Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 107 of 109
Found at i:22136047 original size:3 final size:3
Alignment explanation
Indices: 22136039--22136078 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
22136029 TCCCTTTTCA
22136039 CTT CTT CTT CTT CTT CTT CTT -TGT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CT-T CTT CTT CTT CTT CTT C
22136079 ATTTCTTGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 1 0.03
3 33 0.94
4 1 0.03
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:22141527 original size:19 final size:20
Alignment explanation
Indices: 22141503--22141542 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
22141493 CAAAGATAAC
22141503 TGTAATCTCTAC-TTTATAT
1 TGTAATCTCTACGTTTATAT
22141522 TGTAATCTCTACGTTTATAT
1 TGTAATCTCTACGTTTATAT
22141542 T
1 T
22141543 TTGACACTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.53
Consensus pattern (20 bp):
TGTAATCTCTACGTTTATAT
Found at i:22146233 original size:24 final size:24
Alignment explanation
Indices: 22146206--22146264 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
22146196 TTGCTTACTC
* *
22146206 TTTTTCTCCTTTGGAACTTTTGGT
1 TTTTTCTCCTTCGGAACTTTGGGT
*
22146230 TTTTTCTCCTTCGGAGCTTTGGGT
1 TTTTTCTCCTTCGGAACTTTGGGT
*
22146254 TTCTTCTCCTT
1 TTTTTCTCCTT
22146265 GACAGGCTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.05, C:0.22, G:0.17, T:0.56
Consensus pattern (24 bp):
TTTTTCTCCTTCGGAACTTTGGGT
Found at i:22149658 original size:21 final size:20
Alignment explanation
Indices: 22149614--22149658 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
22149604 TTATGAAACT
*
22149614 TTAATTTTATAATAAAAATT
1 TTAATTTTATAATAAAAATA
* *
22149634 TTAATTTTAATATTAAATATA
1 TTAATTTT-ATAATAAAAATA
22149655 TTAA
1 TTAA
22149659 AATTAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAATTTTATAATAAAAATA
Found at i:22149926 original size:20 final size:21
Alignment explanation
Indices: 22149901--22149945 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
22149891 ATTCAGAATT
22149901 AATATATTATAAAAT-T-TATA
1 AATATATTA-AAAATATATATA
22149921 AATATATTAAAAATATATATA
1 AATATATTAAAAATATATATA
22149942 AATA
1 AATA
22149946 ATGATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.22
20 10 0.43
21 8 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATATATTAAAAATATATATA
Found at i:22150136 original size:51 final size:48
Alignment explanation
Indices: 22150056--22150168 Score: 127
Period size: 51 Copynumber: 2.3 Consensus size: 48
22150046 ACGAAAATCG
*
22150056 ATATTACTATTAAATAATGATCGTTATTGAATAACAATAATGAAAAAAATA
1 ATATTACTATT-AATAATGATCGTGATTGAATAACAATAAT--AAAAAATA
* * ** *
22150107 ATATTACTATTAATCATCGATTGTGATTGAATAATGATAATAAAAAATG
1 ATATTACTATTAATAAT-GATCGTGATTGAATAACAATAATAAAAAATA
*
22150156 ATATTACTGTTAA
1 ATATTACTATTAA
22150169 ATAACAATAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 19 0.35
50 5 0.09
51 30 0.56
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (48 bp):
ATATTACTATTAATAATGATCGTGATTGAATAACAATAATAAAAAATA
Found at i:22150184 original size:32 final size:32
Alignment explanation
Indices: 22150143--22150204 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
22150133 TTGAATAATG
* * *
22150143 ATAATAAAAAATGATATTACTGTTAAATAACA
1 ATAACAAAAAATAATATTACTATTAAATAACA
22150175 ATAACAAAAAATAATATTACTATTAAATAA
1 ATAACAAAAAATAATATTACTATTAAATAA
22150205 TGATTACGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (32 bp):
ATAACAAAAAATAATATTACTATTAAATAACA
Found at i:22150216 original size:17 final size:16
Alignment explanation
Indices: 22150183--22150217 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
22150173 CAATAACAAA
*
22150183 AAATAATATTACTATT
1 AAATAATATTACGATT
22150199 AAATAATGATTACGATT
1 AAATAAT-ATTACGATT
22150216 AA
1 AA
22150218 CGAAAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (16 bp):
AAATAATATTACGATT
Found at i:22157143 original size:4 final size:4
Alignment explanation
Indices: 22157098--22157131 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
22157088 ATTGACTATG
*
22157098 TACA TATA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TA
22157132 TATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (4 bp):
TACA
Found at i:22159508 original size:13 final size:13
Alignment explanation
Indices: 22159492--22159516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22159482 TATATATATG
22159492 ATATAAAAATAAA
1 ATATAAAAATAAA
22159505 ATATAAAAATAA
1 ATATAAAAATAA
22159517 TATAATTTAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
ATATAAAAATAAA
Found at i:22160411 original size:14 final size:14
Alignment explanation
Indices: 22160392--22160421 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
22160382 ATTACAATGG
22160392 GGGCAATGGCTGGT
1 GGGCAATGGCTGGT
22160406 GGGCAATGGCTGGT
1 GGGCAATGGCTGGT
22160420 GG
1 GG
22160422 CTATTTCACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.53, T:0.20
Consensus pattern (14 bp):
GGGCAATGGCTGGT
Found at i:22162975 original size:88 final size:87
Alignment explanation
Indices: 22162826--22162998 Score: 274
Period size: 88 Copynumber: 2.0 Consensus size: 87
22162816 CTGTATGTGA
* * * *
22162826 AGGCATGTAGGTTTCAATCCCAATGAGACTGGGCCTACCTGTTGCCTCTCCTGGGGACAACATGG
1 AGGCATGCAGGTTTCAATCCCAATGAGACTGAGCCTAACTGTTGCCTCTCCTAGGGACAACATGG
*
22162891 GTCCATTTTTCTCTGTTTTCATC
66 GTCCA-TTTTCTCTATTTTCATC
* *
22162914 AGGCATGCAGGTTTCAATCCCAGTGAGACTTAGCCTAACTGTTGCCTCTCCTAGGGACAACATGG
1 AGGCATGCAGGTTTCAATCCCAATGAGACTGAGCCTAACTGTTGCCTCTCCTAGGGACAACATGG
22162979 GTCCATTTTCTCTATTTTCA
66 GTCCATTTTCTCTATTTTCA
22162999 CCATTTGTAT
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 14 0.18
88 64 0.82
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.32
Consensus pattern (87 bp):
AGGCATGCAGGTTTCAATCCCAATGAGACTGAGCCTAACTGTTGCCTCTCCTAGGGACAACATGG
GTCCATTTTCTCTATTTTCATC
Found at i:22163586 original size:3 final size:3
Alignment explanation
Indices: 22163535--22163569 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
22163525 TTTAAATCTT
*
22163535 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22163570 TATTTCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:22170884 original size:2 final size:2
Alignment explanation
Indices: 22170875--22170905 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
22170865 GGTTATTTTT
22170875 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22170906 GTGCTTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:22174687 original size:1 final size:1
Alignment explanation
Indices: 22174681--22174710 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
22174671 ACAGGTCTAG
22174681 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22174711 AAATTGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:22175731 original size:48 final size:48
Alignment explanation
Indices: 22175674--22175775 Score: 179
Period size: 48 Copynumber: 2.1 Consensus size: 48
22175664 AAAGCAGAGT
*
22175674 AAGC-ATAGGAAACTTAGCTACAAGGAAGCACCTTATTGATGGTTGAA
1 AAGCAATAGGAAACTTAGCTACAAGGAAGCACCTTATGGATGGTTGAA
*
22175721 AAGCAATAGGAAACTTAGCTACAAGGAAGCACCTTATGGGTGGTTGAA
1 AAGCAATAGGAAACTTAGCTACAAGGAAGCACCTTATGGATGGTTGAA
22175769 AAGCAAT
1 AAGCAAT
22175776 GAGTGCAATG
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
47 4 0.08
48 48 0.92
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (48 bp):
AAGCAATAGGAAACTTAGCTACAAGGAAGCACCTTATGGATGGTTGAA
Found at i:22177823 original size:51 final size:51
Alignment explanation
Indices: 22177748--22177869 Score: 126
Period size: 51 Copynumber: 2.4 Consensus size: 51
22177738 AAGTTTATAT
* *
22177748 ATTTATATTATATT-TTACACTAAA-TATAAAA-TATATTTTTTAATTTTATTAA
1 ATTTATATTATATTATT--ATTAAATTATAAAATTATATTATTT-ATTTT-TTAA
* *
22177800 ATTTATA-TATAATTATTATTAAATTTTAAAATTATATTATTTATTTTTTAT
1 ATTTATATTAT-ATTATTATTAAATTATAAAATTATATTATTTATTTTTTAA
*
22177851 ATTTTTATTATATTATTAT
1 ATTTATATTATATTATTAT
22177870 ATTATATTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
51 25 0.42
52 24 0.40
53 11 0.18
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (51 bp):
ATTTATATTATATTATTATTAAATTATAAAATTATATTATTTATTTTTTAA
Found at i:22177858 original size:24 final size:24
Alignment explanation
Indices: 22177834--22177879 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
22177824 TTTAAAATTA
*
22177834 TATTAT-TTATT-TTTTATATTTT
1 TATTATATTATTATATTATATTTT
22177856 TATTATATTATTATATTATATTTT
1 TATTATATTATTATATTATATTTT
22177880 AAATTATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 5 0.24
24 10 0.48
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (24 bp):
TATTATATTATTATATTATATTTT
Found at i:22181469 original size:20 final size:18
Alignment explanation
Indices: 22181434--22181473 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22181424 TAAATTAAAA
22181434 TAAATATAAAAAATGTGT
1 TAAATATAAAAAATGTGT
** *
22181452 TAAATATATTAAATATGT
1 TAAATATAAAAAATGTGT
22181470 TAAA
1 TAAA
22181474 CATGTAGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (18 bp):
TAAATATAAAAAATGTGT
Found at i:22185019 original size:51 final size:52
Alignment explanation
Indices: 22184938--22185073 Score: 177
Period size: 52 Copynumber: 2.6 Consensus size: 52
22184928 AAACTTGCCC
* *
22184938 ATTAAGAATCCACTCTCCTCTTAGAATTCTTCTCCTGTAAGTCAAACTTAC-T
1 ATTAAGAATCC-CTTTCCTCTTAGAATTCTTCTCCTGCAAGTCAAACTTACTT
* * *
22184990 ATTAAGAATCCCTTTCCTTTTAGAATTCTTTTCTTGCAAGTCAAACTTACTT
1 ATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGTCAAACTTACTT
* *
22185042 ATTAAGAATCATCTTT-CTCTTAGAATTTTTCT
1 ATTAAGAATC-CCTTTCCTCTTAGAATTCTTCT
22185074 TTTACAAGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
51 34 0.47
52 35 0.48
53 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (52 bp):
ATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGTCAAACTTACTT
Found at i:22185126 original size:11 final size:11
Alignment explanation
Indices: 22185110--22185149 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
22185100 AATATCTGAT
22185110 AAATCTCAAAC
1 AAATCTCAAAC
*
22185121 AAATCTCTAAC
1 AAATCTCAAAC
22185132 AAATCTCAAAC
1 AAATCTCAAAC
22185143 AAATCTC
1 AAATCTC
22185150 TTATGAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATCTCAAAC
Found at i:22191124 original size:7 final size:7
Alignment explanation
Indices: 22191112--22191142 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
22191102 CCTAAGCCAG
22191112 GTGAAAC
1 GTGAAAC
22191119 GTGAAAC
1 GTGAAAC
22191126 GTGAAAC
1 GTGAAAC
22191133 GTGAAAC
1 GTGAAAC
22191140 GTG
1 GTG
22191143 GAGCTCCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.32, T:0.16
Consensus pattern (7 bp):
GTGAAAC
Found at i:22192649 original size:2 final size:2
Alignment explanation
Indices: 22192642--22192690 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
22192632 AGGCTTCTAC
22192642 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
22192684 CA CA CA C
1 CA CA CA C
22192691 GAGACAACAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:22195366 original size:40 final size:40
Alignment explanation
Indices: 22195322--22195401 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
22195312 GCTTGAAGCA
22195322 TAACCATTTTCCCCTATCAAACCTAATTTAGAAGGGAGAT
1 TAACCATTTTCCCCTATCAAACCTAATTTAGAAGGGAGAT
* *
22195362 TAACCATTTTCCCCTTTCAAGCCTAATTTAGAAGGGAGAT
1 TAACCATTTTCCCCTATCAAACCTAATTTAGAAGGGAGAT
22195402 CCAGACAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.31
Consensus pattern (40 bp):
TAACCATTTTCCCCTATCAAACCTAATTTAGAAGGGAGAT
Found at i:22206619 original size:20 final size:22
Alignment explanation
Indices: 22206596--22206638 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
22206586 CATACTTGAC
22206596 TTTAAATTT-AATT-ATTTATA
1 TTTAAATTTAAATTCATTTATA
22206616 TTTAAATTTAAATTCATTTATA
1 TTTAAATTTAAATTCATTTATA
22206638 T
1 T
22206639 ATACATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTAAATTTAAATTCATTTATA
Found at i:22207250 original size:8 final size:8
Alignment explanation
Indices: 22207237--22207272 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
22207227 TGAGGAAACG
22207237 AAAAAGAA
1 AAAAAGAA
22207245 AAAAAGAA
1 AAAAAGAA
*
22207253 AAAAAGAG
1 AAAAAGAA
22207261 AAAAAGAA
1 AAAAAGAA
22207269 AAAA
1 AAAA
22207273 CAAAGAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:22207265 original size:19 final size:20
Alignment explanation
Indices: 22207240--22207283 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
22207230 GGAAACGAAA
*
22207240 AAGAAAAA-AAGAAAAAAAG
1 AAGAAAAAGAAAAAAAAAAG
*
22207259 -AGAAAAAGAAAAAACAAAG
1 AAGAAAAAGAAAAAAAAAAG
22207278 AAGAAA
1 AAGAAA
22207284 GAGAGGAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 7 0.33
19 9 0.43
20 5 0.24
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (20 bp):
AAGAAAAAGAAAAAAAAAAG
Found at i:22212817 original size:22 final size:22
Alignment explanation
Indices: 22212792--22212835 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
22212782 ATTTTTTGTC
*
22212792 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
*
22212814 CTTAATTCTAGAGATATAAATA
1 CTTAATTCTAGAGATACAAATA
22212836 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:22216628 original size:25 final size:25
Alignment explanation
Indices: 22216600--22216651 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
22216590 TAAAGGTCTT
* *
22216600 AACATGGTTCAACAATGAAGGCCTA
1 AACAAGGTTCAACAATGAAAGCCTA
**
22216625 AACAAGGTTCGGCAATGAAAGCCTA
1 AACAAGGTTCAACAATGAAAGCCTA
22216650 AA
1 AA
22216652 ATAGAAGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.17
Consensus pattern (25 bp):
AACAAGGTTCAACAATGAAAGCCTA
Found at i:22216674 original size:26 final size:27
Alignment explanation
Indices: 22216612--22216695 Score: 97
Period size: 26 Copynumber: 3.3 Consensus size: 27
22216602 CATGGTTCAA
22216612 CAATGAAGGCCTAAACA-AG--GTTCGG
1 CAATGAAGGCCTAAA-ATAGAAGTTCGG
*
22216637 CAATGAAAGCCTAAAATAGAAGTT-GG
1 CAATGAAGGCCTAAAATAGAAGTTCGG
* *
22216663 TAATGAAGGCCTAAAATAGAAG-TCAG
1 CAATGAAGGCCTAAAATAGAAGTTCGG
22216689 CAATGAA
1 CAATGAA
22216696 AGCTGAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.02
25 17 0.34
26 29 0.58
27 3 0.06
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (27 bp):
CAATGAAGGCCTAAAATAGAAGTTCGG
Found at i:22216975 original size:22 final size:22
Alignment explanation
Indices: 22216934--22216977 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22216924 ATTTTTTGTC
*
22216934 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
* *
22216956 CTTAATTCTAGAGCTGCAAATA
1 CTTAATTCTAGAGATACAAATA
22216978 TAAATATACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:22230315 original size:22 final size:22
Alignment explanation
Indices: 22230290--22230333 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22230280 ATTTTTTGTC
*
22230290 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22230312 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22230334 TAGATATGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:22232392 original size:63 final size:63
Alignment explanation
Indices: 22232290--22232419 Score: 188
Period size: 63 Copynumber: 2.1 Consensus size: 63
22232280 ATTCAGATTC
* * * *
22232290 AAATTCAGTGTTTGACTTGGGCTCAGTAGAAACAGGTTTCGACTTAGAAGAATCAACGGGTGA
1 AAATTCAGCGTTTGACTTGGGCTCAGCAGAAACAAGTTTCGACTCAGAAGAATCAACGGGTGA
* * * *
22232353 AAATTTAGCGTTTGACTTGGGCTGAGCAGAAACAAGTTTCGACTCAGAAGAATTAATGGGTGA
1 AAATTCAGCGTTTGACTTGGGCTCAGCAGAAACAAGTTTCGACTCAGAAGAATCAACGGGTGA
22232416 AAAT
1 AAAT
22232420 GTTGAAGAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (63 bp):
AAATTCAGCGTTTGACTTGGGCTCAGCAGAAACAAGTTTCGACTCAGAAGAATCAACGGGTGA
Found at i:22234431 original size:22 final size:22
Alignment explanation
Indices: 22234406--22234447 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
22234396 TTTTTTGTCC
*
22234406 TTAATTCTAGGGATACAAATAT
1 TTAATTCTAGAGATACAAATAT
22234428 TTAATTCTAGAGATACAAAT
1 TTAATTCTAGAGATACAAAT
22234448 CTAAATATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATAT
Found at i:22234709 original size:84 final size:84
Alignment explanation
Indices: 22234566--22234730 Score: 285
Period size: 84 Copynumber: 2.0 Consensus size: 84
22234556 TGAAAGTATC
* **
22234566 TTACTGATTTTTTCTGTTGAATATGTGCAGGGGGCCTTTGTTAAGATTAGAGAGGAGGCAAAGGC
1 TTACTGATTTTTTCTGTTGAATATGTGCAGGAGGCCTTTGTTAAGATTAGAGAACAGGCAAAGGC
22234631 ATATCTTGAGATGAAGGGA
66 ATATCTTGAGATGAAGGGA
*
22234650 TTACTGATTTTTTCTTTTGAATATGTGCAGGAGGCCTTTGTTAAGATTAGAGAACAGGCAAAGGC
1 TTACTGATTTTTTCTGTTGAATATGTGCAGGAGGCCTTTGTTAAGATTAGAGAACAGGCAAAGGC
*
22234715 ATATCTTGATATGAAG
66 ATATCTTGAGATGAAG
22234731 TGTGAACTTA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 76 1.00
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.34
Consensus pattern (84 bp):
TTACTGATTTTTTCTGTTGAATATGTGCAGGAGGCCTTTGTTAAGATTAGAGAACAGGCAAAGGC
ATATCTTGAGATGAAGGGA
Found at i:22247331 original size:19 final size:18
Alignment explanation
Indices: 22247286--22247332 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
22247276 TTAAATTTGA
*
22247286 TAAT-TTAAAATATGATG
1 TAATATTAAAATATAATG
* *
22247303 CAATAATAAAATATAAATG
1 TAATATTAAAATAT-AATG
22247322 TAATATTAAAA
1 TAATATTAAAA
22247333 ATTACATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 3 0.13
18 8 0.35
19 12 0.52
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.34
Consensus pattern (18 bp):
TAATATTAAAATATAATG
Found at i:22247419 original size:18 final size:18
Alignment explanation
Indices: 22247388--22247470 Score: 62
Period size: 18 Copynumber: 4.4 Consensus size: 18
22247378 AAATCAAAAA
22247388 ATAT-ATTTTT-TATAAT
1 ATATAATTTTTATATAAT
*
22247404 ATATAATTTTTATATAAA
1 ATATAATTTTTATATAAT
22247422 ATATAATATATATTATATATGCAT
1 ATATAAT-T-T-TTATATA---AT
* **
22247446 ATATAATTTTAATATTCT
1 ATATAATTTTTATATAAT
22247464 ATATAAT
1 ATATAAT
22247471 ACAAATACAC
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
16 4 0.07
17 6 0.11
18 20 0.37
19 1 0.02
20 1 0.02
21 12 0.22
22 1 0.02
23 1 0.02
24 8 0.15
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (18 bp):
ATATAATTTTTATATAAT
Found at i:22248589 original size:20 final size:20
Alignment explanation
Indices: 22248564--22248611 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
22248554 TGTTTTTATA
22248564 ACTTTCATAATGAAATTGTT
1 ACTTTCATAATGAAATTGTT
22248584 ACTTTCATAATGAAATTGTT
1 ACTTTCATAATGAAATTGTT
*
22248604 AATTTCAT
1 ACTTTCAT
22248612 GGTTAGATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (20 bp):
ACTTTCATAATGAAATTGTT
Found at i:22252154 original size:32 final size:32
Alignment explanation
Indices: 22252090--22252165 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
22252080 GATATGATGT
* * *
22252090 TTTATGTATTTATATCGTATAAAATATTAAAA
1 TTTATATAATTATATCGTATAAAATATAAAAA
***
22252122 TTTATATAATTATATCGTATTTTATATAAAAA
1 TTTATATAATTATATCGTATAAAATATAAAAA
22252154 -TTATAT-ATTATA
1 TTTATATAATTATA
22252166 ATTCGTATCG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 6 0.16
31 6 0.16
32 26 0.68
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (32 bp):
TTTATATAATTATATCGTATAAAATATAAAAA
Found at i:22252947 original size:3 final size:3
Alignment explanation
Indices: 22252934--22252963 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
22252924 TTTAATACCC
22252934 TCT TC- TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
22252964 TGTTATCGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:22269643 original size:2 final size:2
Alignment explanation
Indices: 22269636--22269662 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22269626 TTTTAAGAAC
22269636 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
22269663 AGCTTGACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22271049 original size:22 final size:23
Alignment explanation
Indices: 22271007--22271054 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
22270997 AAGTTTTTTT
*
22271007 TTTTTATATATTATTTTAATATGA
1 TTTTTATATATTATTTAAATA-GA
22271031 TTTTTA-ATA-TATTTAAATAGA
1 TTTTTATATATTATTTAAATAGA
22271052 TTT
1 TTT
22271055 AGTTATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 9 0.39
23 3 0.13
24 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTTTATATATTATTTAAATAGA
Found at i:22277073 original size:2 final size:2
Alignment explanation
Indices: 22277066--22277090 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22277056 CTATCATATT
22277066 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
22277091 ATGTATGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:22296185 original size:19 final size:19
Alignment explanation
Indices: 22296161--22296197 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
22296151 AGGAACCATG
22296161 CGTAGATACCTAAAGTTTC
1 CGTAGATACCTAAAGTTTC
22296180 CGTAGATACCTAAAGTTT
1 CGTAGATACCTAAAGTTT
22296198 GTGCAGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (19 bp):
CGTAGATACCTAAAGTTTC
Found at i:22296385 original size:26 final size:26
Alignment explanation
Indices: 22296356--22296416 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
22296346 CATTGTCATC
*
22296356 AATTTCCTCCAGAAACTTATCCAATG
1 AATTACCTCCAGAAACTTATCCAATG
22296382 AATTACCTCCAGAAACTTATCCAATG
1 AATTACCTCCAGAAACTTATCCAATG
*
22296408 AATTCCCTC
1 AATTACCTC
22296417 GTTTAAAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.30, G:0.07, T:0.30
Consensus pattern (26 bp):
AATTACCTCCAGAAACTTATCCAATG
Found at i:22297588 original size:68 final size:67
Alignment explanation
Indices: 22297479--22297614 Score: 209
Period size: 68 Copynumber: 2.0 Consensus size: 67
22297469 TAGCGGATTT
* * * **
22297479 AAAGCCCAGATCAATCAGGGCCACCGTTAAAAACTTTGCTCGTCAAGTAACTAAGCTGTCAAAGT
1 AAAGCCCAAATCAATCAGGGCCACCATTAAAAACTTAGCTCGTCAACCAACTAAGCTGTCAAAGT
22297544 CA
66 CA
*
22297546 AAAGCCCAAAATCAATCAGGGCCACCATTAAAAACTTAGCTCGTCAACCAACTAAGCTGTTAAAG
1 AAAGCCC-AAATCAATCAGGGCCACCATTAAAAACTTAGCTCGTCAACCAACTAAGCTGTCAAAG
22297611 TCA
65 TCA
22297614 A
1 A
22297615 GTTCTCCATC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
67 7 0.11
68 55 0.89
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.20
Consensus pattern (67 bp):
AAAGCCCAAATCAATCAGGGCCACCATTAAAAACTTAGCTCGTCAACCAACTAAGCTGTCAAAGT
CA
Found at i:22300003 original size:152 final size:151
Alignment explanation
Indices: 22299723--22300175 Score: 732
Period size: 152 Copynumber: 3.0 Consensus size: 151
22299713 GATGATAAAG
* *
22299723 ATAGAGGCAATTTAGTCTACAGTAAGTTGATTTTCTGTATGATTTTCATTCAAAATAGTTGAATT
1 ATAGAGGCAATTTAGTCTACAGTAAGTTGATTTTCTCTATGATTTTCATTCAAAATAATTGAATT
* * *
22299788 TGAATAAAGTTTTAGAGAATTTTAGAAAATTGTATACTAGTAGATTAAATGAGGTATTATTTGTT
66 TGAATAAAGTTTTAGAGAATTTTAGAAAATTGTTTAATAGTAGATTAAATGAGGTATTCTTTGTT
*
22299853 TGAAGTGACGGTGAACCCTAA
131 TGAAGTGATGGTGAACCCTAA
22299874 ATAGAGGCAATTTAGTCTACAGTAAGTTGATTTTCTCTATGATTTTTCATTCAAAATAATTGAAT
1 ATAGAGGCAATTTAGTCTACAGTAAGTTGATTTTCTCTATGA-TTTTCATTCAAAATAATTGAAT
* * * *
22299939 TTGAATAAAGTTCTAGAGAATTTTAGAAAATTGTTTAATATTAGATTAAACGATGTATTCTTTGT
65 TTGAATAAAGTTTTAGAGAATTTTAGAAAATTGTTTAATAGTAGATTAAATGAGGTATTCTTTGT
22300004 TTGAAGTGATGGTGAACCCTAA
130 TTGAAGTGATGGTGAACCCTAA
* * * *
22300026 AT--AGGCAATTTAGTCTAAAGCAACTTGATTTTCTCTATGACTTTTCATTCAAAATAATTGCAT
1 ATAGAGGCAATTTAGTCTACAGTAAGTTGATTTTCTCTATGA-TTTTCATTCAAAATAATTGAAT
*
22300089 TTGAATAAAGTTTTAGAGAA-ATTAGAAAATTGTTTAATAGTAGATTAAATGAGGTATTCTTTGT
65 TTGAATAAAGTTTTAGAGAATTTTAGAAAATTGTTTAATAGTAGATTAAATGAGGTATTCTTTGT
22300153 TTGAAGTGATGGTGAACCCTAA
130 TTGAAGTGATGGTGAACCCTAA
22300175 A
1 A
22300176 GGAATCAAAG
Statistics
Matches: 281, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
149 63 0.22
150 75 0.27
151 41 0.15
152 102 0.36
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.39
Consensus pattern (151 bp):
ATAGAGGCAATTTAGTCTACAGTAAGTTGATTTTCTCTATGATTTTCATTCAAAATAATTGAATT
TGAATAAAGTTTTAGAGAATTTTAGAAAATTGTTTAATAGTAGATTAAATGAGGTATTCTTTGTT
TGAAGTGATGGTGAACCCTAA
Found at i:22310997 original size:23 final size:24
Alignment explanation
Indices: 22310953--22310997 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
22310943 AATATATGTA
**
22310953 AATTTTAATTTTTATATTTTATTT
1 AATTTTAATTTTTATAAATTATTT
*
22310977 AATTTTTA-TTTTATAAATTAT
1 AATTTTAATTTTTATAAATTAT
22310998 GTTTAATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
AATTTTAATTTTTATAAATTATTT
Found at i:22311329 original size:7 final size:7
Alignment explanation
Indices: 22311317--22311344 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
22311307 TCGTTTTTAA
22311317 AATCAGT
1 AATCAGT
22311324 AATCAGT
1 AATCAGT
22311331 AATCAGT
1 AATCAGT
22311338 AATCAGT
1 AATCAGT
22311345 CTACTCCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (7 bp):
AATCAGT
Found at i:22324809 original size:2 final size:2
Alignment explanation
Indices: 22324792--22324826 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
22324782 GTAGCATGAC
*
22324792 TA TA -A TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22324827 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:22324831 original size:2 final size:2
Alignment explanation
Indices: 22324826--22324858 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22324816 ATATATATAT
22324826 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
22324859 CTATAGCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22350988 original size:28 final size:31
Alignment explanation
Indices: 22350925--22350988 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 31
22350915 TATTTTAATT
22350925 TAAACTCAAATTTAAAATTTAAAATTCAATCA
1 TAAA-TCAAATTTAAAATTTAAAATTCAATCA
* *
22350957 -AAATCAAA-TT-AAATTTTAAATTGAAT-A
1 TAAATCAAATTTAAAATTTAAAATTCAATCA
22350984 TAAAT
1 TAAAT
22350989 TTAAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 1 0.03
28 18 0.62
29 2 0.07
30 5 0.17
31 3 0.10
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.36
Consensus pattern (31 bp):
TAAATCAAATTTAAAATTTAAAATTCAATCA
Found at i:22351224 original size:2 final size:2
Alignment explanation
Indices: 22351217--22351242 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22351207 CGATAAGGAA
22351217 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22351243 GTACACGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22355244 original size:3 final size:3
Alignment explanation
Indices: 22355236--22355265 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
22355226 TTGTTTGTAG
22355236 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22355266 CGATTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:22363361 original size:1 final size:1
Alignment explanation
Indices: 22363291--22363348 Score: 116
Period size: 1 Copynumber: 58.0 Consensus size: 1
22363281 TGAAAGTTTA
22363291 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22363349 GAGTTTTTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:22366022 original size:38 final size:38
Alignment explanation
Indices: 22365978--22366056 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
22365968 AGCAAAACTG
*
22365978 CAATAAAAGAACACAAGCAGTGAACCAAACTTCAGTAA
1 CAATAAAAGAACACAAGCAATGAACCAAACTTCAGTAA
22366016 CAATAAAAGAACACAAGCAATGAACCAAACTTCAGTAA
1 CAATAAAAGAACACAAGCAATGAACCAAACTTCAGTAA
22366054 CAA
1 CAA
22366057 CAAATCCAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.54, C:0.22, G:0.11, T:0.13
Consensus pattern (38 bp):
CAATAAAAGAACACAAGCAATGAACCAAACTTCAGTAA
Found at i:22366400 original size:28 final size:28
Alignment explanation
Indices: 22366369--22366425 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
22366359 AAGCTTTAAG
22366369 ATAACTTCCACAATCTTTATAACTCAGA
1 ATAACTTCCACAATCTTTATAACTCAGA
* *
22366397 ATAACTTCCATAATCTTTCTAACTCAGA
1 ATAACTTCCACAATCTTTATAACTCAGA
22366425 A
1 A
22366426 ATGAATCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.33
Consensus pattern (28 bp):
ATAACTTCCACAATCTTTATAACTCAGA
Found at i:22372981 original size:18 final size:19
Alignment explanation
Indices: 22372955--22372993 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
22372945 TTATTATAAA
* *
22372955 AAATATAATATATATATAT
1 AAATATAATAAAAATATAT
22372974 AAAT-TAATAAAAATATAT
1 AAATATAATAAAAATATAT
22372992 AA
1 AA
22372994 TCTAATTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATATAATAAAAATATAT
Found at i:22374699 original size:16 final size:19
Alignment explanation
Indices: 22374678--22374718 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
22374668 CGAGATTTAT
22374678 ATTTAAA-TTTAA-AA-TA
1 ATTTAAATTTTAATAATTA
22374694 ATTTAAATTTTAATAATTA
1 ATTTAAATTTTAATAATTA
22374713 ATTTAA
1 ATTTAA
22374719 TTAATTCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 5 0.23
18 2 0.09
19 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTAAATTTTAATAATTA
Found at i:22374776 original size:28 final size:31
Alignment explanation
Indices: 22374744--22374805 Score: 85
Period size: 28 Copynumber: 2.1 Consensus size: 31
22374734 AATTAAAATT
*
22374744 TTAAAATTTAATA-TTATTTAT-TAT-TTAA
1 TTAAAAATTAATATTTATTTATATATATTAA
22374772 TTAAAAATTAATATTTTATTTATATATATTAA
1 TTAAAAATTAATA-TTTATTTATATATATTAA
22374804 TT
1 TT
22374806 TGAATTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 12 0.41
30 8 0.28
31 3 0.10
32 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
TTAAAAATTAATATTTATTTATATATATTAA
Found at i:22374878 original size:14 final size:14
Alignment explanation
Indices: 22374861--22374890 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22374851 AAATTTTTTA
22374861 AATTAAATAAATTT
1 AATTAAATAAATTT
*
22374875 AATTGAATAAATTT
1 AATTAAATAAATTT
22374889 AA
1 AA
22374891 ATAATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (14 bp):
AATTAAATAAATTT
Found at i:22374878 original size:23 final size:23
Alignment explanation
Indices: 22374852--22374904 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
22374842 TTAAATCAAA
22374852 AATTTTTTAAA-TTAAATAAATTT
1 AATTTTTTAAATTTAAAT-AATTT
***
22374875 AATTGAATAAATTTAAATAATTT
1 AATTTTTTAAATTTAAATAATTT
*
22374898 TATTTTT
1 AATTTTT
22374905 ATCTCAAATT
Statistics
Matches: 22, Mismatches: 7, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
AATTTTTTAAATTTAAATAATTT
Found at i:22379920 original size:141 final size:141
Alignment explanation
Indices: 22379666--22379950 Score: 570
Period size: 141 Copynumber: 2.0 Consensus size: 141
22379656 GGCACATGTG
22379666 TAAGTATTTCTGAATTATATTTTAATTTCTAGTTAGGTATATTTTGATTACTTAATAACTTCATT
1 TAAGTATTTCTGAATTATATTTTAATTTCTAGTTAGGTATATTTTGATTACTTAATAACTTCATT
22379731 TTAGTTTGGGTAATTGATCTTCATTTTTGTTGATTCCTTTATTTTCATTTGTGCAAGAATTTGAT
66 TTAGTTTGGGTAATTGATCTTCATTTTTGTTGATTCCTTTATTTTCATTTGTGCAAGAATTTGAT
22379796 GTTTCGATTTC
131 GTTTCGATTTC
22379807 TAAGTATTTCTGAATTATATTTTAATTTCTAGTTAGGTATATTTTGATTACTTAATAACTTCATT
1 TAAGTATTTCTGAATTATATTTTAATTTCTAGTTAGGTATATTTTGATTACTTAATAACTTCATT
22379872 TTAGTTTGGGTAATTGATCTTCATTTTTGTTGATTCCTTTATTTTCATTTGTGCAAGAATTTGAT
66 TTAGTTTGGGTAATTGATCTTCATTTTTGTTGATTCCTTTATTTTCATTTGTGCAAGAATTTGAT
22379937 GTTTCGATTTC
131 GTTTCGATTTC
22379948 TAA
1 TAA
22379951 CTTACCCTTG
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 144 1.00
ACGTcount: A:0.25, C:0.09, G:0.13, T:0.53
Consensus pattern (141 bp):
TAAGTATTTCTGAATTATATTTTAATTTCTAGTTAGGTATATTTTGATTACTTAATAACTTCATT
TTAGTTTGGGTAATTGATCTTCATTTTTGTTGATTCCTTTATTTTCATTTGTGCAAGAATTTGAT
GTTTCGATTTC
Found at i:22382129 original size:2 final size:2
Alignment explanation
Indices: 22382122--22382163 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
22382112 CATTCTGGTA
22382122 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC -C TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
22382163 T
1 T
22382164 TTTTCTCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:22382733 original size:2 final size:2
Alignment explanation
Indices: 22382726--22382752 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22382716 GATAGTGCAA
22382726 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
22382753 GTAGAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22386040 original size:23 final size:23
Alignment explanation
Indices: 22385997--22386040 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
22385987 TCTCCCCCAT
* *
22385997 GGATATGGACTTGATGTCGTTCC
1 GGATATGGACTTCATGACGTTCC
22386020 GGAT-TGGACTTTCATGACGTT
1 GGATATGGAC-TTCATGACGTT
22386041 TGGCTCAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.18, C:0.16, G:0.30, T:0.36
Consensus pattern (23 bp):
GGATATGGACTTCATGACGTTCC
Found at i:22396338 original size:539 final size:540
Alignment explanation
Indices: 22395312--22396946 Score: 2552
Period size: 539 Copynumber: 3.0 Consensus size: 540
22395302 TTCTCGAATT
* * *
22395312 CAAACTTTTCAAAGAAAAATTTGGCTGGAAGCATGAATTCTTCACAATCTTTAGCAAGTAAATGA
1 CAAACTTTTCAAAGAAAAATTTGGCTGGAAGTATGAATTCTTCACAATCTTTAACAAGTAAAGGA
* *
22395377 TCAAATGTTGAAAAAGTATGTTATTGTGGTGTGTGTTGTCAGTTGATCTTCTCTATCTTTTTCTC
66 TCAAATGTTGAAAAAGTATGATATTGTGGTGTGTGTTGTCAGTTGATCTTCTCTGTC---TT-T-
* *
22395442 TTTTTTTCTATTTTAAAAACCAAAAAATTTAAATTGAAACCCACAGACAAAAAAACCATTGAGTT
126 TTTTTTTCTATTTTAAAAACCAAAAAATTTAAATT-AAACCCACAAACAAAAAAACCCTTGAGTT
*
22395507 GTTGTAATTGTTATGTGGATTTATGGTTATTTTATTAGTTTATTGGGTGTGAGTGATTCAGGGTG
190 GTTGTAATTGTTATGTGGATTTATGGTTATTTTA-TAGTTTATTGGGTGTGAGTAATTCAGGGTG
*
22395572 AATTCAAATTCTGTGAGTTTTTCTTATGGTTGCTGGGTTTGTTTTTGAGTTTCTTCT-GAGCTAT
254 AATTCAAATTCTGTGAGTTTTTCTTATGGTTGCTGGGTTTGTTTCTGAGTTTCTTCTAG-GCTAT
* * *
22395636 TTGCTCATTTGATGGTTATCCTTGAAAATTGGTATGGCTATTAAATGAAAATTGATTGTTTGTGT
318 TTGCTCATTTGATGGTTATCCTTGAAAATTGGTATGGCTACTAAATGAAAATTGGTTGTTTGTTT
* * * *
22395701 GATATTTGATACAATTCTTAACAGTAAAAATTTCATTTCCAAAAAACCACAAAACCTAGAATTTG
383 GATACTTGATACAATTCCTAACAGTAAAAATTTCATTTTCAAAAAGCCACAAAACCTAGAATTTG
*
22395766 CTTACAAATAGATAAGCAAAAAAATTAAAAATCTCAACAAAGAACAATCAACACAGCCAAAGCAT
448 CTTACAAATAGATAAGCAAAAAAATTGAAAATCTCAACAAAGAACAATCAACACAGCCAAAGCAT
* *
22395831 ATAGGAACATCCAAGAACAAAATCAAAA
513 ACAAGAACATCCAAGAACAAAATCAAAA
* * *
22395859 CAAACTTTTCAAAGAAAATTTTGGCTAGAAGTATGAATTCATCACAATCTTTAACAAGTAAAGGA
1 CAAACTTTTCAAAGAAAAATTTGGCTGGAAGTATGAATTCTTCACAATCTTTAACAAGTAAAGGA
* * * *
22395924 CCAAATATTGAAAAAGTATGCTATTGTGGTGTGTGTTGTCAGTTGATATTCTCTGTC-TTTTTTT
66 TCAAATGTTGAAAAAGTATGATATTGTGGTGTGTGTTGTCAGTTGATCTTCTCTGTCTTTTTTTT
22395988 TT-TATTTTAAAAACCAAAAAATTTAAATTAAACCCACAAACAAAAAAACCCTTGAGTTGTTGTA
131 TTCTATTTTAAAAACCAAAAAATTTAAATTAAACCCACAAACAAAAAAACCCTTGAGTTGTTGTA
*
22396052 ATTGTTATGTGAATTTATGGTTATTTTATAGCTTTATTGGGTGTGAGTAATTCAGGGTGAATTCA
196 ATTGTTATGTGGATTTATGGTTATTTTATAG-TTTATTGGGTGTGAGTAATTCAGGGTGAATTCA
*
22396117 AATTCTGTGAGTTTTTCTTATGGTTGCTGGGTTTGTTTCTGAGTTTCTTCTAGGTTATTTGCTCA
260 AATTCTGTGAGTTTTTCTTATGGTTGCTGGGTTTGTTTCTGAGTTTCTTCTAGGCTATTTGCTCA
* * *
22396182 TTTGATGGTTATCCTTGAAAATTGGTATGGCTACTAAATGAAAAATGGTTGTTCGTTTAATACTT
325 TTTGATGGTTATCCTTGAAAATTGGTATGGCTACTAAATGAAAATTGGTTGTTTGTTTGATACTT
* *
22396247 GATACAATTCCTAATAGCAAAAATTTCATTTTCAAAAAGCCACAAAACCTAGAATTTGCTTACAA
390 GATACAATTCCTAACAGTAAAAATTTCATTTTCAAAAAGCCACAAAACCTAGAATTTGCTTACAA
22396312 ATAGATAAGCAAAAAAATTGAAAATCTCAAC-AAGAACAATCAACACAGCCAAAGCATACAAGAA
455 ATAGATAAGCAAAAAAATTGAAAATCTCAACAAAGAACAATCAACACAGCCAAAGCATACAAGAA
22396376 CATCCAAGAACAAAATCAAAA
520 CATCCAAGAACAAAATCAAAA
*
22396397 CAAACTTTTCAAAGAAAAATTTGGCTGGAAGTATGAATTCTTCACAATATTTAAC-----AAGGA
1 CAAACTTTTCAAAGAAAAATTTGGCTGGAAGTATGAATTCTTCACAATCTTTAACAAGTAAAGGA
22396457 TCAAATGTTGAAAAAGTATGATATTGTGGTGTGTGTTG-CTAGTTGATCTTCTCTGTCTTTTTTT
66 TCAAATGTTGAAAAAGTATGATATTGTGGTGTGTGTTGTC-AGTTGATCTTCTCTGTCTTTTTTT
22396521 TTTCTATTTTAAAAACCAAAAAATTTTCAAAAAATTTAAACTAAAACCTACAAACAAAAAAAACC
130 TTTCTATTTTAAAAACCAAAAAA-TTT----AAA-TTAAAC-----CC-ACAAAC-AAAAAAACC
*
22396586 CTTGAGTTGTTGTAATTGTTACGTGGATTTATGGTTATTTTATGAGTTTATTGGGTGTGAGTAAT
182 CTTGAGTTGTTGTAATTGTTATGTGGATTTATGGTTATTTTAT-AGTTTATTGGGTGTGAGTAAT
* * *
22396651 TCAGGGTGAATTCAAATTCTGTGAGTTTTTCTTATGATTGTTGGGTTTGTTTCTGAGTTTCTTTT
246 TCAGGGTGAATTCAAATTCTGTGAGTTTTTCTTATGGTTGCTGGGTTTGTTTCTGAGTTTCTTCT
22396716 AGGCTATTTGCTCATTTGATGGTTATCCTTGAAAATTGGTATGGCTACTAAATGAAAATTGGTTT
311 AGGCTATTTGCTCATTTGATGGTTATCCTTGAAAATTGGTATGGCTACTAAATGAAAATTGG-TT
* * *
22396781 GTTTGTTTGATACTTGATACAATTCCTAACAGTAAAAATTTCATTTTCAAAAAGGCATAAAACCA
375 GTTTGTTTGATACTTGATACAATTCCTAACAGTAAAAATTTCATTTTCAAAAAGCCACAAAACCT
* * *
22396846 AGAATTTGTTTACAAATAGATAAGCAAAAAAATTGAAAATTTCAACAAAGAACAATCAACATAGC
440 AGAATTTGCTTACAAATAGATAAGCAAAAAAATTGAAAATCTCAACAAAGAACAATCAACACAGC
* * *
22396911 CAAAGCACACAAGAACATCCAAGAGCAAAATAAAAA
505 CAAAGCATACAAGAACATCCAAGAACAAAATCAAAA
22396947 ATTTGGGTTA
Statistics
Matches: 1007, Mismatches: 60, Indels: 39
0.91 0.05 0.04
Matches are distributed among these distances:
532 1 0.00
533 56 0.06
534 9 0.01
535 19 0.02
536 3 0.00
538 106 0.11
539 301 0.30
540 31 0.03
541 13 0.01
542 1 0.00
543 1 0.00
546 2 0.00
547 117 0.12
548 191 0.19
549 106 0.11
550 50 0.05
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (540 bp):
CAAACTTTTCAAAGAAAAATTTGGCTGGAAGTATGAATTCTTCACAATCTTTAACAAGTAAAGGA
TCAAATGTTGAAAAAGTATGATATTGTGGTGTGTGTTGTCAGTTGATCTTCTCTGTCTTTTTTTT
TTCTATTTTAAAAACCAAAAAATTTAAATTAAACCCACAAACAAAAAAACCCTTGAGTTGTTGTA
ATTGTTATGTGGATTTATGGTTATTTTATAGTTTATTGGGTGTGAGTAATTCAGGGTGAATTCAA
ATTCTGTGAGTTTTTCTTATGGTTGCTGGGTTTGTTTCTGAGTTTCTTCTAGGCTATTTGCTCAT
TTGATGGTTATCCTTGAAAATTGGTATGGCTACTAAATGAAAATTGGTTGTTTGTTTGATACTTG
ATACAATTCCTAACAGTAAAAATTTCATTTTCAAAAAGCCACAAAACCTAGAATTTGCTTACAAA
TAGATAAGCAAAAAAATTGAAAATCTCAACAAAGAACAATCAACACAGCCAAAGCATACAAGAAC
ATCCAAGAACAAAATCAAAA
Found at i:22397776 original size:57 final size:57
Alignment explanation
Indices: 22397707--22397821 Score: 169
Period size: 57 Copynumber: 2.0 Consensus size: 57
22397697 ATATCACCTA
* * *
22397707 TCAAGATTTATGGAAGTCTTTTCTACCGACAAATTCTT-TTTTAAGTTTGCTTTCCCC
1 TCAAGATTTATGGAAGTCTTTTCCACCGACAAATTATTCTTTT-AGTTTACTTTCCCC
* *
22397764 TCAAGATTTATGGAAGTCTTTTCCACGGGCAAATTATTCTTTTAGTTTACTTTCCCC
1 TCAAGATTTATGGAAGTCTTTTCCACCGACAAATTATTCTTTTAGTTTACTTTCCCC
22397821 T
1 T
22397822 TGCGTCCTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
57 48 0.92
58 4 0.08
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (57 bp):
TCAAGATTTATGGAAGTCTTTTCCACCGACAAATTATTCTTTTAGTTTACTTTCCCC
Found at i:22398341 original size:2 final size:2
Alignment explanation
Indices: 22398334--22398366 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22398324 TTTGTCGCTT
22398334 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
22398367 TTGTAATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:22417323 original size:16 final size:18
Alignment explanation
Indices: 22417284--22417326 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
22417274 AAAAAGTCAC
22417284 AATC-TAAAATAAAAGAA
1 AATCATAAAATAAAAGAA
*
22417301 AAACATAAAAT-AAA-AA
1 AATCATAAAATAAAAGAA
22417317 AATCATAAAA
1 AATCATAAAA
22417327 AGTCATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 11 0.48
17 6 0.26
18 6 0.26
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.16
Consensus pattern (18 bp):
AATCATAAAATAAAAGAA
Found at i:22417465 original size:2 final size:2
Alignment explanation
Indices: 22417458--22417487 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22417448 AAAATCTTGT
22417458 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22417488 CACACGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22417954 original size:22 final size:22
Alignment explanation
Indices: 22417906--22417954 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
22417896 GAATCTTAAC
**
22417906 TATTATAATTTTTTTATCTTTA
1 TATTATAATTTTTTTATAATTA
* *
22417928 AATTATGATTTTTTTATAATTA
1 TATTATAATTTTTTTATAATTA
22417950 TATTA
1 TATTA
22417955 AGTCATAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
TATTATAATTTTTTTATAATTA
Found at i:22424266 original size:28 final size:30
Alignment explanation
Indices: 22424235--22424311 Score: 104
Period size: 28 Copynumber: 2.6 Consensus size: 30
22424225 AATTAATAAA
22424235 TTTAAAATTTAAATATTACATTAAA-A-TT
1 TTTAAAATTTAAATATTACATTAAATATTT
*
22424263 TTTAAAATTTAAATATTATATTAAATATTT
1 TTTAAAATTTAAATATTACATTAAATATTT
* *
22424293 TATTATAATTTAAAAATTA
1 T-TTAAAATTTAAATATTA
22424312 TTCATAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 24 0.56
29 1 0.02
30 3 0.07
31 15 0.35
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
TTTAAAATTTAAATATTACATTAAATATTT
Found at i:22424440 original size:27 final size:26
Alignment explanation
Indices: 22424389--22424440 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
22424379 TATGTTTAAA
* * *
22424389 TTTTAAAAAATAATAGAAAAGAAAAG
1 TTTTAAAAAATAAAAAAAAAAAAAAG
22424415 TTTTAAAAAATAAAAAACAAAAAAAA
1 TTTTAAAAAATAAAAAA-AAAAAAAA
22424441 ATTTACTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (26 bp):
TTTTAAAAAATAAAAAAAAAAAAAAG
Found at i:22429505 original size:29 final size:29
Alignment explanation
Indices: 22429442--22429507 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
22429432 TTTGTAATAA
* *
22429442 ATTTTTTAGTTTTTTAAAATATTAAATGT
1 ATTTTTTAATATTTTAAAATATTAAATGT
22429471 ACTTTTTTAATATTTT-AAATATTTAAAAT-T
1 A-TTTTTTAATATTTTAAAATA-TT-AAATGT
22429501 ATTTTTT
1 ATTTTTT
22429508 GAAATCTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 12 0.38
30 16 0.50
31 4 0.12
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (29 bp):
ATTTTTTAATATTTTAAAATATTAAATGT
Found at i:22429863 original size:29 final size:28
Alignment explanation
Indices: 22429814--22429873 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 28
22429804 AAAAAAATTT
* *
22429814 AAAATTTATAAACTTTTTT-AAAACATA
1 AAAAATTATAAAATTTTTTAAAAACATA
22429841 AAAAATTATAAAAATTTTCTTAAAAACATA
1 AAAAATTAT-AAAATTTT-TTAAAAACATA
22429871 AAA
1 AAA
22429874 TTAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.29
28 7 0.25
29 2 0.07
30 11 0.39
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (28 bp):
AAAAATTATAAAATTTTTTAAAAACATA
Found at i:22429874 original size:28 final size:26
Alignment explanation
Indices: 22429813--22429883 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 26
22429803 TAAAAAAATT
*
22429813 TAAAATT-TATAAACTTTTTTAAAACA
1 TAAAATTATA-AAAATTTTTTAAAACA
22429839 TAAAAAATTATAAAAATTTTCTTAAAAACA
1 T--AAAATTATAAAAATTTT-TT-AAAACA
*
22429869 TAAAATTAAAAAAAT
1 TAAAATTATAAAAAT
22429884 ATGGAAAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 1 0.03
28 26 0.68
29 4 0.11
30 7 0.18
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (26 bp):
TAAAATTATAAAAATTTTTTAAAACA
Found at i:22451949 original size:20 final size:19
Alignment explanation
Indices: 22451926--22452004 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 19
22451916 TCACATATTA
22451926 AAAAAATGATAATTTATAAG
1 AAAAAAT-ATAATTTATAAG
* *
22451946 AAAAACTAGTAA--TATGAG
1 AAAAAATA-TAATTTATAAG
*
22451964 AAAAAA-ATAATGTATAAG
1 AAAAAATATAATTTATAAG
*
22451982 AAAAAATAGTAATATATAA-
1 AAAAAATA-TAATTTATAAG
22452001 AAAA
1 AAAA
22452005 GAAAAACATA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.06
17 1 0.02
18 21 0.43
19 6 0.12
20 18 0.37
ACGTcount: A:0.65, C:0.01, G:0.10, T:0.24
Consensus pattern (19 bp):
AAAAAATATAATTTATAAG
Found at i:22451981 original size:36 final size:35
Alignment explanation
Indices: 22451934--22452004 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
22451924 TAAAAAAATG
* *
22451934 ATAATTTATAAGAAAAACTAGTAATATGAGAAAAAA
1 ATAATGTATAAGAAAAAATAGTAATAT-AGAAAAAA
*
22451970 ATAATGTATAAGAAAAAATAGTAATATATAAAAAA
1 ATAATGTATAAGAAAAAATAGTAATATAGAAAAAA
22452005 GAAAAACATA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 7 0.22
36 25 0.78
ACGTcount: A:0.63, C:0.01, G:0.10, T:0.25
Consensus pattern (35 bp):
ATAATGTATAAGAAAAAATAGTAATATAGAAAAAA
Found at i:22452017 original size:37 final size:36
Alignment explanation
Indices: 22451940--22452031 Score: 96
Period size: 36 Copynumber: 2.5 Consensus size: 36
22451930 AATGATAATT
* * * **
22451940 TATAAGAAAAACTAGTAATATGAGAAAAAAATAATG
1 TATAAGAAAAAATAGTAATATGAAAAAAAAAAAACA
22451976 TATAAGAAAAAATAGTAATAT-ATAAAAAAGAAAAACA
1 TATAAGAAAAAATAGTAATATGA-AAAAAA-AAAAACA
* *
22452013 TATAAGCAAAAATGGTAAT
1 TATAAGAAAAAATAGTAAT
22452032 TTCTAACAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
35 1 0.02
36 25 0.53
37 21 0.45
ACGTcount: A:0.63, C:0.03, G:0.12, T:0.22
Consensus pattern (36 bp):
TATAAGAAAAAATAGTAATATGAAAAAAAAAAAACA
Found at i:22452083 original size:24 final size:25
Alignment explanation
Indices: 22452056--22452106 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
22452046 AGTAGCACAT
*
22452056 AATAAAAGTGAT-AAAACATAAAAA
1 AATAAAAGTAATAAAAACATAAAAA
* *
22452080 AATATAAGTAATAAAAATATAAAAA
1 AATAAAAGTAATAAAAACATAAAAA
22452105 AA
1 AA
22452107 GGAATAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.20
Consensus pattern (25 bp):
AATAAAAGTAATAAAAACATAAAAA
Found at i:22452159 original size:17 final size:17
Alignment explanation
Indices: 22452139--22452191 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
22452129 AGCACATAAC
*
22452139 AAAAAATAATAACATAT
1 AAAAAATAGTAACATAT
* * *
22452156 AAAAACTGGTAA-TTCAT
1 AAAAAATAGTAACAT-AT
22452173 AAAAAATAGTAACATAT
1 AAAAAATAGTAACATAT
22452190 AA
1 AA
22452192 CATATCAAAG
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
16 1 0.04
17 25 0.93
18 1 0.04
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.25
Consensus pattern (17 bp):
AAAAAATAGTAACATAT
Found at i:22452825 original size:18 final size:18
Alignment explanation
Indices: 22452802--22452857 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
22452792 AAATCCGCCC
22452802 TATAACAAATAAAAAAAT
1 TATAACAAATAAAAAAAT
*
22452820 TATAACACATAGCAAAACAA-
1 TATAACAAATA--AAAA-AAT
* *
22452840 GATAACATATAAAAAAAT
1 TATAACAAATAAAAAAAT
22452858 AATATAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 2 0.06
18 14 0.45
20 13 0.42
21 2 0.06
ACGTcount: A:0.66, C:0.11, G:0.04, T:0.20
Consensus pattern (18 bp):
TATAACAAATAAAAAAAT
Found at i:22452864 original size:20 final size:20
Alignment explanation
Indices: 22452802--22452864 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
22452792 AAATCCGCCC
22452802 TATAACAAATAAAAAAAT--
1 TATAACAAATAAAAAAATAA
* ** *
22452820 TATAACACATAGCAAAACAA
1 TATAACAAATAAAAAAATAA
* *
22452840 GATAACATATAAAAAAATAA
1 TATAACAAATAAAAAAATAA
22452860 TATAA
1 TATAA
22452865 AATAGTAACA
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
18 14 0.42
20 19 0.58
ACGTcount: A:0.67, C:0.10, G:0.03, T:0.21
Consensus pattern (20 bp):
TATAACAAATAAAAAAATAA
Found at i:22452877 original size:15 final size:15
Alignment explanation
Indices: 22452841--22452883 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
22452831 GCAAAACAAG
22452841 ATAACATATAAAAAA
1 ATAACATATAAAAAA
*
22452856 AT-A-ATATAAAATA
1 ATAACATATAAAAAA
*
22452869 GTAACATATAAAAAA
1 ATAACATATAAAAAA
22452884 TTGATAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 10 0.43
14 2 0.09
15 11 0.48
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (15 bp):
ATAACATATAAAAAA
Found at i:22453123 original size:20 final size:22
Alignment explanation
Indices: 22453086--22453137 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 22
22453076 AATTTTTTTA
22453086 TTTTATATTTGAATATAATTAT
1 TTTTATATTTGAATATAATTAT
*
22453108 TTTTAT-TTTTAA-ATAATTAT
1 TTTTATATTTGAATATAATTAT
22453128 TTATT-TATTT
1 TT-TTATATTT
22453138 ATTTATTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTATATTTGAATATAATTAT
Found at i:22460061 original size:21 final size:21
Alignment explanation
Indices: 22460037--22460171 Score: 80
Period size: 21 Copynumber: 6.4 Consensus size: 21
22460027 CTCTCCTGCG
*
22460037 TCATCCCCTGGTTACAGCCCA
1 TCATCTCCTGGTTACAGCCCA
* * * *
22460058 TCATCTCCAGGATACAGTCCT
1 TCATCTCCTGGTTACAGCCCA
* *
22460079 TCATCTCCTGGTTATAGTCC-
1 TCATCTCCTGGTTACAGCCCA
* *
22460099 TACCTCTCCTGGTTACAGTCC-
1 T-CATCTCCTGGTTACAGCCCA
* * *
22460120 TACATCTCCCGGGTATAGTCCCA
1 T-CATCTCCTGGTTACAG-CCCA
* *
22460143 -CCTCTCCTGGGTACAGCCC-
1 TCATCTCCTGGTTACAGCCCA
22460162 TACATCTCCT
1 T-CATCTCCT
22460172 ACTTACAGTC
Statistics
Matches: 90, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
20 4 0.04
21 84 0.93
22 2 0.02
ACGTcount: A:0.18, C:0.38, G:0.15, T:0.30
Consensus pattern (21 bp):
TCATCTCCTGGTTACAGCCCA
Found at i:22460107 original size:42 final size:42
Alignment explanation
Indices: 22460061--22460203 Score: 151
Period size: 42 Copynumber: 3.4 Consensus size: 42
22460051 CAGCCCATCA
* *
22460061 TCTCCAGGATACAGTCCTTCATCTCCTGGTTATAGTCCTACC
1 TCTCCAGGTTACAGTCCTACATCTCCTGGTTATAGTCCTACC
* * * *
22460103 TCTCCTGGTTACAGTCCTACATCTCCCGGGTATAGTCCCACC
1 TCTCCAGGTTACAGTCCTACATCTCCTGGTTATAGTCCTACC
* * * ** * **
22460145 TCTCCTGGGTACAGCCCTACATCTCCTACTTACAGTCCTAGT
1 TCTCCAGGTTACAGTCCTACATCTCCTGGTTATAGTCCTACC
*
22460187 TCACCAGGTTACAGTCC
1 TCTCCAGGTTACAGTCC
22460204 GACAAGTCCG
Statistics
Matches: 81, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 81 1.00
ACGTcount: A:0.19, C:0.36, G:0.15, T:0.30
Consensus pattern (42 bp):
TCTCCAGGTTACAGTCCTACATCTCCTGGTTATAGTCCTACC
Found at i:22460203 original size:63 final size:63
Alignment explanation
Indices: 22460059--22460203 Score: 137
Period size: 63 Copynumber: 2.3 Consensus size: 63
22460049 TACAGCCCAT
* ** * * * * **
22460059 CATCTCCAGGATACAGTCCTTCATCTCCTGGTTATAGTCCTACCTCTCCTGGTTACAGTCCTA
1 CATCACCAGGATACAGTCCCACATCTCCTGGGTACAGCCCTACATCTCCTACTTACAGTCCTA
* * * * *
22460122 CATCTCCCGGGTATAGTCCCACCTCTCCTGGGTACAGCCCTACATCTCCTACTTACAGTCCTA
1 CATCACCAGGATACAGTCCCACATCTCCTGGGTACAGCCCTACATCTCCTACTTACAGTCCTA
** *
22460185 GTTCACCAGGTTACAGTCC
1 CATCACCAGGATACAGTCC
22460204 GACAAGTCCG
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.19, C:0.36, G:0.15, T:0.30
Consensus pattern (63 bp):
CATCACCAGGATACAGTCCCACATCTCCTGGGTACAGCCCTACATCTCCTACTTACAGTCCTA
Found at i:22460280 original size:21 final size:21
Alignment explanation
Indices: 22460256--22460350 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
22460246 AACCTCGCCT
*
22460256 AGCTATAG-CCCTACCTCTCCA
1 AGCTATAGTCCC-ACATCTCCA
* *
22460277 AGCTACAGTCCTACATCTCCA
1 AGCTATAGTCCCACATCTCCA
* * *
22460298 AGTTACAGTCCCACTTCTCCA
1 AGCTATAGTCCCACATCTCCA
*
22460319 AGCTATAGTCCCACATCTCCC
1 AGCTATAGTCCCACATCTCCA
22460340 AGCTATAGTCC
1 AGCTATAGTCC
22460351 AACTTCACCT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
21 61 0.97
22 2 0.03
ACGTcount: A:0.25, C:0.39, G:0.11, T:0.25
Consensus pattern (21 bp):
AGCTATAGTCCCACATCTCCA
Found at i:22460335 original size:42 final size:42
Alignment explanation
Indices: 22460271--22460373 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 42
22460261 TAGCCCTACC
* * *
22460271 TCTCCAAGCTACAGTCCTACATCTCCAAGTTACAGTCCCACT
1 TCTCCAAGCTACAGTCCCACATCTCCAAGCTACAGTCCAACT
* * *
22460313 TCTCCAAGCTATAGTCCCACATCTCCCAGCTATAGTCCAACT
1 TCTCCAAGCTACAGTCCCACATCTCCAAGCTACAGTCCAACT
* * *
22460355 TCACCTAGCTACAGCCCCA
1 TCTCCAAGCTACAGTCCCA
22460374 GTTCACCCGT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.26, C:0.40, G:0.10, T:0.24
Consensus pattern (42 bp):
TCTCCAAGCTACAGTCCCACATCTCCAAGCTACAGTCCAACT
Found at i:22460368 original size:63 final size:63
Alignment explanation
Indices: 22460256--22460635 Score: 173
Period size: 63 Copynumber: 6.0 Consensus size: 63
22460246 AACCTCGCCT
* * * * * * * * * *
22460256 AGCTATAGCCCTACCTCTCCAAGCTACAGTCCTACATCTCCAAGTTACAGTCCCACTTCTCCA
1 AGCTATAGCCCAACATCTCCCAGCTATAGTCCAACTTCACCTAGCTACAGCCCCACTTCTCCA
* *
22460319 AGCTATAGTCCC-ACATCTCCCAGCTATAGTCCAACTTCACCTAGCTACAGCCCCAGTTCACC-
1 AGCTATAG-CCCAACATCTCCCAGCTATAGTCCAACTTCACCTAGCTACAGCCCCACTTCTCCA
* * * * *
22460381 CGTTTATAGCCCAACTTCT-CCAGCATATAGCCCAACTTCACCT-GCATATAGCCCCACTTCTCC
1 AG-CTATAGCCCAACATCTCCCAGC-TATAGTCCAACTTCACCTAGC-TACAGCCCCACTTCTCC
22460444 -
63 A
* * * * * * * * ** * * * *
22460444 ATCATACAGCCCAACATC-CCCATCATACAGCCCGACGTCTCCTTCCTACAGCCCAACCTCACCC
1 AGC-TATAGCCCAACATCTCCCAGC-TATAGTCCAACTTCACCTAGCTACAGCCCCACTTCTCCA
** * * * * *
22460508 TCCTATAGCCCCACATCT-CCATCTTACAGTCCTACTTCACC-AGCTTATAGCCCCACTTCTCCA
1 AGCTATAGCCCAACATCTCCCAGC-TATAGTCCAACTTCACCTAGC-TACAGCCCCACTTCTCCA
* * * * * * * * * * * * *
22460571 GGGTACAGTCCAACTTCACCAAGTTATAGTCCAACATCACCGAGCTATAGCCCTACCTCTCCA
1 AGCTATAGCCCAACATCTCCCAGCTATAGTCCAACTTCACCTAGCTACAGCCCCACTTCTCCA
22460634 AG
1 AG
22460636 TTACAATCCA
Statistics
Matches: 238, Mismatches: 66, Indels: 26
0.72 0.20 0.08
Matches are distributed among these distances:
62 12 0.05
63 216 0.91
64 10 0.04
ACGTcount: A:0.26, C:0.41, G:0.10, T:0.24
Consensus pattern (63 bp):
AGCTATAGCCCAACATCTCCCAGCTATAGTCCAACTTCACCTAGCTACAGCCCCACTTCTCCA
Found at i:22460449 original size:21 final size:21
Alignment explanation
Indices: 22460385--22460570 Score: 122
Period size: 21 Copynumber: 8.9 Consensus size: 21
22460375 TTCACCCGTT
*
22460385 TATAGCCCAACTTCTCCAGCA
1 TATAGCCCAACTTCTCCATCA
*
22460406 TATAGCCCAACTTCACC-TGCA
1 TATAGCCCAACTTCTCCAT-CA
*
22460427 TATAGCCCCACTTCTCCATCA
1 TATAGCCCAACTTCTCCATCA
* * *
22460448 TACAGCCCAACATCCCCATCA
1 TATAGCCCAACTTCTCCATCA
* * * * *
22460469 TACAGCCCGACGTCTCCTTCC
1 TATAGCCCAACTTCTCCATCA
* * * * *
22460490 TACAGCCCAACCTCACCCTCC
1 TATAGCCCAACTTCTCCATCA
* * *
22460511 TATAGCCCCACATCTCCATCT
1 TATAGCCCAACTTCTCCATCA
* * * * * *
22460532 TACAGTCCTACTTCACCAGCT
1 TATAGCCCAACTTCTCCATCA
*
22460553 TATAGCCCCACTTCTCCA
1 TATAGCCCAACTTCTCCA
22460571 GGGTACAGTC
Statistics
Matches: 130, Mismatches: 33, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
21 129 0.99
22 1 0.01
ACGTcount: A:0.25, C:0.44, G:0.08, T:0.24
Consensus pattern (21 bp):
TATAGCCCAACTTCTCCATCA
Found at i:22460571 original size:21 final size:21
Alignment explanation
Indices: 22460307--22460571 Score: 104
Period size: 21 Copynumber: 12.6 Consensus size: 21
22460297 AAGTTACAGT
*
22460307 CCCACTTCTCCAAGC-TATAGT
1 CCCACTTCTCC-AGCATATAGC
* *
22460328 CCCACATCTCCCAGC-TATAGT
1 CCCACTTCT-CCAGCATATAGC
* * *
22460349 CCAACTTCACCTAGC-TACAGC
1 CCCACTTCTCC-AGCATATAGC
* * * **
22460370 CCCAGTTCACCCGTTTATAGC
1 CCCACTTCTCCAGCATATAGC
*
22460391 CCAACTTCTCCAGCATATAGC
1 CCCACTTCTCCAGCATATAGC
* * *
22460412 CCAACTTCACCTGCATATAGC
1 CCCACTTCTCCAGCATATAGC
* *
22460433 CCCACTTCTCCATCATACAGC
1 CCCACTTCTCCAGCATATAGC
* * * * *
22460454 CCAACATCCCCATCATACAGC
1 CCCACTTCTCCAGCATATAGC
* * ** * *
22460475 CCGACGTCTCCTTCCTACAGC
1 CCCACTTCTCCAGCATATAGC
* * * ** *
22460496 CCAACCTCACCCTCCTATAGC
1 CCCACTTCTCCAGCATATAGC
* * * * *
22460517 CCCACATCTCCATCTTACAGT
1 CCCACTTCTCCAGCATATAGC
* * *
22460538 CCTACTTCACCAGCTTATAGC
1 CCCACTTCTCCAGCATATAGC
22460559 CCCACTTCTCCAG
1 CCCACTTCTCCAG
22460572 GGTACAGTCC
Statistics
Matches: 189, Mismatches: 52, Indels: 6
0.77 0.21 0.02
Matches are distributed among these distances:
20 3 0.02
21 184 0.97
22 2 0.01
ACGTcount: A:0.24, C:0.43, G:0.09, T:0.24
Consensus pattern (21 bp):
CCCACTTCTCCAGCATATAGC
Found at i:22460586 original size:21 final size:21
Alignment explanation
Indices: 22460562--22460611 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
22460552 TTATAGCCCC
* *
22460562 ACTTCTCCAGGGTACAGTCCA
1 ACTTCACCAAGGTACAGTCCA
* *
22460583 ACTTCACCAAGTTATAGTCCA
1 ACTTCACCAAGGTACAGTCCA
*
22460604 ACATCACC
1 ACTTCACC
22460612 GAGCTATAGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.34, G:0.12, T:0.24
Consensus pattern (21 bp):
ACTTCACCAAGGTACAGTCCA
Found at i:22460591 original size:42 final size:42
Alignment explanation
Indices: 22460364--22460599 Score: 186
Period size: 42 Copynumber: 5.6 Consensus size: 42
22460354 TTCACCTAGC
* * * * * *
22460364 TACAGCCCCAGTTCACCCGTTTATAGCCCAACTTCTCCAGCA
1 TACAGCCCAACTTCACCAGCTTATAGCCCCACTTCTCCATCA
* * *
22460406 TATAGCCCAACTTCACCTGCATATAGCCCCACTTCTCCATCA
1 TACAGCCCAACTTCACCAGCTTATAGCCCCACTTCTCCATCA
* * * * * * * * *
22460448 TACAGCCCAACATCCCCATCATACAGCCCGACGTCTCCTTCC
1 TACAGCCCAACTTCACCAGCTTATAGCCCCACTTCTCCATCA
* ** * * *
22460490 TACAGCCCAACCTCACCCTCCTATAGCCCCACATCTCCATCT
1 TACAGCCCAACTTCACCAGCTTATAGCCCCACTTCTCCATCA
* * ***
22460532 TACAGTCCTACTTCACCAGCTTATAGCCCCACTTCTCCAGGG
1 TACAGCCCAACTTCACCAGCTTATAGCCCCACTTCTCCATCA
*
22460574 TACAGTCCAACTTCACCAAG-TTATAG
1 TACAGCCCAACTTCACC-AGCTTATAG
22460600 TCCAACATCA
Statistics
Matches: 155, Mismatches: 38, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
42 153 0.99
43 2 0.01
ACGTcount: A:0.25, C:0.42, G:0.10, T:0.24
Consensus pattern (42 bp):
TACAGCCCAACTTCACCAGCTTATAGCCCCACTTCTCCATCA
Found at i:22460619 original size:21 final size:21
Alignment explanation
Indices: 22460577--22460620 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
22460567 TCCAGGGTAC
* *
22460577 AGTCCAACTTCACCAAGTTAT
1 AGTCCAACATCACCAAGCTAT
*
22460598 AGTCCAACATCACCGAGCTAT
1 AGTCCAACATCACCAAGCTAT
22460619 AG
1 AG
22460621 CCCTACCTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.23
Consensus pattern (21 bp):
AGTCCAACATCACCAAGCTAT
Found at i:22460665 original size:63 final size:63
Alignment explanation
Indices: 22460531--22460666 Score: 143
Period size: 63 Copynumber: 2.2 Consensus size: 63
22460521 CATCTCCATC
* * * * * *
22460531 TTACAGTCCTACTTCACCAGCTTATAGCCCCACTTCTCCAGGGTACAGTCCAACTTCACCAAG
1 TTACAGTCCAACATCACCAGCTTATAGCCCCACCTCTCCAAGGTACAATCCAACGTCACCAAG
* * *
22460594 TTATAGTCCAACATCACCGAGC-TATAGCCCTACCTCTCCAAGTTACAATCC-ACAGTCAGCCAA
1 TTACAGTCCAACATCACC-AGCTTATAGCCCCACCTCTCCAAGGTACAATCCAAC-GTCA-CCAA
22460657 G
63 G
22460658 -TACAGTCCA
1 TTACAGTCCA
22460667 TCTCTGGCAT
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
62 2 0.03
63 50 0.83
64 8 0.13
ACGTcount: A:0.29, C:0.35, G:0.12, T:0.24
Consensus pattern (63 bp):
TTACAGTCCAACATCACCAGCTTATAGCCCCACCTCTCCAAGGTACAATCCAACGTCACCAAG
Found at i:22468848 original size:3 final size:3
Alignment explanation
Indices: 22468840--22468873 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
22468830 TACCCAACCG
22468840 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
22468874 GCTCCGTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:22477833 original size:2 final size:2
Alignment explanation
Indices: 22477826--22477853 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22477816 ATTCAATGCA
22477826 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22477854 CAAATAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22480878 original size:2 final size:2
Alignment explanation
Indices: 22480873--22480900 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22480863 ATATATTTAC
22480873 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
22480901 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:22480905 original size:2 final size:2
Alignment explanation
Indices: 22480900--22480927 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22480890 TCTCTCTCTC
22480900 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22480928 CACGAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22483740 original size:2 final size:2
Alignment explanation
Indices: 22483733--22483769 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
22483723 CAACGATGCT
* *
22483733 TA TA TA TA TG TA TA AA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22483770 TCACTTGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:22485778 original size:27 final size:27
Alignment explanation
Indices: 22485748--22485819 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
22485738 TATTAATTAA
22485748 ATTTAAATATTAATTTTAATTAAATTT
1 ATTTAAATATTAATTTTAATTAAATTT
* **
22485775 ATTT-AATATAAAATTTTTGTTAAATTT
1 ATTTAAATAT-TAATTTTAATTAAATTT
* *
22485802 -TTTAATTA-TAATTATAAT
1 ATTTAAATATTAATTTTAAT
22485820 AATTTTTAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
25 6 0.17
26 8 0.23
27 21 0.60
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (27 bp):
ATTTAAATATTAATTTTAATTAAATTT
Found at i:22485781 original size:14 final size:13
Alignment explanation
Indices: 22485761--22485814 Score: 56
Period size: 14 Copynumber: 4.0 Consensus size: 13
22485751 TAAATATTAA
22485761 TTTTAATTAAATT
1 TTTTAATTAAATT
*
22485774 TATTTAATATAAAAT
1 T-TTTAAT-TAAATT
*
22485789 TTTT-GTTAAATT
1 TTTTAATTAAATT
22485801 TTTTAATTATAATT
1 TTTTAATTA-AATT
22485815 ATAATAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
12 9 0.27
13 5 0.15
14 13 0.39
15 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TTTTAATTAAATT
Found at i:22485828 original size:22 final size:22
Alignment explanation
Indices: 22485800--22485853 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
22485790 TTTGTTAAAT
* *
22485800 TTTTTAATTATAATTATAATAA
1 TTTTTAATTATAATAATAACAA
*
22485822 TTTTTAATAATAATAATAACAA
1 TTTTTAATTATAATAATAACAA
*
22485844 TTATT-ATTAT
1 TTTTTAATTAT
22485854 TATTTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTTAATTATAATAATAACAA
Found at i:22485868 original size:12 final size:12
Alignment explanation
Indices: 22485847--22485877 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
22485837 ATAACAATTA
22485847 TTATTATTATTT
1 TTATTATTATTT
*
22485859 TTATTTTTATTT
1 TTATTATTATTT
22485871 TTATTAT
1 TTATTAT
22485878 AATTAATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:22500237 original size:78 final size:78
Alignment explanation
Indices: 22500096--22500243 Score: 190
Period size: 78 Copynumber: 1.9 Consensus size: 78
22500086 TCAAAGAACC
* * *
22500096 AGATATGATCAGGAAGCACCTCTTAAAAGTGCTTAGCAAACAAAACTGTTGACTCTATGTCATTT
1 AGATATGA-CAGGAAGCACCTCTTAAAAGTGCTTAGCAAACAAAACTATTAACTCTATATCA-TT
22500161 AAAAAGAAGCTACTA
64 AAAAAGAAGCTACTA
** * * * *
22500176 AGATATG-CAGGAAGCACCTCTTCTAAGTGCTTAGCAAATAGAATTATTAACTTTATATCATTAA
1 AGATATGACAGGAAGCACCTCTTAAAAGTGCTTAGCAAACAAAACTATTAACTCTATATCATTAA
22500240 AAAG
66 AAAG
22500244 TAAGGTACAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
77 8 0.14
78 44 0.75
80 7 0.12
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (78 bp):
AGATATGACAGGAAGCACCTCTTAAAAGTGCTTAGCAAACAAAACTATTAACTCTATATCATTAA
AAAGAAGCTACTA
Found at i:22502490 original size:2 final size:2
Alignment explanation
Indices: 22502485--22502511 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22502475 TCTCTCTATG
22502485 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
22502512 GTAAACCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22513390 original size:2 final size:2
Alignment explanation
Indices: 22513373--22513442 Score: 50
Period size: 2 Copynumber: 35.0 Consensus size: 2
22513363 ACAAAGACTG
* * * * * *
22513373 AT AT AT AA AT AC AT AT AT AC AT CT AT AT AT AT AT AT AT AC AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
22513415 AC AC AC AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22513443 TAGTTTTTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (2 bp):
AT
Found at i:22513608 original size:17 final size:16
Alignment explanation
Indices: 22513586--22513619 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22513576 ATTTGATAAC
22513586 TTTTGATATAATTTTGA
1 TTTTGATA-AATTTTGA
*
22513603 TTTTGATAACTTTTGA
1 TTTTGATAAATTTTGA
22513619 T
1 T
22513620 AAAATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.59
Consensus pattern (16 bp):
TTTTGATAAATTTTGA
Found at i:22513632 original size:21 final size:21
Alignment explanation
Indices: 22513602--22513675 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
22513592 TATAATTTTG
*
22513602 ATTTTGATAACTTTTGATAAA
1 ATTTTAATAACTTTTGATAAA
* * *
22513623 ATTTTAATAACTTTCGGTATA
1 ATTTTAATAACTTTTGATAAA
* *
22513644 ATTTTAGTAA-TCATTGATAAA
1 ATTTTAATAACT-TTTGATAAA
*
22513665 ATTTTAGTAAC
1 ATTTTAATAAC
22513676 CTTTCCAAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
20 1 0.02
21 41 0.98
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (21 bp):
ATTTTAATAACTTTTGATAAA
Found at i:22514075 original size:44 final size:43
Alignment explanation
Indices: 22514015--22514625 Score: 181
Period size: 44 Copynumber: 13.9 Consensus size: 43
22514005 GATATCATTA
* * *
22514015 ATTTATTATTATATTATTAACGATTTACTACTAAACTATCAATG
1 ATTTATTATTAAATTATTAATGATTTACTACTAAATTAT-AATG
* * *
22514059 ATATATTATTAAATTA-TATATTATTTACTACTAAATTAGTATTG
1 ATTTATTATTAAATTATTA-ATGATTTACTACTAAATTA-TAATG
* * * * *
22514103 ATTT-TCAATTAACTTATGAATGATTTATTACTAAATTATGAGTG
1 ATTTAT-TATTAAATTATTAATGATTTACTACTAAATTAT-AATG
* * *
22514147 ATTTACTATTAAATTATTAATAATTTACTACTAAATTATTGATG
1 ATTTATTATTAAATTATTAATGATTTACTACTAAATTA-TAATG
* * * * *
22514191 ATTTA-TAATAAAGTTA-TAACAGATTTACTATTAATTTATTGATG
1 ATTTATTATTAAA-TTATTAA-TGATTTACTACTAAATTA-TAATG
* * * * * * *
22514235 ATTTACTACAAAGATAGCAATAATTAACTAATTTACGACTAAATTACTATTA
1 ATTTA-T---TA-TTA--AATTATTAA-TGATTTACTACTAAATTA-TAATG
* * * *
22514287 ATTTACTACTAAATTATCAATTATTTACATA-TAAATTATCAATG
1 ATTTATTATTAAATTATTAATGATTTAC-TACTAAATTAT-AATG
* ** * ** * *
22514331 ATTTACTATTATGTTATT-ATGCATTTACTATTTCATTATCATTA
1 ATTTATTATTAAATTATTAATG-ATTTACTACTAAATTAT-AATG
* * * * * * * * *
22514375 ATTTACTATTTAATTTTTGATTATTTACTACAAAATAATCATAA
1 ATTTATTATTAAATTATTAATGATTTACTACTAAATTATAAT-G
** *** * * * * *
22514419 ATTTATTACAAAATTAACCATGATTCATTA-TCAAGTTATCACTA
1 ATTTATTATTAAATTATTAATGATTTACTACT-AAATTAT-AATG
* * *
22514463 ATTTA-TATTAAATTATTCATAATTTACTATTAAA-T-T-AT-
1 ATTTATTATTAAATTATTAATGATTTACTACTAAATTATAATG
* * * * * *
22514501 -TTAACTATTAAGTTATTGATGATTAACTACTAATCAGTTATATTG
1 ATTTATTATTAAATTATTAATGATTTACTACTAA--A-TTATAATG
* * ** *
22514546 ATTTACTT-TTAAATT-TCAATAATAAACTACTAAATTATCATTG
1 ATTTA-TTATTAAATTATTAATGATTTACTACTAAATTAT-AATG
* * *
22514589 ATTTACTATTAAATTATTTATAATTTACTACTAAATT
1 ATTTATTATTAAATTATTAATGATTTACTACTAAATT
22514626 TATCAATTAA
Statistics
Matches: 416, Mismatches: 111, Indels: 80
0.69 0.18 0.13
Matches are distributed among these distances:
37 3 0.01
38 23 0.06
39 1 0.00
40 1 0.00
41 1 0.00
42 7 0.02
43 56 0.13
44 251 0.60
45 28 0.07
46 9 0.02
47 3 0.01
48 1 0.00
49 1 0.00
50 3 0.01
51 2 0.00
52 26 0.06
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (43 bp):
ATTTATTATTAAATTATTAATGATTTACTACTAAATTATAATG
Found at i:22514096 original size:22 final size:22
Alignment explanation
Indices: 22514027--22514243 Score: 140
Period size: 22 Copynumber: 9.9 Consensus size: 22
22514017 TTATTATTAT
* *
22514027 ATTATTAACGATTTACTACTAA
1 ATTATGAATGATTTACTACTAA
* * * * *
22514049 ACTATCAATGATATATTATTAA
1 ATTATGAATGATTTACTACTAA
*
22514071 ATTAT-ATATTATTTACTACTAA
1 ATTATGA-ATGATTTACTACTAA
* * * *
22514093 ATTA-GTATTGATTTTCAATTAA
1 ATTATG-AATGATTTACTACTAA
* *
22514115 CTTATGAATGATTTATTACTAA
1 ATTATGAATGATTTACTACTAA
* *
22514137 ATTATGAGTGATTTACTATTAA
1 ATTATGAATGATTTACTACTAA
* *
22514159 ATTATTAATAATTTACTACTAA
1 ATTATGAATGATTTACTACTAA
*
22514181 ATTATTG-ATGATTTA-TAATAA
1 ATTA-TGAATGATTTACTACTAA
* *
22514202 AGTTAT-AACAGATTTACTATTAA
1 A-TTATGAA-TGATTTACTACTAA
*
22514225 TTTATTG-ATGATTTACTAC
1 ATTA-TGAATGATTTACTAC
22514244 AAAGATAGCA
Statistics
Matches: 146, Mismatches: 38, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
21 9 0.06
22 127 0.87
23 10 0.07
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.46
Consensus pattern (22 bp):
ATTATGAATGATTTACTACTAA
Found at i:22514106 original size:66 final size:67
Alignment explanation
Indices: 22514027--22514243 Score: 158
Period size: 66 Copynumber: 3.3 Consensus size: 67
22514017 TTATTATTAT
* * * *
22514027 ATTATTAACGATTTACTACTAAAC-TATCAATGATATATTATTAAATTAT-ATATTATTTACTAC
1 ATTAGTAATGATTTACTACTAAACTTATCAATGATATATTACTAAATTATGA-ATGATTTACTAC
22514090 TAA
65 TAA
* * * * * * * *
22514093 ATTAGTATTGATTTTC-AATTAACTTATGAATGATTTATTACTAAATTATGAGTGATTTACTATT
1 ATTAGTAATGATTTACTACTAAACTTATCAATGATATATTACTAAATTATGAATGATTTACTACT
22514157 AA
66 AA
* * ** * * *
22514159 ATTATTAATAATTTACTACTAAA-TTATTGATGATTTA-TAATAAAGTTAT-AACAGATTTACTA
1 ATTAGTAATGATTTACTACTAAACTTATCAATGATATATTACTAAA-TTATGAA-TGATTTACTA
*
22514221 TTAA
64 CTAA
* * *
22514225 TTTATTGATGATTTACTAC
1 ATTAGTAATGATTTACTAC
22514244 AAAGATAGCA
Statistics
Matches: 120, Mismatches: 26, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
65 12 0.10
66 103 0.86
67 5 0.04
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.46
Consensus pattern (67 bp):
ATTAGTAATGATTTACTACTAAACTTATCAATGATATATTACTAAATTATGAATGATTTACTACT
AA
Found at i:22514294 original size:118 final size:118
Alignment explanation
Indices: 22514147--22514360 Score: 283
Period size: 118 Copynumber: 1.8 Consensus size: 118
22514137 ATTATGAGTG
* * * ** *
22514147 ATTTACTATTAAATTATTAATAATTTACTACTAAATTATTGATGATTTATA-ATAAAGTTAT-AA
1 ATTTACGACTAAATTACTAATAATTTACTACTAAATTATCAATGATTTACATATAAA-TTATCAA
22514210 CAGATTTACTATTAAT-TTATTGATG-ATTTACTACAAAGATAGCAATAATTAACTA
65 -AGATTTACTATT-ATGTTATT-ATGCATTTACTACAAAGATAGCAATAATTAACTA
* * *
22514265 ATTTACGACTAAATTACTATTAATTTACTACTAAATTATCAATTATTTACATATAAATTATCAAT
1 ATTTACGACTAAATTACTAATAATTTACTACTAAATTATCAATGATTTACATATAAATTATCAAA
22514330 GATTTACTATTATGTTATTATGCATTTACTA
66 GATTTACTATTATGTTATTATGCATTTACTA
22514361 TTTCATTATC
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
117 5 0.06
118 71 0.86
119 7 0.08
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (118 bp):
ATTTACGACTAAATTACTAATAATTTACTACTAAATTATCAATGATTTACATATAAATTATCAAA
GATTTACTATTATGTTATTATGCATTTACTACAAAGATAGCAATAATTAACTA
Found at i:22514478 original size:21 final size:21
Alignment explanation
Indices: 22514263--22514648 Score: 110
Period size: 22 Copynumber: 17.8 Consensus size: 21
22514253 AATAATTAAC
* *
22514263 TAATTTACGACTAAATTA-CTA
1 TAATTTACTATTAAATTATC-A
*
22514284 TTAATTTACTACTAAATTATCAA
1 -TAATTTACTATTAAATTATC-A
*
22514307 TTATTTAC-ATATAAATTATCAA
1 TAATTTACTAT-TAAATTATC-A
* ** *
22514329 TGATTTACTATTATGTTATTA
1 TAATTTACTATTAAATTATCA
* **
22514350 TGCATTTACTATTTCATTATCA
1 T-AATTTACTATTAAATTATCA
* * *
22514372 TTAATTTACTATTTAATTTTTGA
1 -TAATTTACTA-TTAAATTATCA
* ** *
22514395 TTATTTACTACAAAATAATCA
1 TAATTTACTATTAAATTATCA
* ** *
22514416 TAAATTTATTACAAAATTAACCA
1 T-AATTTACTATTAAATT-ATCA
* * * * *
22514439 TGATTCATTATCAAGTTATCA
1 TAATTTACTATTAAATTATCA
22514460 CTAATTTA-TATTAAATTATTCA
1 -TAATTTACTATTAAATTA-TCA
22514482 TAATTTACTATTAAA-T-T-A
1 TAATTTACTATTAAATTATCA
* * *
22514500 T--TTAACTATTAAGTTATTGA
1 TAATTTACTATTAAATTA-TCA
* * *
22514520 TGATTAACTACTAATCAGTTAT-A
1 TAATTTACTATTAA--A-TTATCA
* *
22514543 TTGATTTACTTTTAAATT-TCAA
1 -TAATTTACTATTAAATTATC-A
** *
22514565 TAATAAACTACTAAATTATCA
1 TAATTTACTATTAAATTATCA
* *
22514586 TTGATTTACTATTAAATTATTTA
1 -TAATTTACTATTAAATTA-TCA
*
22514609 TAATTTACTACTAAATTTATCAA
1 TAATTTACTATTAAA-TTATC-A
*
22514632 TTAA-TTACTACTAAATT
1 -TAATTTACTATTAAATT
22514649 GACTTTTACT
Statistics
Matches: 275, Mismatches: 60, Indels: 58
0.70 0.15 0.15
Matches are distributed among these distances:
16 10 0.04
17 1 0.00
18 2 0.01
19 2 0.01
20 3 0.01
21 43 0.16
22 163 0.59
23 33 0.12
24 15 0.05
25 3 0.01
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (21 bp):
TAATTTACTATTAAATTATCA
Found at i:22514509 original size:16 final size:15
Alignment explanation
Indices: 22514484--22514517 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
22514474 ATTATTCATA
22514484 ATTTACTATTAAATT
1 ATTTACTATTAAATT
*
22514499 ATTTAACTATTAAGTT
1 ATTT-ACTATTAAATT
22514515 ATT
1 ATT
22514518 GATGATTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTTACTATTAAATT
Found at i:22514593 original size:43 final size:45
Alignment explanation
Indices: 22514538--22514648 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 45
22514528 TACTAATCAG
*
22514538 TTAT-ATTGATTTACTTTTAAATT-TCAATAATAAACTACTAAA-
1 TTATCATTGATTTACTATTAAATTATCAATAATAAACTACTAAAT
** **
22514580 TTATCATTGATTTACTATTAAATTATTTATAATTTACTACTAAAT
1 TTATCATTGATTTACTATTAAATTATCAATAATAAACTACTAAAT
* *
22514625 TTATCAATT-AATTACTACTAAATT
1 TTATC-ATTGATTTACTATTAAATT
22514649 GACTTTTACT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 4 0.07
43 18 0.31
44 15 0.26
45 18 0.31
46 3 0.05
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.48
Consensus pattern (45 bp):
TTATCATTGATTTACTATTAAATTATCAATAATAAACTACTAAAT
Found at i:22514692 original size:22 final size:22
Alignment explanation
Indices: 22514664--22514716 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
22514654 TTACTTACTG
*
22514664 TTAAGTTATCACTAATTTATTA
1 TTAAGTTATAACTAATTTATTA
* * *
22514686 TTAAGTTATAATTGATTTTTTA
1 TTAAGTTATAACTAATTTATTA
22514708 TTAAGTTAT
1 TTAAGTTAT
22514717 TAGTAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.55
Consensus pattern (22 bp):
TTAAGTTATAACTAATTTATTA
Done.