TTAGTTAA-
1 TTACATAAC
*
11867822 TTA-AT-AT
1 TTACATAAC
11867829 TATACATAAC
1 T-TACATAAC
11867839 TTAC--AAC
1 TTACATAAC
11867846 TTACATAAC
1 TTACATAAC
11867855 TTACATAAC
1 TTACATAAC
***
11867864 TTACATTTTT
1 TTACA-TAAC
*
11867874 TTA-ATTA-
1 TTACATAAC
*
11867881 TT-CATAAA
1 TTACATAAC
11867889 TTACATAAC
1 TTACATAAC
11867898 TTA-ATTAA-
1 TTACA-TAAC
11867906 TTA-AT-A-
1 TTACATAAC
*
11867912 -TACATAAA
1 TTACATAAC
11867920 TTACATAAC
1 TTACATAAC
11867929 TTA-ATTAA-
1 TTACA-TAAC
*
11867937 TTA-ATTAATAT
1 TTACA-T-A-AC
*
11867948 TATACATAAA
1 T-TACATAAC
11867958 TTACATAAC
1 TTACATAAC
**
11867967 TTAGTTAA-
1 TTACATAAC
*
11867975 TTA-AT-AT
1 TTACATAAC
*
11867982 TATACATAAT
1 T-TACATAAC
11867992 TTAC--AAC
1 TTACATAAC
11867999 TTACATAAC
1 TTACATAAC
***
11868008 TTACAATTTT
1 TTAC-ATAAC
*
11868018 TTA-ATTA-
1 TTACATAAC
* *
11868025 TT-CGTAAA
1 TTACATAAC
11868033 TTACATAAC
1 TTACATAAC
* *
11868042 TTACTTAAT
1 TTACATAAC
*
11868051 TTTCATAA-
1 TTACATAAC
*
11868059 -TAAATAAC
1 TTACATAAC
11868067 TTACATAAC
1 TTACATAAC
11868076 TTAC--AAC
1 TTACATAAC
11868083 TTACATAAC
1 TTACATAAC
* **
11868092 TTATACGAC
1 TTACATAAC
*
11868101 ATACATAAC
1 TTACATAAC
*
11868110 TTACATAGC
1 TTACATAAC
* *
11868119 ATA-ATTTGAC
1 TTACA--TAAC
*
11868129 TAATACACAAC
1 T--TACATAAC
*
11868140 TTACATAAT
1 TTACATAAC
*
11868149 TTTCATAA-
1 TTACATAAC
*
11868157 -TAAATAAC
1 TTACATAAC
11868165 TTACATAA-
1 TTACATAAC
11868173 -TACATAAC
1 TTACATAAC
*
11868181 TTACGTAAC
1 TTACATAAC
11868190 TTA
1 TTA
11868193 GTTATACTTA
Statistics
Matches: 306, Mismatches: 56, Indels: 96
0.67 0.12 0.21
Matches are distributed among these distances:
5 2 0.01
6 5 0.02
7 52 0.17
8 32 0.10
9 171 0.56
10 22 0.07
11 8 0.03
12 8 0.03
13 6 0.02
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (9 bp):
TTACATAAC
Found at i:11868083 original size:16 final size:16
Alignment explanation
Indices: 11868064--11868114 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
11868054 CATAATAAAT
11868064 AACTTACATAACTTAC
1 AACTTACATAACTTAC
11868080 AACTTACATAACTTATAC
1 AACTTACATAAC-T-TAC
* *
11868098 GACATACATAACTTAC
1 AACTTACATAACTTAC
11868114 A
1 A
11868115 TAGCATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 15 0.50
17 2 0.07
18 13 0.43
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:11868163 original size:16 final size:16
Alignment explanation
Indices: 11868152--11868184 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11868142 ACATAATTTT
11868152 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
11868168 CATAATACATAACTTA
1 CATAATAAATAACTTA
11868184 C
1 C
11868185 GTAACTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:11873686 original size:66 final size:65
Alignment explanation
Indices: 11873579--11873749 Score: 218
Period size: 66 Copynumber: 2.6 Consensus size: 65
11873569 AAGCAAATTA
* * * *
11873579 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
11873643 G
65 G
* *
11873644 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
11873709 G
65 G
* * * *
11873710 CAGCAGCTTAAAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
11873750 CGGCAGCGAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 86 0.93
67 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.28, T:0.12
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:11873746 original size:21 final size:21
Alignment explanation
Indices: 11873720--11873764 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
11873710 CAGCAGCTTA
*
11873720 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCGGCAGCAAGAG
*
11873741 AAGCAGAGGCGGCAGCGAGAG
1 AAGCAGAGGCGGCAGCAAGAG
11873762 AAG
1 AAG
11873765 TACAGGCTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.18, G:0.42, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCAAGAG
Found at i:11873771 original size:21 final size:21
Alignment explanation
Indices: 11873728--11873771 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11873718 TAAAGCAGAT
*
11873728 GCGGCAGCAAGAGAAGCAGAG
1 GCGGCAGCAAGAGAAGCACAG
* *
11873749 GCGGCAGCGAGAGAAGTACAG
1 GCGGCAGCAAGAGAAGCACAG
11873770 GC
1 GC
11873772 TACAGTGAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.43, T:0.02
Consensus pattern (21 bp):
GCGGCAGCAAGAGAAGCACAG
Found at i:11873826 original size:21 final size:21
Alignment explanation
Indices: 11873740--11873833 Score: 89
Period size: 21 Copynumber: 4.5 Consensus size: 21
11873730 GGCAGCAAGA
** *
11873740 GAAGCAGAGGCGGCAGCGAGA
1 GAAGCAGAGGCTACAGCGAGG
* * *
11873761 GAAGTACAGGCTACAGTGAGG
1 GAAGCAGAGGCTACAGCGAGG
* **
11873782 GAAGCAGAGGCTAAAATGAGG
1 GAAGCAGAGGCTACAGCGAGG
* *
11873803 GAAGCAGAGGCTGCAGCGATG
1 GAAGCAGAGGCTACAGCGAGG
11873824 GAAGCAGAGG
1 GAAGCAGAGG
11873834 AGCGTCAAAA
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.35, C:0.15, G:0.43, T:0.07
Consensus pattern (21 bp):
GAAGCAGAGGCTACAGCGAGG
Found at i:11874215 original size:43 final size:41
Alignment explanation
Indices: 11874161--11874428 Score: 178
Period size: 43 Copynumber: 6.3 Consensus size: 41
11874151 TGATAAGGGG
*
11874161 CTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATAGT
1 CTTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGATCAT-GT
* * * *
11874204 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGT
1 CTTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGATCA-TGT
* * * *
11874247 CTATT-GCGGCGTTTGAAGGGAAAGCGCCGCTAAAGACCCTGAT
1 CT-TTAGCGGCGTTTG-TGGAAAAGCGCCGCTAAAGATCATG-T
* * * * *
11874290 CTTTAGTGGCGTTTTTGGGAGAAGCGCCGCTAAAGATAAGGTT
1 CTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGATCATG-T
***** * * *
11874333 CTTTAGCGGCGTTTCCACTAAAGTGCCGCTAAAGGTCTTAGT
1 CTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGATCAT-GT
* * * * *
11874375 CTTCAGCGACGTTTGTGCAAGATGCGCCGCTAAAGATCAAGGT
1 CTTTAGCGGCGTTTGTGGAA-AAGCGCCGCTAAAGATC-ATGT
11874418 CTTTAGCGGCG
1 CTTTAGCGGCG
11874429 CATTCATTAG
Statistics
Matches: 168, Mismatches: 48, Indels: 18
0.72 0.21 0.08
Matches are distributed among these distances:
42 32 0.19
43 132 0.79
44 4 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (41 bp):
CTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGATCATGT
Found at i:11874315 original size:86 final size:86
Alignment explanation
Indices: 11874152--11874346 Score: 245
Period size: 86 Copynumber: 2.3 Consensus size: 86
11874142 TACTAAAGGT
* * * *
11874152 GATAAGGGGCTTTAGCGGCGTTTG-TGGAAAAAGCGCCACTAAAGATCATAGTCTTTAGTGGCGT
1 GATAAGGGTCTTTAGCGGCGTTTGAAGG-GAAAGCGCCACTAAAGACCATAGTCTTTAGTGGCGT
11874216 TTTTGGTCAAAGCGCCGCTAAA
65 TTTTGGTCAAAGCGCCGCTAAA
* * *
11874238 GATCAGGGTCTATT-GCGGCGTTTGAAGGGAAAGCGCCGCTAAAGACCCT-GATCTTTAGTGGCG
1 GATAAGGGTCT-TTAGCGGCGTTTGAAGGGAAAGCGCCACTAAAGACCATAG-TCTTTAGTGGCG
*
11874301 TTTTTGG-GAGAAGCGCCGCTAAA
64 TTTTTGGTCA-AAGCGCCGCTAAA
*
11874324 GATAAGGTTCTTTAGCGGCGTTT
1 GATAAGGGTCTTTAGCGGCGTTT
11874347 CCACTAAAGT
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
85 4 0.04
86 86 0.91
87 4 0.04
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (86 bp):
GATAAGGGTCTTTAGCGGCGTTTGAAGGGAAAGCGCCACTAAAGACCATAGTCTTTAGTGGCGTT
TTTGGTCAAAGCGCCGCTAAA
Found at i:11874519 original size:22 final size:22
Alignment explanation
Indices: 11874491--11874533 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11874481 TTGCGGCGCT
*
11874491 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
11874513 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
11874534 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:11875471 original size:33 final size:33
Alignment explanation
Indices: 11875429--11875498 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
11875419 TTATCTTACC
11875429 TTACATATTTATTTATTTGATAAAAGTGAACAA
1 TTACATATTTATTTATTTGATAAAAGTGAACAA
11875462 TTACATATTTATTTATTTGATAAAAGTGAACAA
1 TTACATATTTATTTATTTGATAAAAGTGAACAA
11875495 TTAC
1 TTAC
11875499 CTTACATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (33 bp):
TTACATATTTATTTATTTGATAAAAGTGAACAA
Found at i:11875508 original size:38 final size:37
Alignment explanation
Indices: 11875424--11875511 Score: 139
Period size: 33 Copynumber: 2.5 Consensus size: 37
11875414 AATTATTATC
11875424 TTACCTTACATATTTATTTATTTGATAAAAGTGAACA
1 TTACCTTACATATTTATTTATTTGATAAAAGTGAACA
11875461 --A--TTACATATTTATTTATTTGATAAAAGTGAACAA
1 TTACCTTACATATTTATTTATTTGATAAAAGTGAAC-A
11875495 TTACCTTACATATTTAT
1 TTACCTTACATATTTAT
11875512 ACTAAAAGCT
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
33 31 0.67
34 1 0.02
35 1 0.02
36 1 0.02
38 12 0.26
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (37 bp):
TTACCTTACATATTTATTTATTTGATAAAAGTGAACA
Found at i:11875564 original size:13 final size:13
Alignment explanation
Indices: 11875546--11875587 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
11875536 AAATTGACAA
11875546 TAATTAAAACCAT
1 TAATTAAAACCAT
11875559 TAATTAAAA--A-
1 TAATTAAAACCAT
*
11875569 TAAATAAAACCAT
1 TAATTAAAACCAT
11875582 TAATTA
1 TAATTA
11875588 TTCAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 8 0.33
11 1 0.04
12 1 0.04
13 14 0.58
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATTAAAACCAT
Found at i:11875570 original size:23 final size:23
Alignment explanation
Indices: 11875544--11875587 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
11875534 GGAAATTGAC
*
11875544 AATAATTAAAACCATTAATTAAA
1 AATAAATAAAACCATTAATTAAA
11875567 AATAAATAAAACCATTAATTA
1 AATAAATAAAACCATTAATTA
11875588 TTCAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (23 bp):
AATAAATAAAACCATTAATTAAA
Found at i:11875675 original size:23 final size:23
Alignment explanation
Indices: 11875649--11875698 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
11875639 ATACAACAAG
* *
11875649 GGAGAAGGATAAGGTGGTGTTAT
1 GGAGAACGATAAGGTAGTGTTAT
**
11875672 GGAGGCCGATAAGGTAGTGTTAT
1 GGAGAACGATAAGGTAGTGTTAT
11875695 GGAG
1 GGAG
11875699 GCCGACTCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.04, G:0.44, T:0.24
Consensus pattern (23 bp):
GGAGAACGATAAGGTAGTGTTAT
Found at i:11875699 original size:23 final size:23
Alignment explanation
Indices: 11875656--11875703 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
11875646 AAGGGAGAAG
*
11875656 GATAAGGTGGTGTTATGGAGGCC
1 GATAAGGTAGTGTTATGGAGGCC
11875679 GATAAGGTAGTGTTATGGAGGCC
1 GATAAGGTAGTGTTATGGAGGCC
11875702 GA
1 GA
11875704 CTCACTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.42, T:0.25
Consensus pattern (23 bp):
GATAAGGTAGTGTTATGGAGGCC
Found at i:11877995 original size:31 final size:34
Alignment explanation
Indices: 11877935--11878005 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 34
11877925 CCGATGGCCC
*
11877935 GCCCGAAATATGGAAGGATTTGGGTAAAAATATAG
1 GCCCGAAATATGG-AGGATTTGGGAAAAAATATAG
*
11877970 GCCCGAAATAT-G-GG-TTTGGGAAAAAATTTAG
1 GCCCGAAATATGGAGGATTTGGGAAAAAATATAG
11878001 GCCCG
1 GCCCG
11878006 TTTAAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 20 0.59
32 2 0.06
34 1 0.03
35 11 0.32
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.23
Consensus pattern (34 bp):
GCCCGAAATATGGAGGATTTGGGAAAAAATATAG
Found at i:11878261 original size:59 final size:59
Alignment explanation
Indices: 11878192--11878361 Score: 322
Period size: 59 Copynumber: 2.9 Consensus size: 59
11878182 TCAAGTTTGT
*
11878192 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
11878251 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
11878310 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
11878362 AATAATTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 109 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:11878393 original size:16 final size:16
Alignment explanation
Indices: 11878372--11878413 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
11878362 AATAATTTGA
*
11878372 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
*
11878388 TAATTTTAATAATAAT
1 TAATTTTAATAACAAT
*
11878404 TAGTTTTAAT
1 TAATTTTAAT
11878414 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:11879558 original size:20 final size:20
Alignment explanation
Indices: 11879515--11879566 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
11879505 AATACCCAAT
* *
11879515 GTATCGATACATAACATAAG
1 GTATCGATACTTAACATAAA
* *
11879535 GTATCGATACTTACCTTAAA
1 GTATCGATACTTAACATAAA
*
11879555 GTATTGATACTT
1 GTATCGATACTT
11879567 TTGGCTTGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (20 bp):
GTATCGATACTTAACATAAA
Found at i:11882420 original size:19 final size:20
Alignment explanation
Indices: 11882373--11882411 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11882363 TGCTTGTTCT
11882373 AAAGTATCAATACTTTATGG
1 AAAGTATCAATACTTTATGG
*
11882393 AAAGTATCAGTACTTTATG
1 AAAGTATCAATACTTTATG
11882412 ATGGTATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (20 bp):
AAAGTATCAATACTTTATGG
Found at i:11882757 original size:19 final size:19
Alignment explanation
Indices: 11882733--11882785 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
11882723 TTTTGAGTCC
11882733 TTGTAATCAAATTTGCCCA
1 TTGTAATCAAATTTGCCCA
11882752 TTGTAATCAAATTTGCCCA
1 TTGTAATCAAATTTGCCCA
11882771 TTGTAATCAAATTTG
1 TTGTAATCAAATTTG
11882786 TTATTAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (19 bp):
TTGTAATCAAATTTGCCCA
Found at i:11883373 original size:127 final size:126
Alignment explanation
Indices: 11883221--11883452 Score: 301
Period size: 126 Copynumber: 1.8 Consensus size: 126
11883211 AAAGTTTAAG
* ***
11883221 GGGTTGAAGGAGTAAAATTTTGGGGGAGAATA-TTAAAAAAAAATTAGGGGGGAGGGGGATGGGT
1 GGGTTGAAGGAGTAAAA-TTTGGGGGGGAATATTTAAAAAAAAA-T---GGGGAGGAAAATGGGT
* * * *
11883285 TTGGGTTAGAA-GG-GGGTGGGATGGGA-GGGAGTAAAATTTTTGGGGGAAAATAAAAAGTTTTG
61 TTGGGGTAGAAGGGAGGGTGGGATGGAAGGGGAATAAAAGTTTTGGGGGAAAATAAAAAGTTTTG
11883347 A
126 A
* *
11883348 GGGTTGAATGAGTAAAATTTGGGGGGTAATATTTAAAAAAAAATGGGGAGGAAAATGGGTTTGGG
1 GGGTTGAAGGAGTAAAATTTGGGGGGGAATATTTAAAAAAAAATGGGGAGGAAAATGGGTTTGGG
11883413 GTAGAAGGGAGGGTGGGATGGAAGGGGAATAAAAGTTTTG
66 GTAGAAGGGAGGGTGGGATGGAAGGGGAATAAAAGTTTTG
11883453 ATAGGAAAGT
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
123 23 0.25
124 2 0.02
125 12 0.13
126 27 0.30
127 27 0.30
ACGTcount: A:0.34, C:0.00, G:0.41, T:0.24
Consensus pattern (126 bp):
GGGTTGAAGGAGTAAAATTTGGGGGGGAATATTTAAAAAAAAATGGGGAGGAAAATGGGTTTGGG
GTAGAAGGGAGGGTGGGATGGAAGGGGAATAAAAGTTTTGGGGGAAAATAAAAAGTTTTGA
Found at i:11883478 original size:30 final size:30
Alignment explanation
Indices: 11883437--11883512 Score: 127
Period size: 30 Copynumber: 2.5 Consensus size: 30
11883427 GGGATGGAAG
*
11883437 GGGAATAAAAGTTTTGAT-AGGAAAGTGGGA
1 GGGAGTAAAAGTTTTGATCA-GAAAGTGGGA
11883467 GGGAGTAAAAGTTTTGATCAGAAAGTGGGA
1 GGGAGTAAAAGTTTTGATCAGAAAGTGGGA
11883497 GGGAGTAAAAGTTTTG
1 GGGAGTAAAAGTTTTG
11883513 GGGGAAAGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 43 0.98
31 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.37, T:0.25
Consensus pattern (30 bp):
GGGAGTAAAAGTTTTGATCAGAAAGTGGGA
Found at i:11889039 original size:21 final size:21
Alignment explanation
Indices: 11889015--11889056 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11889005 CTGTTAGACC
11889015 AACTTGGATATAAAGTATGTT
1 AACTTGGATATAAAGTATGTT
*
11889036 AACTTGGATCTAAAGTATGTT
1 AACTTGGATATAAAGTATGTT
11889057 CTTTTACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (21 bp):
AACTTGGATATAAAGTATGTT
Found at i:11889403 original size:15 final size:16
Alignment explanation
Indices: 11889379--11889411 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11889369 TTGATAAATT
*
11889379 AAAAATTTAATTACTG
1 AAAAATTTAAGTACTG
11889395 AAAAA-TTAAGTACTG
1 AAAAATTTAAGTACTG
11889410 AA
1 AA
11889412 TTTTTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (16 bp):
AAAAATTTAAGTACTG
Found at i:11890948 original size:20 final size:22
Alignment explanation
Indices: 11890923--11890967 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11890913 ATTAAAAAAT
11890923 AATGAA-TTACAAAA-TATATA
1 AATGAAGTTACAAAACTATATA
* *
11890943 AATGAAGTTATAAAACTATTTA
1 AATGAAGTTACAAAACTATATA
11890965 AAT
1 AAT
11890968 TTATATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 7 0.33
22 8 0.38
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (22 bp):
AATGAAGTTACAAAACTATATA
Found at i:11901073 original size:20 final size:20
Alignment explanation
Indices: 11901044--11901098 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
11901034 ACTAGGAAGG
*
11901044 GGTATTGATAATTTTTTAAA
1 GGTATTGATACTTTTTTAAA
* * *
11901064 GGTATCGATACTTTGTTAAG
1 GGTATTGATACTTTTTTAAA
11901084 GGTATTGATACTTTT
1 GGTATTGATACTTTT
11901099 GATTTTTGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.47
Consensus pattern (20 bp):
GGTATTGATACTTTTTTAAA
Found at i:11901188 original size:20 final size:20
Alignment explanation
Indices: 11901165--11901211 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
11901155 ATGGGTATCA
11901165 ATACTTTGA-AGAAGGTATTG
1 ATACTTTGATA-AAGGTATTG
* *
11901185 ATACTTTTATAAGGGTATTG
1 ATACTTTGATAAAGGTATTG
11901205 ATACTTT
1 ATACTTT
11901212 TGATTTTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (20 bp):
ATACTTTGATAAAGGTATTG
Found at i:11901245 original size:114 final size:113
Alignment explanation
Indices: 11901062--11901322 Score: 283
Period size: 114 Copynumber: 2.3 Consensus size: 113
11901052 TAATTTTTTA
* *
11901062 AAGGTATCGATACTTTGTTAAGGGTATTGATACTTTTGATTTTTGTTCAATTTTCCAAAACATCG
1 AAGGTATCGATACTTTGTTAAGGGTATTGATACTTTTGATTTTTGCTCAATTTTCCAAAACATCA
* *
11901127 AAGCTCAAATTGGTATCGATACCAGGTCATGGGTATCAATACTTTGAAG
66 AAGCTCAAATTGGTATCAATACCAAG-CATGGGTATCAATACTTTGAAG
* * * * * *
11901176 AAGGTATTGATACTTT-TATAAGGGTATTGATACTTTTGATTTTTGCTCTATTTT-TATGATCTT
1 AAGGTATCGATACTTTGT-TAAGGGTATTGATACTTTTGATTTTTGCTCAATTTTCCA-AAACAT
** ** * ***
11901239 CAAAGCTCATTTTGGTATCAATACCAAGCATGGGTATGGATACTTGGTTC
64 CAAAGCTCAAATTGGTATCAATACCAAGCATGGGTATCAATACTTTGAAG
* * * *
11901289 AAGGTATCGATACCTTATTGAGGGTATCGATACT
1 AAGGTATCGATACTTTGTTAAGGGTATTGATACT
11901323 ATGGTCCTTA
Statistics
Matches: 122, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
113 46 0.38
114 76 0.62
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (113 bp):
AAGGTATCGATACTTTGTTAAGGGTATTGATACTTTTGATTTTTGCTCAATTTTCCAAAACATCA
AAGCTCAAATTGGTATCAATACCAAGCATGGGTATCAATACTTTGAAG
Found at i:11907854 original size:40 final size:40
Alignment explanation
Indices: 11907781--11907921 Score: 108
Period size: 40 Copynumber: 3.5 Consensus size: 40
11907771 AACACATCAG
* * * *
11907781 TTTGGCACCCAGTGCCTCATTGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGTTAAATCGAAGTAATAA
* *
11907821 TTTGACACCCAGTGTCTCATCGGTTAAACCGAAG-AA-AA
1 TTTGACACCCAGTGCCTCATCGGTTAAATCGAAGTAATAA
* * * * * *
11907859 -TTGGCACCCAGTACCTAATCGAATTAAATTCGAAATAGTAA
1 TTTGACACCCAGTGCCTCATCG-GTTAAA-TCGAAGTAATAA
* * *
11907900 ATTGACACCCAATGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
11907922 ACTCGAAGTC
Statistics
Matches: 77, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
37 17 0.22
38 7 0.09
39 6 0.08
40 29 0.38
41 2 0.03
42 16 0.21
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGTTAAATCGAAGTAATAA
Found at i:11908064 original size:13 final size:13
Alignment explanation
Indices: 11908046--11908071 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11908036 TTCATTTCAT
11908046 TTCAATATATATA
1 TTCAATATATATA
11908059 TTCAATATATATA
1 TTCAATATATATA
11908072 CCAATTCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTCAATATATATA
Found at i:11908078 original size:17 final size:14
Alignment explanation
Indices: 11908046--11908098 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
11908036 TTCATTTCAT
*
11908046 TTCAAT-ATATATA
1 TTCAATAATATAAA
11908059 TTCAATATATATACCAA
1 TTCAATA-ATATA--AA
11908076 TTCAATCAATATAAA
1 TTCAAT-AATATAAA
11908091 TTCAATAA
1 TTCAATAA
11908099 ATTCATCACA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
13 6 0.18
14 2 0.06
15 13 0.38
17 12 0.35
18 1 0.03
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (14 bp):
TTCAATAATATAAA
Found at i:11908094 original size:15 final size:16
Alignment explanation
Indices: 11908047--11908096 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
11908037 TCATTTCATT
*
11908047 TCAATATATATATTCAA
1 TCAATATACA-ATTCAA
11908064 T-ATATATACCAATTCAA
1 TCA-ATATA-CAATTCAA
11908081 TCAATATA-AATTCAA
1 TCAATATACAATTCAA
11908096 T
1 T
11908097 AAATTCATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 8 0.28
16 1 0.03
17 18 0.62
18 2 0.07
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (16 bp):
TCAATATACAATTCAA
Found at i:11913651 original size:45 final size:45
Alignment explanation
Indices: 11913587--11913711 Score: 214
Period size: 45 Copynumber: 2.8 Consensus size: 45
11913577 GGTGGTGGCG
*
11913587 GAGGAGCTCCATATGAAGGATAGCCAGAAAAAGATTGGGGGGATA
1 GAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGGGATA
* *
11913632 GAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGATG
1 GAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGGGATA
*
11913677 GAGGAGCTCCATACGAAGGATAGCCAGAAAGAGAT
1 GAGGAGCTCCATACGAAGGATAGCCAGAAAAAGAT
11913712 GGTGATGGCA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 76 1.00
ACGTcount: A:0.38, C:0.14, G:0.34, T:0.14
Consensus pattern (45 bp):
GAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGGGATA
Found at i:11918992 original size:13 final size:13
Alignment explanation
Indices: 11918974--11919024 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
11918964 AGTTCTTCAT
11918974 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
11918987 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
11919000 TGCTGTGGAGAAG
1 TGCTTTTGAAAAG
11919013 TGCTTTTGAAAA
1 TGCTTTTGAAAA
11919025 TTTTGGGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:11923608 original size:41 final size:41
Alignment explanation
Indices: 11923551--11923630 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
11923541 TGATCGAATG
* * *
11923551 TAATACAGAATTTACGTCTAGTAGGTTTGATGCCGGTGAAA
1 TAATACAGAATTTACGTCTAGCAGGCTTAATGCCGGTGAAA
*
11923592 TAATACAGACTTTACGTCTAGCAGGCTTAATGCCGGTGA
1 TAATACAGAATTTACGTCTAGCAGGCTTAATGCCGGTGA
11923631 TACATTTCGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (41 bp):
TAATACAGAATTTACGTCTAGCAGGCTTAATGCCGGTGAAA
Found at i:11931196 original size:43 final size:43
Alignment explanation
Indices: 11931123--11931275 Score: 148
Period size: 43 Copynumber: 3.6 Consensus size: 43
11931113 TGTCATATCT
* * * *
11931123 CAGATATGGTCTTAAATGTAATCTCGTATCGATGCCAATAGT-C
1 CAGACATGGTCTTACATGAAATCTCATATCGATGCCAAT-GTCC
* * *
11931166 CAGCCATGGTCTTACATGAAATCACATATCGATGTCAATGTCC
1 CAGACATGGTCTTACATGAAATCTCATATCGATGCCAATGTCC
* * * *
11931209 CAGACATGGTCTTACACGAAGTCTCATATCGATTCC-ATATCC
1 CAGACATGGTCTTACATGAAATCTCATATCGATGCCAATGTCC
** * *
11931251 CAGATGTGGTCTTACACGTAATCTC
1 CAGACATGGTCTTACATGAAATCTC
11931276 GATAACCCTA
Statistics
Matches: 91, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 28 0.31
43 63 0.69
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
CAGACATGGTCTTACATGAAATCTCATATCGATGCCAATGTCC
Found at i:11934961 original size:25 final size:24
Alignment explanation
Indices: 11934920--11934969 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
11934910 TTCAAAAATA
*
11934920 AAAATTAAAGAATTTTAAAATTTT
1 AAAATTAAAGAATTTTAAAAGTTT
11934944 AAAATTAAA-AACTATTTAAAAGTTT
1 AAAATTAAAGAA-T-TTTAAAAGTTT
11934969 A
1 A
11934970 TTTTTCCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 2 0.09
24 10 0.43
25 11 0.48
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (24 bp):
AAAATTAAAGAATTTTAAAAGTTT
Found at i:11935210 original size:40 final size:40
Alignment explanation
Indices: 11935156--11935272 Score: 125
Period size: 40 Copynumber: 3.0 Consensus size: 40
11935146 CGTTTGTATA
*
11935156 AAAAGCGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT-A-
1 AAAA-CGCCGCTAAAAATCAAGAATTAGCGGCGCTTTTCAG
* * ** *
11935195 AAATACCGCCACTAAAGATCGCGTATTAGCGGCGCTTTTCAG
1 AAA-A-CGCCGCTAAAAATCAAGAATTAGCGGCGCTTTTCAG
11935237 AAAACGCCGCTAAAAAT-AAGAATTAGCGGCG-TTTTC
1 AAAACGCCGCTAAAAATCAAGAATTAGCGGCGCTTTTC
11935273 CAAAAAGTGC
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
38 5 0.08
39 14 0.22
40 40 0.62
41 2 0.03
42 3 0.05
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCAAGAATTAGCGGCGCTTTTCAG
Found at i:11935381 original size:41 final size:41
Alignment explanation
Indices: 11935322--11935599 Score: 398
Period size: 41 Copynumber: 6.8 Consensus size: 41
11935312 TGAGTTTTCG
* * *
11935322 GGTCTTTAGCGGCGTTTTTGGAAAAGCGCCACTAAAGCTTT
1 GGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCT
* *
11935363 GGTCTTTAGCGGCATTTTTGGAAAAGCGTCGCTAATGCTCT
1 GGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCT
11935404 GGTCTTTAGCGGCGTTTTT-GAGAAAGCGCCGCTAATGCTCT
1 GGTCTTTAGCGGCGTTTTTGGA-AAAGCGCCGCTAATGCTCT
* *
11935445 GGTCTTTAGCGGCGTTTTTGGAAAAGCGCCACTAATGGTCT
1 GGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCT
* *
11935486 GGTCTTTAGCGGCGTTTTTGGGAAAGTGCCGCTAATGCTCT
1 GGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCT
** *
11935527 ATTCTTTAGCGGCGCTTTTGTGAAAA-CGCCGCTAATGCTCT
1 GGTCTTTAGCGGCGTTTTTG-GAAAAGCGCCGCTAATGCTCT
* *
11935568 AGTCTTTAGCGGCGTTTTTGGGAAAGCGCCGC
1 GGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
11935600 AAAATGTATT
Statistics
Matches: 212, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
40 6 0.03
41 200 0.94
42 6 0.03
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.32
Consensus pattern (41 bp):
GGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCT
Found at i:11936047 original size:15 final size:14
Alignment explanation
Indices: 11936029--11936068 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
11936019 GGATTTAGGT
*
11936029 TTTAGGGTTTGATGG
1 TTTAGGGTTTG-TGA
11936044 TTTAGGGGTTTGTGA
1 TTTA-GGGTTTGTGA
11936059 TTTAGGGTTT
1 TTTAGGGTTT
11936069 AGAGAATAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 10 0.43
16 7 0.30
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTGTGA
Found at i:11936327 original size:21 final size:21
Alignment explanation
Indices: 11936275--11936328 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
11936265 TGGGATTTAA
*
11936275 GGTTTATGGGTTAGGAGTTAG
1 GGTTTATGGGTTAAGAGTTAG
*
11936296 GGGTTATGGGTTAAGAGTTAG
1 GGTTTATGGGTTAAGAGTTAG
11936317 GGATTTA-GGGTT
1 GG-TTTATGGGTT
11936329 TTAAGGATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (21 bp):
GGTTTATGGGTTAAGAGTTAG
Found at i:11940690 original size:43 final size:42
Alignment explanation
Indices: 11940642--11940867 Score: 231
Period size: 43 Copynumber: 5.2 Consensus size: 42
11940632 ATGGTACTTT
* * *
11940642 TAGCGGCG-TTTGTAATTAAAGCGTCGCTAAATGTCTTGAGCTA
1 TAGCGGCGTTTTGTAA--AAAGCGTCGCTAAAGGTCCTGATCTA
* * * *
11940685 TAGCGGC-ATTTGTGAAAGATGTGTCACTAAAGGTCCTGATCTA
1 TAGCGGCGTTTTGT-AAA-AAGCGTCGCTAAAGGTCCTGATCTA
* *
11940728 TAGTGGCGTTTTTGTAAAAAGCGTCGCTAAAGGTCTTGATCTA
1 TAGCGGCG-TTTTGTAAAAAGCGTCGCTAAAGGTCCTGATCTA
* * *
11940771 TAGCGGCGTTTTTGTAAAAAGTGCCGCTAAAGATCCTGATCTA
1 TAGCGGCG-TTTTGTAAAAAGCGTCGCTAAAGGTCCTGATCTA
* * *
11940814 TAGCGGCGCTTTTTATAAAAAGCGCCACTAAAGGTCCTGATCTA
1 TAGCGGCG--TTTTGTAAAAAGCGTCGCTAAAGGTCCTGATCTA
11940858 TAGCGGCGTT
1 TAGCGGCGTT
11940868 GACAATAGTG
Statistics
Matches: 156, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
42 3 0.02
43 104 0.67
44 44 0.28
45 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TAGCGGCGTTTTGTAAAAAGCGTCGCTAAAGGTCCTGATCTA
Found at i:11940801 original size:86 final size:87
Alignment explanation
Indices: 11940650--11940867 Score: 278
Period size: 86 Copynumber: 2.5 Consensus size: 87
11940640 TTTAGCGGCG
* * * * *
11940650 TTTGTAATTAAAGCGTCGCTAAATGTCTTGAGCTATAGCGGCATTTGTGAAAGATGTGTCACTAA
1 TTTGTAA--AAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAGAAGTGCCACTAA
* *
11940715 AGGTCCTGATCTATAGTGGCG-TT
64 AGATCCTGATCTATAGCGGCGCTT
* *
11940738 TTTGTAAAAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTTTGTAAA-AAGTGCCGCTAAA
1 TTTGTAAAAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTG-AAAGAAGTGCCACTAAA
11940802 GATCCTGATCTATAGCGGCGCTT
65 GATCCTGATCTATAGCGGCGCTT
* * * *
11940825 TTTATAAAAAGCGCCACTAAAGGTCCTGATCTATAGCGGCGTT
1 TTTGTAAAAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTT
11940868 GACAATAGTG
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
86 64 0.56
87 44 0.38
88 7 0.06
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (87 bp):
TTTGTAAAAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAGAAGTGCCACTAAAG
ATCCTGATCTATAGCGGCGCTT
Found at i:11940845 original size:44 final size:43
Alignment explanation
Indices: 11940709--11940867 Score: 237
Period size: 43 Copynumber: 3.7 Consensus size: 43
11940699 AAAGATGTGT
* *
11940709 CACTAAAGGTCCTGATCTATAGTGGCGTTTTTGTAAAAAGCGT
1 CACTAAAGGTCCTGATCTATAGCGGCGTTTTTGTAAAAAGCGC
* * *
11940752 CGCTAAAGGTCTTGATCTATAGCGGCGTTTTTGTAAAAAGTGC
1 CACTAAAGGTCCTGATCTATAGCGGCGTTTTTGTAAAAAGCGC
* * *
11940795 CGCTAAAGATCCTGATCTATAGCGGCGCTTTTTATAAAAAGCGC
1 CACTAAAGGTCCTGATCTATAGCGGCG-TTTTTGTAAAAAGCGC
11940839 CACTAAAGGTCCTGATCTATAGCGGCGTT
1 CACTAAAGGTCCTGATCTATAGCGGCGTT
11940868 GACAATAGTG
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 65 0.62
44 39 0.38
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (43 bp):
CACTAAAGGTCCTGATCTATAGCGGCGTTTTTGTAAAAAGCGC
Found at i:11946117 original size:31 final size:31
Alignment explanation
Indices: 11946082--11946181 Score: 100
Period size: 31 Copynumber: 3.3 Consensus size: 31
11946072 ATTATATCCC
* *
11946082 TTAAAAGTTGGTAAAAAAAATTTTGGGCCCT
1 TTAAAAGTTGGTAAAAAAATTTTTTGGCCCT
* * * *
11946113 TTAAAA---GCTAAAAAAGCTTTTTTGACCCC
1 TTAAAAGTTGGTAAAAAA-ATTTTTTGGCCCT
11946142 TTAAAAGTTGGTAAAAAAATTTTCTTGG-CCT
1 TTAAAAGTTGGTAAAAAAATTTT-TTGGCCCT
11946173 TTAAAAGTT
1 TTAAAAGTT
11946182 AAAAGAAATG
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
28 8 0.15
29 14 0.26
31 21 0.39
32 11 0.20
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (31 bp):
TTAAAAGTTGGTAAAAAAATTTTTTGGCCCT
Found at i:11946127 original size:60 final size:60
Alignment explanation
Indices: 11946063--11946185 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 60
11946053 TTAAAAATTG
*
11946063 AAAAAAAAAATTAT-ATCCCTTAAAAGTTGGTAAAAAAAATTT-TGGGCCCTTTAAAAGCT
1 AAAAAAAAAATTATGACCCCTTAAAAGTTGGTAAAAAAAATTTCTGGG-CCTTTAAAAGCT
**** * * * *
11946122 AAAAAAGCTTTTTTGACCCCTTAAAAGTTGGTAAAAAAATTTTCTTGGCCTTTAAAAGTT
1 AAAAAAAAAATTATGACCCCTTAAAAGTTGGTAAAAAAAATTTCTGGGCCTTTAAAAGCT
11946182 AAAA
1 AAAA
11946186 GAAATGTTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
59 9 0.17
60 41 0.77
61 3 0.06
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (60 bp):
AAAAAAAAAATTATGACCCCTTAAAAGTTGGTAAAAAAAATTTCTGGGCCTTTAAAAGCT
Found at i:11946164 original size:29 final size:29
Alignment explanation
Indices: 11946066--11946164 Score: 71
Period size: 29 Copynumber: 3.4 Consensus size: 29
11946056 AAAATTGAAA
* *
11946066 AAAAAAATTAT-ATCCCTTAAAAGTTGGT
1 AAAAAAATTTTGACCCCTTAAAAGTTGGT
* * *
11946094 AAAAAAAATTTTGGGCCCTTTAAAA---GCT
1 -AAAAAAATTTT-GACCCCTTAAAAGTTGGT
*
11946122 AAAAAAGCTTTTTTGACCCCTTAAAAGTTGGT
1 AAAAAA---ATTTTGACCCCTTAAAAGTTGGT
11946154 AAAAAAATTTT
1 AAAAAAATTTT
11946165 CTTGGCCTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 16
0.67 0.13 0.21
Matches are distributed among these distances:
27 6 0.12
28 2 0.04
29 24 0.46
30 4 0.08
31 8 0.15
32 8 0.15
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (29 bp):
AAAAAAATTTTGACCCCTTAAAAGTTGGT
Found at i:11961051 original size:174 final size:174
Alignment explanation
Indices: 11960719--11961052 Score: 383
Period size: 174 Copynumber: 1.9 Consensus size: 174
11960709 TTGTGAATCA
* * * *
11960719 TGAGGTGGAAAAGGTAGAGAGAGGGCAATGCAGGAGCAAGGAAAGGAGTGAAAATGTTTATTTGG
1 TGAGGTGGAAAAGGTAGAAAGAGGGCAATGCAGGAGCAAGGAAAGGACTGAAAAGGTTTATCTGG
* * * * * * *
11960784 GTAGAGTAACTAGATCACGAAGTTCAATCCATCCTTCCATGTCTGAGAGCGGGCCTTCAGGTACA
66 GTAGAGTAACAAGATCAAGAAGTTCAATCCAACCTTCAAAGTCTGAAAACGGGCCTTCAGGTACA
*
11960849 GGCAACGACTCCTTTGTTGCAAAGCAGGATAATGTTGTCAGTAG
131 GGAAACGACTCCTTTGTTGCAAAGCAGGATAATGTTGTCAGTAG
11960893 TGAGGTGGAAAAAGG-AGAAAGAGTGG-AATGCAGGAGCAAGGAAAGGACTGAAAAGGTTTACTC
1 TGAGGTGG-AAAAGGTAGAAAGAG-GGCAATGCAGGAGCAAGGAAAGGACTGAAAAGGTTTA-TC
* * * * * *
11960956 T-GGTCGAGTCACAAGATCAAGAGGTTC-AGCTCAACCTTCAAAGTCT-ATAAATGGGCTTTCAG
63 TGGGTAGAGTAACAAGATCAAGAAGTTCAATC-CAACCTTCAAAGTCTGA-AAACGGGCCTTCAG
* * *
11961018 GTGCAGGAAAC-ACTTCTTCTGTTGCTAAGCAGGAT
126 GTACAGGAAACGACTCCTT-TGTTGCAAAGCAGGAT
11961053 GGTGTGGTAC
Statistics
Matches: 133, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
173 9 0.07
174 114 0.86
175 10 0.08
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (174 bp):
TGAGGTGGAAAAGGTAGAAAGAGGGCAATGCAGGAGCAAGGAAAGGACTGAAAAGGTTTATCTGG
GTAGAGTAACAAGATCAAGAAGTTCAATCCAACCTTCAAAGTCTGAAAACGGGCCTTCAGGTACA
GGAAACGACTCCTTTGTTGCAAAGCAGGATAATGTTGTCAGTAG
Found at i:11971090 original size:119 final size:120
Alignment explanation
Indices: 11970875--11971121 Score: 408
Period size: 119 Copynumber: 2.0 Consensus size: 120
11970865 TTTCTGTTGC
* *
11970875 TTGAATACTTACAATGTATATACCTCCATTTGTAGCAATCCCTTCTGGTAAGTTTATTGATCTAG
1 TTGAATACTTACAATGTATATACCT-C-TTTGTAGCAATCCCTTCTGGTAAGTTTATTCATCCAG
**
11970940 AAAGGTTGATCAAGCTAGAAAACATGGGAACAATGAATCAGAATCCAGTGACAAAAAA
64 AAAGGTTGATCAAGCTAGAAAACAAAGGAACAATGAATCAGAAT-CAGTGACAAAAAA
*
11970998 TTGAATACTTACAATGTATATA-CT-TTTGTTGCAATCCCTTCTGGTAAGTTTATTCATCCAGAA
1 TTGAATACTTACAATGTATATACCTCTTTGTAGCAATCCCTTCTGGTAAGTTTATTCATCCAGAA
11971061 AGGTTGATCAAGCTAGAAAACAAAGGAACAATGAATCAGAATCAGTGACAAAAAA
66 AGGTTGATCAAGCTAGAAAACAAAGGAACAATGAATCAGAATCAGTGACAAAAAA
11971116 TTGAAT
1 TTGAAT
11971122 CAGCATTTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
118 19 0.16
119 76 0.64
122 2 0.02
123 22 0.18
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (120 bp):
TTGAATACTTACAATGTATATACCTCTTTGTAGCAATCCCTTCTGGTAAGTTTATTCATCCAGAA
AGGTTGATCAAGCTAGAAAACAAAGGAACAATGAATCAGAATCAGTGACAAAAAA
Found at i:11975689 original size:20 final size:21
Alignment explanation
Indices: 11975648--11975692 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
11975638 TATATATAAA
*
11975648 ATATTTTTTATTTTATAATTAT
1 ATATTTATTATTTTAT-ATTAT
11975670 ATATTTATTATTTTAT-TTAT
1 ATATTTATTATTTTATATTAT
11975690 ATA
1 ATA
11975693 AAATTGGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
22 15 0.68
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATATTTATTATTTTATATTAT
Found at i:11977947 original size:176 final size:177
Alignment explanation
Indices: 11977619--11977947 Score: 419
Period size: 176 Copynumber: 1.9 Consensus size: 177
11977609 ATAAGTGGAC
* * * * *
11977619 TTACTTAAGTATAAATTAAAAGTCATGAGTTTATAAATTAAAATTGTGGAAATTATTGTATAAAT
1 TTACTTAAGTATAAATTAAAAGTCAAGAGTTTATAAATTAAAATTATGAAAAATATGGTATAAAT
* * *
11977684 AAAATTTTTGAATATTTATATTGTATTAAATTAAAAAAATGAAGTTTTGTCACTATTTTCAAAAT
66 AAAATTTTTGAATATTTATATTGTATTAAATTAAAAAAATGAAGCTTCGTCACTATTTTCAAAAC
* * * **
11977749 TGAATAGGACCAGCTGGTCAGATCAATTGCACTAGGCACAAGTGAAT
131 TGAACAGAACCAACCAGTCAGATCAATTGCACTAGGCACAAGTGAAT
* * *
11977796 TTACTTAGGTATAAATTAAAAGTCAAGGGTTTA-AAATTAAATTTATGAAAAATATGGTATAAAT
1 TTACTTAAGTATAAATTAAAAGTCAAGAGTTTATAAATTAAAATTATGAAAAATATGGTATAAAT
* * * * *
11977860 GAAAA-TTTTGAATATTTATATTGTATTAAATTAAATACATGAAGCTTCGTCACTGTTTTTAGAA
66 -AAAATTTTTGAATATTTATATTGTATTAAATTAAAAAAATGAAGCTTCGTCACTATTTTCAAAA
* * *
11977924 CTGGACCGAATCAACCAGTCAGAT
130 CTGAACAGAACCAACCAGTCAGAT
11977948 TGATTGGATT
Statistics
Matches: 127, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
176 93 0.73
177 34 0.27
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (177 bp):
TTACTTAAGTATAAATTAAAAGTCAAGAGTTTATAAATTAAAATTATGAAAAATATGGTATAAAT
AAAATTTTTGAATATTTATATTGTATTAAATTAAAAAAATGAAGCTTCGTCACTATTTTCAAAAC
TGAACAGAACCAACCAGTCAGATCAATTGCACTAGGCACAAGTGAAT
Found at i:11985542 original size:34 final size:34
Alignment explanation
Indices: 11985487--11985552 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
11985477 CAAACACCAG
*
11985487 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
*
11985522 AAAACATTTTCCCG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
11985553 ATATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:11985752 original size:9 final size:9
Alignment explanation
Indices: 11985730--11986017 Score: 137
Period size: 9 Copynumber: 30.9 Consensus size: 9
11985720 ATTTTCTCAT
11985730 AAAATTATCAA
1 AAAATTAT--A
11985741 AAAATTATA
1 AAAATTATA
11985750 AAAA--ATA
1 AAAATTATA
*
11985757 ATAACTTATA
1 A-AAATTATA
*
11985767 AATATTATA
1 AAAATTATA
11985776 AAAA-TATA
1 AAAATTATA
* *
11985784 CAAATTTTA
1 AAAATTATA
*
11985793 ATAAATT-TT
1 A-AAATTATA
11985802 AAAATTAATA
1 AAAATT-ATA
*
11985812 AAACATATTTA
1 AAA-AT-TATA
*
11985823 AAATTTTATA
1 AAA-ATTATA
*
11985833 AAAACATATA
1 AAAA-TTATA
*
11985843 AAAATTCTTA
1 AAAATT-ATA
11985853 AAAACTTATA
1 AAAA-TTATA
*
11985863 AAAGATCATA
1 AAA-ATTATA
11985873 AAAATTATA
1 AAAATTATA
*
11985882 AATAATAATA
1 AA-AATTATA
*
11985892 AACATTAT-
1 AAAATTATA
*
11985900 TAAA-TATTA
1 AAAATTA-TA
11985909 AAAA-TATTA
1 AAAATTA-TA
11985918 AAAATTGATA
1 AAAATT-ATA
*
11985928 TAAATTTATA
1 -AAAATTATA
11985938 AAAATTATA
1 AAAATTATA
*
11985947 AAATCTTATA
1 AAA-ATTATA
11985957 AATAA-TATA
1 AA-AATTATA
11985966 AAAATCTA-A
1 AAAAT-TATA
*
11985975 TAAATTAT-
1 AAAATTATA
* *
11985983 AAAATCATT
1 AAAATTATA
*
11985992 AAAATTATT
1 AAAATTATA
*
11986001 AAAAGTATA
1 AAAATTATA
*
11986010 TAAATTAT
1 AAAATTAT
11986018 TTTAAAAAAA
Statistics
Matches: 214, Mismatches: 38, Indels: 52
0.70 0.12 0.17
Matches are distributed among these distances:
7 6 0.03
8 27 0.13
9 86 0.40
10 68 0.32
11 26 0.12
12 1 0.00
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAATTATA
Found at i:11985752 original size:19 final size:18
Alignment explanation
Indices: 11985728--11985986 Score: 99
Period size: 19 Copynumber: 13.8 Consensus size: 18
11985718 ATATTTTCTC
11985728 ATAAAATTATCAAAAAATT
1 ATAAAATTAT-AAAAAATT
* * *
11985747 ATAAAA-AATAATAACTT
1 ATAAAATTATAAAAAATT
11985764 ATAAATATTAT-AAAAA-T
1 ATAAA-ATTATAAAAAATT
* *
11985781 ATACAAATTTTAATAAATT
1 ATA-AAATTATAAAAAATT
*
11985800 TTAAAATTAATAAAACATATT
1 ATAAAATT-ATAAAA-A-ATT
11985821 -TAAAATTTTATAAAAACA-T
1 ATAAAA--TTATAAAAA-ATT
* *
11985840 ATAAAAATTCTTAAAAACTT
1 AT-AAAATT-ATAAAAAATT
*
11985860 ATAAAA-GATCATAAAAATT
1 ATAAAATTAT-A-AAAAATT
*
11985879 AT-AAATAATAATAAACATT
1 ATAAAATTATAA-AAA-ATT
*
11985898 ATTAAATATTA-AAAATATT
1 A-TAAA-ATTATAAAAAATT
* *
11985917 A-AAAATTGATATAAATTT
1 ATAAAATT-ATAAAAAATT
**
11985935 ATAAAAATTATAAAATCTT
1 AT-AAAATTATAAAAAATT
*
11985954 AT-AAATAATATAAAAATCT
1 ATAAAATTATA-AAAAAT-T
11985973 A-ATAAATTATAAAA
1 ATA-AAATTATAAAA
11985987 TCATTAAAAT
Statistics
Matches: 180, Mismatches: 30, Indels: 60
0.67 0.11 0.22
Matches are distributed among these distances:
16 3 0.02
17 32 0.18
18 35 0.19
19 54 0.30
20 34 0.19
21 17 0.09
22 5 0.03
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (18 bp):
ATAAAATTATAAAAAATT
Found at i:11985824 original size:20 final size:22
Alignment explanation
Indices: 11985799--11985841 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11985789 TTTAATAAAT
11985799 TTTAAAA-TTAAT-AAAACATA
1 TTTAAAATTTAATAAAAACATA
*
11985819 TTTAAAATTTTATAAAAACATA
1 TTTAAAATTTAATAAAAACATA
11985841 T
1 T
11985842 AAAAATTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 4 0.20
22 9 0.45
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATTTAATAAAAACATA
Found at i:11985839 original size:22 final size:22
Alignment explanation
Indices: 11985799--11985857 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 22
11985789 TTTAATAAAT
*
11985799 TTTAAAA-TTAAT-AAAACATA
1 TTTAAAATTTTATAAAAACATA
11985819 TTTAAAATTTTATAAAAACATA
1 TTTAAAATTTTATAAAAACATA
* *
11985841 -TAAAAATTCT-TAAAAAC
1 TTTAAAATTTTATAAAAAC
11985858 TTATAAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 14 0.41
21 12 0.35
22 8 0.24
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTAAAATTTTATAAAAACATA
Found at i:11985844 original size:20 final size:19
Alignment explanation
Indices: 11985811--11985865 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
11985801 TAAAATTAAT
*
11985811 AAAACATATTTAAAATTTTATA
1 AAAACATA--TAAAATTCT-TA
11985833 AAAACATATAAAAATTCTTA
1 AAAACATAT-AAAATTCTTA
*
11985853 AAAACTTATAAAA
1 AAAACATATAAAA
11985866 GATCATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 4 0.13
20 11 0.37
21 7 0.23
22 8 0.27
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAACATATAAAATTCTTA
Found at i:11985939 original size:29 final size:27
Alignment explanation
Indices: 11985877--11985949 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 27
11985867 ATCATAAAAA
*
11985877 TTATAAATAATAATAAACATTATTAAAT
1 TTATAAA-AATAATAAAAATTATTAAAT
* *
11985905 AT-TAAAAATATTAAAAATTGATATAAAT
1 TTATAAAAATAATAAAAATT-AT-TAAAT
*
11985933 TTATAAAAATTATAAAA
1 TTATAAAAATAATAAAA
11985950 TCTTATAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
26 11 0.31
27 6 0.17
28 7 0.19
29 12 0.33
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (27 bp):
TTATAAAAATAATAAAAATTATTAAAT
Found at i:11985939 original size:46 final size:44
Alignment explanation
Indices: 11985889--11986013 Score: 119
Period size: 46 Copynumber: 2.7 Consensus size: 44
11985879 ATAAATAATA
11985889 ATAAACATTATTAAATATTAAAAATAT-TAAAAAT-TGATATAAATTT
1 ATAAA-ATTATTAAATATTAAAAATATATAAAAATCT-A-ATAAA-TT
* * *
11985935 ATAAAAATTATAAAATCTTATAAATAATATAAAAATCTAATAAATT
1 AT-AAAATTATTAAATATTAAAAAT-ATATAAAAATCTAATAAATT
* *
11985981 ATAAAATCATTAAAATTATTAAAAGTATATAAA
1 ATAAAATTATT-AAA-TATTAAAAATATATAAA
11986014 TTATTTTAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
45 7 0.11
46 32 0.49
47 17 0.26
48 8 0.12
49 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (44 bp):
ATAAAATTATTAAATATTAAAAATATATAAAAATCTAATAAATT
Found at i:11985979 original size:75 final size:73
Alignment explanation
Indices: 11985831--11985995 Score: 172
Period size: 75 Copynumber: 2.2 Consensus size: 73
11985821 TAAAATTTTA
* * *
11985831 TAAAAACATATAAAAATTCTTAAAAACTTATAAAAGATCATAAAAATTATAAATAATAATAAACA
1 TAAAAATAT-TAAAAATTCATAAAAACTTATAAAAGATCATAAAAATTATAAATAATAATAAAAA
*
11985896 TTATTAAATAT
65 TTAAT-AA-AT
* * * * *
11985907 TAAAAATATTAAAAATTGATATAAATTTATAAAA-ATTATAAAATCTTATAAATAAT-ATAAAAA
1 TAAAAATATTAAAAATTCATAAAAACTTATAAAAGATCATAAAA-ATTATAAATAATAATAAAAA
11985970 TCTAATAAAT
65 T-TAATAAAT
11985980 TATAAAATCATTAAAA
1 TA-AAAAT-ATTAAAA
11985996 TTATTAAAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
73 4 0.05
74 22 0.29
75 42 0.55
76 8 0.11
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (73 bp):
TAAAAATATTAAAAATTCATAAAAACTTATAAAAGATCATAAAAATTATAAATAATAATAAAAAT
TAATAAAT
Found at i:11987028 original size:10 final size:9
Alignment explanation
Indices: 11987008--11987176 Score: 109
Period size: 10 Copynumber: 18.6 Consensus size: 9
11986998 TTTAAAAAAG
*
11987008 TTTATGATT
1 TTTATAATT
11987017 TTTATAAGTT
1 TTTATAA-TT
11987027 TTTATAATT
1 TTTATAATT
11987036 TATTAT-ATT
1 T-TTATAATT
**
11987045 TTT-TTGTT
1 TTTATAATT
*
11987053 TTTTTATATT
1 TTTATA-ATT
* *
11987063 TTTGTAATG
1 TTTATAATT
11987072 TTTATAAGTT
1 TTTATAA-TT
11987082 TTTATAATTT
1 TTTATAA-TT
11987092 TTTATAATT
1 TTTATAATT
11987101 TTTATAAGTT
1 TTTATAA-TT
*
11987111 TATATCAA--
1 TTTAT-AATT
11987119 TTT-TAATT
1 TTTATAATT
11987127 TTT-TAATAT
1 TTTATAAT-T
* *
11987136 TTAATAA-A
1 TTTATAATT
*
11987144 TTTATATTT
1 TTTATAATT
11987153 TTTATAATT
1 TTTATAATT
*
11987162 TTTAATGATT
1 TTT-ATAATT
11987172 TTTAT
1 TTTAT
11987177 GAGAAAATGT
Statistics
Matches: 128, Mismatches: 18, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 21 0.16
9 47 0.37
10 54 0.42
11 2 0.02
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.65
Consensus pattern (9 bp):
TTTATAATT
Found at i:11987047 original size:29 final size:28
Alignment explanation
Indices: 11987008--11987176 Score: 124
Period size: 29 Copynumber: 6.2 Consensus size: 28
11986998 TTTAAAAAAG
*
11987008 TTTATGATTTTTATAAGTTTTTATAATT
1 TTTATAATTTTTATAAGTTTTTATAATT
* *
11987036 TATTAT-ATTTTT-T-TGTTTTTTTATATT
1 T-TTATAATTTTTATAAGTTTTTATA-ATT
* *
11987063 TTTGTAATGTTTATAAGTTTTTATAATTT
1 TTTATAATTTTTATAAGTTTTTATAA-TT
*
11987092 TTTATAATTTTTATAAGTTTATATCAA--
1 TTTATAATTTTTATAAGTTTTTAT-AATT
* *
11987119 TTT-TAATTTTT-TAA-TATTTAATAA-A
1 TTTATAATTTTTATAAGT-TTTTATAATT
* *
11987144 TTTATATTTTTTATAA-TTTTTAATGATT
1 TTTATAATTTTTATAAGTTTTT-ATAATT
11987172 TTTAT
1 TTTAT
11987177 GAGAAAATGT
Statistics
Matches: 113, Mismatches: 15, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
24 3 0.03
25 10 0.09
26 29 0.26
27 20 0.18
28 14 0.12
29 35 0.31
30 2 0.02
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.65
Consensus pattern (28 bp):
TTTATAATTTTTATAAGTTTTTATAATT
Found at i:11987138 original size:26 final size:23
Alignment explanation
Indices: 11987096--11987162 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 23
11987086 TAATTTTTTA
* *
11987096 TAATTTTTATAAGTTTATATCAATTT
1 TAATTTTT-TAAATTTA-AT-AAATT
11987122 TAATTTTTTAATATTTAATAAATT
1 TAATTTTTTAA-ATTTAATAAATT
11987146 TATATTTTTTATAATTT
1 TA-ATTTTTTA-AATTT
11987163 TTAATGATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
24 6 0.17
25 17 0.47
26 13 0.36
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (23 bp):
TAATTTTTTAAATTTAATAAATT
Found at i:11987161 original size:35 final size:37
Alignment explanation
Indices: 11987080--11987172 Score: 97
Period size: 35 Copynumber: 2.6 Consensus size: 37
11987070 TGTTTATAAG
* *
11987080 TTTTTATAATTTTTT-ATAATTTTTATAAGTTTATATC
1 TTTTTATAATTTTTTAATAA-TTTAATAAATTTATATC
**
11987117 AATTT-TAATTTTTTAAT-ATTTAATAAATTTATAT-
1 TTTTTATAATTTTTTAATAATTTAATAAATTTATATC
*
11987151 TTTTTATAA-TTTTTAATGATTT
1 TTTTTATAATTTTTTAATAATTT
11987173 TTATGAGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
34 11 0.23
35 21 0.45
36 10 0.21
37 5 0.11
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.63
Consensus pattern (37 bp):
TTTTTATAATTTTTTAATAATTTAATAAATTTATATC
Found at i:11987167 original size:27 final size:26
Alignment explanation
Indices: 11986970--11987165 Score: 121
Period size: 27 Copynumber: 7.2 Consensus size: 26
11986960 TTTATGGTTT
11986970 TTTTTATAAATTTATATATTTTTA-AA
1 TTTTTATAAATTTATA-ATTTTTATAA
* * *
11986996 TATTTAAAAAAGTTTATGATTTTTATAA
1 T-TTTTATAAA-TTTATAATTTTTATAA
* **
11987024 GTTTTTAT-AATTTATTATATTTTTTTGTT
1 -TTTTTATAAATTTA-TA-ATTTTTAT-AA
** * *
11987053 TTTTTATATTTTTGTAATGTTTATAA
1 TTTTTATAAATTTATAATTTTTATAA
*
11987079 GTTTTTATAATTTTTTATAATTTTTATAA
1 -TTTTTATAA--ATTTATAATTTTTATAA
* *
11987108 GTTTATATCAATTT-TAATTTTT-TAA
1 -TTTTTATAAATTTATAATTTTTATAA
* *
11987133 TATTTAATAAATTTATATTTTTTATAA
1 T-TTTTATAAATTTATAATTTTTATAA
11987160 TTTTTA
1 TTTTTA
11987166 ATGATTTTTA
Statistics
Matches: 129, Mismatches: 27, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
24 1 0.01
25 12 0.09
26 24 0.19
27 38 0.29
28 27 0.21
29 27 0.21
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTTTATAAATTTATAATTTTTATAA
Found at i:11987441 original size:28 final size:30
Alignment explanation
Indices: 11987403--11987471 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 30
11987393 TATAAGCCTA
*
11987403 AAAATT-T-TAAAAAAATA-T-AAATTTTAT
1 AAAATTATATAAAAAAATATTAAAATATT-T
11987430 AAAATTA-AT-AAAAAATATTAAAATATTT
1 AAAATTATATAAAAAAATATTAAAATATTT
11987458 AAAATTATATAAAA
1 AAAATTATATAAAA
11987472 CTAATAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
27 14 0.40
28 10 0.29
29 8 0.23
30 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (30 bp):
AAAATTATATAAAAAAATATTAAAATATTT
Found at i:11987443 original size:10 final size:9
Alignment explanation
Indices: 11987401--11987557 Score: 65
Period size: 10 Copynumber: 16.7 Consensus size: 9
11987391 CATATAAGCC
*
11987401 TAAAAATTT
1 TAAAAATTA
*
11987410 TAAAAA-AA
1 TAAAAATTA
* *
11987418 TATAAATTT
1 TAAAAATTA
11987427 TATAAAATTAA
1 TA-AAAATT-A
*
11987438 TAAAAAATA
1 TAAAAATTA
11987447 TTAAAATATT-
1 -TAAAA-ATTA
11987457 T-AAAATTA
1 TAAAAATTA
*
11987465 TATAAAACTAA
1 TA-AAAA-TTA
*
11987476 TAAAAATCCA
1 TAAAAAT-TA
11987486 TAAAAACTTA
1 TAAAAA-TTA
11987496 TAAATAA-TA
1 TAAA-AATTA
11987505 TAAAAA--A
1 TAAAAATTA
*
11987512 TCAAAAAATA
1 T-AAAAATTA
11987522 TAATAAATTTA
1 TAA-AAA-TTA
*
11987533 TAAAAACTA
1 TAAAAATTA
*
11987542 TTAAAACTTA
1 -TAAAAATTA
11987552 TAAAAA
1 TAAAAA
11987558 AAATCATCTA
Statistics
Matches: 113, Mismatches: 17, Indels: 36
0.68 0.10 0.22
Matches are distributed among these distances:
7 5 0.04
8 16 0.14
9 26 0.23
10 50 0.44
11 16 0.14
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:11987451 original size:19 final size:19
Alignment explanation
Indices: 11987429--11987558 Score: 67
Period size: 19 Copynumber: 6.8 Consensus size: 19
11987419 ATAAATTTTA
11987429 TAAAATTAATAAAAAATAT
1 TAAAATTAATAAAAAATAT
* * *
11987448 TAAAA-TATTTAAAATTAT
1 TAAAATTAATAAAAAATAT
*
11987466 ATAAAACTAAT-AAAAATCCAT
1 -TAAAATTAATAAAAAAT--AT
* *
11987487 AAAAACTT-ATAAATAATA-
1 TAAAA-TTAATAAAAAATAT
11987505 TAAAA--AATCAAAAAATAT
1 TAAAATTAAT-AAAAAATAT
* * *
11987523 AATAAATTTATAAAAACTAT
1 TA-AAATTAATAAAAAATAT
11987543 TAAAACTT-ATAAAAAA
1 TAAAA-TTAATAAAAAA
11987559 AATCATCTAA
Statistics
Matches: 83, Mismatches: 15, Indels: 26
0.67 0.12 0.21
Matches are distributed among these distances:
16 2 0.02
17 7 0.08
18 15 0.18
19 29 0.35
20 20 0.24
21 10 0.12
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAATTAATAAAAAATAT
Found at i:11987490 original size:38 final size:38
Alignment explanation
Indices: 11987402--11987558 Score: 112
Period size: 38 Copynumber: 4.1 Consensus size: 38
11987392 ATATAAGCCT
* ** * *
11987402 AAAAATTTTAAAAAAATATAAATTTTATAAAATTAATA
1 AAAAATATTAAAAACTTATAAATTATATAAAACTAATA
*
11987440 AAAAATATTAAAATATTTA-AAATTATATAAAACTAAT-
1 AAAAATATTAAAA-ACTTATAAATTATATAAAACTAATA
*
11987477 AAAAATCCA-TAAAAACTTATAAATAATATAAAA--AATCA
1 AAAAAT--ATTAAAAACTTATAAATTATATAAAACTAAT-A
* * *
11987515 AAAAATA-TAATAAATTTATAAA-AACTATTAAAACTTATA
1 AAAAATATTAA-AAACTTATAAATTA-TA-TAAAACTAATA
11987554 AAAAA
1 AAAAA
11987559 AATCATCTAA
Statistics
Matches: 99, Mismatches: 9, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
36 9 0.09
37 22 0.22
38 56 0.57
39 10 0.10
40 2 0.02
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (38 bp):
AAAAATATTAAAAACTTATAAATTATATAAAACTAATA
Found at i:11987969 original size:24 final size:24
Alignment explanation
Indices: 11987942--11987992 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
11987932 TTTCTAGCCA
*
11987942 TTTGA-TTTTTTTCTTTTATGTTCT
1 TTTGACTTTCTTTCTTTT-TGTTCT
*
11987966 TTTGACTTTCTTTCTTTTTTTTCT
1 TTTGACTTTCTTTCTTTTTGTTCT
11987990 TTT
1 TTT
11987993 TTTTTTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (24 bp):
TTTGACTTTCTTTCTTTTTGTTCT
Found at i:11988384 original size:16 final size:16
Alignment explanation
Indices: 11988363--11988395 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11988353 CCTTAATCAA
11988363 ATCTAAACATAGATTG
1 ATCTAAACATAGATTG
11988379 ATCTAAACATAGATTG
1 ATCTAAACATAGATTG
11988395 A
1 A
11988396 ACTCTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (16 bp):
ATCTAAACATAGATTG
Found at i:11989058 original size:89 final size:89
Alignment explanation
Indices: 11988902--11989249 Score: 497
Period size: 89 Copynumber: 3.9 Consensus size: 89
11988892 AACAATGAGG
* * *
11988902 GTTTATAATTTGTGGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCACCTTTT
1 GTTTGTAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCGCCTTTT
11988967 CTTTTTTCATAAACATAAATTTTT
66 CTTTTTTCATAAACATAAATTTTT
*
11988991 GTTTGTAATTTGTAGGATGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCGCCTTTT
1 GTTTGTAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCGCCTTTT
11989056 CTTTTTTCATAAACAT---TTTTT
66 CTTTTTTCATAAACATAAATTTTT
* * *
11989077 -TTTGTAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTGGTTTTAGCTTTTGCCTTCT
1 GTTTGTAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCGCCTT-T
*****
11989141 TCTTTTTTCATAAACATAAAAAAAA
65 TCTTTTTTCATAAACATAAATTTTT
* * * * * *
11989166 ATTTGTAATTTGTGGGGTGAGAATATGAGAATCAAGTTTTATTTTGGTTTTAGCTTTTGCCTTTT
1 GTTTGTAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCGCCTTTT
11989231 CTTTTTTCATAAACATAAA
66 CTTTTTTCATAAACATAAA
11989250 AAAAATTTAA
Statistics
Matches: 239, Mismatches: 15, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
85 58 0.24
86 23 0.10
89 98 0.41
90 60 0.25
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (89 bp):
GTTTGTAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCGCCTTTT
CTTTTTTCATAAACATAAATTTTT
Found at i:11989200 original size:175 final size:174
Alignment explanation
Indices: 11988907--11989246 Score: 518
Period size: 175 Copynumber: 1.9 Consensus size: 174
11988897 TGAGGGTTTA
*
11988907 TAATTTGTGGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCACCTTTTCTTTT
1 TAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCACCTTTTCTTTT
****** *
11988972 TTCATAAACATAAATTTTTGTTTGTAATTTGTAGGATGAGAATATGCGAATCAAGTTTTATTTTA
66 TTCATAAACATAAAAAAAAATTTGTAATTTGTAGGATGAGAATATGAGAATCAAGTTTTATTTTA
11989037 GTTTCAGCTTTCGCCTTTTCTTTTTTCATAAACATTTTTTTTTG
131 GTTTCAGCTTTCGCCTTTTCTTTTTTCATAAACATTTTTTTTTG
* * **
11989081 TAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTGGTTTTAGCTTTTGCCTTCTTCTTT
1 TAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCACCTT-TTCTTT
* *
11989146 TTTCATAAACATAAAAAAAAATTTGTAATTTGTGGGGTGAGAATATGAGAATCAAGTTTTATTTT
65 TTTCATAAACATAAAAAAAAATTTGTAATTTGTAGGATGAGAATATGAGAATCAAGTTTTATTTT
* * *
11989211 GGTTTTAGCTTTTGCCTTTTCTTTTTTCATAAACAT
130 AGTTTCAGCTTTCGCCTTTTCTTTTTTCATAAACAT
11989247 AAAAAAAATT
Statistics
Matches: 148, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
174 53 0.36
175 95 0.64
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.48
Consensus pattern (174 bp):
TAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCACCTTTTCTTTT
TTCATAAACATAAAAAAAAATTTGTAATTTGTAGGATGAGAATATGAGAATCAAGTTTTATTTTA
GTTTCAGCTTTCGCCTTTTCTTTTTTCATAAACATTTTTTTTTG
Found at i:11989916 original size:10 final size:9
Alignment explanation
Indices: 11989854--11989912 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 9
11989844 CCAAAAAATG
*
11989854 AATTTTTAT
1 AATTTTAAT
11989863 ATATTTT-AT
1 A-ATTTTAAT
11989872 AATTTTAA-
1 AATTTTAAT
11989880 AATTTTATAT
1 AATTTTA-AT
11989890 AAGTTTT-AT
1 AA-TTTTAAT
11989899 AATTATTAAT
1 AATT-TTAAT
11989909 AATT
1 AATT
11989913 ATTATAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
8 14 0.33
9 12 0.28
10 13 0.30
11 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (9 bp):
AATTTTAAT
Found at i:11989922 original size:10 final size:9
Alignment explanation
Indices: 11989857--11989922 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 9
11989847 AAAAATGAAT
*
11989857 TTTTATATA
1 TTTTATAAA
11989866 TTTTAT-AA
1 TTTTATAAA
11989874 TTTTA-AAA
1 TTTTATAAA
11989882 TTTTATATAA
1 TTTTATA-AA
11989892 GTTTTAT-AA
1 -TTTTATAAA
11989901 TTATTA-ATAA
1 TT-TTATA-AA
11989911 TTATTATAAA
1 TT-TTATAAA
11989921 TT
1 TT
11989923 GTTTAGATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 15
0.75 0.02 0.23
Matches are distributed among these distances:
8 15 0.31
9 12 0.25
10 14 0.29
11 7 0.15
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTTATAAA
Found at i:11989943 original size:9 final size:9
Alignment explanation
Indices: 11989854--11990003 Score: 82
Period size: 9 Copynumber: 16.7 Consensus size: 9
11989844 CCAAAAAATG
11989854 AATTTTTAT
1 AATTTTTAT
11989863 -ATATTTTAT
1 AAT-TTTTAT
*
11989872 AA-TTTTAA
1 AATTTTTAT
11989880 AATTTTATAT
1 AATTTT-TAT
*
11989890 AAGTTTTAT
1 AATTTTTAT
*
11989899 AATTATTAAT
1 AATT-TTTAT
*
11989909 AATTATTAT
1 AATTTTTAT
*
11989918 AAATTGTTTAG
1 -AATT-TTTAT
*
11989929 ATTTTTTAT
1 AATTTTTAT
11989938 AATTTTTAT
1 AATTTTTAT
*
11989947 --GTTTT-T
1 AATTTTTAT
*
11989953 --TTTTCAT
1 AATTTTTAT
11989960 AATTTTTAT
1 AATTTTTAT
*
11989969 AAGTTTATAT
1 AA-TTTTTAT
*
11989979 AAACTTTTA-
1 -AATTTTTAT
11989988 ATATTTTTAT
1 A-ATTTTTAT
11989998 AATTTT
1 AATTTT
11990004 GAATTTTTTA
Statistics
Matches: 107, Mismatches: 20, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
6 4 0.04
7 5 0.05
8 10 0.09
9 49 0.46
10 34 0.32
11 5 0.05
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:11989944 original size:10 final size:10
Alignment explanation
Indices: 11989856--11990003 Score: 53
Period size: 10 Copynumber: 15.3 Consensus size: 10
11989846 AAAAAATGAA
11989856 TTTTTAT-AT
1 TTTTTATAAT
*
11989865 ATTTTATAA-
1 TTTTTATAAT
*
11989874 -TTTTAAAAT
1 TTTTTATAAT
*
11989883 TTTATATAA-
1 TTTTTATAAT
*
11989892 GTTTTATAAT
1 TTTTTATAAT
* *
11989902 TATTAATAA-
1 TTTTTATAAT
*
11989911 TTATTATAAAT
1 TTTTTAT-AAT
* *
11989922 TGTTTA-GAT
1 TTTTTATAAT
11989931 TTTTTATAAT
1 TTTTTATAAT
* **
11989941 TTTTATGTTTT
1 TTTT-TATAAT
11989952 TTTTTCATAA-
1 TTTTT-ATAAT
*
11989962 TTTTTATAAG
1 TTTTTATAAT
*
11989972 TTTATATAA-
1 TTTTTATAAT
**
11989981 ACTTT-TAAT
1 TTTTTATAAT
11989990 ATTTTTATAAT
1 -TTTTTATAAT
11990001 TTT
1 TTT
11990004 GAATTTTTTA
Statistics
Matches: 97, Mismatches: 29, Indels: 25
0.64 0.19 0.17
Matches are distributed among these distances:
8 10 0.10
9 30 0.31
10 41 0.42
11 16 0.16
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:12000579 original size:17 final size:17
Alignment explanation
Indices: 12000544--12000586 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
12000534 AAATAACCTC
12000544 ATATAAA-ATGTAAAGT
1 ATATAAATATGTAAAGT
12000560 ATATAAATATGTACAA-T
1 ATATAAATATGTA-AAGT
*
12000577 ATATATATAT
1 ATATAAATAT
12000587 ATATATCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 15 0.62
18 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (17 bp):
ATATAAATATGTAAAGT
Found at i:12009692 original size:21 final size:21
Alignment explanation
Indices: 12009666--12009706 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12009656 GAATAGGGCA
* *
12009666 GATGATGATATGGCTGATGAG
1 GATGATGACATGGCGGATGAG
12009687 GATGATGACATGGCGGATGA
1 GATGATGACATGGCGGATGA
12009707 TGGGGAGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.07, G:0.39, T:0.24
Consensus pattern (21 bp):
GATGATGACATGGCGGATGAG
Found at i:12009716 original size:12 final size:12
Alignment explanation
Indices: 12009701--12009748 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
12009691 ATGACATGGC
*
12009701 GGATGATGGGGA
1 GGATGATGAGGA
12009713 GGATGATGAGGA
1 GGATGATGAGGA
* *
12009725 TGATGATGAGGG
1 GGATGATGAGGA
*
12009737 GGAGGATGAGGA
1 GGATGATGAGGA
12009749 TGAGGATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.54, T:0.17
Consensus pattern (12 bp):
GGATGATGAGGA
Found at i:12009729 original size:24 final size:24
Alignment explanation
Indices: 12009702--12009751 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
12009692 TGACATGGCG
*
12009702 GATGATG-GGGAGGATGATGAGGAT
1 GATGATGAGGG-GGAGGATGAGGAT
12009726 GATGATGAGGGGGAGGATGAGGAT
1 GATGATGAGGGGGAGGATGAGGAT
12009750 GA
1 GA
12009752 GGATATAGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.52, T:0.18
Consensus pattern (24 bp):
GATGATGAGGGGGAGGATGAGGAT
Found at i:12009747 original size:6 final size:6
Alignment explanation
Indices: 12009717--12009755 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
12009707 TGGGGAGGAT
* **
12009717 GATGAG GATGAT GATGAG GGGGAG GATGAG GATGAG GAT
1 GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG GAT
12009756 ATAGCTGAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.51, T:0.18
Consensus pattern (6 bp):
GATGAG
Found at i:12021056 original size:41 final size:41
Alignment explanation
Indices: 12020993--12021109 Score: 162
Period size: 41 Copynumber: 2.9 Consensus size: 41
12020983 GATGAATTTT
* * *
12020993 TCAGACTATAAATCTAGCAGGCTAAGTGCCGGTGATCGGAA
1 TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATAGGAA
* * *
12021034 TCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGATATGAA
1 TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATAGGAA
* *
12021075 TCAGGCTATAAGCTTAGCAGGCTAAGTGCCGGTGA
1 TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGA
12021110 ATATGTTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATAGGAA
Done.