Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 107 of 311
Found at i:35334924 original size:79 final size:79
Alignment explanation
Indices: 35334771--35334935 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
35334761 GGACTAAGAT
* * **
35334771 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGCGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
35334836 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
35334850 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
35334913 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
35334929 CCGAAGG
1 CCGAAGG
35334936 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:35340547 original size:18 final size:19
Alignment explanation
Indices: 35340494--35340548 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
35340484 ATTACAAAAT
*
35340494 AATTCAAAATAATTT-TCATA
1 AATTCAAAAT-ATTTAT-AAA
35340514 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
*
35340533 AATTCCAAA-ATTTATA
1 AATTCAAAATATTTATA
35340549 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.22
19 14 0.44
20 11 0.34
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:35356362 original size:325 final size:325
Alignment explanation
Indices: 35355772--35356741 Score: 1701
Period size: 325 Copynumber: 3.0 Consensus size: 325
35355762 CCCTTTGGAG
*
35355772 AAAAAGGTAACCACGTATGGGGAAAGCCCCAAGGTTATTTATGATTAAACTGATCAGAAAGGCAT
1 AAAAAGGTAACCACGTATGGGGAAAGCCCCAAGGTTATTTATGATTAAACTGATCATAAAGGCAT
* * * *
35355837 TTACTCAAGAACAGTTGCTATATGGATAAATTACCCCATACAACAGTAAGTGTTTCAACCTCCTC
66 TTACT--AGACCAGTTCCTATATGGATAAATTACCCCATACAACAATAAGTGTCTCAACCTCCTC
* *
35355902 TGTTGCTTGCTTGAAATAAAAT-AAAGAACACTATGATTTCCCTTCTCTACATTATTATCTCTCT
129 TGTTGCTTGCTTGAAATAAAATAAAAAAACACTATGATTTCCCTTCTCTACATTATTATCCCTCT
35355966 -AAATGTTGAAATTTTTTATAATAATTAAAGAAACAACTTTCAAGGTTTCCTAATTGATAGAAAT
194 AAAATGTTGAAATTTTTTATAATAATTAAAGAAACAACTTTCAAGGTTTCCTAATTGATAGAAAT
35356030 TATTGTCTTGATACAATGATTGTTTCCAAGATGAAGAGAGAGAGTCAAAAACATGCCAGGGTAAA
259 TATTGTCTTGATACAATGATTGTTTCCAAGATGAAGAGAGAGAGTCAAAAACATGCCAGGGTAAA
35356095 AT
324 AT
* * * *
35356097 AAAAAGGTAACCACGCATGGGGCAAGCCCCAAGGTTATTTAAGATTCAACTGATCATAAAGGCAT
1 AAAAAGGTAACCACGTATGGGGAAAGCCCCAAGGTTATTTATGATTAAACTGATCATAAAGGCAT
* *
35356162 TTACTAGACCAGTTCCCATATGGATAAATTACCCCATAAAACAATAAGTGTCTCAACCTCCTCTG
66 TTACTAGACCAGTTCCTATATGGATAAATTACCCCATACAACAATAAGTGTCTCAACCTCCTCTG
*
35356227 TTGCTTGCTTGAAATAAAATAAAAAAACACTATGATTTCCCTTCTCTACGTTATTATCCCTCTAA
131 TTGCTTGCTTGAAATAAAATAAAAAAACACTATGATTTCCCTTCTCTACATTATTATCCCTCTAA
*
35356292 AATGTTGAAATTTTTTATAATAATTAAAGAAACAACTTTCAAGGTTTCCTAATTGACAGAAATTA
196 AATGTTGAAATTTTTTATAATAATTAAAGAAACAACTTTCAAGGTTTCCTAATTGATAGAAATTA
*
35356357 TTGTCTTGATACAATGATTGTTTCCAAGATGAAGAGAGAGAGGCAAAAACATGCCAGGGTAAAAT
261 TTGTCTTGATACAATGATTGTTTCCAAGATGAAGAGAGAGAGTCAAAAACATGCCAGGGTAAAAT
*
35356422 AAAAAGGTAACCACGTATGGGGAAAGCCCCAAGGTTATTTATGATTAAACTGATCATAACGGCAT
1 AAAAAGGTAACCACGTATGGGGAAAGCCCCAAGGTTATTTATGATTAAACTGATCATAAAGGCAT
* ** *
35356487 TTACTCGACCAGTTCCTATATTTATAAATTACCCCATACAATAATAAGTGTCTCAACCTCCTCTG
66 TTACTAGACCAGTTCCTATATGGATAAATTACCCCATACAACAATAAGTGTCTCAACCTCCTCTG
*
35356552 TTGCTTGCTTGAAATAAAATAAAAAAACACTATGATTTCCCTTCTCTTCATTATTATCCCTCTAA
131 TTGCTTGCTTGAAATAAAATAAAAAAACACTATGATTTCCCTTCTCTACATTATTATCCCTCTAA
*
35356617 AATATTGAAATTTTTTATAATAATTAAAGAAACAACTTTCAAGGTTTCCTAATTGATAGAAATTA
196 AATGTTGAAATTTTTTATAATAATTAAAGAAACAACTTTCAAGGTTTCCTAATTGATAGAAATTA
35356682 TTGTCTTGATACAATGATTGTTTCCAAGATGAAGAGAGAGAGTCAAAAACATGCCAGGGT
261 TTGTCTTGATACAATGATTGTTTCCAAGATGAAGAGAGAGAGTCAAAAACATGCCAGGGT
35356742 CTTCATCAAC
Statistics
Matches: 611, Mismatches: 32, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
323 74 0.12
324 39 0.06
325 498 0.82
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (325 bp):
AAAAAGGTAACCACGTATGGGGAAAGCCCCAAGGTTATTTATGATTAAACTGATCATAAAGGCAT
TTACTAGACCAGTTCCTATATGGATAAATTACCCCATACAACAATAAGTGTCTCAACCTCCTCTG
TTGCTTGCTTGAAATAAAATAAAAAAACACTATGATTTCCCTTCTCTACATTATTATCCCTCTAA
AATGTTGAAATTTTTTATAATAATTAAAGAAACAACTTTCAAGGTTTCCTAATTGATAGAAATTA
TTGTCTTGATACAATGATTGTTTCCAAGATGAAGAGAGAGAGTCAAAAACATGCCAGGGTAAAAT
Found at i:35358582 original size:35 final size:34
Alignment explanation
Indices: 35358536--35358603 Score: 118
Period size: 35 Copynumber: 2.0 Consensus size: 34
35358526 AATGATAAAG
35358536 TAAAGAGTGCAAGTGAAGTGTCTTGCATGGGTAT
1 TAAAGAGTGCAAGTGAAGTGTCTTGCATGGGTAT
*
35358570 TAAAGATGTGCAATTGAAGTGTCTTGCATGGGTA
1 TAAAGA-GTGCAAGTGAAGTGTCTTGCATGGGTA
35358604 AAATACTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 6 0.19
35 26 0.81
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.31
Consensus pattern (34 bp):
TAAAGAGTGCAAGTGAAGTGTCTTGCATGGGTAT
Found at i:35361022 original size:24 final size:23
Alignment explanation
Indices: 35360995--35361040 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
35360985 AAAATTTAAT
* *
35360995 AGCTATAGAGTCTTAATTAGAAAA
1 AGCT-TAGAGACTTAAATAGAAAA
*
35361019 AGCTTAGGGACTTAAATAGAAA
1 AGCTTAGAGACTTAAATAGAAA
35361041 TTATCCAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.26
Consensus pattern (23 bp):
AGCTTAGAGACTTAAATAGAAAA
Found at i:35362355 original size:51 final size:52
Alignment explanation
Indices: 35362231--35362443 Score: 293
Period size: 52 Copynumber: 4.1 Consensus size: 52
35362221 CATTTTTCGA
* * *
35362231 TGAGTGATCGGGCTCCGTTATGAGTATGCTATTTACTAAGCTTATAAAAGTG
1 TGAGTGATTGGGCTCCGTTATGAGTATGTTCTTTACTAAGCTTATAAAAGTG
** * *
35362283 TGAGTGATTGGGCTCTATTATGAGTATTTTCTTTACTAA-CTTTTAAAAGTG
1 TGAGTGATTGGGCTCCGTTATGAGTATGTTCTTTACTAAGCTTATAAAAGTG
* ** *
35362334 GGAGTGATTGGGCTCCGTTATGAGTATGTTCCATACTAAGCTTATAAAAATG
1 TGAGTGATTGGGCTCCGTTATGAGTATGTTCTTTACTAAGCTTATAAAAGTG
* * *
35362386 TGAGTGATTGGGCTTCGTTATGAGTATGTTCTTTACTAAGCTTTTAAAAGTA
1 TGAGTGATTGGGCTCCGTTATGAGTATGTTCTTTACTAAGCTTATAAAAGTG
35362438 TGAGTG
1 TGAGTG
35362444 GTTTGGAATT
Statistics
Matches: 138, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
51 44 0.32
52 94 0.68
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.38
Consensus pattern (52 bp):
TGAGTGATTGGGCTCCGTTATGAGTATGTTCTTTACTAAGCTTATAAAAGTG
Found at i:35362411 original size:103 final size:104
Alignment explanation
Indices: 35362232--35362436 Score: 315
Period size: 103 Copynumber: 2.0 Consensus size: 104
35362222 ATTTTTCGAT
** *
35362232 GAGTGATCGGGCTCCGTTATGAGTATGCTATTTACTAAGCTTATAAAAGTGTGAGTGATTGGGCT
1 GAGTGATCGGGCTCCGTTATGAGTATGCTACATACTAAGCTTATAAAAATGTGAGTGATTGGGCT
*
35362297 CTATTATGAGTATTTTCTTTACTAA-CTTTTAAAAGTGG
66 CTATTATGAGTATGTTCTTTACTAAGCTTTTAAAAGTGG
* * *
35362335 GAGTGATTGGGCTCCGTTATGAGTATGTTCCATACTAAGCTTATAAAAATGTGAGTGATTGGGCT
1 GAGTGATCGGGCTCCGTTATGAGTATGCTACATACTAAGCTTATAAAAATGTGAGTGATTGGGCT
*
35362400 -TCGTTATGAGTATGTTCTTTACTAAGCTTTTAAAAGT
66 CT-ATTATGAGTATGTTCTTTACTAAGCTTTTAAAAGT
35362437 ATGAGTGGTT
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
102 1 0.01
103 80 0.87
104 11 0.12
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (104 bp):
GAGTGATCGGGCTCCGTTATGAGTATGCTACATACTAAGCTTATAAAAATGTGAGTGATTGGGCT
CTATTATGAGTATGTTCTTTACTAAGCTTTTAAAAGTGG
Found at i:35362762 original size:40 final size:40
Alignment explanation
Indices: 35362672--35362910 Score: 164
Period size: 40 Copynumber: 5.9 Consensus size: 40
35362662 AAATGATTTT
* * *
35362672 ACAAGTTGTGTATCGGCAAAGCTCCTCC-ATGAG-TTAAGG
1 ACAAGTTGTGTATCAGCGAAGCTCC-CCTATGAGCTTATGG
* * *
35362711 ATAAGTTGTGTATTAGCGAAGCTCCCCTGTGAGCTTATGG
1 ACAAGTTGTGTATCAGCGAAGCTCCCCTATGAGCTTATGG
* * * *
35362751 ACAAGTTGTGTATCAACGGAGCTCCCCTTTGAGCTTATAG
1 ACAAGTTGTGTATCAGCGAAGCTCCCCTATGAGCTTATGG
* * * * * * *
35362791 ATC-AGCTGCGTATCAGCAAAGCTCCTCTATGAACTAAT-A
1 A-CAAGTTGTGTATCAGCGAAGCTCCCCTATGAGCTTATGG
* * * *
35362830 ATAAGTTGTGGATCAGTGAAGCTCCCC-ACGTGAGCTTAAGTG
1 ACAAGTTGTGTATCAGCGAAGCTCCCCTA--TGAGCTTATG-G
* * *
35362872 ATGAAGTTGTGTATCAGTGAAGCTCCCCATATGAACTTA
1 A-CAAGTTGTGTATCAGCGAAGCTCCCC-TATGAGCTTA
35362911 AGTGATAGTG
Statistics
Matches: 153, Mismatches: 36, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
38 3 0.02
39 44 0.29
40 72 0.47
41 1 0.01
42 1 0.01
43 31 0.20
45 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (40 bp):
ACAAGTTGTGTATCAGCGAAGCTCCCCTATGAGCTTATGG
Found at i:35362888 original size:43 final size:43
Alignment explanation
Indices: 35362832--35362916 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
35362822 AACTAATAAT
* *
35362832 AAGTTGTGGATCAGTGAAGCTCCCCACGTGAGCTTAAGTGATG
1 AAGTTGTGGATCAGTGAAGCTCCCCACATGAACTTAAGTGATG
* *
35362875 AAGTTGTGTATCAGTGAAGCTCCCCATATGAACTTAAGTGAT
1 AAGTTGTGGATCAGTGAAGCTCCCCACATGAACTTAAGTGAT
35362917 AGTGCTCCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (43 bp):
AAGTTGTGGATCAGTGAAGCTCCCCACATGAACTTAAGTGATG
Found at i:35366606 original size:105 final size:105
Alignment explanation
Indices: 35366419--35366634 Score: 423
Period size: 105 Copynumber: 2.0 Consensus size: 105
35366409 TGTAGATGTA
35366419 ATGTAAATGAACATGTGTAAAAATGTTATCCATCAAAATAAATTATACGAATCACTCATAGATAT
1 ATGT-AATGAACATGTGTAAAAATGTTATCCATCAAAATAAATTATACGAATCACTCATAGATAT
35366484 TTAAAGAGAATTATTCATGTTCTTTCCAACAAATACAAGCT
65 TTAAAGAGAATTATTCATGTTCTTTCCAACAAATACAAGCT
35366525 ATGTAATGAACATGTGTAAAAATGTTATCCATCAAAATAAATTATACGAATCACTCATAGATATT
1 ATGTAATGAACATGTGTAAAAATGTTATCCATCAAAATAAATTATACGAATCACTCATAGATATT
35366590 TAAAGAGAATTATTCATGTTCTTTCCAACAAATACAAGCT
66 TAAAGAGAATTATTCATGTTCTTTCCAACAAATACAAGCT
35366630 ATGTA
1 ATGTA
35366635 CAAATTAATG
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
105 106 0.96
106 4 0.04
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (105 bp):
ATGTAATGAACATGTGTAAAAATGTTATCCATCAAAATAAATTATACGAATCACTCATAGATATT
TAAAGAGAATTATTCATGTTCTTTCCAACAAATACAAGCT
Found at i:35369355 original size:20 final size:20
Alignment explanation
Indices: 35369317--35369355 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
35369307 TTGAGTTGGT
35369317 CATACGGGCATGTTGCCCTTC
1 CATACGGG-ATGTTGCCCTTC
35369338 CATACGGG-TGTGTGCCCT
1 CATACGGGATGT-TGCCCT
35369356 GTTTTAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 6 0.35
21 8 0.47
ACGTcount: A:0.13, C:0.31, G:0.28, T:0.28
Consensus pattern (20 bp):
CATACGGGATGTTGCCCTTC
Found at i:35377176 original size:25 final size:25
Alignment explanation
Indices: 35377115--35377176 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
35377105 TTTGCTTGAA
*
35377115 AATTTATGTGATAGGAAAATCGTATG
1 AATTTA-GTGATAGGAAAATCGTATC
* * **
35377141 AAATTATTGATAGGAAAATTTTATC
1 AATTTAGTGATAGGAAAATCGTATC
35377166 AATTTAGTGAT
1 AATTTAGTGAT
35377177 TATTTAGAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.40, C:0.03, G:0.18, T:0.39
Consensus pattern (25 bp):
AATTTAGTGATAGGAAAATCGTATC
Found at i:35383554 original size:21 final size:21
Alignment explanation
Indices: 35383513--35383555 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35383503 ACTACCACAA
* * *
35383513 AAAAATAACAAATATAGAATT
1 AAAAACAACAAATACAAAATT
35383534 AAAAACAACAAATACAAAATT
1 AAAAACAACAAATACAAAATT
35383555 A
1 A
35383556 TTCAATAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (21 bp):
AAAAACAACAAATACAAAATT
Found at i:35384413 original size:28 final size:28
Alignment explanation
Indices: 35384373--35384428 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
35384363 TGAGTAATGG
35384373 TGATGTGCGAGTGCAAATAAATTACATC
1 TGATGTGCGAGTGCAAATAAATTACATC
35384401 TGATGTGCGAGTGCAAATAAATTACATC
1 TGATGTGCGAGTGCAAATAAATTACATC
35384429 CACATCTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (28 bp):
TGATGTGCGAGTGCAAATAAATTACATC
Found at i:35385519 original size:19 final size:19
Alignment explanation
Indices: 35385487--35385523 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35385477 GTAATACCGA
*
35385487 GGGGTGGGTATCGCGATAG
1 GGGGTAGGTATCGCGATAG
*
35385506 GGGGTAGGTGTCGCGATA
1 GGGGTAGGTATCGCGATA
35385524 CCATTATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.11, G:0.51, T:0.22
Consensus pattern (19 bp):
GGGGTAGGTATCGCGATAG
Found at i:35406375 original size:24 final size:23
Alignment explanation
Indices: 35406340--35406385 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
35406330 CCTATTACAT
*
35406340 GGCTCTTTGTGAGCATTCTTGATA
1 GGCTCTTTGTGAGC-TTCCTGATA
35406364 GGCT-TTTCGTGAGCTTCCTGAT
1 GGCTCTTT-GTGAGCTTCCTGAT
35406386 TAAAAGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.13, C:0.20, G:0.26, T:0.41
Consensus pattern (23 bp):
GGCTCTTTGTGAGCTTCCTGATA
Found at i:35410100 original size:25 final size:25
Alignment explanation
Indices: 35410072--35410150 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
35410062 TAGCTCGTAT
35410072 GAGCTTATCGATTTACAGCTCATGA
1 GAGCTTATCGATTTACAGCTCATGA
* *
35410097 GAGCTTA-CTGATTCT-TAGCTCGT-A
1 GAGCTTATC-GATT-TACAGCTCATGA
*
35410121 TGAGCTTATCGATTCACAGCTCATGA
1 -GAGCTTATCGATTTACAGCTCATGA
35410147 GAGC
1 GAGC
35410151 ATACCAATTC
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
24 2 0.05
25 38 0.88
26 3 0.07
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (25 bp):
GAGCTTATCGATTTACAGCTCATGA
Found at i:35410140 original size:50 final size:50
Alignment explanation
Indices: 35410060--35410175 Score: 178
Period size: 50 Copynumber: 2.3 Consensus size: 50
35410050 GCGAACACAC
* * **
35410060 CATAGCTCGTATGAGCTTATCGATTTACAGCTCATGAGAGCTTACTGATT
1 CATAGCTCGTATGAGCTTATCGATTCACAGCTCATGAGAGCATACCAATT
*
35410110 CTTAGCTCGTATGAGCTTATCGATTCACAGCTCATGAGAGCATACCAATT
1 CATAGCTCGTATGAGCTTATCGATTCACAGCTCATGAGAGCATACCAATT
*
35410160 CATAGCTCTTATGAGC
1 CATAGCTCGTATGAGC
35410176 ATACTTGTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (50 bp):
CATAGCTCGTATGAGCTTATCGATTCACAGCTCATGAGAGCATACCAATT
Found at i:35410175 original size:25 final size:25
Alignment explanation
Indices: 35410107--35410179 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
35410097 GAGCTTACTG
* * * * *
35410107 ATTCTTAGCTCGTATGAGCTTATCG
1 ATTCATAGCTCTTATGAGCATACCA
* *
35410132 ATTCACAGCTCATGA-GAGCATACCA
1 ATTCATAGCTC-TTATGAGCATACCA
35410157 ATTCATAGCTCTTATGAGCATAC
1 ATTCATAGCTCTTATGAGCATAC
35410180 TTGTATATGA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
24 2 0.05
25 34 0.92
26 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (25 bp):
ATTCATAGCTCTTATGAGCATACCA
Found at i:35411026 original size:31 final size:31
Alignment explanation
Indices: 35410983--35411046 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
35410973 CCTTTTCATA
35410983 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
35411014 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
35411045 TT
1 TT
35411047 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:35411290 original size:23 final size:23
Alignment explanation
Indices: 35411239--35411358 Score: 150
Period size: 24 Copynumber: 5.0 Consensus size: 23
35411229 GCTTTATCAT
**
35411239 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCC-CTTTTA
*
35411264 ATAACTGGGGCAAAGCCCTTTTG
1 ATAACTGGGGCAAAGCCCTTTTA
*
35411287 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCA-AAGCCCTTTTA
35411311 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGC-AAAGCCCTTTTA
*
35411335 ATAACTCGGGCAAAAGCCCTTTTA
1 ATAACTGGGGC-AAAGCCCTTTTA
35411359 CACTTCCTCC
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 17 0.19
24 62 0.70
25 9 0.10
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
ATAACTGGGGCAAAGCCCTTTTA
Found at i:35411303 original size:24 final size:24
Alignment explanation
Indices: 35411253--35411358 Score: 160
Period size: 24 Copynumber: 4.4 Consensus size: 24
35411243 CTGGAGGCCT
35411253 AGCCTCTTTTAATAACTGGGGC-AA
1 AGCC-CTTTTAATAACTGGGGCAAA
* *
35411277 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCAAA
*
35411301 AGCCCTTTTGATAACTGGGGCAAA
1 AGCCCTTTTAATAACTGGGGCAAA
*
35411325 AGCCCTTTTAATAACTCGGGCAAA
1 AGCCCTTTTAATAACTGGGGCAAA
35411349 AGCCCTTTTA
1 AGCCCTTTTA
35411359 CACTTCCTCC
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
23 16 0.21
24 60 0.79
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCAAA
Found at i:35411429 original size:9 final size:9
Alignment explanation
Indices: 35411415--35411471 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
35411405 ATCTCATGTG
35411415 CATATCATA
1 CATATCATA
*
35411424 CATATCATGTG
1 CATATCA--TA
35411435 CATATCATA
1 CATATCATA
* *
35411444 CATGTCATGTG
1 CATATCA--TA
35411455 CATATCATA
1 CATATCATA
35411464 CATATCAT
1 CATATCAT
35411472 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:35411431 original size:20 final size:20
Alignment explanation
Indices: 35411403--35411473 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
35411393 GCATTTATGA
*
35411403 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
35411423 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
35411443 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
35411463 ACATATCATGT
1 ACATATCATGT
35411474 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:35411438 original size:11 final size:11
Alignment explanation
Indices: 35411408--35411462 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
35411398 TATGAACATC
35411408 TCATGTGCATA
1 TCATGTGCATA
*
35411419 TCA--TACATA
1 TCATGTGCATA
35411428 TCATGTGCATA
1 TCATGTGCATA
* *
35411439 TCA--TACATG
1 TCATGTGCATA
35411448 TCATGTGCATA
1 TCATGTGCATA
35411459 TCAT
1 TCAT
35411463 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:35419100 original size:31 final size:31
Alignment explanation
Indices: 35419057--35419120 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
35419047 CCTTTTCATA
35419057 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
35419088 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
35419119 TT
1 TT
35419121 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:35419375 original size:24 final size:24
Alignment explanation
Indices: 35419311--35419453 Score: 202
Period size: 24 Copynumber: 6.0 Consensus size: 24
35419301 GCTTTATCAT
*
35419311 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
35419336 ATAACTGGGGCA-AAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
35419359 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
35419383 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
35419407 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
35419431 ATAACT-GGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
35419454 CACTTCCTCC
Statistics
Matches: 112, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
23 34 0.30
24 70 0.62
25 8 0.07
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:35419524 original size:9 final size:9
Alignment explanation
Indices: 35419510--35419566 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
35419500 ATCTCATGTG
35419510 CATATCATA
1 CATATCATA
*
35419519 CATATCATGTG
1 CATATCA--TA
35419530 CATATCATA
1 CATATCATA
* *
35419539 CATGTCATGTG
1 CATATCA--TA
35419550 CATATCATA
1 CATATCATA
35419559 CATATCAT
1 CATATCAT
35419567 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:35419526 original size:20 final size:20
Alignment explanation
Indices: 35419498--35419568 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
35419488 GCATTTATGA
*
35419498 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
35419518 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
35419538 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
35419558 ACATATCATGT
1 ACATATCATGT
35419569 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:35419533 original size:11 final size:11
Alignment explanation
Indices: 35419503--35419557 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
35419493 TATGAACATC
35419503 TCATGTGCATA
1 TCATGTGCATA
*
35419514 TCA--TACATA
1 TCATGTGCATA
35419523 TCATGTGCATA
1 TCATGTGCATA
* *
35419534 TCA--TACATG
1 TCATGTGCATA
35419543 TCATGTGCATA
1 TCATGTGCATA
35419554 TCAT
1 TCAT
35419558 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:35419633 original size:25 final size:25
Alignment explanation
Indices: 35419605--35419652 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35419595 ATATATAAAC
* * *
35419605 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
35419630 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
35419653 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:35425616 original size:75 final size:76
Alignment explanation
Indices: 35425458--35425673 Score: 276
Period size: 75 Copynumber: 2.9 Consensus size: 76
35425448 ATGAAAAACT
* * * *
35425458 AGGATTATTCCGTTACTAATAAAGAAGACAAATGAAAAGTTAGAAAAAGGAATTATATTCTTTCC
1 AGGATTATTCCATTATTAATAAAGAAGACAAATGGAAAGTTAGAAAAAAGAATTATATTCTTTCC
* *
35425523 -AAAAGAATAT
66 AAAAAAAATAC
* * * *
35425533 AGGATTATTCCATTATTAATATAGAA-AAAAATGGAAAGTTAGAAAAATGAATTATATTATTTCC
1 AGGATTATTCCATTATTAATAAAGAAGACAAATGGAAAGTTAGAAAAAAGAATTATATTCTTTCC
35425597 AAAAAAAATAC
66 AAAAAAAATAC
* * * *
35425608 AGGATTATT-CATTTATTACTAGAGAATACAAATGGAAAGTTAGAAAAAAGAATTGTATTCTTTC
1 AGGATTATTCCA-TTATTAATAAAGAAGACAAATGGAAAGTTAGAAAAAAGAATTATATTCTTTC
35425672 CA
65 CA
35425674 GAAGAATATT
Statistics
Matches: 123, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
74 36 0.29
75 52 0.42
76 35 0.28
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (76 bp):
AGGATTATTCCATTATTAATAAAGAAGACAAATGGAAAGTTAGAAAAAAGAATTATATTCTTTCC
AAAAAAAATAC
Found at i:35426000 original size:138 final size:138
Alignment explanation
Indices: 35425658--35426220 Score: 801
Period size: 138 Copynumber: 4.1 Consensus size: 138
35425648 TAGAAAAAAG
* * * * *
35425658 AATTGTATTCTTTCCAGAAGAATATTAATGTT-CATGTTTTTTTTTATATTTTAACTGAAATTAA
1 AATTATATTCTTCCCAAAAGAATATTAAT-TTCCA---TTTCTTTTATATTTTGACTGAAATTAA
*
35425722 TTAATATAA-TCGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGCATGAA-C
62 TTAATATAACTC-TTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATC
35425785 AAATTCATATATT
126 AAATTCATATATT
* * **
35425798 AATTATATTCTTCCCAAAAGAATAATAATTTCCATATCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTCCCAAAAGAATATTAATTTCCATTTCTTTTATATTTTGACTGAAATTAATTAA
*
35425863 TATAACTCTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTCTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
35425928 CATATATT
131 CATATATT
* * * *
35425936 AATTATATTCTTTCCAAAAGAATATTAATTTCCATCTATTTTATATTTTGATTGAAACTT-ATTA
1 AATTATATTCTTCCCAAAAGAATATTAATTTCCATTTCTTTTATATTTTGACTGAAA-TTAATTA
* * *
35426000 ACATAACTGTTTATATTAATAAATTCGGTAAAATATATACAACTAATATTTTGTATGAATCAAAT
65 ATATAACTCTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
35426065 TCATATATT
130 TCATATATT
* *
35426074 AATTATATTCTTCCCAAAATAATATTAATTTCTATTTCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTCCCAAAAGAATATTAATTTCCATTTCTTTTATATTTTGACTGAAATTAATTAA
* * * * *
35426139 TATAAATGTTTATATTAATGAATTAGGTAAAATATATACAATTAATATTTTTGTATGAATCAAAC
66 TATAACTCTTTATATTAATAAATTCGGTAAAATATATACAATTAATA-TTTTGTATGAATCAAAT
*
35426204 TCATAAATT
130 TCATATATT
35426213 AATTATAT
1 AATTATAT
35426221 CTATGTTCTC
Statistics
Matches: 382, Mismatches: 35, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
137 81 0.21
138 238 0.62
139 36 0.09
140 27 0.07
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTCCCAAAAGAATATTAATTTCCATTTCTTTTATATTTTGACTGAAATTAATTAA
TATAACTCTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:35431042 original size:48 final size:48
Alignment explanation
Indices: 35430917--35431111 Score: 210
Period size: 48 Copynumber: 4.1 Consensus size: 48
35430907 ATGTGAGTAT
* * * * * *
35430917 TGAGATCTCGTATAAGACCATATTTGGGAAATGAAACCGGCATCGAAA
1 TGAGATCCCGTGTAAGACCATATTTGGGATATGACATCGGCATCAAAA
*
35430965 TGAGATCCCGTGTAAGACAATATTTGGGATATGACATCGGCATCAAAA
1 TGAGATCCCGTGTAAGACCATATTTGGGATATGACATCGGCATCAAAA
* * * * * * **
35431013 TGAGATCCCGTGTAAGACTATATCTGGGATGTGGCATCAGAATCAGTA
1 TGAGATCCCGTGTAAGACCATATTTGGGATATGACATCGGCATCAAAA
* * * * *
35431061 TAAGATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATCAATA
1 TGAGATCCCGTGTAAGACCATATTTGGGATATGACATCGGCATCAAAA
35431109 TGA
1 TGA
35431112 AGTCCTGAAT
Statistics
Matches: 122, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 122 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (48 bp):
TGAGATCCCGTGTAAGACCATATTTGGGATATGACATCGGCATCAAAA
Found at i:35431125 original size:48 final size:47
Alignment explanation
Indices: 35430929--35431150 Score: 166
Period size: 48 Copynumber: 4.6 Consensus size: 47
35430919 AGATCTCGTA
* * ** *
35430929 TAAGACCATATTTGGGAAATGAAACCGGCATCGAA-ATG-AGATCCCGTG
1 TAAGACCATATCTGGGATATGGCATCGGCATC-AATATGAAGAT-CC-TG
* * * *
35430977 TAAGACAATATTTGGGATATGACATCGGCATCAAAATG-AGATCCCGTG
1 TAAGACCATATCTGGGATATGGCATCGGCATCAATATGAAGAT-CC-TG
* * * * *
35431025 TAAGACTATATCTGGGATGTGGCATCAGAATCAGTAT-AAGATCCCATG
1 TAAGACCATATCTGGGATATGGCATCGGCATCAATATGAAGAT-CC-TG
* *
35431073 TAAGACCATATTTGGGATATGGCATTGGCATCAATATGAAG-TCCTG
1 TAAGACCATATCTGGGATATGGCATCGGCATCAATATGAAGATCCTG
* *
35431119 AATAAGACCATGTCTGGGACATGGCATCGGCA
1 --TAAGACCATATCTGGGATATGGCATCGGCA
35431151 CCGTTATGAG
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
46 2 0.01
47 4 0.03
48 136 0.94
49 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (47 bp):
TAAGACCATATCTGGGATATGGCATCGGCATCAATATGAAGATCCTG
Found at i:35431125 original size:96 final size:96
Alignment explanation
Indices: 35430967--35431146 Score: 236
Period size: 96 Copynumber: 1.9 Consensus size: 96
35430957 CATCGAAATG
* ** *
35430967 AGATCCCGTGTAAGACAATATTTGGGATATGACATCGGCATCAAAATGAGATCCCGTGTAAGACT
1 AGATCCCATGTAAGACAATATTTGGGATATGACATCGGCATCAAAATGAGATCCCGAATAAGACC
**
35431032 ATATCTGGGATGTGGCATCAGAATCAGTATA
66 ATATCTGGGACATGGCATCAGAATCAGTATA
* * * * *
35431063 AGATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATCAATATGA-AGTCCTGAATAAGAC
1 AGATCCCATGTAAGACAATATTTGGGATATGACATCGGCATCAAAATGAGA-TCCCGAATAAGAC
*
35431127 CATGTCTGGGACATGGCATC
65 CATATCTGGGACATGGCATC
35431147 GGCACCGTTA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 1 0.01
96 70 0.99
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (96 bp):
AGATCCCATGTAAGACAATATTTGGGATATGACATCGGCATCAAAATGAGATCCCGAATAAGACC
ATATCTGGGACATGGCATCAGAATCAGTATA
Found at i:35433622 original size:18 final size:19
Alignment explanation
Indices: 35433582--35433624 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
35433572 CGGGCTGAAG
*
35433582 ACACTGGCGTGTCCGAGCC
1 ACACGGGCGTGTCCGAGCC
*
35433601 ACACGGGCGTGTGCGA-CC
1 ACACGGGCGTGTCCGAGCC
35433619 ACACGG
1 ACACGG
35433625 CCTACCCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.19, C:0.35, G:0.35, T:0.12
Consensus pattern (19 bp):
ACACGGGCGTGTCCGAGCC
Found at i:35436705 original size:6 final size:6
Alignment explanation
Indices: 35436694--35436766 Score: 51
Period size: 6 Copynumber: 11.8 Consensus size: 6
35436684 TCATAACTAA
* * *
35436694 AATCAG AATCAG AATCAG AATCAG -GTGACAG AATCAG GATTAG AATCAG
1 AATCAG AATCAG AATCAG AATCAG AAT--CAG AATCAG AATCAG AATCAG
* *
35436743 TATCAAG TAA-CAG AATCAA AATCA
1 AATC-AG -AATCAG AATCAG AATCA
35436767 AAATGTGAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
5 3 0.06
6 41 0.79
7 6 0.12
8 2 0.04
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
AATCAG
Found at i:35436730 original size:31 final size:31
Alignment explanation
Indices: 35436694--35436766 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
35436684 TCATAACTAA
* *
35436694 AATCAGAATCAGAATCAGAATCAGGTGACAG
1 AATCAGAATCAGAATCAGAATCAAGTAACAG
* * *
35436725 AATCAGGATTAGAATCAGTATCAAGTAACAG
1 AATCAGAATCAGAATCAGAATCAAGTAACAG
*
35436756 AATCAAAATCA
1 AATCAGAATCA
35436767 AAATGTGAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGAATCAAGTAACAG
Found at i:35436949 original size:27 final size:26
Alignment explanation
Indices: 35436907--35437008 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
35436897 GCTCAGTTAT
* *
35436907 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
35436934 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
35436960 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
35436988 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
35437009 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:35437712 original size:27 final size:27
Alignment explanation
Indices: 35437674--35437904 Score: 309
Period size: 27 Copynumber: 8.6 Consensus size: 27
35437664 TACCCCACAA
*
35437674 GGTATCTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTATAGG
*
35437701 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTATAGG
* * *
35437728 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTATAGG
* * *
35437755 GGTATTTTGGTAATTCTACCTTATATG
1 GGTATTTCGGTAATTCTACCCTATAGG
* *
35437782 GGTATTTCAGTAATTTTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTATAGG
* *
35437809 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTATAGG
* *
35437836 GGTATTTCGATAATTCTACCCTATAAG
1 GGTATTTCGGTAATTCTACCCTATAGG
** *
35437863 GGTATTTTAGTAATTCTACCCTATAAG
1 GGTATTTCGGTAATTCTACCCTATAGG
35437890 GGTATTTCGGTAATT
1 GGTATTTCGGTAATT
35437905 TCACAATTGA
Statistics
Matches: 176, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 176 1.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTATAGG
Found at i:35438469 original size:27 final size:27
Alignment explanation
Indices: 35437913--35438452 Score: 615
Period size: 27 Copynumber: 20.0 Consensus size: 27
35437903 TTTCACAATT
** *
35437913 GAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* * *
35437940 GAGGGT-AAACGATAATTTTGTAAACC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* * *
35437966 GAGGGTAAACCAGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* **
35437993 GAGGGTAAAACGGTAATTTTACAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
35438020 GAGGGTAAAACGATAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
35438047 GAGGGTAAAACGGTAATTCTGTAAATT
1 GAGGGTAAAACGGTAATTCTGTAAATC
** *
35438074 GAGGGTAAAATAGTAATTCTATAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
35438100 TGAGGGTAAAACGTTAATTCTATAAA-C
1 -GAGGGTAAAACGGTAATTCTGTAAATC
* *
35438127 TGAGGGTAAAACAGTAATTCTATAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
** *
35438155 GAGGGTAAAATAGTAATTTTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
35438181 TGAGGGTAAAACGGTAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
* * **
35438209 GAGGGTAAAACGATAATTTTACAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* * *
35438236 GAGGGTAAAACGATAATTCTATAAATT
1 GAGGGTAAAACGGTAATTCTGTAAATC
**
35438263 GAGGGTAAAATAGTAATTCTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
35438289 TGAGGGTAAAACGATAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
* *
35438317 GATGGTAAAATGGTAATTCTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
35438343 TGAGGGTAAAACGGTAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
* * * **
35438371 GAGGGTAAAATGATAATTTTAAAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
35438398 GAGGGTAAAACAGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
35438425 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
35438452 G
1 G
35438453 GGAGTACTTT
Statistics
Matches: 435, Mismatches: 69, Indels: 18
0.83 0.13 0.03
Matches are distributed among these distances:
26 22 0.05
27 409 0.94
28 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTCTGTAAATC
Found at i:35440038 original size:43 final size:43
Alignment explanation
Indices: 35439977--35440064 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
35439967 TATAAAGTGG
35439977 ATGCGTTAGTGATTGCATACGTTACATGATATTTTGGATTCGT
1 ATGCGTTAGTGATTGCATACGTTACATGATATTTTGGATTCGT
35440020 ATGCGTTAGTGATTGCATACGTTACATGATATTTTGGATTCGT
1 ATGCGTTAGTGATTGCATACGTTACATGATATTTTGGATTCGT
35440063 AT
1 AT
35440065 TTAGATGTCG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.42
Consensus pattern (43 bp):
ATGCGTTAGTGATTGCATACGTTACATGATATTTTGGATTCGT
Found at i:35440232 original size:16 final size:16
Alignment explanation
Indices: 35440211--35440247 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
35440201 GGAAGATGTT
35440211 ATATGGATTGTGGTTG
1 ATATGGATTGTGGTTG
35440227 ATATGGATTGTGGTTG
1 ATATGGATTGTGGTTG
35440243 ATATG
1 ATATG
35440248 ATTTTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (16 bp):
ATATGGATTGTGGTTG
Found at i:35441121 original size:48 final size:48
Alignment explanation
Indices: 35441057--35441338 Score: 289
Period size: 48 Copynumber: 5.9 Consensus size: 48
35441047 ATGTGAGTAT
* * *
35441057 TGAGATCCCGTATAAGACCATATCTGTGATATGGCATCGGCATCAAAA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAAA
* * * *
35441105 TGATATCCCGTGTAAGACAATATCTAGGATATGGCATCAGCATCGAAA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAAA
* * ** *
35441153 TGAAATCCCGCGTAAGACCATATCTGGGATATGGCATCAACATCGAGA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAAA
* * * * * *
35441201 TGAGATCCCATGTAAAATCATATTTGGGATATGGCATTGGCATC-AGTA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGA-AA
* * * *
35441249 TGA-AGTCCCATGTAAGACCATATCTGGGATATGGCATTGGCATTGATA
1 TGAGA-TCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAAA
* * * * *
35441297 TGAGGTCCCGTATAAGACCATGTTTGGGACATGGCATCGGCA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCA
35441339 CCATTATGAG
Statistics
Matches: 196, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
47 2 0.01
48 193 0.98
49 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (48 bp):
TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAAA
Found at i:35441306 original size:144 final size:144
Alignment explanation
Indices: 35441057--35441334 Score: 333
Period size: 144 Copynumber: 1.9 Consensus size: 144
35441047 ATGTGAGTAT
* * * *
35441057 TGAGATCCCGTATAAGACCATATCTGTGATATGGCATCGGCATCAAAATGATATCCCGTGTAAGA
1 TGAGATCCCATATAAAACCATATCTGGGATATGGCATCGGCATCAAAATGATATCCCATGTAAGA
* *
35441122 CAATATCTAGGATATGGCATCAGCATCGAAATGAAATCCCGCGTAAGACCATATCTGGGATATGG
66 CAATATCTAGGATATGGCATCAGCATCGAAATGAAATCCCGCATAAGACCATATCTGGGACATGG
35441187 CATCAACATCGAGA
131 CATCAACATCGAGA
* * * * **
35441201 TGAGATCCCATGTAAAATCATATTTGGGATATGGCATTGGCATCAGTATGA-AGTCCCATGTAAG
1 TGAGATCCCATATAAAACCATATCTGGGATATGGCATCGGCATCAAAATGATA-TCCCATGTAAG
* * ** * * ** * * *
35441265 ACCATATCTGGGATATGGCATTGGCATTGATATGAGGTCCCGTATAAGACCATGTTTGGGACATG
65 ACAATATCTAGGATATGGCATCAGCATCGAAATGAAATCCCGCATAAGACCATATCTGGGACATG
35441330 GCATC
130 GCATC
35441335 GGCACCATTA
Statistics
Matches: 110, Mismatches: 23, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
143 1 0.01
144 109 0.99
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (144 bp):
TGAGATCCCATATAAAACCATATCTGGGATATGGCATCGGCATCAAAATGATATCCCATGTAAGA
CAATATCTAGGATATGGCATCAGCATCGAAATGAAATCCCGCATAAGACCATATCTGGGACATGG
CATCAACATCGAGA
Found at i:35443165 original size:31 final size:31
Alignment explanation
Indices: 35443143--35443214 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
35443133 CGGGCTGAGG
*
35443143 ACACGGGCGTGTGTGATCACACGGCCTACCC
1 ACACGGGCGTGTGTGACCACACGGCCTACCC
*
35443174 ACACGGGCGTGTGTGACCACACGACCTACCC
1 ACACGGGCGTGTGTGACCACACGGCCTACCC
35443205 ACACGGGCGT
1 ACACGGGCGT
35443215 ATGACTCTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.21, C:0.36, G:0.29, T:0.14
Consensus pattern (31 bp):
ACACGGGCGTGTGTGACCACACGGCCTACCC
Found at i:35445688 original size:138 final size:138
Alignment explanation
Indices: 35445436--35446136 Score: 1093
Period size: 138 Copynumber: 5.1 Consensus size: 138
35445426 TAGAAAAAGG
* *
35445436 AATTATATTATTTTCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGACATTAATTAA
1 AATTATATTCTTTTCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAA
* * *
35445501 TATAACTGTTTATATTAATAAATTCGGTAAAATATATAAAATTACTATTTTGTATGAATCAAATT
66 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
35445566 CATATATT
131 CATATATT
*
35445574 AATTATATTCTTTTCAAAAGAATATTAA-TTTCTATGTCTTTTATATTTTGA-TCGAAATTAGTT
1 AATTATATTCTTTTCAAAAGAATATTAATTTTC-ATGTCTTTTATATTTTGACT-GAAATTAATT
* * *
35445637 AATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAGTCAAA
64 AATATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAA
35445702 TTCATATATATT
129 TTC--ATATATT
* * *
35445714 AATTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGGCTGAAATTAATTCA
1 AATTATATTCTTTTCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAA
*
35445779 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAACTAATATTTTGTATGAATCAAATT
66 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
35445844 CATATATT
131 CATATATT
* * * * * * *
35445852 ACTTATATTCTTTCCAAAAGAATATCAATTTTCATATCTTTTATATTTTAACCGAAATTAATTCA
1 AATTATATTCTTTTCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAA
* * *
35445917 TATAATTATTTATATTAATAAATTCTGTAAAATATATACAAGTAATATTTTGTATGAATCAAATT
66 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
35445982 CATATATT
131 CATATATT
35445990 AATTATATTC-TTTCTAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTA
1 AATTATATTCTTTTC-AAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTA
* *
35446054 ATATAACTATTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTTGTATGAACCAAA
65 ATATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATA-TTTTGTATGAATCAAA
*
35446119 TTTATATATT
129 TTCATATATT
35446129 AATTATAT
1 AATTATAT
35446137 CTATGTTCTC
Statistics
Matches: 517, Mismatches: 38, Indels: 15
0.91 0.07 0.03
Matches are distributed among these distances:
137 8 0.02
138 349 0.68
139 32 0.06
140 124 0.24
141 4 0.01
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (138 bp):
AATTATATTCTTTTCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAA
TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:35445843 original size:71 final size:70
Alignment explanation
Indices: 35445768--35445981 Score: 162
Period size: 72 Copynumber: 3.1 Consensus size: 70
35445758 ATTTTGGCTG
*
35445768 AAATTAATTCATATAACTATTTATATTAATAAATTCGGTAAAATATATACAACTAATATTTTGTA
1 AAATTAATTCATATAATTATTTATATTAATAAATTC-GTAAAATATATACAACTAATATTTTGTA
35445833 TGAATC
65 TGAATC
* * * * * *
35445839 --A--AATTCATAT-ATTACTTATATT-CT---TTC-CAAAAGA-ATATCAATTTTCATATCTTT
1 AAATTAATTCATATAATTATTTATATTAATAAATTCGTAAAATATATA-CAA--CT-A-ATATTT
* * *
35445893 TATATTTTAACC
61 TGTA--TGAATC
*
35445905 GAAATTAATTCATATAATTATTTATATTAATAAATTCTGTAAAATATATACAAGTAATATTTTGT
1 -AAATTAATTCATATAATTATTTATATTAATAAATTC-GTAAAATATATACAACTAATATTTTGT
35445970 ATGAATC
64 ATGAATC
35445977 AAATT
1 AAATT
35445982 CATATATTAA
Statistics
Matches: 104, Mismatches: 19, Indels: 40
0.64 0.12 0.25
Matches are distributed among these distances:
59 3 0.03
60 8 0.08
62 4 0.04
63 1 0.01
64 8 0.08
65 1 0.01
66 14 0.13
67 9 0.09
69 2 0.02
71 14 0.13
72 15 0.14
73 1 0.01
74 8 0.08
75 1 0.01
76 4 0.04
78 8 0.08
79 3 0.03
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (70 bp):
AAATTAATTCATATAATTATTTATATTAATAAATTCGTAAAATATATACAACTAATATTTTGTAT
GAATC
Found at i:35445844 original size:67 final size:67
Alignment explanation
Indices: 35445773--35445998 Score: 171
Period size: 67 Copynumber: 3.3 Consensus size: 67
35445763 GGCTGAAATT
* *
35445773 AATTCATATAACTATTTATATTAATAAATTCGGTAAAATATATACAACTAATATTTTGTATGAAT
1 AATTCATATAATTATTTATATTAATAAATTCCGTAAAATATATACAACTAATATTTTGTATGAAT
35445838 CA
66 CA
* * ** * *
35445840 AATTCATAT-ATTACTTATATT-CT---TTCCAAAAGAATATCAATTTTCATATCTTTTATATTT
1 AATTCATATAATTATTTATATTAATAAATTCCGTAA-AATAT--A--TACA-A-C--TAATATTT
* * *
35445900 T-AACCGAAAT-T
57 TGTA-TG-AATCA
* *
35445911 AATTCATATAATTATTTATATTAATAAATTCTGTAAAATATATACAAGTAATATTTTGTATGAAT
1 AATTCATATAATTATTTATATTAATAAATTCCGTAAAATATATACAACTAATATTTTGTATGAAT
35445976 CA
66 CA
*
35445978 AATTCATAT-ATTAATTATATT
1 AATTCATATAATTATTTATATT
35445999 CTTTCTAAAA
Statistics
Matches: 118, Mismatches: 23, Indels: 37
0.66 0.13 0.21
Matches are distributed among these distances:
62 5 0.04
63 5 0.04
65 2 0.02
66 24 0.20
67 30 0.25
68 2 0.02
69 1 0.01
70 2 0.02
71 21 0.18
72 14 0.12
73 2 0.02
75 5 0.04
76 5 0.04
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (67 bp):
AATTCATATAATTATTTATATTAATAAATTCCGTAAAATATATACAACTAATATTTTGTATGAAT
CA
Found at i:35445933 original size:278 final size:276
Alignment explanation
Indices: 35445436--35446136 Score: 1127
Period size: 278 Copynumber: 2.5 Consensus size: 276
35445426 TAGAAAAAGG
* *
35445436 AATTATATTATTTTCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGACATTAATTAA
1 AATTATATTCTTTTCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAA
* * *
35445501 TATAACTGTTTATATTAATAAATTCGGTAAAATATATAAAATTACTATTTTGTATGAATCAAATT
66 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* * * * *
35445566 CATATATTAATTATATTCTTTTCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGATCGAAA
131 CATATATTAATTATATTCTTTCCAAAAGAATATCAATTTCTATATCTTTTATATTTTAACCGAAA
* * *
35445631 TTAGTTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGA
196 TTAATTAATATAATTATTTATATTAATAAATTCGGTAAAATATATACAAGTAATATTTTGTATGA
*
35445696 GTCAAATTCATATATATT
261 ATCAAATTC--ATATATT
* * *
35445714 AATTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGGCTGAAATTAATTCA
1 AATTATATTCTTTTCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAA
*
35445779 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAACTAATATTTTGTATGAATCAAATT
66 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
35445844 CATATATTACTTATATTCTTTCCAAAAGAATATCAATTT-TCATATCTTTTATATTTTAACCGAA
131 CATATATTAATTATATTCTTTCCAAAAGAATATCAATTTCT-ATATCTTTTATATTTTAACCGAA
* *
35445908 ATTAATTCATATAATTATTTATATTAATAAATTCTGTAAAATATATACAAGTAATATTTTGTATG
195 ATTAATTAATATAATTATTTATATTAATAAATTCGGTAAAATATATACAAGTAATATTTTGTATG
35445973 AATCAAATTCATATATT
260 AATCAAATTCATATATT
35445990 AATTATATTC-TTTCTAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTA
1 AATTATATTCTTTTC-AAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTA
* *
35446054 ATATAACTATTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTTGTATGAACCAAA
65 ATATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATA-TTTTGTATGAATCAAA
*
35446119 TTTATATATTAATTATAT
129 TTCATATATTAATTATAT
35446137 CTATGTTCTC
Statistics
Matches: 391, Mismatches: 29, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
275 4 0.01
276 109 0.28
277 32 0.08
278 246 0.63
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (276 bp):
AATTATATTCTTTTCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAA
TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATTAATTATATTCTTTCCAAAAGAATATCAATTTCTATATCTTTTATATTTTAACCGAAA
TTAATTAATATAATTATTTATATTAATAAATTCGGTAAAATATATACAAGTAATATTTTGTATGA
ATCAAATTCATATATT
Found at i:35447238 original size:20 final size:21
Alignment explanation
Indices: 35447208--35447260 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
35447198 TCGAAACCAT
*
35447208 TATATCAATACTTA-TTGAAAA
1 TATATCGATACTTAGTT-AAAA
35447229 -ATATCGATACTTAGTTAAAA
1 TATATCGATACTTAGTTAAAA
*
35447249 TGTATCGATACT
1 TATATCGATACT
35447261 CTTGGGACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (21 bp):
TATATCGATACTTAGTTAAAA
Found at i:35453910 original size:13 final size:13
Alignment explanation
Indices: 35453892--35453924 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
35453882 GCAAAATGAA
35453892 CCACACGGCCAAG
1 CCACACGGCCAAG
35453905 CCACACGGCCAAG
1 CCACACGGCCAAG
35453918 CCACACG
1 CCACACG
35453925 CCCGTGTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.48, G:0.21, T:0.00
Consensus pattern (13 bp):
CCACACGGCCAAG
Found at i:35457614 original size:138 final size:138
Alignment explanation
Indices: 35457361--35457621 Score: 398
Period size: 138 Copynumber: 1.9 Consensus size: 138
35457351 ATGTCATTAG
* * *
35457361 GGTTACCATGTTTCAGGTGCTGGTCCTTAATATCCTACCGATGGCTAAGGTCCGGCATTAGTTGC
1 GGTTACCATGTTTCAGGTGCTGGTCCTGAATATCCTACCAATGGCTAAGGTCCGACATTAGTTGC
* **
35457426 GGATACTCATCATTTTGTGTGAGCAACATCATATAGCTTACATTCTGACCGTTAGCTTGTGTGAG
66 GAATACTCATCAACTTGTGTGAGCAACATCATATAGCTTACATTCTGACCGTTAGCTTGTGTGAG
35457491 CAGACCCA
131 CAGACCCA
* * *
35457499 GGTTACCATGTTTCAGGTGCTGGTCCTGAATGTCCTACCAATGGCTGAGGTCTGACATTAGTTGC
1 GGTTACCATGTTTCAGGTGCTGGTCCTGAATATCCTACCAATGGCTAAGGTCCGACATTAGTTGC
* * *
35457564 GAATACTCATTAACTTGTGTGAGCAGCATCATGTAGCTTACATT-TCGACCGTTAGCTT
66 GAATACTCATCAACTTGTGTGAGCAACATCATATAGCTTACATTCT-GACCGTTAGCTT
35457622 ATATGAGTAG
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
137 1 0.01
138 109 0.99
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (138 bp):
GGTTACCATGTTTCAGGTGCTGGTCCTGAATATCCTACCAATGGCTAAGGTCCGACATTAGTTGC
GAATACTCATCAACTTGTGTGAGCAACATCATATAGCTTACATTCTGACCGTTAGCTTGTGTGAG
CAGACCCA
Found at i:35460618 original size:27 final size:27
Alignment explanation
Indices: 35460601--35460751 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
35460591 ATATTAAGTC
35460601 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
35460628 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
35460656 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
35460683 CGCACACTTAGT-CTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
35460710 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
35460737 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
35460752 GCACAATTTA
Statistics
Matches: 117, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
26 10 0.09
27 71 0.61
28 36 0.31
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:35460720 original size:54 final size:55
Alignment explanation
Indices: 35460601--35460751 Score: 250
Period size: 54 Copynumber: 2.8 Consensus size: 55
35460591 ATATTAAGTC
* * *
35460601 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
35460656 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGT-CTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
35460710 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
35460752 GCACAATTTA
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
54 52 0.58
55 38 0.42
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:35468705 original size:28 final size:27
Alignment explanation
Indices: 35468642--35468793 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
35468632 ATATTAAGTC
* * *
35468642 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
35468669 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
35468697 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
35468724 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
35468752 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
35468779 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35468794 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:35468726 original size:55 final size:55
Alignment explanation
Indices: 35468642--35468793 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
35468632 ATATTAAGTC
* * *
35468642 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
35468697 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
35468752 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
35468794 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:35479466 original size:15 final size:15
Alignment explanation
Indices: 35479431--35479471 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
35479421 TTAATTAACC
35479431 TTAATTAATT-AT-AA
1 TTAATT-ATTAATGAA
35479445 TTAATTATTAATGAA
1 TTAATTATTAATGAA
*
35479460 TTCATTATTAAT
1 TTAATTATTAAT
35479472 CATCACACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 3 0.12
14 8 0.33
15 13 0.54
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (15 bp):
TTAATTATTAATGAA
Found at i:35494352 original size:21 final size:20
Alignment explanation
Indices: 35494336--35494374 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35494326 CGATACTTTA
35494336 ACAAAAGGTATCAATACCTT
1 ACAAAAGGTATCAATACCTT
* *
35494356 ATAAAAGGTATCTATACCT
1 ACAAAAGGTATCAATACCT
35494375 CGGTGCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (20 bp):
ACAAAAGGTATCAATACCTT
Found at i:35498080 original size:43 final size:44
Alignment explanation
Indices: 35498019--35498133 Score: 146
Period size: 44 Copynumber: 2.6 Consensus size: 44
35498009 AGTTCGTACA
35498019 ATGCCAAC-GTCCCAGACGTGGTCTTACATGT-AATCA-AATATCG
1 ATGCC-ACTGTCCCAGACGTGGTCTTACATGTAAATCATAA-ATCG
* *
35498062 ATGCCACTGTCCCAGACGTGGTCTGACATGTAAATCATAAGTCG
1 ATGCCACTGTCCCAGACGTGGTCTTACATGTAAATCATAAATCG
* **
35498106 ATGCCAATGTCTAAGACGTGGTCTTACA
1 ATGCCACTGTCCCAGACGTGGTCTTACA
35498134 CGATAACACA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 2 0.03
43 27 0.43
44 32 0.51
45 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACGTGGTCTTACATGTAAATCATAAATCG
Found at i:35499881 original size:6 final size:6
Alignment explanation
Indices: 35499870--35499925 Score: 76
Period size: 6 Copynumber: 9.3 Consensus size: 6
35499860 CCTGTAATAG
* * *
35499870 CATATA CATATA CATATA CATATA CAAAAA CATATA CATATA CAAATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
*
35499918 TATATA CA
1 CATATA CA
35499926 CATCATTCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (6 bp):
CATATA
Found at i:35499893 original size:18 final size:18
Alignment explanation
Indices: 35499870--35499925 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
35499860 CCTGTAATAG
*
35499870 CATATACATATACATATA
1 CATATACAAATACATATA
*
35499888 CATATACAAAAACATATA
1 CATATACAAATACATATA
*
35499906 CATATACAAATATATATA
1 CATATACAAATACATATA
35499924 CA
1 CA
35499926 CATCATTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (18 bp):
CATATACAAATACATATA
Found at i:35502045 original size:47 final size:48
Alignment explanation
Indices: 35501972--35502245 Score: 219
Period size: 47 Copynumber: 5.9 Consensus size: 48
35501962 AGGGTAAGGT
* * *
35501972 GCCGATGCCATGTCCTAGACACGGTCTTACACTGGCTCATATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAA
* * *
35502019 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ACCATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTCGAA
* * *
35502067 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGTTTACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAA
* * ***
35502113 GTCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-CTTTGTCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-ACATCTCGAA
** * * * **
35502158 TGCCGATGCCATGTCTTAGACATGATCTTACACTGGCTCTCATAAT-GTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-CTCGAA
* * *
35502207 GCCAATG-CATGTCCTAGACAT-GTCTTACACTAGCTCACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA
35502246 CACGAATGAC
Statistics
Matches: 183, Mismatches: 34, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 76 0.42
47 78 0.43
48 26 0.14
49 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAA
Found at i:35503700 original size:4 final size:4
Alignment explanation
Indices: 35503662--35503688 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
35503652 TAACTAAAGA
35503662 TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAA
35503689 AGCTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:35503710 original size:15 final size:13
Alignment explanation
Indices: 35503665--35503720 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 13
35503655 CTAAAGATAA
35503665 TTAATTAATTAA-
1 TTAATTAATTAAG
35503677 TTAATTAATTAAAG
1 TTAATTAATT-AAG
35503691 CTTAATTAATCTAATG
1 -TTAATTAAT-TAA-G
35503707 TTAAGCTTAATTAA
1 TTAA--TTAATTAA
35503721 CAAAGTTAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
12 10 0.27
13 2 0.05
15 15 0.41
16 5 0.14
17 5 0.14
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (13 bp):
TTAATTAATTAAG
Found at i:35503714 original size:21 final size:19
Alignment explanation
Indices: 35503662--35503720 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 19
35503652 TAACTAAAGA
35503662 TAATTAATT-AA--TTAAT
1 TAATTAATTAAAGCTTAAT
35503678 TAATTAATTAAAGCTTAAT
1 TAATTAATTAAAGCTTAAT
*
35503697 TAATCTAATGTTAAGCTTAAT
1 TAAT-TAAT-TAAAGCTTAAT
35503718 TAA
1 TAA
35503721 CAAAGTTAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
16 9 0.24
17 2 0.05
19 9 0.24
20 4 0.11
21 13 0.35
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (19 bp):
TAATTAATTAAAGCTTAAT
Found at i:35504529 original size:21 final size:19
Alignment explanation
Indices: 35504499--35504560 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 19
35504489 TATACTAGAT
35504499 AGGCCAAGTACAAATACTTG
1 AGGCCAAGTAC-AATACTTG
* *
35504519 AGGACTAAGTATCAATACTTAT
1 AGG-CCAAGTA-CAATACTT-G
35504541 AGGCCAAGTACCAATACTTG
1 AGGCCAAGTA-CAATACTTG
35504561 CCTCTCAAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 3 0.09
21 27 0.79
22 4 0.12
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (19 bp):
AGGCCAAGTACAATACTTG
Found at i:35506582 original size:83 final size:83
Alignment explanation
Indices: 35506443--35506601 Score: 255
Period size: 83 Copynumber: 1.9 Consensus size: 83
35506433 AGTATTTCAC
* * * * * *
35506443 TGTAACACCCCTAACCCCTCTCTATCGTTAGATTAAGGTCACGGGCATTTCTAACCAATTAGAAC
1 TGTAACACCCCTAACCCCTCTCCATCATCAGATTAAGGTCACAGGCATTACTAACCAATCAGAAC
35506508 ATTTAATTTCAAACTAAA
66 ATTTAATTTCAAACTAAA
*
35506526 TGTAACACCCCTAACCCCTCTCCATCATCAGATTAGGGTCACAGGCATTACTAACCAATCAGAAC
1 TGTAACACCCCTAACCCCTCTCCATCATCAGATTAAGGTCACAGGCATTACTAACCAATCAGAAC
35506591 ATTTAATTTCA
66 ATTTAATTTCA
35506602 TCGCAAGCGA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 69 1.00
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (83 bp):
TGTAACACCCCTAACCCCTCTCCATCATCAGATTAAGGTCACAGGCATTACTAACCAATCAGAAC
ATTTAATTTCAAACTAAA
Found at i:35507259 original size:21 final size:20
Alignment explanation
Indices: 35507220--35507259 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
35507210 TCAATTACCA
* *
35507220 ACATTTAACCTATTTAAAAC
1 ACATTTAACATACTTAAAAC
35507240 ACATTTAAACATACTTAAAA
1 ACATTT-AACATACTTAAAA
35507260 GATGCCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (20 bp):
ACATTTAACATACTTAAAAC
Found at i:35518849 original size:21 final size:22
Alignment explanation
Indices: 35518808--35518859 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
35518798 CATACATTTT
* *
35518808 ATAC-TATTTATTAATTATAAC
1 ATACATATATATTAAGTATAAC
35518829 ATACATATATATTAAGT-TAAC
1 ATACATATATATTAAGTATAAC
*
35518850 ATATATATAT
1 ATACATATAT
35518860 GACATATATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (22 bp):
ATACATATATATTAAGTATAAC
Found at i:35519534 original size:36 final size:36
Alignment explanation
Indices: 35519480--35519564 Score: 109
Period size: 36 Copynumber: 2.3 Consensus size: 36
35519470 TTTTAAACTG
* *
35519480 TTATGTATATTATGTATGTTATGTACTATTATGTATA
1 TTATGTAT-GTATGTATGTTATGTAATATTATGTATA
*
35519517 TT-TGTATGTATGTTATGTTATGTAATGTTATGTATA
1 TTATGTATGTATG-TATGTTATGTAATATTATGTATA
*
35519553 TTATGTGTGTAT
1 TTATGTATGTAT
35519565 ATTTGTATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 4 0.10
36 28 0.67
37 10 0.24
ACGTcount: A:0.26, C:0.01, G:0.18, T:0.55
Consensus pattern (36 bp):
TTATGTATGTATGTATGTTATGTAATATTATGTATA
Found at i:35519544 original size:10 final size:9
Alignment explanation
Indices: 35519478--35519666 Score: 86
Period size: 9 Copynumber: 20.4 Consensus size: 9
35519468 GTTTTTAAAC
35519478 TGTTATGTA
1 TGTTATGTA
*
35519487 TATTATGTA
1 TGTTATGTA
35519496 TGTTATGTA
1 TGTTATGTA
*
35519505 CTATTATGTA
1 -TGTTATGTA
*
35519515 TATT-TGTA
1 TGTTATGTA
35519523 TG-TATGTTA
1 TGTTATG-TA
35519532 TGTTATGTAA
1 TGTTATGT-A
35519542 TGTTATGTA
1 TGTTATGTA
* *
35519551 TATTATGTG
1 TGTTATGTA
35519560 TGTATATTTGTA
1 TGT-TA--TGTA
* *
35519572 TGTTTTTTA
1 TGTTATGTA
*
35519581 TG-TGT-TA
1 TGTTATGTA
*
35519588 TATTACTGTTA
1 TGTTA-TG-TA
*
35519599 TGGT-TGTA
1 TGTTATGTA
*
35519607 TATTATGTA
1 TGTTATGTA
*
35519616 TGTCATATTTAA
1 TGT--TATGT-A
*
35519628 TG-TGTGTA
1 TGTTATGTA
* *
35519636 TATTGTGTA
1 TGTTATGTA
35519645 TGTTATGTA
1 TGTTATGTA
35519654 TG-TATGTTA
1 TGTTATG-TA
35519663 TGTT
1 TGTT
35519667 TAGCACTGTT
Statistics
Matches: 137, Mismatches: 24, Indels: 37
0.69 0.12 0.19
Matches are distributed among these distances:
7 4 0.03
8 20 0.15
9 71 0.52
10 24 0.18
11 9 0.07
12 9 0.07
ACGTcount: A:0.23, C:0.02, G:0.19, T:0.56
Consensus pattern (9 bp):
TGTTATGTA
Found at i:35519546 original size:15 final size:14
Alignment explanation
Indices: 35519478--35519666 Score: 71
Period size: 13 Copynumber: 13.6 Consensus size: 14
35519468 GTTTTTAAAC
35519478 TGTTATGTATAT-TA
1 TGTTATGT-TATGTA
35519492 TG-TATGTTATGTA
1 TGTTATGTTATGTA
*
35519505 CTATTATGTATATTTGTA
1 -TGTTATGT-TA--TGTA
35519523 TG-TATGTTATGTTA
1 TGTTATGTTATG-TA
*
35519537 TGTAATGTTATGTA
1 TGTTATGTTATGTA
* *
35519551 TATTATG-TGTGTA
1 TGTTATGTTATGTA
* *
35519564 TATT-TG-TATGTT
1 TGTTATGTTATGTA
* *
35519576 TTTTATG-TGT-TA
1 TGTTATGTTATGTA
*
35519588 TATTACTGTTATGGT-
1 TGTTA-TGTTAT-GTA
*
35519603 TG-TATATTATGTA
1 TGTTATGTTATGTA
*
35519616 TGTCATAT-TTAATGTG
1 TGT--TATGTT-ATGTA
* *
35519632 TG-TATATTGTGTA
1 TGTTATGTTATGTA
35519645 TGTTATG-TATGTA
1 TGTTATGTTATGTA
35519658 TGTTATGTT
1 TGTTATGTT
35519667 TAGCACTGTT
Statistics
Matches: 134, Mismatches: 20, Indels: 42
0.68 0.10 0.21
Matches are distributed among these distances:
12 19 0.14
13 51 0.38
14 24 0.18
15 18 0.13
16 17 0.13
17 1 0.01
18 4 0.03
ACGTcount: A:0.23, C:0.02, G:0.19, T:0.56
Consensus pattern (14 bp):
TGTTATGTTATGTA
Found at i:35523127 original size:54 final size:54
Alignment explanation
Indices: 35523029--35523360 Score: 338
Period size: 54 Copynumber: 6.2 Consensus size: 54
35523019 AAGACCCCGG
* *
35523029 TTGTAAAATTACTGAAATTCC-CCAGTTTGTAAAATTATCGAAATACCCTTAGT
1 TTGTAAAATTACTGAAATACCTCCAGTTTGTAAAATTATCGAAATACCCTCAGT
* * * * *
35523082 TTGTAAAATTA-TCGAAATACCTCCAATTTGTAAAATTACCAAAATATCCTCAAT
1 TTGTAAAATTACT-GAAATACCTCCAGTTTGTAAAATTATCGAAATACCCTCAGT
* * *
35523136 TTGTAAAATTACTGAAATACC-CCTGGCTTGTAAAATTATCGAAATACCCCCAGT
1 TTGTAAAATTACTGAAATACCTCC-AGTTTGTAAAATTATCGAAATACCCTCAGT
** * * *
35523190 TTGTAAAATTACCAAAATACATTCAGTTTGTAAAATTATCGAAATACCAC-CAAT
1 TTGTAAAATTACTGAAATACCTCCAGTTTGTAAAATTATCGAAATACC-CTCAGT
* * * *
35523244 TTATAAAATTACTGAAATACCTTCGGTTTGTAAAATTATCGAAATACCCCTTAG-
1 TTGTAAAATTACTGAAATACCTCCAGTTTGTAAAATTATCGAAATA-CCCTCAGT
* * * *
35523298 -TGTAAAATTACTAAAATACATTC-GATTTGTAAAATTATTGAAATACCC-CAGT
1 TTGTAAAATTACTGAAATACCTCCAG-TTTGTAAAATTATCGAAATACCCTCAGT
*
35523350 AGTGTAAAATT
1 -TTGTAAAATT
35523361 TCCAAAATAC
Statistics
Matches: 233, Mismatches: 34, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
51 2 0.01
52 5 0.02
53 59 0.25
54 161 0.69
55 6 0.03
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (54 bp):
TTGTAAAATTACTGAAATACCTCCAGTTTGTAAAATTATCGAAATACCCTCAGT
Found at i:35523355 original size:27 final size:26
Alignment explanation
Indices: 35523029--35523373 Score: 264
Period size: 27 Copynumber: 12.9 Consensus size: 26
35523019 AAGACCCCGG
* *
35523029 TTGTAAAATTACTGAAATTCCCCAGT
1 TTGTAAAATTACCGAAATACCCCAGT
* *
35523055 TTGTAAAATTATCGAAATACCCTTAGT
1 TTGTAAAATTACCGAAATACCC-CAGT
* *
35523082 TTGTAAAATTATCGAAATACCTCCAAT
1 TTGTAAAATTACCGAAATACC-CCAGT
* * *
35523109 TTGTAAAATTACCAAAATATCCTCAAT
1 TTGTAAAATTACCGAAATA-CCCCAGT
* * *
35523136 TTGTAAAATTACTGAAATACCCCTGGC
1 TTGTAAAATTACCGAAATACCCC-AGT
*
35523163 TTGTAAAATTATCGAAATACCCCCAGT
1 TTGTAAAATTACCGAAATA-CCCCAGT
* **
35523190 TTGTAAAATTACCAAAATACATTCAGT
1 TTGTAAAATTACCGAAATAC-CCCAGT
* *
35523217 TTGTAAAATTATCGAAATACCACCAAT
1 TTGTAAAATTACCGAAATACC-CCAGT
* * * *
35523244 TTATAAAATTACTGAAATACCTTCGGT
1 TTGTAAAATTACCGAAATACC-CCAGT
*
35523271 TTGTAAAATTATCGAAATACCCC--T
1 TTGTAAAATTACCGAAATACCCCAGT
** **
35523295 TAGTGTAAAATTACTAAAATACATTC-GAT
1 T--TGTAAAATTACCGAAATAC-CCCAG-T
**
35523324 TTGTAAAATTATTGAAATACCCCAGT
1 TTGTAAAATTACCGAAATACCCCAGT
* * *
35523350 AGTGTAAAATTTCCAAAATACCCC
1 -TTGTAAAATTACCGAAATACCCC
35523374 TGTAGGACAA
Statistics
Matches: 252, Mismatches: 53, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
24 2 0.01
26 42 0.17
27 199 0.79
28 7 0.03
29 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.33
Consensus pattern (26 bp):
TTGTAAAATTACCGAAATACCCCAGT
Found at i:35523805 original size:27 final size:27
Alignment explanation
Indices: 35523775--35523843 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
35523765 CCAGTAGCTA
* *
35523775 TGTGCCTATCATATTTATTCATGACTC
1 TGTGCCGATCATATTTACTCATGACTC
* * *
35523802 TGTGTCGATCATATTTACTCATGGCTG
1 TGTGCCGATCATATTTACTCATGACTC
*
35523829 TGTGCCGATTATATT
1 TGTGCCGATCATATT
35523844 AACGTCGCTG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.43
Consensus pattern (27 bp):
TGTGCCGATCATATTTACTCATGACTC
Found at i:35524159 original size:27 final size:27
Alignment explanation
Indices: 35524092--35524159 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
35524082 TATTACTAAG
* * *
35524092 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATTCTGTA
* *
35524118 ATGGGCTGTGACCCAAATGATAT-TGTA
1 ATGGGCTTTGGCCCAAATGAT-TCTGTA
35524145 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
35524160 TTTATGCTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 26 0.79
28 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATTCTGTA
Found at i:35527526 original size:54 final size:52
Alignment explanation
Indices: 35527233--35527523 Score: 305
Period size: 54 Copynumber: 5.4 Consensus size: 52
35527223 AAGACCCCGG
* *
35527233 TTGTAAAATTACTGAAATACCCT-GATTTGTAAAATTATCAAAATACCTCCAAT
1 TTGTAAAATTACCGAAATACCCTAG-TTTGTAAAATTACCAAAATACC-CCAAT
*** * *
35527286 TTGTAAAATTATTTAAATACCCTCAATTTTTAAAATTACCAAAATACCCCAAAT
1 TTGTAAAATTACCGAAATACCCT-AGTTTGTAAAATTACCAAAATACCCC-AAT
* * * *
35527340 TTATAAAATTACTGAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTAGT
1 TTGTAAAATTACCGAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCC-AAT
* * * * *
35527394 TTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCTAAATACCTTCAGT
1 TTGTAAAATTACCGAAATACCCTAG-TTTGTAAAATTACCAAAATACC-CCAAT
* * *
35527448 TGGTAAAATTATCGAAATACCCCTAGTTTGTAAAATTACCAAAATACCACCTAT
1 TTGTAAAATTACCGAAATA-CCCTAGTTTGTAAAATTACCAAAATACC-CCAAT
*
35527502 TTATAAAATTACCGAAATACCC
1 TTGTAAAATTACCGAAATACCC
35527524 CTATAGGGTA
Statistics
Matches: 201, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
53 31 0.15
54 160 0.80
55 10 0.05
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (52 bp):
TTGTAAAATTACCGAAATACCCTAGTTTGTAAAATTACCAAAATACCCCAAT
Found at i:35527540 original size:27 final size:26
Alignment explanation
Indices: 35527233--35527527 Score: 270
Period size: 27 Copynumber: 11.0 Consensus size: 26
35527223 AAGACCCCGG
*
35527233 TTGTAAAATTACTGAAATA-CCCTGAT
1 TTGTAAAATTACCGAAATACCCCT-AT
* * *
35527259 TTGTAAAATTATCAAAATACCTCCAAT
1 TTGTAAAATTACCGAAATACC-CCTAT
*** *
35527286 TTGTAAAATTATTTAAATACCCTCAAT
1 TTGTAAAATTACCGAAATACCC-CTAT
* * *
35527313 TTTTAAAATTACCAAAATACCCCAAAT
1 TTGTAAAATTACCGAAATACCCC-TAT
* *
35527340 TTATAAAATTACTGAAATACCCCTAGT
1 TTGTAAAATTACCGAAATACCCCTA-T
**
35527367 TTGTAAAATTACTAAAATACCCCTAGT
1 TTGTAAAATTACCGAAATACCCCTA-T
* *
35527394 TTGTAAAATTATCGAAATACCCTCGAT
1 TTGTAAAATTACCGAAATACCC-CTAT
* *
35527421 TTGTAAAATTACCTAAATA-CCTTCAGT
1 TTGTAAAATTACCGAAATACCCCT-A-T
* *
35527448 TGGTAAAATTATCGAAATACCCCTAGT
1 TTGTAAAATTACCGAAATACCCCTA-T
*
35527475 TTGTAAAATTACCAAAATACCACCTAT
1 TTGTAAAATTACCGAAATACC-CCTAT
*
35527502 TTATAAAATTACCGAAATACCCCTAT
1 TTGTAAAATTACCGAAATACCCCTAT
35527528 AGGGTAAAAT
Statistics
Matches: 226, Mismatches: 33, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
26 27 0.12
27 188 0.83
28 11 0.05
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (26 bp):
TTGTAAAATTACCGAAATACCCCTAT
Found at i:35527983 original size:27 final size:27
Alignment explanation
Indices: 35527919--35527994 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
35527909 GTATCTACCA
* * * *
35527919 ATGGCTATGTGCCTATCATATTTATTG
1 ATGGCTATGTGTCGATCATATTTACTC
* *
35527946 ATGACTCTGTGTCGATCATATTTACTC
1 ATGGCTATGTGTCGATCATATTTACTC
* *
35527973 ATGGCTGTGTGTCGATTATATT
1 ATGGCTATGTGTCGATCATATT
35527995 ACCCTCGTCG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (27 bp):
ATGGCTATGTGTCGATCATATTTACTC
Found at i:35542401 original size:30 final size:30
Alignment explanation
Indices: 35542367--35542428 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
35542357 CTATACATAC
35542367 TAGAATTTGGCTCAAAATGCTTAGAGTTTT
1 TAGAATTTGGCTCAAAATGCTTAGAGTTTT
35542397 TAGAATTTGGCTCAAAATGCTTAGAGTTTT
1 TAGAATTTGGCTCAAAATGCTTAGAGTTTT
35542427 TA
1 TA
35542429 ATGTGATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (30 bp):
TAGAATTTGGCTCAAAATGCTTAGAGTTTT
Found at i:35547927 original size:40 final size:40
Alignment explanation
Indices: 35547872--35547952 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
35547862 TAGTAGCTAA
35547872 ACCCCTACTCTAAATTCCAAGTGTAAGCTTCCTCATACCT
1 ACCCCTACTCTAAATTCCAAGTGTAAGCTTCCTCATACCT
*
35547912 ACCCCTACTCTAAATTCCAAGTGTGAGCTTCCTCATACCT
1 ACCCCTACTCTAAATTCCAAGTGTAAGCTTCCTCATACCT
35547952 A
1 A
35547953 TGTTATCTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.27, C:0.35, G:0.09, T:0.30
Consensus pattern (40 bp):
ACCCCTACTCTAAATTCCAAGTGTAAGCTTCCTCATACCT
Found at i:35552525 original size:21 final size:24
Alignment explanation
Indices: 35552501--35552548 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
35552491 ACATTTATAT
35552501 TATGCAGTT-T-TT-TTTAGGGAA
1 TATGCAGTTCTCTTGTTTAGGGAA
*
35552522 TATGCAGTTCTCTTGTTTAGGTAA
1 TATGCAGTTCTCTTGTTTAGGGAA
35552546 TAT
1 TAT
35552549 ATGGAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 1 0.04
23 2 0.09
24 11 0.48
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.48
Consensus pattern (24 bp):
TATGCAGTTCTCTTGTTTAGGGAA
Found at i:35553704 original size:39 final size:39
Alignment explanation
Indices: 35553661--35553740 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
35553651 GTAGAATGGA
35553661 TAATTTGATCTAGTCTCCATAATAAAACAATTTAATTTT
1 TAATTTGATCTAGTCTCCATAATAAAACAATTTAATTTT
35553700 TAATTTGATCTAGTCTCCATAATAAAACAATTTAATTTT
1 TAATTTGATCTAGTCTCCATAATAAAACAATTTAATTTT
35553739 TA
1 TA
35553741 CTTTTACTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (39 bp):
TAATTTGATCTAGTCTCCATAATAAAACAATTTAATTTT
Found at i:35553959 original size:8 final size:8
Alignment explanation
Indices: 35553925--35553981 Score: 73
Period size: 8 Copynumber: 7.4 Consensus size: 8
35553915 AATTTGTAGT
35553925 AATTTTTA
1 AATTTTTA
*
35553933 AA--TATA
1 AATTTTTA
*
35553939 AAATTTTA
1 AATTTTTA
*
35553947 TATTTTTA
1 AATTTTTA
35553955 AATTTTTA
1 AATTTTTA
35553963 AATTTTTA
1 AATTTTTA
35553971 AATTTTTA
1 AATTTTTA
35553979 AAT
1 AAT
35553982 AATTAATTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
6 5 0.12
8 37 0.88
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
AATTTTTA
Found at i:35554315 original size:21 final size:20
Alignment explanation
Indices: 35554287--35554325 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
35554277 AAATTTATAC
35554287 ATTTTTTCAAAATATTTTCA
1 ATTTTTTCAAAATATTTTCA
* *
35554307 ATTTATTTCCACATATTTT
1 ATTT-TTTCAAAATATTTT
35554326 TTATTATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTTTCAAAATATTTTCA
Found at i:35558538 original size:26 final size:26
Alignment explanation
Indices: 35558489--35558556 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
35558479 CCTGATATAT
*
35558489 GGCTCTTCGTGAGCTTCACGATTAAA
1 GGCTCTTCGTGAGCTTCACAATTAAA
* *
35558515 GGCTCTTTGTGAGCTTC-CTAATTAAT
1 GGCTCTTCGTGAGCTTCAC-AATTAAA
35558541 GGCT-TTC-TGAAGCTTC
1 GGCTCTTCGTG-AGCTTC
35558557 TCGATATTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 2 0.06
25 9 0.25
26 25 0.69
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCACAATTAAA
Found at i:35558567 original size:24 final size:25
Alignment explanation
Indices: 35558539--35558593 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
35558529 TTCCTAATTA
* *
35558539 ATGGCTTTC-TGAAGCTTCTCGATAT
1 ATGGCTTGCTTGAA-CTTCCCGATAT
35558564 -TGGCTTGCTTGAACTTCCCGATAT
1 ATGGCTTGCTTGAACTTCCCGATAT
35558588 ATGGCT
1 ATGGCT
35558594 ATCCAGAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (25 bp):
ATGGCTTGCTTGAACTTCCCGATAT
Found at i:35558615 original size:74 final size:73
Alignment explanation
Indices: 35558525--35558666 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 73
35558515 GGCTCTTTGT
* * * *
35558525 GAGCTTCCTAATTAATGGCT-TTCTGAAGCTTCTCGATATTGGCTTGCTTGAACTTCCCGATATA
1 GAGCTTCCTAATTAATGGCTCTTC-GAAGCTACCCGATATTGGCTCGCATGAACTTCCCGAT-TA
35558589 TGGCTATCCA
64 TGGCTATCCA
* * * * *
35558599 GAGCTTCCTGATTAATGGCTCTTCGGAGCTACCCGTTATTGGCTCGCATGAGCTTCCTGATTATG
1 GAGCTTCCTAATTAATGGCTCTTCGAAGCTACCCGATATTGGCTCGCATGAACTTCCCGATTATG
35558664 GCT
66 GCT
35558667 CTTATGAGCT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
73 7 0.12
74 48 0.83
75 3 0.05
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (73 bp):
GAGCTTCCTAATTAATGGCTCTTCGAAGCTACCCGATATTGGCTCGCATGAACTTCCCGATTATG
GCTATCCA
Found at i:35558682 original size:48 final size:50
Alignment explanation
Indices: 35558599--35558705 Score: 139
Period size: 49 Copynumber: 2.2 Consensus size: 50
35558589 TGGCTATCCA
*
35558599 GAGCTTCCTGATTAATGGCTCTTCGGAGCTACCCG-TTAT-TGGCTCGCAT
1 GAGCTTCCTGATTAATGGCTCTTAGGAGCTACCCGTTTATGT-GCTCGCAT
* * *
35558648 GAGCTTCCTGATT-ATGGCTCTTATGAGCTTCCCGTTTATGTGCTCGTAT
1 GAGCTTCCTGATTAATGGCTCTTAGGAGCTACCCGTTTATGTGCTCGCAT
35558697 GAGCATTCC
1 GAGC-TTCC
35558706 CAAATATGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
48 18 0.35
49 28 0.55
50 5 0.10
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (50 bp):
GAGCTTCCTGATTAATGGCTCTTAGGAGCTACCCGTTTATGTGCTCGCAT
Found at i:35558698 original size:25 final size:24
Alignment explanation
Indices: 35558624--35558706 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 24
35558614 TGGCTCTTCG
* *
35558624 GAGCTACCCGTTAT-TGGCTCGCAT
1 GAGCTTCCCGTTATGT-GCTCGTAT
* *
35558648 GAGCTTCCTGATTATG-GCTCTTAT
1 GAGCTTCCCG-TTATGTGCTCGTAT
35558672 GAGCTTCCCGTTTATGTGCTCGTAT
1 GAGCTTCCCG-TTATGTGCTCGTAT
35558697 GAGCATTCCC
1 GAGC-TTCCC
35558707 AAATATGAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
24 28 0.58
25 15 0.31
26 5 0.10
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGTTATGTGCTCGTAT
Found at i:35561565 original size:23 final size:24
Alignment explanation
Indices: 35561513--35561566 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
35561503 TTGGTTAGAT
35561513 AATAAAATAATTAAGAATTAATTA
1 AATAAAATAATTAAGAATTAATTA
35561537 AATAAAAT-ATTAA-AA-TAATTA
1 AATAAAATAATTAAGAATTAATTA
35561558 GAATTAAAA
1 -AA-TAAAA
35561567 ATTCTAGGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.21
22 4 0.14
23 10 0.36
24 8 0.29
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (24 bp):
AATAAAATAATTAAGAATTAATTA
Found at i:35562981 original size:15 final size:15
Alignment explanation
Indices: 35562961--35563021 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 15
35562951 GAACCCCTAT
*
35562961 CCTTATGTGAGCTAC
1 CCTTATGCGAGCTAC
*
35562976 CCTTATGCGAGTTAC
1 CCTTATGCGAGCTAC
* *
35562991 TCTTGTGCGAGCTAC
1 CCTTATGCGAGCTAC
35563006 CCTTGA-GCGAGCTAC
1 CCTT-ATGCGAGCTAC
35563021 C
1 C
35563022 TAAGGGTGCA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.18, C:0.30, G:0.23, T:0.30
Consensus pattern (15 bp):
CCTTATGCGAGCTAC
Found at i:35563189 original size:17 final size:18
Alignment explanation
Indices: 35563152--35563192 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
35563142 CATTCCATTA
35563152 TGTGAACCTATACCTAAG
1 TGTGAACCTATACCTAAG
35563170 TGTGAACACT-TACC-AAG
1 TGTGAAC-CTATACCTAAG
35563187 TGTGAA
1 TGTGAA
35563193 TCTAAACCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 11 0.50
19 2 0.09
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (18 bp):
TGTGAACCTATACCTAAG
Found at i:35563191 original size:35 final size:36
Alignment explanation
Indices: 35563152--35563228 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
35563142 CATTCCATTA
* * *
35563152 TGTGAACCTATACCT-AAGTGTGAACACTTAC-CAAG
1 TGTGAACCTAAACCTCAAGTATGAAC-CCTACTCAAG
* *
35563187 TGTGAATCTAAACCTCATGTATGAACCCTACTCAAG
1 TGTGAACCTAAACCTCAAGTATGAACCCTACTCAAG
35563223 TGTGAA
1 TGTGAA
35563229 TCCCTTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
35 17 0.49
36 18 0.51
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (36 bp):
TGTGAACCTAAACCTCAAGTATGAACCCTACTCAAG
Found at i:35563604 original size:31 final size:31
Alignment explanation
Indices: 35563569--35563628 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
35563559 ATTATTGCCA
35563569 GGCAA-TTCGAGGTGGTAGGTAATCATTGCAG
1 GGCAACTT-GAGGTGGTAGGTAATCATTGCAG
*
35563600 GGCAACTTGGGGTGGTAGGTAATCATTGC
1 GGCAACTTGAGGTGGTAGGTAATCATTGC
35563629 TGAGCAACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.23, C:0.13, G:0.37, T:0.27
Consensus pattern (31 bp):
GGCAACTTGAGGTGGTAGGTAATCATTGCAG
Found at i:35571060 original size:18 final size:18
Alignment explanation
Indices: 35571037--35571072 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
35571027 GAAACTCTAT
35571037 ATCCTTCAGGGATTTTAA
1 ATCCTTCAGGGATTTTAA
*
35571055 ATCCTTCTGGGATTTTAA
1 ATCCTTCAGGGATTTTAA
35571073 TATAAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (18 bp):
ATCCTTCAGGGATTTTAA
Found at i:35577601 original size:47 final size:46
Alignment explanation
Indices: 35577489--35577618 Score: 138
Period size: 47 Copynumber: 2.8 Consensus size: 46
35577479 ATTTGAGTGT
* * ** *
35577489 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACGTTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACGAGACGA
* *
35577535 GAG-TCAGTGTAAGACCATGTCTGGGACATGGCATTGG-TATTGAGACGA
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCA-CGAGACGA
*
35577583 GAGCTAGTGTAAGACATGTTTGGGACATGCATTGGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGC
35577619 TATGATCAGT
Statistics
Matches: 70, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
45 1 0.01
46 19 0.27
47 27 0.39
48 22 0.31
49 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACGAGACGA
Found at i:35585354 original size:27 final size:27
Alignment explanation
Indices: 35585324--35585377 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
35585314 AAATGAGGAG
35585324 AAAGTGTTCTGTATGGCAATCATCGCT
1 AAAGTGTTCTGTATGGCAATCATCGCT
*
35585351 AAAGTGTTCTGTATGGCGATCATCGCT
1 AAAGTGTTCTGTATGGCAATCATCGCT
35585378 TATCATCTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (27 bp):
AAAGTGTTCTGTATGGCAATCATCGCT
Found at i:35601957 original size:54 final size:56
Alignment explanation
Indices: 35601891--35601996 Score: 137
Period size: 57 Copynumber: 1.9 Consensus size: 56
35601881 GGGAGAAAGT
*
35601891 AAAAAAAAATTGGGAGTTT-GA-GGATGTAAA-AGTTTTGAGGGGAAAGTAAGAGG
1 AAAAAAAAATTGGGAGTTTGGAGGGAAGTAAATAGTTTTGAGGGGAAAGTAAGAGG
* ** *
35601944 AAAAAAAGTATTGGGAGTTTGGAGGGAAGTAAATTTTTTTGGGGGGAAAGTAA
1 AAAAAAA-AATTGGGAGTTTGGAGGGAAGTAAATAGTTTTGAGGGGAAAGTAA
35601997 AAGGGTTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
53 7 0.16
54 11 0.25
55 2 0.05
56 8 0.18
57 16 0.36
ACGTcount: A:0.41, C:0.00, G:0.34, T:0.25
Consensus pattern (56 bp):
AAAAAAAAATTGGGAGTTTGGAGGGAAGTAAATAGTTTTGAGGGGAAAGTAAGAGG
Found at i:35602495 original size:12 final size:13
Alignment explanation
Indices: 35602478--35602510 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
35602468 ATGCTTTTAG
35602478 TTAGTTTTTG-TT
1 TTAGTTTTTGTTT
35602490 TTAGTTTTTGTTT
1 TTAGTTTTTGTTT
35602503 TTAGTTTT
1 TTAGTTTT
35602511 AATAAATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (13 bp):
TTAGTTTTTGTTT
Found at i:35604189 original size:24 final size:23
Alignment explanation
Indices: 35604129--35604204 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 23
35604119 CTCACTGCAT
*
35604129 CTCGTATGAGCTTACCGATATATCAG
1 CTCGTATGAGCTTACTG-T-T-TCAG
*
35604155 CTCGTAAGAGCTTACTGTTCTCAG
1 CTCGTATGAGCTTACTGTT-TCAG
*
35604179 CTTGTATGAGCTTACTGTTTCAG
1 CTCGTATGAGCTTACTGTTTCAG
35604202 CTC
1 CTC
35604205 AATAGAGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 6 0.14
24 22 0.50
25 1 0.02
26 15 0.34
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (23 bp):
CTCGTATGAGCTTACTGTTTCAG
Found at i:35607679 original size:29 final size:29
Alignment explanation
Indices: 35607647--35607840 Score: 248
Period size: 29 Copynumber: 6.7 Consensus size: 29
35607637 TGGATAGTTT
*
35607647 CGACTATCAACTATGAAAAGGGATGGTGA
1 CGACCATCAACTATGAAAAGGGATGGTGA
*
35607676 CGACAATCAACTATGAAAAGGGATGGTGA
1 CGACCATCAACTATGAAAAGGGATGGTGA
* *
35607705 CGACCATCAACTATAAAAAAGGATGGTGA
1 CGACCATCAACTATGAAAAGGGATGGTGA
* * *
35607734 TGACCATTAATTGATGAAAAGGGATGGTGA
1 CGACCATCAACT-ATGAAAAGGGATGGTGA
*
35607764 CGACCATCAAATATGAAAAGGGATGGTGA
1 CGACCATCAACTATGAAAAGGGATGGTGA
* *
35607793 CGACCATTGAA-TATGAAAAGGGATAGTGA
1 CGACCA-TCAACTATGAAAAGGGATGGTGA
*
35607822 TGACCATCGAA-TATGAAAA
1 CGACCATC-AACTATGAAAA
35607841 TTTACGACCA
Statistics
Matches: 146, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
28 1 0.01
29 118 0.81
30 27 0.18
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (29 bp):
CGACCATCAACTATGAAAAGGGATGGTGA
Found at i:35607822 original size:88 final size:88
Alignment explanation
Indices: 35607659--35607828 Score: 270
Period size: 88 Copynumber: 1.9 Consensus size: 88
35607649 ACTATCAACT
*
35607659 ATGAAAAGGGATGGTGACGACAATCAACTATGAAAAGGGATGGTGACGACCATCAACTATAAAAA
1 ATGAAAAGGGATGGTGACGACAATCAAATATGAAAAGGGATGGTGACGACCATCAACTATAAAAA
*
35607724 AGGATGGTGATGACCATTAATTG
66 AGGATAGTGATGACCATTAATTG
* * *
35607747 ATGAAAAGGGATGGTGACGACCATCAAATATGAAAAGGGATGGTGACGACCATTGAA-TATGAAA
1 ATGAAAAGGGATGGTGACGACAATCAAATATGAAAAGGGATGGTGACGACCA-TCAACTATAAAA
*
35607811 AGGGATAGTGATGACCAT
65 AAGGATAGTGATGACCAT
35607829 CGAATATGAA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
88 72 0.96
89 3 0.04
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.20
Consensus pattern (88 bp):
ATGAAAAGGGATGGTGACGACAATCAAATATGAAAAGGGATGGTGACGACCATCAACTATAAAAA
AGGATAGTGATGACCATTAATTG
Found at i:35610315 original size:42 final size:42
Alignment explanation
Indices: 35610263--35610417 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 42
35610253 CTAAGATTAT
*
35610263 GTGTAAGACCATATCTGGGATATGACATCAATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGACATCGATATGAGATTTC
* * ** *
35610305 GTGTAAGACCATATTTGCGATATGGTATCGATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGACATCGATATGAGATTTC
* * * * *
35610347 GTGTAAGACCATAGCTGGGCTATTGGCGTCGATACGAGATTAT-
1 GTGTAAGACCATATCTGGGATA-TGACATCGATATGAGATT-TC
* *
35610390 ATGTAAGACCATATCTGGGACATGACAT
1 GTGTAAGACCATATCTGGGATATGACAT
35610418 TGGTACGGTA
Statistics
Matches: 91, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
42 58 0.64
43 32 0.35
44 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGACATCGATATGAGATTTC
Found at i:35619450 original size:18 final size:18
Alignment explanation
Indices: 35619427--35619462 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
35619417 CCTTGAATGA
35619427 TCGAGCCTCCCGAAGAAT
1 TCGAGCCTCCCGAAGAAT
35619445 TCGAGCCTCCCGAAGAAT
1 TCGAGCCTCCCGAAGAAT
35619463 ATATGTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.17
Consensus pattern (18 bp):
TCGAGCCTCCCGAAGAAT
Found at i:35631274 original size:19 final size:20
Alignment explanation
Indices: 35631234--35631282 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
35631224 ATTGCAAAAG
35631234 AAATTCAAAATAATTTTCAA
1 AAATTCAAAATAATTTTCAA
35631254 AAATTCAAAAT-ATTTAT-AA
1 AAATTCAAAATAATTT-TCAA
35631273 AAATTTCAAA
1 AAA-TTCAAA
35631283 TTTTCTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATTCAAAATAATTTTCAA
Found at i:35633822 original size:23 final size:23
Alignment explanation
Indices: 35633795--35633842 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
35633785 CTTAAATCCA
35633795 ATTACTAAGTGGTTTTTTAGTTT
1 ATTACTAAGTGGTTTTTTAGTTT
35633818 ATTACTAAGTGGTTTTTTAGTTT
1 ATTACTAAGTGGTTTTTTAGTTT
35633841 AT
1 AT
35633843 ATGAATTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.04, G:0.17, T:0.56
Consensus pattern (23 bp):
ATTACTAAGTGGTTTTTTAGTTT
Found at i:35638999 original size:9 final size:10
Alignment explanation
Indices: 35638985--35639021 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
35638975 TAGAAATATA
35638985 AAATAA-AAT
1 AAATAATAAT
35638994 AAATAATAAT
1 AAATAATAAT
35639004 -AATAATAAT
1 AAATAATAAT
*
35639013 AAAGAATAA
1 AAATAATAA
35639022 CAATAATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 15 0.60
10 10 0.40
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (10 bp):
AAATAATAAT
Found at i:35639055 original size:3 final size:3
Alignment explanation
Indices: 35639049--35639117 Score: 50
Period size: 3 Copynumber: 22.7 Consensus size: 3
35639039 AAGAATGGTG
* * * * * * *
35639049 ATA ATA ATA CTA CTA CTA AAA ATA ATA ATG ATA GTA ATA GTA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
35639096 AGTAA ATA ATA ATA ATA ATA AT
1 A-T-A ATA ATA ATA ATA ATA AT
35639118 GATGATGATG
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
2 2 0.04
3 48 0.91
4 1 0.02
5 2 0.04
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:35642855 original size:31 final size:32
Alignment explanation
Indices: 35642794--35642856 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
35642784 ATAATGTTTG
*
35642794 ATATAAGATGCAAAAGATTAATAAATTTAAAT
1 ATATAAGATACAAAAGATTAATAAATTTAAAT
*
35642826 ATATAA-ATACAACAGATTAA-AAATATTAAAT
1 ATATAAGATACAAAAGATTAATAAAT-TTAAAT
35642857 GTATTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 4 0.14
31 18 0.64
32 6 0.21
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (32 bp):
ATATAAGATACAAAAGATTAATAAATTTAAAT
Found at i:35642875 original size:22 final size:21
Alignment explanation
Indices: 35642849--35642893 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
35642839 AGATTAAAAA
35642849 TATTAAATGTATTTTAATTGTT
1 TATT-AATGTATTTTAATTGTT
* * *
35642871 TATTATTGTATTTTTATTTTT
1 TATTAATGTATTTTAATTGTT
35642892 TA
1 TA
35642894 AGTTGATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (21 bp):
TATTAATGTATTTTAATTGTT
Found at i:35644134 original size:24 final size:24
Alignment explanation
Indices: 35644107--35644153 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
35644097 CTAAACCAAC
*
35644107 CACTAACTCCATCATCCCACTTGT
1 CACTAACTCCATCACCCCACTTGT
35644131 CACTAACTCCATCACCCCACTTG
1 CACTAACTCCATCACCCCACTTG
35644154 CCTGCAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.45, G:0.04, T:0.26
Consensus pattern (24 bp):
CACTAACTCCATCACCCCACTTGT
Found at i:35644287 original size:24 final size:26
Alignment explanation
Indices: 35644237--35644289 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
35644227 TTTTTGGAGA
*
35644237 AAAAAGGAGAGAGATTCAAATACAAG
1 AAAAAGGAGAGACATTCAAATACAAG
*
35644263 AAAAA-GAGAGACTTTC-AATACAAG
1 AAAAAGGAGAGACATTCAAATACAAG
35644287 AAA
1 AAA
35644290 TACACGACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 11 0.44
25 9 0.36
26 5 0.20
ACGTcount: A:0.58, C:0.09, G:0.19, T:0.13
Consensus pattern (26 bp):
AAAAAGGAGAGACATTCAAATACAAG
Found at i:35644682 original size:3 final size:3
Alignment explanation
Indices: 35644668--35644966 Score: 62
Period size: 3 Copynumber: 101.0 Consensus size: 3
35644658 ATAGTGTTTT
* *
35644668 TTA TTA TT- TTA TTA TTA TTT TTA TCT- TT- TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * * * * *
35644711 TTAA CCTA TTA TTA TTA TTT TTA TTA ATA -TA GTG TCA TT- TTC TT-
1 TT-A -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * ** *
35644755 TTT TTT TTA -TA TTG TTA TTA TTA GCA CGTA -TA TTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A
* * * *
35644800 TGTA TCA TTG TTA TTT TCTA TT- TTA TTA TTA CTT- TTA TT- TCTA TTG
1 T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA T-TA TTA
*
35644846 TT- TCTA TTA TTA TTA TT- TTCA TTA CTTCCA TTA TTA CTA TTA TT-
1 TTA T-TA TTA TTA TTA TTA TT-A TTA -TT--A TTA TTA TTA TTA TTA
* * * * * *
35644890 TTC TT- TTA TCA TTA TTG TT- TCCTA TTA TTA TAA GTA -TA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA
* *
35644934 TTA CTA TT- TT- TTA TT- TTA TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35644967 ACATATCATT
Statistics
Matches: 222, Mismatches: 40, Indels: 68
0.67 0.12 0.21
Matches are distributed among these distances:
2 36 0.16
3 160 0.72
4 20 0.09
5 5 0.02
6 1 0.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:35644690 original size:20 final size:20
Alignment explanation
Indices: 35644665--35644736 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
35644655 GTAATAGTGT
35644665 TTTTTATTATTTTATTATTA
1 TTTTTATTATTTTATTATTA
*
35644685 TTTTTATCT-TTTTATTACTA
1 TTTTTAT-TATTTTATTATTA
* *
35644705 TTATTATTAACCTATTATTATTA
1 TTTTTATT-A--TTTTATTATTA
35644728 TTTTTATTA
1 TTTTTATTA
35644737 ATATAGTGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.02
20 23 0.55
21 1 0.02
22 1 0.02
23 16 0.38
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTATTATTTTATTATTA
Found at i:35644837 original size:24 final size:25
Alignment explanation
Indices: 35644810--35644905 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 25
35644800 TGTATCATTG
35644810 TTATTTTCTATT-TTATTATTACTT
1 TTATTTTCTATTATTATTATTACTT
*
35644834 TTA-TTTCTATTGTT-TCTATTA-TT
1 TTATTTTCTATTATTAT-TATTACTT
*
35644857 ATTATTTTC-ATTACTTCCATTATTACTA
1 -TTATTTTCTATTA-TT--ATTATTACTT
* *
35644885 TTATTTTCTTTTATCATTATT
1 TTATTTTCTATTATTATTATT
35644906 GTTTCCTATT
Statistics
Matches: 58, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
23 11 0.19
24 16 0.28
25 12 0.21
27 14 0.24
28 5 0.09
ACGTcount: A:0.22, C:0.11, G:0.01, T:0.66
Consensus pattern (25 bp):
TTATTTTCTATTATTATTATTACTT
Found at i:35651021 original size:25 final size:25
Alignment explanation
Indices: 35650993--35651064 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
35650983 CCAAACAAAA
* *
35650993 TACGCCATAAGGGGAACATACAGAG
1 TACGCCATAAAGGCAACATACAGAG
*
35651018 TACGCCATAAAGGCAACATACAGAA
1 TACGCCATAAAGGCAACATACAGAG
* * *
35651043 TATGCCACAAAGGCGACATACA
1 TACGCCATAAAGGCAACATACA
35651065 TAATCACGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (25 bp):
TACGCCATAAAGGCAACATACAGAG
Found at i:35652882 original size:24 final size:25
Alignment explanation
Indices: 35652855--35652902 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
35652845 CAAGTGAGCC
*
35652855 ATATCAGGAAGCTCAT-AAGAGCTT
1 ATATCAAGAAGCTCATGAAGAGCTT
*
35652879 ATATCAAGAGGCTCATGAAGAGCT
1 ATATCAAGAAGCTCATGAAGAGCT
35652903 GCGTTTGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (25 bp):
ATATCAAGAAGCTCATGAAGAGCTT
Done.