Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 53 of 279
Found at i:17684692 original size:55 final size:52
Alignment explanation
Indices: 17684486--17684742 Score: 213
Period size: 55 Copynumber: 4.8 Consensus size: 52
17684476 ACGCGGGTAC
* *
17684486 CTTACCATTGCCATGACTTGTCACATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCATTGCCATGTCTTG--ACATGGTCTTACAT-GTATCCTTGCCTTATG-AA
17684537 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATGAA
* * * *
17684590 CTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTCGCCTTATAGTAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACAT-GTATCCTT-GCCTTAT-G-AA
* * *
17684645 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG-AA
* ** * *
17684698 CCTTACAAATTTTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTAC-CATTGCCATGTCTTGACATGGTCTTACAT-GTATCCTT
17684743 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 22, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
49 20 0.12
50 1 0.01
51 19 0.11
52 4 0.02
53 48 0.28
54 8 0.05
55 66 0.39
56 5 0.03
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (52 bp):
CTTACCATTGCCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATGAA
Found at i:17694947 original size:18 final size:18
Alignment explanation
Indices: 17694924--17694960 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
17694914 CATTGTCACT
17694924 ACCACACTGAATGAGGAA
1 ACCACACTGAATGAGGAA
17694942 ACCACACTGAATGAGGAA
1 ACCACACTGAATGAGGAA
17694960 A
1 A
17694961 TCCCTCTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (18 bp):
ACCACACTGAATGAGGAA
Found at i:17704310 original size:40 final size:40
Alignment explanation
Indices: 17704273--17704498 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
17704263 GCTACTCGTT
* *
17704273 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
17704313 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17704353 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** *
17704393 CCAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
17704433 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
17704474 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
17704499 CATCATTCGA
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 153 0.91
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:17705693 original size:56 final size:56
Alignment explanation
Indices: 17705626--17705745 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
17705616 TATTAGTTTA
*
17705626 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATATT
*
17705682 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATATT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATATT
17705738 TTGCCCAT
1 TTGCCCAT
17705746 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATATT
Found at i:17706579 original size:18 final size:17
Alignment explanation
Indices: 17706525--17706591 Score: 61
Period size: 18 Copynumber: 4.0 Consensus size: 17
17706515 GAAAAAATGA
17706525 AATGA-AAGAAAAAGAGG
1 AATGAGAAGAAAAAGA-G
*
17706542 AA-GAGAGGAAAAA-A-
1 AATGAGAAGAAAAAGAG
*
17706556 AATGAGATTGAAAAAGAG
1 AATGAGA-AGAAAAAGAG
17706574 AATGAGAAAGAAAAAGAG
1 AATGAG-AAGAAAAAGAG
17706592 TTTGATCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
14 2 0.05
15 4 0.10
16 9 0.22
17 10 0.24
18 15 0.37
19 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.07
Consensus pattern (17 bp):
AATGAGAAGAAAAAGAG
Found at i:17713570 original size:50 final size:50
Alignment explanation
Indices: 17713495--17714434 Score: 1270
Period size: 50 Copynumber: 18.8 Consensus size: 50
17713485 ATTATGAATA
* * *
17713495 CACATGTTTAATACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGT
* * **
17713545 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-T
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TC-AT-ACTGTTAAGT
* * *
17713596 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTG-TTAAGT
* *
17713646 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGT
* * *
17713696 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTG-TTAAGT
* *
17713746 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGT
* * *
17713796 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTG-TTAAGT
* *
17713846 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGT
* * *
17713896 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTG-TTAAGT
* *
17713946 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGT
* * *
17713996 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTG-TTAAGT
* *
17714046 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGT
* * *
17714096 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTG-TTAAGT
* *
17714146 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGT
* * *
17714196 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTG-TTAAGT
* *
17714246 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGT
* * *
17714296 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTG-TTAAGT
* *
17714346 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGT
* *
17714396 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA
17714435 GATAGCTTCG
Statistics
Matches: 777, Mismatches: 92, Indels: 42
0.85 0.10 0.05
Matches are distributed among these distances:
47 1 0.00
48 1 0.00
49 16 0.02
50 699 0.90
51 53 0.07
52 4 0.01
53 3 0.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGT
Found at i:17713735 original size:100 final size:100
Alignment explanation
Indices: 17713495--17714437 Score: 1703
Period size: 100 Copynumber: 9.4 Consensus size: 100
17713485 ATTATGAATA
* * * * * * *
17713495 CACATGTTTAATACTAAGTGTAGGCTACTACGTGTATCATACTG-TTAAGTCACATGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGTCACGTGTGTAGTAC
* * * **
17713559 TAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-T
65 TAAGTGTAGGCTACTACGTGTA-TC-AT-ACTGTTAAGT
17713596 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
17713661 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
66 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
17713696 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
17713761 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
66 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
17713796 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
17713861 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
66 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
17713896 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
17713961 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
66 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
17713996 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
17714061 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
66 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
17714096 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
17714161 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
66 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
17714196 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
17714261 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
66 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
17714296 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
17714361 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
66 AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
* *
17714396 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
17714438 AGCTTCGGCT
Statistics
Matches: 825, Mismatches: 14, Indels: 7
0.98 0.02 0.01
Matches are distributed among these distances:
98 3 0.00
99 4 0.00
100 745 0.90
101 73 0.09
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (100 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
AAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
Found at i:17716247 original size:26 final size:26
Alignment explanation
Indices: 17716188--17716244 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
17716178 AATCAACCCT
* * *
17716188 AGGGGTATAATGGTCATTTTGCTCTA
1 AGGGGTATAATGGTAATTTTACACTA
*
17716214 AGGGGTATAATGGTAATTTTCACACTT
1 AGGGGTATAATGGTAATTTT-ACACTA
17716241 AGGG
1 AGGG
17716245 TATTTTAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (26 bp):
AGGGGTATAATGGTAATTTTACACTA
Found at i:17717184 original size:17 final size:17
Alignment explanation
Indices: 17717162--17717194 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17717152 TCGGCTATGG
17717162 AGAAAA-GACAAGATGAT
1 AGAAAAGGA-AAGATGAT
17717179 AGAAAAGGAAAGATGA
1 AGAAAAGGAAAGATGA
17717195 GAAGGGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.61, C:0.03, G:0.27, T:0.09
Consensus pattern (17 bp):
AGAAAAGGAAAGATGAT
Found at i:17723871 original size:27 final size:27
Alignment explanation
Indices: 17723841--17723893 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
17723831 CTACTAGAAA
*
17723841 CAGATATTTGT-GACAGAGCCACCAGAT
1 CAGATATTTGTAG-CAGAACCACCAGAT
17723868 CAGATATTTGTAGCAGAACCACCAGA
1 CAGATATTTGTAGCAGAACCACCAGA
17723894 ACGCTTCCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (27 bp):
CAGATATTTGTAGCAGAACCACCAGAT
Found at i:17724054 original size:26 final size:26
Alignment explanation
Indices: 17723997--17724054 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
17723987 CAAAATCAAC
* ** *
17723997 CCTAGGGGTATAATGGTCATTTTGCT
1 CCTAGGGGTATAATGGTAATTTCACA
17724023 CCTAGGGGTATAATGGTAATTTCACA
1 CCTAGGGGTATAATGGTAATTTCACA
*
17724049 CTTAGG
1 CCTAGG
17724055 TTATTTTAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (26 bp):
CCTAGGGGTATAATGGTAATTTCACA
Found at i:17724345 original size:16 final size:16
Alignment explanation
Indices: 17724308--17724337 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17724298 CAAAATGCCG
17724308 GCTTTTCGGCATTTTA
1 GCTTTTCGGCATTTTA
17724324 GCTTTTCGGC-TTTT
1 GCTTTTCGGCATTTT
17724338 TGCCTTTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.07, C:0.20, G:0.20, T:0.53
Consensus pattern (16 bp):
GCTTTTCGGCATTTTA
Found at i:17725001 original size:17 final size:17
Alignment explanation
Indices: 17724979--17725011 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17724969 TCAACTATGG
17724979 AGAAAAGAAAAGATGAA
1 AGAAAAGAAAAGATGAA
*
17724996 AGAAAAGGAAAGATGA
1 AGAAAAGAAAAGATGA
17725012 GAAGGGAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.06
Consensus pattern (17 bp):
AGAAAAGAAAAGATGAA
Found at i:17731955 original size:50 final size:49
Alignment explanation
Indices: 17731873--17732059 Score: 187
Period size: 50 Copynumber: 3.8 Consensus size: 49
17731863 TGAATACACG
* * * *
17731873 TGTGTAGTAGTAAGTGTAGGCTACTACATGTATCATACTGTTAAGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTTAAGTCACA
* * * * * *
17731923 TGTGTAGTACTAACTGCAGGCTATTACGTGTATCAGATGATGAGGTCCCG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATG-TTAAGTCACA
* * * * *
17731973 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGA-TCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTTAAGTCACA
* *
17732022 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
17732060 AGCTTCGGCT
Statistics
Matches: 111, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
48 1 0.01
49 38 0.34
50 71 0.64
51 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTTAAGTCACA
Found at i:17732055 original size:99 final size:100
Alignment explanation
Indices: 17731871--17732059 Score: 245
Period size: 99 Copynumber: 1.9 Consensus size: 100
17731861 TGTGAATACA
* * * * *
17731871 CGTGTGTAGTAGTAAGTGTAGGCTACTACATGTATCATACTGTTAAGTCACATGTGTAGTACTAA
1 CGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTATTAAGTCACATGTGTAGTACTAA
* *
17731936 CTGCAGGCTATTACGTGTATCAGATGATGAGGTCC
66 CTGCAGGCTACTACGCGTATCAGATGATGAGGTCC
* * * * *
17731971 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGA-TCGCATGTGTAGTACTAA
1 CGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTATTAAGTCACATGTGTAGTACTAA
* *
17732035 GTGCAGGCTACTATGCGTATCAGAT
66 CTGCAGGCTACTACGCGTATCAGAT
17732060 AGCTTCGGCT
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
99 38 0.51
100 37 0.49
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (100 bp):
CGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTATTAAGTCACATGTGTAGTACTAA
CTGCAGGCTACTACGCGTATCAGATGATGAGGTCC
Found at i:17735921 original size:44 final size:42
Alignment explanation
Indices: 17735786--17735940 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 42
17735776 GGTACCTTAC
* * * * * *
17735786 CCCAGACGTGGTCTTACATGTAATCAAATATCAATGCCACTGT
1 CCCAGACATGGTCTTACACGAAATCATATA-CGATGCCAATGT
* * * *
17735829 CCCAGACAGGGTATTACACGAAATCATATACGATGCCGATGA
1 CCCAGACATGGTCTTACACGAAATCATATACGATGCCAATGT
*
17735871 CCCAGACATGGTCTTACACGTAAATC-TCA-AGTCGGTGCCAATGT
1 CCCAGACATGGTCTTACACG-AAATCAT-ATA--CGATGCCAATGT
*
17735915 CCCAGACATGGTCTTACACGATATCA
1 CCCAGACATGGTCTTACACGAAATCA
17735941 CACCTCAGAA
Statistics
Matches: 91, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 28 0.31
43 34 0.37
44 29 0.32
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
CCCAGACATGGTCTTACACGAAATCATATACGATGCCAATGT
Found at i:17739613 original size:26 final size:26
Alignment explanation
Indices: 17739576--17739659 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
17739566 TGATACAAAT
* *
17739576 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
17739602 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
17739628 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
17739654 TGATAA
1 TGATAA
17739660 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:17749716 original size:37 final size:37
Alignment explanation
Indices: 17749666--17749805 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
17749656 CGAATAGTCC
*
17749666 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
17749703 CCACACGTAGTTATCGGGTCTTACCCGGAAAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
17749740 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
17749777 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
17749806 ATATATTTTC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:17750090 original size:95 final size:95
Alignment explanation
Indices: 17749946--17750461 Score: 1005
Period size: 95 Copynumber: 5.4 Consensus size: 95
17749936 CTATACACAC
*
17749946 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATTCATACATATTTTAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATTCATACATATTTTAC
17750011 ACTAGCCATTTGGCTTTACCACATATACAT
66 ACTAGCCATTTGGCTTTACCACATATACAT
17750041 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATTCATACATATTTTAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATTCATACATATTTTAC
17750106 ACTAGCCATTTGGCTTTACCACATATACAT
66 ACTAGCCATTTGGCTTTACCACATATACAT
17750136 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATTCATACATATTTTAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATTCATACATATTTTAC
17750201 ACTAGCCATTTGGCTTTACCACATATACAT
66 ACTAGCCATTTGGCTTTACCACATATACAT
17750231 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATTCATACATATTTTAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATTCATACATATTTTAC
17750296 ACTAGCCATTTGGCTTTACCACATATACAT
66 ACTAGCCATTTGGCTTTACCACATATACAT
17750326 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATTCATACATATTTTAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATTCATACATATTTTAC
17750391 ACTAGCCATTTGGCTTTACCACATATACAT
66 ACTAGCCATTTGGCTTTACCACATATACAT
* *
17750421 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
17750462 CACATATATA
Statistics
Matches: 418, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 418 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (95 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATTCATACATATTTTAC
ACTAGCCATTTGGCTTTACCACATATACAT
Found at i:17756082 original size:30 final size:30
Alignment explanation
Indices: 17756048--17756108 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
17756038 TCCTTAACTC
17756048 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
17756078 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
17756108 A
1 A
17756109 GGCTTGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:17762049 original size:40 final size:40
Alignment explanation
Indices: 17761912--17762136 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
17761902 TATTCGGATG
*
17761912 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
* *
17761955 ATATCCAGGCT-A-TCCCGACGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
17761996 ATA-CCTGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCC-GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
**
17762036 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* * *
17762076 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
17762116 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
17762137 ATACTTGGGT
Statistics
Matches: 161, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
39 15 0.09
40 79 0.49
41 39 0.24
42 2 0.01
43 26 0.16
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:17767591 original size:24 final size:24
Alignment explanation
Indices: 17767562--17768451 Score: 1780
Period size: 24 Copynumber: 37.1 Consensus size: 24
17767552 CACATATATA
17767562 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767586 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767610 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767634 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767658 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767682 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767706 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767730 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767754 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767778 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767802 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767826 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767850 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767874 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767898 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767922 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767946 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767970 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17767994 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768018 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768042 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768066 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768090 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768114 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768138 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768162 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768186 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768210 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768234 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768258 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768282 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768306 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768330 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768354 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768378 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768402 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768426 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
17768450 CA
1 CA
17768452 TTAGGCCTTA
Statistics
Matches: 866, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 866 1.00
ACGTcount: A:0.25, C:0.38, G:0.08, T:0.29
Consensus pattern (24 bp):
CACTTTCACATTCATCACATCGGC
Found at i:17771001 original size:50 final size:49
Alignment explanation
Indices: 17770943--17771055 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 49
17770933 ATGACAATGC
*
17770943 CTGGGACATGGCATCAAACGAGAT-ATGCGATAGCTAGTATAAGACCATGT
1 CTGGGACATGGCATCAAACGAGATGATG-G-TAGCCAGTATAAGACCATGT
*** ** *
17770993 CTGGGACATGGCATCGGCCTCGATGATGGTAGCCAGTGTAAGACCATGT
1 CTGGGACATGGCATCAAACGAGATGATGGTAGCCAGTATAAGACCATGT
*
17771042 TTGGGACATGGCAT
1 CTGGGACATGGCAT
17771056 TGGTATCTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 31 0.57
50 20 0.37
51 3 0.06
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (49 bp):
CTGGGACATGGCATCAAACGAGATGATGGTAGCCAGTATAAGACCATGT
Found at i:17781351 original size:22 final size:22
Alignment explanation
Indices: 17781319--17781360 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
17781309 TTAAGAGGAC
17781319 TAAAAAAATGTATAATTTGGGG
1 TAAAAAAATGTATAATTTGGGG
*
17781341 TAAAAACATGTATAATTTGG
1 TAAAAAAATGTATAATTTGG
17781361 TGTTTATCAG
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:0.45, C:0.02, G:0.19, T:0.33
Consensus pattern (22 bp):
TAAAAAAATGTATAATTTGGGG
Found at i:17787994 original size:49 final size:50
Alignment explanation
Indices: 17787798--17788019 Score: 195
Period size: 49 Copynumber: 4.7 Consensus size: 50
17787788 TGTGTGAGCT
* *
17787798 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-C-ATTATGAG-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCATCGATGATGAGTAGCC
* * *
17787844 AGTGTAAGACCATGTCTTGGACATGGCATCGGCATTGA-GATGAGT-GCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATGATGAGTAGCC
* ** * * *
17787892 AGTGTAAGA-CATGTATGGGACAT-GCATCGGC-TAAACG-T-TGT-G-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATGATGAGTAGCC
* * *
17787935 TGTGTAAGACCATGTTTGGGACATGGCATCAGCATCGATGATG-GTAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATGATGAGTAGCC
*
17787984 AATGTAAGACCATGTCTGGGACATGGCATCGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATC
17788020 TTATCCCATA
Statistics
Matches: 142, Mismatches: 21, Indels: 23
0.76 0.11 0.12
Matches are distributed among these distances:
43 9 0.06
44 16 0.11
45 10 0.07
46 21 0.15
47 31 0.22
48 22 0.15
49 33 0.23
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATGATGAGTAGCC
Found at i:17790841 original size:49 final size:49
Alignment explanation
Indices: 17790785--17791012 Score: 233
Period size: 49 Copynumber: 4.6 Consensus size: 49
17790775 CTAGTATGCA
* *
17790785 TAGTAGCCTGCACTTAGTACTAGACATGTGACCAATTACCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
* * ** ***
17790834 TAGTAGCCTGCACTTAGTACTATACACGTGACCTAACCATCTGACGCACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCTGGTACACG
* ** * * *
17790884 TAGTAGCATGCACTTAGTACTACACACATGATCGAAGTTATCGGGTA-AGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCTGGTACA-CG
* * *
17790935 TAGTAGCCTACACTTAGTACTACACATGCGTCCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
* *
17790984 TAGTAGCCTGCACTTTGTACTGCACATGT
1 TAGTAGCCTGCACTTAGTACTACACATGT
17791013 AACCTCACAA
Statistics
Matches: 142, Mismatches: 32, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
49 66 0.46
50 45 0.32
51 31 0.22
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
Found at i:17790904 original size:50 final size:49
Alignment explanation
Indices: 17790785--17790910 Score: 153
Period size: 50 Copynumber: 2.6 Consensus size: 49
17790775 CTAGTATGCA
* * ** **
17790785 TAGTAGCCTGCACTTAGTACTAGACATGTGACCAATTACCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCACCTGACACACG
* * *
17790834 TAGTAGCCTGCACTTAGTACTATACACGTGACCTAACCATCTGACGCACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCACCTGACACACG
*
17790884 TAGTAGCATGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
17790911 ATGATCGAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 31 0.47
50 35 0.53
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCACCTGACACACG
Found at i:17792526 original size:40 final size:40
Alignment explanation
Indices: 17792443--17792705 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
17792433 TTGAATGCTG
* * * * * *
17792443 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
17792483 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
17792523 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
17792563 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
17792603 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
17792643 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
17792682 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
17792706 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:17792725 original size:79 final size:80
Alignment explanation
Indices: 17792482--17792740 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
17792472 AAGTGAATAT
* * * * * *
17792482 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
17792546 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
17792562 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
17792627 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
17792642 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
17792706 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
17792721 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
17792741 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:17803675 original size:80 final size:79
Alignment explanation
Indices: 17803591--17803762 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
17803581 GGACTAAGAT
*
17803591 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
17803655 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
17803671 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
17803736 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
17803750 CCGAAGGCATTTG
1 CCGAAGGCATTTG
17803763 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:17803742 original size:39 final size:39
Alignment explanation
Indices: 17803538--17803760 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
17803528 TTGAATGTTG
* * * * *
17803538 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
17803578 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
17803617 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
17803658 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
17803698 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
17803737 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
17803761 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:17803780 original size:79 final size:80
Alignment explanation
Indices: 17803618--17803795 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
17803608 AGATACAAAT
* * * *
17803618 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
17803683 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
17803698 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
17803762 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
17803777 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
17803796 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:17806521 original size:20 final size:20
Alignment explanation
Indices: 17806496--17806535 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17806486 AACTTAACAC
17806496 AGTAATCTCACTCATAGCAT
1 AGTAATCTCACTCATAGCAT
*
17806516 AGTAATCTCGCTCATAGCAT
1 AGTAATCTCACTCATAGCAT
17806536 TCTCACACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (20 bp):
AGTAATCTCACTCATAGCAT
Found at i:17809212 original size:40 final size:40
Alignment explanation
Indices: 17809153--17810097 Score: 1804
Period size: 40 Copynumber: 23.6 Consensus size: 40
17809143 CGGATGATAA
* * *
17809153 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
17809193 CCGGGCTAAG-CTCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTC-CCGAAGGCATTTGTGCGAGTTACTATAT
17809233 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809273 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809313 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809353 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809393 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809433 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809473 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809513 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809553 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809593 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809633 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809673 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809713 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809753 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809793 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809833 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809873 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809913 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809953 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
17809993 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
17810033 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
17810073 CCGGGCTAAGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
17810098 AGCAAGTAGT
Statistics
Matches: 897, Mismatches: 5, Indels: 6
0.99 0.01 0.01
Matches are distributed among these distances:
39 1 0.00
40 894 1.00
41 2 0.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:17810397 original size:22 final size:21
Alignment explanation
Indices: 17810356--17810399 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
17810346 GAATGTGCAT
17810356 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
17810378 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
17810400 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:17815056 original size:15 final size:15
Alignment explanation
Indices: 17815036--17815064 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17815026 CTACGCTGCG
17815036 TCCCCCTTCTCCTCA
1 TCCCCCTTCTCCTCA
17815051 TCCCCCTTCTCCTC
1 TCCCCCTTCTCCTC
17815065 CTCCTCTACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.62, G:0.00, T:0.34
Consensus pattern (15 bp):
TCCCCCTTCTCCTCA
Found at i:17820901 original size:27 final size:27
Alignment explanation
Indices: 17820871--17821046 Score: 201
Period size: 27 Copynumber: 6.5 Consensus size: 27
17820861 ATTGAGTCCA
* * * *
17820871 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAGTCAAATCG
* *
17820898 CACACTTAGTGCTACGTAATCAAATCG
1 CACACTTAGTGCTACATAGTCAAATCG
17820925 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAGTCAAA-TCG
** * *
17820953 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAGTCAAATCG
* **
17820980 CACACTTAGTGC-ATCATATTCATTTCG
1 CACACTTAGTGCTA-CATAGTCAAATCG
*
17821007 CACACTTAGTGCAACATAGTCAAATCG
1 CACACTTAGTGCTACATAGTCAAATCG
17821034 CACACTTAGTGCT
1 CACACTTAGTGCT
17821047 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CACACTTAGTGCTACATAGTCAAATCG
Found at i:17821008 original size:82 final size:81
Alignment explanation
Indices: 17820890--17821045 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17820880 TGCTATATAA
* *
17820890 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17820955 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17820972 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17821036 CACTTAGTGC
65 CACTTAGTGC
17821046 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:17826308 original size:40 final size:40
Alignment explanation
Indices: 17826239--17826543 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
17826229 AAACCAAGTA
* * *
17826239 CCTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
17826278 CCTTCGGGACTTAACCCGGATATATTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
17826318 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
17826358 CCTTCGGGACTTAACCCGGATATATTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
17826398 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
17826438 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TA--ACTCGCACAAATG
* *
17826481 GCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
17826521 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
17826544 CATCCGAATA
Statistics
Matches: 224, Mismatches: 38, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
39 12 0.05
40 176 0.79
42 1 0.00
43 35 0.16
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:17834290 original size:25 final size:25
Alignment explanation
Indices: 17834262--17834338 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
17834252 CGAATGGCCA
17834262 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
17834287 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
*
17834309 ATGTGATGAATGTGAGCATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
17834334 ATGTG
1 ATGTG
17834339 GTAAAGCCGA
Statistics
Matches: 38, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 9 0.24
25 13 0.34
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:17834321 original size:47 final size:47
Alignment explanation
Indices: 17834216--17834361 Score: 213
Period size: 47 Copynumber: 3.1 Consensus size: 47
17834206 TTAGGATTTT
** * *
17834216 ATGTGATGAATGTGAATGTGTATATATGAGATAAGG-CGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
17834262 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
17834309 ATGTGATGAATGTGAGCATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
17834356 ATGTGA
1 ATGTGA
17834362 AATGTGTATG
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
46 32 0.35
47 59 0.65
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:17834488 original size:98 final size:96
Alignment explanation
Indices: 17834332--17834515 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
17834322 GAGCATGCAT
* * *
17834332 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATGTATATGTGGTAAAGTCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
17834397 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
17834428 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
17834492 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
17834516 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 2 0.02
98 51 0.63
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:17834531 original size:50 final size:48
Alignment explanation
Indices: 17834331--17834515 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
17834321 TGAGCATGCA
*
17834331 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
17834379 TATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
17834427 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
17834477 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
17834516 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 78 0.62
49 4 0.03
50 41 0.33
51 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:17834769 original size:37 final size:37
Alignment explanation
Indices: 17834661--17834769 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
17834651 GGAAATATAT
*
17834661 TCCGGCTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGCTAAGACCCGATGACTACGTGTGGAGATTTTG
*
17834698 TCCGGCTAAGACCCGATGACTACATGTGGAGATTTTG
1 TCCGGCTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
17834735 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGCTAAGACCCGATGACTACGTGTGGAGATTT
17834770 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (37 bp):
TCCGGCTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:17837451 original size:43 final size:43
Alignment explanation
Indices: 17837311--17837594 Score: 420
Period size: 43 Copynumber: 6.7 Consensus size: 43
17837301 GGATATCGCA
* * * *
17837311 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG-TA--
1 ACTCGGACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
* * * **
17837351 ACTCGCACACATGCCTTCGGGTCTTAGCCCGGAAATAGTC-ACT
1 ACTCGGACAAATGCCTTCGGGACTTAGCCCGGGTATAG-CAACT
*
17837394 A---GCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGGACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
17837434 ACTCGGACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGGACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
17837477 ACTCGGACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGGACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
17837520 ACTCGGACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGGACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
17837563 ACTCGGACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGGACAAATGCCTTCGGGACTTAGCCCGG
17837595 ATATCATCCG
Statistics
Matches: 227, Mismatches: 9, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
39 1 0.00
40 68 0.30
41 1 0.00
43 157 0.69
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (43 bp):
ACTCGGACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
Found at i:17841570 original size:40 final size:40
Alignment explanation
Indices: 17841511--17841730 Score: 318
Period size: 40 Copynumber: 5.5 Consensus size: 40
17841501 TTCGGATGAT
*
17841511 ATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTAC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAC
17841551 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAC
* *
17841591 ATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGATTAC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAC
* *
17841631 ATCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAC
* * * *
17841671 ATCCGGGCTAAGACCCGAAGACATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAC
* *
17841711 AT-CTGGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
17841731 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.09
40 148 0.90
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAC
Found at i:17849492 original size:40 final size:40
Alignment explanation
Indices: 17849437--17849618 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
17849427 TATGCGGATG
17849437 ACATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ACATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
17849477 ACATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ACATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
17849517 ACATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ACATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * *
17849557 ATATCCGGGCTAAGACCCAAAGACATTTGTGCGAGTTG-CT
1 ACATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* * *
17849597 ATATCC-GGCTAAATCCCAAAGG
1 ACATCCGGGCTAAGTCCCGAAGG
17849619 TACTTGGGTT
Statistics
Matches: 131, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.10
40 116 0.89
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ACATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:17855558 original size:93 final size:93
Alignment explanation
Indices: 17855446--17855617 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17855436 CGCCCATAAG
* *
17855446 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17855511 ACGAGTTCGGATGCCTAATTACATCTCA
66 ACGAGTTCGGATGCCTAATTACATCTCA
*
17855539 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17855604 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17855618 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAATTACATCTCA
Found at i:17855614 original size:46 final size:46
Alignment explanation
Indices: 17855439--17855614 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
17855429 TGTAACCCGC
* * *
17855439 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
17855485 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAATT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--ATTCGCAT
*
17855535 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
17855578 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17855615 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17864022 original size:20 final size:21
Alignment explanation
Indices: 17863972--17864022 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
17863962 ACCCATCCCC
* *
17863972 ATGCAATATGTCATGCATCGT
1 ATGCAATATATCATACATCGT
17863993 AT-C-ATAATATCATACAT-GT
1 ATGCAAT-ATATCATACATCGT
17864012 ATGCAATATAT
1 ATGCAATATAT
17864023 ATAAAATGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
19 6 0.24
20 15 0.60
21 4 0.16
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (21 bp):
ATGCAATATATCATACATCGT
Found at i:17872217 original size:16 final size:16
Alignment explanation
Indices: 17872177--17872221 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
17872167 TAATTGTAAT
*
17872177 TAACTTAATTAACTCA
1 TAACTTAATTAACACA
17872193 TAA-TTAATTAACAC-
1 TAACTTAATTAACACA
17872207 TAAACTTAATTAACA
1 T-AACTTAATTAACA
17872222 AATTTAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 12 0.46
16 13 0.50
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (16 bp):
TAACTTAATTAACACA
Found at i:17881846 original size:31 final size:31
Alignment explanation
Indices: 17881808--17881878 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
17881798 TTACTGGGCA
17881808 GAAGCCTTTTCATAAATCATATCACTAGGCC
1 GAAGCCTTTTCATAAATCATATCACTAGGCC
*
17881839 GAAGCCTTATCATAAATCATATCACTAGGCC
1 GAAGCCTTTTCATAAATCATATCACTAGGCC
17881870 GAAGCCTTT
1 GAAGCCTTT
17881879 ACTGTAAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (31 bp):
GAAGCCTTTTCATAAATCATATCACTAGGCC
Found at i:17887555 original size:40 final size:40
Alignment explanation
Indices: 17887439--17887642 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 40
17887429 AAACCAAGTA
* * *
17887439 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* ** * *
17887478 TCTTCGGGAC-TAGCTTGGTTATAGTAACTCGCCCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
17887517 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
17887557 CCTTCGGAACTTAGCCCGAATATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
17887597 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
17887637 CCTTCG
1 CCTTCG
17887643 TTATCATCCA
Statistics
Matches: 139, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
38 3 0.02
39 37 0.27
40 99 0.71
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:17889590 original size:49 final size:49
Alignment explanation
Indices: 17889518--17889615 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
17889508 AACTTACCTT
* *
17889518 GGATGTTTTCGAACGATTTCGATGGCTATTCGACCACTTTTTCTTTCCC
1 GGATGTTGTCGAACGATTTCGATGGCTATTCGACCACTTTTTCCTTCCC
17889567 GGATGTTGTCGAACGATTTCGATGGCTATTCGACCACTTTTTCCTTCCC
1 GGATGTTGTCGAACGATTTCGATGGCTATTCGACCACTTTTTCCTTCCC
17889616 TTTATCGGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (49 bp):
GGATGTTGTCGAACGATTTCGATGGCTATTCGACCACTTTTTCCTTCCC
Found at i:17892802 original size:39 final size:40
Alignment explanation
Indices: 17892598--17892818 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
17892588 TTGAATGCTG
* * * * * *
17892598 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
17892638 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
17892678 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
17892718 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
17892758 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
17892797 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
17892819 CTTGAACGAG
Statistics
Matches: 159, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.21
40 118 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:17892840 original size:79 final size:80
Alignment explanation
Indices: 17892673--17892855 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 80
17892663 GTGCGAGATA
* * *
17892673 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
17892738 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
17892753 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
17892817 CACTT-GAACGAGGAG
66 CA-TTCGAACGAGGAG
* * *
17892832 CTATATCC-GGTTAAATTCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
17892856 TACGTGATTT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 13 0.15
79 44 0.51
80 29 0.34
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:17922163 original size:62 final size:64
Alignment explanation
Indices: 17922046--17922165 Score: 172
Period size: 63 Copynumber: 1.9 Consensus size: 64
17922036 ATAAATGGTC
* *
17922046 AAATGGAGAAATAGGAAACATTTGGGAATGATTATGGCTATCTCCAAAATGAAAATGAAAATGA
1 AAATGGAGAAATAGGAAACATTTGGAAATGAATATGGCTATCTCCAAAATGAAAATGAAAATGA
* * * *
17922110 AAATGGAGAAAT-GGAATCATTTGGAAATGAATGTGGTTTTCT-CAAAATGAAAATGA
1 AAATGGAGAAATAGGAAACATTTGGAAATGAATATGGCTATCTCCAAAATGAAAATGA
17922166 CTTGAAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
62 14 0.28
63 24 0.48
64 12 0.24
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.26
Consensus pattern (64 bp):
AAATGGAGAAATAGGAAACATTTGGAAATGAATATGGCTATCTCCAAAATGAAAATGAAAATGA
Found at i:17932928 original size:46 final size:46
Alignment explanation
Indices: 17932864--17932951 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
17932854 AATATATATG
* *
17932864 TATATATAACCGAAGCTATTTTGATCACGCACACTAAGTGCAAATA
1 TATATATAACCGAAGCTATCTCGATCACGCACACTAAGTGCAAATA
* **
17932910 TATATATAGCCGAAGCTATCTCGATTTCGCACACTAAGTGCA
1 TATATATAACCGAAGCTATCTCGATCACGCACACTAAGTGCA
17932952 CATAATTAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (46 bp):
TATATATAACCGAAGCTATCTCGATCACGCACACTAAGTGCAAATA
Found at i:17939020 original size:20 final size:21
Alignment explanation
Indices: 17938995--17939034 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17938985 CTCTTGAAAC
*
17938995 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCATGTGGA
17939015 AGGGCAACACGCCCATGTGG
1 AGGGCAACACGCCCATGTGG
17939035 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGGA
Found at i:17940369 original size:48 final size:46
Alignment explanation
Indices: 17940298--17940463 Score: 154
Period size: 48 Copynumber: 3.5 Consensus size: 46
17940288 AAGCTGACGC
* *
17940298 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATTGCGAGGCCGATG
1 CATGTCCTAGACATGTCTTACACTAGCTT-TATATT-CGAGGCCGATG
* * * * * * *
17940346 CATGTCCTAGACATGTCTTACACTAGCTCTTGT-CTCAATGTCAATA
1 CATGTCCTAGACATGTCTTACACTAGCT-TTATATTCGAGGCCGATG
* * * *
17940392 CATGTCCTAGACATGTCTTACACTGGCTTAAATATCTTGAGGCTGATG
1 CATGTCCTAGACATGTCTTACACTAGCTT-TATAT-TCGAGGCCGATG
*
17940440 CATGTCCAAGACATGTCTTACACT
1 CATGTCCTAGACATGTCTTACACT
17940464 GGCTCTCATG
Statistics
Matches: 93, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
45 1 0.01
46 34 0.37
47 1 0.01
48 56 0.60
49 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (46 bp):
CATGTCCTAGACATGTCTTACACTAGCTTTATATTCGAGGCCGATG
Found at i:17940412 original size:94 final size:94
Alignment explanation
Indices: 17940298--17940469 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 94
17940288 AAGCTGACGC
** *
17940298 CATGTCCCAGACAGGTCTTACACTAGCTTGTATAT-TGCGAGGCCGATGCATGTCCTAGACATGT
1 CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCT-CGAGGCCGATGCATGTCCAAGACATGT
17940362 CTTACACTAGCTCTTGTCTCAATGTCAATA
65 CTTACACTAGCTCTTGTCTCAATGTCAATA
* * * * *
17940392 CATGTCCTAGACATGTCTTACACTGGCTTAAATATCTTGAGGCTGATGCATGTCCAAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCTCGAGGCCGATGCATGTCCAAGACATGTC
*
17940457 TTACACTGGCTCT
66 TTACACTAGCTCT
17940470 CATGCTTTGG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
94 67 0.99
95 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (94 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCTCGAGGCCGATGCATGTCCAAGACATGTC
TTACACTAGCTCTTGTCTCAATGTCAATA
Found at i:17956501 original size:10 final size:10
Alignment explanation
Indices: 17956486--17956547 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
17956476 TTTGAACCAT
*
17956486 TACCAATTCG
1 TACCAATTCA
*
17956496 TACCAAATACCA
1 TACC-AAT-TCA
*
17956508 TACCATTTCA
1 TACCAATTCA
17956518 TACCAATTCCA
1 TACCAATT-CA
* *
17956529 TACCATTTCG
1 TACCAATTCA
17956539 TACCAATTC
1 TACCAATTC
17956548 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:17956531 original size:21 final size:21
Alignment explanation
Indices: 17956486--17956548 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
17956476 TTTGAACCAT
* *
17956486 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
17956508 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
17956529 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
17956549 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:17962544 original size:10 final size:10
Alignment explanation
Indices: 17962529--17962590 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
17962519 TTTGAACCAT
*
17962529 TACCAATTCG
1 TACCAATTCA
*
17962539 TACCAAATACCA
1 TACC-AAT-TCA
*
17962551 TACCATTTCA
1 TACCAATTCA
17962561 TACCAATTCCA
1 TACCAATT-CA
* *
17962572 TACCATTTCG
1 TACCAATTCA
17962582 TACCAATTC
1 TACCAATTC
17962591 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:17962574 original size:21 final size:21
Alignment explanation
Indices: 17962529--17962591 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
17962519 TTTGAACCAT
* *
17962529 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
17962551 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
17962572 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
17962592 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:17968164 original size:5 final size:5
Alignment explanation
Indices: 17968154--17968261 Score: 216
Period size: 5 Copynumber: 21.6 Consensus size: 5
17968144 CATACATTTA
17968154 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
17968204 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
17968254 TATAT TAT
1 TATAT TAT
17968262 TTTAATAATA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 103 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:17975177 original size:34 final size:34
Alignment explanation
Indices: 17975139--17975229 Score: 119
Period size: 34 Copynumber: 2.7 Consensus size: 34
17975129 AATGCAGTCT
* * *
17975139 GGGCCTAAGCCCATTTCAGTTTCAGTAACAATTC
1 GGGCCTTAGCCCATCTCAGTTTCAATAACAATTC
* *
17975173 GGGCCTTAGCCCATCTCAGTTTCAATAGCAGTTC
1 GGGCCTTAGCCCATCTCAGTTTCAATAACAATTC
* *
17975207 AGGCCTTAGCCCATCTCAATTTC
1 GGGCCTTAGCCCATCTCAGTTTC
17975230 TGTATCAGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (34 bp):
GGGCCTTAGCCCATCTCAGTTTCAATAACAATTC
Found at i:17986906 original size:31 final size:31
Alignment explanation
Indices: 17986855--17986934 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 31
17986845 CTCAACATGT
17986855 ACTGGGCC-ATAGCCCTTTTCATATTTCATAAC
1 ACTGGGCCGA-AG-CCTTTTCATATTTCATAAC
* **
17986887 ACTGGGCCGAAGCCTTTTCATATTTCCTATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATAAC
17986918 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
17986935 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 33 0.75
32 10 0.23
33 1 0.02
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATAAC
Found at i:17990113 original size:27 final size:27
Alignment explanation
Indices: 17990069--17990121 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
17990059 AATTAATAAA
* * *
17990069 CCTAGACCTAATTGCAATGGCCCAAAT
1 CCTAGACCCAACTACAATGGCCCAAAT
17990096 CCTAGACCCAACTACAATGGCCCAAA
1 CCTAGACCCAACTACAATGGCCCAAA
17990122 CTCGAGACCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.36, C:0.34, G:0.13, T:0.17
Consensus pattern (27 bp):
CCTAGACCCAACTACAATGGCCCAAAT
Found at i:18004576 original size:176 final size:176
Alignment explanation
Indices: 18004124--18004590 Score: 670
Period size: 176 Copynumber: 2.6 Consensus size: 176
18004114 TGGTGAAGTC
*
18004124 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGCGAATCTTATCTCCATGTATTG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGCGAATCTTATCTCCATGTATCG
* *
18004189 GCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTT-TGAGGTAGCAAGAGAGCAGGTTGAAGA
66 GCAATGGAGCAGATTTTAGCCACTAGCCTTATCT-TTCTGAGGTAGTAAGAGAACAGGTTGAAGA
18004253 TGGTGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
130 T-GTGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
* * * * * *** *
18004301 AGGTCTTATTTCCCTAAGCAGTAGTGGAACA-AACCAAAGACGATAAATCTTATCTCCATGTACC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGA-GGCGAATCTTATCTCCATGTATC
* * * * *
18004365 AGCAATGGAGCAGATTTAAGCCACTAACCTTATCTTTCTAAGGTAGTAAGATAACAGGTTGAAGA
65 GGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTTTCTGAGGTAGTAAGAGAACAGGTTGAAGA
18004430 T-TGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
130 TGTG-GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
*
18004477 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGCGAACCTTATCTCCATGTATCG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGCGAATCTTATCTCCATGTATCG
* * ** *
18004542 GCAATGGAGCAGATTTTAGCCATTGGTTTTATCTTCCTGAGGTAGTAAG
66 GCAATGGAGCAGATTTTAGCCACTAGCCTTATCTTTCTGAGGTAGTAAG
18004591 GAAGCAGACT
Statistics
Matches: 250, Mismatches: 36, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
175 2 0.01
176 139 0.56
177 109 0.44
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (176 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGCGAATCTTATCTCCATGTATCG
GCAATGGAGCAGATTTTAGCCACTAGCCTTATCTTTCTGAGGTAGTAAGAGAACAGGTTGAAGAT
GTGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
Found at i:18004592 original size:133 final size:133
Alignment explanation
Indices: 18004437--18004695 Score: 455
Period size: 133 Copynumber: 1.9 Consensus size: 133
18004427 AGATTGAGTC
*
18004437 TTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGT
1 TTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAGTAGT
*
18004502 GGAGCAGATCGAAAGAGGCGAACCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCATTG
66 GGAGCAGATCGAAAGAGGCGAACCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCATTG
18004567 GTT
131 GTT
* * *
18004570 TTATCTTCCTGAGGTAGTAAGGAAGCAGACTAAAGGTTGAAGATCTTATCTCCCTAAGTAGTAGT
1 TTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAGTAGT
* *
18004635 GGAGCAGATCGAAAGAGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTAAGCC
66 GGAGCAGATCGAAAGAGGCGAACCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC
18004696 CAAGCCTTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
133 119 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (133 bp):
TTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAAGAGGCGAACCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCATTG
GTT
Found at i:18004748 original size:309 final size:309
Alignment explanation
Indices: 18004256--18004866 Score: 786
Period size: 309 Copynumber: 2.0 Consensus size: 309
18004246 TTGAAGATGG
* * *
18004256 TGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGGTCTTATTTCCCTAAGCA
1 TGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCA
*
18004321 GTAGTGGAACAAACCAAAGACGATAAATCTTATCTCCATGTACCAGCAATGGAGCAGATTTAAGC
66 GTAGTGGAACAAACCAAAGACGACAAATCTTATCTCCATGTACCAGCAATGGAGCAGATTTAAGC
** * * * * *
18004386 CACTAACCTTATCTTTCTAAGGTAGTAAGATAACAGGTTGAAGATTGAGTCTTATCTTCCTGAGG
131 CACTAACCTTATCTCCCTAAGGTAGCAAGAGAACAGGTTCAAGATTGAGTCTTATATTCCTGAAG
* *
18004451 TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
196 TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTAGTGGAACAGATC-AAA
18004516 GA-GGCGAACCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAT
260 GATGGCGAACCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAT
* * * *
18004565 TGGTTTTATCTTCCTGAGGTAGTAAGGAAGCAGACTAAAGGTTGAAGATCTTATCTCCCTAAGTA
1 TGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCA
* * * * * ***
18004630 GTAGTGGAGCAGATCGAAAGA-GGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTAAG
66 GTAGTGGAACA-AACCAAAGACGACAAATCTTATCTCCATGTACCAGCAATGGAGCAGATTTAAG
* * *
18004694 CC-C-AAGCCTTGTCTCCCTGAA-GTGGCAATG-GAGCAGGTTCAAGA-TGCAAGTCTTATATTC
130 CCACTAA-CCTTATCTCCCT-AAGGTAGCAA-GAGAACAGGTTCAAGATTG--AGTCTTATATTC
* ** * *
18004754 CTGAAGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATTTTTCTAAACATTTGTGGAACAGA
190 CTGAAGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTAGTGGAACAGA
* * *
18004819 TCAAGGATGGCGAATCTTATCTCCATGTATCGGTAATGGAGCAGATTT
255 TCAAAGATGGCGAACCTTATCTCCATGTATCGGCAATGGAGCAGATTT
18004867 AGACCACCAG
Statistics
Matches: 259, Mismatches: 36, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
307 4 0.02
308 30 0.12
309 218 0.84
310 7 0.03
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (309 bp):
TGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCA
GTAGTGGAACAAACCAAAGACGACAAATCTTATCTCCATGTACCAGCAATGGAGCAGATTTAAGC
CACTAACCTTATCTCCCTAAGGTAGCAAGAGAACAGGTTCAAGATTGAGTCTTATATTCCTGAAG
TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTAGTGGAACAGATCAAAG
ATGGCGAACCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAT
Found at i:18005205 original size:27 final size:27
Alignment explanation
Indices: 18005161--18005213 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
18005151 AATTAATAAA
* * *
18005161 CCTAGACCTAATTGCAATGGCCCAAAT
1 CCTAGACCCAACTACAATGGCCCAAAT
18005188 CCTAGACCCAACTACAATGGCCCAAA
1 CCTAGACCCAACTACAATGGCCCAAA
18005214 CTCGAGACCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.36, C:0.34, G:0.13, T:0.17
Consensus pattern (27 bp):
CCTAGACCCAACTACAATGGCCCAAAT
Found at i:18007047 original size:8 final size:8
Alignment explanation
Indices: 18007034--18007064 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
18007024 AATTATTCCA
18007034 AATTCATC
1 AATTCATC
18007042 AATTCATC
1 AATTCATC
18007050 AATTCATC
1 AATTCATC
18007058 AATTCAT
1 AATTCAT
18007065 ATATTGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (8 bp):
AATTCATC
Found at i:18013132 original size:21 final size:21
Alignment explanation
Indices: 18013108--18013158 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
18013098 TATGGTCCAA
18013108 GGGACATGCCCGTGTGACCCT
1 GGGACATGCCCGTGTGACCCT
18013129 GGGACATGCCCGTGTGACCCT
1 GGGACATGCCCGTGTGACCCT
18013150 GGGACATGC
1 GGGACATGC
18013159 TACAGGTCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (21 bp):
GGGACATGCCCGTGTGACCCT
Found at i:18017611 original size:39 final size:39
Alignment explanation
Indices: 18017566--18017647 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
18017556 AAGCAAGACA
*
18017566 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGAGCTAAAGACCCGCAGGCTTCGTG
* *
18017605 CTGGAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGAGCTAAAGACCCGCAGGCTTCGTG
18017644 CTGG
1 CTGG
18017648 TAACATAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGAGCTAAAGACCCGCAGGCTTCGTG
Found at i:18020138 original size:22 final size:21
Alignment explanation
Indices: 18020086--18020139 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
18020076 CGACCTCTAG
**
18020086 CACGGGCGTGTCCTAGGGTCA
1 CACGGGCGTGTCCTAGGACCA
* * *
18020107 CATGGTCGTGTCCCTTGGACCA
1 CACGGGCGTGT-CCTAGGACCA
18020129 CACGGGCGTGT
1 CACGGGCGTGT
18020140 GAGCCCTGCA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.13, C:0.30, G:0.35, T:0.22
Consensus pattern (21 bp):
CACGGGCGTGTCCTAGGACCA
Found at i:18024196 original size:16 final size:16
Alignment explanation
Indices: 18024162--18024201 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
18024152 AATAGATAAA
* *
18024162 TTATCTAATTAATTTT
1 TTATCTAATTAAATAT
*
18024178 TTATTTAATTAAATAT
1 TTATCTAATTAAATAT
18024194 TTATCTAA
1 TTATCTAA
18024202 ATTTTAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATCTAATTAAATAT
Found at i:18026127 original size:24 final size:24
Alignment explanation
Indices: 18026099--18026145 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
18026089 TATATATACC
18026099 AATTCAATCA-ATA-TAAATTCAATA
1 AATTC-ATCACATACTAAA-TCAATA
18026123 AATTCATCACATACTAAATCAAT
1 AATTCATCACATACTAAATCAAT
18026146 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCATCACATACTAAATCAATA
Found at i:18031348 original size:3 final size:3
Alignment explanation
Indices: 18031340--18031366 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18031330 AATTCAACTT
18031340 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
18031367 ATAAGATAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18032652 original size:23 final size:23
Alignment explanation
Indices: 18032626--18032669 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18032616 CAAAATAAAA
* *
18032626 CAAATTGATTAAAAATTAAAAGT
1 CAAAATGAATAAAAATTAAAAGT
*
18032649 CAAAATGAATAAATATTAAAA
1 CAAAATGAATAAAAATTAAAA
18032670 AAATAAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (23 bp):
CAAAATGAATAAAAATTAAAAGT
Found at i:18035498 original size:42 final size:42
Alignment explanation
Indices: 18035429--18035515 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
18035419 TCGTAAGCTA
* *
18035429 TGTGCTAGCCAGTGAAACCCACTGACTTG-GCTCACATGGCCG
1 TGTGCTAGCCAGTGAAACCCACGGACTTGAG-ACACATGGCCG
* * *
18035471 TGTGCTAGCCTGTGCAACTCACGGACTTGAGACACATGGCCG
1 TGTGCTAGCCAGTGAAACCCACGGACTTGAGACACATGGCCG
18035513 TGT
1 TGT
18035516 CTCAACCCGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.21, C:0.29, G:0.28, T:0.23
Consensus pattern (42 bp):
TGTGCTAGCCAGTGAAACCCACGGACTTGAGACACATGGCCG
Found at i:18037393 original size:42 final size:43
Alignment explanation
Indices: 18037347--18037438 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 43
18037337 TGTCCTTACC
* *
18037347 CGTGTGGCTCAGACGGT-CTAGACACACGCCTATGCCCT-TGCT
1 CGTGTGGCTCACACGGTCCGAGA-ACACGCCTATGCCCTCTGCT
* * * *
18037389 CGTGTGACTCACACGGTCCGGGAACATGCCTATGTCCTCTGCT
1 CGTGTGGCTCACACGGTCCGAGAACACGCCTATGCCCTCTGCT
18037432 CGTGTGG
1 CGTGTGG
18037439 TTCTAAAAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
42 28 0.68
43 13 0.32
ACGTcount: A:0.15, C:0.32, G:0.28, T:0.25
Consensus pattern (43 bp):
CGTGTGGCTCACACGGTCCGAGAACACGCCTATGCCCTCTGCT
Found at i:18043327 original size:21 final size:21
Alignment explanation
Indices: 18043303--18043346 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
18043293 CTCATGTTAG
*
18043303 TTTCATCTTCTTTC-CCTTTTC
1 TTTC-TCTTCTTTCTCATTTTC
*
18043324 TTTCTTTTCTTTCTCATTTTC
1 TTTCTCTTCTTTCTCATTTTC
18043345 TT
1 TT
18043347 GTTGTTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTCTCTTCTTTCTCATTTTC
Found at i:18050057 original size:112 final size:112
Alignment explanation
Indices: 18049860--18050083 Score: 394
Period size: 112 Copynumber: 2.0 Consensus size: 112
18049850 ATTGGCTTCA
*
18049860 AATGGTTTCTTCCGGTTCCCATGTAGCTTCTTCTACACCGTGTCGATGCCATAAAACCTTTACCA
1 AATGGTTTCTTCCGATTCCCATGTAGCTTCTTCTACACCGTGTCGATGCCATAAAACCTTTACCA
*
18049925 AAGCCACATATTTATTTCTCAACTATTTAATCTCGCGAGCTAAAATC
66 AAGCCACATATTTATTTCTCAACTATTTAATCCCGCGAGCTAAAATC
* *
18049972 AATGGTTTCTTCCGATTCCCATGTAGCTTCTTCTACACCGTGTTGATGTCATAAAACCTTTACCA
1 AATGGTTTCTTCCGATTCCCATGTAGCTTCTTCTACACCGTGTCGATGCCATAAAACCTTTACCA
* *
18050037 AAGCCACATCTTTATTTCTCAACTGTTTAATCCCGCGAGCTAAAATC
66 AAGCCACATATTTATTTCTCAACTATTTAATCCCGCGAGCTAAAATC
18050084 TTGACCAGTT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 106 1.00
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.34
Consensus pattern (112 bp):
AATGGTTTCTTCCGATTCCCATGTAGCTTCTTCTACACCGTGTCGATGCCATAAAACCTTTACCA
AAGCCACATATTTATTTCTCAACTATTTAATCCCGCGAGCTAAAATC
Found at i:18054999 original size:14 final size:15
Alignment explanation
Indices: 18054980--18055012 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18054970 TATGTTTATT
18054980 ATGTGTG-AAGTATC
1 ATGTGTGAAAGTATC
18054994 ATGTGTGAAAGTATC
1 ATGTGTGAAAGTATC
18055009 ATGT
1 ATGT
18055013 CTTAATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.36
Consensus pattern (15 bp):
ATGTGTGAAAGTATC
Found at i:18056528 original size:24 final size:24
Alignment explanation
Indices: 18056498--18056549 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
18056488 CTAAGAGTTA
18056498 AATTAATATGGCAAAGAGAATGTT
1 AATTAATATGGCAAAGAGAATGTT
18056522 AATTAATATGGCAAAGAGAATGTT
1 AATTAATATGGCAAAGAGAATGTT
18056546 AATT
1 AATT
18056550 TTATTTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.31
Consensus pattern (24 bp):
AATTAATATGGCAAAGAGAATGTT
Found at i:18057034 original size:84 final size:84
Alignment explanation
Indices: 18056922--18057148 Score: 366
Period size: 84 Copynumber: 2.7 Consensus size: 84
18056912 TTTCGGGTTT
* *
18056922 TGAGCCTAGCAGGCATAATACCAGTGAAATGATATCAGACTTAAAGGTCTAGCAAGCTTTAAGCT
1 TGAGCCTAGCAGGCATAATGCCAGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCT
18056987 GGTGAATAGTATCGGGCTC
66 GGTGAATAGTATCGGGCTC
*
18057006 TGAGCCTAGCAGGCATAATGCC-GATGAAATGATATCGGACTTAAAGGTCCAGCAAGCTTTAAGC
1 TGAGCCTAGCAGGCATAATGCCAG-TGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGC
*
18057070 TGGTGAATATTATCGGGCTC
65 TGGTGAATAGTATCGGGCTC
* * * *
18057090 CGAGCCTAGTAGGCGTAATGCCAGTGAAATGATATCGGACTTAAAGGTCTAGCAGGCTT
1 TGAGCCTAGCAGGCATAATGCCAGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTT
18057149 ATTGCCGGTG
Statistics
Matches: 132, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
83 1 0.01
84 130 0.98
85 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (84 bp):
TGAGCCTAGCAGGCATAATGCCAGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCT
GGTGAATAGTATCGGGCTC
Found at i:18057084 original size:42 final size:42
Alignment explanation
Indices: 18056954--18057085 Score: 103
Period size: 42 Copynumber: 3.1 Consensus size: 42
18056944 AGTGAAATGA
* * *
18056954 TATCAGACTTAAAGGTCTAGCAAGCTTTAAGCTGGTGAATAG
1 TATCGGACTTAAAGGTCCAGCAAGCTTTAAGCTGGTGAATAT
* * * * * *
18056996 TATCGGGCTCT-GA-G-CCTAGCAGGC-ATAATGCCGATGAA-AT
1 TATCGGACT-TAAAGGTCC-AGCAAGCTTTAA-GCTGGTGAATAT
18057036 GATATCGGACTTAAAGGTCCAGCAAGCTTTAAGCTGGTGAATAT
1 --TATCGGACTTAAAGGTCCAGCAAGCTTTAAGCTGGTGAATAT
18057080 TATCGG
1 TATCGG
18057086 GCTCCGAGCC
Statistics
Matches: 65, Mismatches: 15, Indels: 20
0.65 0.15 0.20
Matches are distributed among these distances:
40 5 0.08
41 15 0.23
42 23 0.35
43 15 0.23
44 7 0.11
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (42 bp):
TATCGGACTTAAAGGTCCAGCAAGCTTTAAGCTGGTGAATAT
Found at i:18066542 original size:67 final size:67
Alignment explanation
Indices: 18066453--18066651 Score: 362
Period size: 67 Copynumber: 3.0 Consensus size: 67
18066443 AGTGACTAAT
*
18066453 AAGGAGGGATTTAAAGGAAATTAGACCCAAATTTTATGGGCTGGACGGTTTGGGCAAGAAAATCA
1 AAGGAGGGATTTAAAGGCAATTAGACCCAAATTTTATGGGCTGGACGGTTTGGGCAAGAAAATCA
18066518 GC
66 GC
* *
18066520 AATGAGGGATTTAAAGGCAATTAGATCCAAATTTTATGGGCTGGACGGTTTGGGCAAGAAAATCA
1 AAGGAGGGATTTAAAGGCAATTAGACCCAAATTTTATGGGCTGGACGGTTTGGGCAAGAAAATCA
18066585 GC
66 GC
*
18066587 AAGGAGGGATTTAAAGGCAATTAGACCCAAATTATATGGGCTGGACGGTTTGGGCAAGAAAATCA
1 AAGGAGGGATTTAAAGGCAATTAGACCCAAATTTTATGGGCTGGACGGTTTGGGCAAGAAAATCA
18066652 ACAAAAGAGA
Statistics
Matches: 126, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 126 1.00
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.23
Consensus pattern (67 bp):
AAGGAGGGATTTAAAGGCAATTAGACCCAAATTTTATGGGCTGGACGGTTTGGGCAAGAAAATCA
GC
Found at i:18067645 original size:47 final size:47
Alignment explanation
Indices: 18067581--18067781 Score: 188
Period size: 47 Copynumber: 4.2 Consensus size: 47
18067571 CATGGCAACA
* *
18067581 TGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGG
1 TGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGATATGGCATCGG
* * * *
18067629 TGGGATATGAGCTTCCGTATAAGACCATATCTGCGATATGGCATCGG
1 TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGG
* * ** * * *
18067676 TATGATATGTCCTTCTATGTAAGACCATATCTGGGATATGGCATCAG
1 TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGG
* * * * * * *
18067723 TGTGATATGTG-ATCCCTGTAAGACCATGGCTAGGCTATGGCTTCAGTG
1 TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATC-G-G
18067771 TGTGATATGTG
1 TGTGATATGTG
18067782 ACTATGTGCA
Statistics
Matches: 125, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
46 25 0.20
47 79 0.63
48 21 0.17
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (47 bp):
TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGG
Found at i:18069729 original size:11 final size:10
Alignment explanation
Indices: 18069713--18069753 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
18069703 AAACTTAACC
18069713 AAATAAAATAA
1 AAATAAAA-AA
18069724 AAATAAAAATA
1 AAATAAAAA-A
18069735 AAATAAAAAA
1 AAATAAAAAA
18069745 TAAATAAAA
1 -AAATAAAA
18069754 CTAATACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.07
11 26 0.93
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:18069733 original size:17 final size:16
Alignment explanation
Indices: 18069713--18069753 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
18069703 AAACTTAACC
18069713 AAATAAAATAAAAATAA
1 AAATAAAATAAAAA-AA
*
18069730 AAATAAAATAAAAAAT
1 AAATAAAATAAAAAAA
18069746 AAATAAAA
1 AAATAAAA
18069754 CTAATACTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAATAAAATAAAAAAA
Found at i:18076530 original size:46 final size:46
Alignment explanation
Indices: 18076463--18076680 Score: 382
Period size: 46 Copynumber: 4.7 Consensus size: 46
18076453 AACCCGCCCC
* * *
18076463 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
18076509 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
18076555 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
18076601 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
18076647 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18076681 TGCTCAACCA
Statistics
Matches: 169, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 169 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:18084267 original size:21 final size:20
Alignment explanation
Indices: 18084221--18084271 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
18084211 GTTGCATACG
*
18084221 GGCGTGTGGGTAAGTGACAT
1 GGCGTGTGGGTAAGTGACAA
18084241 GAGCGTGTGGGTAAGTGACACA
1 G-GCGTGTGGGTAAGTGACA-A
18084263 GGCGTGTGG
1 GGCGTGTGG
18084272 AAACTAGAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.20, C:0.12, G:0.47, T:0.22
Consensus pattern (20 bp):
GGCGTGTGGGTAAGTGACAA
Found at i:18087304 original size:27 final size:27
Alignment explanation
Indices: 18087274--18087451 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18087264 ATATTGAGTC
* * * *
18087274 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
18087301 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18087328 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
18087356 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
18087383 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
18087410 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18087437 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18087452 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:18087413 original size:82 final size:81
Alignment explanation
Indices: 18087295--18087450 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18087285 TGCTATATAA
* *
18087295 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
18087360 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18087377 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
18087441 CACTTAGTGC
65 CACTTAGTGC
18087451 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:18095367 original size:27 final size:27
Alignment explanation
Indices: 18095337--18095514 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18095327 ATATTGAGTC
* * * *
18095337 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
18095364 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18095391 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
18095419 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
18095446 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
18095473 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18095500 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18095515 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:18095476 original size:82 final size:81
Alignment explanation
Indices: 18095358--18095513 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18095348 TGCTATATAA
* *
18095358 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
18095423 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18095440 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
18095504 CACTTAGTGC
65 CACTTAGTGC
18095514 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:18099220 original size:18 final size:18
Alignment explanation
Indices: 18099197--18099237 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
18099187 TATGATTCAG
18099197 TTTTATATGAATGTTTAT
1 TTTTATATGAATGTTTAT
18099215 TTTTATATGAATGTTTAT
1 TTTTATATGAATGTTTAT
*
18099233 GTTTA
1 TTTTA
18099238 AGTCTGGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (18 bp):
TTTTATATGAATGTTTAT
Found at i:18101726 original size:17 final size:16
Alignment explanation
Indices: 18101704--18101759 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
18101694 TGAAAAATTG
18101704 ATTTTTTTTATATTTTT
1 ATTTTTTTTA-ATTTTT
*
18101721 A-TTTTTTGAATTTTT
1 ATTTTTTTTAATTTTT
**
18101736 ATTTTTCATAATTTTTT
1 ATTTTTTTTAA-TTTTT
18101753 ATTTTTT
1 ATTTTTT
18101760 AAAAATTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
15 7 0.22
16 13 0.41
17 12 0.38
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (16 bp):
ATTTTTTTTAATTTTT
Found at i:18101727 original size:15 final size:15
Alignment explanation
Indices: 18101707--18101760 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
18101697 AAAATTGATT
18101707 TTTTTTATATTTTTA
1 TTTTTTATATTTTTA
18101722 TTTTTTGA-ATTTTTA
1 TTTTTT-ATATTTTTA
*
18101737 TTTTTCATAATTTTTTA
1 TTTTTTAT-A-TTTTTA
18101754 TTTTTTA
1 TTTTTTA
18101761 AAAATTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 1 0.03
15 18 0.55
16 2 0.06
17 12 0.36
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTTTTATATTTTTA
Found at i:18114296 original size:21 final size:21
Alignment explanation
Indices: 18114267--18114306 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18114257 TGCTGGACAG
*
18114267 GAGCCGGAATGGGAGTGTTTA
1 GAGCCGGAATGAGAGTGTTTA
*
18114288 GAGCTGGAATGAGAGTGTT
1 GAGCCGGAATGAGAGTGTT
18114307 CGGTTGCTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.42, T:0.25
Consensus pattern (21 bp):
GAGCCGGAATGAGAGTGTTTA
Found at i:18128490 original size:17 final size:17
Alignment explanation
Indices: 18128468--18128502 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18128458 CCTATTATTG
*
18128468 TAATAAAAAATTTGATA
1 TAATAAAAAATTTAATA
*
18128485 TAATAATAAATTTAATA
1 TAATAAAAAATTTAATA
18128502 T
1 T
18128503 TGAAAATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
TAATAAAAAATTTAATA
Found at i:18135467 original size:41 final size:41
Alignment explanation
Indices: 18134932--18135456 Score: 973
Period size: 41 Copynumber: 12.8 Consensus size: 41
18134922 TTTATCGTTA
* * * *
18134932 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18134973 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18135014 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18135055 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18135096 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18135137 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18135178 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18135219 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18135260 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18135301 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18135342 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18135383 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
18135424 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
18135457 AAGAGCCGGT
Statistics
Matches: 476, Mismatches: 4, Indels: 8
0.98 0.01 0.02
Matches are distributed among these distances:
39 1 0.00
40 1 0.00
41 471 0.99
42 2 0.00
43 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:18135729 original size:33 final size:32
Alignment explanation
Indices: 18135673--18135736 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
18135663 AGATATGTAT
18135673 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
18135705 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
18135737 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:18135753 original size:33 final size:33
Alignment explanation
Indices: 18135680--18135753 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
18135670 TATATATATA
* * **
18135680 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
18135712 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
18135745 TGTATGTAT
1 TATATGTAT
18135754 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:18142528 original size:27 final size:27
Alignment explanation
Indices: 18142496--18142561 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 27
18142486 TAGTTGAACT
18142496 ATGGCAAAGTGATAAAGTGTGCCAAAC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
18142523 ATGGCAAAGTGATAAAGTGTGCCAAAT
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
18142550 ATGGCAAAGTGA
1 ATGGCAAAGTGA
18142562 AATGTGACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGCCAAAC
Found at i:18147371 original size:24 final size:23
Alignment explanation
Indices: 18147334--18147379 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
18147324 ATAAATGGTA
18147334 TTTTAGTAATAATATAAGTATATT
1 TTTTAGTAATAATA-AAGTATATT
*
18147358 TTTTA-TAATAAATAAATTATAT
1 TTTTAGTAAT-AATAAAGTATAT
18147380 AAAGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
TTTTAGTAATAATAAAGTATATT
Found at i:18150306 original size:3 final size:3
Alignment explanation
Indices: 18150298--18150339 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
18150288 AGTAATATAG
18150298 TAA TAA TAA TAA TAA TAA TAA T-A TCAA TAA -AA -AA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA
18150340 GAGATATTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 6 0.17
3 28 0.78
4 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:18150684 original size:20 final size:20
Alignment explanation
Indices: 18150656--18150828 Score: 64
Period size: 20 Copynumber: 8.9 Consensus size: 20
18150646 AATATAGTGT
*
18150656 TAAAGATATATACATAATAA
1 TAAAAATATATACATAATAA
*
18150676 T-AAAA-ATATA-ATATTAA
1 TAAAAATATATACATAATAA
* *
18150693 -AAGATATATATACGTAATATA
1 TAA-AAATATATACATAATA-A
* *
18150714 TAAAAAATGTATACATGATAA
1 T-AAAAATATATACATAATAA
** ** *
18150735 TATGAA-ACGTACGTACATAA
1 TAAAAATATATACATA-ATAA
18150755 T----ATATATACATAATACA
1 TAAAAATATATACATAATA-A
*
18150772 T-TAAATATATACATAAT-A
1 TAAAAATATATACATAATAA
* * *
18150790 TATAAATATATATATAATATT
1 TAAAAATATATACATAATA-A
*
18150811 TAAAAA-ATATGCATAATA
1 TAAAAATATATACATAATA
18150829 TGAGATTAAT
Statistics
Matches: 113, Mismatches: 24, Indels: 32
0.67 0.14 0.19
Matches are distributed among these distances:
16 4 0.04
17 15 0.13
18 9 0.08
19 27 0.24
20 36 0.32
21 8 0.07
22 12 0.11
23 2 0.02
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.34
Consensus pattern (20 bp):
TAAAAATATATACATAATAA
Found at i:18150826 original size:39 final size:40
Alignment explanation
Indices: 18150751--18150829 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 40
18150741 ACGTACGTAC
*
18150751 ATAATATATATACATAATACATTAAATATATACATAATAT
1 ATAATATATATACATAATACATTAAAAATATACATAATAT
* * *
18150791 ATAA-ATATATATATAATA-TTTAAAAAATATGCATAATAT
1 ATAATATATATACATAATACATT-AAAAATATACATAATAT
18150830 GAGATTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.06
39 28 0.82
40 4 0.12
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (40 bp):
ATAATATATATACATAATACATTAAAAATATACATAATAT
Found at i:18151607 original size:13 final size:13
Alignment explanation
Indices: 18151591--18151615 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18151581 AGGTATTAAT
18151591 TTTTTGTATATTC
1 TTTTTGTATATTC
18151604 TTTTTGTATATT
1 TTTTTGTATATT
18151616 TTATATATAT
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:0.04, G:0.08, T:0.72
Consensus pattern (13 bp):
TTTTTGTATATTC
Found at i:18151646 original size:23 final size:23
Alignment explanation
Indices: 18151604--18151648 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
18151594 TTGTATATTC
18151604 TTTTTGTATATTTTATATATATA
1 TTTTTGTATATTTTATATATATA
18151627 TTTTTGATATATTTTA-ATATAT
1 TTTTTG-TATATTTTATATATAT
18151649 CAATGAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (23 bp):
TTTTTGTATATTTTATATATATA
Found at i:18152715 original size:43 final size:43
Alignment explanation
Indices: 18152649--18152762 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 43
18152639 CACTTCTGAT
* *
18152649 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAGC
1 CTGTTACCCTACTACTTAGGGGGTTAAGATCTATAAATTCAGC
* * * * *
18152692 CTGTTACCCTACTTCTTAAGGGGTTAAGGTCTGTAAATTCGGC
1 CTGTTACCCTACTACTTAGGGGGTTAAGATCTATAAATTCAGC
* *
18152735 TTGCTACCCTACTACTTAGGGGGTTAAG
1 CTGTTACCCTACTACTTAGGGGGTTAAG
18152763 GGTTAAGGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (43 bp):
CTGTTACCCTACTACTTAGGGGGTTAAGATCTATAAATTCAGC
Found at i:18153682 original size:39 final size:39
Alignment explanation
Indices: 18153628--18153705 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
18153618 GTGTTTAGGG
18153628 GATCCAGAGTACTTTGTCGATGCCCCAAGACGTAGCATA
1 GATCCAGAGTACTTTGTCGATGCCCCAAGACGTAGCATA
18153667 GATCCAGAGTACTTTGTCGATGCCCCAAGACGTAGCATA
1 GATCCAGAGTACTTTGTCGATGCCCCAAGACGTAGCATA
18153706 CTTCTTCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (39 bp):
GATCCAGAGTACTTTGTCGATGCCCCAAGACGTAGCATA
Found at i:18157283 original size:9 final size:10
Alignment explanation
Indices: 18157270--18157315 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
18157260 GGGAAAGTCT
18157270 AATGCAAAT-
1 AATGCAAATG
18157279 AATGC-AATG
1 AATGCAAATG
18157288 CAATGCAAATG
1 -AATGCAAATG
*
18157299 TATG-AAATG
1 AATGCAAATG
18157308 AATGCAAA
1 AATGCAAA
18157316 AGAAAGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 11 0.35
11 4 0.13
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (10 bp):
AATGCAAATG
Found at i:18157294 original size:19 final size:19
Alignment explanation
Indices: 18157270--18157315 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
18157260 GGGAAAGTCT
*
18157270 AATGCAAAT-AATGCAATG
1 AATGCAAATGAATGAAATG
*
18157288 CAATGCAAATGTATGAAATG
1 -AATGCAAATGAATGAAATG
18157308 AATGCAAA
1 AATGCAAA
18157316 AGAAAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (19 bp):
AATGCAAATGAATGAAATG
Found at i:18159572 original size:28 final size:28
Alignment explanation
Indices: 18159532--18159591 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
18159522 TAGCAGTGAA
* *
18159532 AATAAAAGTAATA-TAGTAAAAAAATAAT
1 AATAAAAGTAATAGCAAT-AAAAAATAAT
18159560 AATAATAA-TAATAGCAATAAAAAATAAT
1 AATAA-AAGTAATAGCAATAAAAAATAAT
18159588 AATA
1 AATA
18159592 GTGATATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (28 bp):
AATAAAAGTAATAGCAATAAAAAATAAT
Found at i:18159778 original size:18 final size:18
Alignment explanation
Indices: 18159760--18159805 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 18
18159750 AAGTATAAAT
18159760 ATAATGATATATAAGAATA
1 ATAAT-ATATATAAGAATA
*
18159779 ATACTATATATAA-AA-A
1 ATAATATATATAAGAATA
18159795 AT-ATATATATA
1 ATAATATATATA
18159806 CACGTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 8 0.32
16 3 0.12
17 2 0.08
18 8 0.32
19 4 0.16
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (18 bp):
ATAATATATATAAGAATA
Done.