Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 163 of 313
Found at i:51224605 original size:45 final size:45
Alignment explanation
Indices: 51224506--51224661 Score: 186
Period size: 45 Copynumber: 3.3 Consensus size: 45
51224496 ATGTGCCGAC
*
51224506 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATAC---TA---T
* *
51224557 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTAT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTAT
** * *
51224602 TACTGTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTAT
*
51224647 TACTGTTATTGTTAC
1 TACTGTTACTGTTAC
51224662 TGCTACCGTT
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
45 54 0.56
48 2 0.02
51 40 0.42
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTAT
Found at i:51224652 original size:6 final size:6
Alignment explanation
Indices: 51224641--51224689 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
51224631 GTGTGTTGAA
* * *
51224641 TACTGT TACTGT TATTGT TACTGC TACCGT TACTGAT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG-T TACTG
51224690 GTGTGTTTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
6 23 0.66
7 12 0.34
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.47
Consensus pattern (6 bp):
TACTGT
Found at i:51234644 original size:83 final size:83
Alignment explanation
Indices: 51234501--51234661 Score: 279
Period size: 83 Copynumber: 1.9 Consensus size: 83
51234491 GGAGGAAGCC
51234501 TAAGAGGGGCATTCAAGTGGGTTTGAAATTTTTCTCCAAGTTACTTCTCATCCACCATCC-TCCT
1 TAAGAGGGGCATTCAAGTGGGTTTGAAATTTTTCTCCAAGTTACTTCTCATCCACCATCCTTCC-
51234565 CTATTTTGTAAAACTAGTA
65 CTATTTTGTAAAACTAGTA
* * *
51234584 TAAGAGGGGCATTCAAGTGGGTTTGAATTTTTTCTCCAAGTTACTTTTCATCCACTATCCTTCCC
1 TAAGAGGGGCATTCAAGTGGGTTTGAAATTTTTCTCCAAGTTACTTCTCATCCACCATCCTTCCC
51234649 TATTTTGTAAAAC
66 TATTTTGTAAAAC
51234662 CGTTCCTTTA
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
83 71 0.96
84 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (83 bp):
TAAGAGGGGCATTCAAGTGGGTTTGAAATTTTTCTCCAAGTTACTTCTCATCCACCATCCTTCCC
TATTTTGTAAAACTAGTA
Found at i:51234971 original size:44 final size:43
Alignment explanation
Indices: 51234876--51234958 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
51234866 TTTTTGTCCT
* *
51234876 GATGTGGTTGCTTCCATGTTGCTTCCTTTTTTGTTTGGACATA
1 GATGTGGTTGCTTCCACGTTGCTTCCTTTTTTGTCTGGACATA
* *
51234919 GATGTGGTTGCTTCCCCGTTGCTTCTTTTTTTTGTCTGGA
1 GATGTGGTTGCTTCCACGTTGCTTC-CTTTTTTGTCTGGA
51234959 TGCAATTGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
43 23 0.66
44 12 0.34
ACGTcount: A:0.08, C:0.18, G:0.24, T:0.49
Consensus pattern (43 bp):
GATGTGGTTGCTTCCACGTTGCTTCCTTTTTTGTCTGGACATA
Found at i:51247513 original size:43 final size:43
Alignment explanation
Indices: 51247461--51247575 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
51247451 TGTGTTTTTT
* * *
51247461 GTGTAAGACCACGTCTGGGATGTTGGCATCGATTTGTGTTTAC
1 GTGTAAGACCACGTCTGGGAAGTTGGCATCGATATGTGATTAC
* *
51247504 GTGTAAGACC-CAATTTGGGACAG-TGGCATCGATATGTGATTAC
1 GTGTAAGACCAC-GTCTGGGA-AGTTGGCATCGATATGTGATTAC
* * * *
51247547 ATGTAAGACCATGTCTGAGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGAAGTTGGCAT
51247576 TGTACGAGCT
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
42 2 0.04
43 54 0.95
44 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGAAGTTGGCATCGATATGTGATTAC
Found at i:51249482 original size:14 final size:15
Alignment explanation
Indices: 51249457--51249490 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
51249447 AAGTTCTTCA
*
51249457 AATTATTAATTAATT
1 AATTATTAATTAAAT
51249472 AATTA-TAATTAAAT
1 AATTATTAATTAAAT
51249486 AATTA
1 AATTA
51249491 AAGCTCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTATTAATTAAAT
Found at i:51249641 original size:16 final size:17
Alignment explanation
Indices: 51249616--51249651 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
51249606 TTAAAATTGG
51249616 ATTGAAAAATT-ATTTA
1 ATTGAAAAATTAATTTA
*
51249632 ATTGAGAAATTAATTTA
1 ATTGAAAAATTAATTTA
51249649 ATT
1 ATT
51249652 AATTGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (17 bp):
ATTGAAAAATTAATTTA
Found at i:51250294 original size:159 final size:159
Alignment explanation
Indices: 51250005--51250324 Score: 532
Period size: 159 Copynumber: 2.0 Consensus size: 159
51249995 TAATTTCAAA
* * * *
51250005 GACGCATAGTTTTCGTTCATAGAGAGAATTAACCTTCCTTCTGAAAGTTAATAAAGTTTTTCATT
1 GACGCATAGTTTCCGTTCATAGAGAGAATTAACCTTCCTACTAAAAGTAAATAAAGTTTTTCATT
* **
51250070 CTATACAATTGGTTTGATAAATTTTGAGTACACACTCAAAGCAATTCGTGGTTTGAGAATAACTG
66 CTATACAATTGGTTTGATAAATTTTGAGCACACACTCAAAGCAATTCGTAATTTGAGAATAACTG
* *
51250135 ATAAGGTTGTTCGATAGAAAGTCAAGATC
131 ATAAGGCTATTCGATAGAAAGTCAAGATC
* *
51250164 GACGCATAGTTTCCGTTTATAGAGAGAATTAGCCTTCCTACTAAAAGTAAATAAAGTTTTTCATT
1 GACGCATAGTTTCCGTTCATAGAGAGAATTAACCTTCCTACTAAAAGTAAATAAAGTTTTTCATT
*
51250229 CTATACAATTGGTTTGATAAATTTTGAGCACACACTCAAAGCAGTTCGTAATTTGAGAATAACTG
66 CTATACAATTGGTTTGATAAATTTTGAGCACACACTCAAAGCAATTCGTAATTTGAGAATAACTG
51250294 ATAAGGCTATTCGATAGAAAGTCAAGATC
131 ATAAGGCTATTCGATAGAAAGTCAAGATC
51250323 GA
1 GA
51250325 TTTTAGTCCG
Statistics
Matches: 149, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
159 149 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (159 bp):
GACGCATAGTTTCCGTTCATAGAGAGAATTAACCTTCCTACTAAAAGTAAATAAAGTTTTTCATT
CTATACAATTGGTTTGATAAATTTTGAGCACACACTCAAAGCAATTCGTAATTTGAGAATAACTG
ATAAGGCTATTCGATAGAAAGTCAAGATC
Found at i:51271642 original size:106 final size:106
Alignment explanation
Indices: 51271472--51271675 Score: 381
Period size: 106 Copynumber: 1.9 Consensus size: 106
51271462 AAGCTTTAAG
*
51271472 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
51271537 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
* *
51271578 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
51271643 TTTTCCAAACGCGAAATATTGCCTTATTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAA
51271676 AAATTTTCCT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 95 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:51272606 original size:23 final size:23
Alignment explanation
Indices: 51272580--51272628 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
51272570 GCTCCAATAT
* *
51272580 TAACAATAATGAC-AATAATAGAA
1 TAACAACAATAACAAATAA-AGAA
51272603 TAACAACAATAACAAATAAAGAA
1 TAACAACAATAACAAATAAAGAA
51272626 TAA
1 TAA
51272629 TAATGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.65, C:0.10, G:0.06, T:0.18
Consensus pattern (23 bp):
TAACAACAATAACAAATAAAGAA
Found at i:51272815 original size:147 final size:147
Alignment explanation
Indices: 51272627--51272919 Score: 568
Period size: 147 Copynumber: 2.0 Consensus size: 147
51272617 AATAAAGAAT
*
51272627 AATAATGATTATAACTATTATGTAAAACAGTGATATAAATAGTAACATTAATAATGATAAAATAT
1 AATAATGATTATAACTATTATGTAAAACAGTGATATAAATAGTAACATCAATAATGATAAAATAT
*
51272692 AAGAAATAATAAAATAATGGCAATAATAATAAGTAGCAATAATAGAATTAATAATAAAAATAAAG
66 AAGAAATAATAAAATAATGGCAATAATAATAAGTAACAATAATAGAATTAATAATAAAAATAAAG
51272757 TTGATTAATTAAAAAAG
131 TTGATTAATTAAAAAAG
51272774 AATAATGATTATAACTATTATGTAAAACAGTGATATAAATAGTAACATCAATAATGATAAAATAT
1 AATAATGATTATAACTATTATGTAAAACAGTGATATAAATAGTAACATCAATAATGATAAAATAT
51272839 AAGAAATAATAAAATAATGGCAATAATAATAAGTAACAATAATAGAATTAATAATAAAAATAAAG
66 AAGAAATAATAAAATAATGGCAATAATAATAAGTAACAATAATAGAATTAATAATAAAAATAAAG
51272904 TTGATTAATTAAAAAA
131 TTGATTAATTAAAAAA
51272920 TGACTATATT
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 144 1.00
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.29
Consensus pattern (147 bp):
AATAATGATTATAACTATTATGTAAAACAGTGATATAAATAGTAACATCAATAATGATAAAATAT
AAGAAATAATAAAATAATGGCAATAATAATAAGTAACAATAATAGAATTAATAATAAAAATAAAG
TTGATTAATTAAAAAAG
Found at i:51276254 original size:5 final size:5
Alignment explanation
Indices: 51276244--51276349 Score: 95
Period size: 5 Copynumber: 21.2 Consensus size: 5
51276234 GGGGTAGGAC
* * * * *
51276244 ATGAT ATGAT ATGAT ATGTT ACGAT ATGAC ATGAT ATGAT ATGAT ACGTT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
* * * * * * * *
51276294 ATAAT ACGTT ATGAT ATGAT ATGAT ATGCT ATGTT ACGTT ACGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
51276344 ATGAT A
1 ATGAT A
51276350 CATTATAATA
Statistics
Matches: 80, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
5 80 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.39
Consensus pattern (5 bp):
ATGAT
Found at i:51276372 original size:30 final size:30
Alignment explanation
Indices: 51276244--51276378 Score: 135
Period size: 30 Copynumber: 4.5 Consensus size: 30
51276234 GGGGTAGGAC
* ** * **
51276244 ATGATATGATATGATATGTTACGATATGAC
1 ATGATATGATATGATACGTTATAATACGTT
51276274 ATGATATGATATGATACGTTATAATACGTT
1 ATGATATGATATGATACGTTATAATACGTT
* * **
51276304 ATGATATGATATGATATGCTATGTTACGTT
1 ATGATATGATATGATACGTTATAATACGTT
* * *
51276334 ACGATATGATATGATACATTATAATATGTT
1 ATGATATGATATGATACGTTATAATACGTT
* *
51276364 TTGTTATGATATGAT
1 ATGATATGATATGAT
51276379 TTGGTTTGAA
Statistics
Matches: 85, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 85 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (30 bp):
ATGATATGATATGATACGTTATAATACGTT
Found at i:51277238 original size:23 final size:23
Alignment explanation
Indices: 51277212--51277255 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
51277202 CATTCTAGCA
*
51277212 CTACGATGTAATTCATTTTGGAC
1 CTACGATGCAATTCATTTTGGAC
*
51277235 CTACGGTGCAATTCATTTTGG
1 CTACGATGCAATTCATTTTGG
51277256 CATATCGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (23 bp):
CTACGATGCAATTCATTTTGGAC
Found at i:51277264 original size:23 final size:23
Alignment explanation
Indices: 51277221--51277267 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
51277211 ACTACGATGT
*
51277221 AATTCATTTTGGACCTACGGTGC
1 AATTCATTTTGGACATACGGTGC
51277244 AATTCATTTTGG-CATATCGGTGC
1 AATTCATTTTGGACATA-CGGTGC
51277267 A
1 A
51277268 TACATTCTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (23 bp):
AATTCATTTTGGACATACGGTGC
Found at i:51278939 original size:3 final size:3
Alignment explanation
Indices: 51278931--51279110 Score: 360
Period size: 3 Copynumber: 60.0 Consensus size: 3
51278921 TAATAGTTGC
51278931 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
51278979 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
51279027 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
51279075 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
51279111 AATAAAGACT
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 177 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:51281174 original size:43 final size:42
Alignment explanation
Indices: 51281126--51281249 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 42
51281116 CTTTAGAAAT
* * *
51281126 AAACGCCGCTAAAAGCCAGGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAAG-CATGACCTTTAGCGACGCTTTTACCAC
* * * * *
51281169 AAACGCTGCTAAAGATCATGACTTTTTGCGACGCTTCTACCAC
1 AAACGCCGCTAAA-AGCATGACCTTTAGCGACGCTTTTACCAC
* *
51281212 AAACGCCACTATAAAGAATGACCTTTAGCGACGCTTTT
1 AAACGCCGCTA-AAAGCATGACCTTTAGCGACGCTTTT
51281250 TTACAAACAC
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
43 61 0.95
44 3 0.05
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAAGCATGACCTTTAGCGACGCTTTTACCAC
Found at i:51282286 original size:18 final size:18
Alignment explanation
Indices: 51282260--51282295 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
51282250 TTATTGTAAG
*
51282260 GCATGGAAATTAAAGCAA
1 GCATAGAAATTAAAGCAA
*
51282278 GCATAGAAATTGAAGCAA
1 GCATAGAAATTAAAGCAA
51282296 ATGAAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.22, T:0.17
Consensus pattern (18 bp):
GCATAGAAATTAAAGCAA
Found at i:51283676 original size:6 final size:6
Alignment explanation
Indices: 51283665--51283706 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
51283655 CCCCCCTCAA
51283665 AAAAAT AAAAAT AAAAAT AAAAA- AAAAAT -AAAAT -AAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
51283707 CCCACATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 15 0.44
6 19 0.56
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:51283691 original size:22 final size:21
Alignment explanation
Indices: 51283663--51283706 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
51283653 CACCCCCCTC
51283663 AAAAAAATAAAAATAAAAATAAA
1 AAAAAAAT-AAAAT-AAAATAAA
51283686 AAAAAAATAAAATAAAATAAA
1 AAAAAAATAAAATAAAATAAA
51283707 CCCACATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (21 bp):
AAAAAAATAAAATAAAATAAA
Found at i:51283966 original size:11 final size:11
Alignment explanation
Indices: 51283950--51283975 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
51283940 ATTGTAGAAC
51283950 AAAACAAAAAG
1 AAAACAAAAAG
51283961 AAAACAAAAAG
1 AAAACAAAAAG
51283972 AAAA
1 AAAA
51283976 ATGAGGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAACAAAAAG
Found at i:51284801 original size:21 final size:21
Alignment explanation
Indices: 51284777--51284822 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
51284767 CCTTAAATCA
* * * *
51284777 TTAACTCTTAATCTCTAACCT
1 TTAACCCTTAACCCCTAACCC
51284798 TTAACCCTTAACCCCTAACCC
1 TTAACCCTTAACCCCTAACCC
51284819 TTAA
1 TTAA
51284823 ACATTATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (21 bp):
TTAACCCTTAACCCCTAACCC
Found at i:51284947 original size:21 final size:21
Alignment explanation
Indices: 51284909--51284949 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
51284899 CTAAATTAAT
* *
51284909 CCCTAACTCTTAATCCCTAAC
1 CCCTAACCCTTAACCCCTAAC
*
51284930 CCCTAACCCTTACCCCCTAA
1 CCCTAACCCTTAACCCCTAA
51284950 ATTACAACCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.49, G:0.00, T:0.24
Consensus pattern (21 bp):
CCCTAACCCTTAACCCCTAAC
Found at i:51285495 original size:41 final size:40
Alignment explanation
Indices: 51285397--51285509 Score: 145
Period size: 41 Copynumber: 2.8 Consensus size: 40
51285387 AAATGTTTTT
*
51285397 GCGGCGCTTTTTTAAAAACGCCGCTAAATCCCGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGCCCGAGCATTA
* ** *
51285437 GCAGCGCTTTTCCAAAAACGCCGCTAAAGCTCTGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGC-CCGAGCATTA
* * *
51285478 GTGGCGTTTTTTTAAAAACGCGGCTAAAGCCC
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGCCC
51285510 CGAAAGGTAA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 27 0.45
41 33 0.55
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
GCGGCGCTTTTTTAAAAACGCCGCTAAAGCCCGAGCATTA
Found at i:51285625 original size:40 final size:40
Alignment explanation
Indices: 51285539--51285675 Score: 147
Period size: 40 Copynumber: 3.4 Consensus size: 40
51285529 TGGGATTAGG
* *
51285539 TTTTTTGCGGCGCTTTTCTAAGAAACGCCGCTAATGC-TC-A
1 TTTTTAGCGGCGTTTTTC-AA-AAACGCCGCTAATGCTTCGA
*
51285579 TTTTTAGCGGCG-TTTTCAAAAAGCGCCACTAATGCTTCGA
1 TTTTTAGCGGCGTTTTTCAAAAA-CGCCGCTAATGCTTCGA
* * *
51285619 TCTTTAGCGGCGTTTTTTGAAAAACGTCGCTAATGCTT-GA
1 TTTTTAGCGGCG-TTTTTCAAAAACGCCGCTAATGCTTCGA
*
51285659 TTTTTAGCGGCATTTTT
1 TTTTTAGCGGCGTTTTT
51285676 TATCCAAACG
Statistics
Matches: 84, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
37 3 0.04
38 13 0.15
39 12 0.14
40 35 0.42
41 12 0.14
42 9 0.11
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.38
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTCAAAAACGCCGCTAATGCTTCGA
Found at i:51294953 original size:28 final size:31
Alignment explanation
Indices: 51294895--51294953 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
51294885 ATATATAGTT
51294895 TTTATATTATTTATAAAGGTTATAATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
* *
51294926 TTTATA-TA-TTAT-AATGTTATTATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
51294954 AAACAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 14 0.54
29 4 0.15
30 2 0.08
31 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (31 bp):
TTTATATTATTTATAAAGGTTATAATAATAA
Found at i:51295949 original size:41 final size:43
Alignment explanation
Indices: 51295836--51295968 Score: 157
Period size: 45 Copynumber: 3.0 Consensus size: 43
51295826 AGGATTTCCA
*
51295836 ATATGTGTTCTCGTGTAAGACCAC-GTCTGGGACGATGGCATCGAT
1 ATATGTGAT-TCGTGTAAGACC-CTGTCTGGGAC-ATGGCATCGAT
* *
51295881 ATATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCG-T
1 ATATGTGATT-CGTGTAAGACCCTGTCTGGGACA-TGGCATCGAT
51295925 AT-T-TGATTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATATGTGATTCGTGTAAGACCCTGTCTGGGACA-TGGCATCGAT
51295967 AT
1 AT
51295969 GATATAGCAT
Statistics
Matches: 78, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
41 29 0.37
42 8 0.10
43 1 0.01
44 5 0.06
45 35 0.45
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
ATATGTGATTCGTGTAAGACCCTGTCTGGGACATGGCATCGAT
Found at i:51297099 original size:6 final size:6
Alignment explanation
Indices: 51297088--51297116 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
51297078 GGATGTGTTA
51297088 TGGTTG TGGTTG TGGTTG TGGTTG TGGTT
1 TGGTTG TGGTTG TGGTTG TGGTTG TGGTT
51297117 TATTAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (6 bp):
TGGTTG
Found at i:51298549 original size:15 final size:14
Alignment explanation
Indices: 51298518--51298556 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
51298508 AAATTTTGAA
51298518 AAAAACAAAAAAAT
1 AAAAACAAAAAAAT
*
51298532 AAAAACAAATAAATT
1 AAAAACAAA-AAAAT
*
51298547 AAAATCAAAA
1 AAAAACAAAA
51298557 TTAACAACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAACAAAAAAAT
Found at i:51299061 original size:15 final size:15
Alignment explanation
Indices: 51299017--51299064 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
51299007 TATACTTTGT
*
51299017 TTAACTTTTAATTAA
1 TTAACATTTAATTAA
*
51299032 -TCACATTTAACTTAA
1 TTAACATTTAA-TTAA
*
51299047 TTAATATTTAATTAA
1 TTAACATTTAATTAA
51299062 TTA
1 TTA
51299065 TTTTATAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 8 0.30
15 11 0.41
16 8 0.30
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAACATTTAATTAA
Found at i:51301791 original size:45 final size:45
Alignment explanation
Indices: 51301752--51301846 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 45
51301742 AGAAGATGAT
* *
51301752 GAAGAATATCCTTTGATGGAATCATTATATCCAGCAGAAGAAAAC
1 GAAGAATATCCATTGATGGAATCATTACATCCAGCAGAAGAAAAC
51301797 GAAGAATATCCATTGATGGAATCATTACATCCAGCAGAAGAAAAC
1 GAAGAATATCCATTGATGGAATCATTACATCCAGCAGAAGAAAAC
51301842 GAAGA
1 GAAGA
51301847 TGAAGAAGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (45 bp):
GAAGAATATCCATTGATGGAATCATTACATCCAGCAGAAGAAAAC
Found at i:51315164 original size:10 final size:10
Alignment explanation
Indices: 51315149--51315230 Score: 59
Period size: 10 Copynumber: 8.4 Consensus size: 10
51315139 TCCAAGAATT
51315149 TTTTTAATAA
1 TTTTTAATAA
51315159 TTTTTAA-ATA
1 TTTTTAATA-A
*
51315169 TTTTT--TAC
1 TTTTTAATAA
*
51315177 TTTTAAATAAA
1 TTTTTAAT-AA
51315188 TTTTT-ATAA
1 TTTTTAATAA
51315197 TTTCTT-ATAA
1 TTT-TTAATAA
51315207 TTTTTAA-AA
1 TTTTTAATAA
*
51315216 GTTTTGAATAA
1 -TTTTTAATAA
51315227 TTTT
1 TTTT
51315231 ATAACTTTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
8 4 0.07
9 11 0.19
10 36 0.62
11 7 0.12
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:51315191 original size:18 final size:17
Alignment explanation
Indices: 51315160--51315193 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
51315150 TTTTAATAAT
*
51315160 TTTTAAATATTTTTTAC
1 TTTTAAATAATTTTTAC
51315177 TTTTAAATAAATTTTTA
1 TTTTAAAT-AATTTTTA
51315194 TAATTTCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAATAATTTTTAC
Found at i:51317115 original size:31 final size:31
Alignment explanation
Indices: 51317043--51317119 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
51317033 AATAGTTCAT
*
51317043 TGGGATAGTAAACACAAAATAGATAGTCTGC
1 TGGGATAGTAAACACAAAATAGATAGTCCGC
* * *
51317074 TAGGACAGTAAACACAGAATAGATAGTCCG-
1 TGGGATAGTAAACACAAAATAGATAGTCCGC
51317104 TCGGGATAGTAAACAC
1 T-GGGATAGTAAACAC
51317120 GGGGTGATTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 1 0.03
31 38 0.97
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (31 bp):
TGGGATAGTAAACACAAAATAGATAGTCCGC
Found at i:51320941 original size:21 final size:21
Alignment explanation
Indices: 51320864--51320993 Score: 75
Period size: 21 Copynumber: 6.2 Consensus size: 21
51320854 AATTAACTCA
*
51320864 TATGAGTTTCCGTTTAACCCT
1 TATGGGTTTCCGTTTAACCCT
* * *
51320885 AATGGGTTTCCGTTTAGCTCT
1 TATGGGTTTCCGTTTAACCCT
* ** * **
51320906 TTTAAGCTTCAATTTAACCCT
1 TATGGGTTTCCGTTTAACCCT
* *
51320927 TATGGGTTTCCATTTAGA-TCT
1 TATGGGTTTCCGTTTA-ACCCT
* *
51320948 TATGAGCTTT-CGTTCAACCCT
1 TATG-GGTTTCCGTTTAACCCT
* * *
51320969 TATGGGTTTCTGTTTAGCACT
1 TATGGGTTTCCGTTTAACCCT
51320990 TATG
1 TATG
51320994 TGCTTCTGTG
Statistics
Matches: 77, Mismatches: 28, Indels: 8
0.68 0.25 0.07
Matches are distributed among these distances:
20 5 0.06
21 67 0.87
22 5 0.06
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.44
Consensus pattern (21 bp):
TATGGGTTTCCGTTTAACCCT
Found at i:51320993 original size:42 final size:42
Alignment explanation
Indices: 51320864--51320998 Score: 141
Period size: 42 Copynumber: 3.2 Consensus size: 42
51320854 AATTAACTCA
* *
51320864 TATGAG-TTTCCGTTTAACCCTAATGGGTTTCCGTTTAGCTCT
1 TATGAGCTTT-CGTTTAACCCTTATGGGTTTCCGTTTAGCACT
* * * *
51320906 TTTAAGC-TTCAATTTAACCCTTATGGGTTTCCATTTAG-ATCT
1 TATGAGCTTTC-GTTTAACCCTTATGGGTTTCCGTTTAGCA-CT
* *
51320948 TATGAGCTTTCGTTCAACCCTTATGGGTTTCTGTTTAGCACT
1 TATGAGCTTTCGTTTAACCCTTATGGGTTTCCGTTTAGCACT
*
51320990 TATGTGCTT
1 TATGAGCTT
51320999 CTGTGTAGCC
Statistics
Matches: 75, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
42 70 0.93
43 4 0.05
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.44
Consensus pattern (42 bp):
TATGAGCTTTCGTTTAACCCTTATGGGTTTCCGTTTAGCACT
Found at i:51321000 original size:21 final size:21
Alignment explanation
Indices: 51320967--51321021 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
51320957 TCGTTCAACC
* *
51320967 CTTATGGGTTTCTGTTTAGCA
1 CTTATGGGCTTCTGTGTAGCA
*
51320988 CTTATGTGCTTCTGTGTAGC-
1 CTTATGGGCTTCTGTGTAGCA
*
51321008 CTT-CGGGCTTCTGT
1 CTTATGGGCTTCTGT
51321022 ATATGATGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 9 0.31
20 3 0.10
21 17 0.59
ACGTcount: A:0.09, C:0.20, G:0.25, T:0.45
Consensus pattern (21 bp):
CTTATGGGCTTCTGTGTAGCA
Found at i:51328634 original size:42 final size:43
Alignment explanation
Indices: 51328576--51328670 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 43
51328566 AGTTAACTCA
* * *
51328576 TATGAGTTTCTGTTTAACCCTAATGAG-TTTCCATTTAGCTCT
1 TATGAGCTTCAGTTTAACCCTAATGAGTTTTCCATTCAGCTCT
* * * *
51328618 TTTGAGCTTCAGTTTAACCCTTATGGGTTTTCCGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTAATGAGTTTTCCATTCAGCTCT
51328661 TATGAGCTTC
1 TATGAGCTTC
51328671 CGTTCAATCA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 22 0.50
43 22 0.50
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (43 bp):
TATGAGCTTCAGTTTAACCCTAATGAGTTTTCCATTCAGCTCT
Found at i:51328659 original size:43 final size:43
Alignment explanation
Indices: 51328576--51328690 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
51328566 AGTTAACTCA
* * * * *
51328576 TATGAGTTTCTGTTTAACCCTAATGAG-TTTCCATTTAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTTCCATTCAGCTCT
* *
51328618 TTTGAGCTTCAGTTTAACCCTTATGGGTTTTCCGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTTCCATTCAGCTCT
* * * *
51328661 TATGAGCTTCCGTTCAATCATTATGGGTTT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTT
51328691 CTGTTTAGCA
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 22 0.37
43 38 0.63
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.44
Consensus pattern (43 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTTCCATTCAGCTCT
Found at i:51337128 original size:8 final size:8
Alignment explanation
Indices: 51337115--51337165 Score: 58
Period size: 8 Copynumber: 7.0 Consensus size: 8
51337105 TGCATAACTT
51337115 ACATAATA
1 ACATAATA
51337123 ACATAATA
1 ACATAATA
51337131 A-AT--T-
1 ACATAATA
51337135 ACATAAT-
1 ACATAATA
*
51337142 ATATAATA
1 ACATAATA
51337150 ACATAATA
1 ACATAATA
51337158 ACATAATA
1 ACATAATA
51337166 CAGAACTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 1 0.03
5 3 0.08
7 9 0.24
8 24 0.65
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (8 bp):
ACATAATA
Found at i:51337155 original size:15 final size:15
Alignment explanation
Indices: 51337117--51337157 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
51337107 CATAACTTAC
51337117 ATAATAACAT-A-AT
1 ATAATAACATAATAT
*
51337130 A-AATTACATAATAT
1 ATAATAACATAATAT
51337144 ATAATAACATAATA
1 ATAATAACATAATA
51337158 ACATAATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 7 0.30
13 2 0.09
14 3 0.13
15 11 0.48
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAATAACATAATAT
Found at i:51337217 original size:9 final size:9
Alignment explanation
Indices: 51337204--51337319 Score: 86
Period size: 9 Copynumber: 13.8 Consensus size: 9
51337194 AACTTACATA
51337204 ATAACTTAC
1 ATAACTTAC
* *
51337213 GTAACTTAT
1 ATAACTTAC
51337222 ATAACTTAC
1 ATAACTTAC
*
51337231 ATAGCTTAC
1 ATAACTTAC
*
51337240 AT-TC-TAC
1 ATAACTTAC
*
51337247 ACAACTTAC
1 ATAACTTAC
*
51337256 ATAACATAC
1 ATAACTTAC
51337265 ATAA--TAC
1 ATAACTTAC
*
51337272 AGAACTTAC
1 ATAACTTAC
**
51337281 ATAAAATAC
1 ATAACTTAC
51337290 --AACTTAC
1 ATAACTTAC
*
51337297 ATATCTTAC
1 ATAACTTAC
51337306 ATAA--TAC
1 ATAACTTAC
51337313 ATAACTT
1 ATAACTT
51337320 CTCTGAACTA
Statistics
Matches: 81, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
7 22 0.27
8 2 0.02
9 57 0.70
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:51337238 original size:18 final size:18
Alignment explanation
Indices: 51337179--51337319 Score: 64
Period size: 16 Copynumber: 8.1 Consensus size: 18
51337169 AACTTATATA
*
51337179 TATATAAGCTTGCATAACT
1 TATATAA-CTTACATAACT
*
51337198 TACATAATAACTTACGTAACT
1 T--AT-ATAACTTACATAACT
*
51337219 TATATAACTTACATAGCT
1 TATATAACTTACATAACT
* * *
51337237 TACAT-TC-TACACAACT
1 TATATAACTTACATAACT
* *
51337253 TACATAACATACATAA--
1 TATATAACTTACATAACT
* *
51337269 TACAGAACTTACATAA--
1 TATATAACTTACATAACT
* * *
51337285 AATACAACTTACATATCT
1 TATATAACTTACATAACT
*
51337303 TACATAA--TACATAACT
1 TATATAACTTACATAACT
51337319 T
1 T
51337320 CTCTGAACTA
Statistics
Matches: 95, Mismatches: 20, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
16 47 0.49
17 2 0.02
18 27 0.28
19 3 0.03
21 12 0.13
22 4 0.04
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.33
Consensus pattern (18 bp):
TATATAACTTACATAACT
Found at i:51337253 original size:25 final size:25
Alignment explanation
Indices: 51337224--51337290 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
51337214 TAACTTATAT
* * **
51337224 AACTTACATAGCTTACATTCTACAC
1 AACTTACATAACATACATAATACAC
*
51337249 AACTTACATAACATACATAATACAG
1 AACTTACATAACATACATAATACAC
*
51337274 AACTTACATAAAATACA
1 AACTTACATAACATACA
51337291 ACTTACATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.22, G:0.03, T:0.27
Consensus pattern (25 bp):
AACTTACATAACATACATAATACAC
Found at i:51338167 original size:43 final size:43
Alignment explanation
Indices: 51338107--51338197 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
51338097 CTTTGAGTTC
* * * *
51338107 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
*
51338149 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATATTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
51338192 ATTACC
1 ATTACC
51338198 TTGCATATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
Found at i:51338560 original size:43 final size:43
Alignment explanation
Indices: 51338454--51338637 Score: 266
Period size: 43 Copynumber: 4.3 Consensus size: 43
51338444 AAAATATATT
* *
51338454 TTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCAAT--TC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-TTGGTC
* * *
51338496 TATAGCGGCGTTTGTGTGAAAAGCACCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
51338539 TTTAGCGGTGTTTGTGGGAAAAGCGCCGCTAAAGGT-TATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCT-TGGTC
*
51338582 TTTAACGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
51338625 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
51338638 ATTTATCAAA
Statistics
Matches: 128, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
41 1 0.01
42 36 0.28
43 90 0.70
44 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:51343156 original size:31 final size:31
Alignment explanation
Indices: 51343121--51343180 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
51343111 CATTTATAGA
51343121 ATTACATGTTAAACCAAAATTGATATATAAT
1 ATTACATGTTAAACCAAAATTGATATATAAT
* *
51343152 ATTACATGTTAAACTAAAGTTGATATATA
1 ATTACATGTTAAACCAAAATTGATATATA
51343181 TAGTTTTGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (31 bp):
ATTACATGTTAAACCAAAATTGATATATAAT
Found at i:51350849 original size:14 final size:15
Alignment explanation
Indices: 51350809--51350851 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
51350799 TATTACTATT
*
51350809 TATTATTATTAAATA
1 TATTATAATTAAATA
51350824 TATTATAATTAAA-A
1 TATTATAATTAAATA
*
51350838 TA-TATAATTTAATA
1 TATTATAATTAAATA
51350852 AAATTCTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.36
14 4 0.16
15 12 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TATTATAATTAAATA
Found at i:51351023 original size:101 final size:93
Alignment explanation
Indices: 51350917--51351199 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
51350907 ACTATAAAAG
* * * *
51350917 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
51350981 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
51351018 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
51351081 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
51351109 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
51351172 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
51351200 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:51351046 original size:26 final size:28
Alignment explanation
Indices: 51351017--51351077 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
51351007 TATGAATTTG
*
51351017 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
51351043 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
51351071 TAAAATT
1 TATAATT
51351078 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:51351075 original size:47 final size:46
Alignment explanation
Indices: 51351024--51351167 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
51351014 TTGTATAATT
51351024 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
51351071 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
51351115 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
51351162 TAAAAT
1 TAAAAT
51351168 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:51351087 original size:91 final size:90
Alignment explanation
Indices: 51350992--51351199 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
51350982 TAATTATAAC
* * * *
51350992 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
51351057 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
51351083 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
51351148 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
51351174 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
51351200 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:51351159 original size:44 final size:43
Alignment explanation
Indices: 51351017--51351159 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
51351007 TATGAATTTG
* *
51351017 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
51351061 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
51351108 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
51351152 TATAATTT
1 TATAATTT
51351160 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:51351174 original size:47 final size:47
Alignment explanation
Indices: 51351042--51351180 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
51351032 TTATTATTAC
* *
51351042 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
51351089 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
51351133 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
51351180 A
1 A
51351181 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:51355627 original size:15 final size:15
Alignment explanation
Indices: 51355603--51355632 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51355593 GGAGGGTAAA
*
51355603 ACAGAGAGCAAATCG
1 ACAGAAAGCAAATCG
51355618 ACAGAAAGCAAATCG
1 ACAGAAAGCAAATCG
51355633 GCCAAAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.20, G:0.23, T:0.07
Consensus pattern (15 bp):
ACAGAAAGCAAATCG
Found at i:51365473 original size:19 final size:19
Alignment explanation
Indices: 51365451--51365492 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
51365441 TCACTTACTT
*
51365451 TTTTTATTT-TAATGTTTTA
1 TTTTTATTTAAAAT-TTTTA
*
51365470 TTTTTCTTTAAAATTTTTA
1 TTTTTATTTAAAATTTTTA
51365489 TTTT
1 TTTT
51365493 AAATTATCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTATTTAAAATTTTTA
Found at i:51365958 original size:31 final size:30
Alignment explanation
Indices: 51365916--51365975 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
51365906 CAGGAATAGG
*
51365916 AAAAATATATAATATGTTCCTAAATATATA
1 AAAAATATATAATATATTCCTAAATATATA
51365946 AAAACATATATAATATATTCCTAAATATAT
1 AAAA-ATATATAATATATTCCTAAATATAT
51365976 GCCTAAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (30 bp):
AAAAATATATAATATATTCCTAAATATATA
Found at i:51367343 original size:22 final size:22
Alignment explanation
Indices: 51367296--51367343 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
51367286 TTATCAGCTC
*
51367296 TTATTATTTTATTATTCCAAATTA
1 TTATTATTTTATTATT-C-AAGTA
51367320 TTATTATTATTATTATT-AAGTA
1 TTATTATT-TTATTATTCAAGTA
51367342 TT
1 TT
51367344 TTAAGTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 6 0.27
24 8 0.36
25 8 0.36
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTATTTTATTATTCAAGTA
Found at i:51367789 original size:4 final size:4
Alignment explanation
Indices: 51367780--51367820 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
51367770 AAATTTCGTC
51367780 TATT TATT TATT TATT TA-- TATT TATT TATT T-TT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
51367821 GTCAAATTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 3 0.09
4 29 0.85
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:51367803 original size:14 final size:15
Alignment explanation
Indices: 51367784--51367820 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
51367774 TTCGTCTATT
51367784 TATTTATTTA-TTTA
1 TATTTATTTATTTTA
*
51367798 TATTTATTTATTTTT
1 TATTTATTTATTTTA
51367813 TATTTATT
1 TATTTATT
51367821 GTCAAATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTATTTATTTTA
Found at i:51367803 original size:18 final size:17
Alignment explanation
Indices: 51367780--51367815 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
51367770 AAATTTCGTC
51367780 TATTTATTTATTTATTTA
1 TATTTATTTATTT-TTTA
51367798 TATTTATTTATTTTTTA
1 TATTTATTTATTTTTTA
51367815 T
1 T
51367816 TTATTGTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TATTTATTTATTTTTTA
Found at i:51374808 original size:30 final size:30
Alignment explanation
Indices: 51374751--51374809 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
51374741 GGCTTTTGAA
* *
51374751 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
51374781 AATATTTACAAAAAGA-GCACCCAAATTTT
1 AATATTTACAAAAAGAGGCA-CCAAATTTT
51374810 GAAAATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:51385339 original size:34 final size:35
Alignment explanation
Indices: 51385301--51385373 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 35
51385291 TTCCATGCTA
** *
51385301 AATTCAATTCGGCAATGT-AATTATACATACATAC
1 AATTCAATTCGGCAATGTAAAAAATAAATACATAC
*
51385335 AATTCAATTCGGCTATGTAAAAAATAAATACATAC
1 AATTCAATTCGGCAATGTAAAAAATAAATACATAC
51385370 AATT
1 AATT
51385374 TAGAATCCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
34 17 0.50
35 17 0.50
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (35 bp):
AATTCAATTCGGCAATGTAAAAAATAAATACATAC
Found at i:51386316 original size:13 final size:13
Alignment explanation
Indices: 51386298--51386322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51386288 ACAAACGATA
51386298 AAATTTTCACACG
1 AAATTTTCACACG
51386311 AAATTTTCACAC
1 AAATTTTCACAC
51386323 ATATAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:51393441 original size:27 final size:27
Alignment explanation
Indices: 51393408--51393685 Score: 330
Period size: 27 Copynumber: 10.3 Consensus size: 27
51393398 GTAATGGGCC
*
51393408 TAAAATGATCAAAATACCCTCGAATGG
1 TAAAATGATCAAAATACCCTCGAAGGG
*
51393435 TAAAATGAT-AAAATACTCTCGAAGGG
1 TAAAATGATCAAAATACCCTCGAAGGG
*
51393461 TAAAATGA-CAGAAATACCCTCGAAAGG
1 TAAAATGATCA-AAATACCCTCGAAGGG
**
51393488 TAAAATGATTGAAATACCCTCGAAGGG
1 TAAAATGATCAAAATACCCTCGAAGGG
* ** *
51393515 TAAAATAATCAAAATACCCTTAAAAGG
1 TAAAATGATCAAAATACCCTCGAAGGG
* *
51393542 TAAAATGA-CTGAAATACCCTTGAAGGG
1 TAAAATGATC-AAAATACCCTCGAAGGG
* *
51393569 TAAAATGATCGAAATACCCTTGAAGGG
1 TAAAATGATCAAAATACCCTCGAAGGG
*
51393596 TAAAATGA-CAGAAATACCCTTGAAGGG
1 TAAAATGATCA-AAATACCCTCGAAGGG
* * *
51393623 TAAAATGACCGAAATACCCTTGAAGGG
1 TAAAATGATCAAAATACCCTCGAAGGG
* *
51393650 TAAAATAATCGAAATACCCTCGAAGGG
1 TAAAATGATCAAAATACCCTCGAAGGG
51393677 TAAAATGAT
1 TAAAATGAT
51393686 TATTATACCC
Statistics
Matches: 221, Mismatches: 23, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
26 26 0.12
27 193 0.87
28 2 0.01
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (27 bp):
TAAAATGATCAAAATACCCTCGAAGGG
Found at i:51393530 original size:54 final size:54
Alignment explanation
Indices: 51393408--51393685 Score: 364
Period size: 54 Copynumber: 5.2 Consensus size: 54
51393398 GTAATGGGCC
* * * *
51393408 TAAAATGATCAAAATACCCTCGAATGGTAAAATGA-TAAAATACTCTCGAAGGG
1 TAAAATGATCAAAATACCCTTGAAAGGTAAAATGACTGAAATACCCTCGAAGGG
* *
51393461 TAAAATGA-CAGAAATACCCTCGAAAGGTAAAATGATTGAAATACCCTCGAAGGG
1 TAAAATGATCA-AAATACCCTTGAAAGGTAAAATGACTGAAATACCCTCGAAGGG
* * *
51393515 TAAAATAATCAAAATACCCTTAAAAGGTAAAATGACTGAAATACCCTTGAAGGG
1 TAAAATGATCAAAATACCCTTGAAAGGTAAAATGACTGAAATACCCTCGAAGGG
* * * *
51393569 TAAAATGATCGAAATACCCTTGAAGGGTAAAATGACAGAAATACCCTTGAAGGG
1 TAAAATGATCAAAATACCCTTGAAAGGTAAAATGACTGAAATACCCTCGAAGGG
* * * *
51393623 TAAAATGACCGAAATACCCTTGAAGGGTAAAAT-AATCGAAATACCCTCGAAGGG
1 TAAAATGATCAAAATACCCTTGAAAGGTAAAATGACT-GAAATACCCTCGAAGGG
51393677 TAAAATGAT
1 TAAAATGAT
51393686 TATTATACCC
Statistics
Matches: 203, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
52 2 0.01
53 32 0.16
54 167 0.82
55 2 0.01
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (54 bp):
TAAAATGATCAAAATACCCTTGAAAGGTAAAATGACTGAAATACCCTCGAAGGG
Found at i:51393571 original size:81 final size:81
Alignment explanation
Indices: 51393408--51393685 Score: 407
Period size: 81 Copynumber: 3.4 Consensus size: 81
51393398 GTAATGGGCC
* * * *
51393408 TAAAATGATCAAAATACCCTCGAATGGTAAAATGAT-AAAATACTCTCGAAGGGTAAAATGACAG
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTTGAAGGGTAAAATGACAG
* *
51393472 AAATACCCTCGAAAGG
66 AAATACCCTTGAAGGG
* * * * *
51393488 TAAAATGATTGAAATACCCTCGAAGGGTAAAATAATCAAAATACCCTTAAAAGGTAAAATGACTG
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTTGAAGGGTAAAATGACAG
51393553 AAATACCCTTGAAGGG
66 AAATACCCTTGAAGGG
* *
51393569 TAAAATGATCGAAATACCCTTGAAGGGTAAAATGA-CAGAAATACCCTTGAAGGGTAAAATGACC
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGATCA-AAATACCCTTGAAGGGTAAAATGACA
51393633 GAAATACCCTTGAAGGG
65 GAAATACCCTTGAAGGG
*
51393650 TAAAATAATCGAAATACCCTCGAAGGGTAAAATGAT
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGAT
51393686 TATTATACCC
Statistics
Matches: 176, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
80 34 0.19
81 142 0.81
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (81 bp):
TAAAATGATCGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTTGAAGGGTAAAATGACAG
AAATACCCTTGAAGGG
Found at i:51394103 original size:30 final size:30
Alignment explanation
Indices: 51394046--51394128 Score: 125
Period size: 30 Copynumber: 2.8 Consensus size: 30
51394036 CATTATACTA
* *
51394046 TTACTGTATTGGGCTGAGG--CTCACACTG
1 TTACTGTATTGGGCTAAGGCCCACACACTG
51394074 TTACTGTATTGGGCTAAGGCCCACACACTG
1 TTACTGTATTGGGCTAAGGCCCACACACTG
*
51394104 TTACTGTAATGGGCTAAGGCCCACA
1 TTACTGTATTGGGCTAAGGCCCACA
51394129 TTGTATTGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
28 18 0.36
30 32 0.64
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (30 bp):
TTACTGTATTGGGCTAAGGCCCACACACTG
Found at i:51396102 original size:15 final size:15
Alignment explanation
Indices: 51396078--51396112 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
51396068 TTTGGAACTC
51396078 ACTCAATTTAAATGA
1 ACTCAATTTAAATGA
*
51396093 ACTCAGTTTAAATGA
1 ACTCAATTTAAATGA
51396108 ACTCA
1 ACTCA
51396113 TTCTCAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (15 bp):
ACTCAATTTAAATGA
Found at i:51400473 original size:23 final size:23
Alignment explanation
Indices: 51400447--51400490 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
51400437 GGGCATCACA
*
51400447 TAATATGCCATAAAGCCTTTACT
1 TAATACGCCATAAAGCCTTTACT
*
51400470 TAATACGCCATAAAGGCTTTA
1 TAATACGCCATAAAGCCTTTA
51400491 TAGAATGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.32
Consensus pattern (23 bp):
TAATACGCCATAAAGCCTTTACT
Found at i:51408853 original size:94 final size:92
Alignment explanation
Indices: 51408694--51408899 Score: 286
Period size: 94 Copynumber: 2.2 Consensus size: 92
51408684 TGAAGCTTAG
* * * *
51408694 ATTTATTTGTTCTCAATGTTTAACAGGAATGAAAAATATTTTAGAAGAAAGTCTAAAAGTGAAAT
1 ATTTATTTGTTCTAAATATTTAACAAGAATGAAAAATATTTTAAAAGAAAGTCTAAAAGTGAAAT
*
51408759 TGACTATTTTCTAAAAGAAAGATTCAT
66 TGAATATTTTCTAAAAGAAAGATTCAT
* *
51408786 ATTTATTTTTTCTAAATATTTAACAAGAATGAAAAAAATATTTTAAAAGAAAGTCTAATAGTGAA
1 ATTTATTTGTTCTAAATATTTAACAAGAATG--AAAAATATTTTAAAAGAAAGTCTAAAAGTGAA
* * *
51408851 ATTGAATATTTTCTAAAAGAAAGTTTTAG
64 ATTGAATATTTTCTAAAAGAAAGATTCAT
* *
51408880 ATTTGTTTGTTCTGAATATT
1 ATTTATTTGTTCTAAATATT
51408900 GGCTTCCCTT
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 27 0.27
94 72 0.73
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (92 bp):
ATTTATTTGTTCTAAATATTTAACAAGAATGAAAAATATTTTAAAAGAAAGTCTAAAAGTGAAAT
TGAATATTTTCTAAAAGAAAGATTCAT
Found at i:51409729 original size:10 final size:10
Alignment explanation
Indices: 51409705--51409758 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 10
51409695 TTAAATATCA
51409705 TTTTATATAAT
1 TTTTA-ATAAT
51409716 TTTTAATAAT
1 TTTTAATAAT
*
51409726 TTTT--GAAT
1 TTTTAATAAT
*
51409734 TTTTAATGTAT
1 TTTTAAT-AAT
51409745 TTTTAA-AAT
1 TTTTAATAAT
51409754 TTTTA
1 TTTTA
51409759 GAATTAAGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 7 0.19
9 7 0.19
10 9 0.25
11 13 0.36
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:51409737 original size:29 final size:29
Alignment explanation
Indices: 51409705--51409763 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
51409695 TTAAATATCA
51409705 TTTTATAT-AATTTTTAATAATTTTT-GAAT
1 TTTTA-ATGAATTTTTAA-AATTTTTAGAAT
*
51409734 TTTTAATGTATTTTTAAAATTTTTAGAAT
1 TTTTAATGAATTTTTAAAATTTTTAGAAT
51409763 T
1 T
51409764 AAGATCAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (29 bp):
TTTTAATGAATTTTTAAAATTTTTAGAAT
Found at i:51409754 original size:20 final size:18
Alignment explanation
Indices: 51409713--51409758 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
51409703 CATTTTATAT
*
51409713 AATTTTTAATAATTTTTG
1 AATTTTTAATAATTTTTA
*
51409731 AATTTTTAATGTATTTTTAA
1 AATTTTTAAT-AATTTTT-A
51409751 AATTTTTA
1 AATTTTTA
51409759 GAATTAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 10 0.42
19 6 0.25
20 8 0.33
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (18 bp):
AATTTTTAATAATTTTTA
Found at i:51412883 original size:19 final size:23
Alignment explanation
Indices: 51412855--51412910 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 23
51412845 AAATTTCTTT
*
51412855 TATATTTTATTTAGTTT-AA-TA
1 TATAATTTATTTAGTTTGAATTA
*
51412876 TA-AA-TTATTTAATTTGAATTA
1 TATAATTTATTTAGTTTGAATTA
51412897 TATAATTTATTTAG
1 TATAATTTATTTAG
51412911 CTCAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 10 0.36
20 3 0.11
21 6 0.21
22 2 0.07
23 7 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (23 bp):
TATAATTTATTTAGTTTGAATTA
Found at i:51419700 original size:41 final size:41
Alignment explanation
Indices: 51419654--51419740 Score: 138
Period size: 41 Copynumber: 2.1 Consensus size: 41
51419644 TTTTACACTT
* *
51419654 ATGTACACTCAGAGTTTAATTTTCTTTCATTATTTCAAGTG
1 ATGTACACTCAGAGTCTAATTTCCTTTCATTATTTCAAGTG
*
51419695 ATGTACACTCCGAGTCTAATTTCCTTTCATTATTTCAAGTG
1 ATGTACACTCAGAGTCTAATTTCCTTTCATTATTTCAAGTG
*
51419736 TTGTA
1 ATGTA
51419741 ATTTGTTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (41 bp):
ATGTACACTCAGAGTCTAATTTCCTTTCATTATTTCAAGTG
Found at i:51421330 original size:16 final size:17
Alignment explanation
Indices: 51421314--51421354 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
51421304 TTAGATGATT
*
51421314 ATAATAAAAAATTATTA
1 ATAATAAAAAATAATTA
*
51421331 ACAAT-AAAAATAATTA
1 ATAATAAAAAATAATTA
51421347 ATAATAAA
1 ATAATAAA
51421355 TATTTATGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAATAAAAAATAATTA
Found at i:51424110 original size:83 final size:83
Alignment explanation
Indices: 51423971--51424131 Score: 304
Period size: 83 Copynumber: 1.9 Consensus size: 83
51423961 TGTCCTCAGA
51423971 TCAACCTACCTCTTGGAGAGATAAGCTCGTCGGCCACTCTTCAAAGGATGTTTTCAATGGCTCGG
1 TCAACCTACCTCTTGGAGAGATAAGCTCGTCGGCCACTCTTCAAAGGATGTTTTCAATGGCTCGG
51424036 AAGAAAAGGAAGTACAAT
66 AAGAAAAGGAAGTACAAT
* *
51424054 TCAACCTACCTCTTGGAGAGATAAGCTCGTTGGCCACTCTTCAAAGGATGTTTTCAATTGCTCGG
1 TCAACCTACCTCTTGGAGAGATAAGCTCGTCGGCCACTCTTCAAAGGATGTTTTCAATGGCTCGG
51424119 AAGAAAAGGAAGT
66 AAGAAAAGGAAGT
51424132 TATTGATTTT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (83 bp):
TCAACCTACCTCTTGGAGAGATAAGCTCGTCGGCCACTCTTCAAAGGATGTTTTCAATGGCTCGG
AAGAAAAGGAAGTACAAT
Found at i:51431143 original size:109 final size:108
Alignment explanation
Indices: 51430881--51431202 Score: 479
Period size: 109 Copynumber: 3.0 Consensus size: 108
51430871 TGTATTAAAA
* * * * *
51430881 TTTAAGAGGATATTT-GACTATTTGGTTAAAGGAG--AAATCGAAACCCAACACATTAGGGCACA
1 TTTAAAAGGATATTTAG-CTTTTTGGTTGAAGGAGAAAAATCGAAACCCAGCACATTAGGGCACG
* * * *
51430943 TTTCCTCGAATTTCTAAACGTAAAATATTGTCTTATTTCGAAAT
65 TTTTCTCGAATTTCTAAACGCAAAATATTGCCTTATTTTGAAAT
51430987 TTTAAAAGGATATTTAGCTTTTTGGTTGAAGGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTAGCTTTTTGGTTGAAGGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
51431052 TTTCTCGAATTTCTAAACGCAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCTAAACGCAAAATATTGCCTTATTTTGAAA-T
51431096 TTTAAAAGGATATTTAGCTTTTTGGTTGAAGGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTAGCTTTTTGGTTGAAGGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* * * *
51431161 TTTCTCCAATTTCCAATCGCAAAATATTGCCTTACTTTGAAA
66 TTTCTCGAATTTCTAAACGCAAAATATTGCCTTATTTTGAAA
51431203 AATTTTCCTT
Statistics
Matches: 197, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
106 29 0.15
107 1 0.01
108 64 0.32
109 103 0.52
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (108 bp):
TTTAAAAGGATATTTAGCTTTTTGGTTGAAGGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCTAAACGCAAAATATTGCCTTATTTTGAAAT
Found at i:51431293 original size:16 final size:15
Alignment explanation
Indices: 51431257--51431306 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
51431247 AATAAATATG
*
51431257 ATAATGTGAACAAAA
1 ATAATATGAACAAAA
51431272 ATAATATGAACAAAA
1 ATAATATGAACAAAA
*
51431287 ATGAATAAT-AAAAAAA
1 AT-AAT-ATGAACAAAA
51431303 ATAA
1 ATAA
51431307 ATCAATCATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 18 0.58
16 11 0.35
17 2 0.06
ACGTcount: A:0.68, C:0.04, G:0.08, T:0.20
Consensus pattern (15 bp):
ATAATATGAACAAAA
Found at i:51437638 original size:5 final size:5
Alignment explanation
Indices: 51437628--51437714 Score: 52
Period size: 5 Copynumber: 16.4 Consensus size: 5
51437618 ACTTTTCTCC
* * *
51437628 TTTCT TTTCT TTTTT TTTCT TTTC- TTTCT TTCCT TCTT-T ATTTCG TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT T-TTCT -TTTCT TTTCT
* *
51437678 TTCTCT CATTCCT TTTCT ATTTCTT TTTCT TTACT TT
1 TT-TCT --TTTCT TTTCT -TTTC-T TTTCT TTTCT TT
51437715 ATCATTATAA
Statistics
Matches: 64, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
4 4 0.06
5 42 0.66
6 13 0.20
7 3 0.05
8 2 0.03
ACGTcount: A:0.05, C:0.22, G:0.01, T:0.72
Consensus pattern (5 bp):
TTTCT
Found at i:51437655 original size:4 final size:4
Alignment explanation
Indices: 51437627--51437681 Score: 51
Period size: 4 Copynumber: 13.5 Consensus size: 4
51437617 AACTTTTCTC
* *
51437627 CTTT CTTTT CTTT -TTT -TTT CTTTT CTTT CTTT CCTT CTTT ATTT CGTTT
1 CTTT C-TTT CTTT CTTT CTTT C-TTT CTTT CTTT CTTT CTTT CTTT C-TTT
51437676 CTTT CT
1 CTTT CT
51437682 CTCATTCCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
3 6 0.14
4 25 0.58
5 12 0.28
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:51437689 original size:29 final size:30
Alignment explanation
Indices: 51437631--51437709 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 30
51437621 TTTCTCCTTT
* * *
51437631 CTTTTCT-TTT-TTTTTCTTTTCTTTCTTTC
1 CTTTTCTATTTCTGTTTC-TTTCTCTCATTC
51437660 CTTCTT-TATTTC-GTTTCTTTCTCTCATTC
1 CTT-TTCTATTTCTGTTTCTTTCTCTCATTC
*
51437689 CTTTTCTATTTCTTTTTCTTT
1 CTTTTCTATTTCTGTTTCTTT
51437710 ACTTTATCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
28 2 0.05
29 23 0.56
30 16 0.39
ACGTcount: A:0.04, C:0.23, G:0.01, T:0.72
Consensus pattern (30 bp):
CTTTTCTATTTCTGTTTCTTTCTCTCATTC
Found at i:51438535 original size:10 final size:10
Alignment explanation
Indices: 51438520--51438549 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
51438510 TTAGGTTAGG
51438520 TTTCATTTTT
1 TTTCATTTTT
*
51438530 TTTCATTTCT
1 TTTCATTTTT
51438540 TTTCATTTTT
1 TTTCATTTTT
51438550 AGGTTATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTCATTTTT
Found at i:51448928 original size:27 final size:27
Alignment explanation
Indices: 51448888--51448958 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
51448878 CCAAACTGAT
* * *
51448888 ATAAAATGAATGTTATGGCCTCACGTG
1 ATAAAATGACTGTTATGCCCTCACGTA
* * *
51448915 GTAAAATGACTGTTATGCCCTTATGTA
1 ATAAAATGACTGTTATGCCCTCACGTA
51448942 ATAAAATGACTG-TATGC
1 ATAAAATGACTGTTATGC
51448959 TTTACCTTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 5 0.14
27 32 0.86
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (27 bp):
ATAAAATGACTGTTATGCCCTCACGTA
Found at i:51449275 original size:34 final size:31
Alignment explanation
Indices: 51449237--51449306 Score: 104
Period size: 34 Copynumber: 2.2 Consensus size: 31
51449227 TGTTACTGTC
*
51449237 ACTGTAATGGGCTAAGGCCCACACTGATACTGA
1 ACTGTAATGGGCAAAGGCCCA-ACTGA-ACTGA
51449270 TACTGTAATGGGCAAAGGCCCAACTGAACTGA
1 -ACTGTAATGGGCAAAGGCCCAACTGAACTGA
51449302 ACTGT
1 ACTGT
51449307 TATTGAATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
31 5 0.14
32 5 0.14
33 5 0.14
34 20 0.57
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.21
Consensus pattern (31 bp):
ACTGTAATGGGCAAAGGCCCAACTGAACTGA
Found at i:51452025 original size:7 final size:7
Alignment explanation
Indices: 51452013--51452037 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51452003 GAGAGATGAT
51452013 GTATGGA
1 GTATGGA
51452020 GTATGGA
1 GTATGGA
51452027 GTATGGA
1 GTATGGA
51452034 GTAT
1 GTAT
51452038 TACAAAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.40, T:0.32
Consensus pattern (7 bp):
GTATGGA
Found at i:51454742 original size:25 final size:25
Alignment explanation
Indices: 51454708--51454755 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
51454698 ATTTGAATTC
* *
51454708 CTAATTTTACTCTTCAGTCTCATTG
1 CTAATATTACTCTTCAATCTCATTG
*
51454733 CTAATATTACTTTTCAATCTCAT
1 CTAATATTACTCTTCAATCTCAT
51454756 CCAATATGGA
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:0.23, G:0.04, T:0.48
Consensus pattern (25 bp):
CTAATATTACTCTTCAATCTCATTG
Found at i:51458485 original size:62 final size:63
Alignment explanation
Indices: 51458419--51458542 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 63
51458409 GAGACACAAG
* * * * *
51458419 GGCTAGGGAAACGGGTGTATGTCCAAGTAGTGTAACTCACTG-TTTGTATTTTGGGTCACACA
1 GGCTAGGGAAACGGGCGTATATCCAAGCAGTGTAACTCACTGTTTTGGATTTAGGGTCACACA
* * * * *
51458481 GGCTAGGGACATGGGCGTGTATCTAAGCCGTGTAACTCACTGTTTTGGATTTAGGGTCACAC
1 GGCTAGGGAAACGGGCGTATATCCAAGCAGTGTAACTCACTGTTTTGGATTTAGGGTCACAC
51458543 GGGCCAAGGA
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
62 34 0.67
63 17 0.33
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (63 bp):
GGCTAGGGAAACGGGCGTATATCCAAGCAGTGTAACTCACTGTTTTGGATTTAGGGTCACACA
Found at i:51477915 original size:16 final size:16
Alignment explanation
Indices: 51477863--51477915 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
51477853 CATTAATTTT
*
51477863 TTTTTCAT-TCTTCTAG
1 TTTTTCATCTCTTC-AA
51477879 TTTTTCATCTCTTCAA
1 TTTTTCATCTCTTCAA
*
51477895 ATTTTCATCAT-TTCAA
1 TTTTTCATC-TCTTCAA
51477911 TTTTT
1 TTTTT
51477916 TTTCCACTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 26 0.81
17 6 0.19
ACGTcount: A:0.19, C:0.19, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTTTCATCTCTTCAA
Found at i:51481260 original size:6 final size:6
Alignment explanation
Indices: 51481242--51481271 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
51481232 GCAAATGAAT
51481242 CATTTC TCATTTC CATTTC CATTTC CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTT
51481272 TGAGAAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (6 bp):
CATTTC
Found at i:51490826 original size:23 final size:20
Alignment explanation
Indices: 51490800--51490847 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 20
51490790 CCGAGTACTT
51490800 TTTATTTTAATTTTATTAATCTA
1 TTTATTTT-ATTTT-TTAAT-TA
*
51490823 TTTA-ATTATTTTTTAATTA
1 TTTATTTTATTTTTTAATTA
51490842 TTTATT
1 TTTATT
51490848 AAGAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
19 6 0.27
20 5 0.23
21 5 0.23
22 2 0.09
23 4 0.18
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTATTTTATTTTTTAATTA
Found at i:51491380 original size:28 final size:28
Alignment explanation
Indices: 51491318--51491382 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
51491308 TGTACTATAC
*
51491318 CATATTATGAGTTTAAATTTTACCATAT
1 CATATTGTGAGTTTAAATTTTACCATAT
51491346 CATATTGTGAGTTTAAATTTTACCATAT
1 CATATTGTGAGTTTAAATTTTACCATAT
51491374 CATATTGTG
1 CATATTGTG
51491383 GAATTTGCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (28 bp):
CATATTGTGAGTTTAAATTTTACCATAT
Found at i:51494123 original size:21 final size:21
Alignment explanation
Indices: 51494099--51494138 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
51494089 GTCCGACGTG
51494099 GCTAGTTAACCG-GCCACGTTA
1 GCTAGTTAA-CGAGCCACGTTA
51494120 GCTAGTTAACGAGCCACGT
1 GCTAGTTAACGAGCCACGT
51494139 CACCTGTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (21 bp):
GCTAGTTAACGAGCCACGTTA
Found at i:51494576 original size:26 final size:25
Alignment explanation
Indices: 51494494--51494576 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
51494484 AAGATTATAG
*
51494494 TTTAGGGTTTATA-TGAGTTTGGGT
1 TTTAGGGTTTATATTGAGTTTAGGT
* *
51494518 TTATAAGGTTTATGATTTGAGTTTAGGA
1 TT-TAGGGTTTAT-A-TTGAGTTTAGGT
* *
51494546 ATTAGGGTTTATATTAAGTTTTAGGT
1 TTTAGGGTTTATATTGAG-TTTAGGT
51494572 TTTAG
1 TTTAG
51494577 ATTTCGAGTC
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
24 2 0.04
25 13 0.28
26 12 0.26
27 9 0.20
28 10 0.22
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (25 bp):
TTTAGGGTTTATATTGAGTTTAGGT
Found at i:51498824 original size:31 final size:31
Alignment explanation
Indices: 51498789--51498863 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
51498779 AAAATTTGTT
**
51498789 ATTTTAGTCACTCCTCTTAGATTCGTTGTCA
1 ATTTTAGTCACTCCTCTTAGATAAGTTGTCA
* ** *
51498820 ATTTTAGTTACTTTTGTTAGATAAGTTGTCA
1 ATTTTAGTCACTCCTCTTAGATAAGTTGTCA
* *
51498851 ATTGTAATCACTC
1 ATTTTAGTCACTC
51498864 TACCTTAAAA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTTTAGTCACTCCTCTTAGATAAGTTGTCA
Found at i:51499017 original size:21 final size:20
Alignment explanation
Indices: 51498993--51499037 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
51498983 ACAAACTAAG
51498993 AAAATACA-AAATTAAAATTAA
1 AAAATACATAAA--AAAATTAA
51499014 AAAATACATAAAAAAATTCAA
1 AAAATACATAAAAAAATT-AA
51499035 AAA
1 AAA
51499038 GTATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.27
21 13 0.59
22 3 0.14
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAATACATAAAAAAATTAA
Found at i:51499028 original size:19 final size:18
Alignment explanation
Indices: 51499006--51499086 Score: 58
Period size: 20 Copynumber: 4.3 Consensus size: 18
51498996 ATACAAAATT
51499006 AAAATTAAAAAATACATAAA
1 AAAATTAAAAAATA-AT-AA
* *
51499026 AAAATTCAAAAAGT-AT-T
1 AAAATT-AAAAAATAATAA
*
51499043 AAATTTATAAAAATATATAA
1 AAAATTA-AAAAATA-ATAA
*
51499063 AATATTTAAAAAATAATAA
1 AA-AATTAAAAAATAATAA
51499082 AAAAT
1 AAAAT
51499087 ATATTTTCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
16 1 0.02
17 10 0.20
18 2 0.04
19 10 0.20
20 15 0.31
21 11 0.22
ACGTcount: A:0.68, C:0.02, G:0.01, T:0.28
Consensus pattern (18 bp):
AAAATTAAAAAATAATAA
Found at i:51499077 original size:11 final size:11
Alignment explanation
Indices: 51499051--51499090 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
51499041 TTAAATTTAT
51499051 AAAAATATAT-
1 AAAAATATATA
*
51499061 -AAAATATTTA
1 AAAAATATATA
51499071 AAAAATA-ATA
1 AAAAATATATA
51499081 AAAAATATAT
1 AAAAATATAT
51499091 TTTCACACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 8 0.32
10 9 0.36
11 8 0.32
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAAATATATA
Found at i:51499085 original size:21 final size:21
Alignment explanation
Indices: 51499045--51499088 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
51499035 AAAGTATTAA
*
51499045 ATTTATAAAAATATATAAAAT
1 ATTTATAAAAATATAAAAAAT
51499066 ATTTA-AAAAATAATAAAAAAT
1 ATTTATAAAAAT-ATAAAAAAT
51499087 AT
1 AT
51499089 ATTTTCACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTTATAAAAATATAAAAAAT
Found at i:51499805 original size:31 final size:31
Alignment explanation
Indices: 51499770--51499878 Score: 86
Period size: 31 Copynumber: 3.6 Consensus size: 31
51499760 ATAAAAACAT
51499770 ATTTAATCCTCAATACTTACATATTCTATTA
1 ATTTAATCCTCAATACTTACATATTCTATTA
* *
51499801 ATTTAATCCT-AATTC-TAAATAATTC-ATTAA
1 ATTTAATCCTCAATACTTACAT-ATTCTATT-A
* * *
51499831 ATCTAACCCTTCACAT--TTACAAATTCTATTA
1 ATTTAATCC-TCA-ATACTTACATATTCTATTA
*
51499862 ATTTAATACTCAA-ACTT
1 ATTTAATCCTCAATACTT
51499879 CATTACCAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 19
0.68 0.10 0.22
Matches are distributed among these distances:
29 8 0.13
30 21 0.35
31 22 0.37
32 7 0.12
33 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (31 bp):
ATTTAATCCTCAATACTTACATATTCTATTA
Found at i:51500549 original size:24 final size:24
Alignment explanation
Indices: 51500519--51500564 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
51500509 GAAATATTTA
* *
51500519 TTTATTTTATTTAATATTAATATT
1 TTTATTTAATTAAATATTAATATT
*
51500543 TTTATTTAATTAAATTTTAATA
1 TTTATTTAATTAAATATTAATA
51500565 ATGCAGTGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTATTTAATTAAATATTAATATT
Found at i:51501338 original size:19 final size:19
Alignment explanation
Indices: 51501314--51501353 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
51501304 TCGAAAGGCG
*
51501314 AAAAAGTAAAAAGCAAACT
1 AAAAAGTAAAAAGAAAACT
* *
51501333 AAAAAGTCATAAGAAAACT
1 AAAAAGTAAAAAGAAAACT
51501352 AA
1 AA
51501354 GCACACCATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.68, C:0.10, G:0.10, T:0.12
Consensus pattern (19 bp):
AAAAAGTAAAAAGAAAACT
Found at i:51504384 original size:21 final size:20
Alignment explanation
Indices: 51504360--51504403 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
51504350 GAGCTGAACG
*
51504360 GAAACCCATAAGGGTTAAACA
1 GAAACCCATAAGAGTT-AACA
* *
51504381 GAAACTCATATGAGTTAACA
1 GAAACCCATAAGAGTTAACA
51504401 GAA
1 GAA
51504404 GCTCGTGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (20 bp):
GAAACCCATAAGAGTTAACA
Found at i:51508719 original size:18 final size:18
Alignment explanation
Indices: 51508696--51508731 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
51508686 GAAAATTAAA
51508696 TATATTTTCTCATAGATT
1 TATATTTTCTCATAGATT
51508714 TATATTTTCTCATAGATT
1 TATATTTTCTCATAGATT
51508732 CTTTTACGGT
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:0.11, G:0.06, T:0.56
Consensus pattern (18 bp):
TATATTTTCTCATAGATT
Found at i:51514053 original size:28 final size:27
Alignment explanation
Indices: 51514021--51514094 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 27
51514011 GTAATGCAAA
51514021 AATATGACCGTTGTAATTTGAC-AGTTAC
1 AATATGACCGTTG-AATTTGACTA-TTAC
* *
51514049 AATATGACCGTTGGAATATGACTATTGC
1 AATATGACCGTT-GAATTTGACTATTAC
*
51514077 AATATGGCCGTTGAATTT
1 AATATGACCGTTGAATTT
51514095 TTTGGACCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 5 0.12
28 33 0.82
29 2 0.05
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (27 bp):
AATATGACCGTTGAATTTGACTATTAC
Found at i:51514544 original size:64 final size:64
Alignment explanation
Indices: 51514470--51514621 Score: 286
Period size: 64 Copynumber: 2.4 Consensus size: 64
51514460 GTTCTATTGG
*
51514470 TTGAATAAGTGATGATCCAATGGTTCTTACTCAAAGAATCTTTGGACTTAGTTTCAAGGTTTTA
1 TTGAATAAGTGATGATCCAATGGTTCTTAATCAAAGAATCTTTGGACTTAGTTTCAAGGTTTTA
*
51514534 TTGAATAAGTGATGATCCAATGTTTCTTAATCAAAGAATCTTTGGACTTAGTTTCAAGGTTTTA
1 TTGAATAAGTGATGATCCAATGGTTCTTAATCAAAGAATCTTTGGACTTAGTTTCAAGGTTTTA
51514598 TTGAATAAGTGATGATCCAATGGT
1 TTGAATAAGTGATGATCCAATGGT
51514622 GCCAGTCCCA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 85 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (64 bp):
TTGAATAAGTGATGATCCAATGGTTCTTAATCAAAGAATCTTTGGACTTAGTTTCAAGGTTTTA
Found at i:51522678 original size:13 final size:13
Alignment explanation
Indices: 51522660--51522724 Score: 87
Period size: 13 Copynumber: 5.1 Consensus size: 13
51522650 AGTTTGGCAA
51522660 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
51522673 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
51522686 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
51522699 T-CTGTGGAAAAG
1 TGCTTTTGAAAAG
51522711 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
51522724 T
1 T
51522725 TTAGTTTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
12 12 0.26
13 35 0.74
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:51524456 original size:51 final size:51
Alignment explanation
Indices: 51524340--51524476 Score: 157
Period size: 51 Copynumber: 2.7 Consensus size: 51
51524330 CTACCATCAA
* *
51524340 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAG
* * *** * * * **
51524391 ATATGTATTCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAG
*
51524442 ATCTCTAAGATTATAATATCATATCCTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
51524477 AGTTACCATA
Statistics
Matches: 65, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAG
Found at i:51527002 original size:51 final size:51
Alignment explanation
Indices: 51526886--51527022 Score: 157
Period size: 51 Copynumber: 2.7 Consensus size: 51
51526876 CTACCATCAA
* *
51526886 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAG
* * *** * * * **
51526937 ATATGTATTCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAG
*
51526988 ATCTCTAAGATTATAATATCATATCCTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
51527023 AGTTACCATA
Statistics
Matches: 65, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAG
Found at i:51534505 original size:123 final size:123
Alignment explanation
Indices: 51534286--51534532 Score: 494
Period size: 123 Copynumber: 2.0 Consensus size: 123
51534276 AATCTTGTTG
51534286 GAGCCCTTTCACACTATCCGTCGAGCATTTTGGTAGTTTTTGAGCGTTTTGGCTATGGTTATAAA
1 GAGCCCTTTCACACTATCCGTCGAGCATTTTGGTAGTTTTTGAGCGTTTTGGCTATGGTTATAAA
51534351 TGACATGTATAAAGCTCATATGTAACAGGTGTCATGAATATGTTACTTGGTCCATTTA
66 TGACATGTATAAAGCTCATATGTAACAGGTGTCATGAATATGTTACTTGGTCCATTTA
51534409 GAGCCCTTTCACACTATCCGTCGAGCATTTTGGTAGTTTTTGAGCGTTTTGGCTATGGTTATAAA
1 GAGCCCTTTCACACTATCCGTCGAGCATTTTGGTAGTTTTTGAGCGTTTTGGCTATGGTTATAAA
51534474 TGACATGTATAAAGCTCATATGTAACAGGTGTCATGAATATGTTACTTGGTCCATTTA
66 TGACATGTATAAAGCTCATATGTAACAGGTGTCATGAATATGTTACTTGGTCCATTTA
51534532 G
1 G
51534533 TTTGGTCATA
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 124 1.00
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.37
Consensus pattern (123 bp):
GAGCCCTTTCACACTATCCGTCGAGCATTTTGGTAGTTTTTGAGCGTTTTGGCTATGGTTATAAA
TGACATGTATAAAGCTCATATGTAACAGGTGTCATGAATATGTTACTTGGTCCATTTA
Found at i:51540394 original size:15 final size:16
Alignment explanation
Indices: 51540364--51540396 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
51540354 ATCTATCTTT
51540364 ATTATCCAATAATTGA
1 ATTATCCAATAATTGA
*
51540380 ATTAT-CAATATTTGA
1 ATTATCCAATAATTGA
51540395 AT
1 AT
51540397 AATTAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTATCCAATAATTGA
Found at i:51540664 original size:38 final size:40
Alignment explanation
Indices: 51540609--51540716 Score: 107
Period size: 38 Copynumber: 2.8 Consensus size: 40
51540599 AATTTTATAG
* *
51540609 AAACTCATAAAAATATAATAAATTATAAAAAAATT-ATAA
1 AAACTAATAAAATTATAATAAATTATAAAAAAATTCATAA
* * *
51540648 GAAC-AATAAAATTATAA-AAA-AATATAAAAATTCATAA
1 AAACTAATAAAATTATAATAAATTATAAAAAAATTCATAA
* * *
51540685 AAACTTATAAAAATTCTAATAAATTATTAAAA
1 AAACTAAT-AAAATTATAATAAATTATAAAAA
51540717 TTTTAAAATA
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
36 10 0.19
37 10 0.19
38 13 0.25
39 12 0.23
40 3 0.06
41 5 0.09
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.29
Consensus pattern (40 bp):
AAACTAATAAAATTATAATAAATTATAAAAAAATTCATAA
Found at i:51540684 original size:10 final size:9
Alignment explanation
Indices: 51540615--51540733 Score: 89
Period size: 10 Copynumber: 12.6 Consensus size: 9
51540605 ATAGAAACTC
51540615 ATAAAAA-T
1 ATAAAAATT
51540623 ATAATAAATT
1 ATAA-AAATT
51540633 ATAAAAAAATT
1 AT--AAAAATT
* **
51540644 ATAAGAACA
1 ATAAAAATT
51540653 AT-AAAATT
1 ATAAAAATT
*
51540661 ATAAAAAAAT
1 AT-AAAAATT
51540671 ATAAAAATT
1 ATAAAAATT
51540680 CATAAAAACTT
1 -ATAAAAA-TT
51540691 ATAAAAATT
1 ATAAAAATT
*
51540700 CTAATAAATT
1 ATAA-AAATT
*
51540710 ATTAAAATT
1 ATAAAAATT
*
51540719 TTAAAATATT
1 ATAAAA-ATT
51540729 ATAAA
1 ATAAA
51540734 GTATTAAAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
8 9 0.10
9 29 0.33
10 38 0.44
11 9 0.10
12 2 0.02
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:51540693 original size:20 final size:19
Alignment explanation
Indices: 51540655--51540733 Score: 74
Period size: 19 Copynumber: 4.1 Consensus size: 19
51540645 TAAGAACAAT
*
51540655 AAAATT-ATAAAAAAATATA
1 AAAATTCAT-AAAAATTATA
51540674 AAAATTCATAAAAACTTATA
1 AAAATTCATAAAAA-TTATA
*
51540694 AAAATTC-TAATAAATTATT
1 AAAATTCATAA-AAATTATA
*
51540713 AAAATT-TTAAAATATTATA
1 AAAATTCATAAAA-ATTATA
51540732 AA
1 AA
51540734 GTATTAAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
18 2 0.04
19 34 0.65
20 16 0.31
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATTCATAAAAATTATA
Found at i:51540724 original size:38 final size:38
Alignment explanation
Indices: 51540564--51540733 Score: 120
Period size: 39 Copynumber: 4.4 Consensus size: 38
51540554 ATTTTCAAAT
* *
51540564 TTATATAAACTTATAAAACTTA-AA-AATATTA-ACAAAA
1 TTATAAAAACTTATAAAAATTATAATAA-ATTATA-AAAA
* *
51540601 TTTTATAGAAACTCATAAAAA-TATAATAAATTATAAAAAAA
1 --TTATAAAAACTTATAAAAATTATAATAAATTAT--AAAAA
* * * *
51540642 TTATAAGAAC-AAT-AAAATTATAAAAAAATATAAAAA
1 TTATAAAAACTTATAAAAATTATAATAAATTATAAAAA
* *
51540678 TTCATAAAAACTTATAAAAATTCTAATAAATTATTAAAA
1 TT-ATAAAAACTTATAAAAATTATAATAAATTATAAAAA
*
51540717 TTTTAAAATA-TTATAAA
1 TTATAAAA-ACTTATAAA
51540734 GTATTAAAAA
Statistics
Matches: 106, Mismatches: 15, Indels: 21
0.75 0.11 0.15
Matches are distributed among these distances:
36 7 0.07
37 11 0.10
38 29 0.27
39 52 0.49
40 2 0.02
41 4 0.04
42 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (38 bp):
TTATAAAAACTTATAAAAATTATAATAAATTATAAAAA
Found at i:51540738 original size:10 final size:10
Alignment explanation
Indices: 51540658--51540743 Score: 51
Period size: 10 Copynumber: 8.9 Consensus size: 10
51540648 GAACAATAAA
*
51540658 ATTATAAAAA
1 ATTATAAAAT
*
51540668 AATATAAAA-
1 ATTATAAAAT
51540677 ATTCATAAAA-
1 ATT-ATAAAAT
51540687 ACTTATAAAA-
1 A-TTATAAAAT
*
51540697 ATTCTAATAA-
1 ATTATAA-AAT
51540707 ATTATTAAAAT
1 ATTA-TAAAAT
51540718 -TT-TAAAAT
1 ATTATAAAAT
*
51540726 ATTATAAAGT
1 ATTATAAAAT
51540736 ATTA-AAAA
1 ATTATAAAA
51540744 ACTCCATTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
8 6 0.10
9 12 0.19
10 40 0.63
11 5 0.08
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.35
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:51555866 original size:11 final size:11
Alignment explanation
Indices: 51555850--51555880 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
51555840 ATACCCATAC
51555850 CCCATACCTTG
1 CCCATACCTTG
*
51555861 CCCATACCTTT
1 CCCATACCTTG
51555872 CCCATACCT
1 CCCATACCT
51555881 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:51559257 original size:34 final size:34
Alignment explanation
Indices: 51559219--51559287 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
51559209 TATTTTCTTC
51559219 ATATTGTACTCTTGTTTGTTTACTCATTTAGTGA
1 ATATTGTACTCTTGTTTGTTTACTCATTTAGTGA
51559253 ATATTGTACTCTTGTTTGTTTACTCATTTAGTGA
1 ATATTGTACTCTTGTTTGTTTACTCATTTAGTGA
51559287 A
1 A
51559288 AAGTCAAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.52
Consensus pattern (34 bp):
ATATTGTACTCTTGTTTGTTTACTCATTTAGTGA
Found at i:51568244 original size:18 final size:19
Alignment explanation
Indices: 51568221--51568258 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
51568211 GGAAGCAAGC
*
51568221 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
51568239 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
51568258 A
1 A
51568259 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Done.