Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 186 of 333
Found at i:61003675 original size:25 final size:24
Alignment explanation
Indices: 61003559--61003665 Score: 178
Period size: 24 Copynumber: 4.4 Consensus size: 24
61003549 GGAGGAAGTG
61003559 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
61003583 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
61003607 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
61003631 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
61003655 TAAAAGAGGCT
1 CAAAAG-GGCT
61003666 AGGCCTCCAG
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
24 76 0.95
25 4 0.05
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:61003907 original size:31 final size:31
Alignment explanation
Indices: 61003872--61003935 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
61003862 CATTTACAGT
61003872 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
61003903 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
61003934 AA
1 AA
61003936 TATGAAAAGG
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:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:61005550 original size:35 final size:35
Alignment explanation
Indices: 61005504--61005571 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
61005494 CGAGATTTAT
61005504 GATTGCCAGTGATGGCATTTGATGGAAAAAAAAAA
1 GATTGCCAGTGATGGCATTTGATGGAAAAAAAAAA
*
61005539 GATTGTCAGTGATGGCATTTGATGGAAAAAAAA
1 GATTGCCAGTGATGGCATTTGATGGAAAAAAAA
61005572 GAGAGAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.41, C:0.07, G:0.26, T:0.25
Consensus pattern (35 bp):
GATTGCCAGTGATGGCATTTGATGGAAAAAAAAAA
Found at i:61007039 original size:30 final size:31
Alignment explanation
Indices: 61006980--61007043 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
61006970 ACTTAACAAG
*
61006980 CAAATGCTTCTAAAATAGTAATAAAAATTAA
1 CAAATGCTTCTAAAATAATAATAAAAATTAA
*
61007011 CAAATGCCTT-TAAAATAATAA-GAAAATTAA
1 CAAATG-CTTCTAAAATAATAATAAAAATTAA
61007041 CAA
1 CAA
61007044 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 11 0.37
31 16 0.53
32 3 0.10
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.27
Consensus pattern (31 bp):
CAAATGCTTCTAAAATAATAATAAAAATTAA
Found at i:61007098 original size:22 final size:22
Alignment explanation
Indices: 61007073--61007115 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
61007063 TATCCAAACA
61007073 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
61007095 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
61007116 AGTAGAGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:61009460 original size:16 final size:16
Alignment explanation
Indices: 61009439--61009470 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61009429 AGTTTAGGGG
61009439 CAAAAATATAATTTTT
1 CAAAAATATAATTTTT
*
61009455 CAAAAATATGATTTTT
1 CAAAAATATAATTTTT
61009471 GGGTCAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (16 bp):
CAAAAATATAATTTTT
Found at i:61023118 original size:40 final size:40
Alignment explanation
Indices: 61023068--61023157 Score: 153
Period size: 40 Copynumber: 2.2 Consensus size: 40
61023058 CGTTTGAATG
*
61023068 AAAAACGCCGCTAAAGAACAAGCATTAGCGGTGCTTTTTA
1 AAAAACGCCGCTAAAGAACAAGCATTAGCGGCGCTTTTTA
* *
61023108 AAAAATGCCGCTAAAGAACGAGCATTAGCGGCGCTTTTTA
1 AAAAACGCCGCTAAAGAACAAGCATTAGCGGCGCTTTTTA
61023148 AAAAACGCCG
1 AAAAACGCCG
61023158 TTATAAGTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGAACAAGCATTAGCGGCGCTTTTTA
Found at i:61023176 original size:40 final size:40
Alignment explanation
Indices: 61023068--61023192 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 40
61023058 CGTTTGAATG
* * *
61023068 AAAAACGCCGCTAAAGAACAAGCATTAGCGGTGCTTTTTA
1 AAAAACGCCGCTAAAGAACGACCATTAGCGGCGCTTTTTA
* *
61023108 AAAAATGCCGCTAAAGAACGAGCATTAGCGGCGCTTTTTA
1 AAAAACGCCGCTAAAGAACGACCATTAGCGGCGCTTTTTA
* ** * **
61023148 AAAAACGCCGTTATAAGTTC-ACCTTTAGCCACGCTTTTTA
1 AAAAACGCCGCTA-AAGAACGACCATTAGCGGCGCTTTTTA
61023188 AAAAA
1 AAAAA
61023193 AGGCCGCAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 69 0.95
41 4 0.05
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGAACGACCATTAGCGGCGCTTTTTA
Found at i:61023956 original size:15 final size:14
Alignment explanation
Indices: 61023936--61023970 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
61023926 ACTATTTTAA
*
61023936 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
61023950 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
61023965 GGTTTA
1 GGTTTA
61023971 AAGGTGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:61024030 original size:14 final size:14
Alignment explanation
Indices: 61023979--61024052 Score: 60
Period size: 14 Copynumber: 5.2 Consensus size: 14
61023969 TAAAGGTGAT
61023979 TTAAGGGTT-GGGG
1 TTAAGGGTTAGGGG
* **
61023992 TTTAAGGTTTAGGTA
1 -TTAAGGGTTAGGGG
*
61024007 TTACGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
61024021 TTAAGGGTTAGGTG
1 TTAAGGGTTAGGGG
* *
61024035 TTCATGGTTCAGGGG
1 TTAAGGGTT-AGGGG
61024050 TTA
1 TTA
61024053 TATTTTAGGA
Statistics
Matches: 45, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
14 37 0.82
15 8 0.18
ACGTcount: A:0.19, C:0.04, G:0.41, T:0.36
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:61024213 original size:7 final size:7
Alignment explanation
Indices: 61024201--61024226 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
61024191 TATCATTATA
61024201 GTTTAGG
1 GTTTAGG
61024208 GTTTAGG
1 GTTTAGG
61024215 GTTTAGG
1 GTTTAGG
61024222 GTTTA
1 GTTTA
61024227 AGCTTTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:61024285 original size:15 final size:15
Alignment explanation
Indices: 61024252--61024298 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
61024242 TATTTTAAGG
**
61024252 TTTATGGATTATGAA
1 TTTATGGATTATGGT
*
61024267 TTTAGGGATTATGGT
1 TTTATGGATTATGGT
*
61024282 TTTATGGTTTATGGT
1 TTTATGGATTATGGT
61024297 TT
1 TT
61024299 AAAGGTTGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (15 bp):
TTTATGGATTATGGT
Found at i:61025239 original size:40 final size:40
Alignment explanation
Indices: 61025168--61025271 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 40
61025158 AAAGAAAATT
* ** *
61025168 AAAATTGAGCAATAGTGGCGTTTTTGGT-AAAACGCTGCA-A
1 AAAATTGAGCTATAGTGGCGTTTTTAATAAAAACAC--CATA
61025208 AAAATTGAGCTATAGTGGCGTTTTTAATAAAAACACCATA
1 AAAATTGAGCTATAGTGGCGTTTTTAATAAAAACACCATA
61025248 AAAAGTT--GCTATAGTGGCGTTTTT
1 AAAA-TTGAGCTATAGTGGCGTTTTT
61025272 GGTGGAAGCG
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
39 19 0.33
40 30 0.53
41 8 0.14
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.32
Consensus pattern (40 bp):
AAAATTGAGCTATAGTGGCGTTTTTAATAAAAACACCATA
Found at i:61025564 original size:3 final size:3
Alignment explanation
Indices: 61025552--61025597 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
61025542 AATGGAAGTT
*
61025552 GAA G-A GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
61025598 GGAGGAGGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:61025611 original size:18 final size:16
Alignment explanation
Indices: 61025590--61025633 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 16
61025580 AGAAGAAGAA
61025590 GAAGAAGAGGAGGAGGAG
1 GAAGAAGAGG-GG-GGAG
61025608 GAAGAGAAGAGGGGGGAG
1 G-A-AGAAGAGGGGGGAG
61025626 GAAGAAGA
1 GAAGAAGA
61025634 AGAAGAGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 6 0.25
17 1 0.04
18 6 0.25
19 3 0.12
20 8 0.33
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (16 bp):
GAAGAAGAGGGGGGAG
Found at i:61029399 original size:8 final size:8
Alignment explanation
Indices: 61029386--61029415 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
61029376 CCATTTTTGA
*
61029386 TAATCTTG
1 TAATCTCG
61029394 TAATCTCG
1 TAATCTCG
61029402 TAATCTCG
1 TAATCTCG
61029410 TAATCT
1 TAATCT
61029416 TCTTCTACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (8 bp):
TAATCTCG
Found at i:61030433 original size:43 final size:43
Alignment explanation
Indices: 61030364--61030510 Score: 154
Period size: 43 Copynumber: 3.5 Consensus size: 43
61030354 AATATTTTTT
* * * *
61030364 TAAAGGTCATGTTCTCTAGCAGCGTTTGTGAGAAAAGTGCCGC
1 TAAAAGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGTGCCGC
* * * * *
61030407 TAAAAGTCATGGTATTTAGCGTCGTTTTTGGGAAAAGCGCCGC
1 TAAAAGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGTGCCGC
* * * * *
61030450 TAGAAGTCATAGTCTTTAGCGGCATTTG-CAAAAAAGTG-CGC
1 TAAAAGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGTGCCGC
61030491 TAAAAGTCATGGTCTTTAGC
1 TAAAAGTCATGGTCTTTAGC
61030511 AGCATTTTTT
Statistics
Matches: 83, Mismatches: 21, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
41 21 0.25
42 6 0.07
43 56 0.67
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (43 bp):
TAAAAGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGTGCCGC
Found at i:61030506 original size:41 final size:41
Alignment explanation
Indices: 61030396--61030517 Score: 129
Period size: 41 Copynumber: 2.9 Consensus size: 41
61030386 CGTTTGTGAG
* ** **
61030396 AAAAGTGCCGCTAAAAGTCATGGTATTTAGCGTCGTTTTTGGG
1 AAAAGTGCCGCTAAAAGTCATGGTCTTTAGCG--GCATTTGAA
* * *
61030439 AAAAGCGCCGCTAGAAGTCATAGTCTTTAGCGGCATTTGCAA
1 AAAAGTGCCGCTAAAAGTCATGGTCTTTAGCGGCATTTG-AA
*
61030481 AAAAGTG-CGCTAAAAGTCATGGTCTTTAGCAGCATTT
1 AAAAGTGCCGCTAAAAGTCATGGTCTTTAGCGGCATTT
61030518 TTTAAAATAA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 32 0.48
42 6 0.09
43 28 0.42
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (41 bp):
AAAAGTGCCGCTAAAAGTCATGGTCTTTAGCGGCATTTGAA
Found at i:61042137 original size:46 final size:45
Alignment explanation
Indices: 61042066--61042190 Score: 151
Period size: 46 Copynumber: 2.7 Consensus size: 45
61042056 CATCGGTAGG
* **
61042066 AAGCCTACTAGGCACAAGGCTCGATACAATACAGTACACCGGCATA
1 AAGCCTGCTAGGCACAAGGC-CGATACAATACAGTACACCAACATA
* *
61042112 AAGCCTGCTAGGCACAAGGACCGATACATTATAGTACACCAACATA
1 AAGCCTGCTAGGCACAAGG-CCGATACAATACAGTACACCAACATA
* * *
61042158 AAGCTTGCTAGGCTCAAGGCCCGATTCAATACA
1 AAGCCTGCTAGGCACAAGG-CCGATACAATACA
61042191 CTCAATACAT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 66 0.99
47 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.18
Consensus pattern (45 bp):
AAGCCTGCTAGGCACAAGGCCGATACAATACAGTACACCAACATA
Found at i:61047586 original size:47 final size:47
Alignment explanation
Indices: 61047533--61047970 Score: 687
Period size: 47 Copynumber: 9.2 Consensus size: 47
61047523 AATTCTAAAT
61047533 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
61047580 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
61047629 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
61047676 TGTGAATAGGGCTTAATGGCCGATGTGATGAATGTGGAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
61047724 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
61047773 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
61047820 TGTGAATAGGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
61047868 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * *
61047915 TGTGATAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
61047962 TGTGATAAG
1 TGTGATAAG
61047971 TCCCGAAGGG
Statistics
Matches: 363, Mismatches: 22, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 182 0.50
48 87 0.24
49 94 0.26
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:61047805 original size:144 final size:144
Alignment explanation
Indices: 61047545--61047966 Score: 731
Period size: 144 Copynumber: 2.9 Consensus size: 144
61047535 TGATAAGGCC
61047545 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
61047610 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
61047675 ATGTGAATAGGGCT
131 ATGTGAATAGGGCT
*
61047689 TAATGGCCGATGTGATGAATGTGGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
61047754 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
61047819 ATGTGAATAGGGCT
131 ATGTGAATAGGGCT
** *
61047833 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
61047898 ATGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAA
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
61047961 ATGTGA
131 ATGTGA
61047967 TAAGTCCCGA
Statistics
Matches: 266, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
142 51 0.19
144 215 0.81
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (144 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGAATAGGGCT
Found at i:61047882 original size:191 final size:191
Alignment explanation
Indices: 61047533--61047970 Score: 706
Period size: 191 Copynumber: 2.3 Consensus size: 191
61047523 AATTCTAAAT
61047533 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATG
61047597 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
66 GCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* * *
61047662 TGAAAGTGTATATATGTGAATAGGGCTTAATGGCCGATGTGATGAATGTGGAAGTGTATATA
130 TGAAAGTGTATATACGTGAATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
61047724 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAAT
* *
61047789 GGCCGATGTGATGAATGTGAAAGTG-TATATATGTGAATAGGGCTTAATGGCCGATGTGATGAAT
65 GGCCGATGTGATGAATGTGAAAGTGATATATATGTG-ATAAGGCCTAATGGCCGATGTGATGAAT
*
61047853 GTGAAAGTGTATATGCGTG-ATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
129 GTGAAAGTGTATATACGTGAATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
61047915 TGTGATAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAG
61047971 TCCCGAAGGG
Statistics
Matches: 232, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
189 10 0.04
190 1 0.00
191 131 0.56
192 43 0.19
193 47 0.20
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (191 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
GAAAGTGTATATACGTGAATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:61048145 original size:37 final size:37
Alignment explanation
Indices: 61048091--61048166 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
61048081 GAGTTCTAAG
* * *
61048091 GACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
*
61048128 GACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
61048165 GA
1 GA
61048167 TTTCGTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
Found at i:61050208 original size:43 final size:43
Alignment explanation
Indices: 61050022--61050210 Score: 342
Period size: 43 Copynumber: 4.4 Consensus size: 43
61050012 TTGGTTTTCA
* *
61050022 GCACTAAGTGTGCGAGCAATAAGTGTTCACAGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
61050065 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
61050108 GCACTAAGTGTGCAGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
61050151 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
61050194 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
61050211 TTGAAATGCA
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 142 1.00
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:61050227 original size:29 final size:29
Alignment explanation
Indices: 61050192--61050265 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
61050182 GTTGTGAGAT
* *
61050192 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
61050221 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
61050250 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61050266 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:61050602 original size:40 final size:40
Alignment explanation
Indices: 61050558--61050783 Score: 217
Period size: 40 Copynumber: 5.7 Consensus size: 40
61050548 CATTTGAATG
*
61050558 ATATCCGGGCTAAGTCCCGAAG-GCAATT-GAGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGAGC-ATTCGTGCTAGTGA-T
* * * *
61050598 ATATCCGGGCTAAGACCCGAAG-GCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC-TAGTGAT
* * * *
61050638 ATATCCGGGCTAAGACCCGAAG-GCATTGGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-T
* * * *
61050678 AAATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGAG
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
* * * * *
61050718 GTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
*
61050758 ATATCCGGGCTAGGTCCCGAAGAGCA
1 ATATCCGGGCTAAGTCCCGAAGAGCA
61050784 ATCATGCTGG
Statistics
Matches: 155, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 6 0.04
40 132 0.85
41 17 0.11
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
Found at i:61050792 original size:40 final size:40
Alignment explanation
Indices: 61050719--61050795 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
61050709 GCTAGTGAGG
* * *
61050719 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTTA
1 TATCCGGACTAAGTCCCGAAGAGCAATCATGCTGGTGTTA
* *
61050759 TATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATCCGGACTAAGTCCCGAAGAGCAATCATGCTGGTG
61050796 ACATGTATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
TATCCGGACTAAGTCCCGAAGAGCAATCATGCTGGTGTTA
Found at i:61054192 original size:47 final size:47
Alignment explanation
Indices: 61054139--61054576 Score: 678
Period size: 47 Copynumber: 9.2 Consensus size: 47
61054129 AATTCTAAAT
61054139 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
61054186 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
61054235 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
61054282 TGTGAATAGGGCTTAATGGCCGATGTGATGAATGTGGAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
61054330 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
61054379 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
61054426 TGTGAATAGGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
61054474 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
61054521 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
61054568 TGTGATAAG
1 TGTGATAAG
61054577 TCCCGAAGGG
Statistics
Matches: 361, Mismatches: 24, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 180 0.50
48 87 0.24
49 94 0.26
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:61054411 original size:144 final size:144
Alignment explanation
Indices: 61054151--61054572 Score: 722
Period size: 144 Copynumber: 2.9 Consensus size: 144
61054141 TGATAAGGCC
61054151 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
61054216 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
61054281 ATGTGAATAGGGCT
131 ATGTGAATAGGGCT
*
61054295 TAATGGCCGATGTGATGAATGTGGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
61054360 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
61054425 ATGTGAATAGGGCT
131 ATGTGAATAGGGCT
** *
61054439 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
61054504 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAA
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
61054567 ATGTGA
131 ATGTGA
61054573 TAAGTCCCGA
Statistics
Matches: 265, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
142 50 0.19
144 215 0.81
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (144 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGAATAGGGCT
Found at i:61054488 original size:191 final size:191
Alignment explanation
Indices: 61054139--61054576 Score: 697
Period size: 191 Copynumber: 2.3 Consensus size: 191
61054129 AATTCTAAAT
61054139 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATG
61054203 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
66 GCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* * *
61054268 TGAAAGTGTATATATGTGAATAGGGCTTAATGGCCGATGTGATGAATGTGGAAGTGTATATA
130 TGAAAGTGTATATACGTGAATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
61054330 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAAT
* *
61054395 GGCCGATGTGATGAATGTGAAAGTG-TATATATGTGAATAGGGCTTAATGGCCGATGTGATGAAT
65 GGCCGATGTGATGAATGTGAAAGTGATATATATGTG-ATAAGGCCTAATGGCCGATGTGATGAAT
*
61054459 GTGAAAGTGTATATGCGTG-ATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
129 GTGAAAGTGTATATACGTGAATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
61054521 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAG
61054577 TCCCGAAGGG
Statistics
Matches: 231, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
189 10 0.04
190 1 0.00
191 130 0.56
192 43 0.19
193 47 0.20
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (191 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
GAAAGTGTATATACGTGAATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:61054751 original size:37 final size:37
Alignment explanation
Indices: 61054697--61054772 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
61054687 GAGTTCTAAG
* * *
61054697 GACCCGATGACTACGTGTGGGGATTTTGTCCGGATAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGATAA
* *
61054734 GACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGATAA
61054771 GA
1 GA
61054773 TTTCGTAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGAGATTATGTCCGGATAA
Found at i:61074497 original size:48 final size:48
Alignment explanation
Indices: 61074426--61074904 Score: 409
Period size: 48 Copynumber: 9.9 Consensus size: 48
61074416 TGATACTAGG
61074426 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTC
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTC
* ** * * *
61074474 GATATGTGAGCCAGTGTAAGACCATGT-TTAGAGTATGGCATAGACATT-
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGA-CATGGCATCGGC-TTC
* * * * * *
61074522 TATACGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTC
* * *
61074570 GATATGTGAGCCAGTGTAAGACCATGT-TTGGAGCATGGCATCAGCATT-
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGA-CATGGCATCGGC-TTC
* * ** *
61074618 TATACGAAAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTT-
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTC
* * * *
61074666 GATATGTGGGCTAGTGTAAGACCATATCTGGGACATGGCATCAGCCTC
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTC
* * * *
61074714 GATATGTGAGCCAGTGTAAGACCATGT-TTGGAGTATGGCATTGGCATT-
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGA-CATGGCATCGGC-TTC
* * * * *
61074762 TATACT-AGAGCTACTGTAAGACCATGTCTTGGACATGGCATCGGCCTC
1 GATA-TGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTC
* * * * **
61074810 GATATGT-AGACTAGTGTAAGAGCATGTTTGGAACATGGCATCAGCACC
1 GATATGTGAG-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTC
* * * *
61074858 GATATATGAGAGCCAATGCAAGACCATGTCTGGGACATGGCATCGGC
1 G--ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
61074905 ATCTTAGCCT
Statistics
Matches: 338, Mismatches: 74, Indels: 36
0.75 0.17 0.08
Matches are distributed among these distances:
47 18 0.05
48 267 0.79
49 18 0.05
50 33 0.10
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTC
Found at i:61074686 original size:144 final size:143
Alignment explanation
Indices: 61074426--61074906 Score: 556
Period size: 144 Copynumber: 3.3 Consensus size: 143
61074416 TGATACTAGG
* * * * *
61074426 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTCGATATGTGAGCCAGTG
1 GATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT-TATACGAGAGCTAGTG
* * * * * * * * * *
61074490 TAAGACCATGTTTAGAGTATGGCATAGACATTTATACGAGAGTTAGTGTAAGACCATGTCTGGGA
65 TAAGACCATGTTTGGA-CATGGCATCGGCCTTGATATGTGGGCTAGTGTAAGACCATGTCTGGGA
61074555 CATGGCATCAGCCTC
129 CATGGCATCAGCCTC
* * *
61074570 GATATGTGAGCCAGTGTAAGACCATGT-TTGGAGCATGGCATCAGCATTTATACGAAAGCTAGTG
1 GATATGTGAGCCAGTGTAAGACCATGTCTGGGA-CATGGCATCGGCATTTATACGAGAGCTAGTG
*
61074634 TAAGACCATGTTTGGGACATGGCATCGGCCTTGATATGTGGGCTAGTGTAAGACCATATCTGGGA
65 TAAGACCATGTTT-GGACATGGCATCGGCCTTGATATGTGGGCTAGTGTAAGACCATGTCTGGGA
61074699 CATGGCATCAGCCTC
129 CATGGCATCAGCCTC
* * * * *
61074714 GATATGTGAGCCAGTGTAAGACCATGT-TTGGAGTATGGCATTGGCATTTATACTAGAGCTACTG
1 GATATGTGAGCCAGTGTAAGACCATGTCTGGGA-CATGGCATCGGCATTTATACGAGAGCTAGTG
* * * * * *
61074778 TAAGACCATGTCTTGGACATGGCATCGGCCTCGATATGTAGACTAGTGTAAGAGCATGTTTGGAA
65 TAAGACCATGT-TTGGACATGGCATCGGCCTTGATATGTGGGCTAGTGTAAGACCATGTCTGGGA
61074843 CATGGCATCAGCAC-C
129 CATGGCATCAGC-CTC
* * *
61074858 GATATATGAGAGCCAATGCAAGACCATGTCTGGGACATGGCATCGGCAT
1 G--ATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
61074907 CTTAGCCTTT
Statistics
Matches: 291, Mismatches: 38, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
143 4 0.01
144 241 0.83
145 7 0.02
146 35 0.12
147 4 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (143 bp):
GATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTTATACGAGAGCTAGTGT
AAGACCATGTTTGGACATGGCATCGGCCTTGATATGTGGGCTAGTGTAAGACCATGTCTGGGACA
TGGCATCAGCCTC
Found at i:61074703 original size:96 final size:96
Alignment explanation
Indices: 61074433--61074907 Score: 453
Period size: 96 Copynumber: 4.9 Consensus size: 96
61074423 AGGGATATGT
*
61074433 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTCGATATGTGAGCCAGTGTAAGACC
1 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTT-GATATGTGAGCCAGTGTAAGACC
* * **
61074497 ATGT-TTAGAGTATGGCAT-AGACATTTATACGA
65 ATGTCTTGGA-CATGGCATCAG-CATCGATACGA
* * * *
61074529 GAGTTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGTGAGCCAGTGTAAGACCA
1 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTGATATGTGAGCCAGTGTAAGACCA
**
61074594 TGT-TTGGAGCATGGCATCAGCATTTATACGA
66 TGTCTTGGA-CATGGCATCAGCATCGATACGA
* * *
61074625 AAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTGATATGTGGGCTAGTGTAAGACCA
1 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTGATATGTGAGCCAGTGTAAGACCA
* * * * *
61074690 TATCTGGGACATGGCATCAGCCTCGATATGT
66 TGTCTTGGACATGGCATCAGCATCGATACGA
* * * * * * * *
61074721 GAGCCAGTGTAAGACCATGTTT-GGAGTATGGCATTGGCATTTATACT-AGAGCTACTGTAAGAC
1 GAGCTAGTGTAAGACCATGTTTGGGA-CATGGCATCGGCCTTGATA-TGTGAGCCAGTGTAAGAC
* * *
61074784 CATGTCTTGGACATGGCATCGGCCTCGATATGTA
64 CATGTCTTGGACATGGCATCAGCATCGATACG-A
* * * * * * *
61074818 GA-CTAGTGTAAGAGCATGTTTGGAACATGGCATCAGCAC-CGATATATGAGAGCCAATGCAAGA
1 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGC-CTTG--ATATGTGAGCCAGTGTAAGA
* *
61074881 CCATGTCTGGGACATGGCATCGGCATC
63 CCATGTCTTGGACATGGCATCAGCATC
61074908 TTAGCCTTTT
Statistics
Matches: 322, Mismatches: 46, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
95 3 0.01
96 265 0.82
97 14 0.04
98 40 0.12
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (96 bp):
GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTGATATGTGAGCCAGTGTAAGACCA
TGTCTTGGACATGGCATCAGCATCGATACGA
Found at i:61079328 original size:16 final size:17
Alignment explanation
Indices: 61079307--61079339 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
61079297 TATAGGCTGT
61079307 GTGGGCT-TACGGGCTC
1 GTGGGCTCTACGGGCTC
61079323 GTGGGCTCGTACGGGCT
1 GTGGGCTC-TACGGGCT
61079340 GTAACACCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.06, C:0.24, G:0.45, T:0.24
Consensus pattern (17 bp):
GTGGGCTCTACGGGCTC
Found at i:61080908 original size:46 final size:45
Alignment explanation
Indices: 61080844--61080966 Score: 131
Period size: 46 Copynumber: 2.7 Consensus size: 45
61080834 TCGCGAGGCT
* * * *
61080844 GATGCATGTTCCAAACATGTCATACACTAGCTCT-TGTCTCAACGTC
1 GATGCATGTCCCAGACATGTCATACACTAGCTCTATAT-TCAA-GCC
* * **
61080890 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATTGTAGCC
1 GATGCATGTCCCAGACATGTCATACACTAGCTCT-ATATTCAAGCC
*
61080936 GATGCATGTCCCAGACATGTCCTACACTAGC
1 GATGCATGTCCCAGACATGTCATACACTAGC
61080967 ACATATATCA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 61 0.94
47 2 0.03
48 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCATACACTAGCTCTATATTCAAGCC
Found at i:61084535 original size:3 final size:3
Alignment explanation
Indices: 61084529--61084621 Score: 177
Period size: 3 Copynumber: 31.0 Consensus size: 3
61084519 TATTACTATT
*
61084529 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
61084577 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
61084622 ATCTAACTAG
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:61084665 original size:19 final size:19
Alignment explanation
Indices: 61084643--61084688 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
61084633 GATCATTTGC
* *
61084643 ATACATGGTGATTGTAGGA
1 ATACATAGTGATTATAGGA
61084662 ATACATAGTGATTATAGGA
1 ATACATAGTGATTATAGGA
61084681 ATACATAG
1 ATACATAG
61084689 CGATAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (19 bp):
ATACATAGTGATTATAGGA
Found at i:61087024 original size:18 final size:19
Alignment explanation
Indices: 61087001--61087039 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
61086991 TACAAATACA
*
61087001 AACATT-ACATAATTATTT
1 AACATTCACATAATAATTT
*
61087019 AACATTCACATCATAATTT
1 AACATTCACATAATAATTT
61087038 AA
1 AA
61087040 TCATATCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (19 bp):
AACATTCACATAATAATTT
Found at i:61087727 original size:22 final size:23
Alignment explanation
Indices: 61087688--61087792 Score: 86
Period size: 25 Copynumber: 4.3 Consensus size: 23
61087678 AAGTGCTATA
* * *
61087688 CAGAGACCACAGATGTGC-TAAT
1 CAGAGAGCACTGACGTGCATAAT
*
61087710 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTGACGTGC--ATAAT
* *
61087735 CAGAGCGCACTGACATGCTAATAAT
1 CAGAGAGCACTGACGTGC--ATAAT
*
61087760 CAGAGAGCACTGATGTGCTAATAAT
1 CAGAGAGCACTGACGTGC--ATAAT
61087785 CAGAGAGC
1 CAGAGAGC
61087793 GCGCTAAGGT
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.20
25 56 0.80
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (23 bp):
CAGAGAGCACTGACGTGCATAAT
Found at i:61087738 original size:25 final size:25
Alignment explanation
Indices: 61087706--61087792 Score: 138
Period size: 25 Copynumber: 3.5 Consensus size: 25
61087696 ACAGATGTGC
*
61087706 TAATCAGAGAGCACTAACGTGCTAA
1 TAATCAGAGAGCACTGACGTGCTAA
* *
61087731 TAATCAGAGCGCACTGACATGCTAA
1 TAATCAGAGAGCACTGACGTGCTAA
*
61087756 TAATCAGAGAGCACTGATGTGCTAA
1 TAATCAGAGAGCACTGACGTGCTAA
61087781 TAATCAGAGAGC
1 TAATCAGAGAGC
61087793 GCGCTAAGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.21
Consensus pattern (25 bp):
TAATCAGAGAGCACTGACGTGCTAA
Found at i:61088429 original size:21 final size:21
Alignment explanation
Indices: 61088404--61088445 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
61088394 CTTTTTAATT
* *
61088404 AATTTATTATCGAAACTTTAA
1 AATTTATTAACAAAACTTTAA
*
61088425 AATTTCTTAACAAAACTTTAA
1 AATTTATTAACAAAACTTTAA
61088446 TACCACCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (21 bp):
AATTTATTAACAAAACTTTAA
Found at i:61095341 original size:27 final size:27
Alignment explanation
Indices: 61095310--61095487 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
61095300 TAAATTGTAC
61095310 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
61095337 TGCACTAAGTGTGCCAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61095363 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61095391 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61095419 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61095446 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61095473 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61095488 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61095451 original size:82 final size:81
Alignment explanation
Indices: 61095311--61095466 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
61095301 AAATTGTACA
* *
61095311 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCCAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCCAAATGAATACGATGCACTAAGTGT
61095376 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
61095392 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCCAAATGAATACGAT-GCACTAAGT
*
61095456 GTGCGAGTTGA
64 GTGCGAATTGA
61095467 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCCAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61095478 original size:82 final size:81
Alignment explanation
Indices: 61095307--61095487 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
61095297 GATTAAATTG
* *
61095307 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCCAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCCAAATGAATACGATGCACTAA
61095372 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
61095388 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCCAAATGAATACGAT-GCACT
* **
61095452 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61095470 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61095488 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCCAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61103236 original size:27 final size:27
Alignment explanation
Indices: 61103205--61103382 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61103195 TAAATTGTAC
61103205 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61103232 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61103258 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61103286 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61103314 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61103341 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61103368 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61103383 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61103319 original size:82 final size:81
Alignment explanation
Indices: 61103206--61103361 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61103196 AAATTGTACA
* *
61103206 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61103270 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61103287 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
61103352 TGCGAGTTGA
65 TGCGAATTGA
61103362 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61103373 original size:82 final size:81
Alignment explanation
Indices: 61103202--61103382 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
61103192 GATTAAATTG
* *
61103202 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61103267 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61103283 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
61103347 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61103365 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61103383 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61106831 original size:12 final size:12
Alignment explanation
Indices: 61106814--61106847 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
61106804 AGGAAAAGAA
61106814 AGAAAGAAAAAG
1 AGAAAGAAAAAG
61106826 AGAAAGAAAAAG
1 AGAAAGAAAAAG
61106838 A-AAAGGAAAA
1 AGAAA-GAAAA
61106848 TTTAGGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:61106841 original size:31 final size:31
Alignment explanation
Indices: 61106771--61106842 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
61106761 TAAAACAAAT
* * *
61106771 AAAATAAAAGAAAGAATGAAAACGAAACAGA
1 AAAAGAAAAGAAAGAAAGAAAAAGAAACAGA
** *
61106802 GCAGGAAAAGAAAGAAAGAAAAAGAGAA-AGA
1 AAAAGAAAAGAAAGAAAGAAAAAGA-AACAGA
61106833 AAAAGAAAAG
1 AAAAGAAAAG
61106843 GAAAATTTAG
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
31 29 0.94
32 2 0.06
ACGTcount: A:0.71, C:0.04, G:0.22, T:0.03
Consensus pattern (31 bp):
AAAAGAAAAGAAAGAAAGAAAAAGAAACAGA
Found at i:61106846 original size:16 final size:16
Alignment explanation
Indices: 61106806--61106846 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
61106796 AACAGAGCAG
*
61106806 GAAAA-GAAAGAAAGA
1 GAAAAGGAAAGAAAAA
61106821 -AAAAGAGAAAGAAAAA
1 GAAAAG-GAAAGAAAAA
61106837 GAAAAGGAAA
1 GAAAAGGAAA
61106847 ATTTAGGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 4 0.18
16 13 0.59
17 5 0.23
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
GAAAAGGAAAGAAAAA
Found at i:61109509 original size:24 final size:25
Alignment explanation
Indices: 61109457--61109509 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
61109447 ATACATGTAT
* * *
61109457 GCTCATACGAGCTCTGAATCGGTAT
1 GCTCATACGAGCTATGAAACGGTAA
*
61109482 GCTCTTACGAGCTAT-AAACGGTAA
1 GCTCATACGAGCTATGAAACGGTAA
61109506 GCTC
1 GCTC
61109510 CTCCAAGCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (25 bp):
GCTCATACGAGCTATGAAACGGTAA
Found at i:61137564 original size:12 final size:12
Alignment explanation
Indices: 61137547--61137572 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61137537 ACCTATACAC
61137547 CCATGTGTTAGG
1 CCATGTGTTAGG
61137559 CCATGTGTTAGG
1 CCATGTGTTAGG
61137571 CC
1 CC
61137573 GTGCAACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (12 bp):
CCATGTGTTAGG
Found at i:61138535 original size:37 final size:37
Alignment explanation
Indices: 61138484--61138585 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 37
61138474 ACACCAATCA
* * * *
61138484 CTCATAAAAGCTAATCTAAACGATAACACGCTAGATG
1 CTCATAAGAGCTAATCCAAACAAAAACACGCTAGATG
* **
61138521 CTCATAAGACCTAATCCATCCAAAAACACGCTAGATG
1 CTCATAAGAGCTAATCCAAACAAAAACACGCTAGATG
* *
61138558 CTCATAAGAGCTAATCCAACCGAAAACA
1 CTCATAAGAGCTAATCCAAACAAAAACA
61138586 AGCCAAAGCA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.43, C:0.26, G:0.12, T:0.19
Consensus pattern (37 bp):
CTCATAAGAGCTAATCCAAACAAAAACACGCTAGATG
Found at i:61146881 original size:41 final size:40
Alignment explanation
Indices: 61146807--61146905 Score: 117
Period size: 41 Copynumber: 2.5 Consensus size: 40
61146797 AAGTGTAAGT
* * **
61146807 AGGGCACCAGAGTGCATAACAGGGATATGAATGTGAAATC
1 AGGGCACCAGAGTGCAAAACAGGGACACAAATGTGAAATC
* * *
61146847 AGGGGCACCGGAGTGCAAAACAGGGCCACAAATGTGCAATC
1 A-GGGCACCAGAGTGCAAAACAGGGACACAAATGTGAAATC
*
61146888 AAGGCACCAGAGTGCAAA
1 AGGGCACCAGAGTGCAAA
61146906 CAGTATAAGC
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 16 0.33
41 33 0.67
ACGTcount: A:0.37, C:0.20, G:0.30, T:0.12
Consensus pattern (40 bp):
AGGGCACCAGAGTGCAAAACAGGGACACAAATGTGAAATC
Found at i:61147946 original size:14 final size:14
Alignment explanation
Indices: 61147908--61147947 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
61147898 TCTGTTTTTC
61147908 TTTT-ACTT-TAATA
1 TTTTAACTTATAA-A
61147921 TTTTAA-TTATAAA
1 TTTTAACTTATAAA
61147934 TTTTAACTTATAAA
1 TTTTAACTTATAAA
61147948 ATCACATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTAACTTATAAA
Found at i:61150993 original size:49 final size:49
Alignment explanation
Indices: 61150921--61151021 Score: 184
Period size: 49 Copynumber: 2.1 Consensus size: 49
61150911 TATGGGAACA
* *
61150921 CATATAGTGGTTGTCAATACATCAAATCTTTTATCACTCGTTAAACATT
1 CATATAGTGATTGTCAATACATCAAATCTTTTACCACTCGTTAAACATT
61150970 CATATAGTGATTGTCAATACATCAAATCTTTTACCACTCGTTAAACATT
1 CATATAGTGATTGTCAATACATCAAATCTTTTACCACTCGTTAAACATT
61151019 CAT
1 CAT
61151022 TTAGATTTCC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.38
Consensus pattern (49 bp):
CATATAGTGATTGTCAATACATCAAATCTTTTACCACTCGTTAAACATT
Found at i:61153389 original size:9 final size:9
Alignment explanation
Indices: 61153365--61153429 Score: 67
Period size: 9 Copynumber: 7.1 Consensus size: 9
61153355 TACTTAATTC
61153365 TTTTAAAAGA
1 TTTTAAAA-A
*
61153375 TATTAAAAA
1 TTTTAAAAA
* *
61153384 TTTTAATAT
1 TTTTAAAAA
61153393 TTTTAAAAA
1 TTTTAAAAA
* *
61153402 TTTTAATAT
1 TTTTAAAAA
61153411 TTTTAAAAA
1 TTTTAAAAA
*
61153420 TTTTATAAA
1 TTTTAAAAA
61153429 T
1 T
61153430 CACATTTAAT
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
9 37 0.84
10 7 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:61153400 original size:18 final size:18
Alignment explanation
Indices: 61153377--61153424 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
61153367 TTAAAAGATA
61153377 TTAAAAATTTTAATATTT
1 TTAAAAATTTTAATATTT
61153395 TTAAAAATTTTAATATTT
1 TTAAAAATTTTAATATTT
61153413 TTAAAAATTTTA
1 TTAAAAATTTTA
61153425 TAAATCACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAAAAATTTTAATATTT
Found at i:61153722 original size:18 final size:17
Alignment explanation
Indices: 61153699--61153759 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 17
61153689 TTCCAATATC
* *
61153699 TTTTTATTATTTTTTATA
1 TTTTTAATATTATTTA-A
61153717 TTTTTAATATTATTTAA
1 TTTTTAATATTATTTAA
61153734 TTTTTAAATAATATTATTTAA
1 -TTTT---TAATATTATTTAA
61153755 TTTTT
1 TTTTT
61153760 TATAAACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 2 0.05
18 18 0.49
20 4 0.11
21 13 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTAATATTATTTAA
Found at i:61158344 original size:45 final size:45
Alignment explanation
Indices: 61158293--61158464 Score: 292
Period size: 45 Copynumber: 3.8 Consensus size: 45
61158283 TATCGTATGG
* *
61158293 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
61158338 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
61158383 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
61158428 TACTATTCGGGCCTTCGAGCCTAGCAGGCGA-AATGCC
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
61158465 AGTGGATGAA
Statistics
Matches: 121, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
44 6 0.05
45 115 0.95
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:61161689 original size:47 final size:47
Alignment explanation
Indices: 61161623--61162098 Score: 792
Period size: 47 Copynumber: 10.1 Consensus size: 47
61161613 GAAATGATAG
61161623 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61161670 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
61161719 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
61161766 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
61161813 TAAGTCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61161860 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
61161907 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
61161954 TAAGGCCTAACGGTCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61162001 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * *
61162048 CGGGGCC-AAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAA-TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61162095 TAAG
1 TAAG
61162099 TCCCGAAGGG
Statistics
Matches: 403, Mismatches: 23, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
46 2 0.00
47 354 0.88
49 47 0.12
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:61162285 original size:37 final size:36
Alignment explanation
Indices: 61162217--61162294 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 36
61162207 CCGAGCTCTA
* *
61162217 AAGACCCGATGACACGTGTGGGAATTTTGTCCGGGT
1 AAGACCCGATAACACGTGTGGGAATTATGTCCGGGT
*
61162253 AAGACCCGATAACTTCGTGT-GGAGATTATGTCCGGGT
1 AAGACCCGATAAC-ACGTGTGGGA-ATTATGTCCGGGT
61162290 AAGAC
1 AAGAC
61162295 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 15 0.41
37 22 0.59
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (36 bp):
AAGACCCGATAACACGTGTGGGAATTATGTCCGGGT
Found at i:61181392 original size:15 final size:16
Alignment explanation
Indices: 61181363--61181395 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
61181353 ATGATAGTTT
61181363 TGGAGAAGAAAGAAAA
1 TGGAGAAGAAAGAAAA
61181379 TGGAGAAG-AAGAAAA
1 TGGAGAAGAAAGAAAA
61181394 TG
1 TG
61181396 ATAGCTAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.09
Consensus pattern (16 bp):
TGGAGAAGAAAGAAAA
Found at i:61183412 original size:44 final size:42
Alignment explanation
Indices: 61183344--61183477 Score: 135
Period size: 44 Copynumber: 3.1 Consensus size: 42
61183334 TTCTGATGTG
* * * *
61183344 TGATTTCGTGTAAGACCATGTCTGGGACGTTGGTATCG-ATT
1 TGATTTAGTGTAAGACCATATCTGGGACATTGGCATCGTATT
*
61183385 TGAGATTTAAGTGTAAGACCATATCTGGGACATTGGCATTGTATT
1 T--GATTT-AGTGTAAGACCATATCTGGGACATTGGCATCGTATT
* * * **
61183430 TGATTTCGTGTAAGACCCTATCTGGGATAGCGGCATCGATATT
1 TGATTTAGTGTAAGACCATATCTGGGACATTGGCATCG-TATT
61183473 TGATT
1 TGATT
61183478 ACACGTAAGA
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 26 0.34
43 19 0.25
44 27 0.35
45 4 0.05
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (42 bp):
TGATTTAGTGTAAGACCATATCTGGGACATTGGCATCGTATT
Found at i:61183452 original size:42 final size:41
Alignment explanation
Indices: 61183344--61183456 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 41
61183334 TTCTGATGTG
* * *
61183344 TGATTTCGTGTAAGACCATGTCTGGGACGTTGGTATCGATT
1 TGATTTCGTGTAAGACCATATCTGGGACATTGGCATCGATT
* *
61183385 TGAGATTTAAGTGTAAGACCATATCTGGGACATTGGCATTGTATT
1 T--GATTT-CGTGTAAGACCATATCTGGGACATTGGCATCG-ATT
*
61183430 TGATTTCGTGTAAGACCCTATCTGGGA
1 TGATTTCGTGTAAGACCATATCTGGGA
61183457 TAGCGGCATC
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
41 1 0.02
42 19 0.31
43 10 0.16
44 27 0.44
45 4 0.07
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATATCTGGGACATTGGCATCGATT
Found at i:61183474 original size:43 final size:42
Alignment explanation
Indices: 61183344--61183477 Score: 128
Period size: 42 Copynumber: 3.1 Consensus size: 42
61183334 TTCTGATGTG
* * *
61183344 TGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGTATCG-ATT
1 TGATTTCGTGTAAGACCATATCTGGGACAG-CGGCATCGTATT
* ** *
61183385 TGAGATTTAAGTGTAAGACCATATCTGGGACATTGGCATTGTATT
1 T--GATTT-CGTGTAAGACCATATCTGGGACAGCGGCATCGTATT
* *
61183430 TGATTTCGTGTAAGACCCTATCTGGGATAGCGGCATCGATATT
1 TGATTTCGTGTAAGACCATATCTGGGACAGCGGCATCG-TATT
61183473 TGATT
1 TGATT
61183478 ACACGTAAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 26 0.34
43 19 0.25
44 26 0.34
45 4 0.05
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATATCTGGGACAGCGGCATCGTATT
Found at i:61183487 original size:43 final size:42
Alignment explanation
Indices: 61183397--61183490 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
61183387 AGATTTAAGT
** * * **
61183397 GTAAGACCATATCTGGGACATTGGCATTGTATTTGATTTCGT
1 GTAAGACCATATCTGGGACAGCGGCATCGTATTTGATTACAC
* *
61183439 GTAAGACCCTATCTGGGATAGCGGCATCGATATTTGATTACAC
1 GTAAGACCATATCTGGGACAGCGGCATCG-TATTTGATTACAC
61183482 GTAAGACCA
1 GTAAGACCA
61183491 CGTTTGGGAC
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 24 0.57
43 18 0.43
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (42 bp):
GTAAGACCATATCTGGGACAGCGGCATCGTATTTGATTACAC
Found at i:61204960 original size:44 final size:44
Alignment explanation
Indices: 61204904--61204991 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
61204894 TCCGATGTGT
* *
61204904 GATTTCGAGTAAGACCACGCCTGGGACATTGGTATCG-ATTTGA
1 GATTTCGAGTAAGACCACGCCTGGGACATCGATATCGTATTTGA
* * * *
61204947 GATTTACGTGTAAGATCATGTCTGGGACATCGATATCGTATTTGA
1 GATTT-CGAGTAAGACCACGCCTGGGACATCGATATCGTATTTGA
61204992 TTTCGTATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
43 5 0.14
44 26 0.70
45 6 0.16
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (44 bp):
GATTTCGAGTAAGACCACGCCTGGGACATCGATATCGTATTTGA
Found at i:61209355 original size:27 final size:26
Alignment explanation
Indices: 61209315--61209426 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
61209305 AGCATGGCTG
* *
61209315 CCAGAACAAATAATGTGACAGAGTCA
1 CCAGAACAAATAATGTGGCAGAGCCA
* *
61209341 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAAATAAT-GTGGCAGAGCCA
* *
61209369 CTAGAACAAATATATGTGGTAGAGCCA
1 CCAGAACAAATA-ATGTGGCAGAGCCA
* * *
61209396 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAAATAA-TGTGGCAGAGCCA
61209423 CCAG
1 CCAG
61209427 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 13, Indels: 7
0.78 0.15 0.08
Matches are distributed among these distances:
26 6 0.09
27 48 0.70
28 15 0.22
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (26 bp):
CCAGAACAAATAATGTGGCAGAGCCA
Found at i:61210892 original size:24 final size:24
Alignment explanation
Indices: 61210865--61210929 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
61210855 TACCCTAATT
61210865 AGCTCCTAAATCCTCTCCCTGATC
1 AGCTCCTAAATCCTCTCCCTGATC
*
61210889 AGCTCCTAAATCCTCTCCCTTATC
1 AGCTCCTAAATCCTCTCCCTGATC
*
61210913 AGCTCCTAAATCTTCTC
1 AGCTCCTAAATCCTCTC
61210930 TAGACAGACT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.22, C:0.40, G:0.06, T:0.32
Consensus pattern (24 bp):
AGCTCCTAAATCCTCTCCCTGATC
Found at i:61217236 original size:27 final size:26
Alignment explanation
Indices: 61217196--61217307 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
61217186 AGCATGGCTG
* * *
61217196 CCAGAACAAATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGTAGAGCCA
* *
61217222 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGTAGAGCCA
*
61217250 CTAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGTAGAGCCA
* * *
61217277 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGTAGAGCCA
61217304 CCAG
1 CCAG
61217308 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.09
27 50 0.71
28 14 0.20
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGTAGAGCCA
Found at i:61217566 original size:16 final size:16
Alignment explanation
Indices: 61217545--61217584 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
61217535 ATACATAAGG
* *
61217545 GCTGTAATTGAATAGA
1 GCTGTAATGGAATAAA
61217561 GCTGTAATGGAATAAA
1 GCTGTAATGGAATAAA
*
61217577 GTTGTAAT
1 GCTGTAAT
61217585 AAGTAATTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (16 bp):
GCTGTAATGGAATAAA
Found at i:61217853 original size:17 final size:17
Alignment explanation
Indices: 61217831--61217863 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
61217821 AATTATTATT
61217831 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
61217848 AAATATAATTTAATAA
1 AAATATAATTTAATAA
61217864 CATTCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:61222087 original size:32 final size:32
Alignment explanation
Indices: 61222046--61222110 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
61222036 TTGCAATTTG
61222046 TTTTATATTTGCCCTTAGCCTTTACATCTATC
1 TTTTATATTTGCCCTTAGCCTTTACATCTATC
* *
61222078 TTTTATATTTGCCCTTGGCTTTTACATCTATC
1 TTTTATATTTGCCCTTAGCCTTTACATCTATC
61222110 T
1 T
61222111 CGTCATCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.17, C:0.23, G:0.08, T:0.52
Consensus pattern (32 bp):
TTTTATATTTGCCCTTAGCCTTTACATCTATC
Found at i:61222329 original size:12 final size:12
Alignment explanation
Indices: 61222312--61222338 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
61222302 TAGATTTATG
61222312 CAAAACAATACC
1 CAAAACAATACC
61222324 CAAAACAATACC
1 CAAAACAATACC
61222336 CAA
1 CAA
61222339 TAATTATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.33, G:0.00, T:0.07
Consensus pattern (12 bp):
CAAAACAATACC
Found at i:61225387 original size:13 final size:13
Alignment explanation
Indices: 61225369--61225394 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61225359 CTGAAAAGAG
61225369 GGAGAAGGGTGGA
1 GGAGAAGGGTGGA
61225382 GGAGAAGGGTGGA
1 GGAGAAGGGTGGA
61225395 ACGAAATAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.62, T:0.08
Consensus pattern (13 bp):
GGAGAAGGGTGGA
Found at i:61225413 original size:53 final size:53
Alignment explanation
Indices: 61225329--61225434 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
61225319 TGAAAAAGAG
* * *
61225329 GGAGAAGGGTGAAACGAAATGGGAATAAGACTGAAAAGAGGGAGAAGGGTGGA
1 GGAGAAGGGTGAAACGAAATAGGAACAAGACTGAAAAGAGGGAAAAGGGTGGA
* * *
61225382 GGAGAAGGGTGGAACGAAATAGGAACCAGACTGAAAAGAGGGAAAATGGTGGA
1 GGAGAAGGGTGAAACGAAATAGGAACAAGACTGAAAAGAGGGAAAAGGGTGGA
61225435 ACGAAAGAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.43, C:0.06, G:0.42, T:0.09
Consensus pattern (53 bp):
GGAGAAGGGTGAAACGAAATAGGAACAAGACTGAAAAGAGGGAAAAGGGTGGA
Found at i:61226936 original size:24 final size:24
Alignment explanation
Indices: 61226904--61226977 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
61226894 ACACAGTTCA
61226904 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
*
61226928 CCCTGATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
61226952 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
61226976 CC
1 CC
61226978 AGACAGACTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.22, C:0.42, G:0.05, T:0.31
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:61230549 original size:40 final size:40
Alignment explanation
Indices: 61230505--61230692 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
61230495 GCAAACACAT
* * *
61230505 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
61230545 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61230585 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
61230625 TTGCCTTCGGGTCATAGCCCGGACATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61230665 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
61230693 TCCAATGCTC
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:61231874 original size:13 final size:13
Alignment explanation
Indices: 61231858--61231886 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
61231848 ATACATTTAT
61231858 CATATATAACTAA
1 CATATATAACTAA
61231871 CATATATAACTAA
1 CATATATAACTAA
61231884 CAT
1 CAT
61231887 TTATTCCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (13 bp):
CATATATAACTAA
Found at i:61239188 original size:40 final size:40
Alignment explanation
Indices: 61239144--61239331 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
61239134 GCAAACACAT
* * *
61239144 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
61239184 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61239224 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
61239264 TTGCCTTCGGGTCATAGCCCGGACATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61239304 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
61239332 TCCAATGCTC
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:61245123 original size:44 final size:44
Alignment explanation
Indices: 61245039--61245123 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
61245029 TATATACGGG
* ** *
61245039 GCATCCGAGCTCGTTGAGTTATTCCAAGTTCATTACGGATGCGA
1 GCATACGAGCTCGTTGAGTTAGGCCAAGTTCATAACGGATGCGA
* *
61245083 GCATACGAGCTCGTTGAGTT-GGCCTGAGTTCATAATGGATG
1 GCATACGAGCTCGTTGAGTTAGGCC-AAGTTCATAACGGATG
61245124 TGATACATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (44 bp):
GCATACGAGCTCGTTGAGTTAGGCCAAGTTCATAACGGATGCGA
Found at i:61246527 original size:13 final size:13
Alignment explanation
Indices: 61246509--61246533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61246499 TTATTTTTAA
61246509 TTGGCCACACGGT
1 TTGGCCACACGGT
61246522 TTGGCCACACGG
1 TTGGCCACACGG
61246534 GTGTGTGATA
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:0.16, C:0.32, G:0.32, T:0.20
Consensus pattern (13 bp):
TTGGCCACACGGT
Found at i:61253033 original size:44 final size:45
Alignment explanation
Indices: 61252979--61253070 Score: 159
Period size: 44 Copynumber: 2.1 Consensus size: 45
61252969 ATGTATAAAG
*
61252979 CATCCAAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGTGA-A
1 CATCCAAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGTGATA
*
61253023 CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGTGATA
1 CATCCAAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGTGATA
61253068 CAT
1 CAT
61253071 GTAAGTGGGC
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 41 0.91
45 4 0.09
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (45 bp):
CATCCAAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGTGATA
Found at i:61271427 original size:8 final size:8
Alignment explanation
Indices: 61271414--61271441 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
61271404 AAGGAAGTGT
61271414 AGTGGTTA
1 AGTGGTTA
61271422 AGTGGTTA
1 AGTGGTTA
61271430 AGTGGTTA
1 AGTGGTTA
61271438 AGTG
1 AGTG
61271442 CTTCTTAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.36
Consensus pattern (8 bp):
AGTGGTTA
Found at i:61271527 original size:61 final size:61
Alignment explanation
Indices: 61271432--61271554 Score: 203
Period size: 61 Copynumber: 2.0 Consensus size: 61
61271422 AGTGGTTAAG
* *
61271432 TGGTTAAGTGCTTCTTAACTATCCTTTAAGTCTCTAGTTCGAACCTTTATGTG-TCTATTAT
1 TGGTTAAGTGCTCCTTAACTATCCTTTAAGTCTCTAGTTCGAACCCTTATGTGCT-TATTAT
*
61271493 TGGTTAAGTGCTCCTTAACTATCCTTTAAGTCTCTAGTTTGAACCCTTATGTGCTTATTAT
1 TGGTTAAGTGCTCCTTAACTATCCTTTAAGTCTCTAGTTCGAACCCTTATGTGCTTATTAT
61271554 T
1 T
61271555 TTTATTTAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 57 0.98
62 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.46
Consensus pattern (61 bp):
TGGTTAAGTGCTCCTTAACTATCCTTTAAGTCTCTAGTTCGAACCCTTATGTGCTTATTAT
Found at i:61275085 original size:33 final size:33
Alignment explanation
Indices: 61275045--61275111 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
61275035 AACCCTCTTT
*
61275045 CCAAGCCTAGCAGAAATTTATATATTACATTTA
1 CCAAGCCTAGCAAAAATTTATATATTACATTTA
61275078 CCAAGCCTAGCAAAAATTTATATATTACATTTA
1 CCAAGCCTAGCAAAAATTTATATATTACATTTA
61275111 C
1 C
61275112 AACACTTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.33
Consensus pattern (33 bp):
CCAAGCCTAGCAAAAATTTATATATTACATTTA
Found at i:61281587 original size:6 final size:6
Alignment explanation
Indices: 61281566--61281687 Score: 70
Period size: 6 Copynumber: 19.8 Consensus size: 6
61281556 TATTAGAACT
* * * *
61281566 AGAATC AAAATA AGAATC AGAATC AGGATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * * * *
61281615 AGAATC AGAATC AAAATT ACGTGA-C AGAATT AGAATT AGAATC AGTATC
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC
*
61281664 AGGTAA-C AGAATC AAAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
61281688 GTGAATGCAA
Statistics
Matches: 88, Mismatches: 19, Indels: 18
0.70 0.15 0.14
Matches are distributed among these distances:
5 4 0.05
6 74 0.84
7 7 0.08
8 3 0.03
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:61281607 original size:37 final size:37
Alignment explanation
Indices: 61281566--61281687 Score: 121
Period size: 37 Copynumber: 3.5 Consensus size: 37
61281556 TATTAGAACT
* *
61281566 AGAATCAAAATAAGAATCAGAATCAGGATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * * *
61281603 AGAATCAGAATCAGAATCAGAATCAAAATTACGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
61281640 AGAAT-----T-AGAATTAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
61281671 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
61281688 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
31 24 0.36
32 1 0.01
36 1 0.01
37 41 0.61
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:61281616 original size:31 final size:31
Alignment explanation
Indices: 61281578--61281687 Score: 103
Period size: 31 Copynumber: 3.4 Consensus size: 31
61281568 AATCAAAATA
*
61281578 AGAATCAGAATCAGGATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* *
61281609 AGAATCAGAATCAGAATCAAAATTACGTGACAGAATT
1 AGAATCAGAATCAGAATC------AGGTGACAGAATC
* * *
61281646 AGAATTAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
61281677 AAAATCAGAAT
1 AGAATCAGAAT
61281688 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
31 36 0.57
37 27 0.43
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:61282151 original size:27 final size:27
Alignment explanation
Indices: 61282121--61282261 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
61282111 GGGCAAAATG
* * * *
61282121 GTAATTTTACCCCATAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
61282148 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
61282175 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
61282202 GTAATTCTACCCTAGAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
61282229 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
61282256 ATAATT
1 GTAATT
61282262 TAGTAAATCG
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:61284345 original size:6 final size:6
Alignment explanation
Indices: 61284324--61284385 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
61284314 TATTAGAACT
* * * *
61284324 AGAATC AAAATA AGAATC AGAATC AGGATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
*
61284373 AGAATT AGAATC A
1 AGAATC AGAATC A
61284386 AAATTACGTG
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
5 1 0.02
6 39 0.89
7 3 0.07
8 1 0.02
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:61284365 original size:37 final size:37
Alignment explanation
Indices: 61284324--61284417 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
61284314 TATTAGAACT
* ** *
61284324 AGAATCAAAATAAGAATCAGAATCAGGATCAGGTGAC
1 AGAATCAGAATAAGAATCAGAATCAAAATCACGTGAC
* * *
61284361 AGAATCAGAATCAGAATTAGAATCAAAATTACGTGAC
1 AGAATCAGAATAAGAATCAGAATCAAAATCACGTGAC
* *
61284398 AGAATTAGAATTAGAATCAG
1 AGAATCAGAATAAGAATCAG
61284418 TATTAGGTAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATAAGAATCAGAATCAAAATCACGTGAC
Found at i:61284374 original size:31 final size:31
Alignment explanation
Indices: 61284336--61284445 Score: 85
Period size: 31 Copynumber: 3.4 Consensus size: 31
61284326 AATCAAAATA
*
61284336 AGAATCAGAATCAGGATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* * *
61284367 AGAATCAGAATTAGAATCAAAATTACGTGACAGAATT
1 AGAATCAGAATCAGAATC------AGGTGACAGAATC
* * * *
61284404 AGAATTAGAATCAGTATTAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
61284435 AAAATCAGAAT
1 AGAATCAGAAT
61284446 GTGAATGCAA
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
31 35 0.58
37 25 0.42
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:61285024 original size:27 final size:27
Alignment explanation
Indices: 61284883--61285017 Score: 180
Period size: 27 Copynumber: 5.0 Consensus size: 27
61284873 AGGGCAAAAT
* * * *
61284883 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
61284910 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
61284937 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
61284964 GGTAATTCTACCCTAGAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
**
61284991 ATTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
61285018 AATAATTTAG
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:61287048 original size:34 final size:34
Alignment explanation
Indices: 61287010--61287094 Score: 161
Period size: 34 Copynumber: 2.5 Consensus size: 34
61287000 TAGTATCAAT
*
61287010 TGGGCCTTAGCCCATTATAGTAGACAGTACCAGA
1 TGGGCCTTAGCCCATTATAGCAGACAGTACCAGA
61287044 TGGGCCTTAGCCCATTATAGCAGACAGTACCAGA
1 TGGGCCTTAGCCCATTATAGCAGACAGTACCAGA
61287078 TGGGCCTTAGCCCATTA
1 TGGGCCTTAGCCCATTA
61287095 CAAAATAAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.24
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTATAGCAGACAGTACCAGA
Found at i:61287714 original size:27 final size:27
Alignment explanation
Indices: 61287680--61287793 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
61287670 GGTTATCTCG
61287680 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTATAGGGGTATTTCA
* * * * *
61287707 GTATTTCTATCCTA-CGAAGGTATTTCG
1 GTAATTCTACCCTATAG-GGGTATTTCA
*
61287734 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTATAGGGGTATTTCA
* *
61287761 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTATAGGGGTATTTCA
*
61287788 ATAATT
1 GTAATT
61287794 TTGTAAATCG
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.01
27 68 0.97
28 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTCTACCCTATAGGGGTATTTCA
Found at i:61287793 original size:54 final size:54
Alignment explanation
Indices: 61287653--61287786 Score: 189
Period size: 54 Copynumber: 2.5 Consensus size: 54
61287643 GGGCAAAATG
* * * *
61287653 GTAATTTTACCCCACAAGGTTATCTCGGTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCA
* * *
61287707 GTATTTCTATCCTACGAA-GGTATTTCGGTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTAC-AAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCA
61287761 GTAATTCTACCCTACAAGGGTATTTC
1 GTAATTCTACCCTACAAGGGTATTTC
61287787 AATAATTTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 2 0.03
54 65 0.94
55 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCA
Found at i:61290725 original size:5 final size:5
Alignment explanation
Indices: 61290715--61290739 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
61290705 GATGCCAACC
61290715 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
61290740 TTTTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:61307083 original size:27 final size:27
Alignment explanation
Indices: 61307053--61307229 Score: 192
Period size: 27 Copynumber: 6.5 Consensus size: 27
61307043 AAATTGTACA
61307053 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
** * *
61307080 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
61307107 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
61307134 GCACTAAGTGTGCGAGTTTGACTATGTT
1 GCACTAAGTGTGCGA-TTTGACTATGTT
* * *
61307162 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGATTTGACTATGTT
* * * * *
61307189 GCACTAAGTGTGCAAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTT
*
61307216 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
61307230 GACTCAATAT
Statistics
Matches: 127, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:61307220 original size:82 final size:81
Alignment explanation
Indices: 61307049--61307229 Score: 231
Period size: 82 Copynumber: 2.2 Consensus size: 81
61307039 GATTAAATTG
*
61307049 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61307114 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61307130 TGCGGCACTAAGTGTGCGAGTTTGACTATGTTGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTTGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
61307194 AAGTGTGC-AAGTTGATTA
64 AAGTGTGCGAA-TTGACCA
* *
61307212 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61307230 GACTCAATAT
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
81 20 0.24
82 65 0.76
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61325845 original size:43 final size:43
Alignment explanation
Indices: 61325709--61325882 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 43
61325699 CATAGGATTC
* * * *
61325709 TGATATGTGATTTTGTGTAAGACCACGTTTGGGACATTGGCAT
1 TGATATTTGATTTCGTGTAAGACCACGTCTGGGACAGTGGCAT
* * * * *
61325752 CGAT-TTGAGATTTACGTGTAAGATCATGTCTGGGACA-TCGACA-
1 TGATATT-TGATTT-CGTGTAAGACCACGTCTGGGACAGT-GGCAT
*
61325795 TCATATTTGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCAT
1 TGATATTTGATTTCGTGTAAGACCAC-GTCTGGGACAGTGGCAT
* * *
61325838 TGATATTTGATTACATATAAGACCACGTCTGGGAC-GTTGGCAT
1 TGATATTTGATTTCGTGTAAGACCACGTCTGGGACAG-TGGCAT
61325881 TG
1 TG
61325883 TACGAGCTTT
Statistics
Matches: 104, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 25 0.24
43 54 0.52
44 25 0.24
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
TGATATTTGATTTCGTGTAAGACCACGTCTGGGACAGTGGCAT
Found at i:61326932 original size:6 final size:6
Alignment explanation
Indices: 61326864--61326913 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
61326854 AAGAAACATT
* * *
61326864 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
61326912 AT
1 AT
61326914 TAGGTGACAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 1 0.03
6 35 0.95
7 1 0.03
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:61326932 original size:31 final size:31
Alignment explanation
Indices: 61326890--61326969 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
61326880 AAATGAGAAT
* * * *
61326890 CAGAATCAGAATCAGAATTAGAATTAGGTGA
1 CAGAATCAGAATCAAAATCAGAATCAGGTAA
* *
61326921 CAGAATTAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAGAATCAGGTAA
*
61326952 CAGAATCAAAATCAAAAT
1 CAGAATCAGAATCAAAAT
61326970 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.21
Consensus pattern (31 bp):
CAGAATCAGAATCAAAATCAGAATCAGGTAA
Found at i:61327950 original size:27 final size:27
Alignment explanation
Indices: 61327405--61327947 Score: 642
Period size: 27 Copynumber: 20.1 Consensus size: 27
61327395 TAACACGCTA
* * *
61327405 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
** *
61327432 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTAAAATAGTAATTCTGTAAATCG
* * *
61327459 ATGGTAAAATAGTAATTTTGTAAATTG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
61327486 AGGGTAAAATAGTAATTTTGTAAATCA
1 AGGGTAAAATAGTAATTCTGTAAATCG
* * *
61327513 AGGGTAAAACAGTAATTTTGTCAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
**
61327540 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
61327567 -GTGGTAAAATAGTAATTTTGTAAATCA
1 AG-GGTAAAATAGTAATTCTGTAAATCG
* *
61327594 AGGATAAAATGGTAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
*
61327621 AGGGTAAAATAGTAATTCTGTCAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* ** * *
61327648 ATGGTAAAACGGTAATTCTATAAATTG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
61327675 AGGGTAAAACAGTAATTTTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
*
61327702 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
*
61327729 AGGGTAAAATAGTAATTCTGTAAATCA
1 AGGGTAAAATAGTAATTCTGTAAATCG
** * *
61327756 AGGGTAAAACGGTAATTTTGTCAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
61327783 AGGGTAAAA-CGATAATTCTATAAATCG
1 AGGGTAAAATAG-TAATTCTGTAAATCG
*
61327810 AGGGTAAAATAGTAATTTTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
*
61327837 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* * *
61327864 AGGGTAAAATAGTAATTTTCTAAATCA
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
61327891 AGGGTAAAACAGTAATTTTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
61327918 AGGGTAAAATAATAATTCTATAAATC-
1 AGGGTAAAATAGTAATTCTGTAAATCG
61327944 AGGG
1 AGGG
61327948 GTACTTTGGT
Statistics
Matches: 441, Mismatches: 71, Indels: 9
0.85 0.14 0.02
Matches are distributed among these distances:
26 6 0.01
27 433 0.98
28 2 0.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (27 bp):
AGGGTAAAATAGTAATTCTGTAAATCG
Found at i:61327960 original size:27 final size:27
Alignment explanation
Indices: 61327930--61328150 Score: 180
Period size: 27 Copynumber: 8.2 Consensus size: 27
61327920 GGTAAAATAA
* * *
61327930 TAATTCTATAAATCAGGGGTACTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
* ***
61327957 TAATTTTACAAGTC-GAGGGTATTTCAA
1 TAATTTTACAAATCAG-GGGTATTTTGG
* ** * *
61327984 TAATTTTATAGGTC-GATGGTATTTTAG
1 TAATTTTACAAATCAG-GGGTATTTTGG
* *
61328011 TAATTTCACAAATTAGGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
61328038 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATC-AGGGGTATTTTGG
*
61328065 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
*** * * *
61328092 TAATTTGGTAAACCAAGGGTATTTTAG
1 TAATTTTACAAATCAGGGGTATTTTGG
*
61328119 TAATTTTACAAACCA-GGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
*
61328145 TGATTT
1 TAATTT
61328151 GGAAAACTAA
Statistics
Matches: 159, Mismatches: 31, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
26 16 0.10
27 141 0.89
28 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAATCAGGGGTATTTTGG
Found at i:61327988 original size:81 final size:81
Alignment explanation
Indices: 61327417--61328049 Score: 269
Period size: 81 Copynumber: 7.8 Consensus size: 81
61327407 GGTAAAATGG
* ** * ** ** * **
61327417 TAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAATGGTAAAATAGTAATTTTGTAA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAGGGGTAATTTGGTAATTTTACAA
** * *
61327482 ATTGAGGGTAAAATAG
66 ATCAAGGGTAAAACAA
* * * * * *** * **
61327498 TAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGTCAATC-GAGGGTAAAACGGTAATTCTGTA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAG-GGGTAATTTGGTAATTTTACA
* * *
61327562 AATC-GGTGGTAAAATAG
65 AATCAAG-GGTAAAACAA
* * * * ** *
61327579 TAATTTTGTAAATCAAGGATAAAATGGTAATTCTGTAAATC-GAGGGTAAAATAGTAATTCTGT-
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAG-GGGTAATTTGGTAATT-T-TA
* * **
61327642 C-AATCGATGGTAAAACGG
63 CAAATCAAGGGTAAAACAA
* * * * * * ** * * *
61327660 TAATTCTATAAATTGAGGGTAAAACAGTAATTTTGTAAATC-GAGGGTAAAATAGTAATTCTATA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAG-GGGTAATTTGGTAATTTTACA
* * *
61327724 AATCGAGGGTAAAATAG
65 AATCAAGGGTAAAACAA
* * ** * * * *** * * *
61327741 TAATTCTGTAAATCAAGGGTAAAACGGTAATTTTGTCAATC-GAGGGTAAAACGATAATTCTATA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAG-GGGTAATTTGGTAATTTTACA
* * *
61327805 AATCGAGGGTAAAATAG
65 AATCAAGGGTAAAACAA
* * ** *
61327822 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAATAGTAATTTT-CT
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAG-GGGTAATTTGGTAATTTTAC-
*
61327885 AAATCAAGGGTAAAACAG
64 AAATCAAGGGTAAAACAA
* *
61327903 TAATTTTGTAAATCGAGGGTAAAATAATAATTCTATAAATCAGGGGTACTTTGGTAATTTTACAA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAGGGGTAATTTGGTAATTTTACAA
* * ***
61327968 GTCGAGGGTATTTCAA
66 ATCAAGGGTAAAACAA
* ** * *** * * *
61327984 TAATTTTATAGGTCGATGGTATTTTAGTAATT-TCACAAATTAGGGGTATTTTGGTAATTTTACA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCT-ATAAATCAGGGGTAATTTGGTAATTTTACA
61328048 AA
65 AA
61328050 CTAGGGGTAT
Statistics
Matches: 458, Mismatches: 83, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
79 1 0.00
80 2 0.00
81 452 0.99
82 2 0.00
83 1 0.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (81 bp):
TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAGGGGTAATTTGGTAATTTTACAA
ATCAAGGGTAAAACAA
Found at i:61328157 original size:26 final size:27
Alignment explanation
Indices: 61328001--61328150 Score: 194
Period size: 27 Copynumber: 5.6 Consensus size: 27
61327991 ATAGGTCGAT
* * **
61328001 GGTATTTTAGTAATTTCACAAATTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
61328028 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
61328055 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*** *
61328082 GGTATTTTGGTAATTTGGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
61328109 GGTATTTTAGTAATTTTACAAACCA-G
1 GGTATTTTGGTAATTTTACAAACCAGG
*
61328135 GGTATTTTGGTGATTT
1 GGTATTTTGGTAATTT
61328151 GGAAAACTAA
Statistics
Matches: 109, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 15 0.14
27 94 0.86
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAGG
Found at i:61330634 original size:43 final size:43
Alignment explanation
Indices: 61330580--61330734 Score: 222
Period size: 43 Copynumber: 3.6 Consensus size: 43
61330570 ACCGAGATGA
* *
61330580 GATTACATGTAAGACCATGTCTGGGACATTAGCATTG-TATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTA-TGT
*
61330623 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATGT
* *
61330666 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATGT
* * *
61330709 GATAACATGTAATACCATATCTGGGA
1 GATTACATGTAAGACCATGTCTGGGA
61330735 TATGTCATTG
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 100 0.98
44 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATGT
Found at i:61331217 original size:33 final size:33
Alignment explanation
Indices: 61331177--61331268 Score: 112
Period size: 33 Copynumber: 2.8 Consensus size: 33
61331167 TAAGTTGTCG
*
61331177 AATAAGACCATAGCTGGGCTATGGCAATCGAAT
1 AATAAGACCATAGCTGGACTATGGCAATCGAAT
* *
61331210 AATAAGACCATAGCTAGACTATGGCAATCGACT
1 AATAAGACCATAGCTGGACTATGGCAATCGAAT
* * * **
61331243 AAAAAGACTATAACTGGTTTATGGCA
1 AATAAGACCATAGCTGGACTATGGCA
61331269 CGTGAAAGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (33 bp):
AATAAGACCATAGCTGGACTATGGCAATCGAAT
Found at i:61353294 original size:12 final size:12
Alignment explanation
Indices: 61353277--61353305 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
61353267 ATAGGTTTGG
61353277 CACGGCCTAGCA
1 CACGGCCTAGCA
61353289 CACGGCCTAGCA
1 CACGGCCTAGCA
61353301 CACGG
1 CACGG
61353306 GCGTGTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.41, G:0.28, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:61354472 original size:45 final size:45
Alignment explanation
Indices: 61354413--61354671 Score: 322
Period size: 45 Copynumber: 5.8 Consensus size: 45
61354403 TCATATGATG
* * **
61354413 CCATAGCATCTTTTAGCTATAGTCTTACTCATTTTTATCATGATG
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
* * * * * * * *
61354458 CCACAACATATTTTAGCTATGTTCTTGCTCACTTTTATCATGACG
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
* *
61354503 CCATAGCATCTTTCAGCTATGGTCTTACTAAATTTTATCATGACA
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
* * * * * *
61354548 TCATAGCATATTTCAACTATGGTCTTGCTCACTTTTATCATAACA
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
61354593 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
*
61354638 CCATAGCATCTTTCAGTTAT-GTCTTACTCATTTT
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTT
61354672 AGGTTTAAAA
Statistics
Matches: 183, Mismatches: 31, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
44 14 0.08
45 169 0.92
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.41
Consensus pattern (45 bp):
CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
Found at i:61354999 original size:13 final size:13
Alignment explanation
Indices: 61354981--61355005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61354971 AAATAATCAC
61354981 ACACGGGCGTGTT
1 ACACGGGCGTGTT
61354994 ACACGGGCGTGT
1 ACACGGGCGTGT
61355006 CCCTGCCGAG
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:61372248 original size:27 final size:28
Alignment explanation
Indices: 61372164--61372261 Score: 171
Period size: 28 Copynumber: 3.5 Consensus size: 28
61372154 TAAATTGTAC
61372164 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
61372192 AGCACTAAGTGTGCGAGTTTGATTACAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
61372220 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
61372247 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61372262 GACTTAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 23 0.34
28 44 0.66
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:61372272 original size:27 final size:27
Alignment explanation
Indices: 61372164--61372274 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 27
61372154 TAAATTGTAC
*
61372164 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
* *
61372192 AGCACTAAGTGTGCGAGTTTGATTACAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
61372220 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
61372247 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGATTATAT
61372274 A
1 A
61372275 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 29 0.38
28 47 0.62
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:61380261 original size:55 final size:57
Alignment explanation
Indices: 61380142--61380264 Score: 196
Period size: 55 Copynumber: 2.2 Consensus size: 57
61380132 GAGATTGGCG
**
61380142 CTAAGTGTGCGAGTTTAAATTGTATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTACATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
*
61380199 CTAAGTGTGCGAGTTT-GATTACATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTACATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
*
61380254 CTGAGTGTGCG
1 CTAAGTGTGCG
61380265 GACTTAATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
55 24 0.39
56 22 0.35
57 16 0.26
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (57 bp):
CTAAGTGTGCGAGTTTAAATTACATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:61380277 original size:27 final size:28
Alignment explanation
Indices: 61380142--61380264 Score: 194
Period size: 28 Copynumber: 4.4 Consensus size: 28
61380132 GAGATTGGCG
* *
61380142 CTAAGTGTGCGAGTTTAAATTGTATAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
61380171 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
61380199 CTAAGTGTGCGAGTTTGATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
61380227 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
61380254 CTGAGTGTGCG
1 CTAAGTGTGCG
61380265 GACTTAATAT
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.26
28 50 0.56
29 16 0.18
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:61382971 original size:46 final size:47
Alignment explanation
Indices: 61382904--61383022 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 47
61382894 TGTGTGTGCT
* *
61382904 AGTGTAAGACATGTTTGGGACATGCATCAGCCACATT-ATGA-AA-TG-C
1 AGTGTAAGACATGTCTGGGACATGCATCAG--ACATTGA-GACAAGAGCC
* *
61382950 AGTGTAAGACATGTCTGGGACATACA--AGGCATTGAGACAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGACATTGAGACAAGAGCC
61382995 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
61383023 GGCTACGAGA
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
42 6 0.10
43 3 0.05
44 3 0.05
45 26 0.42
46 24 0.39
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGACATTGAGACAAGAGCC
Found at i:61383111 original size:50 final size:49
Alignment explanation
Indices: 61382989--61383218 Score: 169
Period size: 50 Copynumber: 4.8 Consensus size: 49
61382979 CATTGAGACA
*
61382989 AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGT-
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATATGTG
* * * *
61383036 ---GTCAGTATAAGACTATGTCTAGGACATGGCATCGGCACGGATATGTG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GATATGTG
* * *
61383083 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGAT-T-TCG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGATATGT-G
* ** * * * * *
61383132 ATAGTAAATGTAAGACCACGTATGGGACATGGCAT---CAAGTTGATG-G
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAT-ATGTG
*
61383178 ATGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
1 A-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
61383219 TTATACCCTA
Statistics
Matches: 139, Mismatches: 28, Indels: 29
0.71 0.14 0.15
Matches are distributed among these distances:
44 10 0.07
45 17 0.12
46 16 0.12
47 29 0.21
48 1 0.01
49 30 0.22
50 34 0.24
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.23
Consensus pattern (49 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGTG
Done.