Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 127 of 190
Found at i:20001490 original size:146 final size:147
Alignment explanation
Indices: 20001318--20001834 Score: 406
Period size: 146 Copynumber: 3.7 Consensus size: 147
20001308 CCCTTAGAGA
* *
20001318 GTATTTTTGTAATTTGACCTTCTTGAGCTCAAAATTTT-GTGAAA-ATTTTTAAGATCTTAATTT
1 GTATTTTAGTAATTTGACCTTCTTGAGCTC-AAATTTTCATGAAACATTTTT-AGATCTTAATTT
* * * * *
20001381 CAAAATATTTAATGATTTTTGGTAG-ATTTGAAATCATAGTAGTACCCTGAGAAGTGTGAAAGTA
64 CAAAATATTTAATGATTTTTGAT-GCATTTGAAATCATAGCAATACCCTGAAAAATGTGAAAGTA
20001445 CCAAAATA-CCCTTATAAGG
128 CCAAAATATCCCTTATAAGG
* * *
20001464 GTATTTTAGTAATTTGACCTTTTTGAGCTCAGATTTTCATGAAACCTTTTTAGATCTTAATTTCA
1 GTATTTTAGTAATTTGACCTTCTTGAGCTCAAATTTTCATGAAACATTTTTAGATCTTAATTTCA
* * * * *
20001529 TAATATTTTATGATTTTTGATGCATTTGAAATCATAGCAATACCTTGAAAAATGTGAAATTATCA
66 AAATATTTAATGATTTTTGATGCATTTGAAATCATAGCAATACCCTGAAAAATGTGAAAGTACCA
20001594 AAATATCCC-T-TAA-G
131 AAATATCCCTTATAAGG
* * * * * * *
20001608 G-----T--T-ATTT---CGTC-GGAGCTCAGATCTTCATGAAAC-TTTTCAAATCTTAATTTCG
1 GTATTTTAGTAATTTGACCTTCTTGAGCTCAAATTTTCATGAAACATTTTTAGATCTTAATTTCA
* * * ** * * * *
20001660 TAATATTTCATGATTTTTGGTAAATTTGAAATCATTGCAGTACCC-CAAAAA-GTGTAAATTACC
66 AAATATTTAATGATTTTTGATGCATTTGAAATCATAGCAATACCCTGAAAAATGTG-AAAGTACC
*
20001723 AAAATAT-CCTTATAAGA
130 AAAATATCCCTTATAAGG
* * * * *
20001740 ATATTTTTGTAATTTG-GCTAT-TTCAAGCTCAGATTTTCATGAAAC-TTTTTAGAT-TTAATTT
1 GTATTTTAGTAATTTGACCT-TCTT-GAGCTCAAATTTTCATGAAACATTTTTAGATCTTAATTT
* * * * *
20001801 TATAATATTTTATGATTTTTGGTGC-TTTAAAATC
64 CAAAATATTTAATGATTTTTGATGCATTTGAAATC
20001835 TAAAAAATGA
Statistics
Matches: 305, Mismatches: 45, Indels: 46
0.77 0.11 0.12
Matches are distributed among these distances:
129 5 0.02
130 20 0.07
131 57 0.19
132 20 0.07
133 2 0.01
136 4 0.01
137 2 0.01
139 2 0.01
140 4 0.01
142 9 0.03
143 28 0.09
144 28 0.09
145 10 0.03
146 106 0.35
147 8 0.03
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (147 bp):
GTATTTTAGTAATTTGACCTTCTTGAGCTCAAATTTTCATGAAACATTTTTAGATCTTAATTTCA
AAATATTTAATGATTTTTGATGCATTTGAAATCATAGCAATACCCTGAAAAATGTGAAAGTACCA
AAATATCCCTTATAAGG
Found at i:20001664 original size:131 final size:131
Alignment explanation
Indices: 20001488--20001731 Score: 339
Period size: 131 Copynumber: 1.9 Consensus size: 131
20001478 TGACCTTTTT
* * * * **
20001488 GAGCTCAGATTTTCATGAAACCTTTTTAGATCTTAATTTCATAATATTTTATGATTTTTGATGCA
1 GAGCTCAGATCTTCATGAAACCTTTTCAAATCTTAATTTCATAATATTTCATGATTTTTGATAAA
** *
20001553 TTTGAAATCATAGCAATACCTTGAAAAA-TGTGAAATTATCAAAATATCCCTTAAGGTTATTTCG
66 TTTGAAATCATAGCAATACC-CCAAAAAGTGT-AAATTACCAAAATATCCCTTAAGGTTATTTCG
20001617 TCG
129 TCG
* *
20001620 GAGCTCAGATCTTCATGAAA-CTTTTCAAATCTTAATTTCGTAATATTTCATGATTTTTGGTAAA
1 GAGCTCAGATCTTCATGAAACCTTTTCAAATCTTAATTTCATAATATTTCATGATTTTTGATAAA
* *
20001684 TTTGAAATCATTGCAGTACCCCAAAAAGTGTAAATTACCAAAATATCC
66 TTTGAAATCATAGCAATACCCCAAAAAGTGTAAATTACCAAAATATCC
20001732 TTATAAGAAT
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
130 21 0.21
131 58 0.59
132 19 0.19
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (131 bp):
GAGCTCAGATCTTCATGAAACCTTTTCAAATCTTAATTTCATAATATTTCATGATTTTTGATAAA
TTTGAAATCATAGCAATACCCCAAAAAGTGTAAATTACCAAAATATCCCTTAAGGTTATTTCGTC
G
Found at i:20012165 original size:16 final size:16
Alignment explanation
Indices: 20012144--20012174 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
20012134 GTAGCTTACC
20012144 AAACTTTTCTATGTGA
1 AAACTTTTCTATGTGA
20012160 AAACTTTTCTATGTG
1 AAACTTTTCTATGTG
20012175 TAAGTAATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (16 bp):
AAACTTTTCTATGTGA
Found at i:20017632 original size:50 final size:50
Alignment explanation
Indices: 20017569--20017838 Score: 287
Period size: 50 Copynumber: 5.3 Consensus size: 50
20017559 AAGAAAAGGA
20017569 AAACAAGATTTTTAAAGTGTCAAAGCCTCTATTTAGGGGAAGCTATTTTC
1 AAACAAGATTTTTAAAGTGTCAAAGCCTCTATTTAGGGGAAGCTATTTTC
* * *
20017619 AAATAAGATTTTTAAAGT-TACAAAGCCTTTATTTA-GGTAGAGCTATTTTC
1 AAACAAGATTTTTAAAGTGT-CAAAGCCTCTATTTAGGGGA-AGCTATTTTC
* * * * * *
20017669 AAACAAGATTTTAAAATTTTTAAAGCCTCTATTTAAGGGAAGCCATTTTC
1 AAACAAGATTTTTAAAGTGTCAAAGCCTCTATTTAGGGGAAGCTATTTTC
* * * * *
20017719 AAACAAGATTTTTAAAGTTTCAAAGCCTCTGTCTATGGGG-AGCCATTTTG
1 AAACAAGATTTTTAAAGTGTCAAAGCCTCTATTTA-GGGGAAGCTATTTTC
* * *
20017769 AAACAAGATTTTAAAAGATTGTCAAAGCATCTATTTAGGGAAAG-TCATTTTC
1 AAACAAGATTTTTAAAG--TGTCAAAGCCTCTATTTAGGGGAAGCT-ATTTTC
*
20017821 AAACAAGACCTTTTAAAG
1 AAACAAGA-TTTTTAAAG
20017839 CTTTAATGAC
Statistics
Matches: 183, Mismatches: 27, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
49 4 0.02
50 133 0.73
51 10 0.05
52 29 0.16
53 7 0.04
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (50 bp):
AAACAAGATTTTTAAAGTGTCAAAGCCTCTATTTAGGGGAAGCTATTTTC
Found at i:20017743 original size:100 final size:100
Alignment explanation
Indices: 20017569--20017838 Score: 328
Period size: 100 Copynumber: 2.7 Consensus size: 100
20017559 AAGAAAAGGA
* * * * *
20017569 AAACAAGATTTTTAAAGTGTCAAAGCCTCTATTTAGGGGAAGCTATTTTCAAATAAGATTTTTAA
1 AAACAAGATTTTAAAATTGTCAAAGCCTCTATTTAAGGGAAGCCATTTTCAAACAAGATTTTTAA
* * *
20017634 AGTTACAAAGCCTTTATTTA-GGTAGAGCTATTTTC
66 AGTTACAAAGCCTCTATCTATGG-AGAGCCATTTTC
* *
20017669 AAACAAGATTTTAAAATTTTTAAAGCCTCTATTTAAGGGAAGCCATTTTCAAACAAGATTTTTAA
1 AAACAAGATTTTAAAATTGTCAAAGCCTCTATTTAAGGGAAGCCATTTTCAAACAAGATTTTTAA
* * * *
20017734 AGTTTCAAAGCCTCTGTCTATGGGGAGCCATTTTG
66 AGTTACAAAGCCTCTATCTATGGAGAGCCATTTTC
* * *
20017769 AAACAAGATTTTAAAAGATTGTCAAAGCATCTATTT-AGGGAAAGTCATTTTCAAACAAGACCTT
1 AAACAAGATTTT-AAA-ATTGTCAAAGCCTCTATTTAAGGG-AAGCCATTTTCAAACAAGA-TTT
20017833 TTAAAG
62 TTAAAG
20017839 CTTTAATGAC
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
100 95 0.65
101 9 0.06
102 34 0.23
103 8 0.05
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (100 bp):
AAACAAGATTTTAAAATTGTCAAAGCCTCTATTTAAGGGAAGCCATTTTCAAACAAGATTTTTAA
AGTTACAAAGCCTCTATCTATGGAGAGCCATTTTC
Found at i:20018749 original size:144 final size:142
Alignment explanation
Indices: 20018453--20018826 Score: 511
Period size: 145 Copynumber: 2.6 Consensus size: 142
20018443 GCCTTTTAAT
* * * * *
20018453 GGGTATTTTTGTAATTTAGCTTTTTCAAGCTTGAATTTTCATGAAACTTTCTAGATTTTAATATC
1 GGGTA-TTTTGTAATTTAGCTTTTT-TAGCTTGGATTTTCATGAAACTTTTTAGATCTTAATTTC
*
20018518 ATAATATTTCATGATTTTTGGAATATTTGAAATCATAGCAGTACCTCAAAAAATATGAAATTACC
64 ATAATATTTCATGATTTTTGG-TTATTTGAAATCATAGCAGTACCTCAAAAAATATGAAATTACC
*
20018583 AAAATACCCCTATAA
128 AAAATACCCCAATAA
*
20018598 GAGTATTTTGGTAATTTAGCTTTTTTGAGCTTGGATTTTCATGAAACTTTTTAGATCTTAATTTC
1 GGGTATTTT-GTAATTTAGCTTTTTT-AGCTTGGATTTTCATGAAACTTTTTAGATCTTAATTTC
*
20018663 ATAATATTTCATGATTTTTGGTTCA-TTGAAATCATAGCAGTA-CTCCAAAAAGTATGAAATTAC
64 ATAATATTTCATGATTTTTGGTT-ATTTGAAATCATAGCAGTACCT-CAAAAAATATGAAATTAC
*
20018726 TAAAATACCCCAATAA
127 CAAAATACCCCAATAA
* ** * * *
20018742 GGGTATTTTGTAATTT-GTCCTTCCTAGATTGGATTTTCATGAAACTTTTCAGATCTTAATTTTA
1 GGGTATTTTGTAATTTAG-CTTTTTTAGCTTGGATTTTCATGAAACTTTTTAGATCTTAATTTCA
20018806 TAATATTTCATGATTTTTGGT
65 TAATATTTCATGATTTTTGGT
20018827 GTTTTAAAAT
Statistics
Matches: 207, Mismatches: 17, Indels: 13
0.87 0.07 0.05
Matches are distributed among these distances:
142 58 0.28
143 13 0.06
144 61 0.29
145 75 0.36
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (142 bp):
GGGTATTTTGTAATTTAGCTTTTTTAGCTTGGATTTTCATGAAACTTTTTAGATCTTAATTTCAT
AATATTTCATGATTTTTGGTTATTTGAAATCATAGCAGTACCTCAAAAAATATGAAATTACCAAA
ATACCCCAATAA
Found at i:20018837 original size:142 final size:144
Alignment explanation
Indices: 20018487--20018826 Score: 476
Period size: 142 Copynumber: 2.4 Consensus size: 144
20018477 TCAAGCTTGA
* * *
20018487 ATTTTCATGAAAC-TTTCTAGATTTTAATATCATAATATTTCATGATTTTTGGAATATTTGAAAT
1 ATTTTCATGAAACTTTTC-AGATCTTAATTTCATAATATTTCATGATTTTTGG-TTATTTGAAAT
*
20018551 CATAGCAGTACCTCAAAAAATATGAAATTACCAAAATACCCCTATAAGAGTATTTTGGTAATTTA
64 CATAGCAGTACCTCAAAAAATATGAAATTACCAAAATACCCCAATAAGAGTATTTTGGTAATTTA
* ** *
20018616 GCTTTTTTGAGCTTGG
129 GCCTTCCTGAGATTGG
*
20018632 ATTTTCATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTTCA-TTGAAATC
1 ATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTT-ATTTGAAATC
* * *
20018696 ATAGCAGTA-CTCCAAAAAGTATGAAATTACTAAAATACCCCAATAAGGGTATTTT-GTAATTT-
65 ATAGCAGTACCT-CAAAAAATATGAAATTACCAAAATACCCCAATAAGAGTATTTTGGTAATTTA
20018758 GTCCTTCCT-AGATTGG
129 G-CCTTCCTGAGATTGG
*
20018774 ATTTTCATGAAACTTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGGT
1 ATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGT
20018827 GTTTTAAAAT
Statistics
Matches: 177, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
142 58 0.33
143 13 0.07
144 57 0.32
145 46 0.26
146 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (144 bp):
ATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTTATTTGAAATCA
TAGCAGTACCTCAAAAAATATGAAATTACCAAAATACCCCAATAAGAGTATTTTGGTAATTTAGC
CTTCCTGAGATTGG
Found at i:20021755 original size:14 final size:14
Alignment explanation
Indices: 20021731--20021770 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
20021721 TTAGAACAGT
20021731 TTTTCTTTAATTTA
1 TTTTCTTTAATTTA
20021745 TATTT-TTTAA-TTA
1 T-TTTCTTTAATTTA
20021758 TTTTCTTTAATTT
1 TTTTCTTTAATTT
20021771 GAATAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.13
13 9 0.39
14 8 0.35
15 3 0.13
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCTTTAATTTA
Found at i:20031178 original size:18 final size:18
Alignment explanation
Indices: 20031157--20031198 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
20031147 CTAAACCTTG
20031157 GAAGAAGGAATAGCATTA
1 GAAGAAGGAATAGCATTA
20031175 GAAGAAGGAATAGCATTA
1 GAAGAAGGAATAGCATTA
20031193 GAAGAA
1 GAAGAA
20031199 AGGTTAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.52, C:0.05, G:0.29, T:0.14
Consensus pattern (18 bp):
GAAGAAGGAATAGCATTA
Found at i:20034416 original size:18 final size:19
Alignment explanation
Indices: 20034395--20034438 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
20034385 TTAAGGTTTA
*
20034395 TGGGGTTTTTATAG-AATT
1 TGGGGTTTTCATAGAAATT
20034413 TGGGG-TTTCATAGAAATT
1 TGGGGTTTTCATAGAAATT
*
20034431 TAGGGTTT
1 TGGGGTTT
20034439 GGGGTTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 7 0.32
18 13 0.59
19 2 0.09
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (19 bp):
TGGGGTTTTCATAGAAATT
Found at i:20034472 original size:17 final size:16
Alignment explanation
Indices: 20034450--20034494 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 16
20034440 GGGTTTAGGG
20034450 TTCATGGAATTTGAGGT
1 TTCATGGAATTTG-GGT
20034467 TTCATGGGAATTTTGGGT
1 TTCAT-GGAA-TTTGGGT
20034485 TTCATGGAAT
1 TTCATGGAAT
20034495 AATGCATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.04
17 9 0.35
18 12 0.46
19 4 0.15
ACGTcount: A:0.22, C:0.07, G:0.29, T:0.42
Consensus pattern (16 bp):
TTCATGGAATTTGGGT
Found at i:20035448 original size:10 final size:10
Alignment explanation
Indices: 20035426--20035468 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
20035416 TTTCTTTAAA
*
20035426 TTTTTTCTC-
1 TTTTTTCCCT
20035435 TTTTTTCCCT
1 TTTTTTCCCT
20035445 TTTTTTCCACCT
1 TTTTTT-C-CCT
20035457 TTTTTTCCCT
1 TTTTTTCCCT
20035467 TT
1 TT
20035469 GATTTCCTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 8 0.27
10 11 0.37
11 2 0.07
12 9 0.30
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTTCCCT
Found at i:20035483 original size:22 final size:20
Alignment explanation
Indices: 20035432--20035485 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
20035422 TAAATTTTTT
*
20035432 CTCTTTTTTCCCTTTTTTTC
1 CTCTTTTTTCCCTTTATTTC
*
20035452 CACCTTTTTTTCCCTTTGATTTC
1 C-TC-TTTTTTCCCTTT-ATTTC
20035475 CTCTATTTTTC
1 CTCT-TTTTTC
20035486 ATGCACTCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 1 0.04
21 2 0.07
22 19 0.70
23 5 0.19
ACGTcount: A:0.06, C:0.30, G:0.02, T:0.63
Consensus pattern (20 bp):
CTCTTTTTTCCCTTTATTTC
Found at i:20036493 original size:20 final size:20
Alignment explanation
Indices: 20036470--20036522 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
20036460 TTTGACCACT
20036470 TTTGACTAATTTTAATTAAG
1 TTTGACTAATTTTAATTAAG
* * *
20036490 TTTGACTAAATTTGATTAGG
1 TTTGACTAATTTTAATTAAG
*
20036510 TTTAATCTAATTT
1 TTTGA-CTAATTT
20036523 GACCTTAGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (20 bp):
TTTGACTAATTTTAATTAAG
Found at i:20036950 original size:48 final size:47
Alignment explanation
Indices: 20036856--20037237 Score: 314
Period size: 49 Copynumber: 8.0 Consensus size: 47
20036846 TTCTGGAAAT
* * * *
20036856 GCTCCTATAAAAATAGGCAACAGACTTTAAAAATCTCACTTTGAAAACG
1 GCTCTTATAAAGATAGGCAA-AAACTTTAAAAATCTCATTTTGAAAA-G
* *
20036905 ACTCTTACAAAGATAGGCAATAAACTTT-AAAATCTCATTTTGAAAAG
1 GCTCTTATAAAGATAGGCAA-AAACTTTAAAAATCTCATTTTGAAAAG
* * *
20036952 GTTCTTATAACGATAGGCAATAAACATTT-AAGATCT-ATTTTTGAAAAGG
1 GCTCTTATAAAGATAGGCAA-AAAC-TTTAAAAATCTCA-TTTTGAAAA-G
* * * *
20037001 GCTCCTA-AAGGATA-GCAAAAACTTTAAAAATCAC-TTTGGAAAAGG
1 GCTCTTATAAAGATAGGCAAAAACTTTAAAAATCTCATTTTGAAAA-G
* * * *
20037046 GTTCCTATAAAGATAGGCAAACAACTTTAAAAATCTCATTCTAAAAAGG
1 GCTCTTATAAAGATAGGCAAA-AACTTTAAAAATCTCATTTTGAAAA-G
* * * * ** *
20037095 GCTCCTATAAAGATAGGCAAACA-TTTTACAAT-TTTTTTTTAAAAG
1 GCTCTTATAAAGATAGGCAAAAACTTTAAAAATCTCATTTTGAAAAG
* *
20037140 AGCTTTTATAAAGATAGG-AACAAACTTTAAAAATCTCACTTTGCAAAAG
1 -GCTCTTATAAAGATAGGCAA-AAACTTTAAAAATCTCATTTTG-AAAAG
* * *
20037189 GCTCTTATAGAGATAGGCAATAAACTTTAAAAATTTCATTTTCAAAAG
1 GCTCTTATAAAGATAGGCAA-AAACTTTAAAAATCTCATTTTGAAAAG
20037237 G
1 G
20037238 TTTTAAATGT
Statistics
Matches: 271, Mismatches: 47, Indels: 31
0.78 0.13 0.09
Matches are distributed among these distances:
45 22 0.08
46 40 0.15
47 46 0.17
48 81 0.30
49 82 0.30
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (47 bp):
GCTCTTATAAAGATAGGCAAAAACTTTAAAAATCTCATTTTGAAAAG
Found at i:20037093 original size:94 final size:95
Alignment explanation
Indices: 20036858--20037220 Score: 293
Period size: 94 Copynumber: 3.8 Consensus size: 95
20036848 CTGGAAATGC
* * * *
20036858 TCCTATAAAAATAGGC-AACAGACTTTAAAAATCTCACTTTGAAAACGACTCTTACAAAGATAGG
1 TCCTATAAAGATAGGCAAACA-ACTTTAAAAATCTCACTTTGAAAAGGGCTCCTACAAAGATAGG
* *
20036922 CAATAAACTTTAAAATCTCATTTTGAAAAGGT
65 CAA-AAACTTTAAAATCACATTTGGAAAAGGT
* * * * *
20036954 TCTTATAACGATAGGCAATA-AACATTT-AAGATCT-ATTTTTGAAAAGGGCTCCTA-AAGGATA
1 TCCTATAAAGATAGGCAA-ACAAC-TTTAAAAATCTCA-CTTTGAAAAGGGCTCCTACAAAGATA
20037015 -GCAAAAACTTTAAAAATCAC-TTTGGAAAAGGGT
63 GGCAAAAACTTT-AAAATCACATTTGGAAAA-GGT
* *
20037048 TCCTATAAAGATAGGCAAACAACTTTAAAAATCTCA-TTCTAAAAAGGGCTCCTATAAAGATAGG
1 TCCTATAAAGATAGGCAAACAACTTTAAAAATCTCACTT-TGAAAAGGGCTCCTACAAAGATAGG
* * * *** **
20037112 CAAACATTTTACAAT-TTTTTTTTAAAAGAGCT
65 CAAAAACTTTAAAATCACATTTGGAAAAG-G-T
* * * *
20037144 T-TTATAAAGATAGG--AACAAACTTTAAAAATCTCACTTTGCAAAA-GGCTCTTATAGAGATAG
1 TCCTATAAAGATAGGCAAAC-AACTTTAAAAATCTCACTTTG-AAAAGGGCTCCTACAAAGATAG
20037205 GCAATAAACTTTAAAA
64 GCAA-AAACTTTAAAA
20037221 ATTTCATTTT
Statistics
Matches: 218, Mismatches: 30, Indels: 39
0.76 0.10 0.14
Matches are distributed among these distances:
93 24 0.11
94 90 0.41
95 52 0.24
96 46 0.21
97 5 0.02
98 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (95 bp):
TCCTATAAAGATAGGCAAACAACTTTAAAAATCTCACTTTGAAAAGGGCTCCTACAAAGATAGGC
AAAAACTTTAAAATCACATTTGGAAAAGGT
Found at i:20037285 original size:27 final size:25
Alignment explanation
Indices: 20037214--20037287 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
20037204 GGCAATAAAC
* * *
20037214 TTTAAAAATTTCATTTTCAAAAGGT
1 TTTAAAAGTCTCATTTTGAAAAGGT
* * * *
20037239 TTTAAATGTCTAATTCTGAAGAAGTT
1 TTTAAAAGTCTCATTTTGAA-AAGGT
20037265 TTTGAAAAGTCTCATTTTGAAAA
1 TTT-AAAAGTCTCATTTTGAAAA
20037288 ATTGGGTTAC
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
25 14 0.38
26 9 0.24
27 14 0.38
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (25 bp):
TTTAAAAGTCTCATTTTGAAAAGGT
Found at i:20037880 original size:14 final size:15
Alignment explanation
Indices: 20037858--20037905 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
20037848 CCATTGTTCT
20037858 TTCATCATTTCATTC-
1 TTCA-CATTTCATTCA
20037873 TTCACA-TTCACTTCA
1 TTCACATTTCA-TTCA
20037888 TTC-CATTTCATTCA
1 TTCACATTTCATTCA
20037902 TTCA
1 TTCA
20037906 TGTTCACCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.14
14 14 0.48
15 11 0.38
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.48
Consensus pattern (15 bp):
TTCACATTTCATTCA
Found at i:20038573 original size:8 final size:8
Alignment explanation
Indices: 20038560--20038590 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
20038550 GTTCCTCTTT
20038560 TTTTTTTC
1 TTTTTTTC
20038568 TTTTTTTC
1 TTTTTTTC
*
20038576 TTTTTTTG
1 TTTTTTTC
20038584 TTTTTTT
1 TTTTTTT
20038591 TTTACATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.90
Consensus pattern (8 bp):
TTTTTTTC
Found at i:20038577 original size:19 final size:19
Alignment explanation
Indices: 20038555--20038593 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
20038545 ACCTGGTTCC
20038555 TCTTTTTTT-TTTCTTTTTT
1 TCTTTTTTTGTTT-TTTTTT
20038574 TCTTTTTTTGTTTTTTTTT
1 TCTTTTTTTGTTTTTTTTT
20038593 T
1 T
20038594 ACATTTAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.90
Consensus pattern (19 bp):
TCTTTTTTTGTTTTTTTTT
Found at i:20053681 original size:71 final size:71
Alignment explanation
Indices: 20053593--20053728 Score: 227
Period size: 71 Copynumber: 1.9 Consensus size: 71
20053583 ACATTGAAGG
* * * *
20053593 ATAAAAAAGTAACGTCACTATGAATGCTTGGTTGCCATAAGCTAGTTATCCATGTGGTAACTTTT
1 ATAAAAAAGCAACGTCACTATGAATGCTTGGCTACCACAAGCTAGTTATCCATGTGGTAACTTTT
20053658 TTGATA
66 TTGATA
*
20053664 ATAAAAAAGCAATGTCACTATGAATGCTTGGCTACCACAAGCTAGTTATCCATGTGGTAACTTTT
1 ATAAAAAAGCAACGTCACTATGAATGCTTGGCTACCACAAGCTAGTTATCCATGTGGTAACTTTT
20053729 CTTATACCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (71 bp):
ATAAAAAAGCAACGTCACTATGAATGCTTGGCTACCACAAGCTAGTTATCCATGTGGTAACTTTT
TTGATA
Found at i:20055846 original size:32 final size:32
Alignment explanation
Indices: 20055800--20055936 Score: 123
Period size: 32 Copynumber: 4.6 Consensus size: 32
20055790 TCCTGTTGAC
* *
20055800 TATAACCATGCAAATAAACATGCAATTAAATA
1 TATAATCATACAAATAAACATGCAATTAAATA
20055832 TATAATCATACAAAT--A-AT--AA-T--ATA
1 TATAATCATACAAATAAACATGCAATTAAATA
* *
20055856 TA-AATCGTGA-AAATAAATATGCAATTAAATA
1 TATAATCAT-ACAAATAAACATGCAATTAAATA
* * *
20055887 TATAATCATACAAATAAACATACAAATAAACA
1 TATAATCATACAAATAAACATGCAATTAAATA
*
20055919 TATAATCATGCAAATAAA
1 TATAATCATACAAATAAA
20055937 TATATTAATA
Statistics
Matches: 85, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
23 9 0.11
24 6 0.07
25 1 0.01
26 3 0.04
27 2 0.02
28 2 0.02
29 3 0.04
30 1 0.01
31 6 0.07
32 52 0.61
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (32 bp):
TATAATCATACAAATAAACATGCAATTAAATA
Found at i:20055903 original size:12 final size:12
Alignment explanation
Indices: 20055888--20055920 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
20055878 AATTAAATAT
*
20055888 ATAATCATACAA
1 ATAAACATACAA
20055900 ATAAACATACAA
1 ATAAACATACAA
20055912 ATAAACATA
1 ATAAACATA
20055921 TAATCATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.21
Consensus pattern (12 bp):
ATAAACATACAA
Found at i:20055904 original size:20 final size:20
Alignment explanation
Indices: 20055900--20055989 Score: 81
Period size: 20 Copynumber: 4.1 Consensus size: 20
20055890 AATCATACAA
* *
20055900 ATAAACATACAAATAAACAT
1 ATAATCATACAAATAAATAT
*
20055920 ATAATCATGCAAATAAATATATT
1 ATAATCATACAAAT-AA-ATA-T
20055943 AATAATCAAATATGCAAATAAATAT
1 -ATAATC--ATA--CAAATAAATAT
20055968 ATAATCATACAAATAAATAT
1 ATAATCATACAAATAAATAT
20055988 AT
1 AT
20055990 TAACCATGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
20 25 0.43
21 2 0.03
22 5 0.09
23 1 0.02
24 12 0.21
25 1 0.02
26 5 0.09
27 2 0.03
28 5 0.09
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAATCATACAAATAAATAT
Found at i:20055947 original size:32 final size:32
Alignment explanation
Indices: 20055866--20055971 Score: 103
Period size: 32 Copynumber: 3.4 Consensus size: 32
20055856 TAAATCGTGA
** * * *
20055866 AAATAAATATGCAATTAAATATATAATCATAC
1 AAATAAATATATAAATAAACATATAATCATGC
* *
20055898 AAATAAACATACAAATAAACATATAATCATGC
1 AAATAAATATATAAATAAACATATAATCATGC
* *
20055930 AAATAAATATATTAATAATC--A-AAT-ATGC
1 AAATAAATATATAAATAAACATATAATCATGC
20055958 AAATAAATATATAA
1 AAATAAATATATAA
20055972 TCATACAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 17 0.27
29 3 0.05
30 1 0.02
32 43 0.67
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.28
Consensus pattern (32 bp):
AAATAAATATATAAATAAACATATAATCATGC
Found at i:20056054 original size:20 final size:18
Alignment explanation
Indices: 20056016--20056061 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
20056006 TATATTGGGC
20056016 AAATAAATTATCATACAA
1 AAATAAATTATCATACAA
* *
20056034 ATATAATATTAGTCATGCAA
1 AAATAA-ATTA-TCATACAA
20056054 AAATAAAT
1 AAATAAAT
20056062 ACCATGCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 5 0.22
19 6 0.26
20 12 0.52
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (18 bp):
AAATAAATTATCATACAA
Found at i:20056982 original size:42 final size:42
Alignment explanation
Indices: 20056923--20057406 Score: 503
Period size: 42 Copynumber: 11.4 Consensus size: 42
20056913 TGAAACATGT
* * ** *
20056923 TTTTTAAAAAAAAATGCTCCCTTACAACTAAGGCTTTGAAAC
1 TTTTGAAAATAAAATGCTCCCCCACAACTGAGGCTTTGAAAC
* * *
20056965 TTTTGAAAATAAAATGCTCTCCCACAATTGAGGGTTT-AGAAC
1 TTTTGAAAATAAAATGCTCCCCCACAACTGAGGCTTTGA-AAC
* * * *
20057007 TTCTGAAAAATGAAATGCTCCCCCACAATTGAGGCTTTGGAAC
1 TTTTG-AAAATAAAATGCTCCCCCACAACTGAGGCTTTGAAAC
* * *
20057050 TTTTGAAAATAAAATGCTCCTCTACAGCTGAGGCTTTGAAAC
1 TTTTGAAAATAAAATGCTCCCCCACAACTGAGGCTTTGAAAC
* ** * *
20057092 TTCTGAAAATAAAATGCTATCCCACAACTGA-ACGTTTGGAAC
1 TTTTGAAAATAAAATGCTCCCCCACAACTGAGGC-TTTGAAAC
* * * *
20057134 TTCTGAAAAATAAAATGCTCCCACACAATTAAGGCTTTTGAAAC
1 TTTTG-AAAATAAAATGCTCCCCCACAACTGAGGC-TTTGAAAC
* * *
20057178 -TTTGAAAATAAAAAGCTCCCCCACAATTGAGGCTTCGAAAC
1 TTTTGAAAATAAAATGCTCCCCCACAACTGAGGCTTTGAAAC
20057219 -TTTGAAAAATAAAATGCTCCCCCACAACTGAGGCTTTGAAAC
1 TTTTG-AAAATAAAATGCTCCCCCACAACTGAGGCTTTGAAAC
*
20057261 -TTTGAAAATAAAATGCTCCCCCACAACTGAGGCTTTGGAAC
1 TTTTGAAAATAAAATGCTCCCCCACAACTGAGGCTTTGAAAC
* *
20057302 TTTTAAAAAAATAAAATGCTCCCCCACAGCTGAGGCTTT-AAAGC
1 TTTT--GAAAATAAAATGCTCCCCCACAACTGAGGCTTTGAAA-C
* * * *
20057346 TTTTGAAAAAAAAAAATGCTCCTCCACAATTAAGGCTTTGAAAC
1 TTTTG--AAAATAAAATGCTCCCCCACAACTGAGGCTTTGAAAC
*
20057390 TTTTGGAAATTAAAATG
1 TTTT-GAAAATAAAATG
20057407 AGATCTTTCT
Statistics
Matches: 371, Mismatches: 56, Indels: 29
0.81 0.12 0.06
Matches are distributed among these distances:
41 49 0.13
42 171 0.46
43 71 0.19
44 76 0.20
45 4 0.01
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.27
Consensus pattern (42 bp):
TTTTGAAAATAAAATGCTCCCCCACAACTGAGGCTTTGAAAC
Found at i:20057028 original size:85 final size:82
Alignment explanation
Indices: 20056928--20057406 Score: 480
Period size: 85 Copynumber: 5.6 Consensus size: 82
20056918 CATGTTTTTT
* ** *
20056928 AAAAAAAAATGCTCCCTTACAACTAAGGCTTTGAAACTTTTGAAAATAAAATGCTCTCCCACAAT
1 AAAATAAAATGCTCCCCCACAACTAAGGCTTTGAAACTTTTGAAAATAAAATGCTC-CCCACAAC
*
20056993 TGAGGGTTT-AGAACTTCTG
65 TGAGGCTTTGA-AACTT-TG
* * * * * *
20057012 AAAAATGAAATGCTCCCCCACAATTGAGGCTTTGGAACTTTTGAAAATAAAATGCTCCTCTACAG
1 -AAAATAAAATGCTCCCCCACAACTAAGGCTTTGAAACTTTTGAAAATAAAATGCTCC-CCACAA
20057077 CTGAGGCTTTGAAACTTCTG
64 CTGAGGCTTTGAAACTT-TG
** * * *
20057097 AAAATAAAATGCTATCCCACAACTGAACG-TTTGGAACTTCTGAAAAATAAAATGCTCCCACACA
1 AAAATAAAATGCTCCCCCACAACT-AAGGCTTTGAAACTTTTG-AAAATAAAATGCTCCC-CACA
* *
20057161 ATTAAGGCTTTTGAAACTTTG
63 ACTGAGGC-TTTGAAACTTTG
* * * *
20057182 AAAATAAAAAGCTCCCCCACAATTGAGGCTTCGAAAC-TTTGAAAAATAAAATGCTCCCCCACAA
1 AAAATAAAATGCTCCCCCACAACTAAGGCTTTGAAACTTTTG-AAAATAAAATGCT-CCCCACAA
20057246 CTGAGGCTTTGAAACTTTG
64 CTGAGGCTTTGAAACTTTG
* * *
20057265 AAAATAAAATGCTCCCCCACAACTGAGGCTTTGGAACTTTTAAAAAAATAAAATGCTCCCCCACA
1 AAAATAAAATGCTCCCCCACAACTAAGGCTTTGAAACTTTT--GAAAATAAAATGCT-CCCCACA
*
20057330 GCTGAGGCTTT-AAAGCTTTTG
63 ACTGAGGCTTTGAAA-C-TTTG
* * * *
20057351 AAAAAAAAAAATGCTCCTCCACAATTAAGGCTTTGAAACTTTTGGAAATTAAAATG
1 --AAAATAAAATGCTCCCCCACAACTAAGGCTTTGAAACTTTT-GAAAATAAAATG
20057407 AGATCTTTCT
Statistics
Matches: 332, Mismatches: 47, Indels: 28
0.82 0.12 0.07
Matches are distributed among these distances:
83 45 0.14
84 69 0.21
85 157 0.47
86 15 0.05
87 10 0.03
88 36 0.11
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.27
Consensus pattern (82 bp):
AAAATAAAATGCTCCCCCACAACTAAGGCTTTGAAACTTTTGAAAATAAAATGCTCCCCACAACT
GAGGCTTTGAAACTTTG
Found at i:20057161 original size:127 final size:127
Alignment explanation
Indices: 20056923--20057359 Score: 535
Period size: 127 Copynumber: 3.4 Consensus size: 127
20056913 TGAAACATGT
* * ** *
20056923 TTTTTAAAAAAAAATGCTCCCTTACAACTAAGGCTTTGAAACTTTTGAAAATAAAATGCTCTCCC
1 TTTTGAAAATAAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAATAAAATGCTCTCCC
* * * *
20056988 ACAATTGAGGGTTTAGAACTTCTGAAAAATGAAATGCTCCCCCACAATTGAGGCTTTGGAAC
66 ACAACTGAAGGTTTGGAACTTCTGAAAAATAAAATGCTCCCCCACAATTGAGGCTTTGGAAC
* * * * *
20057050 TTTTGAAAATAAAATGCTCCTCTACAGCTGAGGCTTTGAAACTTCTGAAAATAAAATGCTATCCC
1 TTTTGAAAATAAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAATAAAATGCTCTCCC
* * * *
20057115 ACAACTGAACGTTTGGAACTTCTGAAAAATAAAATGCTCCCACACAATTAAGGCTTTTGAAAC
66 ACAACTGAAGGTTTGGAACTTCTGAAAAATAAAATGCTCCCCCACAATTGAGGC-TTTGGAAC
* * * *
20057178 -TTTGAAAATAAAAAGCTCCCCCACAATTGAGGCTTCGAAAC-TTTGAAAAATAAAATGCTCCCC
1 TTTTGAAAATAAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTG-AAAATAAAATGCTCTCC
* *
20057241 CACAACTG-AGGCTTTGAAACTT-TG-AAAATAAAATGCTCCCCCACAACTGAGGCTTTGGAAC
65 CACAACTGAAGG-TTTGGAACTTCTGAAAAATAAAATGCTCCCCCACAATTGAGGCTTTGGAAC
* * *
20057302 TTTTAAAAAAATAAAATGCTCCCCCACAGCTGAGGCTTT-AAAGCTTTTGAAAAAAAAA
1 TTTT--GAAAATAAAATGCTCCCCCACAACTGAGGCTTTGAAA-CTTTTGAAAATAAAA
20057360 AATGCTCCTC
Statistics
Matches: 265, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
124 7 0.03
125 29 0.11
126 10 0.04
127 208 0.78
128 11 0.04
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (127 bp):
TTTTGAAAATAAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAATAAAATGCTCTCCC
ACAACTGAAGGTTTGGAACTTCTGAAAAATAAAATGCTCCCCCACAATTGAGGCTTTGGAAC
Found at i:20061427 original size:49 final size:49
Alignment explanation
Indices: 20061373--20061467 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
20061363 AATAATAGTT
* *
20061373 TCCAACTGCCCCTTCAATTCTTCTTATGTTTTTTCTAGCTTTTGGAGGC
1 TCCAACTGCCCATTCAATTCTTCTTATGCTTTTTCTAGCTTTTGGAGGC
* * * *
20061422 TCCAACTGCCCATTTAGTTCTTCTTTTGCTTTTTCTAGTTTTTGGA
1 TCCAACTGCCCATTCAATTCTTCTTATGCTTTTTCTAGCTTTTGGA
20061468 AGTGAAGAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.14, C:0.24, G:0.14, T:0.48
Consensus pattern (49 bp):
TCCAACTGCCCATTCAATTCTTCTTATGCTTTTTCTAGCTTTTGGAGGC
Found at i:20062449 original size:14 final size:15
Alignment explanation
Indices: 20062421--20062450 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20062411 ATGGATGTAA
20062421 TTAAGATTCTTTTTG
1 TTAAGATTCTTTTTG
20062436 TTAAGATT-TTTTTG
1 TTAAGATTCTTTTTG
20062450 T
1 T
20062451 GGCAATCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.20, C:0.03, G:0.13, T:0.63
Consensus pattern (15 bp):
TTAAGATTCTTTTTG
Found at i:20063698 original size:20 final size:20
Alignment explanation
Indices: 20063661--20063766 Score: 81
Period size: 20 Copynumber: 5.0 Consensus size: 20
20063651 TCATGCAATA
*
20063661 ATAATAATCATACAAATATAT
1 ATAAT-ATCATGCAAATATAT
*
20063682 ATAATATTATGCAAATATAT
1 ATAATATCATGCAAATATAT
20063702 -TAATCATCATGC-AATAATAT
1 ATAAT-ATCATGCAAAT-ATAT
* * *
20063722 AAAATACCATACAAATATATT
1 ATAATATCATGCAAATATA-T
*
20063743 AATAACCATTCATGCAAATATAT
1 -ATAA-TA-TCATGCAAATATAT
20063766 A
1 A
20063767 ATCATGAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
19 7 0.10
20 31 0.46
21 12 0.18
22 4 0.06
23 2 0.03
24 11 0.16
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (20 bp):
ATAATATCATGCAAATATAT
Found at i:20063711 original size:57 final size:62
Alignment explanation
Indices: 20063631--20063771 Score: 170
Period size: 57 Copynumber: 2.3 Consensus size: 62
20063621 TGCAAGAATG
* * *
20063631 TCATGCAAATCTACTAA-CTATCATGCAATAATA-ATAAT-CATACAAATATA-T-ATAA-TAT
1 TCATGCAAATATA-TAATC-ATCATGCAATAATATAAAATACATACAAATATATTAATAACCAT
20063689 T-ATGCAAATATATTAATCATCATGCAATAATATAAAATACCATACAAATATATTAATAACCAT
1 TCATGCAAATATA-TAATCATCATGCAATAATATAAAATA-CATACAAATATATTAATAACCAT
20063752 TCATGCAAATATATAATCAT
1 TCATGCAAATATATAATCAT
20063772 GAAATCAAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
57 27 0.38
58 6 0.08
60 12 0.17
61 1 0.01
62 4 0.06
63 10 0.14
64 11 0.15
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.33
Consensus pattern (62 bp):
TCATGCAAATATATAATCATCATGCAATAATATAAAATACATACAAATATATTAATAACCAT
Found at i:20063771 original size:60 final size:60
Alignment explanation
Indices: 20063633--20063813 Score: 159
Period size: 57 Copynumber: 3.1 Consensus size: 60
20063623 CAAGAATGTC
* * * *
20063633 ATGCAAATCTACTAACTATCATGCAATAATA-ATAAT-CATACAAATATA-T-ATAATATT
1 ATGCAAATATATTAAC-ATCATGCAATAATATAAAATACATACAAATATATTAATAACATT
20063690 ATGCAAATATATTAATCATCATGCAATAATATAAAATACCATACAAATATATTAATAACCATT
1 ATGCAAATATATTAA-CATCATGCAATAATATAAAATA-CATACAAATATATTAATAA-CATT
* * * *
20063753 CATGCAAATATA-T-A-ATCATGAAATCAA-ATATAA-GCACACAAATATATTAAT-A-ATT
1 -ATGCAAATATATTAACATCATGCAAT-AATATAAAATACATACAAATATATTAATAACATT
20063808 ATGCAA
1 ATGCAA
20063814 TTAAATATAG
Statistics
Matches: 107, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
54 6 0.06
55 3 0.03
57 28 0.26
58 21 0.20
60 26 0.24
61 3 0.03
62 5 0.05
63 4 0.04
64 11 0.10
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (60 bp):
ATGCAAATATATTAACATCATGCAATAATATAAAATACATACAAATATATTAATAACATT
Found at i:20063952 original size:24 final size:24
Alignment explanation
Indices: 20063923--20063971 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
20063913 TTATGTAAAT
20063923 AAATATATTAATAATCATGCAAGC
1 AAATATATTAATAATCATGCAAGC
20063947 AAATATATTAATAATCATGCAAGC
1 AAATATATTAATAATCATGCAAGC
20063971 A
1 A
20063972 TGCAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (24 bp):
AAATATATTAATAATCATGCAAGC
Found at i:20064005 original size:22 final size:23
Alignment explanation
Indices: 20063980--20064022 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
20063970 CATGCAATTA
* *
20063980 AATATAT-TATCATGTAAATAGT
1 AATATATAAATCATGCAAATAGT
20064002 AATATATAAATCATGCAAATA
1 AATATATAAATCATGCAAATA
20064023 AATATGCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (23 bp):
AATATATAAATCATGCAAATAGT
Found at i:20064041 original size:55 final size:55
Alignment explanation
Indices: 20063971--20064165 Score: 309
Period size: 55 Copynumber: 3.5 Consensus size: 55
20063961 TCATGCAAGC
* ** *
20063971 ATGCAATTAAATATATTATCATGTAAATAGTAATATATAAATCATGCAAATAAAT
1 ATGCAATTAAATATATAATCATACAAATAATAATATATAAATCATGCAAATAAAT
20064026 ATGCAATTAAATATATAATCATACAAATAATAATATATAAATCATGCAAATAAAT
1 ATGCAATTAAATATATAATCATACAAATAATAATATATAAATCATGCAAATAAAT
* * *
20064081 ATACAATTAAATATATAATCATACAAATAATAATATACAAATCATGCAACTAAAT
1 ATGCAATTAAATATATAATCATACAAATAATAATATATAAATCATGCAAATAAAT
* *
20064136 AAGCAATTAAATATATAATCATGCAAATAA
1 ATGCAATTAAATATATAATCATACAAATAA
20064166 ACATACAAAT
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 130 1.00
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.31
Consensus pattern (55 bp):
ATGCAATTAAATATATAATCATACAAATAATAATATATAAATCATGCAAATAAAT
Found at i:20064075 original size:23 final size:22
Alignment explanation
Indices: 20064020--20064083 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
20064010 AATCATGCAA
*
20064020 ATAAAT-ATGC-AATTAAATAT
1 ATAAATCATGCAAATAAAATAT
*
20064040 AT-AATCATACAAATAATAATAT
1 ATAAATCATGCAAATAA-AATAT
20064062 ATAAATCATGCAAAT-AAATAT
1 ATAAATCATGCAAATAAAATAT
20064083 A
1 A
20064084 CAATTAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.08
20 5 0.14
21 10 0.27
22 8 0.22
23 11 0.30
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (22 bp):
ATAAATCATGCAAATAAAATAT
Found at i:20064104 original size:20 final size:19
Alignment explanation
Indices: 20064023--20064106 Score: 61
Period size: 20 Copynumber: 4.5 Consensus size: 19
20064013 CATGCAAATA
*
20064023 AATATGCAATTAAATATAT
1 AATATACAATTAAATATAT
*
20064042 AATCATACAAATAATAATATAT
1 AAT-ATAC-AATTA-AATATAT
**
20064064 AA-AT-C-ATGCAA-ATA-
1 AATATACAATTAAATATAT
20064078 AATATACAATTAAATATAT
1 AATATACAATTAAATATAT
20064097 AATCATACAA
1 AAT-ATACAA
20064107 ATAATAATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 17
0.68 0.08 0.23
Matches are distributed among these distances:
14 2 0.04
15 5 0.10
16 3 0.06
17 6 0.12
18 3 0.06
19 7 0.14
20 11 0.22
21 4 0.08
22 9 0.18
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
AATATACAATTAAATATAT
Found at i:20064120 original size:14 final size:16
Alignment explanation
Indices: 20064089--20064122 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
20064079 ATATACAATT
20064089 AAATATATAATCATAC
1 AAATATATAATCATAC
20064105 AAATA-ATAAT-ATAC
1 AAATATATAATCATAC
20064119 AAAT
1 AAAT
20064123 CATGCAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 5 0.28
16 5 0.28
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATATATAATCATAC
Found at i:20064157 original size:32 final size:32
Alignment explanation
Indices: 20064120--20064197 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 32
20064110 ATAATATACA
* * * *
20064120 AATCATGCAACTAAATA-AGCAATTAAATATAT
1 AATCATGCAAATAAACATA-CAAATAAACATAT
20064152 AATCATGCAAATAAACATACAAATAAACATAT
1 AATCATGCAAATAAACATACAAATAAACATAT
20064184 AATCATGCAAATAA
1 AATCATGCAAATAA
20064198 TAAATTATGC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 40 0.98
33 1 0.02
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.24
Consensus pattern (32 bp):
AATCATGCAAATAAACATACAAATAAACATAT
Found at i:20064240 original size:24 final size:24
Alignment explanation
Indices: 20064206--20064333 Score: 111
Period size: 24 Copynumber: 5.3 Consensus size: 24
20064196 AATAAATTAT
20064206 GCAAATAAATATATTAATAATCAA
1 GCAAATAAATATATTAATAATCAA
* * *
20064230 GTAATTAAATATATTAATAATCAT
1 GCAAATAAATATATTAATAATCAA
* *
20064254 G-TAATCAAAT-TA-AATATAATCATA
1 GCAAAT-AAATATATTA-ATAATCA-A
*
20064278 -CAAATAAATATATTAATAAATCAC
1 GCAAATAAATATATTAAT-AATCAA
*
20064302 GCAAATAAATATATTAATCATGCAA
1 GCAAATAAATATATTAATAAT-CAA
*
20064327 ACAAATA
1 GCAAATA
20064334 TACTAAGCAA
Statistics
Matches: 82, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
22 1 0.01
23 15 0.18
24 35 0.43
25 31 0.38
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.31
Consensus pattern (24 bp):
GCAAATAAATATATTAATAATCAA
Found at i:20064249 original size:72 final size:72
Alignment explanation
Indices: 20064152--20064319 Score: 180
Period size: 72 Copynumber: 2.3 Consensus size: 72
20064142 TTAAATATAT
* * ** * *
20064152 AATCATGCAAATAAACATACAAATAAACATATAATCATGCAAAT-AATA-AATTATGCAAATAAA
1 AATCAAGCAAATAAATATATTAATAAACATATAATCA---AAATAAATATAATCATACAAATAAA
20064215 TATATTAAT-
63 TATATTAATA
* * * * *
20064224 AATCAAGTAATTAAATATATTAATAATCATGTAATCAAATTAAATATAATCATACAAATAAATAT
1 AATCAAGCAAATAAATATATTAATAAACATATAATCAAAATAAATATAATCATACAAATAAATAT
20064289 ATTAATA
66 ATTAATA
*
20064296 AATCACGCAAATAAATATATTAAT
1 AATCAAGCAAATAAATATATTAAT
20064320 CATGCAAACA
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
69 3 0.04
70 4 0.05
71 22 0.28
72 50 0.63
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.31
Consensus pattern (72 bp):
AATCAAGCAAATAAATATATTAATAAACATATAATCAAAATAAATATAATCATACAAATAAATAT
ATTAATA
Found at i:20064361 original size:16 final size:16
Alignment explanation
Indices: 20064318--20064368 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
20064308 AAATATATTA
*
20064318 ATCATGCAAA-CAAAT
1 ATCATGCAAATAAAAT
*
20064333 ATACTAAGCAAATAAAAT
1 AT-C-ATGCAAATAAAAT
*
20064351 ATCATGCAAATATAAT
1 ATCATGCAAATAAAAT
20064367 AT
1 AT
20064369 TAGTCATACA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 2 0.07
16 14 0.48
17 7 0.24
18 6 0.21
ACGTcount: A:0.55, C:0.14, G:0.06, T:0.25
Consensus pattern (16 bp):
ATCATGCAAATAAAAT
Found at i:20066707 original size:8 final size:9
Alignment explanation
Indices: 20066686--20066710 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20066676 TCAAATTGTG
20066686 AAAAATTTT
1 AAAAATTTT
20066695 AAAAATTTT
1 AAAAATTTT
20066704 AAAAATT
1 AAAAATT
20066711 ATGAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAAATTTT
Found at i:20076429 original size:21 final size:22
Alignment explanation
Indices: 20076376--20076429 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
20076366 GTTTGAACTT
* *
20076376 TTGGGTGTGAATCTCTAGAATT
1 TTGGATGTGAATCTCTAGAATG
* *
20076398 TTAGAATGTGAATCTTTA-AATG
1 TT-GGATGTGAATCTCTAGAATG
20076420 TTGGATGTGA
1 TTGGATGTGA
20076430 GCCTTGCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 7 0.27
22 7 0.27
23 12 0.46
ACGTcount: A:0.28, C:0.06, G:0.26, T:0.41
Consensus pattern (22 bp):
TTGGATGTGAATCTCTAGAATG
Found at i:20076671 original size:18 final size:17
Alignment explanation
Indices: 20076650--20076786 Score: 71
Period size: 18 Copynumber: 7.8 Consensus size: 17
20076640 GAAATTCTTA
20076650 CAAATCTAAAAATTTTTG
1 CAAATCT-AAAATTTTTG
* * *
20076668 CAAATCTTAGATTCTTG
1 CAAATCTAAAATTTTTG
* * * *
20076685 CAAAACTGAGATATTTG
1 CAAATCTAAAATTTTTG
*
20076702 CAAATATAAAAATTATTATG
1 CAAATCT-AAAATT-TT-TG
*
20076722 --AATTTGAAAATTTTTG
1 CAAATCT-AAAATTTTTG
*
20076738 CCAATCTGAAAATTTTTG
1 CAAATCT-AAAATTTTTG
* * *
20076756 CGAATCTAAGATTTTTA
1 CAAATCTAAAATTTTTG
*
20076773 CGAATCTGAAAATT
1 CAAATCT-AAAATT
20076787 ATTATGAATA
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
16 2 0.02
17 42 0.45
18 46 0.49
19 2 0.02
20 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (17 bp):
CAAATCTAAAATTTTTG
Found at i:20076687 original size:17 final size:17
Alignment explanation
Indices: 20076664--20076706 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
20076654 TCTAAAAATT
*
20076664 TTTGCAAATCTTAGAT-
1 TTTGCAAATCTGAGATA
*
20076680 TCTTGCAAAACTGAGATA
1 T-TTGCAAATCTGAGATA
20076698 TTTGCAAAT
1 TTTGCAAAT
20076707 ATAAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 20 0.91
18 1 0.05
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (17 bp):
TTTGCAAATCTGAGATA
Found at i:20076769 original size:17 final size:18
Alignment explanation
Indices: 20076721--20076786 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
20076711 AAATTATTAT
*
20076721 GAATTTGAAAATTTTTGC
1 GAATCTGAAAATTTTTGC
*
20076739 CAATCTGAAAATTTTTGC
1 GAATCTGAAAATTTTTGC
* *
20076757 GAATCT-AAGATTTTTAC
1 GAATCTGAAAATTTTTGC
20076774 GAATCTGAAAATT
1 GAATCTGAAAATT
20076787 ATTATGAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
17 15 0.37
18 26 0.63
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (18 bp):
GAATCTGAAAATTTTTGC
Found at i:20076800 original size:18 final size:18
Alignment explanation
Indices: 20076710--20076801 Score: 73
Period size: 18 Copynumber: 5.2 Consensus size: 18
20076700 TGCAAATATA
*
20076710 AAAATTATTATGAATTTG
1 AAAATTATTATGAATCTG
20076728 AAAATT-TT-TGCCAATCTG
1 AAAATTATTATG--AATCTG
* **
20076746 AAAATTTTTGCGAATCT-
1 AAAATTATTATGAATCTG
* * *
20076763 AAGATTTTTACGAATCTG
1 AAAATTATTATGAATCTG
*
20076781 AAAATTATTATGAATATG
1 AAAATTATTATGAATCTG
20076799 AAA
1 AAA
20076802 GTCTTGTGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.03
17 17 0.28
18 39 0.64
19 2 0.03
20 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (18 bp):
AAAATTATTATGAATCTG
Found at i:20077598 original size:15 final size:15
Alignment explanation
Indices: 20077578--20077608 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20077568 TATGCAACCT
*
20077578 CCAACAAACCTAAAA
1 CCAACAAACCAAAAA
20077593 CCAACAAACCAAAAA
1 CCAACAAACCAAAAA
20077608 C
1 C
20077609 AAAAACAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.35, G:0.00, T:0.03
Consensus pattern (15 bp):
CCAACAAACCAAAAA
Found at i:20078569 original size:10 final size:9
Alignment explanation
Indices: 20078543--20078572 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
20078533 ATTTCTAAGG
20078543 AAATTATAA
1 AAATTATAA
20078552 AAATTATAA
1 AAATTATAA
20078561 AAATATATAA
1 AAAT-TATAA
20078571 AA
1 AA
20078573 TAAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AAATTATAA
Found at i:20089748 original size:23 final size:23
Alignment explanation
Indices: 20089718--20089772 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
20089708 GGTGGTTAAG
*
20089718 GCATGTGCCCGCACCAAGGCTTA
1 GCATGTGCCCGCACCAAGGCCTA
20089741 GCATGTGCCCGCACCAAGGCCTA
1 GCATGTGCCCGCACCAAGGCCTA
*
20089764 GCGTGTGCC
1 GCATGTGCC
20089773 AATAATGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.18, C:0.36, G:0.29, T:0.16
Consensus pattern (23 bp):
GCATGTGCCCGCACCAAGGCCTA
Found at i:20092353 original size:23 final size:22
Alignment explanation
Indices: 20092326--20092368 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
20092316 CAACAAAAAG
*
20092326 ATAAAACCAAAAAAATAAATAAA
1 ATAAAAACAAAAAAA-AAATAAA
*
20092349 ATAAAAACAAAATAAAAATA
1 ATAAAAACAAAAAAAAAATA
20092369 GGTAATTGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (22 bp):
ATAAAAACAAAAAAAAAATAAA
Found at i:20109040 original size:77 final size:77
Alignment explanation
Indices: 20108913--20109067 Score: 294
Period size: 77 Copynumber: 2.0 Consensus size: 77
20108903 TGCATAGCCA
20108913 ACACAAAGGTTGTGCTATATGTCAAGTTATCATGAATCATCAGAGCAATGAGCAAAGCCTACATC
1 ACACAAAGGTTGTGCTATATGTCAAGTTATCATGAATCATCAGAGCAATGAGCAAAGCCTACATC
20108978 GACCTTTTATCT
66 GACCTTTTATCT
20108990 ACACAAAGGTTGTG-TGATATGTCAAGTTATCATGAATCATCAGAGCAATGAGCAAAGCCTACAT
1 ACACAAAGGTTGTGCT-ATATGTCAAGTTATCATGAATCATCAGAGCAATGAGCAAAGCCTACAT
20109054 CGACCTTTTATCT
65 CGACCTTTTATCT
20109067 A
1 A
20109068 ATAAATACAT
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
76 1 0.01
77 76 0.99
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (77 bp):
ACACAAAGGTTGTGCTATATGTCAAGTTATCATGAATCATCAGAGCAATGAGCAAAGCCTACATC
GACCTTTTATCT
Found at i:20118405 original size:20 final size:20
Alignment explanation
Indices: 20118380--20118426 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
20118370 CTACACTTAT
20118380 GGCTAAATCCCTAGAATCAA
1 GGCTAAATCCCTAGAATCAA
20118400 GGCTAAATCCCTAGAATCAA
1 GGCTAAATCCCTAGAATCAA
*
20118420 AGCTAAA
1 GGCTAAA
20118427 ATCAAGGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (20 bp):
GGCTAAATCCCTAGAATCAA
Found at i:20137823 original size:21 final size:21
Alignment explanation
Indices: 20137794--20137840 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
20137784 CACAAGCATT
*
20137794 GAGATGTTTAGTACTAGGTTA
1 GAGACGTTTAGTACTAGGTTA
20137815 GAGACGTTTAGTACTAGGTTA
1 GAGACGTTTAGTACTAGGTTA
20137836 GAGAC
1 GAGAC
20137841 TTGGTGATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.32
Consensus pattern (21 bp):
GAGACGTTTAGTACTAGGTTA
Found at i:20143980 original size:24 final size:24
Alignment explanation
Indices: 20143953--20143998 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
20143943 TCATGCAAAT
20143953 ATAA-AATACTATACAAATATATTA
1 ATAACAATAC-ATACAAATATATTA
* *
20143977 ATAACCATTCATACAAATATAT
1 ATAACAATACATACAAATATAT
20143999 AATCATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAACAATACATACAAATATATTA
Found at i:20144292 original size:20 final size:20
Alignment explanation
Indices: 20144250--20144298 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
20144240 AAATAAATTA
*
20144250 ATAATCATCCAATTAAATGT
1 ATAATCATCCAATTAAATAT
*
20144270 ATAATCATGCAATTAACA-AT
1 ATAATCATCCAATTAA-ATAT
20144290 ATAAATCAT
1 AT-AATCAT
20144299 ACAAATAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (20 bp):
ATAATCATCCAATTAAATAT
Found at i:20144338 original size:33 final size:33
Alignment explanation
Indices: 20144270--20144339 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
20144260 AATTAAATGT
* *
20144270 ATAATCATGCAATTAACAATATAAATCATACAA
1 ATAAGCATGCAATTAACAATATAAACCATACAA
20144303 ATAAGCATGCAATTAA-ATATATAAACCATTA-AA
1 ATAAGCATGCAATTAACA-ATATAAACCA-TACAA
20144336 ATAA
1 ATAA
20144340 ATATATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 1 0.03
33 30 0.91
34 2 0.06
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.27
Consensus pattern (33 bp):
ATAAGCATGCAATTAACAATATAAACCATACAA
Found at i:20144432 original size:55 final size:55
Alignment explanation
Indices: 20144367--20144545 Score: 186
Period size: 55 Copynumber: 3.3 Consensus size: 55
20144357 TAATCATGCG
* *
20144367 ATCATACAAATAAATAAAATAATAATCATGCAATTAAACATGAATTAAATATATA
1 ATCATGCAAATAAATAAAATAATAATCATGCAAATAAACATGAATTAAATATATA
* * * *
20144422 ATCATGCAAAT-AATAATATTAATAATTATGCAAATAAACATGCAACTAAGTATATA
1 ATCATGCAAATAAATAA-AATAATAATCATGCAAATAAACATG-AATTAAATATATA
* * * **
20144478 ATCATGCAAATAAA-AATAT-ATAAACCATGCAAATAAATATTTCATTAAATATAT-
1 ATCATGCAAATAAATAAAATAAT-AATCATGCAAATAAACA-TGAATTAAATATATA
*
20144532 ATCATGCAATTAAA
1 ATCATGCAAATAAA
20144546 CATGCAATTA
Statistics
Matches: 103, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
54 20 0.19
55 56 0.54
56 25 0.24
57 2 0.02
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (55 bp):
ATCATGCAAATAAATAAAATAATAATCATGCAAATAAACATGAATTAAATATATA
Found at i:20144500 original size:22 final size:23
Alignment explanation
Indices: 20144472--20144514 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
20144462 TGCAACTAAG
*
20144472 TATAT-AATCATGCAAATAAAAA
1 TATATAAACCATGCAAATAAAAA
20144494 TATATAAACCATGCAAATAAA
1 TATATAAACCATGCAAATAAA
20144515 TATTTCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.26
Consensus pattern (23 bp):
TATATAAACCATGCAAATAAAAA
Found at i:20144571 original size:20 final size:20
Alignment explanation
Indices: 20144546--20144606 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 20
20144536 TGCAATTAAA
20144546 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
*
20144566 CATGCAAATAATTATATTAATAAT
1 CATGCAATTAA--ATA-T-ATAAT
* *
20144590 CAAGTAATTAAATATAT
1 CATGCAATTAAATATAT
20144607 TAATAATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
20 12 0.36
21 1 0.03
22 6 0.18
23 1 0.03
24 13 0.39
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (20 bp):
CATGCAATTAAATATATAAT
Found at i:20144578 original size:24 final size:24
Alignment explanation
Indices: 20144551--20144680 Score: 83
Period size: 27 Copynumber: 5.2 Consensus size: 24
20144541 TTAAACATGC
20144551 AATTAAATATATAATCATGCAAAT
1 AATTAAATATATAATCATGCAAAT
* *
20144575 AATT--ATAT-TAATAAT-CAAGT
1 AATTAAATATATAATCATGCAAAT
20144595 AATTAAATATATTAATAATCATGC-AAT
1 AATT-AA-ATA-T-ATAATCATGCAAAT
*
20144622 CAAATTAAATATAATTAATCATACAAAT
1 --AATTAAATAT-A-TAATCATGCAAAT
* *
20144650 AAATATACTA-ATAATCATGCAAAT
1 AATTA-AATATATAATCATGCAAAT
20144674 ATATTAA
1 A-ATTAA
20144681 GAAATCACAC
Statistics
Matches: 83, Mismatches: 9, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
20 8 0.10
21 6 0.07
22 4 0.05
24 21 0.25
25 5 0.06
26 7 0.08
27 22 0.27
28 6 0.07
29 4 0.05
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (24 bp):
AATTAAATATATAATCATGCAAAT
Found at i:20144680 original size:51 final size:48
Alignment explanation
Indices: 20144561--20144680 Score: 136
Period size: 51 Copynumber: 2.4 Consensus size: 48
20144551 AATTAAATAT
* * * *
20144561 ATAATCATGCAAATAATTATATTAATAATCAAGTAATTAAATATATTA
1 ATAATCATGCAAATAATTAAATTAATAATCAAGCAAATAAATATACTA
20144609 ATAATCATGC-AATCAAATTAAATATAATTAATCATA-CAAATAAATATACTA
1 ATAATCATGCAAAT--AATTAAAT-TAA-TAATCA-AGCAAATAAATATACTA
20144660 ATAATCATGCAAATATATTAA
1 ATAATCATGCAAATA-ATTAA
20144681 GAAATCACAC
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
47 3 0.05
48 10 0.16
49 7 0.11
50 4 0.07
51 33 0.54
52 4 0.07
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.34
Consensus pattern (48 bp):
ATAATCATGCAAATAATTAAATTAATAATCAAGCAAATAAATATACTA
Found at i:20144714 original size:21 final size:21
Alignment explanation
Indices: 20144637--20144714 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
20144627 TAAATATAAT
*
20144637 TAATCATACAAATAAATATACTAA
1 TAATCATACAAAT-AAT-TA-TAG
*
20144661 TAATCATGCAAATATATTA-AG
1 TAATCATACAAATA-ATTATAG
* *
20144682 AAATCACACAAATAATTATAG
1 TAATCATACAAATAATTATAG
*
20144703 TAATCATGCAAA
1 TAATCATACAAA
20144715 CAAATATATT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
20 4 0.09
21 23 0.52
23 3 0.07
24 14 0.32
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (21 bp):
TAATCATACAAATAATTATAG
Found at i:20144748 original size:16 final size:17
Alignment explanation
Indices: 20144705--20144755 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
20144695 AATTATAGTA
*
20144705 ATCATGCAAACAAATAT
1 ATCATGCAAATAAATAT
* *
20144722 ATTAGGCAAATAAAT-T
1 ATCATGCAAATAAATAT
20144738 ATCATGCAAATATAATAT
1 ATCATGCAAATA-AATAT
20144756 TAGTCACGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 11 0.41
17 15 0.56
18 1 0.04
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (17 bp):
ATCATGCAAATAAATAT
Found at i:20144768 original size:32 final size:31
Alignment explanation
Indices: 20144705--20144782 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 31
20144695 AATTATAGTA
20144705 ATCATGCAAACAA-ATATATTAGGCAAATAAATT
1 ATCATGCAAA-AATA-ATATTAGGCAAATAAA-T
* * **
20144738 ATCATGCAAATATAATATTAGTCACGTAAAT
1 ATCATGCAAAAATAATATTAGGCAAATAAAT
20144769 -TCATGCAAAAATAA
1 ATCATGCAAAAATAA
20144783 ATACCATGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 13 0.33
31 1 0.03
32 14 0.36
33 11 0.28
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.28
Consensus pattern (31 bp):
ATCATGCAAAAATAATATTAGGCAAATAAAT
Found at i:20145407 original size:13 final size:12
Alignment explanation
Indices: 20145375--20145413 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
20145365 TTGACTGAAA
20145375 AAAC-AAAAATT
1 AAACTAAAAATT
20145386 AAACTAAAAATT
1 AAACTAAAAATT
20145398 AAACTAAAAAATT
1 AAACT-AAAAATT
20145411 AAA
1 AAA
20145414 ATACAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 4 0.15
12 12 0.46
13 10 0.38
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (12 bp):
AAACTAAAAATT
Found at i:20145421 original size:12 final size:12
Alignment explanation
Indices: 20145374--20145426 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
20145364 TTTGACTGAA
*
20145374 AAAACAAAAATT
1 AAAATAAAAATT
*
20145386 AAACTAAAAATT
1 AAAATAAAAATT
*
20145398 AAACTAAAAAATT
1 AAAAT-AAAAATT
*
20145411 AAAATACAAA-T
1 AAAATAAAAATT
20145422 AAAAT
1 AAAAT
20145427 TTAGGGCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
11 6 0.17
12 19 0.53
13 11 0.31
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:20145786 original size:42 final size:43
Alignment explanation
Indices: 20145689--20146022 Score: 371
Period size: 43 Copynumber: 7.9 Consensus size: 43
20145679 AATGCTCTTA
* * * *
20145689 CACAACTGAGGTTTTAAAACTTTTGAAAAATAAAATGCTCCCT
1 CACAACTAAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCC
* *
20145732 TACAACTGAGGCTTT-AAATCTTTT-AAAAATAAAATGCTCCCC
1 CACAACTAAGGCTTTGAAA-CTTTTGAAAAATAAAATGCTCCCC
* * * *
20145774 TATAACTAAGGCTTTGGAACTTTTG--AAATAAGATGCTCCCC
1 CACAACTAAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCC
* *
20145815 CATAACTAAAGCTTTGGAAAC-TTTGAAAAATAAAATGC-CACCC
1 CACAACTAAGGCTTT-GAAACTTTTGAAAAATAAAATGCTC-CCC
* * * *
20145858 AAAAACTAAGGCTTT-AGACCTTTTG-AAAATAAAATGCTCCCT
1 CACAACTAAGGCTTTGA-AACTTTTGAAAAATAAAATGCTCCCC
*
20145900 CACAACTAAGGCTTTGGAACTTTTGAAAAATAAAATGCTCCCC
1 CACAACTAAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCC
* *
20145943 CACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCACCCC
1 CACAACTAAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCC
* *
20145986 CA-AATCTGAGGCTTTGAAACTTTTGGAAAATAAAATG
1 CACAA-CTAAGGCTTTGAAACTTTTGAAAAATAAAATG
20146023 AGATCATTCT
Statistics
Matches: 253, Mismatches: 25, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
41 33 0.13
42 81 0.32
43 139 0.55
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (43 bp):
CACAACTAAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCC
Found at i:20145795 original size:85 final size:85
Alignment explanation
Indices: 20145706--20146022 Score: 367
Period size: 85 Copynumber: 3.7 Consensus size: 85
20145696 GAGGTTTTAA
** *
20145706 AACTTTTGAAAAATAAAATGCTCCCTTACAACTGAGGCTTT-AAATCTTTT-AAAAATAAAATGC
1 AACTTTTG-AAAATAAAATGCTCCCCCACAACTAAGGCTTTGAAA-CTTTTGAAAAATAAAATGC
* *
20145769 TCCCCTATAACTAAGGCTTTGG
64 TCCCCAAAAACTAAGGCTTTGG
* * *
20145791 AACTTTTG-AAATAAGATGCTCCCCCATAACTAAAGCTTTGGAAAC-TTTGAAAAATAAAATGC-
1 AACTTTTGAAAATAAAATGCTCCCCCACAACTAAGGCTTT-GAAACTTTTGAAAAATAAAATGCT
*
20145853 CACCCAAAAACTAAGGCTTTAG
65 C-CCCAAAAACTAAGGCTTTGG
* * *
20145875 ACCTTTTGAAAATAAAATGCTCCCTCACAACTAAGGCTTTGGAACTTTTGAAAAATAAAATGCTC
1 AACTTTTGAAAATAAAATGCTCCCCCACAACTAAGGCTTTGAAACTTTTGAAAAATAAAATGCTC
* * * *
20145940 CCCCACAACTGAGGCTTTGA
66 CCCAAAAACTAAGGCTTTGG
* * *
20145960 AACTTTTGAAAAATAAAATGCACCCCCA-AATCTGAGGCTTTGAAACTTTTGGAAAATAAAATG
1 AACTTTTG-AAAATAAAATGCTCCCCCACAA-CTAAGGCTTTGAAACTTTTGAAAAATAAAATG
20146023 AGATCATTCT
Statistics
Matches: 197, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
83 29 0.15
84 42 0.21
85 79 0.40
86 47 0.24
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (85 bp):
AACTTTTGAAAATAAAATGCTCCCCCACAACTAAGGCTTTGAAACTTTTGAAAAATAAAATGCTC
CCCAAAAACTAAGGCTTTGG
Found at i:20146840 original size:25 final size:24
Alignment explanation
Indices: 20146795--20146841 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
20146785 AGACTCTTTT
*
20146795 TCATGTCTTCTTTTTAGCTTCTCA
1 TCATGTCTTCTTTTTAACTTCTCA
* *
20146819 TCATGTTTTTTTTTTCAACTTCT
1 TCATGTCTTCTTTTT-AACTTCT
20146842 TTGAAACTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.13, C:0.21, G:0.06, T:0.60
Consensus pattern (24 bp):
TCATGTCTTCTTTTTAACTTCTCA
Found at i:20147502 original size:25 final size:24
Alignment explanation
Indices: 20147460--20147512 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
20147450 TTAGTTTAAC
*
20147460 TTTTCCTTTTTCTTTTTTCCTTCT
1 TTTTCCTTTTTCTTTTTTACTTCT
*
20147484 TTTTCCTTTTTCTTTTTTTATTTCT
1 TTTTCCTTTTTC-TTTTTTACTTCT
20147509 TTTT
1 TTTT
20147513 TTATGCATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTCCTTTTTCTTTTTTACTTCT
Found at i:20147507 original size:12 final size:12
Alignment explanation
Indices: 20147492--20147516 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20147482 CTTTTTCCTT
20147492 TTTCTTTTTTTA
1 TTTCTTTTTTTA
20147504 TTTCTTTTTTTA
1 TTTCTTTTTTTA
20147516 T
1 T
20147517 GCATATCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTCTTTTTTTA
Found at i:20147511 original size:24 final size:23
Alignment explanation
Indices: 20147459--20147511 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
20147449 TTTAGTTTAA
*
20147459 CTTTTCCTTTTTCTTTTTTCCTT
1 CTTTTCCTTTTTCTTTTTTACTT
*
20147482 CTTTTTCCTTTTTCTTTTTTTATTT
1 C-TTTTCCTTTTTC-TTTTTTACTT
20147507 CTTTT
1 CTTTT
20147512 TTTATGCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 1 0.04
24 16 0.62
25 9 0.35
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (23 bp):
CTTTTCCTTTTTCTTTTTTACTT
Found at i:20163199 original size:45 final size:45
Alignment explanation
Indices: 20163107--20163209 Score: 107
Period size: 45 Copynumber: 2.3 Consensus size: 45
20163097 ATGAGACGAC
* * * ***
20163107 GATGGTCAAGGCAAGTGCCCGTACCAAAGGCCAGCTTGTATTGAT
1 GATGGTCAAGGCAAGTGCCCATACCAAAGGCCAACTTATACCAAT
* * *
20163152 GATGGTTAAGGCAGGTGCCCATACCAAAGGCCAACTTATGCCAAT
1 GATGGTCAAGGCAAGTGCCCATACCAAAGGCCAACTTATACCAAT
* *
20163197 GATGTTCGAGGCA
1 GATGGTCAAGGCA
20163210 TGCACCCACC
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (45 bp):
GATGGTCAAGGCAAGTGCCCATACCAAAGGCCAACTTATACCAAT
Found at i:20164187 original size:94 final size:94
Alignment explanation
Indices: 20164012--20164190 Score: 216
Period size: 94 Copynumber: 1.9 Consensus size: 94
20164002 TACAATGGTG
** * * * * * *
20164012 GTCAAGGCAAGTACATGTGTCATGGTGTGCAAGTTGATCCAGGCCTAGGGGTTCTCTTTGAGTCA
1 GTCAAGGCAAGTACATGTGTCACAGTCTGCAAGCTGATCCAAGCCCAGGGATTCTCTTTAAGTCA
*
20164077 AAGAGTAATTCTAGTTCTAGTGAGATAGA
66 AAGAGTAATTCCAGTTCTAGTGAGATAGA
* * * *
20164106 GTCAAGGCATGTACATGTGTCACAGTCTGCAAGCTGGTCCAAGCCCAGGGATTTTTTTTAAGTC-
1 GTCAAGGCAAGTACATGTGTCACAGTCTGCAAGCTGATCCAAGCCCAGGGATTCTCTTTAAGTCA
*
20164170 AAGAAGTAGTTCCAGTTCTAG
66 AAG-AGTAATTCCAGTTCTAG
20164191 CAGGATAAAG
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
93 3 0.04
94 67 0.96
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (94 bp):
GTCAAGGCAAGTACATGTGTCACAGTCTGCAAGCTGATCCAAGCCCAGGGATTCTCTTTAAGTCA
AAGAGTAATTCCAGTTCTAGTGAGATAGA
Found at i:20166528 original size:21 final size:21
Alignment explanation
Indices: 20166480--20166520 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20166470 TTGCGAGATG
* *
20166480 GCATGGAGGCCATGCGCCATA
1 GCATGGAGGCCATGCACCAGA
20166501 GCATGGAGGCCATGCACCAG
1 GCATGGAGGCCATGCACCAG
20166521 CGGATGGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.34, T:0.12
Consensus pattern (21 bp):
GCATGGAGGCCATGCACCAGA
Found at i:20182196 original size:292 final size:292
Alignment explanation
Indices: 20181672--20182258 Score: 1039
Period size: 292 Copynumber: 2.0 Consensus size: 292
20181662 TTAAACTATC
20181672 TAGTAGTTAGTTCCCTTTAAAGTTTCCCTCAAGATGGCTGGAGCCCTTAATGAGTTCTATCTAGT
1 TAGTAGTTAGTTCCCTTTAAAGTTTCCCTCAAGATGGCTGGAGCCCTTAATGAGTTCTATCTAGT
* *
20181737 CAAGCCAATGATTAAAAGCTTTGGGTGTGCAATGCCCTCAGCTTATTCTCAAACTTTAAATGGGT
66 CAAGCCAATGATTAAAAGCTTTGGGTGTGCAATGCCCTCAACTTATTCTCAAACTTTAAATAGGT
* *
20181802 AGGATGGCATGACTACTTCGTTAAGTCATGCCATGAAATTGAGAGCTCCTAGTGGGCTATTTTCA
131 AGGATGGCATGACTACTTCGTTAAGCCATGCCATGAAATTGAGAGCTCCTAGTGAGCTATTTTCA
* *
20181867 TAAGCAAAACTGGCGATGCAAGATGAACCAAAAATAGGGTTATAGTGCCCAACTATGCACTAACC
196 TAAACAAAACTGGCGATGCAAGATGAACAAAAAATAGGGTTATAGTGCCCAACTATGCACTAACC
20181932 TAGAACCCATAAAGAGTATTGGTCAATTAAAA
261 TAGAACCCATAAAGAGTATTGGTCAATTAAAA
* * *
20181964 TAGTAGTTAGTTCCCTTTGAAGTTTCCTTCAAGATGGCTGGAGCCCTTAATGAGTTCTATCTGGT
1 TAGTAGTTAGTTCCCTTTAAAGTTTCCCTCAAGATGGCTGGAGCCCTTAATGAGTTCTATCTAGT
* *
20182029 CAAGCTAATGATTAAAAGCTTTGGGTGTGCAATTCCCTCAACTTATTCTCAAACTTTAAATAGGT
66 CAAGCCAATGATTAAAAGCTTTGGGTGTGCAATGCCCTCAACTTATTCTCAAACTTTAAATAGGT
20182094 AGGATGGCATGACTACTTCGTTAAGCCATGCCATGAAATTGAGAGCTCCTAGTGAGCTATTTTCA
131 AGGATGGCATGACTACTTCGTTAAGCCATGCCATGAAATTGAGAGCTCCTAGTGAGCTATTTTCA
* *
20182159 TAAACAAAATTGGCGATGCAAGATGAACAAAAAATAGGGTTATAGTGCCCAACTATGCATTAACC
196 TAAACAAAACTGGCGATGCAAGATGAACAAAAAATAGGGTTATAGTGCCCAACTATGCACTAACC
* *
20182224 TAGAACCTATAAAGAGTGTTGGTCAATTAAAA
261 TAGAACCCATAAAGAGTATTGGTCAATTAAAA
20182256 TAG
1 TAG
20182259 CAAAATGGTG
Statistics
Matches: 280, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
292 280 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (292 bp):
TAGTAGTTAGTTCCCTTTAAAGTTTCCCTCAAGATGGCTGGAGCCCTTAATGAGTTCTATCTAGT
CAAGCCAATGATTAAAAGCTTTGGGTGTGCAATGCCCTCAACTTATTCTCAAACTTTAAATAGGT
AGGATGGCATGACTACTTCGTTAAGCCATGCCATGAAATTGAGAGCTCCTAGTGAGCTATTTTCA
TAAACAAAACTGGCGATGCAAGATGAACAAAAAATAGGGTTATAGTGCCCAACTATGCACTAACC
TAGAACCCATAAAGAGTATTGGTCAATTAAAA
Found at i:20185220 original size:19 final size:21
Alignment explanation
Indices: 20185196--20185235 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20185186 CACTTAGGTC
20185196 TGATCAT-A-TGCCCATACCT
1 TGATCATCAGTGCCCATACCT
*
20185215 TGATCATCAGTGCCCTTACCT
1 TGATCATCAGTGCCCATACCT
20185236 GGGTCTAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.23, C:0.33, G:0.12, T:0.33
Consensus pattern (21 bp):
TGATCATCAGTGCCCATACCT
Found at i:20204502 original size:16 final size:16
Alignment explanation
Indices: 20204483--20204523 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
20204473 CAAATAGAAA
20204483 AACTCACAAAGATAAC
1 AACTCACAAAGATAAC
20204499 AACTCACAAAGATAAC
1 AACTCACAAAGATAAC
20204515 AACTCACAA
1 AACTCACAA
20204524 GAATTTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.56, C:0.27, G:0.05, T:0.12
Consensus pattern (16 bp):
AACTCACAAAGATAAC
Found at i:20211458 original size:21 final size:21
Alignment explanation
Indices: 20211424--20211463 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
20211414 CATGTGCCCA
*
20211424 TGCATCGTTCACCAGTGCCTG
1 TGCATCGTTCACCAATGCCTG
20211445 TGCATCGCTT-ACCAATGCC
1 TGCATCG-TTCACCAATGCC
20211464 CGCACCTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.17, C:0.35, G:0.20, T:0.28
Consensus pattern (21 bp):
TGCATCGTTCACCAATGCCTG
Found at i:20217796 original size:20 final size:20
Alignment explanation
Indices: 20217771--20217810 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
20217761 AAGGATTTAT
20217771 ATTGTACTCATTCCAATTAC
1 ATTGTACTCATTCCAATTAC
*
20217791 ATTGTACTCATTGCAATTAC
1 ATTGTACTCATTCCAATTAC
20217811 TAGAGCCAGC
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:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (20 bp):
ATTGTACTCATTCCAATTAC
Found at i:20217943 original size:13 final size:13
Alignment explanation
Indices: 20217927--20217955 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
20217917 AAACCCTAAT
20217927 TCTTTATCACTCG
1 TCTTTATCACTCG
20217940 TCTTTATCACTCG
1 TCTTTATCACTCG
20217953 TCT
1 TCT
20217956 CACCATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.31, G:0.07, T:0.48
Consensus pattern (13 bp):
TCTTTATCACTCG
Found at i:20225131 original size:33 final size:32
Alignment explanation
Indices: 20225073--20225141 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 32
20225063 AGCACAGGAT
* * *
20225073 ATGCATGCTTGGCATGTGGCTTATCATGTGTTG
1 ATGCATGCTTGG-ATGTGGATTATCATATGCTG
20225106 ATGCATGCTTGG-TGTGTGATGTATCATATGCTG
1 ATGCATGCTTGGATGTG-GAT-TATCATATGCTG
20225139 ATG
1 ATG
20225142 GTGTTCGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 4 0.13
32 2 0.06
33 25 0.81
ACGTcount: A:0.17, C:0.13, G:0.30, T:0.39
Consensus pattern (32 bp):
ATGCATGCTTGGATGTGGATTATCATATGCTG
Found at i:20254339 original size:46 final size:46
Alignment explanation
Indices: 20254238--20254344 Score: 142
Period size: 46 Copynumber: 2.3 Consensus size: 46
20254228 GCTATGCAGG
* * * *
20254238 TGTGCAGACTGGTGCCTAACCGAGAGTGCATGGCATGCTTAGCTAA
1 TGTGCAGATTGGTGCCTAACCGAGAGTGCAGGGCATACTTAGCCAA
* * *
20254284 TATGTAGATTGGTGCCTAACTGAGAGTGCAGGGCATACTTAGCCAA
1 TGTGCAGATTGGTGCCTAACCGAGAGTGCAGGGCATACTTAGCCAA
*
20254330 TGTGCAGATTAGTGC
1 TGTGCAGATTGGTGC
20254345 TTAATAGTGT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (46 bp):
TGTGCAGATTGGTGCCTAACCGAGAGTGCAGGGCATACTTAGCCAA
Found at i:20254936 original size:23 final size:23
Alignment explanation
Indices: 20254900--20254943 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
20254890 GTTAAACAAA
20254900 GCCCATTTAAAGCCTATAAAAAG
1 GCCCATTTAAAGCCTATAAAAAG
20254923 GCCC-TTTAAGAGCCTATAAAA
1 GCCCATTTAA-AGCCTATAAAA
20254944 TGCATTGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.23
Consensus pattern (23 bp):
GCCCATTTAAAGCCTATAAAAAG
Found at i:20256529 original size:21 final size:21
Alignment explanation
Indices: 20256492--20256535 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
20256482 GTTACTATCT
*
20256492 TGTTATTTTAATTTAGTTGCA
1 TGTTATTTTAATATAGTTGCA
* *
20256513 TGTTATTTTACTATAGTTTCA
1 TGTTATTTTAATATAGTTGCA
20256534 TG
1 TG
20256536 ATAGTTTAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.07, G:0.14, T:0.57
Consensus pattern (21 bp):
TGTTATTTTAATATAGTTGCA
Found at i:20258940 original size:3 final size:3
Alignment explanation
Indices: 20258903--20258928 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20258893 TAATTATTTC
20258903 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
20258929 GTGTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:20259575 original size:6 final size:6
Alignment explanation
Indices: 20259566--20259593 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
20259556 TTTTTCAAGC
20259566 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
20259594 CTCTCTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:20269564 original size:21 final size:22
Alignment explanation
Indices: 20269538--20269589 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
20269528 TTTGCCTAAT
20269538 AAGAAAGAAAAA-AATAAAAAA
1 AAGAAAGAAAAAGAATAAAAAA
* *
20269559 AAGAAAAAAAAAGAATCAAAAA
1 AAGAAAGAAAAAGAATAAAAAA
*
20269581 ATGAAAGAA
1 AAGAAAGAA
20269590 GACTCATAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.06
Consensus pattern (22 bp):
AAGAAAGAAAAAGAATAAAAAA
Found at i:20270054 original size:7 final size:7
Alignment explanation
Indices: 20270036--20270085 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
20270026 CAAAGTCAAC
20270036 ACAAAAA
1 ACAAAAA
20270043 A-AAAAA
1 ACAAAAA
20270049 AC-AAAA
1 ACAAAAA
20270055 ACAAAAA
1 ACAAAAA
*
20270062 GCAAAAA
1 ACAAAAA
*
20270069 AAAACAAA
1 ACAA-AAA
20270077 ACACAAAA
1 ACA-AAAA
20270085 A
1 A
20270086 AAGAGAGAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
6 12 0.34
7 13 0.37
8 9 0.26
9 1 0.03
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (7 bp):
ACAAAAA
Found at i:20270071 original size:17 final size:17
Alignment explanation
Indices: 20270046--20270087 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
20270036 ACAAAAAAAA
20270046 AAAACAAAAACAAAA-AGC
1 AAAA-AAAAACAAAACA-C
20270064 AAAAAAAAACAAAACAC
1 AAAAAAAAACAAAACAC
20270081 AAAAAAA
1 AAAAAAA
20270088 GAGAGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.83, C:0.14, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAAAACAAAACAC
Found at i:20270071 original size:23 final size:24
Alignment explanation
Indices: 20270041--20270085 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
20270031 TCAACACAAA
20270041 AAAAAAAAACAAAA-ACAAAAAGC
1 AAAAAAAAACAAAACACAAAAAGC
20270064 AAAAAAAAACAAAACACAAAAA
1 AAAAAAAAACAAAACACAAAAA
20270086 AAGAGAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.00
Consensus pattern (24 bp):
AAAAAAAAACAAAACACAAAAAGC
Found at i:20270863 original size:105 final size:103
Alignment explanation
Indices: 20270692--20270998 Score: 389
Period size: 105 Copynumber: 2.9 Consensus size: 103
20270682 GGGAGGAAGC
* * * *
20270692 CATTTATAAATTTTTAAAGTTTTAATGCCTCTATTAAATGAGCATTCAAAGATTTTTAAGATTTG
1 CATTT-TAAATTTTTAAAGTTTCAATGCCTCTATTAGAGGAGCATTCAAAGATTTTTGAGATTTG
*
20270757 TAAGACCTCTGGACATAATCTCTAAGACCTCTAGATAAAA
65 TAAGACCTCTGG-CATAATCTCTAAGACCTCTAGACAAAA
* * * *
20270797 CATTTTAAATTTTTAAACTTTCAATGCCTTTATTATGAGGAGCATTCAAAGATTTTTGTGACTTG
1 CATTTTAAATTTTTAAAGTTTCAATGCCTCTATTA-GAGGAGCATTCAAAGATTTTTGAGATTTG
* * * * * *
20270862 TAAGGCCTCAGGGCATAATCTCTAAAATCTTTAGGCAAAA
65 TAAGACCTC-TGGCATAATCTCTAAGACCTCTAGACAAAA
* *
20270902 CATTTTAAATTTTTTAAGTTTCAATGCCTCTATTACGAGGAGCATTAAAAGATTTTTGAGATTTG
1 CATTTTAAATTTTTAAAGTTTCAATGCCTCTATTA-GAGGAGCATTCAAAGATTTTTGAGATTTG
* *
20270967 TAAGACTTCTAGGCATAATCTCCAAGACCTCT
65 TAAGACCTCT-GGCATAATCTCTAAGACCTCT
20270999 GAGCATAATT
Statistics
Matches: 170, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
104 27 0.16
105 141 0.83
106 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (103 bp):
CATTTTAAATTTTTAAAGTTTCAATGCCTCTATTAGAGGAGCATTCAAAGATTTTTGAGATTTGT
AAGACCTCTGGCATAATCTCTAAGACCTCTAGACAAAA
Found at i:20271004 original size:22 final size:22
Alignment explanation
Indices: 20270979--20271021 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
20270969 AGACTTCTAG
20270979 GCATAATCTCCAAGACCTCTGA
1 GCATAATCTCCAAGACCTCTGA
*
20271001 GCATAATTTCCAAGACCTCTG
1 GCATAATCTCCAAGACCTCTG
20271022 GGTAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (22 bp):
GCATAATCTCCAAGACCTCTGA
Found at i:20271166 original size:232 final size:232
Alignment explanation
Indices: 20270758--20271190 Score: 561
Period size: 232 Copynumber: 1.9 Consensus size: 232
20270748 TAAGATTTGT
* **
20270758 AAGACCTCTGGACATAATCTCTAAGACCTCTAGATAAAACATTTTAAATTTTTAAACTTTCAATG
1 AAGACCTCTGGACATAATCTCCAAGACCTCTAGATAAAACATTTTAAATTTTTAAACTTTCAACA
* ** * *
20270823 CCTTTATTATGAGGAGCATTCAAAGATTTTTGTGACTTGTAAGGCCTCAGGGCATAATCTCTAAA
66 CCTTTATTACGAGGAGCATTCAAAGATTTTTAAGACTTGTAAGACCTCAGGGAATAATCTCTAAA
* * * * *
20270888 ATCTTTAGGCAAAACATTTTAAATTTTTTAAGTTTCAATGCCTCTATTACGAGGAGCATTAAAAG
131 ATCCTTAGGCAAAACATTTAAAAATTTTAAAGTTTCAATACCTCTATTACGAGGAGCATTAAAAG
*
20270953 ATTTTTGAGATTTGTAAGACTTCTAGGCATAATCTCC
196 AATTTTGAGATTTGTAAGACTTCTAGGCATAATCTCC
* * * * *
20270990 AAGACCTCT-GAGCATAATTTCCAAGACCTCTGGGTAAAATATTTTAAATTTTTAAAGTTTCAAC
1 AAGACCTCTGGA-CATAATCTCCAAGACCTCTAGATAAAACATTTTAAATTTTTAAACTTTCAAC
* * *
20271054 ACCTCTT-TTACGAGGAGGATTCAAAGATTTTTAAGATTTGTAAGACCTCTA-GGAATAATTTTC
65 ACCT-TTATTACGAGGAGCATTCAAAGATTTTTAAGACTTGTAAGACCTC-AGGGAATAA-TCTC
* *
20271117 T-AGA-CCTTCGTGCAAAACATTTAAAAATTTTAAAGTTTCAATACCTCTATTACGAGGAGCATT
127 TAAAATCCTTAG-GCAAAACATTTAAAAATTTTAAAGTTTCAATACCTCTATTACGAGGAGCATT
*
20271180 CAAAGAATTTT
191 AAAAGAATTTT
20271191 AAGACCTCTA
Statistics
Matches: 171, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
231 6 0.04
232 158 0.92
233 7 0.04
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (232 bp):
AAGACCTCTGGACATAATCTCCAAGACCTCTAGATAAAACATTTTAAATTTTTAAACTTTCAACA
CCTTTATTACGAGGAGCATTCAAAGATTTTTAAGACTTGTAAGACCTCAGGGAATAATCTCTAAA
ATCCTTAGGCAAAACATTTAAAAATTTTAAAGTTTCAATACCTCTATTACGAGGAGCATTAAAAG
AATTTTGAGATTTGTAAGACTTCTAGGCATAATCTCC
Found at i:20272144 original size:141 final size:140
Alignment explanation
Indices: 20271849--20272262 Score: 386
Period size: 141 Copynumber: 2.9 Consensus size: 140
20271839 TGTACTAGGG
* * *
20271849 AAATGTGAAATTACCAAAATACCCATATAAAGGTATTTTCGTAATTTGGCTTTTTCGAGCTTGAA
1 AAATGTGAAATTACCAAAATA-CC-T-T-TAGGTATTTTCGTAATTTGGCCTTTCCGAGCTTGAA
* * * * *
20271914 TTTTCATG-AACTTTTTTAAATCTTAATTTCATAATACTTCATGA-TTTTCAGTGCATTTGAAAT
62 TTTTCATGAAAC-GTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGA-TG-ATTTAAAAT
* * *
20271977 TATAGTAGTACCCAAGG
124 CATAGCAGTACCCAAGA
* * * *
20271994 AAGTGTGAAATTACCAAAATACCTTTAGGTATTTTTGCAATTTGGCCTTTCCGAGCTTGGATTTT
1 AAATGTGAAATTACCAAAATACCTTTAGGTATTTTCGTAATTTGGCCTTTCCGAGCTTGAATTTT
* *
20272059 CATGAAAC-TATTTAGATCTTAGTTTCATAATATTTGATGATTTTTGATGTATTTAAAATCATAG
66 CATGAAACGT-TTTAGATCTTAATTTCATAATATTTCATGATTTTTGATG-ATTTAAAATCATAG
**
20272123 CAGTATTTCAA-A
129 CAGTA-CCCAAGA
* * * * * * *
20272135 AAATATGAAATTACTAAAATACTTCTATAGGGGTATTTTCATAATTTGACCTTCCCAAGCTTGAA
1 AAATGTGAAATTACCAAAATAC--CTTTA--GGTATTTTCGTAATTTGGCCTTTCCGAGCTTGAA
* * * * * *
20272200 TTTTCATGAAACGTTTCAGATATCAATTTAATAATATTTCATGATTTTTGGTGCTTTAAAATC
62 TTTTCATGAAACGTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGATGATTTAAAATC
20272263 TCAAAAATGG
Statistics
Matches: 222, Mismatches: 38, Indels: 19
0.80 0.14 0.07
Matches are distributed among these distances:
140 1 0.00
141 101 0.45
142 12 0.05
143 5 0.02
144 11 0.05
145 91 0.41
146 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (140 bp):
AAATGTGAAATTACCAAAATACCTTTAGGTATTTTCGTAATTTGGCCTTTCCGAGCTTGAATTTT
CATGAAACGTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGATGATTTAAAATCATAGCA
GTACCCAAGA
Found at i:20283347 original size:39 final size:39
Alignment explanation
Indices: 20283293--20283372 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
20283283 AGGTTCTATC
20283293 GATCAAAGCCATGTGCAGGTACCCATGAGTGGGTTGGTG
1 GATCAAAGCCATGTGCAGGTACCCATGAGTGGGTTGGTG
20283332 GATCAAAGCCATGTGCAGGTACCCATGAGTGGGTTGGTG
1 GATCAAAGCCATGTGCAGGTACCCATGAGTGGGTTGGTG
20283371 GA
1 GA
20283373 GCAACAAGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.23
Consensus pattern (39 bp):
GATCAAAGCCATGTGCAGGTACCCATGAGTGGGTTGGTG
Found at i:20292012 original size:6 final size:6
Alignment explanation
Indices: 20291998--20292037 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
20291988 AGAAAGAAAG
* * *
20291998 AAAAGA AAAATA AAATTA AAAGTA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
20292038 GAAACAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:20292026 original size:18 final size:17
Alignment explanation
Indices: 20291998--20292041 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
20291988 AGAAAGAAAG
*
20291998 AAAAGAAAAATAAAATT
1 AAAAGAAAAATAAAAAT
20292015 AAAAGTAAAAATAAAAAT
1 AAAAG-AAAAATAAAAAT
20292033 AAAAAGAAA
1 -AAAAGAAA
20292042 CAAAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 14 0.58
19 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.14
Consensus pattern (17 bp):
AAAAGAAAAATAAAAAT
Found at i:20292065 original size:3 final size:3
Alignment explanation
Indices: 20292045--20292096 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
20292035 AAAGAAACAA
* *
20292045 AAT AAT AGT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20292093 AAT A
1 AAT A
20292097 CAATAACAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20292682 original size:65 final size:64
Alignment explanation
Indices: 20292477--20292878 Score: 229
Period size: 65 Copynumber: 6.2 Consensus size: 64
20292467 GTCGAGATTG
* * * ** * * * *
20292477 AAAATGAGTGATTGGGATTAAACCACAAGTCAAAAGAATAAAATAATCTAGA-TCAAGCTAAGAT
1 AAAATGAGTGA-CGGGAATGAACCATGAGTCAAAAAAAT-AAATGATCTAGATTGAATC-AAGAT
20292541 AA
63 AA
* * * *
20292543 AAAATGAGTGATCGAGATTGAA-C-TGCAAGTTTAAAAAAA-AAA-GATCTAGATTGAGTCAAGA
1 AAAATGAGTGA-CGGGAATGAACCATG--AG-TCAAAAAAATAAATGATCTAGATTGAATCAAGA
**
20292604 TTG
62 TAA
* * * * * * **
20292607 GAAGTAAGTGATCAGGAATGAACCATGAGTCAAAAAAATAAATGATCTAAATTGAACCAAGATCG
1 AAAATGAGTGA-CGGGAATGAACCATGAGTCAAAAAAATAAATGATCTAGATTGAATCAAGATAA
* * * * ** * * * *
20292672 AAAATGAGTGACCGAGATTAAAACACAAGTTAGAAAAATAAATGGTCTAGATTTAATCAAGATAA
1 AAAATGAGTGA-CGGGAATGAACCATGAGTCAAAAAAATAAATGATCTAGATTGAATCAAGATAA
* * * * * * ** *
20292737 AAAATGAGTGATTGGGATTGAATCATGAGTCAAAAAGATAAAATGATCTAGATCGAGTTGAGATT
1 AAAATGAGTGA-CGGGAATGAACCATGAGTCAAAAAAAT-AAATGATCTAGATTGAATCAAGATA
*
20292802 G
64 A
* * * * *
20292803 AAAATGAGTGACTGGGAACGAACCATGAGTTAGAAAAATAAATGACCTAGATTGAATTAAGATAA
1 AAAATGAGTGAC-GGGAATGAACCATGAGTCAAAAAAATAAATGATCTAGATTGAATCAAGATAA
20292868 AAAATGAGTGA
1 AAAATGAGTGA
20292879 ACCACGAGTT
Statistics
Matches: 252, Mismatches: 74, Indels: 21
0.73 0.21 0.06
Matches are distributed among these distances:
63 8 0.03
64 33 0.13
65 132 0.52
66 72 0.29
67 7 0.03
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.23
Consensus pattern (64 bp):
AAAATGAGTGACGGGAATGAACCATGAGTCAAAAAAATAAATGATCTAGATTGAATCAAGATAA
Found at i:20292709 original size:130 final size:130
Alignment explanation
Indices: 20292543--20292786 Score: 285
Period size: 130 Copynumber: 1.9 Consensus size: 130
20292533 GCTAAGATAA
* * * * * ***
20292543 AAAATGAGTGATCGAGATTGAACTGCAAGTTTAAAAAAAAAAGATCTAGATTGAGTCAAGATTGG
1 AAAATGAGTGACCGAGATTAAACTACAAGTTGAAAAAAAAAAGATCTAGATTGAATCAAGATAAA
*
20292608 AAGTAAGTGATCAGGAATGAACCATGAGTCAAAAAAAT-AAATGATCTAAATTGAACCAAGATCG
66 AAATAAGTGATCAGGAATGAACCATGAGTCAAAAAAATAAAATGATCTAAATTGAACCAAGATCG
* * * *
20292672 AAAATGAGTGACCGAGATTAAAAC-ACAAGTTAGAAAAATAAATGGTCTAGATTTAATCAAGATA
1 AAAATGAGTGACCGAGATT-AAACTACAAGTT-GAAAAAAAAAAGATCTAGATTGAATCAAGATA
* ** * * *
20292736 AAAAATGAGTGATTGGGATTGAATCATGAGTCAAAAAGATAAAATGATCTA
64 AAAAATAAGTGATCAGGAATGAACCATGAGTCAAAAAAATAAAATGATCTA
20292787 GATCGAGTTG
Statistics
Matches: 93, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
129 24 0.26
130 59 0.63
131 10 0.11
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.23
Consensus pattern (130 bp):
AAAATGAGTGACCGAGATTAAACTACAAGTTGAAAAAAAAAAGATCTAGATTGAATCAAGATAAA
AAATAAGTGATCAGGAATGAACCATGAGTCAAAAAAATAAAATGATCTAAATTGAACCAAGATCG
Found at i:20294301 original size:22 final size:22
Alignment explanation
Indices: 20294274--20294318 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
20294264 CTTAGTCATC
20294274 TTTTCCAAAATCATTTTGACAT
1 TTTTCCAAAATCATTTTGACAT
20294296 TTTTCCAAAATCATTTTGACAT
1 TTTTCCAAAATCATTTTGACAT
20294318 T
1 T
20294319 CTTATTTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.04, T:0.47
Consensus pattern (22 bp):
TTTTCCAAAATCATTTTGACAT
Found at i:20296914 original size:21 final size:21
Alignment explanation
Indices: 20296867--20296918 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
20296857 AGTAAATGGG
*
20296867 TAGATAATTGTGTTCATACTA
1 TAGATTATTGTGTTCATACTA
20296888 TAGATTATTGTGTTCATACTA
1 TAGATTATTGTGTTCATACTA
20296909 TAGATT-TTGT
1 TAGATTATTGT
20296919 TTTATCCTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (21 bp):
TAGATTATTGTGTTCATACTA
Found at i:20297415 original size:14 final size:15
Alignment explanation
Indices: 20297378--20297415 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
20297368 GATAAGGTGG
*
20297378 CAAGAAAAAGGGAAT
1 CAAGAAAAAGGGAAC
20297393 CAAGAAAAAGGGAAC
1 CAAGAAAAAGGGAAC
*
20297408 CATGAAAA
1 CAAGAAAA
20297416 CAACAATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.61, C:0.11, G:0.24, T:0.05
Consensus pattern (15 bp):
CAAGAAAAAGGGAAC
Found at i:20309390 original size:39 final size:37
Alignment explanation
Indices: 20309299--20309400 Score: 107
Period size: 37 Copynumber: 2.7 Consensus size: 37
20309289 ATAATTAGTA
* * *
20309299 AAATCTTCTAATAGTTTGATAAAATTTACTTTGATAC
1 AAATCTTCTAATAGTTTGGTAAGATTTAATTTGATAC
* * *
20309336 AGATCTCCCAATAGTTTGGTAAGATTTAATTTAAGA-AGC
1 AAATCTTCTAATAGTTTGGTAAGATTTAATTT--GATA-C
*
20309375 AAATCTTCTAATAGTTTGGTAGGATT
1 AAATCTTCTAATAGTTTGGTAAGATT
20309401 AAACAAAATA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
37 26 0.50
38 1 0.02
39 25 0.48
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (37 bp):
AAATCTTCTAATAGTTTGGTAAGATTTAATTTGATAC
Found at i:20309695 original size:31 final size:31
Alignment explanation
Indices: 20309654--20309716 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
20309644 AAGAGAAAGC
*
20309654 ACTAATAATAATAAT-AAGTAAAAAAAAAAAA
1 ACTAAAAATAA-AATAAAGTAAAAAAAAAAAA
* *
20309685 ACTAAAAATAAAATAAATTAAAAAAAGAAAA
1 ACTAAAAATAAAATAAAGTAAAAAAAAAAAA
20309716 A
1 A
20309717 GAAAAACCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (31 bp):
ACTAAAAATAAAATAAAGTAAAAAAAAAAAA
Found at i:20309697 original size:16 final size:15
Alignment explanation
Indices: 20309672--20309716 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
20309662 TAATAATAAG
20309672 TAAAAAAAAAAAAAC
1 TAAAAAAAAAAAAAC
* *
20309687 TAAAAATAAAATAAAT
1 TAAAAA-AAAAAAAAC
20309703 TAAAAAAAGAAAAA
1 TAAAAAAA-AAAAA
20309717 GAAAAACCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.13
Consensus pattern (15 bp):
TAAAAAAAAAAAAAC
Found at i:20329360 original size:370 final size:370
Alignment explanation
Indices: 20328653--20329559 Score: 1169
Period size: 370 Copynumber: 2.4 Consensus size: 370
20328643 GAACTACTTG
* * *
20328653 TGTCACGGACCTAAAGAGGAGTCCTAAATCCCACATCGAACATAATAAGATGGTCATTGGGGTAT
1 TGTCACGGACCTAAAGAAGAGTCCTGAATCCCACATCGAACATAATAAGATGGTCACTGGGGTAT
* * *
20328718 AAAAGGGTTTACACCATCTCTTCTTTGTGAGGCACCTTTTATAGGACAAAATCGTGAGGCCAAGG
66 AAAAGGGTTTACACCATCTCTTCCTTGTGAGGCACCTTTTGTAGGATAAAATCGTGAGGCCAA-G
* * * *
20328783 GGGCCAGAGCAGACAATACCTCATAAGGGTGTGAACCGTGACAGGTAGGCTAATCTAGGATGTCA
130 GGGCCAGAGCAGACAATACCTCACAAGGGTGTGAACCGAGACAGATAGGCTAATCTAGGATGCCA
* * * * *
20328848 AAAGGGTGAATGCCCGGGTCCCAAAGTCGCGTGGGTTCAGAGCTTAAGTCTCAACCCGTGACAAG
195 AAAGAGTGAATACCCGGGTCCCAAAGCCGCGTGAGTTCAGAGCTTAAGTCTCAACCCATGACAAG
* * ** *
20328913 TGGTATCAGAGCCAGCCTTAAACCATTCGATCCACACCAAATGCCTCGAGGGAGGTAGGTAGGAT
260 TGGTATCAGAGCCAACCCTAAACCATTCGATCCACACCAAACACCTCGAGGGAGGTAGGAAGGAT
* * *
20328978 AGCCAGCCTCCGTGACGAGAACGTCACGA-GTTTGAGTGCTGGAGAA
325 AGCCAACCTCCGTGACGAGAACGTCACGAGGTTAG-GTGCCGGAGAA
* * * * * *
20329024 TGTTACGGGCCTAAAGAAGAGTCCTGAATCTCATATCAAACATAATAAGAGGGTCACTGGGGTAT
1 TGTCACGGACCTAAAGAAGAGTCCTGAATCCCACATCGAACATAATAAGATGGTCACTGGGGTAT
* * ** *
20329089 AAAAGGGTTCACACCACCTCAACCTTGTGAGGCACCTTTTGTAGGATAAAATCATGAGGCC-AGG
66 AAAAGGGTTTACACCATCTCTTCCTTGTGAGGCACCTTTTGTAGGATAAAATCGTGAGGCCAAGG
* * ** * *
20329153 GGCCTAAAGCAGACAATACCTCACAAGGGTGTGAATCGAG-GTGATCAGGCTGATCTGGGATGCC
131 GGCC-AGAGCAGACAATACCTCACAAGGGTGTGAACCGAGACAGAT-AGGCTAATCTAGGATGCC
* * * * *
20329217 AAAAGAGTGGATACCTGGGTCCCAGAGCCGCGTGAGTTC-GAAGCTTAAGTCTCAATCCATGATA
194 AAAAGAGTGAATACCCGGGTCCCAAAGCCGCGTGAGTTCAG-AGCTTAAGTCTCAACCCATGACA
* * *
20329281 AGTGGTATCAGAGCCAACCCTATACCATTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAAG
258 AGTGGTATCAGAGCCAACCCTAAACCATTCGATCCACACCAAACACCTCGAGGGAGGTAGG-AAG
* **
20329346 G-TGGCCAACCTCCGTGACGAGGGCGTCACGAGGTTAGGTGCCGGAGAA
322 GATAGCCAACCTCCGTGACGAGAACGTCACGAGGTTAGGTGCCGGAGAA
*** * *
20329394 TGTCATAAACCT-AAGAAGGAGTCTTGAATCCCACATCGAACATAATAGGATGGTCACTGGGGTA
1 TGTCACGGACCTAAAGAA-GAGTCCTGAATCCCACATCGAACATAATAAGATGGTCACTGGGGTA
* *
20329458 TAAAAGGGTTTACACCATCTTTTCCTTGTGAGGCACCTTTTGTAGGATAAAACCGTGAGGCCAAG
65 TAAAAGGGTTTACACCATCTCTTCCTTGTGAGGCACCTTTTGTAGGATAAAATCGTGAGGCCAAG
*
20329523 GGGACCAGAGCGGACAATACCTCACAAGGGTGTGAAC
130 GGG-CCAGAGCAGACAATACCTCACAAGGGTGTGAAC
20329560 TATGGCAGGT
Statistics
Matches: 456, Mismatches: 72, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
369 14 0.03
370 291 0.64
371 149 0.33
372 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (370 bp):
TGTCACGGACCTAAAGAAGAGTCCTGAATCCCACATCGAACATAATAAGATGGTCACTGGGGTAT
AAAAGGGTTTACACCATCTCTTCCTTGTGAGGCACCTTTTGTAGGATAAAATCGTGAGGCCAAGG
GGCCAGAGCAGACAATACCTCACAAGGGTGTGAACCGAGACAGATAGGCTAATCTAGGATGCCAA
AAGAGTGAATACCCGGGTCCCAAAGCCGCGTGAGTTCAGAGCTTAAGTCTCAACCCATGACAAGT
GGTATCAGAGCCAACCCTAAACCATTCGATCCACACCAAACACCTCGAGGGAGGTAGGAAGGATA
GCCAACCTCCGTGACGAGAACGTCACGAGGTTAGGTGCCGGAGAA
Found at i:20331380 original size:25 final size:25
Alignment explanation
Indices: 20331346--20331396 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
20331336 CTACAACATA
20331346 ATCTTTAACATGCTAGAATTATATG
1 ATCTTTAACATGCTAGAATTATATG
20331371 ATCTTTAACATGCTAGAATTATATG
1 ATCTTTAACATGCTAGAATTATATG
20331396 A
1 A
20331397 AGCACTTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (25 bp):
ATCTTTAACATGCTAGAATTATATG
Found at i:20351582 original size:45 final size:45
Alignment explanation
Indices: 20351480--20351583 Score: 111
Period size: 45 Copynumber: 2.3 Consensus size: 45
20351470 CCGTCACTAT
* * ***
20351480 GCCTGCCCACCTAGCCTACCTCTAGGCTTCTCTAGACCCTTCTGT
1 GCCTGCACACCTAGCCTACCTCCAGGCTTCTCTAGACCCTTCCAA
* * * *
20351525 GCTTGCATACCTAGCCTATCTCCAGGCTTCTCTA-AGGCCTTCCAA
1 GCCTGCACACCTAGCCTACCTCCAGGCTTCTCTAGA-CCCTTCCAA
20351570 GCCTGCACACCTAG
1 GCCTGCACACCTAG
20351584 TCTGTCTCTA
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
44 1 0.02
45 46 0.98
ACGTcount: A:0.17, C:0.39, G:0.16, T:0.27
Consensus pattern (45 bp):
GCCTGCACACCTAGCCTACCTCCAGGCTTCTCTAGACCCTTCCAA
Found at i:20375342 original size:62 final size:62
Alignment explanation
Indices: 20375276--20375501 Score: 205
Period size: 61 Copynumber: 3.7 Consensus size: 62
20375266 TTTTGTAAAT
** * *
20375276 GATTATTCAAGGTGTTTCTGGCCAAAAATGCCTTGAATAATCCCTCCAAAAAAATGGCAAGG
1 GATTATTCAAGGCATTTCTTGCCAAAAACGCCTTGAATAATCCCTCCAAAAAAATGGCAAGG
* * ** **** *
20375338 GATTATTCAAGGCATTTTTTGCCAGAAACGCCTTGAATAA-CCCAATTTAATTTTAT-G-AGGG
1 GATTATTCAAGGCATTTCTTGCCAAAAACGCCTTGAATAATCCC--TCCAAAAAAATGGCAAGG
* * *
20375399 GATTATTCAAAGCATTTCTAGCCAAAAATGCCTTGAATAAT--C-CC-AAAAAATGGCAAGGG
1 GATTATTCAAGGCATTTCTTGCCAAAAACGCCTTGAATAATCCCTCCAAAAAAATGGCAA-GG
* * *
20375458 GATTATTCAAGGCATTTTTTGTCAGAAACGCCTTGAATAATCCC
1 GATTATTCAAGGCATTTCTTGCCAAAAACGCCTTGAATAATCCC
20375502 ATTGAATTTT
Statistics
Matches: 125, Mismatches: 31, Indels: 17
0.72 0.18 0.10
Matches are distributed among these distances:
56 3 0.02
57 1 0.01
58 1 0.01
59 37 0.30
60 1 0.01
61 42 0.34
62 35 0.28
63 5 0.04
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (62 bp):
GATTATTCAAGGCATTTCTTGCCAAAAACGCCTTGAATAATCCCTCCAAAAAAATGGCAAGG
Found at i:20375414 original size:61 final size:62
Alignment explanation
Indices: 20375336--20375558 Score: 204
Period size: 59 Copynumber: 3.7 Consensus size: 62
20375326 AAAATGGCAA
* * *
20375336 GGGATTATTCAAGGCATTTTTTGCCAGAAACGCCTTGAATAA-CCCAATTTAATTTTATGAG
1 GGGATTATTCAAAGCATTTTTTGCCAAAAACGCCTTGAATAATCCCAATTAAATTTTATGAG
* * * * ***
20375397 GGGATTATTCAAAGCATTTCTAGCCAAAAATGCCTTGAATAATCCCAA-AAAATGGCA--AG
1 GGGATTATTCAAAGCATTTTTTGCCAAAAACGCCTTGAATAATCCCAATTAAATTTTATGAG
* * * * * *
20375456 GGGATTATTCAAGGCATTTTTTGTCAGAAACGCCTTGAATAATCCC-ATTGAATTTTTTGTAA
1 GGGATTATTCAAAGCATTTTTTGCCAAAAACGCCTTGAATAATCCCAATTAAATTTTATG-AG
* * ** * *
20375518 GAGATTATTGAAAGTGTTTTTGGCCAAAAATGCCTTGAATA
1 GGGATTATTCAAAGCATTTTTTGCCAAAAACGCCTTGAATA
20375559 TCCAAAAAAA
Statistics
Matches: 125, Mismatches: 32, Indels: 9
0.75 0.19 0.05
Matches are distributed among these distances:
58 1 0.01
59 45 0.36
61 41 0.33
62 38 0.30
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (62 bp):
GGGATTATTCAAAGCATTTTTTGCCAAAAACGCCTTGAATAATCCCAATTAAATTTTATGAG
Found at i:20375473 original size:59 final size:59
Alignment explanation
Indices: 20375276--20375502 Score: 224
Period size: 59 Copynumber: 3.8 Consensus size: 59
20375266 TTTTGTAAAT
** * *
20375276 GATTATTCAAGGTGTTTCTGGCCAAAAATGCCTTGAATAATCCCTCCAAAAAAATGGCAA-GG
1 GATTATTCAAGGCATTTCTTGCCAAAAACGCCTTGAATAAT--C-CC-AAAAAATGGCAAGGG
* * ** ***
20375338 GATTATTCAAGGCATTTTTTGCCAGAAACGCCTTGAATAA-CCCAATTTAATTTTATGAGGG
1 GATTATTCAAGGCATTTCTTGCCAAAAACGCCTTGAATAATCCCAA-AAAATGGCA--AGGG
* * *
20375399 GATTATTCAAAGCATTTCTAGCCAAAAATGCCTTGAATAATCCCAAAAAATGGCAAGGG
1 GATTATTCAAGGCATTTCTTGCCAAAAACGCCTTGAATAATCCCAAAAAATGGCAAGGG
* * *
20375458 GATTATTCAAGGCATTTTTTGTCAGAAACGCCTTGAATAATCCCA
1 GATTATTCAAGGCATTTCTTGCCAAAAACGCCTTGAATAATCCCA
20375503 TTGAATTTTT
Statistics
Matches: 133, Mismatches: 27, Indels: 13
0.77 0.16 0.08
Matches are distributed among these distances:
57 2 0.02
58 6 0.05
59 44 0.33
60 1 0.01
61 41 0.31
62 39 0.29
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (59 bp):
GATTATTCAAGGCATTTCTTGCCAAAAACGCCTTGAATAATCCCAAAAAATGGCAAGGG
Found at i:20375487 original size:120 final size:119
Alignment explanation
Indices: 20375211--20375568 Score: 436
Period size: 120 Copynumber: 3.0 Consensus size: 119
20375201 TGGTTTTGTT
* * * * * *
20375211 AAGGGATTATTCAAGGC-TTTTTGGGCAAAAACACCATGAATAATCCTATTCAATTTTTTGTAA-
1 AAGGGATTATTCAAGGCATTTTTTGCCAGAAACGCCTTGAATAA-CCCATTCAATTTTTTGTAAG
*
20375274 ATGATTATTCAAGGTGTTTCTGGCCAAAAATGCCTTGAATAATCCCTCCAAAAAAATGGC
65 A-GATTATTCAAAGTGTTTCTGGCCAAAAATGCCTTGAATAAT--C-CC-AAAAAATGGC
* * *
20375334 AAGGGATTATTCAAGGCATTTTTTGCCAGAAACGCCTTGAATAACCCAATTTAATTTTATG-AGG
1 AAGGGATTATTCAAGGCATTTTTTGCCAGAAACGCCTTGAATAACCC-ATTCAATTTTTTGTAAG
* ** *
20375398 GGATTATTCAAAGCATTTCTAGCCAAAAATGCCTTGAATAATCCCAAAAAATGGC
65 AGATTATTCAAAGTGTTTCTGGCCAAAAATGCCTTGAATAATCCCAAAAAATGGC
* *
20375453 AAGGGGATTATTCAAGGCATTTTTTGTCAGAAACGCCTTGAATAATCCCATTGAATTTTTTGTAA
1 AA-GGGATTATTCAAGGCATTTTTTGCCAGAAACGCCTTGAATAA-CCCATTCAATTTTTTGTAA
* * *
20375518 GAGATTATTGAAAGTGTTTTTGGCCAAAAATGCCTTGAAT-ATCCAAAAAAA
64 GAGATTATTCAAAGTGTTTCTGGCCAAAAATGCCTTGAATAATCCCAAAAAA
20375569 AAATAGTGGG
Statistics
Matches: 204, Mismatches: 25, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
119 12 0.06
120 64 0.31
121 39 0.19
123 57 0.28
124 32 0.16
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (119 bp):
AAGGGATTATTCAAGGCATTTTTTGCCAGAAACGCCTTGAATAACCCATTCAATTTTTTGTAAGA
GATTATTCAAAGTGTTTCTGGCCAAAAATGCCTTGAATAATCCCAAAAAATGGC
Found at i:20385163 original size:203 final size:201
Alignment explanation
Indices: 20384560--20385342 Score: 731
Period size: 201 Copynumber: 3.9 Consensus size: 201
20384550 GTAAGATTTA
* ** *
20384560 ATGACGTTAATTATGTTACCAATACTGTGATGATTTACCTTTCATCACTAATATATCAT-ATTTA
1 ATGACGATAATTATGTTACCAATACTGTGATGATTTACCTTTTGTCACTAATATAT-TTGATTTA
* * *
20384624 TCATTTATTTTGTGACGATTATAGCCTTTAATGACATTTTTTCATAAATAGTTAATGAAAACTAA
65 TCATTTATTTTGTGACGATTATAGCCTTTAATGACTTTTTTTCATAAATAGCTAACGAAAACTAA
* ** * *
20384689 CGTCACAAAAAAATAAAGCATAATATGACATTTAATTTTATTGTCAC-ATTTGACGTTATCTTAC
130 CGTCACAAAAAATTAAAGCATAAGGTGACATTTGATTTTATTGTCACGA-TTGACATTATCTTAC
*
20384753 AATCATTT
194 AATCATTC
* * * * * * * *
20384761 GTGATGATAATTGTGTTACCAATACTATGATGAATTA-TTTTTCGTCATTAATATATCTGATTAT
1 ATGACGATAATTATGTTACCAATACTGTGATGATTTACCTTTT-GTCACTAATATATTTGATT-T
** * * * * * * * *
20384825 ATCATTTATTTTGTGATAATGATAACCTTCAATAACATTCTTTTTTATAAATAGCTGACAAAAAA
64 ATCATTTATTTTGTGACGATTATAGCCTTTAATGAC-TT-TTTTTCATAAATAGCTAACGAAAAC
* * * *
20384890 TAACGTCAC-AAAAA--AAATCATAAGGTGACATTTGATTTTATTATCATGTTTGACATTATCTT
127 TAACGTCACAAAAAATTAAAGCATAAGGTGACATTTGATTTTATTGTCACGATTGACATTATCTT
*
20384952 ATAATCATTC
192 ACAATCATTC
* ** * *
20384962 ATGACGATAATTATGTTACTAATGTTGTGACGATTTATCTTTTGTCACTAATATATTTGATTTCA
1 ATGACGATAATTATGTTACCAATACTGTGATGATTTACCTTTTGTCACTAATATATTTGATTT-A
** * * *
20385027 TTGTTTATTTTGTGACGATTATAGCCTTTAATGATGTTTTTGTTCATAAAAAGCTAACCAAAACT
65 TCATTTATTTTGTGACGATTATAGCCTTTAATGA-CTTTTT-TTCATAAATAGCTAACGAAAACT
* * * ** *
20385092 AACATCA-TAAAAATTAAAGCATAAGGTGGCGCTTGATTTTATTGTCACGATAGACATTATCTTA
128 AACGTCACAAAAAATTAAAGCATAAGGTGACATTTGATTTTATTGTCACGATTGACATTATCTTA
*
20385156 CAATCATTG
193 CAATCATTC
* ** * * * * *
20385165 GTGATAATAATTTTGTCACTACTATTGTGATGATTTACCTTTTGTCACTAATAT-TTTGAATTT-
1 ATGACGATAATTATGTTACCAATACTGTGATGATTTACCTTTTGTCACTAATATATTTG-ATTTA
* * * * * *
20385228 TCGCTTTTTTTTGTGATGATTATAG-CTTTCAATGACTTTTTTTCATACATAGCTTATGAAAACT
65 TC-ATTTATTTTGTGACGATTATAGCCTTT-AATGACTTTTTTTCATAAATAGCTAACGAAAACT
* * ** *
20385292 AACGTCACAAAAAATAAAAAACATAAGGTGATGTTTTATTTTATTGTCACG
128 AACGTCACAAAAAAT-TAAAGCATAAGGTGACATTTGATTTTATTGTCACG
20385343 GTAAATTCAC
Statistics
Matches: 466, Mismatches: 98, Indels: 35
0.78 0.16 0.06
Matches are distributed among these distances:
200 32 0.07
201 211 0.45
202 92 0.20
203 103 0.22
204 28 0.06
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.42
Consensus pattern (201 bp):
ATGACGATAATTATGTTACCAATACTGTGATGATTTACCTTTTGTCACTAATATATTTGATTTAT
CATTTATTTTGTGACGATTATAGCCTTTAATGACTTTTTTTCATAAATAGCTAACGAAAACTAAC
GTCACAAAAAATTAAAGCATAAGGTGACATTTGATTTTATTGTCACGATTGACATTATCTTACAA
TCATTC
Found at i:20387816 original size:7 final size:7
Alignment explanation
Indices: 20387806--20387832 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
20387796 TTGTTGTTTT
20387806 TTTTTAC
1 TTTTTAC
20387813 TTTTTAC
1 TTTTTAC
20387820 TTTTTAC
1 TTTTTAC
20387827 TTTTTA
1 TTTTTA
20387833 AATATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTAC
Done.