Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 55 of 160
Found at i:11671624 original size:14 final size:14
Alignment explanation
Indices: 11671589--11671615 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11671579 GATTTTCCAA
11671589 AAAATGAAATGAAC
1 AAAATGAAATGAAC
11671603 AAAATGAAATGAA
1 AAAATGAAATGAA
11671616 AATGATGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.15, T:0.15
Consensus pattern (14 bp):
AAAATGAAATGAAC
Found at i:11671651 original size:32 final size:32
Alignment explanation
Indices: 11671603--11671690 Score: 101
Period size: 32 Copynumber: 2.8 Consensus size: 32
11671593 TGAAATGAAC
11671603 AAAATGAAATGA-AAATGATGAATGAATGAATG
1 AAAATG-AATGATAAATGATGAATGAATGAATG
* * *
11671635 AAAAATG-ATGATAAATGTTGACTTAATGAATG
1 -AAAATGAATGATAAATGATGAATGAATGAATG
*
11671667 AAAATGAATGATGAATGAT-AATGA
1 AAAATGAATGATAAATGATGAATGA
11671691 GGAAAAGGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
31 13 0.28
32 27 0.59
33 6 0.13
ACGTcount: A:0.52, C:0.01, G:0.20, T:0.26
Consensus pattern (32 bp):
AAAATGAATGATAAATGATGAATGAATGAATG
Found at i:11672309 original size:148 final size:145
Alignment explanation
Indices: 11672117--11672552 Score: 504
Period size: 148 Copynumber: 3.0 Consensus size: 145
11672107 TTTTTGAAAT
* *
11672117 TAAGATTTTTAAAATTTCAAAGCCTTTGTTTAGAGGAGCCTTCTAAAGTTAAAACTTTTT-AAGT
1 TAAGATTTTTAAAATTTCAAAGCCTTTATTTAGAGGAGCTTTCTAAAGTTAAAA-TTTTTAAAGT
*
11672181 TTCAAAACCTTCATTTAGAAAAGCTTTCCAAAAATGAGATTTGTAAAGTTTCAAAGCCTCTGTTT
65 TTCAAAACCTT-ATTTAGAAGAGCTTTCCAAAAATGAGATTT-TAAAGTTTCAAAGCCTCTGTTT
11672246 AGAAGAGCTTTCCAAAGA
128 AGAAGAGCTTTCCAAAGA
* * * *
11672264 TGAGATATTTTAAAGTTTCAAAGTCTTTATTTAGAAGAGCTTTCTAAAGTTAAAATTTTTAAAGT
1 TAAGAT-TTTTAAAATTTCAAAGCCTTTATTTAGAGGAGCTTTCTAAAGTTAAAATTTTTAAAGT
* * * * *
11672329 TTCAAAACCTATATTTAGAGGAGTTTTCCATAAATGAGACTTTTAAA-CTTCAAAAGCCTCTATT
65 TTCAAAACCT-TATTTAGAAGAGCTTTCCAAAAATGAGA-TTTTAAAGTTTC-AAAGCCTCTGTT
* ** *
11672393 TAGAAAAGCTTTCTGAAGT
127 TAGAAGAGCTTTCCAAAGA
* * *
11672412 TAAGATTTTTAAAATTTCAAA-CCTTTATTTAGAGGAGCTTTCCAAAGATGAGATATTTTTAAAG
1 TAAGATTTTTAAAATTTCAAAGCCTTTATTTAGAGGAGCTTTCTAAAG-TTA-AAATTTTTAAAG
* * * * *
11672476 TTTCAAAGCCTTTATTTA-AAGGAGCTTTCTAAAGATGAGATTTTTAAAGTTTTAAAGTCTCTGT
64 TTTCAAAACC-TTATTTAGAA-GAGCTTTCCAAAAATGAGA-TTTTAAAGTTTCAAAGCCTCTGT
11672540 TTAG-AGAAGCTTT
126 TTAGAAG-AGCTTT
11672553 TCGAATATGA
Statistics
Matches: 243, Mismatches: 35, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
146 23 0.09
147 31 0.13
148 182 0.75
149 7 0.03
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (145 bp):
TAAGATTTTTAAAATTTCAAAGCCTTTATTTAGAGGAGCTTTCTAAAGTTAAAATTTTTAAAGTT
TCAAAACCTTATTTAGAAGAGCTTTCCAAAAATGAGATTTTAAAGTTTCAAAGCCTCTGTTTAGA
AGAGCTTTCCAAAGA
Found at i:11672551 original size:49 final size:49
Alignment explanation
Indices: 11672119--11672635 Score: 382
Period size: 49 Copynumber: 10.4 Consensus size: 49
11672109 TTTGAAATTA
* * * * * * * *
11672119 AGATTTTTAAAATTTCAAAGCCTTTGTTTAGAGGAGCCTTCTAAAGTTA
1 AGATTTTTAAAGTTTCAAAGCCTCTATTTAGAGAAGCTTTCCAAAGATG
* * * *
11672168 AAACTTTTT-AAGTTTCAAAACCT-TCATTTAGAAAAGCTTTCCAAAAATG
1 AGA-TTTTTAAAGTTTCAAAGCCTCT-ATTTAGAGAAGCTTTCCAAAGATG
* *
11672217 AGATTTGTAAAGTTTCAAAGCCTCTGTTTAGA-AGAGCTTTCCAAAGATG
1 AGATTTTTAAAGTTTCAAAGCCTCTATTTAGAGA-AGCTTTCCAAAGATG
* * * * *
11672266 AGATATTTTAAAGTTTCAAAGTCTTTATTTAGA-AGAGCTTTCTAAAGTTA
1 AGAT-TTTTAAAGTTTCAAAGCCTCTATTTAGAGA-AGCTTTCCAAAGATG
* * * * *
11672316 AAATTTTTAAAGTTTCAAAACCTATATTTAGAGGAGTTTTCCATAA-ATG
1 AGATTTTTAAAGTTTCAAAGCCTCTATTTAGAGAAGCTTTCCA-AAGATG
* * * ** * *
11672365 AGACTTTTAAA-CTTCAAAAGCCTCTATTTAGAAAAGCTTTCTGAAGTTA
1 AGATTTTTAAAGTTTC-AAAGCCTCTATTTAGAGAAGCTTTCCAAAGATG
* * *
11672414 AGATTTTTAAAATTTCAAA-CCTTTATTTAGAGGAGCTTTCCAAAGATG
1 AGATTTTTAAAGTTTCAAAGCCTCTATTTAGAGAAGCTTTCCAAAGATG
* * * *
11672462 AGATATTTTTAAAGTTTCAAAGCCTTTATTTAAAGGAGCTTTCTAAAGATG
1 AG--ATTTTTAAAGTTTCAAAGCCTCTATTTAGAGAAGCTTTCCAAAGATG
* * * * * *
11672513 AGATTTTTAAAGTTTTAAAGTCTCTGTTTAGAGAAGCTTTTCGAATATG
1 AGATTTTTAAAGTTTCAAAGCCTCTATTTAGAGAAGCTTTCCAAAGATG
**** ** *
11672562 AGACATAAAAAAATTTGTTTCAAAGAATCTGTTTAGAGAAGCTTTCCAAAGATG
1 AG--ATTTTTAAA---GTTTCAAAGCCTCTATTTAGAGAAGCTTTCCAAAGATG
* *
11672616 AGATTTTTAAAATTTTAAAG
1 AGATTTTTAAAGTTTCAAAG
11672636 ATTTTGCTTT
Statistics
Matches: 367, Mismatches: 82, Indels: 38
0.75 0.17 0.08
Matches are distributed among these distances:
48 35 0.10
49 191 0.52
50 68 0.19
51 34 0.09
52 5 0.01
54 34 0.09
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (49 bp):
AGATTTTTAAAGTTTCAAAGCCTCTATTTAGAGAAGCTTTCCAAAGATG
Found at i:11679589 original size:144 final size:144
Alignment explanation
Indices: 11679304--11679581 Score: 306
Period size: 144 Copynumber: 1.9 Consensus size: 144
11679294 TCGAGATCGA
* * * ** * *
11679304 TTTTTCATGAAAAGTTTTAAATCATGTTTTAATATTATTTTAAAAATTTTAATGCATTAAAAACC
1 TTTTTCAAGAAAAGCTTCAAATCATAATTTAATATTATTTCAAAAATTTTAATGCACTAAAAACC
* ** * * * * * * *
11679369 TTGATTGCACCTTGGAAGATGTGAAATTACCAAAATATCTTTTAGGGGTTTTTTCATAATTTGAC
66 TTGATTGCACCTTGAAAGACATGAAATTACCAAAATACCCTTTAAGAGTATTTTCATAACTTAAC
11679434 CTTCCCAAGGTTAG
131 CTTCCCAAGGTTAG
* * * *
11679448 TTTTTCAAGAAACGCTTCAAATCATAATTTAATATTATTTCAAGAATTTTGATAG-ACTAAGAAC
1 TTTTTCAAGAAAAGCTTCAAATCATAATTTAATATTATTTCAAAAATTTTAAT-GCACTAAAAAC
* * * * *
11679512 CTTGTTTGCACCTTTAAAGGCATGAAATTATCAAAATACCCTTTAAGAGTATTTTCGTAACTTAA
65 CTTGATTGCACCTTGAAAGACATGAAATTACCAAAATACCCTTTAAGAGTATTTTCATAACTTAA
11679577 CCTTC
130 CCTTC
11679582 TGAAGGTTGG
Statistics
Matches: 107, Mismatches: 26, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
144 106 0.99
145 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (144 bp):
TTTTTCAAGAAAAGCTTCAAATCATAATTTAATATTATTTCAAAAATTTTAATGCACTAAAAACC
TTGATTGCACCTTGAAAGACATGAAATTACCAAAATACCCTTTAAGAGTATTTTCATAACTTAAC
CTTCCCAAGGTTAG
Found at i:11681130 original size:19 final size:18
Alignment explanation
Indices: 11681106--11681175 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 18
11681096 ATACAAATCC
11681106 CAAACCCCAAACCCCAATG
1 CAAACCCCAAACCCC-ATG
*
11681125 CAAACCCTAAATCCCCATG
1 CAAACCCCAAA-CCCCATG
* * *
11681144 TAAACCCTAAACTCTCATG
1 CAAACCCCAAAC-CCCATG
11681163 CAAACCCCAAACC
1 CAAACCCCAAACC
11681176 AAAACCCCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
18 2 0.05
19 38 0.86
20 4 0.09
ACGTcount: A:0.40, C:0.43, G:0.04, T:0.13
Consensus pattern (18 bp):
CAAACCCCAAACCCCATG
Found at i:11681326 original size:21 final size:20
Alignment explanation
Indices: 11681274--11681358 Score: 68
Period size: 20 Copynumber: 4.3 Consensus size: 20
11681264 TCAACCTATT
*
11681274 CCAAAGCCC-AAACCAAAATC
1 CCAAA-CCCTAAACCAAAACC
*
11681294 CCAAACCCTAAACCAAGACC
1 CCAAACCCTAAACCAAAACC
* * *
11681314 CCAGAACCTTAAACC--TATC
1 CCA-AACCCTAAACCAAAACC
* *
11681333 CTAAACCCCAAACCAAAACC
1 CCAAACCCTAAACCAAAACC
11681353 CCAAAC
1 CCAAAC
11681359 TTTCCAACTT
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
18 9 0.18
19 7 0.14
20 24 0.48
21 10 0.20
ACGTcount: A:0.46, C:0.42, G:0.04, T:0.08
Consensus pattern (20 bp):
CCAAACCCTAAACCAAAACC
Found at i:11681359 original size:171 final size:168
Alignment explanation
Indices: 11681164--11681526 Score: 507
Period size: 171 Copynumber: 2.1 Consensus size: 168
11681154 ACTCTCATGC
* *
11681164 AAACCCCAAACCAAAACCCCAAACTTTCCAACCTTAGCTAATCGAAACCCCAAA-CCTATAAACC
1 AAACCCCAAACCAAAACCCCAAACTTTCCAACCTTAGCTAACCCAAACCCCAAACCCT-TAAACC
* * * *
11681228 TATCCTAAACCTAAACCTAAACCCTAGCCTAGACCCTCAACCTATTCCAAAGCC-CAAACCAAAA
65 TATCATAAACCCAAACCTAAACCCTAACCTAGACCCTAAACCTA-TCCAAA-CCTCAAACCAAAA
11681292 TCCCAAACCCTAAACCAAGACCCCAGAACCTTAAACCTATCCT-
128 TCCCAAACCCTAAACCAAGACCCCA-AACC-TAAACCTAT-CTA
* * *
11681335 AAACCCCAAACCAAAACCCCAAACTTTCCAACTTTAGCTAACCCAAACCCTAAACCCTTAAACGT
1 AAACCCCAAACCAAAACCCCAAACTTTCCAACCTTAGCTAACCCAAACCCCAAACCCTTAAACCT
* * **
11681400 ATCATAAACCCCAACTTAAACCCTAACCTAGACCCTAAACCTATCCAAACCTCAAACCAAAATTT
66 ATCATAAACCCAAACCTAAACCCTAACCTAGACCCTAAACCTATCCAAACCTCAAACCAAAATCC
* * *
11681465 GAAATCCTAAACCAAGACCCTAAACCTAAACCTATCTA
131 CAAACCCTAAACCAAGACCCCAAACCTAAACCTATCTA
11681503 AAACCCCAAACCAAAACCCCAAAC
1 AAACCCCAAACCAAAACCCCAAAC
11681527 AATTATACTG
Statistics
Matches: 173, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
167 2 0.01
168 33 0.19
169 6 0.03
170 36 0.21
171 93 0.54
172 3 0.02
ACGTcount: A:0.43, C:0.38, G:0.03, T:0.16
Consensus pattern (168 bp):
AAACCCCAAACCAAAACCCCAAACTTTCCAACCTTAGCTAACCCAAACCCCAAACCCTTAAACCT
ATCATAAACCCAAACCTAAACCCTAACCTAGACCCTAAACCTATCCAAACCTCAAACCAAAATCC
CAAACCCTAAACCAAGACCCCAAACCTAAACCTATCTA
Found at i:11681520 original size:13 final size:13
Alignment explanation
Indices: 11681502--11681526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11681492 AAACCTATCT
11681502 AAAACCCCAAACC
1 AAAACCCCAAACC
11681515 AAAACCCCAAAC
1 AAAACCCCAAAC
11681527 AATTATACTG
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:0.56, C:0.44, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACCCCAAACC
Found at i:11681555 original size:12 final size:12
Alignment explanation
Indices: 11681538--11681634 Score: 61
Period size: 12 Copynumber: 7.5 Consensus size: 12
11681528 ATTATACTGA
*
11681538 AACCTAAACCTT
1 AACCTAAACCCT
*
11681550 AACCTAGACCCT
1 AACCTAAACCCT
11681562 AACCTCTTAAACCCT
1 AA-C-C-TAAACCCT
*
11681577 AACC-AAAGCACT
1 AACCTAAA-CCCT
*
11681589 AAACCAAAACCCCT
1 -AACCTAAA-CCCT
*
11681603 AACCCTTAAACCCA
1 AA-CC-TAAACCCT
*
11681617 AACATAAACCCT
1 AACCTAAACCCT
11681629 AACCTA
1 AACCTA
11681635 GTCCCAAAAC
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
11 3 0.05
12 27 0.41
13 9 0.14
14 15 0.23
15 12 0.18
ACGTcount: A:0.43, C:0.38, G:0.02, T:0.16
Consensus pattern (12 bp):
AACCTAAACCCT
Found at i:11681784 original size:19 final size:18
Alignment explanation
Indices: 11681760--11681816 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
11681750 CTCAAACCTA
11681760 AACCCTAACTAAACCCTT
1 AACCCTAACTAAACCCTT
*
11681778 GAACCCTAACCTAGACCC-T
1 -AACCCTAA-CTAAACCCTT
*
11681797 AAACCTAACTTAAACCCTT
1 AACCCTAAC-TAAACCCTT
11681816 A
1 A
11681817 GACCTTAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.03
18 13 0.41
19 11 0.34
20 7 0.22
ACGTcount: A:0.39, C:0.37, G:0.04, T:0.21
Consensus pattern (18 bp):
AACCCTAACTAAACCCTT
Found at i:11681852 original size:22 final size:23
Alignment explanation
Indices: 11681785--11681858 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 23
11681775 CTTGAACCCT
* *
11681785 AACC-TAGACCCTAAACCTAACTTA
1 AACCTTAGACCCTAAA-CAAAC-CA
* *
11681809 AACCCTTAGACCTTAAACAAACCT
1 AA-CCTTAGACCCTAAACAAACCA
*
11681833 AACCTTA-ACCCTAACCAAACCA
1 AACCTTAGACCCTAAACAAACCA
11681855 AACC
1 AACC
11681859 CAAGCTAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
22 16 0.39
23 5 0.12
24 4 0.10
25 6 0.15
26 10 0.24
ACGTcount: A:0.43, C:0.36, G:0.03, T:0.18
Consensus pattern (23 bp):
AACCTTAGACCCTAAACAAACCA
Found at i:11681884 original size:21 final size:21
Alignment explanation
Indices: 11681822--11681884 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
11681812 CCTTAGACCT
* *
11681822 TAAACAAACCTAACCTTAACCC
1 TAAACAAACCAAACCTTAA-GC
* *
11681844 TAACCAAACCAAACC-CAAGC
1 TAAACAAACCAAACCTTAAGC
11681864 TAAATCAAACC-AACCTTAAGC
1 TAAA-CAAACCAAACCTTAAGC
11681885 CACCCTAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
20 8 0.24
21 12 0.36
22 13 0.39
ACGTcount: A:0.48, C:0.35, G:0.03, T:0.14
Consensus pattern (21 bp):
TAAACAAACCAAACCTTAAGC
Found at i:11685397 original size:24 final size:23
Alignment explanation
Indices: 11685355--11685409 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
11685345 AAAAGGAAAA
* *
11685355 AGAAAAAAAATTAAGAAAAGGAG
1 AGAAAAAAAAATAAGAAAAAGAG
*
11685378 AGAAACAAAAAATAATAAAAAGAG
1 AGAAA-AAAAAATAAGAAAAAGAG
*
11685402 GGAAAAAA
1 AGAAAAAA
11685410 TGGAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (23 bp):
AGAAAAAAAAATAAGAAAAAGAG
Found at i:11685441 original size:27 final size:26
Alignment explanation
Indices: 11685343--11685441 Score: 73
Period size: 28 Copynumber: 3.8 Consensus size: 26
11685333 TTATTAGTTG
11685343 AAAAAAGGAAAAAGAAA--AAAAAT-T
1 AAAAAAGG-AAAAGAAAGGAAAAATAT
* **
11685367 AAGAAAAGG-AGAGAAACAAAAAATAAT
1 AA-AAAAGGAAAAGAAAGGAAAAAT-AT
*
11685394 AAAAAGAGGGAAAA-AATGGAAAAATAT
1 AAAAA-A-GGAAAAGAAAGGAAAAATAT
11685421 GAAAAAAGGAAAAGAAAGGAA
1 -AAAAAAGGAAAAGAAAGGAA
11685442 GAATGAAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
23 6 0.10
24 2 0.03
25 12 0.20
26 9 0.15
27 13 0.22
28 15 0.25
29 2 0.03
ACGTcount: A:0.72, C:0.01, G:0.20, T:0.07
Consensus pattern (26 bp):
AAAAAAGGAAAAGAAAGGAAAAATAT
Found at i:11692334 original size:87 final size:87
Alignment explanation
Indices: 11692211--11692523 Score: 290
Period size: 93 Copynumber: 3.5 Consensus size: 87
11692201 TTTTTGAATT
* *
11692211 AGTAT-AAATTTTGAACAATAAAATTTTTCATAATATATTTTTAATAAGGACTACA-TTTTTATC
1 AGTATAAAATTTTGAAAAATAAATTTTTTCATAATATATTTTTAATAAGGACTACATTTTTTATC
*
11692274 TTACAAATACGATATTTGTTGAA
66 TTAAAAATAC-ATATTTGTTGAA
* * * * *
11692297 AGTATAAAATTATGAAAAATAAATTTTTTCATGATATATTTTGAACAAGGGCTACATTTTTTTAT
1 AGTATAAAATTTTGAAAAATAAATTTTTTCATAATATATTTTTAATAAGGACTACA-TTTTTTAT
* * *
11692362 CTTAAAAAAAAAAACAGTTTTTGTTAAA
65 CTT----AAAAATACA-TATTTGTTGAA
* * * * *
11692390 AGTATATAATTTTAAAAAATAAATCTTTTTCATAATATGTTTTTAGTAAGGATTACATTTTTTAT
1 AGTATAAAATTTTGAAAAATAAAT-TTTTTCATAATATATTTTTAATAAGGACTACATTTTTTAT
* * *
11692455 CTTAAAAATGAAATGTTTATTGAA
65 CTTAAAAAT-ACATATTTGTTGAA
* ** * * *
11692479 ATTATAAAATTTCT-AAAAATATTTTTTTTCACAAGATACTTTTAA
1 AGTATAAAATTT-TGAAAAATAAATTTTTTCATAATATATTTTTAA
11692524 AAAAATCACA
Statistics
Matches: 181, Mismatches: 35, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
86 5 0.03
87 43 0.24
88 16 0.09
89 41 0.23
90 3 0.02
92 1 0.01
93 47 0.26
94 25 0.14
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (87 bp):
AGTATAAAATTTTGAAAAATAAATTTTTTCATAATATATTTTTAATAAGGACTACATTTTTTATC
TTAAAAATACATATTTGTTGAA
Found at i:11692584 original size:16 final size:16
Alignment explanation
Indices: 11692563--11692599 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11692553 GCTTTTGTTG
*
11692563 AAAATATAGAATTTTT
1 AAAATAAAGAATTTTT
*
11692579 AAAATAAATAATTTTT
1 AAAATAAAGAATTTTT
11692595 AAAAT
1 AAAAT
11692600 TCTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
AAAATAAAGAATTTTT
Found at i:11692680 original size:15 final size:16
Alignment explanation
Indices: 11692649--11692685 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
11692639 ACATAGTATT
*
11692649 TTTTAAAACTATAAAA
1 TTTTAAAAATATAAAA
11692665 TTTTAAAAAT-TAAAA
1 TTTTAAAAATATAAAA
11692680 TTTTAA
1 TTTTAA
11692686 CTAATTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTTAAAAATATAAAA
Found at i:11696136 original size:42 final size:44
Alignment explanation
Indices: 11696064--11696153 Score: 121
Period size: 42 Copynumber: 2.1 Consensus size: 44
11696054 CTTTTCGCTT
* *
11696064 TTTTTTTTTCGATAAACTCTCTCTTCTTTCAAGACTTATCCTCA
1 TTTTTTTTTCGATAAACTCCCTATTCTTTCAAGACTTATCCTCA
* * *
11696108 TTTTTTTTT-GGTAAACTCCCTATT-TTTCAAGCCTTGTCCTCA
1 TTTTTTTTTCGATAAACTCCCTATTCTTTCAAGACTTATCCTCA
11696150 TTTT
1 TTTT
11696154 CTATTTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
42 20 0.49
43 12 0.29
44 9 0.22
ACGTcount: A:0.18, C:0.23, G:0.07, T:0.52
Consensus pattern (44 bp):
TTTTTTTTTCGATAAACTCCCTATTCTTTCAAGACTTATCCTCA
Found at i:11697608 original size:49 final size:48
Alignment explanation
Indices: 11697550--11697695 Score: 157
Period size: 49 Copynumber: 3.0 Consensus size: 48
11697540 AATTTTATCT
*
11697550 AAAAATGGCTCCTCCTAAATAGAGGCTTTAAAACTTTAAAATCTTGTGC
1 AAAAATGGCT-CTCCTAAACAGAGGCTTTAAAACTTTAAAATCTTGTGC
* * * **
11697599 AAAAATGGCTTTTCCTAGACAAAGGCTTTAAAACTTTAAAAATCTTGTTT
1 AAAAATGGC-TCTCCTAAACAGAGGCTTTAAAACTTT-AAAATCTTGTGC
* * * * *
11697649 GAAAATAGCTCTATCTAAACAGACGCTTTGAAACTTTAAAATCTTGT
1 AAAAATGGCTCT-CCTAAACAGAGGCTTTAAAACTTTAAAATCTTGT
11697696 TTTTCTTTTC
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
49 43 0.54
50 37 0.46
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (48 bp):
AAAAATGGCTCTCCTAAACAGAGGCTTTAAAACTTTAAAATCTTGTGC
Found at i:11697677 original size:50 final size:49
Alignment explanation
Indices: 11697562--11697697 Score: 157
Period size: 50 Copynumber: 2.8 Consensus size: 49
11697552 AAATGGCTCC
* ** * *
11697562 TCCTAAATAGAGGCTTTAAAACTTTAAAATCTTGTGCAAAAATGGCTTT
1 TCCTAAACAGAGGCTTTAAAACTTTAAAATCTTGTTTAAAAATAGCTTA
* * *
11697611 TCCTAGACAAAGGCTTTAAAACTTTAAAAATCTTGTTTGAAAATAGCTCTA
1 TCCTAAACAGAGGCTTTAAAACTTT-AAAATCTTGTTTAAAAATAGCT-TA
* *
11697662 T-CTAAACAGACGCTTTGAAACTTTAAAATCTTGTTT
1 TCCTAAACAGAGGCTTTAAAACTTTAAAATCTTGTTT
11697698 TTCTTTTCTC
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
49 34 0.47
50 37 0.51
51 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (49 bp):
TCCTAAACAGAGGCTTTAAAACTTTAAAATCTTGTTTAAAAATAGCTTA
Found at i:11697786 original size:5 final size:5
Alignment explanation
Indices: 11697776--11697817 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
11697766 TTCTTTATTT
* *
11697776 TTTTG TTTTG TTTTAT TTTTG TTATG TTTTG TTTTG TTTTG T
1 TTTTG TTTTG TTTT-G TTTTG TTTTG TTTTG TTTTG TTTTG T
11697818 GTATTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.05, C:0.00, G:0.17, T:0.79
Consensus pattern (5 bp):
TTTTG
Found at i:11698178 original size:106 final size:106
Alignment explanation
Indices: 11697997--11698228 Score: 277
Period size: 106 Copynumber: 2.2 Consensus size: 106
11697987 ATATCCGAAG
* * * * *
11697997 GTTTCACAAATCTCAAAATTAAAATAGATTTAGCTTGAAAGACTTATGAATCTTGCCCGACAGAC
1 GTTTTACAAATCTCAAAATTAAAACAGATTCAGCTTGAAAGACTTATGAATCCTGCCCGACAAAC
* * * * *
11698062 TTACAGATTATGCTTAAAGGTCTTAGAGATTGTGCCTAGAA
66 TTACAGATTATCCCTAAAGATCTTAAAGATTATGCCTAGAA
* *
11698103 GTTTTACAAATCTTAAAATTAAAACAGATTCAGCTTGAAAGACTTATGAATCCTG-CCTACAAAA
1 GTTTTACAAATCTCAAAATTAAAACAGATTCAGCTTGAAAGACTTATGAATCCTGCCCGAC-AAA
* * * * *
11698167 CTTATATATTATCCCTGAAGATCTTAAAGATTATGCCTGGAG
65 CTTACAGATTATCCCTAAAGATCTTAAAGATTATGCCTAGAA
* *
11698209 GTCTTAAAAATCTCAAAATT
1 GTTTTACAAATCTCAAAATT
11698229 TTTGAATGGT
Statistics
Matches: 105, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
105 4 0.04
106 101 0.96
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (106 bp):
GTTTTACAAATCTCAAAATTAAAACAGATTCAGCTTGAAAGACTTATGAATCCTGCCCGACAAAC
TTACAGATTATCCCTAAAGATCTTAAAGATTATGCCTAGAA
Found at i:11698199 original size:22 final size:22
Alignment explanation
Indices: 11698174--11698216 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11698164 AAACTTATAT
11698174 ATTATCCCTGAAGATCTTAAAG
1 ATTATCCCTGAAGATCTTAAAG
* * *
11698196 ATTATGCCTGGAGGTCTTAAA
1 ATTATCCCTGAAGATCTTAAA
11698217 AATCTCAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (22 bp):
ATTATCCCTGAAGATCTTAAAG
Found at i:11698343 original size:209 final size:208
Alignment explanation
Indices: 11698079--11698526 Score: 550
Period size: 209 Copynumber: 2.1 Consensus size: 208
11698069 TTATGCTTAA
* * *
11698079 AGGTCTTAGAGATTGTGC-CTAGAAGTTTTACAAATCTTAAAATTAAAACAGATTCAGCTT-GAA
1 AGGTCTTAAAGATTGTGCTC-AG-AGTCTTACAAATCTCAAAATTAAAACAGATTCAGCTTAG-A
* * *
11698142 AGACTTAT-GAATCCTGC-CTACAAAACTTATATATTAT-CCCTGAAGATCTTAAAGATTATGC-
63 AGACTTATAG-ATCCTACTCGA-AAAACTTATAGATTATACCC-GAAGATCTTAAAGATTATGCT
* * * *
11698203 CTGGAGGTCTTAAAAATCTCAAAATTTTTGAATGGTTATTATAATAGAGACTTTGAAACTTTGAA
125 C-GGAGGTCTTAAAAATCTCAAAATCTTTGAATGCTTATCATAATAGAGACGTTGAAACTTTGAA
* *
11698268 ATTTTAAAATGTTTTGCCTA-G
189 AATTT-AAATATTTTGCC-AGG
* * *
11698289 AGGTCTTAAAGATCGTGCTCAGAGTCTTACAAATCTCAAAATTATAATAGATTCAGCTTAGAAGA
1 AGGTCTTAAAGATTGTGCTCAGAGTCTTACAAATCTCAAAATTAAAACAGATTCAGCTTAGAAGA
* * *
11698354 CTTATAGATTCTACTCGAAAAACTTATAGATTATACCCGAAGATCTTAGAGATTATGTTCGGAGG
66 CTTATAGATCCTACTCGAAAAACTTATAGATTATACCCGAAGATCTTAAAGATTATGCTCGGAGG
* * *
11698419 TCTTAAAAATCTCAAAATCTTTGAATGCTTCTCATATTAGAGGCGTTGAAACTTTGAAAATTTAA
131 TCTTAAAAATCTCAAAATCTTTGAATGCTTATCATAATAGAGACGTTGAAACTTTGAAAATTTAA
11698484 ATATTTTGCCAGG
196 ATATTTTGCCAGG
* *
11698497 AGGTATTAAAGATTGTGCTCAAAGGTCTTA
1 AGGTCTTAAAGATTGTGCTCAGA-GTCTTA
11698527 AACATTATGC
Statistics
Matches: 206, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
207 1 0.00
208 32 0.16
209 146 0.71
210 26 0.13
211 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (208 bp):
AGGTCTTAAAGATTGTGCTCAGAGTCTTACAAATCTCAAAATTAAAACAGATTCAGCTTAGAAGA
CTTATAGATCCTACTCGAAAAACTTATAGATTATACCCGAAGATCTTAAAGATTATGCTCGGAGG
TCTTAAAAATCTCAAAATCTTTGAATGCTTATCATAATAGAGACGTTGAAACTTTGAAAATTTAA
ATATTTTGCCAGG
Found at i:11698378 original size:22 final size:22
Alignment explanation
Indices: 11698353--11698409 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
11698343 AGCTTAGAAG
* *
11698353 ACTTATAGATTCTACTCGAAAA
1 ACTTATAGATTATACCCGAAAA
*
11698375 ACTTATAGATTATACCCGAAGA
1 ACTTATAGATTATACCCGAAAA
* *
11698397 TCTTAGAGATTAT
1 ACTTATAGATTAT
11698410 GTTCGGAGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (22 bp):
ACTTATAGATTATACCCGAAAA
Found at i:11698522 original size:22 final size:22
Alignment explanation
Indices: 11698497--11698544 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
11698487 TTTTGCCAGG
* *
11698497 AGGTATTAAAGATTGTGCTCAA
1 AGGTATTAAACATTATGCTCAA
*
11698519 AGGTCTTAAACATTATGCTCAA
1 AGGTATTAAACATTATGCTCAA
11698541 AGGT
1 AGGT
11698545 TTTACAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.31
Consensus pattern (22 bp):
AGGTATTAAACATTATGCTCAA
Found at i:11698956 original size:18 final size:18
Alignment explanation
Indices: 11698929--11698977 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
11698919 CTCATCAAAC
* *
11698929 GATGCTAATGGAAATGTT
1 GATGCAAATGCAAATGTT
*
11698947 GATGCGAATGCAAATGTT
1 GATGCAAATGCAAATGTT
*
11698965 AATGCAAATGCAA
1 GATGCAAATGCAA
11698978 GAATGTGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (18 bp):
GATGCAAATGCAAATGTT
Found at i:11699341 original size:41 final size:42
Alignment explanation
Indices: 11699258--11699342 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
11699248 GCAAGTATGA
11699258 ATACAAATGATGCAAATACAAATGTCCTTTTATATGATGTAG
1 ATACAAATGATGCAAATACAAATGTCCTTTTATATGATGTAG
* *** * *
11699300 ATACAAGTGATGCAAATGTGAATGT-CTTTTTTGTGATGTAG
1 ATACAAATGATGCAAATACAAATGTCCTTTTATATGATGTAG
11699341 AT
1 AT
11699343 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 16 0.43
42 21 0.57
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.36
Consensus pattern (42 bp):
ATACAAATGATGCAAATACAAATGTCCTTTTATATGATGTAG
Found at i:11700813 original size:22 final size:22
Alignment explanation
Indices: 11700787--11700835 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
11700777 TTGCCTTGGA
11700787 CTTTCATATATAAAGTGCATGC
1 CTTTCATATATAAAGTGCATGC
* * *
11700809 CTTTCTTTTCTAAAGTGCATGC
1 CTTTCATATATAAAGTGCATGC
11700831 CTTTC
1 CTTTC
11700836 TTTCTTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.43
Consensus pattern (22 bp):
CTTTCATATATAAAGTGCATGC
Found at i:11700836 original size:22 final size:22
Alignment explanation
Indices: 11700797--11700838 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
11700787 CTTTCATATA
11700797 TAAAGTGCATGCCTTTCTTTTC
1 TAAAGTGCATGCCTTTCTTTTC
11700819 TAAAGTGCATGCCTTTCTTT
1 TAAAGTGCATGCCTTTCTTT
11700839 CTTTGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.45
Consensus pattern (22 bp):
TAAAGTGCATGCCTTTCTTTTC
Found at i:11701558 original size:23 final size:21
Alignment explanation
Indices: 11701529--11701586 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 21
11701519 AAAGGTTTCT
11701529 TTTTTTTGTTTTAGTTTTGTTA
1 TTTTTTTGTTTTA-TTTTGTTA
* *
11701551 CTTTTTTTATTTTATTTTTTTA
1 -TTTTTTTGTTTTATTTTGTTA
* *
11701573 TGTTTTTGTGTTAT
1 TTTTTTTGTTTTAT
11701587 ACTCACCACT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 11 0.37
22 7 0.23
23 12 0.40
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.78
Consensus pattern (21 bp):
TTTTTTTGTTTTATTTTGTTA
Found at i:11703720 original size:29 final size:28
Alignment explanation
Indices: 11703663--11703725 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
11703653 TAAGAAAACC
*
11703663 TTTTTTTGTTTTTTTTTGTCCTTCCTTTT
1 TTTTTTTGTTTTTTTTTGT-CATCCTTTT
11703692 TTTTTTTGGTTTTGTTTTTGT-AT-CTTTT
1 TTTTTTT-GTTTT-TTTTTGTCATCCTTTT
11703720 TTTTTT
1 TTTTTT
11703726 CTATAAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 11 0.35
29 8 0.26
30 5 0.16
31 7 0.23
ACGTcount: A:0.02, C:0.08, G:0.10, T:0.81
Consensus pattern (28 bp):
TTTTTTTGTTTTTTTTTGTCATCCTTTT
Found at i:11706893 original size:22 final size:23
Alignment explanation
Indices: 11706862--11706910 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
11706852 ACATGCCTTA
* * *
11706862 TTTTCTTTCTTTTAGCTCTCTT-
1 TTTTCCTTCTTTCAACTCTCTTC
11706884 TTTTCCTTCTTTCAACTCTCTTC
1 TTTTCCTTCTTTCAACTCTCTTC
11706907 TTTT
1 TTTT
11706911 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.06, C:0.27, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTCCTTCTTTCAACTCTCTTC
Found at i:11714555 original size:12 final size:14
Alignment explanation
Indices: 11714521--11714563 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
11714511 TGGAGCTATT
11714521 TATTTTAGACCCAAAA
1 TATTTTA-A-CCAAAA
11714537 TATTTT-ACCAAAA
1 TATTTTAACCAAAA
11714550 -ATTTTAACCAAAA
1 TATTTTAACCAAAA
11714563 T
1 T
11714564 GGACTAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.20
13 13 0.52
14 1 0.04
16 6 0.24
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (14 bp):
TATTTTAACCAAAA
Found at i:11719390 original size:12 final size:12
Alignment explanation
Indices: 11719369--11719398 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11719359 ATTTCTTGTC
*
11719369 TTATATTATAAA
1 TTATAATATAAA
11719381 TTATAATATAAA
1 TTATAATATAAA
11719393 TTATAA
1 TTATAA
11719399 ATTTTCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TTATAATATAAA
Found at i:11724927 original size:29 final size:29
Alignment explanation
Indices: 11724895--11724973 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
11724885 ATTAAAATAA
* *
11724895 TAAA-AAATTTTGAATTTTATCATTTTATT
1 TAAATAAATTTTAAATTTTAT-ATTGTATT
*
11724924 TAAATAAATTTTTATATTTT-TATTGTATT
1 TAAATAAA-TTTTAAATTTTATATTGTATT
11724953 TAAATAAATTTTAAAATTTTA
1 TAAATAAATTTT-AAATTTTA
11724974 ATTTACATCC
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
28 4 0.10
29 25 0.60
30 4 0.10
31 9 0.21
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (29 bp):
TAAATAAATTTTAAATTTTATATTGTATT
Found at i:11730338 original size:23 final size:23
Alignment explanation
Indices: 11730291--11730343 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
11730281 ATATGTTTAC
*
11730291 ATTTATTTTTATTATTAATATAT
1 ATTTATTTTTATTATTAATAAAT
11730314 ATTT-TTTTTAATTATT-ATAAA-
1 ATTTATTTTT-ATTATTAATAAAT
11730335 ATATTATTT
1 AT-TTATTT
11730344 CGACCCCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 2 0.08
22 11 0.42
23 13 0.50
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTATTTTTATTATTAATAAAT
Found at i:11734495 original size:22 final size:22
Alignment explanation
Indices: 11734466--11734508 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11734456 ATCCTAAAGC
11734466 TAAAAATTAAAAAATT-TAAAA
1 TAAAAATTAAAAAATTGTAAAA
*
11734487 TAAAGAATTAAAAGATTGTAAA
1 TAAA-AATTAAAAAATTGTAAA
11734509 CAAGAATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (22 bp):
TAAAAATTAAAAAATTGTAAAA
Found at i:11737931 original size:11 final size:11
Alignment explanation
Indices: 11737915--11737941 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11737905 TCCTCTTAAA
11737915 TTTTTTCTTTT
1 TTTTTTCTTTT
11737926 TTTTTTCTTTT
1 TTTTTTCTTTT
11737937 TTTTT
1 TTTTT
11737942 AATGTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:11740145 original size:23 final size:22
Alignment explanation
Indices: 11740119--11740175 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
11740109 CAACTAATCC
*
11740119 TAAAGCCAAGAATTAAAATATTG
1 TAAAG-CAAGAATTAAAAGATTG
* *
11740142 TAAAGTAAAGAAATAAAAGATTG
1 TAAAG-CAAGAATTAAAAGATTG
11740165 TAAA-CAAGAAT
1 TAAAGCAAGAAT
11740176 GCCAAATTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 5 0.18
23 23 0.82
ACGTcount: A:0.58, C:0.05, G:0.14, T:0.23
Consensus pattern (22 bp):
TAAAGCAAGAATTAAAAGATTG
Found at i:11751356 original size:14 final size:13
Alignment explanation
Indices: 11751338--11751398 Score: 63
Period size: 14 Copynumber: 4.6 Consensus size: 13
11751328 GGTTTTTTAG
11751338 TTATTTTATTTTT
1 TTATTTTATTTTT
*
11751351 TCTATTCT-TTTTT
1 T-TATTTTATTTTT
11751364 TTATTATTATTTTT
1 TTATT-TTATTTTT
*
11751378 TTAGTTTTATTTAT
1 TTA-TTTTATTTTT
11751392 TT-TTTTA
1 TTATTTTA
11751399 AGTCAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
12 9 0.22
13 8 0.20
14 22 0.54
15 2 0.05
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (13 bp):
TTATTTTATTTTT
Found at i:11751362 original size:18 final size:16
Alignment explanation
Indices: 11751330--11751398 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 16
11751320 TACTATTTGG
*
11751330 TTTTTTAGTTATTTTAT
1 TTTTTTA-TTTTTTTAT
11751347 TTTTTCTATTCTTTTT-T
1 TTTTT-TATT-TTTTTAT
11751364 TTATTATTATTTTTTTAGT
1 TT-TT-TTATTTTTTTA-T
11751383 TTTATTTATTTTTTTA
1 TTT-TTTATTTTTTTA
11751399 AGTCAAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
17 15 0.34
18 24 0.55
19 5 0.11
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTTTATTTTTTTAT
Found at i:11751364 original size:15 final size:15
Alignment explanation
Indices: 11751330--11751379 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
11751320 TACTATTTGG
11751330 TTTTTTAGTTATT-TT
1 TTTTTTA-TTATTATT
* *
11751345 ATTTTTT-CTATTCTT
1 -TTTTTTATTATTATT
11751360 TTTTTTATTATTATT
1 TTTTTTATTATTATT
11751375 TTTTT
1 TTTTT
11751380 AGTTTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 10 0.34
15 13 0.45
16 6 0.21
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTTTATTATTATT
Found at i:11751624 original size:12 final size:12
Alignment explanation
Indices: 11751607--11751631 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11751597 AGATATCGGC
11751607 TAAAAAGGAAAA
1 TAAAAAGGAAAA
11751619 TAAAAAGGAAAA
1 TAAAAAGGAAAA
11751631 T
1 T
11751632 GGAGAAAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (12 bp):
TAAAAAGGAAAA
Found at i:11752347 original size:144 final size:143
Alignment explanation
Indices: 11752150--11752427 Score: 310
Period size: 143 Copynumber: 1.9 Consensus size: 143
11752140 TGTGAAAAAC
* *
11752150 TTTAGATCATCTTTTGATAATATTTCATGAATTTTAGTGTATTAGAAAACTTGATCGCACCTTAA
1 TTTAGATCATCTTTTGATAATATTTCATGAATTTTAGTATATTAGAAAACTTGATCACACC-TAA
* * * * * *
11752215 AATGACTAAAATTATCAAAATATTCTTTAAGGATATTTTCGTAATTCAACCTTCTCAAGGTCAAT
65 AAGGACTAAAATTACCAAAATACTCTTTAAGGATATTTTCATAATTCAACATTCTCAAGATCAAT
11752280 TTTTCGTAAAAAGT
130 TTTTCGTAAAAAGT
* * * * *
11752294 TTTAGATCATGTTTTGATATTATTTTAT-AATTTTTTA-TATATT-GACAACCTTGATCATACCT
1 TTTAGATCATCTTTTGATAATATTTCATGAA--TTTTAGTATATTAGA-AAACTTGATCACACCT
* ** * * * *
11752356 CAAAGGGTTAAAATTACCAAAATACTCTTTATGGGTATTTTCATAATTTAACATTTTCAAGATCA
63 AAAAGGACTAAAATTACCAAAATACTCTTTAAGGATATTTTCATAATTCAACATTCTCAAGATCA
*
11752421 GTTTTTC
128 ATTTTTC
11752428 ACGAAAAGCT
Statistics
Matches: 110, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
143 63 0.57
144 42 0.38
145 5 0.05
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (143 bp):
TTTAGATCATCTTTTGATAATATTTCATGAATTTTAGTATATTAGAAAACTTGATCACACCTAAA
AGGACTAAAATTACCAAAATACTCTTTAAGGATATTTTCATAATTCAACATTCTCAAGATCAATT
TTTCGTAAAAAGT
Found at i:11753919 original size:13 final size:14
Alignment explanation
Indices: 11753901--11753962 Score: 58
Period size: 13 Copynumber: 4.6 Consensus size: 14
11753891 TGCAAACCCA
11753901 TTAAACCCTAAA-C
1 TTAAACCCTAAACC
*
11753914 TTAAACCCCAAACC
1 TTAAACCCTAAACC
** *
11753928 CCAAAACC-AAACCC
1 TTAAACCCTAAA-CC
11753942 TTAAACCCTAAA-C
1 TTAAACCCTAAACC
11753955 TTAAACCC
1 TTAAACCC
11753963 ATTCGGCTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
13 23 0.59
14 13 0.33
15 3 0.08
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (14 bp):
TTAAACCCTAAACC
Found at i:11753960 original size:21 final size:21
Alignment explanation
Indices: 11753894--11753962 Score: 79
Period size: 20 Copynumber: 3.3 Consensus size: 21
11753884 TTATTCATGC
11753894 AAACCCATTAAACCCTAAACTT
1 AAACCC-TTAAACCCTAAACTT
* * *
11753916 AAACCC-CAAACCCCAAAAC-C
1 AAACCCTTAAA-CCCTAAACTT
11753936 AAACCCTTAAACCCTAAACTT
1 AAACCCTTAAACCCTAAACTT
11753957 AAACCC
1 AAACCC
11753963 ATTCGGCTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
20 16 0.42
21 16 0.42
22 6 0.16
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.14
Consensus pattern (21 bp):
AAACCCTTAAACCCTAAACTT
Found at i:11755667 original size:37 final size:38
Alignment explanation
Indices: 11755616--11755696 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 38
11755606 GAAATGGTTT
* *
11755616 GAAAATTTTCTATTTGATTGATGATTTTGATGGTATGA
1 GAAAATTTTCTATTTGATTGATGATCTTAATGGTATGA
*
11755654 GAAACTTTT-TATTTGATTGATGATCTTAATGGTATGA
1 GAAAATTTTCTATTTGATTGATGATCTTAATGGTATGA
11755691 -AAAATT
1 GAAAATT
11755697 CCCACTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 5 0.13
37 26 0.67
38 8 0.21
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.46
Consensus pattern (38 bp):
GAAAATTTTCTATTTGATTGATGATCTTAATGGTATGA
Found at i:11756088 original size:25 final size:21
Alignment explanation
Indices: 11756036--11756092 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
11756026 TTTGGATAGA
11756036 AGGGATCGATCCCCTAAGGGG
1 AGGGATCGATCCCCTAAGGGG
11756057 AGGGATCGATCCCCTAAGGGG
1 AGGGATCGATCCCCTAAGGGG
*
11756078 AGGGATTGATCCCCT
1 AGGGATCGATCCCCT
11756093 GACCAAAGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.23, C:0.25, G:0.35, T:0.18
Consensus pattern (21 bp):
AGGGATCGATCCCCTAAGGGG
Found at i:11757732 original size:72 final size:72
Alignment explanation
Indices: 11757639--11757815 Score: 169
Period size: 72 Copynumber: 2.5 Consensus size: 72
11757629 AATAACAAAG
* * * * *
11757639 ATTATGTTTTTTATCTAAAAAA-AGTGGTATTTATTAAAATTCCAGAATTTTGAAAACAAAATTT
1 ATTATGTTTTTTATCTAAAAAATA-CGATATTTAGTAAAATTCAAAAATTTTGAAAACAAAATTT
11757703 CAACAT-T
65 CAACATCT
* * * * * * *
11757710 CATTATGTTTTTTGTTTTAAAAATACGATTTTTGGTAAAATTCAAAAATTTTGAAAATATAATTT
1 -ATTATGTTTTTTATCTAAAAAATACGATATTTAGTAAAATTCAAAAATTTTGAAAACAAAATTT
11757775 CAACATCT
65 CAACATCT
* * * * *
11757783 ATTATATTTTTAATCTTAAAAATATGATCTTTA
1 ATTATGTTTTTTATCTAAAAAATACGATATTTA
11757816 TTAATATTAT
Statistics
Matches: 84, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
72 82 0.98
73 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (72 bp):
ATTATGTTTTTTATCTAAAAAATACGATATTTAGTAAAATTCAAAAATTTTGAAAACAAAATTTC
AACATCT
Found at i:11757832 original size:72 final size:71
Alignment explanation
Indices: 11757668--11757842 Score: 181
Period size: 72 Copynumber: 2.4 Consensus size: 71
11757658 AAAAGTGGTA
* * * * ** *
11757668 TTTATTAAAATTCCAGAATTTTGAAAACAAAATTTCAACATTCATTATGTTTTTTGTTTTAAAAA
1 TTTATTAAAATT-AAGAATTTTGAAAATATAATTTCAACATTCATTATATTTTTAATCTTAAAAA
*
11757733 TACGATT
65 TACGATC
** *
11757740 TTTGGTAAAATTCAAAAATTTTGAAAATATAATTTCAACA-TCTATTATATTTTTAATCTTAAAA
1 TTTATTAAAATT-AAGAATTTTGAAAATATAATTTCAACATTC-ATTATATTTTTAATCTTAAAA
*
11757804 ATATGATC
64 ATACGATC
* *
11757812 TTTATTAATATTATAGAATTTTAAAAATATA
1 TTTATTAAAATTA-AGAATTTTGAAAATATA
11757843 GTTTGAACGT
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
71 3 0.04
72 81 0.96
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (71 bp):
TTTATTAAAATTAAGAATTTTGAAAATATAATTTCAACATTCATTATATTTTTAATCTTAAAAAT
ACGATC
Found at i:11762526 original size:32 final size:33
Alignment explanation
Indices: 11762490--11762552 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
11762480 AACACATTAT
*
11762490 ATTATTTC-ATTTT-CATTTTTTTAATTTTTTTA
1 ATTATTTCAATTTTCCAATTTTTT-ATTTTTTTA
11762522 ATTATTTCAATTTTCCAATTTTTTATTTTTT
1 ATTATTTCAATTTTCCAATTTTTTATTTTTT
11762553 ATTTTTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 8 0.29
33 12 0.43
34 8 0.29
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (33 bp):
ATTATTTCAATTTTCCAATTTTTTATTTTTTTA
Found at i:11763733 original size:26 final size:26
Alignment explanation
Indices: 11763697--11763760 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
11763687 CATTTACTTA
11763697 AAATATTAATTAGATTA-ACAAATTTAT
1 AAAT-TTAATTAGATTAGA-AAATTTAT
*** *
11763724 AAATTTAATTTTTTTAGATAATTTAT
1 AAATTTAATTAGATTAGAAAATTTAT
11763750 AAATTTAATTA
1 AAATTTAATTA
11763761 AATCAATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 26 0.84
27 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (26 bp):
AAATTTAATTAGATTAGAAAATTTAT
Found at i:11764224 original size:26 final size:25
Alignment explanation
Indices: 11764174--11764227 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
11764164 AGGGTAAGAA
* *
11764174 TAAAAAATTAAATATAATAATTTAT
1 TAAAAAATTAAATATAAAAACTTAT
*
11764199 TAAATAATTAAATGATAAAAACTTAT
1 TAAAAAATTAAAT-ATAAAAACTTAT
11764225 TAA
1 TAA
11764228 GAAAGCTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
TAAAAAATTAAATATAAAAACTTAT
Found at i:11764722 original size:3 final size:3
Alignment explanation
Indices: 11764714--11764740 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11764704 TCTTAAGTCT
11764714 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
11764741 AATTAATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11766132 original size:30 final size:32
Alignment explanation
Indices: 11766096--11766165 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 32
11766086 CAAATGTTCC
*
11766096 AAAGTCAAACTTAG-TCAAACTTGATC-AAAT
1 AAAGTCAAACTTAGATCAAAATTGATCGAAAT
*
11766126 AAAGTCAAA-TTTGATCAAAATTGATCGAAAT
1 AAAGTCAAACTTAGATCAAAATTGATCGAAAT
*
11766157 CAA-TCAAAC
1 AAAGTCAAAC
11766166 CGAATTGAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 3 0.09
30 25 0.74
31 6 0.18
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.26
Consensus pattern (32 bp):
AAAGTCAAACTTAGATCAAAATTGATCGAAAT
Found at i:11766791 original size:144 final size:142
Alignment explanation
Indices: 11766497--11766820 Score: 336
Period size: 144 Copynumber: 2.2 Consensus size: 142
11766487 GAAAAACTTT
* * * **
11766497 GATCATAATTATATATTATTTATTGATTTTTGGTGTATTAAAAACCTTGATCACACCTTGAAAGT
1 GATCATAATTTTATATTATTTA-TGATTTTTGGTGCATTAAAAACCATGATCACACCTAAAAAGT
* * * *
11766562 TGTGAAATTACTAAAATGCCTTTAAAAGGCATTTTCGTAATTTGATTTTCTTGAAGTTTGATTTT
65 TGTAAAATTACTAAAATGCCCTTAAAAGGCATTTTCGTAATTTGATTTTC-TAAAGTTCGATTTT
* *
11766627 TGTGAAATGCTCTA
129 TATGAAATACTCTA
* **
11766641 GGTCAT-ATTTTCATATTATTATATGATTTTTGGTGCATTAAATGCCATGATCACACCTCAAAAA
1 GATCATAATTTT-ATATTATT-TATGATTTTTGGTGCATTAAAAACCATGATCACACCT-AAAAA
* * *
11766705 G-TGTAAAATTATTAAAATGCCCTTAAAAGGTATTTTTGTAATTTGACCTTTTC-AAAG-TCGAT
63 GTTGTAAAATTACTAAAATGCCCTTAAAAGGCATTTTCGTAATTTGA--TTTTCTAAAGTTCGA-
*
11766767 TTTTTATGAAA-ACTTTTA
125 TTTTTATGAAATAC-TCTA
*
11766785 TATCATAATTTTATATTATTTTAAT-ATTTTTGGTGC
1 GATCATAATTTTATATTA-TTT-ATGATTTTTGGTGC
11766821 TTTATAATCA
Statistics
Matches: 150, Mismatches: 20, Indels: 20
0.79 0.11 0.11
Matches are distributed among these distances:
143 8 0.05
144 122 0.81
145 15 0.10
146 5 0.03
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (142 bp):
GATCATAATTTTATATTATTTATGATTTTTGGTGCATTAAAAACCATGATCACACCTAAAAAGTT
GTAAAATTACTAAAATGCCCTTAAAAGGCATTTTCGTAATTTGATTTTCTAAAGTTCGATTTTTA
TGAAATACTCTA
Found at i:11768241 original size:60 final size:60
Alignment explanation
Indices: 11768129--11768245 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
11768119 TGCATTTTTC
* * * * ** *
11768129 ATGCATCAAAGATTGTATTTTTATTAATGGTATTTTTGTTAGTTTGTCACATGCATCCCT
1 ATGCACCAAAGATTGCATTTTTATCAATGGTATTTTGGCAAGTTTATCACATGCATCCCT
* * *
11768189 ATGCACCAAAGTTTGCATTTTTATCAATGGTATTTTGGCAATTTTATTACATGCATC
1 ATGCACCAAAGATTGCATTTTTATCAATGGTATTTTGGCAAGTTTATCACATGCATC
11768246 AAAGTTTACA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (60 bp):
ATGCACCAAAGATTGCATTTTTATCAATGGTATTTTGGCAAGTTTATCACATGCATCCCT
Found at i:11768344 original size:19 final size:18
Alignment explanation
Indices: 11768312--11768361 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
11768302 ATCGTAAACC
11768312 TAAACACTAAACCAA-ACT
1 TAAAC-CTAAACCAAGACT
*
11768330 ATAAACCTAAGACCAAGCCT
1 -TAAACCTAA-ACCAAGACT
11768350 TAAACCTAAACC
1 TAAACCTAAACC
11768362 TATACCCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.25
19 19 0.68
20 2 0.07
ACGTcount: A:0.50, C:0.30, G:0.04, T:0.16
Consensus pattern (18 bp):
TAAACCTAAACCAAGACT
Found at i:11768423 original size:13 final size:13
Alignment explanation
Indices: 11768405--11768469 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 13
11768395 CTTCAACGCC
11768405 AACCCTAAACCAA
1 AACCCTAAACCAA
** *
11768418 AACCCTAGCCCTA
1 AACCCTAAACCAA
* *
11768431 AACCTTAAAATCAA
1 AACCCT-AAACCAA
*
11768445 AACCCT-AACCTA
1 AACCCTAAACCAA
*
11768457 GACCCTAAACCAA
1 AACCCTAAACCAA
11768470 CCTTCTAATC
Statistics
Matches: 37, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
12 9 0.24
13 20 0.54
14 8 0.22
ACGTcount: A:0.46, C:0.37, G:0.03, T:0.14
Consensus pattern (13 bp):
AACCCTAAACCAA
Found at i:11768469 original size:52 final size:51
Alignment explanation
Indices: 11768406--11768526 Score: 131
Period size: 52 Copynumber: 2.4 Consensus size: 51
11768396 TTCAACGCCA
* *
11768406 ACCCTAAACCAAAACC-CTAGCCCTAAACCTTAAAATCAAAACCCTAACCTAG
1 ACCCTAAACC--AACCTCTAACCATAAACCTTAAAATCAAAACCCTAACCTAG
* * *
11768458 ACCCTAAACCAACCTTCTAATCATAAACCTTGAAATCAAAACCCTAA-CAAG
1 ACCCTAAACCAACC-TCTAACCATAAACCTTAAAATCAAAACCCTAACCTAG
* *
11768509 ACCTTAAACTAA-CTCTAA
1 ACCCTAAACCAACCTCTAA
11768527 ACTTTGAACT
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
49 5 0.08
50 5 0.08
51 13 0.22
52 37 0.62
ACGTcount: A:0.45, C:0.33, G:0.03, T:0.19
Consensus pattern (51 bp):
ACCCTAAACCAACCTCTAACCATAAACCTTAAAATCAAAACCCTAACCTAG
Found at i:11769679 original size:20 final size:21
Alignment explanation
Indices: 11769651--11769693 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
11769641 TCCTATTTTC
*
11769651 TTTGTATTTTCTATTTTTTAT
1 TTTGTATTTTCTATTATTTAT
*
11769672 TTTG-ATTTTTTATTATTTAT
1 TTTGTATTTTCTATTATTTAT
11769692 TT
1 TT
11769694 ATTTTAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (21 bp):
TTTGTATTTTCTATTATTTAT
Found at i:11769993 original size:14 final size:15
Alignment explanation
Indices: 11769961--11769993 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
11769951 TGTGATGATT
11769961 TTATGATTGATTAAA
1 TTATGATTGATTAAA
*
11769976 TTATGATT-ATTTAA
1 TTATGATTGATTAAA
11769990 TTAT
1 TTAT
11769994 TATTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (15 bp):
TTATGATTGATTAAA
Found at i:11772290 original size:32 final size:33
Alignment explanation
Indices: 11772246--11772375 Score: 106
Period size: 32 Copynumber: 3.9 Consensus size: 33
11772236 TTCATTTTTG
*
11772246 TATTTTACATATATATAT-TTTATTATTATTAT
1 TATTTTATATATATATATATTTATTATTATTAT
* *
11772278 TATTTTATATATATATATATAT-TTATTTTTAT
1 TATTTTATATATATATATATTTATTATTATTAT
* * * * * *
11772310 TATATGTATTTTTTTTATATATTCATTATTACTAT
1 TAT-TTTA-TATATATATATATTTATTATTATTAT
*
11772345 T-TATTA-ATATATATATATCCTTATTATTATT
1 TATTTTATATATATATATAT--TTATTATTATT
11772376 TTTTTTCTTT
Statistics
Matches: 74, Mismatches: 18, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
31 9 0.12
32 29 0.39
33 16 0.22
34 11 0.15
35 9 0.12
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (33 bp):
TATTTTATATATATATATATTTATTATTATTAT
Found at i:11772310 original size:38 final size:36
Alignment explanation
Indices: 11772254--11772331 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 36
11772244 TGTATTTTAC
11772254 ATATATATATTTTATTATTATTAT-TATTTTATATAT
1 ATATATATATTTTATTATTA-TATGTATTTTATATAT
* * *
11772290 ATATATATATTTATTTTTATTATATGTATTTTTTTTAT
1 ATATATATA-TT-TTATTATTATATGTATTTTATATAT
11772328 ATAT
1 ATAT
11772332 TCATTATTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 9 0.25
37 5 0.14
38 22 0.61
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (36 bp):
ATATATATATTTTATTATTATATGTATTTTATATAT
Found at i:11772319 original size:15 final size:15
Alignment explanation
Indices: 11772295--11772329 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11772285 TATATATATA
*
11772295 TATATTTATTTTTAT
1 TATATGTATTTTTAT
*
11772310 TATATGTATTTTTTT
1 TATATGTATTTTTAT
11772325 TATAT
1 TATAT
11772330 ATTCATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
TATATGTATTTTTAT
Found at i:11772424 original size:18 final size:19
Alignment explanation
Indices: 11772398--11772461 Score: 76
Period size: 18 Copynumber: 3.2 Consensus size: 19
11772388 CTGTTAATAT
11772398 TTATATATATATTTATCTGA
1 TTATATATA-ATTTATCTGA
11772418 TTATATATTATAATTTATCT-A
1 -T-TATA-TATAATTTATCTGA
*
11772439 TTATTTATAATTTATCTGA
1 TTATATATAATTTATCTGA
11772458 TTAT
1 TTAT
11772462 TTATTTATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
18 12 0.31
19 8 0.21
20 1 0.03
21 2 0.05
22 12 0.31
23 4 0.10
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (19 bp):
TTATATATAATTTATCTGA
Found at i:11772461 original size:33 final size:32
Alignment explanation
Indices: 11772424--11772491 Score: 75
Period size: 33 Copynumber: 2.1 Consensus size: 32
11772414 CTGATTATAT
*
11772424 ATTA-TAATTTATCTATTATTTATAATTTATCTG
1 ATTATTAATTTAT-TAATATTTATAA-TTATCTG
* * *
11772457 ATTATTTATTTATTAATATTTTTTATTATCTG
1 ATTATTAATTTATTAATATTTATAATTATCTG
11772489 ATT
1 ATT
11772492 TTTTTTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
32 10 0.33
33 13 0.43
34 7 0.23
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (32 bp):
ATTATTAATTTATTAATATTTATAATTATCTG
Found at i:11772471 original size:30 final size:30
Alignment explanation
Indices: 11772430--11772505 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 30
11772420 ATATATTATA
*
11772430 ATTTATCTATTATTTATAAT-TTATCTGATT
1 ATTTATTTATTATTT-TAATATTATCTGATT
**
11772460 ATTTATTTATTAATATTTTTTATTATCTGATT
1 ATTTATTTATT-AT-TTTAATATTATCTGATT
11772492 -TTT-TTTATTATTTT
1 ATTTATTTATTATTTT
11772506 TTTGATTTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 3 0.08
29 2 0.05
30 16 0.40
31 7 0.17
32 12 0.30
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (30 bp):
ATTTATTTATTATTTTAATATTATCTGATT
Found at i:11772508 original size:29 final size:32
Alignment explanation
Indices: 11772450--11772508 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
11772440 TATTTATAAT
11772450 TTATCTGATTATTTATTTATTAATATTTTTTA
1 TTATCTGATTATTTATTTATTAATATTTTTTA
11772482 TTATCTGATT-TTT-TTTATT-AT-TTTTTT
1 TTATCTGATTATTTATTTATTAATATTTTTT
11772509 GATTTCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 6 0.22
29 2 0.07
30 6 0.22
31 3 0.11
32 10 0.37
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (32 bp):
TTATCTGATTATTTATTTATTAATATTTTTTA
Found at i:11773399 original size:6 final size:6
Alignment explanation
Indices: 11773388--11773460 Score: 58
Period size: 6 Copynumber: 11.5 Consensus size: 6
11773378 TTTCATATTC
* * *
11773388 TTTTAT TTTTAT CTTTAT TTTACTTT TCTTTAT TTTTAT TTTCAT TTTTA-
1 TTTTAT TTTTAT TTTTAT TTT--TAT T-TTTAT TTTTAT TTTTAT TTTTAT
*
11773438 TTTTGT TTTTATT ATTTTAT TTT
1 TTTTAT TTTTA-T -TTTTAT TTT
11773461 CTTTAAATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.08
6 34 0.64
7 5 0.09
8 8 0.15
9 2 0.04
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:11773409 original size:5 final size:5
Alignment explanation
Indices: 11773388--11773460 Score: 51
Period size: 5 Copynumber: 13.8 Consensus size: 5
11773378 TTTCATATTC
*
11773388 TTTTA TTTTTA TCTTTA TTTTA CTTTT- CTTTA TTTTTA TTTTCA TTTTTA
1 TTTTA -TTTTA T-TTTA TTTTA -TTTTA TTTTA -TTTTA TTTT-A -TTTTA
* *
11773438 TTTTG TTTT- TATTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT
11773461 CTTTAAATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
4 6 0.11
5 25 0.45
6 20 0.36
7 4 0.07
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:11773419 original size:15 final size:14
Alignment explanation
Indices: 11773399--11773465 Score: 64
Period size: 14 Copynumber: 4.4 Consensus size: 14
11773389 TTTATTTTTA
11773399 TCTTTATTTTACTTT
1 TCTTTATTTTA-TTT
11773414 TCTTTATTTTTATTT
1 TCTTTA-TTTTATTT
*
11773429 TCATTTTTATTTTGTTT
1 TC---TTTATTTTATTT
11773446 T-TATTATTTTATTT
1 TCT-TTATTTTATTT
11773460 TCTTTA
1 TCTTTA
11773466 AATAAAATCC
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
13 1 0.02
14 14 0.32
15 12 0.27
16 5 0.11
17 8 0.18
18 4 0.09
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.76
Consensus pattern (14 bp):
TCTTTATTTTATTT
Found at i:11773421 original size:27 final size:26
Alignment explanation
Indices: 11773389--11773464 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
11773379 TTCATATTCT
11773389 TTTATTTTTATCTTTATTTTACTTTTC
1 TTTATTTTTAT-TTTATTTTACTTTTC
*
11773416 TTTATTTTTATTTTCATTTTTA-TTTTG
1 TTTATTTTTATTTT-A-TTTTACTTTTC
*
11773443 TTT-TTATTATTTTATTTT-CTTT
1 TTTATTTTTATTTTATTTTACTTT
11773465 AAATAAAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
24 7 0.16
25 1 0.02
26 12 0.27
27 19 0.43
28 5 0.11
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.78
Consensus pattern (26 bp):
TTTATTTTTATTTTATTTTACTTTTC
Found at i:11773549 original size:59 final size:59
Alignment explanation
Indices: 11773477--11773870 Score: 406
Period size: 59 Copynumber: 6.7 Consensus size: 59
11773467 ATAAAATCCA
* *
11773477 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAACAAGTTTTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTTC
* * *
11773536 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTT-
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTTC
** * * * * *
11773594 AAAAAAAGGTTTTTGAGGTAAAGTTGAAAGTGTCAATTTTCCTTAAGAATAA-ATTTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTTC
* * ** * *
11773652 AAAAAAAAAAAGTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAGCTTTTC
1 --AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTTC
* * * * **
11773713 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATAAATTCTAA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAGTTTTTC
* ** *
11773773 AAAAAAATGA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAGAG--TTTC
1 AAAAAAAT-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA-AGTTTTTC
* * * *
11773831 -AAAAACTA-TTTTAGGGAAAAGTTGAAAGTATTAATATTCC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
11773871 CTACACAAAA
Statistics
Matches: 278, Mismatches: 50, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
56 29 0.10
57 10 0.04
58 45 0.16
59 96 0.35
60 92 0.33
61 6 0.02
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.35
Consensus pattern (59 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTTC
Found at i:11773776 original size:177 final size:178
Alignment explanation
Indices: 11773476--11773815 Score: 549
Period size: 177 Copynumber: 1.9 Consensus size: 178
11773466 AATAAAATCC
* * ** * *
11773476 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAACAAGTTTTTCAAAAA
1 AAAAAAAAAAGTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAGCTTTTCAAAAA
* *
11773541 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTT-TTAAAAAAAGGTT
66 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCTAAAAAAAAGGAT
* *
11773605 TTTGAGGTAAAGTTGAAAGTGTCAATTTTCCTTAAGAATAAATTTTCA
131 TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCA
11773653 AAAAAAAAAAGTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAGCTTTTCAAAAA
1 AAAAAAAAAAGTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAGCTTTTCAAAAA
*
11773718 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATAAA-TTCTAAAAAAAAATG
66 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAATTTCT-AAAAAAAAGG
11773782 ATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
129 ATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
11773816 CGAAATTAGA
Statistics
Matches: 149, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
177 100 0.67
178 10 0.07
179 39 0.26
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (178 bp):
AAAAAAAAAAGTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAGCTTTTCAAAAA
AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCTAAAAAAAAGGAT
TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCA
Found at i:11777773 original size:34 final size:33
Alignment explanation
Indices: 11777719--11777794 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
11777709 ACAATGGATG
*
11777719 AAAAATGAG-AAAAAAAAAAG-ATGATGAAAGA-A
1 AAAAAAGAGAAAAAAAAAAAGAATGA-GAAA-ATA
*
11777751 AAAAAAGAGAAAAAAAAGAAAGAATGAGAAAATT
1 AAAAAAGAGAAAAAAAA-AAAGAATGAGAAAATA
11777785 AAAAAAGAGA
1 AAAAAAGAGA
11777795 TTCAAATTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
32 8 0.21
33 8 0.21
34 18 0.47
35 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (33 bp):
AAAAAAGAGAAAAAAAAAAAGAATGAGAAAATA
Found at i:11777781 original size:19 final size:16
Alignment explanation
Indices: 11777719--11777782 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 16
11777709 ACAATGGATG
11777719 AAAAATGAGAAAAAAA
1 AAAAATGAGAAAAAAA
* *
11777735 AAAGATGATGAAAGAAA
1 AAAAATGA-GAAAAAAA
11777752 AAAAA-GAGAAAAAAAA
1 AAAAATGAG-AAAAAAA
11777768 GAAAGAATGAGAAAA
1 -AAA-AATGAGAAAA
11777783 TTAAAAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 1 0.03
16 15 0.38
17 14 0.36
18 6 0.15
19 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (16 bp):
AAAAATGAGAAAAAAA
Found at i:11777791 original size:19 final size:17
Alignment explanation
Indices: 11777722--11777792 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
11777712 ATGGATGAAA
11777722 AATGAGAAAAAAAAAAG
1 AATGAGAAAAAAAAAAG
*
11777739 -ATGATGAAAGAAAAAA-
1 AATGA-GAAAAAAAAAAG
11777755 AA-GAGAAAAAAAAGAAAG
1 AATGAG-AAAAAAA-AAAG
11777773 AATGAGAAAATTAAAAAAG
1 AATGAGAAAA--AAAAAAG
11777792 A
1 A
11777793 GATTCAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
15 1 0.02
16 12 0.27
17 14 0.32
18 6 0.14
19 8 0.18
20 3 0.07
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.08
Consensus pattern (17 bp):
AATGAGAAAAAAAAAAG
Found at i:11779070 original size:22 final size:22
Alignment explanation
Indices: 11779045--11779103 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
11779035 GAATATTTTG
* *
11779045 ATGAGAATTTTTTAGAATTC-AA
1 ATGAGAATGTTTGAG-ATTCAAA
*
11779067 ATGAGAATGTTTGAGTTTCAAA
1 ATGAGAATGTTTGAGATTCAAA
*
11779089 ATGAGAATCTTTGAG
1 ATGAGAATGTTTGAG
11779104 TGAAACCTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 3 0.09
22 29 0.91
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.37
Consensus pattern (22 bp):
ATGAGAATGTTTGAGATTCAAA
Found at i:11779331 original size:43 final size:42
Alignment explanation
Indices: 11779283--11779364 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 42
11779273 GCCTTTGAAC
* * *
11779283 TCAAATGAGAAGCTTT-GAATTTTTGGATGTGAATCTCCAAAAT
1 TCAAATGAAAAGCTTTAG-ACTTTTGGATATGAAT-TCCAAAAT
11779326 TCAAATGAAAAGCTTTAGACTTTTGGATATGAATTCCAA
1 TCAAATGAAAAGCTTTAGACTTTTGGATATGAATTCCAA
11779365 GTTTGCCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 5 0.14
43 29 0.83
44 1 0.03
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (42 bp):
TCAAATGAAAAGCTTTAGACTTTTGGATATGAATTCCAAAAT
Found at i:11779715 original size:41 final size:41
Alignment explanation
Indices: 11779658--11779993 Score: 476
Period size: 41 Copynumber: 8.1 Consensus size: 41
11779648 GATTGTCAAC
*
11779658 GAGCAATTTACCTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
*
11779699 GAGCAATTTACTTTTCAAAGTCGTGATGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* *
11779740 AAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* * * *
11779781 AAGCAATTTATTTTTCAAAAGTCATGGTGCCTCTGTTTAGAA
1 GAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAG
* * *
11779823 GAGCAATTTACTTTCCAAAAGTTGAGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAG
*
11779865 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAT
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* * * *
11779906 GAGCAATTCA-TTTTCCAAAGTCATGGTTGCCTTTATTTAGAG
1 GAGCAATTTACTTTT-CAAAGTCGTGG-TGCCTCTGTTTAGAG
*
11779948 GAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
11779989 GAGCA
1 GAGCA
11779994 GTTATTTTTG
Statistics
Matches: 261, Mismatches: 30, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
40 4 0.02
41 151 0.58
42 102 0.39
43 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (41 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:11779885 original size:83 final size:82
Alignment explanation
Indices: 11779658--11779993 Score: 469
Period size: 83 Copynumber: 4.1 Consensus size: 82
11779648 GATTGTCAAC
*
11779658 GAGCAATTTACCTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCG
1 GAGCAATTTA-CTTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCG
*
11779722 TGATGCCTCTGTTTAG-A
65 TGGTGCCTCTGTTTAGAA
* * *
11779739 GAAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGAAGCAATTTATTTTTCAAAAGTC
1 G-AGCAATTTACTTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTC-AAAGTC
*
11779804 ATGGTGCCTCTGTTTAGAA
64 GTGGTGCCTCTGTTTAGAA
* * *
11779823 GAGCAATTTACTTTCCAAAAGTTGAGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCG
1 GAGCAATTTACTTTCC-AAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCG
*
11779888 TGGTGCCTCTGTTTAGAT
65 TGGTGCCTCTGTTTAGAA
* * * * *
11779906 GAGCAATTCATTTTCCAAAGTCATGGTTGCCTTTATTTAGAGGAGCAATTTACTTTTCAAAGTTG
1 GAGCAATTTACTTTCCAAAGTCGTGG-TGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCG
*
11779971 TGGTGCCTCTGTTTAGAG
65 TGGTGCCTCTGTTTAGAA
11779989 GAGCA
1 GAGCA
11779994 GTTATTTTTG
Statistics
Matches: 227, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
81 5 0.02
82 55 0.24
83 129 0.57
84 38 0.17
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (82 bp):
GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCGT
GGTGCCTCTGTTTAGAA
Found at i:11780132 original size:96 final size:96
Alignment explanation
Indices: 11779968--11780156 Score: 351
Period size: 96 Copynumber: 2.0 Consensus size: 96
11779958 CTTTTCAAAG
* *
11779968 TTGTGGTGCCTCTGTTTAGAGGAGCAGTTATTTTTGAAGTCATGGTGTTTTTGCTTAGAGAATTT
1 TTGTGGTGCCTCTGTTTAAAGGAGCAGTTATTTTTGAAGTCATGGTGTTTCTGCTTAGAGAATTT
11780033 GTTTACCTTTCCAAAGTTGTTGGGCCTCCTC
66 GTTTACCTTTCCAAAGTTGTTGGGCCTCCTC
*
11780064 TTGTGGTGCCTTTGTTTAAAGGAGCAGTTATTTTTGAAGTCATGGTGTTTCTGCTTAGAGAATTT
1 TTGTGGTGCCTCTGTTTAAAGGAGCAGTTATTTTTGAAGTCATGGTGTTTCTGCTTAGAGAATTT
11780129 GTTTACCTTTCCAAAGTTGTTGGGCCTC
66 GTTTACCTTTCCAAAGTTGTTGGGCCTC
11780157 TGATTAGAGG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 90 1.00
ACGTcount: A:0.17, C:0.15, G:0.25, T:0.43
Consensus pattern (96 bp):
TTGTGGTGCCTCTGTTTAAAGGAGCAGTTATTTTTGAAGTCATGGTGTTTCTGCTTAGAGAATTT
GTTTACCTTTCCAAAGTTGTTGGGCCTCCTC
Found at i:11780479 original size:3 final size:3
Alignment explanation
Indices: 11780471--11780594 Score: 56
Period size: 3 Copynumber: 39.7 Consensus size: 3
11780461 ATATATATAT
* * * *
11780471 TTA TTA TTA TTA TTA TTA TTA TT- TATA TTT TTT TTC TT- TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * *
11780515 TTA TT- GTA TGTA TTTA TTT TTT TTA TATA TTCA TTA TTA CTA TTTA
1 TTA TTA TTA T-TA -TTA TTA TTA TTA T-TA TT-A TTA TTA TTA -TTA
* **
11780561 TTA ATA TATA TATA TCC TTA TTA TTA TTA TTA TT
1 TTA TTA T-TA T-TA TTA TTA TTA TTA TTA TTA TT
11780595 TTCTTTTTTT
Statistics
Matches: 95, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
2 4 0.04
3 70 0.74
4 20 0.21
5 1 0.01
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11780700 original size:32 final size:32
Alignment explanation
Indices: 11780625--11780733 Score: 90
Period size: 32 Copynumber: 3.6 Consensus size: 32
11780615 ATATATATAT
* * *
11780625 TTATCTGATTATATA-TTA-TAAT-TTATCTA
1 TTATCTGATTATTTATTTATTAATATTTTTTA
* * *
11780654 TTAT-TTATAATTTATTTGTTAAT-TTTTTGGT-
1 TTATCTGATTATTTATTTATTAATATTTTT--TA
11780685 TTATCTGATTATTTATTTATTAATATTTTTTA
1 TTATCTGATTATTTATTTATTAATATTTTTTA
11780717 TTATCTGATT-TTT-TTTA
1 TTATCTGATTATTTATTTA
11780734 ATTATTTTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 13
0.74 0.10 0.15
Matches are distributed among these distances:
28 7 0.11
29 6 0.09
30 11 0.17
31 8 0.12
32 27 0.42
33 5 0.08
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.64
Consensus pattern (32 bp):
TTATCTGATTATTTATTTATTAATATTTTTTA
Found at i:11780744 original size:29 final size:31
Alignment explanation
Indices: 11780675--11780761 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 31
11780665 TTATTTGTTA
*
11780675 ATTTTTTGGTTTATCTGATTATTTATTTATTAAT
1 ATTTTTT-GATTATCTGATT-TTT-TTTATTAAT
11780709 ATTTTTT-ATTATCTGATTTTTTTTAATT-AT
1 ATTTTTTGATTATCTGATTTTTTTT-ATTAAT
**
11780739 -TTTTTTGATT-TCTTTTTTTTTTT
1 ATTTTTTGATTATCTGATTTTTTTT
11780762 GTTGAAGATT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
29 17 0.35
30 8 0.17
31 6 0.12
32 10 0.21
34 7 0.15
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.72
Consensus pattern (31 bp):
ATTTTTTGATTATCTGATTTTTTTTATTAAT
Found at i:11781295 original size:21 final size:21
Alignment explanation
Indices: 11781266--11781308 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
11781256 ATTCTAGAGA
*
11781266 GAAGGGAGAGAAGA-AAGAAGG
1 GAAGAGAGAGAAGAGAA-AAGG
11781287 GAAGAGAGAGAAGAGAAAAGG
1 GAAGAGAGAGAAGAGAAAAGG
11781308 G
1 G
11781309 TTCTGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (21 bp):
GAAGAGAGAGAAGAGAAAAGG
Found at i:11781636 original size:6 final size:6
Alignment explanation
Indices: 11781625--11781697 Score: 58
Period size: 6 Copynumber: 11.5 Consensus size: 6
11781615 TTTGATATTC
* * *
11781625 TTTTAT TTTTAT CTTTAT TTTACTTT TCTTTAT TTTTAT TTTCAT TTTTA-
1 TTTTAT TTTTAT TTTTAT TTT--TAT T-TTTAT TTTTAT TTTTAT TTTTAT
*
11781675 TTTTGT TTTTATT ATTTTAT TTT
1 TTTTAT TTTTA-T -TTTTAT TTT
11781698 CTTTAAATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.08
6 34 0.64
7 5 0.09
8 8 0.15
9 2 0.04
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:11781646 original size:5 final size:5
Alignment explanation
Indices: 11781625--11781697 Score: 51
Period size: 5 Copynumber: 13.8 Consensus size: 5
11781615 TTTGATATTC
*
11781625 TTTTA TTTTTA TCTTTA TTTTA CTTTT- CTTTA TTTTTA TTTTCA TTTTTA
1 TTTTA -TTTTA T-TTTA TTTTA -TTTTA TTTTA -TTTTA TTTT-A -TTTTA
* *
11781675 TTTTG TTTT- TATTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT
11781698 CTTTAAATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
4 6 0.11
5 25 0.45
6 20 0.36
7 4 0.07
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:11781656 original size:15 final size:14
Alignment explanation
Indices: 11781636--11781702 Score: 64
Period size: 14 Copynumber: 4.4 Consensus size: 14
11781626 TTTATTTTTA
11781636 TCTTTATTTTACTTT
1 TCTTTATTTTA-TTT
11781651 TCTTTATTTTTATTT
1 TCTTTA-TTTTATTT
*
11781666 TCATTTTTATTTTGTTT
1 TC---TTTATTTTATTT
11781683 T-TATTATTTTATTT
1 TCT-TTATTTTATTT
11781697 TCTTTA
1 TCTTTA
11781703 AATAAAATCC
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
13 1 0.02
14 14 0.32
15 12 0.27
16 5 0.11
17 8 0.18
18 4 0.09
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.76
Consensus pattern (14 bp):
TCTTTATTTTATTT
Found at i:11781658 original size:27 final size:26
Alignment explanation
Indices: 11781626--11781701 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
11781616 TTGATATTCT
11781626 TTTATTTTTATCTTTATTTTACTTTTC
1 TTTATTTTTAT-TTTATTTTACTTTTC
*
11781653 TTTATTTTTATTTTCATTTTTA-TTTTG
1 TTTATTTTTATTTT-A-TTTTACTTTTC
*
11781680 TTT-TTATTATTTTATTTT-CTTT
1 TTTATTTTTATTTTATTTTACTTT
11781702 AAATAAAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
24 7 0.16
25 1 0.02
26 12 0.27
27 19 0.43
28 5 0.11
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.78
Consensus pattern (26 bp):
TTTATTTTTATTTTATTTTACTTTTC
Found at i:11781786 original size:59 final size:58
Alignment explanation
Indices: 11781714--11781942 Score: 275
Period size: 59 Copynumber: 3.9 Consensus size: 58
11781704 ATAAAATCCA
* * * *
11781714 AAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAACAAGCTTTCC
1 AAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA-ATTTAC
* * *
11781773 AAAAGAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAC
* * * *
11781831 AAAAAAAGATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAGAATAAATTTTAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTAC
* * *
11781890 AAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAA-AAAT
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
11781943 AATAATAAAT
Statistics
Matches: 149, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
57 1 0.01
58 51 0.34
59 97 0.65
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.34
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAC
Found at i:11781843 original size:117 final size:120
Alignment explanation
Indices: 11781714--11781996 Score: 335
Period size: 117 Copynumber: 2.3 Consensus size: 120
11781704 ATAAAATCCA
* * **
11781714 AAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTGAA-AACAAGCTTTCCAAAA
1 AAAAAAAGATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTT-AAGAACAAACTTTAAAAAA
* * *
11781777 GAATA-TTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTT-A-AA-AATAAATTTTC
64 AAAAAGTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTAATAATAATAAATTTTC
* * *
11781831 AAAAAAAGATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAGAATAAATTTTAAAAAAAA
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAACAAACTTTAAAAAAAA
11781896 AAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAAAATAATAATAAATTTTC
66 AAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT------AATAATAATAAATTTTC
**
11781957 AAAAAAAGGGTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
11781997 TCCTGCACAA
Statistics
Matches: 141, Mismatches: 13, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
116 2 0.01
117 79 0.56
118 9 0.06
124 1 0.01
125 2 0.01
126 48 0.34
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.34
Consensus pattern (120 bp):
AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAACAAACTTTAAAAAAAA
AAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAATAATAATAAATTTTC
Found at i:11785027 original size:19 final size:19
Alignment explanation
Indices: 11784986--11785034 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
11784976 AAGTAAAAAG
*
11784986 AAAAAGAAAAAAAGGAAAGA
1 AAAAAGAAAAAAAGG-AACA
11785006 AAAAGAGAAAAAAAGG-ACA
1 AAAA-AGAAAAAAAGGAACA
*
11785025 AAAATGAAAA
1 AAAAAGAAAA
11785035 TGAAAGGTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 5 0.19
19 6 0.23
20 4 0.15
21 11 0.42
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (19 bp):
AAAAAGAAAAAAAGGAACA
Found at i:11785810 original size:20 final size:20
Alignment explanation
Indices: 11785761--11785810 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
11785751 CGAAAGGGAA
*
11785761 AAAGAAAAAAATAACTAATG
1 AAAGAAAAAAATAACTAAAG
*
11785781 AAA-ACTAAAAATAAACTAAAG
1 AAAGA-AAAAAAT-AACTAAAG
11785802 AAAGAAAAA
1 AAAGAAAAA
11785811 TGGAAAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 1 0.04
20 9 0.38
21 13 0.54
22 1 0.04
ACGTcount: A:0.74, C:0.06, G:0.08, T:0.12
Consensus pattern (20 bp):
AAAGAAAAAAATAACTAAAG
Found at i:11795003 original size:46 final size:45
Alignment explanation
Indices: 11794939--11795026 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 45
11794929 AGATTTGAAC
* * *
11794939 TTTTCGAATATGAATCTTTCAAATTTTGGATATGAATTTTTAAAGT
1 TTTTCAAATATGAATCTTT-AAATCTTGGATATGAATCTTTAAAGT
* * * *
11794985 TTTTCAAATGTGATTCTTTGAATCTTGGATGTGAATCTTTAA
1 TTTTCAAATATGAATCTTTAAATCTTGGATATGAATCTTTAA
11795027 TCAAATGACA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
45 19 0.54
46 16 0.46
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.48
Consensus pattern (45 bp):
TTTTCAAATATGAATCTTTAAATCTTGGATATGAATCTTTAAAGT
Found at i:11795273 original size:43 final size:44
Alignment explanation
Indices: 11795171--11795584 Score: 327
Period size: 43 Copynumber: 9.5 Consensus size: 44
11795161 CCTTTTATAT
* *
11795171 TTTTTTCAAAAGTTGTTGAG-CTTCTAATGAAAGGAG-TTTTTAAA
1 TTTTTTC-AAAGTTGTTGAGCCTT-TGATGAAATGAGCTTTTTAAA
* * **
11795215 CTTTTTCAAAATTGTTGAGCCTTTGACAAAATGAGCTTTTTAAA
1 TTTTTTCAAAGTTGTTGAGCCTTTGATGAAATGAGCTTTTTAAA
* * * * *
11795259 -ATTTACAAAGTTGTTGAGCCTCTAATGAAATGAG-TTTTTTAA
1 TTTTTTCAAAGTTGTTGAGCCTTTGATGAAATGAGCTTTTTAAA
* * *
11795301 -TTTTT-AAGAGTTGTTAAGCCTTTAATGAAATGAGCCTTTTAAA
1 TTTTTTCAA-AGTTGTTGAGCCTTTGATGAAATGAGCTTTTTAAA
* * * * *
11795344 TTTTTTTTCAAAATTGTTGAGCCTCTAATGAGA-GAAGCCTTTTAAA
1 --TTTTTTCAAAGTTGTTGAGCCTTTGATGAAATG-AGCTTTTTAAA
* *
11795390 -ATTTTCAAAGTTGTGTGAGCC-TT--TGAAATGAGCCTTTTAAA
1 TTTTTTCAAAGTTGT-TGAGCCTTTGATGAAATGAGCTTTTTAAA
* * * * *
11795431 -TTTTTAAAAGTTGTTCAGCCTTTGATGAGAGGTGCTTTTTAAA
1 TTTTTTCAAAGTTGTTGAGCCTTTGATGAAATGAGCTTTTTAAA
* *
11795474 TTTTTTCAAAGTTGTTAAGCCTCTGATGAAATGAGCTTTTT--A
1 TTTTTTCAAAGTTGTTGAGCCTTTGATGAAATGAGCTTTTTAAA
* * * * *
11795516 TATTTTCAAAAATTGTTAAGCCTCTTG-TTAGATGAGCTTTTTAAA
1 TTTTTTC-AAAGTTGTTGAGCCT-TTGATGAAATGAGCTTTTTAAA
11795561 TTTTTTTTCAAAGTTGTTGAGCCT
1 --TTTTTTCAAAGTTGTTGAGCCT
11795585 CTGTTTGGAG
Statistics
Matches: 300, Mismatches: 49, Indels: 40
0.77 0.13 0.10
Matches are distributed among these distances:
40 5 0.02
41 31 0.10
42 42 0.14
43 106 0.35
44 59 0.20
45 2 0.01
46 47 0.16
47 8 0.03
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (44 bp):
TTTTTTCAAAGTTGTTGAGCCTTTGATGAAATGAGCTTTTTAAA
Found at i:11795479 original size:130 final size:128
Alignment explanation
Indices: 11795172--11795565 Score: 388
Period size: 128 Copynumber: 3.0 Consensus size: 128
11795162 CTTTTATATT
* * *
11795172 TTTTTCAAAAGTTGTTGAG-CTTCTAATGAAAGGAG-TTTTTAAACTTTTTCAAAATTGTTGAGC
1 TTTTT-AAAAGTTGTTAAGCCTT-TAATGAAAGGAGCCTTTTAAATTTTTTCAAAATTGTTGAGC
* ** * * *
11795235 CTTTGACAAAATGAGCTTTTTAAAATTTACAAAGTTGTTGAGCCTCTAATGAAATGAGTTTTTTA
64 CTCTGATGAAATGAGCCTTTTAAAATTTACAAAGTTGTTGAGCCTCT-ATGAAATGAGCTTTTAA
11795300 A
128 A
* *
11795301 TTTTTAAGAGTTGTTAAGCCTTTAATGAAATGAGCCTTTTAAATTTTTTTTCAAAATTGTTGAGC
1 TTTTTAAAAGTTGTTAAGCCTTTAATGAAAGGAGCCTTTTAAA--TTTTTTCAAAATTGTTGAGC
* * *
11795366 CTCTAATGAGA-GAAGCCTTTTAAAATTTTCAAAGTTGTGTGAGCCT-T-TGAAATGAGCCTTTT
64 CTCTGATGAAATG-AGCCTTTTAAAATTTACAAAGTTGT-TGAGCCTCTATGAAATGAG-CTTTT
11795428 AAA
126 AAA
* * * * * * *
11795431 TTTTTAAAAGTTGTTCAGCCTTTGATGAGAGGTGCTTTTTAAATTTTTTCAAAGTTGTTAAGCCT
1 TTTTTAAAAGTTGTTAAGCCTTTAATGAAAGGAGCCTTTTAAATTTTTTCAAAATTGTTGAGCCT
* * * * * *
11795496 CTGATGAAATGAG-CTTTTTATATTTTCAAAAATTGTTAAGCCTCT-TGTTAGATGAGCTTTTTA
66 CTGATGAAATGAGCCTTTTAAAATTTAC-AAAGTTGTTGAGCCTCTATG--AAATGAGC-TTTTA
11795559 AA
127 AA
11795561 TTTTT
1 TTTTT
11795566 TTTCAAAGTT
Statistics
Matches: 222, Mismatches: 30, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
127 18 0.08
128 61 0.27
129 26 0.12
130 61 0.27
131 49 0.22
132 7 0.03
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (128 bp):
TTTTTAAAAGTTGTTAAGCCTTTAATGAAAGGAGCCTTTTAAATTTTTTCAAAATTGTTGAGCCT
CTGATGAAATGAGCCTTTTAAAATTTACAAAGTTGTTGAGCCTCTATGAAATGAGCTTTTAAA
Found at i:11795489 original size:174 final size:173
Alignment explanation
Indices: 11795161--11795521 Score: 437
Period size: 174 Copynumber: 2.1 Consensus size: 173
11795151 GATAAGAATC
* * * *
11795161 CCTTTTATA-TTTTTTTCAAAAGTTGTTGAGCTTCTAATGAAAGGAGTTTTTAAACTTTTTCAAA
1 CCTTTTATATTTTTTTTCAAAAGTTGTTGAGCCTCTAATGAAAGAAGCTTTTAAACATTTTCAAA
* * *
11795225 ATTGTTGAGCCTTTGACAAAATGAGCTTTTTAAAATTTACAAAGTTGTTGAGCCTCTAATGAAAT
66 ATTGTTGAGCCTTTG--AAAATGAGCCTTTTAAAATTTACAAAGTTGTTCAGCCTCTAATGAAAG
* *
11795290 GAGTTTTTTAATTTTTAAGAGTTGTTAAGCCTTTAATGAAATGAG
129 GAGTTTTTAAATTTTTAAGAGTTGTTAAGCCTCTAATGAAATGAG
* *
11795335 CCTTTTAAATTTTTTTTCAAAA-TTGTTGAGCCTCTAATGAGAGAAGCCTTTTAAA-ATTTTCAA
1 CCTTTTATATTTTTTTTCAAAAGTTGTTGAGCCTCTAATGAAAGAAG-CTTTTAAACATTTTCAA
* * * * *
11795398 AGTTGTGTGAGCCTTTG-AAATGAGCCTTTTAAATTTTTA-AAAGTTGTTCAGCCTTTGATGAGA
65 AATTGT-TGAGCCTTTGAAAATGAGCCTTTTAAA-ATTTACAAAGTTGTTCAGCCTCTAATGAAA
* *
11795461 GGTGCTTTTTAAATTTTTTCAA-AGTTGTTAAGCCTCTGATGAAATGAG
128 GGAG-TTTTTAAA-TTTTT-AAGAGTTGTTAAGCCTCTAATGAAATGAG
*
11795509 CTTTTTATATTTT
1 CCTTTTATATTTT
11795522 CAAAAATTGT
Statistics
Matches: 160, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
172 37 0.23
173 11 0.07
174 81 0.51
175 31 0.19
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (173 bp):
CCTTTTATATTTTTTTTCAAAAGTTGTTGAGCCTCTAATGAAAGAAGCTTTTAAACATTTTCAAA
ATTGTTGAGCCTTTGAAAATGAGCCTTTTAAAATTTACAAAGTTGTTCAGCCTCTAATGAAAGGA
GTTTTTAAATTTTTAAGAGTTGTTAAGCCTCTAATGAAATGAG
Found at i:11795508 original size:87 final size:86
Alignment explanation
Indices: 11795172--11795587 Score: 357
Period size: 87 Copynumber: 4.8 Consensus size: 86
11795162 CTTTTATATT
* *
11795172 TTTTTCAAAAGTTGTTGAG-CTTCTAATGAAAGGAG-TTTTTAAACTTTTTCAAAATTGTTGAGC
1 TTTTT-AAAAGTTGTTGAGCCTT-TAATGAGAGGAGCTTTTTAAA-TTTTTCAAAGTTGTTGAGC
* ** *
11795235 CTTTGACAAAATGAGCTTTTTAAA
63 CTCTGATGAAATGAGCCTTTTAAA
* * * * * *
11795259 -ATTTACAAAGTTGTTGAGCCTCTAATGAAATGAG-TTTTTTAATTTTT-AAGAGTTGTTAAGCC
1 TTTTTA-AAAGTTGTTGAGCCTTTAATGAGAGGAGCTTTTTAAATTTTTCAA-AGTTGTTGAGCC
* *
11795321 TTTAATGAAATGAGCCTTTTAAA
64 TCTGATGAAATGAGCCTTTTAAA
* * * *
11795344 TTTTTTTTCAAAA-TTGTTGAGCCTCTAATGAGAGAAGCCTTTTAAAATTTTCAAAGTTGTGTGA
1 ---TTTTT-AAAAGTTGTTGAGCCTTTAATGAGAGGAGCTTTTTAAATTTTTCAAAGTTGT-TGA
11795408 GCCT-T--TGAAATGAGCCTTTTAAA
61 GCCTCTGATGAAATGAGCCTTTTAAA
* * * *
11795431 TTTTTAAAAGTTGTTCAGCCTTTGATGAGAGGTGCTTTTTAAATTTTTTCAAAGTTGTTAAGCCT
1 TTTTTAAAAGTTGTTGAGCCTTTAATGAGAGGAGCTTTTTAAA-TTTTTCAAAGTTGTTGAGCCT
* *
11795496 CTGATGAAATGAGCTTTTTATA
65 CTGATGAAATGAGCCTTTTAAA
* * * * * *
11795518 TTTTCAAAAATTGTTAAGCCTCTT-GTTAGATGAGCTTTTTAAATTTTTTTTCAAAGTTGTTGAG
1 TTTTTAAAAGTTGTTGAGCCT-TTAATGAGAGGAGCTTTTTAAA---TTTTTCAAAGTTGTTGAG
11795582 CCTCTG
62 CCTCTG
11795588 TTTGGAGGAG
Statistics
Matches: 274, Mismatches: 36, Indels: 36
0.79 0.10 0.10
Matches are distributed among these distances:
83 4 0.01
84 40 0.15
85 49 0.18
86 33 0.12
87 69 0.25
88 23 0.08
89 47 0.17
90 9 0.03
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (86 bp):
TTTTTAAAAGTTGTTGAGCCTTTAATGAGAGGAGCTTTTTAAATTTTTCAAAGTTGTTGAGCCTC
TGATGAAATGAGCCTTTTAAA
Found at i:11795833 original size:13 final size:13
Alignment explanation
Indices: 11795815--11795841 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11795805 GTAGGATAGA
11795815 TTATTTTATTTTT
1 TTATTTTATTTTT
11795828 TTATTTTATTTTT
1 TTATTTTATTTTT
11795841 T
1 T
11795842 GAGTTAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTATTTTATTTTT
Found at i:11797890 original size:28 final size:30
Alignment explanation
Indices: 11797859--11797914 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11797849 AATAAATTGT
* *
11797859 TTTGCTTTT-CAAAAT-AAATAAAAAAGTA
1 TTTGCTTTTAAAAAATGAAAAAAAAAAGTA
11797887 TTTGCTTTTAAAAAATGAAAAAAAAAAG
1 TTTGCTTTTAAAAAATGAAAAAAAAAAG
11797915 GGATTCAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 5 0.21
30 10 0.42
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.32
Consensus pattern (30 bp):
TTTGCTTTTAAAAAATGAAAAAAAAAAGTA
Found at i:11802454 original size:17 final size:15
Alignment explanation
Indices: 11802421--11802463 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 15
11802411 AAAATCTCAT
11802421 TTTTATTA-TTTTTA
1 TTTTATTATTTTTTA
11802435 TTTTATTATTTATTTAA
1 TTTTATTATTT-TTT-A
11802452 TTTTATTATTTT
1 TTTTATTATTTT
11802464 AAGATACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.31
15 2 0.08
16 4 0.15
17 12 0.46
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTATTATTTTTTA
Found at i:11802464 original size:14 final size:14
Alignment explanation
Indices: 11802421--11802465 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
11802411 AAAATCTCAT
*
11802421 TTTTATTATTTTTA
1 TTTTATTATTTTAA
11802435 TTTTATTATTTATTTAA
1 TTTTATTA--T-TTTAA
11802452 TTTTATTATTTTAA
1 TTTTATTATTTTAA
11802466 GATACAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 13 0.48
15 1 0.04
16 1 0.04
17 12 0.44
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTATTATTTTAA
Found at i:11806027 original size:16 final size:16
Alignment explanation
Indices: 11806008--11806039 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11805998 TAACTTCAAT
11806008 TTTAAATACTTTCACA
1 TTTAAATACTTTCACA
11806024 TTTAAATACTTTCACA
1 TTTAAATACTTTCACA
11806040 ATCATTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTAAATACTTTCACA
Found at i:11807820 original size:14 final size:14
Alignment explanation
Indices: 11807801--11807830 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11807791 GTTAGAAAAA
11807801 AAATAATAAAAGAT
1 AAATAATAAAAGAT
11807815 AAATAATAAAAGAT
1 AAATAATAAAAGAT
11807829 AA
1 AA
11807831 TTCTAGCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (14 bp):
AAATAATAAAAGAT
Found at i:11808007 original size:20 final size:20
Alignment explanation
Indices: 11807982--11808022 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
11807972 TTCTATTCAG
*
11807982 ATGGTTATGACTTTTTTTAT
1 ATGGTTATGACTTTTTGTAT
11808002 ATGGTTATGACTTTTTGTAT
1 ATGGTTATGACTTTTTGTAT
11808022 A
1 A
11808023 ATCATGACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.17, T:0.56
Consensus pattern (20 bp):
ATGGTTATGACTTTTTGTAT
Found at i:11808773 original size:15 final size:17
Alignment explanation
Indices: 11808738--11808775 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
11808728 TTCTTCACCA
*
11808738 TTTCTTGTTCTATTTTT
1 TTTCTTGTTCTATTCTT
11808755 TTTCTTG-TCT-TTCTT
1 TTTCTTGTTCTATTCTT
11808770 TTTCTT
1 TTTCTT
11808776 TTGCTTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 3 0.15
17 7 0.35
ACGTcount: A:0.03, C:0.16, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTCTTGTTCTATTCTT
Found at i:11808849 original size:13 final size:14
Alignment explanation
Indices: 11808818--11808848 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11808808 ACTTCCCATG
11808818 TTTTGCTTCAATTT
1 TTTTGCTTCAATTT
*
11808832 TTTTGTTTCAATTT
1 TTTTGCTTCAATTT
11808846 TTT
1 TTT
11808849 GCCTCTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (14 bp):
TTTTGCTTCAATTT
Found at i:11809224 original size:12 final size:13
Alignment explanation
Indices: 11809180--11809227 Score: 55
Period size: 12 Copynumber: 3.7 Consensus size: 13
11809170 TATATTTTAC
11809180 TTTTTATATGTAT
1 TTTTTATATGTAT
*
11809193 TTTTTATTTG-AT
1 TTTTTATATGTAT
11809205 GATTTTTATATGT-T
1 --TTTTTATATGTAT
11809219 TTTTTATAT
1 TTTTTATAT
11809228 AGTTGGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 11 0.37
13 9 0.30
14 10 0.33
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (13 bp):
TTTTTATATGTAT
Found at i:11814019 original size:57 final size:56
Alignment explanation
Indices: 11813899--11814234 Score: 435
Period size: 57 Copynumber: 5.8 Consensus size: 56
11813889 TTGTGTAGGA
*
11813899 AAAATTGATACTTTCAACTTTT-CCCTAAAATATTTTTT-GAAATTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTT-AAGG
11813954 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTATAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTT-TAAGG
* * *
11814011 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAA-TTT-ATTT-TAAGG
* ***
11814071 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTT-GAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTA-TTTTAAGG
* * *
11814127 AAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTCGGAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAA-TTT-ATTTT-AAGG
*
11814186 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTT
11814235 TGATTTTTAT
Statistics
Matches: 250, Mismatches: 18, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
55 22 0.09
56 52 0.21
57 57 0.23
58 22 0.09
59 45 0.18
60 42 0.17
61 10 0.04
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTAAGG
Found at i:11814146 original size:116 final size:115
Alignment explanation
Indices: 11813899--11814234 Score: 475
Period size: 115 Copynumber: 2.9 Consensus size: 115
11813889 TTGTGTAGGA
*
11813899 AAAATTGATACTTTCAACTTTTCC-CTAAAATA-TTTTTTGAAATTT-ATTTTCAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTGATTTTCAAGGAAAATTG
* *
11813961 ATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTATAAGG
66 ATACTTTCAACTTTTCCCCAAAAACACTTTTTGGAAATTTATTTATAAGG
*
11814011 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAA-TTTGATTTTCAAGGAAAAT
* * *
11814076 TGATACTTTCAACTTTTCCTCAAAAACCCTTTTT-GAAATTTATTTTTAAGG
64 TGATACTTTCAACTTTTCCCCAAAAACACTTTTTGGAAATTTATTTATAAGG
**
11814127 AAAATTGATACTTTCAACTTTT-CTCTAAAAATATTTTTCGGAAATTTTGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAA-TTTGATTTTCAAGGAAAAT
* * *
11814191 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTT
64 TGATACTTTCAACTTTTCCCCAAAAACA--CTTTTTGGAAATTT
11814235 TGATTTTTAT
Statistics
Matches: 199, Mismatches: 16, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
112 24 0.12
113 7 0.04
115 64 0.32
116 48 0.24
117 49 0.25
118 7 0.04
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (115 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTGATTTTCAAGGAAAATTG
ATACTTTCAACTTTTCCCCAAAAACACTTTTTGGAAATTTATTTATAAGG
Found at i:11814269 original size:5 final size:5
Alignment explanation
Indices: 11814261--11814333 Score: 55
Period size: 5 Copynumber: 14.4 Consensus size: 5
11814251 AAAATAGAAT
*
11814261 AATAA AATAA AA-AA AATGAA AGTGAA AAT-A AATAA AA-ATA AA-AA
1 AATAA AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATA-A AATAA
*
11814305 AACAA AATAAA AATAA AATAA AGATAA AA
1 AATAA AAT-AA AATAA AATAA A-ATAA AA
11814334 AGAATATTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
4 12 0.21
5 27 0.47
6 19 0.33
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:11814299 original size:6 final size:6
Alignment explanation
Indices: 11814290--11814334 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
11814280 AAGTGAAAAT
* *
11814290 AAATAA AAATAA AAAAACA AAATAA AAAT-A AAATAA AGATAA AAA
1 AAATAA AAATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAA
11814335 GAATATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 5 0.15
6 23 0.70
7 5 0.15
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.13
Consensus pattern (6 bp):
AAATAA
Found at i:11814369 original size:11 final size:10
Alignment explanation
Indices: 11814264--11814375 Score: 72
Period size: 10 Copynumber: 10.8 Consensus size: 10
11814254 ATAGAATAAT
11814264 AAAATAAA-A
1 AAAATAAATA
*
11814273 AAAATGAAAGTG
1 AAAAT-AAA-TA
11814285 AAAATAAATA
1 AAAATAAATA
11814295 AAAATAAA-A
1 AAAATAAATA
11814304 AAACA-AAATA
1 AAA-ATAAATA
11814314 AAAATAAAATA
1 AAAAT-AAATA
*
11814325 AAGATAAA-A
1 AAAATAAATA
11814334 AGAATATTAAATA
1 A-AA-A-TAAATA
**
11814347 AACCTAATATA
1 AAAATAA-ATA
11814358 ATAAATAAAT-
1 A-AAATAAATA
11814368 AAAATAAA
1 AAAATAAA
11814376 CAAACAAATA
Statistics
Matches: 82, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
9 22 0.27
10 25 0.30
11 19 0.23
12 14 0.17
13 2 0.02
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (10 bp):
AAAATAAATA
Found at i:11814758 original size:19 final size:20
Alignment explanation
Indices: 11814717--11814760 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
11814707 ACACCGATGC
* *
11814717 CGAATTCTGGAAAATGTCGT
1 CGAAATCTGGAAAATGTCAT
*
11814737 CGAAATCTGG-AAATTTCAT
1 CGAAATCTGGAAAATGTCAT
11814756 CGAAA
1 CGAAA
11814761 GTTGGCCGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (20 bp):
CGAAATCTGGAAAATGTCAT
Found at i:11814946 original size:26 final size:25
Alignment explanation
Indices: 11814892--11814944 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
11814882 AATCTAGAAA
11814892 TTTCCCAAAAATTTCCAGAAAAATT
1 TTTCCCAAAAATTTCCAGAAAAATT
*
11814917 TTTCGCCAAAAATTTCTA-AAAAATT
1 TTTC-CCAAAAATTTCCAGAAAAATT
11814942 TTT
1 TTT
11814945 TCTCACTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.38
Consensus pattern (25 bp):
TTTCCCAAAAATTTCCAGAAAAATT
Found at i:11815476 original size:34 final size:34
Alignment explanation
Indices: 11815436--11815522 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
11815426 AAATCTAATC
* *
11815436 TAATAATAAAAAAAAAT-AAATATATATTAATACA
1 TAATAATAAAAAAAAATAAAATACATA-AAATACA
* *
11815470 TAATAATAATAAATAATAAAATACATAAAATACA
1 TAATAATAAAAAAAAATAAAATACATAAAATACA
* *
11815504 AAAAAATAGAAAAAAAATA
1 TAATAATA-AAAAAAAATA
11815523 CAGGATAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
34 27 0.63
35 16 0.37
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.24
Consensus pattern (34 bp):
TAATAATAAAAAAAAATAAAATACATAAAATACA
Done.