Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 103 of 131
Found at i:18455687 original size:47 final size:47
Alignment explanation
Indices: 18455636--18455741 Score: 112
Period size: 48 Copynumber: 2.2 Consensus size: 47
18455626 AATATGTAAT
18455636 AAATAATAAATTACTC-AATA-AAAATAAATAAATAGTAAAAT-AAAATA
1 AAATAATAAA--ACTCAAATATAAAATAAATAAATA-TAAAATCAAAATA
* *
18455683 AAATACTAAAACTCAAAATATAAAATAAATACATATAAAATCAAAA-A
1 AAATAATAAAACTC-AAATATAAAATAAATAAATATAAAATCAAAATA
*
18455730 ATAAAAATAAAA
1 A-AATAATAAAA
18455742 TAGAAAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
45 4 0.08
47 21 0.42
48 25 0.50
ACGTcount: A:0.70, C:0.07, G:0.01, T:0.23
Consensus pattern (47 bp):
AAATAATAAAACTCAAATATAAAATAAATAAATATAAAATCAAAATA
Found at i:18455718 original size:15 final size:15
Alignment explanation
Indices: 18455652--18455740 Score: 71
Period size: 15 Copynumber: 5.9 Consensus size: 15
18455642 TAAATTACTC
18455652 AATA-AAAATAAATA
1 AATATAAAATAAATA
18455666 AATAGTAAAATAAAATAA
1 AATA-TAAAAT-AAAT-A
*
18455684 AATACTAAAACT-CA-A
1 AATA-TAAAA-TAAATA
18455699 AATATAAAATAAATA
1 AATATAAAATAAATA
*
18455714 CATATAAAATCAAA-A
1 AATATAAAAT-AAATA
18455729 AATA-AAAATAAA
1 AATATAAAATAAA
18455741 ATAGAAAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
13 4 0.06
14 15 0.24
15 19 0.31
16 8 0.13
17 5 0.08
18 10 0.16
19 1 0.02
ACGTcount: A:0.72, C:0.06, G:0.01, T:0.21
Consensus pattern (15 bp):
AATATAAAATAAATA
Found at i:18456620 original size:3 final size:3
Alignment explanation
Indices: 18456612--18456780 Score: 91
Period size: 3 Copynumber: 58.3 Consensus size: 3
18456602 ATCTTATACT
* * * * * * * * *
18456612 ATA ATA ATA AAA ATA ATA ATA ACA ACA ACA ACA ATA ACA ACA ACA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
18456660 ACA ATG ATA ATA ATA ATA AT- ATA ACA AT- ATA AT- GTA AT- ATA GT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
18456703 ATA CT- ATA ATA ATA GTA ATA ATA ACA ATA A-A ATA ATA ACAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
* * *
18456747 ATA ATA CTA ATA ATA AAA ATA ATA ATA GTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18456781 AAATTGACCC
Statistics
Matches: 130, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
2 11 0.08
3 117 0.90
4 2 0.02
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:18470443 original size:10 final size:10
Alignment explanation
Indices: 18470423--18470475 Score: 62
Period size: 10 Copynumber: 5.8 Consensus size: 10
18470413 GGGATTAATC
18470423 AAAAAGA-AA
1 AAAAAGAGAA
18470432 AAAAAGAGAA
1 AAAAAGAGAA
18470442 AAAAAGAG--
1 AAAAAGAGAA
18470450 AAAAAGAG--
1 AAAAAGAGAA
*
18470458 AAAAAGAAAA
1 AAAAAGAGAA
18470468 AAAAAGAG
1 AAAAAGAG
18470476 TTGATTGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
8 15 0.38
9 7 0.18
10 17 0.44
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAAAGAGAA
Found at i:18470470 original size:8 final size:8
Alignment explanation
Indices: 18470431--18470470 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
18470421 TCAAAAAGAA
18470431 AAAAAAGAG
1 AAAAAA-AG
18470440 AAAAAAAG
1 AAAAAAAG
*
18470448 AGAAAAAG
1 AAAAAAAG
*
18470456 AGAAAAAG
1 AAAAAAAG
18470464 AAAAAAA
1 AAAAAAA
18470471 AAGAGTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 23 0.79
9 6 0.21
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:18470472 original size:18 final size:18
Alignment explanation
Indices: 18470423--18470475 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
18470413 GGGATTAATC
18470423 AAAAAG-AAAAAAAAGAG
1 AAAAAGAAAAAAAAAGAG
*
18470440 AAAAA-AAGAGAAAAAGAG
1 AAAAAGAA-AAAAAAAGAG
18470458 AAAAAGAAAAAAAAAGAG
1 AAAAAGAAAAAAAAAGAG
18470476 TTGATTGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 6 0.19
18 23 0.74
19 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAAAAGAG
Found at i:18470863 original size:35 final size:35
Alignment explanation
Indices: 18470801--18470887 Score: 131
Period size: 35 Copynumber: 2.5 Consensus size: 35
18470791 TCTTGGTTTC
*
18470801 TGACTTGTAATTCAAT-TTTGTCATCCTTATTTTT
1 TGACTTGTAATTCAATCTTAGTCATCCTTATTTTT
* *
18470835 TGACTTGTAGTTAAATCTTAGTCATCCTTATTTTT
1 TGACTTGTAATTCAATCTTAGTCATCCTTATTTTT
*
18470870 TGATTTGTAATTCAATCT
1 TGACTTGTAATTCAATCT
18470888 CGATTATATT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 14 0.30
35 32 0.70
ACGTcount: A:0.23, C:0.14, G:0.10, T:0.53
Consensus pattern (35 bp):
TGACTTGTAATTCAATCTTAGTCATCCTTATTTTT
Found at i:18470986 original size:36 final size:36
Alignment explanation
Indices: 18470896--18470998 Score: 109
Period size: 36 Copynumber: 2.9 Consensus size: 36
18470886 CTCGATTATA
* * * * *
18470896 TTTATTTCCAAACTTACGATTTAATCCTAGT-CACT
1 TTTATTTCCTAACTTGCGATTCAATCCCAATCCACT
* * * * *
18470931 CTTATCTCTTAACATGCGATTCAATCCCAATCCCCT
1 TTTATTTCCTAACTTGCGATTCAATCCCAATCCACT
18470967 TTTATTTCCTAACTTGCGATTCAATCCCAATC
1 TTTATTTCCTAACTTGCGATTCAATCCCAATC
18470999 ATATTTGTTT
Statistics
Matches: 53, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
35 22 0.42
36 31 0.58
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (36 bp):
TTTATTTCCTAACTTGCGATTCAATCCCAATCCACT
Found at i:18471088 original size:35 final size:36
Alignment explanation
Indices: 18471019--18471089 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
18471009 CCTTACTTAT
* *
18471019 AGTTTAATCTTGGTCATCATTTATTTCTTGACTTGC
1 AGTTTAATCCTGGTCATCATTTATTTCTTAACTTGC
* *
18471055 AGTTTAATCCTGGTTATC-TTTATTTTTTAACTTGC
1 AGTTTAATCCTGGTCATCATTTATTTCTTAACTTGC
18471090 GATTTAGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 15 0.48
36 16 0.52
ACGTcount: A:0.20, C:0.15, G:0.13, T:0.52
Consensus pattern (36 bp):
AGTTTAATCCTGGTCATCATTTATTTCTTAACTTGC
Found at i:18472060 original size:25 final size:24
Alignment explanation
Indices: 18472032--18472105 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 24
18472022 CAAAAAAGGG
18472032 ATAGCAAAAAATAAAGAAAAAACCA
1 ATAGCAAAAAA-AAAGAAAAAACCA
* *
18472057 ATAGCAAAAGACAAGAGAAAAACCA
1 ATAGCAAAAAAAAAGA-AAAAACCA
* *
18472082 AAAGCAAAGAAAGAAAAAAAAAAC
1 ATAGCAAA-AAA-AAAGAAAAAAC
18472106 TAGTAAAAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 4 0.10
25 25 0.62
26 8 0.20
27 3 0.08
ACGTcount: A:0.72, C:0.12, G:0.12, T:0.04
Consensus pattern (24 bp):
ATAGCAAAAAAAAAGAAAAAACCA
Found at i:18473466 original size:36 final size:36
Alignment explanation
Indices: 18473425--18473576 Score: 139
Period size: 36 Copynumber: 4.2 Consensus size: 36
18473415 AATATGACCA
* * *
18473425 AGACTAAACTGTAAGTCAAGAAATAAGGGATGA-TCG
1 AGACTAAACCGTAAGTCAAGAAATAAAGGATAACT-G
* * *
18473461 GGACTAAACCGTAAGT-AGAGAAGTAAAAGATAACTG
1 AGACTAAACCGTAAGTCA-AGAAATAAAGGATAACTG
* * * *
18473497 AGGCTAAACTGTAAGTCAAAAAATAAATGATAACTG
1 AGACTAAACCGTAAGTCAAGAAATAAAGGATAACTG
* * *
18473533 AGACTATACCGTAAGTTAAGAAATAAAGGATGA-TCG
1 AGACTAAACCGTAAGTCAAGAAATAAAGGATAACT-G
18473569 AGACTAAA
1 AGACTAAA
18473577 TCAAAAGTTA
Statistics
Matches: 92, Mismatches: 20, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
35 2 0.02
36 88 0.96
37 2 0.02
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.20
Consensus pattern (36 bp):
AGACTAAACCGTAAGTCAAGAAATAAAGGATAACTG
Found at i:18473576 original size:72 final size:72
Alignment explanation
Indices: 18473425--18473576 Score: 166
Period size: 72 Copynumber: 2.1 Consensus size: 72
18473415 AATATGACCA
* * * * *
18473425 AGACTAAACTGTAAGTCAAGAAATAAGGGATGATCGGGACTAAACCGTAAGTAGAGAAGTAAAAG
1 AGACTAAACTGTAAGTCAAAAAATAAAGGATAATCGAGACTAAACCGTAAGTAGAGAAATAAAAG
18473490 ATAACTG
66 ATAACTG
* * *
18473497 AGGCTAAACTGTAAGTCAAAAAATAAATGATAA-CTGAGACTATACCGTAAGTTA-AGAAATAAA
1 AGACTAAACTGTAAGTCAAAAAATAAAGGATAATC-GAGACTAAACCGTAAG-TAGAGAAATAAA
* *
18473560 GGATGA-TCG
64 AGATAACT-G
18473569 AGACTAAA
1 AGACTAAA
18473577 TCAAAAGTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
71 2 0.03
72 62 0.94
73 2 0.03
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.20
Consensus pattern (72 bp):
AGACTAAACTGTAAGTCAAAAAATAAAGGATAATCGAGACTAAACCGTAAGTAGAGAAATAAAAG
ATAACTG
Found at i:18473621 original size:36 final size:36
Alignment explanation
Indices: 18473545--18473667 Score: 97
Period size: 36 Copynumber: 3.4 Consensus size: 36
18473535 ACTATACCGT
* * * * *
18473545 AAGTTAAGAAATAAAGGATGATC-GAGACTAAATCAA
1 AAGTTAAAAAATAAAAGATGACCAG-GACTAAACCAC
* *
18473581 AAGTTAAAAAATAAAAGATGACCAGGATTGAACCAC
1 AAGTTAAAAAATAAAAGATGACCAGGACTAAACCAC
* * ** *
18473617 AAGTTAGTAAAAT-AAATATGGTCATGACTAAACCAC
1 AAGTTA-AAAAATAAAAGATGACCAGGACTAAACCAC
*
18473653 AAGTCAAAAAATAAA
1 AAGTTAAAAAATAAA
18473668 TGACAATTAG
Statistics
Matches: 68, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
35 5 0.07
36 57 0.84
37 6 0.09
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (36 bp):
AAGTTAAAAAATAAAAGATGACCAGGACTAAACCAC
Found at i:18474065 original size:33 final size:33
Alignment explanation
Indices: 18474028--18474109 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 33
18474018 TGCCCCCTTT
18474028 TTTTTTTTCTTTTCTTCTTCTTATTTTTCC-TCA-
1 TTTTTTTT-TTTTCTTCTTC-TATTTTTCCTTCAC
* * *
18474061 TTTTTTCTTTTTTTTTTTTCTCTTTTTCCTTCAC
1 TTTTTT-TTTTTTCTTCTTCTATTTTTCCTTCAC
18474095 TTTTTTTTTGTTTCT
1 TTTTTTTTT-TTTCT
18474110 CTTTTTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
32 8 0.20
33 21 0.51
34 12 0.29
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.77
Consensus pattern (33 bp):
TTTTTTTTTTTTCTTCTTCTATTTTTCCTTCAC
Found at i:18474068 original size:23 final size:22
Alignment explanation
Indices: 18474035--18474092 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
18474025 TTTTTTTTTT
18474035 TCTTTTCTTCTTCTTATTTTTCC
1 TCTTTT-TTCTTCTTATTTTTCC
* * *
18474058 TCATTTTTTCTTTTTTTTTTTTC
1 TC-TTTTTTCTTCTTATTTTTCC
*
18474081 TCTTTTTCCTTC
1 TCTTTTTTCTTC
18474093 ACTTTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 8 0.28
23 17 0.59
24 4 0.14
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.74
Consensus pattern (22 bp):
TCTTTTTTCTTCTTATTTTTCC
Found at i:18474115 original size:36 final size:33
Alignment explanation
Indices: 18474027--18474115 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 33
18474017 TTGCCCCCTT
*
18474027 TTTTTTTTTCTTTTCTTCTTCTTATTTTTCCTCA
1 TTTTTTTTT-TTTTCTTTTTCTTATTTTTCCTCA
*
18474061 TTTTTTCTTTTTTT-TTTTTC-TCTTTTTCCTTCA
1 TTTTTT-TTTTTTTCTTTTTCTTATTTTTCC-TCA
18474094 CTTTTTTTTTGTTTCTCTTTTT
1 -TTTTTTTTT-TTT-TCTTTTT
18474116 TTTTACAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
32 8 0.17
33 11 0.23
34 19 0.40
35 4 0.09
36 5 0.11
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.78
Consensus pattern (33 bp):
TTTTTTTTTTTTTCTTTTTCTTATTTTTCCTCA
Found at i:18482277 original size:4 final size:4
Alignment explanation
Indices: 18482268--18482318 Score: 84
Period size: 4 Copynumber: 12.8 Consensus size: 4
18482258 CATTATATGG
* *
18482268 ATGA ATGA ATGA ATGA ATGA TTGA ATGA ATGA ATGA ATGA TTGA ATGA
1 ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATGA
18482316 ATG
1 ATG
18482319 CACAAATGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.29
Consensus pattern (4 bp):
ATGA
Found at i:18488860 original size:2 final size:2
Alignment explanation
Indices: 18488853--18488877 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18488843 TTCAAGCTCT
18488853 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18488878 TAGGATTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18492947 original size:14 final size:15
Alignment explanation
Indices: 18492922--18492954 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18492912 CATTTTCAAG
18492922 AAATCGTTTATTTAA
1 AAATCGTTTATTTAA
*
18492937 AAATC-TTTATTTAG
1 AAATCGTTTATTTAA
18492951 AAAT
1 AAAT
18492955 GCTGTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (15 bp):
AAATCGTTTATTTAA
Found at i:18493586 original size:27 final size:26
Alignment explanation
Indices: 18493541--18493616 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
18493531 ATAGGGTTTC
*
18493541 AATTTAGGGTTTTGATTTTAAGATTTT
1 AATTTAGGGTTTAG-TTTTAAGATTTT
*
18493568 AATTTAGGGTTCTAGTTTTAGGATTTT
1 AATTTAGGGTT-TAGTTTTAAGATTTT
**
18493595 GGTTTAGGGTTTTAGGTTTTAA
1 AATTTAGGG-TTTA-GTTTTAA
18493617 TTTAGGGTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 31 0.76
28 10 0.24
ACGTcount: A:0.22, C:0.01, G:0.24, T:0.53
Consensus pattern (26 bp):
AATTTAGGGTTTAGTTTTAAGATTTT
Found at i:18493614 original size:20 final size:21
Alignment explanation
Indices: 18493582--18493627 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
18493572 TAGGGTTCTA
**
18493582 GTTTTAGGATTTTGGTTTAGG
1 GTTTTAGGATTTTAATTTAGG
18493603 GTTTTAGG-TTTTAATTTAGG
1 GTTTTAGGATTTTAATTTAGG
18493623 GTTTT
1 GTTTT
18493628 GCAAATTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.57
Consensus pattern (21 bp):
GTTTTAGGATTTTAATTTAGG
Found at i:18493625 original size:27 final size:26
Alignment explanation
Indices: 18493570--18493626 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 26
18493560 AAGATTTTAA
*
18493570 TTTAGGGTTCTAGTTTTAGGATTTTGG
1 TTTAGGGTTCTAGTTTTA-GATTTGGG
*
18493597 TTTAGGGTTTTAGGTTTTA-ATTTAGGG
1 TTTAGGGTTCTA-GTTTTAGATTT-GGG
18493624 TTT
1 TTT
18493627 TGCAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 4 0.15
27 16 0.62
28 6 0.23
ACGTcount: A:0.16, C:0.02, G:0.28, T:0.54
Consensus pattern (26 bp):
TTTAGGGTTCTAGTTTTAGATTTGGG
Found at i:18493627 original size:13 final size:13
Alignment explanation
Indices: 18493506--18493608 Score: 80
Period size: 13 Copynumber: 7.8 Consensus size: 13
18493496 GGTTTACACG
*
18493506 TAGGGTTTTAATC
1 TAGGGTTTTAATT
* *
18493519 TAGGGTTTTGATA
1 TAGGGTTTTAATT
*
18493532 TAGGGTTTCAATT
1 TAGGGTTTTAATT
*
18493545 TAGGGTTTTGATTT
1 TAGGGTTTT-AATT
* *
18493559 TAAGATTTTAATT
1 TAGGGTTTTAATT
* *
18493572 TAGGGTTCTAGTTT
1 TAGGGTTTTA-ATT
* **
18493586 TAGGATTTTGGTT
1 TAGGGTTTTAATT
18493599 TAGGGTTTTA
1 TAGGGTTTTA
18493609 GGTTTTAATT
Statistics
Matches: 68, Mismatches: 20, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
13 49 0.72
14 19 0.28
ACGTcount: A:0.21, C:0.03, G:0.25, T:0.50
Consensus pattern (13 bp):
TAGGGTTTTAATT
Found at i:18493991 original size:3 final size:3
Alignment explanation
Indices: 18493765--18493974 Score: 189
Period size: 3 Copynumber: 68.7 Consensus size: 3
18493755 ATTTATTTAT
* *
18493765 TTA TTA TTA TTA TTA TTA TTA TTTG TTAA TCT- TTA TTA TT- TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA -TTA TT-A T-TA TTA TTA TTA TTA TTA
* *
18493811 TTA TTA TTT TTA TTA TTA TTA TTGT TTA CTT- TTA TTA TTA TT- TT-
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA -TTA TTA TTA TTA TTA TTA
** * * * * *
18493855 TTAA GAA GTC TGA TGGAA TTGA TAAA TT- TTA TTA TTA TTA TTA TTA
1 TT-A TTA TTA TTA T--TA TT-A T-TA TTA TTA TTA TTA TTA TTA TTA
18493901 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18493949 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
18493975 TGCTAATCTT
Statistics
Matches: 173, Mismatches: 19, Indels: 30
0.78 0.09 0.14
Matches are distributed among these distances:
2 11 0.06
3 148 0.86
4 11 0.06
5 3 0.02
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:18494375 original size:2 final size:2
Alignment explanation
Indices: 18494368--18494419 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
18494358 AGTCTTCATT
* *
18494368 TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18494410 TA TA TA TA TA
1 TA TA TA TA TA
18494420 ACAAACTAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:18495493 original size:22 final size:22
Alignment explanation
Indices: 18495468--18495516 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
18495458 CAGGTTGCCT
18495468 TTTTTATTGTTTCTGCTTCATC
1 TTTTTATTGTTTCTGCTTCATC
**
18495490 TTTTTATTGTTTCTGCTTTTTC
1 TTTTTATTGTTTCTGCTTCATC
18495512 TTTTT
1 TTTTT
18495517 GGCTTTTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.06, C:0.14, G:0.08, T:0.71
Consensus pattern (22 bp):
TTTTTATTGTTTCTGCTTCATC
Found at i:18502452 original size:19 final size:19
Alignment explanation
Indices: 18502430--18502470 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18502420 GATTTAGTGT
* *
18502430 TTTGGGGTTCCATTTAGGG
1 TTTGAGGTTACATTTAGGG
*
18502449 TTTGAGTTTACATTTAGGG
1 TTTGAGGTTACATTTAGGG
18502468 TTT
1 TTT
18502471 TAGGCTTTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.07, G:0.29, T:0.49
Consensus pattern (19 bp):
TTTGAGGTTACATTTAGGG
Found at i:18502938 original size:18 final size:18
Alignment explanation
Indices: 18502908--18502948 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
18502898 TTGTACCTAC
18502908 TATTT-TTATTTTTATTGT
1 TATTTATTATTTTTATT-T
18502926 TATTTATTA-TTTTATTT
1 TATTTATTATTTTTATTT
18502943 TATTTA
1 TATTTA
18502949 GTCCCTAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 12 0.55
19 3 0.14
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (18 bp):
TATTTATTATTTTTATTT
Found at i:18504247 original size:35 final size:35
Alignment explanation
Indices: 18504158--18504249 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 35
18504148 ATAAATTTTT
* * *
18504158 TTTTAGGCGAAATGGGCCTCCTT-TTCATGCAAGAG
1 TTTTAGGTGAAATGGGCCT-TTTCTTCATGCAAAAG
*
18504193 TTTTAGGTGAAATGGGCCTTTTCTTCATGCAAAAT
1 TTTTAGGTGAAATGGGCCTTTTCTTCATGCAAAAG
*
18504228 TTTTAGGTCGAAA-GTGCCTTTT
1 TTTTAGGT-GAAATGGGCCTTTT
18504250 TTAGTTTTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
34 2 0.04
35 44 0.88
36 4 0.08
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (35 bp):
TTTTAGGTGAAATGGGCCTTTTCTTCATGCAAAAG
Found at i:18505465 original size:41 final size:41
Alignment explanation
Indices: 18505408--18505489 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
18505398 CTTGGAAAGA
18505408 ATACCAAGTTCATCATTTGTAAGTGAACTTTCAATGTCATC
1 ATACCAAGTTCATCATTTGTAAGTGAACTTTCAATGTCATC
* *
18505449 ATACCAAGTTTATCATTTGTAAGTGAACTTTCAGTGTCATC
1 ATACCAAGTTCATCATTTGTAAGTGAACTTTCAATGTCATC
18505490 TATAATGATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATACCAAGTTCATCATTTGTAAGTGAACTTTCAATGTCATC
Found at i:18506167 original size:47 final size:47
Alignment explanation
Indices: 18506112--18506206 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
18506102 GCTTGCTCAT
*
18506112 ACAATTTAATTAACTATA-AAGAAATTGACACATTAGCTAAATTCTTA
1 ACAATTTAACTAACTATACAA-AAATTGACACATTAGCTAAATTCTTA
* *
18506159 ACAATTTAACTAACTATACAAATATTGATACATTAGCTAAATTCTTA
1 ACAATTTAACTAACTATACAAAAATTGACACATTAGCTAAATTCTTA
18506206 A
1 A
18506207 TGATTTGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 42 0.95
48 2 0.05
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (47 bp):
ACAATTTAACTAACTATACAAAAATTGACACATTAGCTAAATTCTTA
Found at i:18508216 original size:17 final size:16
Alignment explanation
Indices: 18508194--18508225 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
18508184 CACATTTATA
18508194 TTTTTTATTCATATCAT
1 TTTTTTA-TCATATCAT
18508211 TTTTTTATCATATCA
1 TTTTTTATCATATCA
18508226 CATGATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTTTATCATATCAT
Found at i:18508931 original size:1 final size:1
Alignment explanation
Indices: 18508925--18508958 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
18508915 GTCCAAAATT
18508925 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18508959 GAAAGAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:18512207 original size:3 final size:3
Alignment explanation
Indices: 18512199--18512231 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
18512189 CTTTAGTTAT
*
18512199 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18512232 TATTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:18514887 original size:2 final size:2
Alignment explanation
Indices: 18514880--18514927 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
18514870 ACATATGAAC
18514880 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18514922 AG AG AG
1 AG AG AG
18514928 TTATTACCAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18518002 original size:2 final size:2
Alignment explanation
Indices: 18517995--18518019 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18517985 ATTAACCCAC
18517995 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
18518020 CCTGCTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18519887 original size:1 final size:1
Alignment explanation
Indices: 18519883--18519908 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
18519873 CCCAAATAAC
18519883 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
18519909 CAACTTCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:18521566 original size:24 final size:25
Alignment explanation
Indices: 18521493--18521564 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
18521483 ATATTTAATA
*
18521493 AAATATT-TAATATTTACATTTAAATT
1 AAATATTATAAT-TTTA-AATTAAATT
* * *
18521519 AAATA-AAAAATTTTGAATTAAATT
1 AAATATTATAATTTTAAATTAAATT
18521543 AAATATTATAATTTTAAATTAA
1 AAATATTATAATTTTAAATTAA
18521565 TTTTTAATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
24 13 0.35
25 16 0.43
26 8 0.22
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (25 bp):
AAATATTATAATTTTAAATTAAATT
Found at i:18521814 original size:2 final size:2
Alignment explanation
Indices: 18521807--18521833 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18521797 ATAAGATGTC
18521807 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
18521834 AGACCCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18522286 original size:99 final size:100
Alignment explanation
Indices: 18522146--18522344 Score: 267
Period size: 99 Copynumber: 2.0 Consensus size: 100
18522136 TCATTGAAAC
* * * *
18522146 AACCTAGGCAGTAAGATTGTGTGCTATGATTAAGTCTAAGTTT-AAGAGGCATTGAGACAACCTA
1 AACCTAGGCAGTAAGATTGTGTGCCATGATTAAATCCAAGTTTGAA-AAGCATTGAGACAACCTA
*
18522210 GACCCACAAAGAGACAAGATTGAATCCTAGGCCTAA
65 GACCCACAAAGAGACAAGATTGAATCCTAAGCCTAA
* *
18522246 AACCTAGGCAG-AAGGTTGTGTGCCATGATTAAATCCAAGTTTGAAAAGCATTGAGACAACTTAG
1 AACCTAGGCAGTAAGATTGTGTGCCATGATTAAATCCAAGTTTGAAAAGCATTGAGACAACCTAG
* * * * *
18522310 ACCCATAGAGAGGCAAGGTTGAATGCTAAGCCTAA
66 ACCCACAAAGAGACAAGATTGAATCCTAAGCCTAA
18522345 GGTGTATTGT
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
99 73 0.85
100 13 0.15
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (100 bp):
AACCTAGGCAGTAAGATTGTGTGCCATGATTAAATCCAAGTTTGAAAAGCATTGAGACAACCTAG
ACCCACAAAGAGACAAGATTGAATCCTAAGCCTAA
Found at i:18537586 original size:88 final size:87
Alignment explanation
Indices: 18537429--18537606 Score: 270
Period size: 88 Copynumber: 2.0 Consensus size: 87
18537419 ATTAAATGGC
* *
18537429 CATTTTTATTATAGACAAAACAAATATATAAGGTGAAAGTCTACATTTTTCATTAAGCAAATCAA
1 CATTTTTATTATAAACAAAACAAATATACAAGGTGAAAGTCTACATTTTTCATTAAGCAAATCAA
*
18537494 GATATCAA-AAGCATTTATGGGA
66 GATATCAAGAA-CATTTATAGGA
*
18537516 CATTTTTCATTATAAACAAAACAAATATACAAGGTGGAAGTCT-CTATTTTTCATTAAGCAAATC
1 CATTTTT-ATTATAAACAAAACAAATATACAAGGTGAAAGTCTAC-ATTTTTCATTAAGCAAATC
*
18537580 ATGATATCAAGAACATTTATAGGA
64 AAGATATCAAGAACATTTATAGGA
18537604 CAT
1 CAT
18537607 GGACACAAGC
Statistics
Matches: 83, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
87 8 0.10
88 73 0.88
89 2 0.02
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.33
Consensus pattern (87 bp):
CATTTTTATTATAAACAAAACAAATATACAAGGTGAAAGTCTACATTTTTCATTAAGCAAATCAA
GATATCAAGAACATTTATAGGA
Found at i:18538308 original size:24 final size:25
Alignment explanation
Indices: 18538266--18538312 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
18538256 GTGGACTAGA
18538266 AGGACTTTCTTGAGAAATATCTTAT
1 AGGACTTTCTTGAGAAATATCTTAT
* *
18538291 AGGAC-TTCTTGTGGAATATCTT
1 AGGACTTTCTTGAGAAATATCTT
18538313 GAACCCCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (25 bp):
AGGACTTTCTTGAGAAATATCTTAT
Found at i:18553788 original size:18 final size:18
Alignment explanation
Indices: 18553742--18553792 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
18553732 TAACAAAGAA
18553742 GCTATGATAGTCAATCTT
1 GCTATGATAGTCAATCTT
*
18553760 GC-ATAACTAGTCAATC-T
1 GCTATGA-TAGTCAATCTT
18553777 GTCTATGATAGTCAAT
1 G-CTATGATAGTCAAT
18553793 GTTCCTGTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 5 0.18
18 20 0.71
19 3 0.11
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (18 bp):
GCTATGATAGTCAATCTT
Found at i:18556472 original size:19 final size:19
Alignment explanation
Indices: 18556450--18556491 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
18556440 AAAAGTTTTT
18556450 AAAAA-TTTAAAAGGTAAAA
1 AAAAATTTTAAAA-GTAAAA
*
18556469 AAAAATTTTAAAATTAAAA
1 AAAAATTTTAAAAGTAAAA
18556488 AAAA
1 AAAA
18556492 GAAAGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAAATTTTAAAAGTAAAA
Found at i:18556473 original size:20 final size:19
Alignment explanation
Indices: 18556450--18556491 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
18556440 AAAAGTTTTT
18556450 AAAAATTTAAAAGGTAAAAA
1 AAAAATTTAAAA-GTAAAAA
* *
18556470 AAAATTTTAAAATTAAAAA
1 AAAAATTTAAAAGTAAAAA
18556489 AAA
1 AAA
18556492 GAAAGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAAATTTAAAAGTAAAAA
Found at i:18558290 original size:58 final size:57
Alignment explanation
Indices: 18558165--18558505 Score: 278
Period size: 58 Copynumber: 5.7 Consensus size: 57
18558155 TTTATACAAG
* * **
18558165 AGAAAATTGATACTTTCAACTTTTCCCT-AAAATACTTTTTTTTGAAAATTTAATTTCGA
1 AGAAAATTGATACTTTCAACTTTT-TCTAAAAAAAC--TTTTTTGAAAATTTAATTTTAA
* * * *
18558224 GGAAAATTGATACTTTCAACTTTTTCTCAAAATA-TTTTTTAAAAAACTTTAATTTTAA
1 AGAAAATTGATACTTTCAACTTTTTCTAAAAAAACTTTTTT-GAAAA-TTTAATTTTAA
* * *
18558282 AGAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAAACCCTTTTTGAAAATTT-ATTTTTA
1 AGAAAATTGATACTTTCAACTTTTTCT-----AAAAAAA-CTTTTTTGAAAATTTAATTTTAA
* * **
18558344 AGAAAAATTGATACTTTCAATTTTTTCTCAAAAATA-TTTTTTGAAAACTTTAA-TTTCG
1 AG-AAAATTGATACTTTCAACTTTTTCT-AAAAAAACTTTTTTGAAAA-TTTAATTTTAA
* * * *
18558402 AGAAAAATTGATATTTTTAACTTTTCCTAAAAAAAAAACTTATTTTGAAAATTTATTTTTAA
1 AG-AAAATTGATACTTTCAACTTTTTCT---AAAAAAACTT-TTTTGAAAATTTAATTTTAA
* *
18558464 AAAAAATTGATACTTTCAACTTTTCTCTAAAAAAATTTTTTT
1 AGAAAATTGATACTTTCAACTTTT-TCTAAAAAAACTTTTTT
18558506 TTACGGTTCC
Statistics
Matches: 230, Mismatches: 33, Indels: 39
0.76 0.11 0.13
Matches are distributed among these distances:
56 6 0.03
57 14 0.06
58 70 0.30
59 45 0.20
60 6 0.03
61 26 0.11
62 23 0.10
63 31 0.13
64 4 0.02
65 5 0.02
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.43
Consensus pattern (57 bp):
AGAAAATTGATACTTTCAACTTTTTCTAAAAAAACTTTTTTGAAAATTTAATTTTAA
Found at i:18558358 original size:121 final size:117
Alignment explanation
Indices: 18558162--18558504 Score: 404
Period size: 121 Copynumber: 2.9 Consensus size: 117
18558152 GCTTTTATAC
* **** * **
18558162 AAGAGAAAATTGATACTTTCAACTTTTCCCT--AAAATACTTTTTTTTGAAAATTTAATTTCGAG
1 AAGA-AAAATTGATACTTTCAACTTTT-CCTAAAAAAAAAACCTTTTTGAAAATTTATTTTTAAG
*
18558225 GAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTAAAAAACTTTAATTTTA
64 AAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTT-AAAAACTTTAA-TTTA
18558281 AAG-AAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAAACCCTTTTTGAAAATTTATTTTTAA
1 AAGAAAAATTGATACTTTCAACTTTTCCT--AAAAAAAAAA-CCTTTTTGAAAATTTATTTTTAA
* * *
18558345 GAAAAATTGATACTTTCAATTTTTTCTCAAAAATATTTTTTGAAAACTTTAATTTC
63 GAAAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTTAAAAACTTTAATTTA
* * * * *
18558401 GAGAAAAATTGATATTTTTAACTTTTCCTAAAAAAAAAACTTATTTTGAAAATTTATTTTTAAAA
1 AAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAACCT-TTTTGAAAATTTATTTTTAAGA
* *
18558466 AAAATTGATACTTTCAACTTTTCTCTAAAAAAATTTTTT
65 AAAATTGATACTTTCAACTTTT-TCTCAAAATATTTTTT
18558505 TTTACGGTTC
Statistics
Matches: 195, Mismatches: 20, Indels: 18
0.84 0.09 0.08
Matches are distributed among these distances:
116 3 0.02
117 22 0.11
118 2 0.01
119 66 0.34
120 13 0.07
121 77 0.39
122 12 0.06
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.43
Consensus pattern (117 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAACCTTTTTGAAAATTTATTTTTAAGAA
AAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTAAAAACTTTAATTTA
Found at i:18560365 original size:89 final size:89
Alignment explanation
Indices: 18560206--18560392 Score: 297
Period size: 89 Copynumber: 2.1 Consensus size: 89
18560196 TCAACTGGAT
*
18560206 TTTTTTTTTAAAATTTTGATCAAAGCTCCTCTAAGCAGAGGCTTAACGACTTTGAGAAACATAAA
1 TTTTTTTTTAAAATTTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAA
18560271 CAAAGCTCCTCTAAACAGAGGTAA
66 CAAAGCTCCTCTAAACAGAGGTAA
* *
18560295 TTTTTTTTTAAAATTTTGATCAAAAGCTCCTCTAAGTAGAGGCTCAACGGCTTTTGA-AAA-ATA
1 TTTTTTTTTAAAATTTTGATC-AAAGCTCCTCTAAGCAGAGGCTCAACGAC-TTTGAGAAACATA
* *
18560358 AATAAAGCTCCTTTAAACAGAGGTAA
64 AACAAAGCTCCTCTAAACAGAGGTAA
18560384 TTTTTTTTT
1 TTTTTTTTT
18560393 TGTTTTTTTA
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
89 57 0.63
90 29 0.32
91 5 0.05
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (89 bp):
TTTTTTTTTAAAATTTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAA
CAAAGCTCCTCTAAACAGAGGTAA
Found at i:18560695 original size:83 final size:82
Alignment explanation
Indices: 18560446--18561045 Score: 749
Period size: 83 Copynumber: 7.2 Consensus size: 82
18560436 CTCAACAGCT
* * * * * * * *
18560446 TTTGAAAGATAAATGGCTCCTCT-AATCAGAGGCTCAACGACTTTGGCAAGTAAATGGTTCCTCT
1 TTTGAAAAATAAATTGCTCCTCTAAAT-AGAGGCACCACGACTTTGGAAAATAAATTGCTCCTCT
*
18560510 AAATAGAGGCACCACAAC
65 AAATAGAGGCACCACGAC
* * * * * * *
18560528 TTT-AGAAAATAAATTACTCCTTTAAACAAAGGCACTACAACTTTGAAAAATAAATTGCTCCTCC
1 TTTGA-AAAATAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGGAAAATAAATTG---CTCC
*
18560592 TCTAAACAGAGGCACCACGAC
62 TCTAAATAGAGGCACCACGAC
* *
18560613 TTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCAACCACGACTTTGGAAAATAAATTGCTCATCT
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGC-ACCACGACTTTGGAAAATAAATTGCTCCTCT
*
18560678 AAACAGAGGCACCACGAC
65 AAATAGAGGCACCACGAC
* * * *
18560696 TTTGAAAAGTAAATTACTCCTCTAAACAGAGGCAACCACGACTTT-GAAAATAAATTGCTCATCT
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGC-ACCACGACTTTGGAAAATAAATTGCTCCTCT
*
18560760 AAACAGAGGCACCACGAC
65 AAATAGAGGCACCACGAC
* *
18560778 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCAACCATGACTTTGGAAAGTAAATTGCTCCTCT
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGC-ACCACGACTTTGGAAAATAAATTGCTCCTCT
**
18560843 AAATAGAAACAACCACGAC
65 AAATAGAGGC-ACCACGAC
* * * *
18560862 TTTGAAAAATAAATTACTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTACTCTTCT
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGGAAAA-TAAATTGCTCCTCT
18560926 AAATAGAGGCAACCACGAC
65 AAATAGAGGC-ACCACGAC
*
18560945 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTA
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGGAAAATAAATTGCTCCTCTA
*
18561010 AATAGAGGAAACCACGAC
66 AATAGAGG-CACCACGAC
18561028 TTTGAAAAATAAATTGCT
1 TTTGAAAAATAAATTGCT
18561046 TCTTGATAAT
Statistics
Matches: 456, Mismatches: 50, Indels: 23
0.86 0.09 0.04
Matches are distributed among these distances:
81 1 0.00
82 121 0.27
83 221 0.48
84 43 0.09
85 48 0.11
86 22 0.05
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (82 bp):
TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGGAAAATAAATTGCTCCTCTA
AATAGAGGCACCACGAC
Found at i:18561037 original size:42 final size:41
Alignment explanation
Indices: 18560446--18561045 Score: 747
Period size: 41 Copynumber: 14.4 Consensus size: 41
18560436 CTCAACAGCT
* * * *
18560446 TTTGAAAGATAAATGGCTCCTCT-AATCAGAGGCTCAACGAC
1 TTTGAAAAATAAATTGCTCCTCTAAAT-AGAGGCACCACGAC
** * * * *
18560487 TTTGGCAAGTAAATGGTTCCTCTAAATAGAGGCACCACAAC
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGAC
* * * * * *
18560528 TTT-AGAAAATAAATTACTCCTTTAAACAAAGGCACTACAAC
1 TTTGA-AAAATAAATTGCTCCTCTAAATAGAGGCACCACGAC
*
18560569 TTTGAAAAATAAATTGCTCCTCCTCTAAACAGAGGCACCACGAC
1 TTTGAAAAATAAATTG---CTCCTCTAAATAGAGGCACCACGAC
*
18560613 TTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCAACCACGAC
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGC-ACCACGAC
* * *
18560655 TTTGGAAAATAAATTGCTCATCTAAACAGAGGCACCACGAC
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGAC
* * *
18560696 TTTGAAAAGTAAATTACTCCTCTAAACAGAGGCAACCACGAC
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGC-ACCACGAC
* *
18560738 TTTG-AAAATAAATTGCTCATCTAAACAGAGGCACCACGAC
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGAC
*
18560778 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCAACCATGAC
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGC-ACCACGAC
* * **
18560820 TTTGGAAAGTAAATTGCTCCTCTAAATAGAAACAACCACGAC
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGC-ACCACGAC
* *
18560862 TTTGAAAAATAAATTACTCCTCTAAACAGAGGCACCACGAC
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGAC
* * *
18560903 TTTGAAAAGTAAATTACTCTTCTAAATAGAGGCAACCACGAC
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGC-ACCACGAC
18560945 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGAC
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGAC
*
18560986 TTTGAAAAATAAATTGCTCCTCTAAATAGAGGAAACCACGAC
1 TTTGAAAAATAAATTGCTCCTCTAAATAGAGG-CACCACGAC
18561028 TTTGAAAAATAAATTGCT
1 TTTGAAAAATAAATTGCT
18561046 TCTTGATAAT
Statistics
Matches: 490, Mismatches: 57, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
40 12 0.02
41 254 0.52
42 188 0.38
44 36 0.07
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (41 bp):
TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGAC
Found at i:18561397 original size:43 final size:42
Alignment explanation
Indices: 18561315--18561420 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 42
18561305 TTCAAGGCTT
* ** *
18561315 TTCAAAGGTTTTCATTTGGCAAACTTGGAATTCATATCCAAAAA
1 TTCAAAGCTTTTCATTT-G-AATTTTGGAATTCACATCCAAAAA
18561359 -TCTAAAGCTTTTCATTTGAATTTTGGTAATTCACATCCAAAAA
1 TTC-AAAGCTTTTCATTTGAATTTTGG-AATTCACATCCAAAAA
18561402 TTCAAAGCTTTTCATTTGA
1 TTCAAAGCTTTTCATTTGA
18561421 GTTCAAAGGC
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
42 6 0.11
43 34 0.62
44 15 0.27
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (42 bp):
TTCAAAGCTTTTCATTTGAATTTTGGAATTCACATCCAAAAA
Found at i:18567860 original size:118 final size:118
Alignment explanation
Indices: 18567578--18567861 Score: 419
Period size: 118 Copynumber: 2.4 Consensus size: 118
18567568 GCTTTTATAC
* *
18567578 AAGGAAAAATTGATATTTTTAACTTTTCCCTAAAATACTTTTTTTTGAAAATTTAATTTCGAGGA
1 AAGG-AAAATTGATACTTTCAACTTTTCCC-AAAATA-TTTTTTTTGAAAATTTAATTTCGAGGA
18567643 AAATTGATACTTTCAACTTTTCCTAAAAAAAAAAACCCTTTTTGAAAATTTATTTTT
63 AAATTGATACTTTCAACTTTTCCT-AAAAAAAAAACCCTTTTTGAAAATTTATTTTT
* * *
18567700 AAGGAAGATTGATACTTTCAACTTTTCCCCAAATATATTTTTTGAAAACTTTAATTTCGAGGAAA
1 AAGGAAAATTGATACTTTCAACTTTTCCCAAAATATTTTTTTTGAAAA-TTTAATTTCGAGGAAA
* *
18567765 ATTGATATTTTCAACTTTTCCT-AAAAAAAAA-CTTATTTTGAAAATTTATTTTT
65 ATTGATACTTTCAACTTTTCCTAAAAAAAAAACCCT-TTTTGAAAATTTATTTTT
*
18567818 AAGGAAAATTGATACTTTCAACTTTTTCCCAAAATTTTTTTTTT
1 AAGGAAAATTGATACTTTCAAC-TTTTCCCAAAATATTTTTTTT
18567862 TACGATTCCT
Statistics
Matches: 148, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
117 2 0.01
118 48 0.32
119 30 0.20
120 42 0.28
121 22 0.15
122 4 0.03
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (118 bp):
AAGGAAAATTGATACTTTCAACTTTTCCCAAAATATTTTTTTTGAAAATTTAATTTCGAGGAAAA
TTGATACTTTCAACTTTTCCTAAAAAAAAAACCCTTTTTGAAAATTTATTTTT
Found at i:18567861 original size:120 final size:119
Alignment explanation
Indices: 18567578--18567862 Score: 407
Period size: 120 Copynumber: 2.4 Consensus size: 119
18567568 GCTTTTATAC
* *
18567578 AAGGAAAAATTGATATTTTTAACTTTTCCCTAAAA-TACTTTTTTTTGAAAATTTAATTTCGAGG
1 AAGG-AAAATTGATACTTTCAACTTTTCCC-AAAATTA-TTTTTTTTGAAAATTTAATTTCGAGG
18567642 AAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAACCCTTTTTGAAAATTTATTTTT
63 AAAATTGATACTTTCAACTTTTCCT-AAAAAAAAAACCCTTTTTGAAAATTTATTTTT
* * *
18567700 AAGGAAGATTGATACTTTCAACTTTTCCCCAAA-TATATTTTTTGAAAACTTTAATTTCGAGGAA
1 AAGGAAAATTGATACTTTCAACTTTTCCCAAAATTATTTTTTTTGAAAA-TTTAATTTCGAGGAA
* *
18567764 AATTGATATTTTCAACTTTTCCT-AAAAAAAAA-CTTATTTTGAAAATTTATTTTT
65 AATTGATACTTTCAACTTTTCCTAAAAAAAAAACCCT-TTTTGAAAATTTATTTTT
*
18567818 AAGGAAAATTGATACTTTCAACTTTTTCCCAAAATTTTTTTTTTT
1 AAGGAAAATTGATACTTTCAAC-TTTTCCCAAAATTATTTTTTTT
18567863 ACGATTCCTA
Statistics
Matches: 148, Mismatches: 11, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
117 2 0.01
118 48 0.32
119 22 0.15
120 50 0.34
121 22 0.15
122 4 0.03
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.44
Consensus pattern (119 bp):
AAGGAAAATTGATACTTTCAACTTTTCCCAAAATTATTTTTTTTGAAAATTTAATTTCGAGGAAA
ATTGATACTTTCAACTTTTCCTAAAAAAAAAACCCTTTTTGAAAATTTATTTTT
Found at i:18573980 original size:26 final size:26
Alignment explanation
Indices: 18573930--18573980 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
18573920 AAAGTTTTGG
*
18573930 ATTTAATTGCTTTCATTTGATATTTA
1 ATTTAATTGCTTTCATTTGAAATTTA
*
18573956 ATTTAATTTGCTTT-ATTTTAAATTT
1 ATTTAA-TTGCTTTCATTTGAAATTT
18573981 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (26 bp):
ATTTAATTGCTTTCATTTGAAATTTA
Found at i:18577864 original size:20 final size:19
Alignment explanation
Indices: 18577822--18577864 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
18577812 AAAAAGCCTT
18577822 AAAAAAAAGAAAAAGAGAGA
1 AAAAAAAAGAAAAAGAGA-A
* * *
18577842 AAAAAAAGGCAAAAGTGAA
1 AAAAAAAAGAAAAAGAGAA
18577861 AAAA
1 AAAA
18577865 CTTTATGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (19 bp):
AAAAAAAAGAAAAAGAGAA
Found at i:18578676 original size:193 final size:193
Alignment explanation
Indices: 18578347--18578727 Score: 595
Period size: 193 Copynumber: 2.0 Consensus size: 193
18578337 ACTTAAGTTA
* *
18578347 TGATTAACCCATTCGTTCTCCTTTGTGGAGTGACAAGAATCATTTGACACCTTAAATGGGTTCAT
1 TGATTAACCCATTCATTCTCCTTTATGGAGTGACAAGAATCATTTGACACCTTAAATGGGTTCAT
* *
18578412 TCTACATGACATTTTTCTCATTCATTTCACATTACCAGTTTTTCGTAATAACTTGCATTAAGGGT
66 TCTACATGACATTTTTCTCATTCATTCCACATTACCAGTTTTTCGCAATAACTTGCATTAAGGGT
* *
18578477 GATTTGTTAAAATAAGACATCTTTCATGAATCGTATTACTATCAAAATGGATTAATGTATGAG
131 GATTTGTTAAAATAAGACATCTTTCATGAATCGCATTACTAGCAAAATGGATTAATGTATGAG
*
18578540 TGATTAACCCATTCATTCTCTTTTATGGAGTGACAAGAATCATTTGACACCTTAAATGGG-TCAT
1 TGATTAACCCATTCATTCTCCTTTATGGAGTGACAAGAATCATTTGACACCTTAAATGGGTTCAT
** * *
18578604 TCTACATGATC-TTTTTCTTGTTCATTCCACATTACCATTTTTTTTGCAATAACTTGCATTAAGG
66 TCTACATGA-CATTTTTCTCATTCATTCCACATTACCA-GTTTTTCGCAATAACTTGCATTAAGG
* * * *
18578668 GTGATTTGTTAAAATGAGGCATCTTTCATGAATCGCATTACTGGCAAAGTGGATTAATGT
129 GTGATTTGTTAAAATAAGACATCTTTCATGAATCGCATTACTAGCAAAATGGATTAATGT
18578728 GTAAGTTATG
Statistics
Matches: 171, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
192 36 0.21
193 135 0.79
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (193 bp):
TGATTAACCCATTCATTCTCCTTTATGGAGTGACAAGAATCATTTGACACCTTAAATGGGTTCAT
TCTACATGACATTTTTCTCATTCATTCCACATTACCAGTTTTTCGCAATAACTTGCATTAAGGGT
GATTTGTTAAAATAAGACATCTTTCATGAATCGCATTACTAGCAAAATGGATTAATGTATGAG
Found at i:18579308 original size:12 final size:12
Alignment explanation
Indices: 18579278--18579363 Score: 63
Period size: 12 Copynumber: 7.2 Consensus size: 12
18579268 CCACTAAAAA
18579278 AAAAAAAGAAT-
1 AAAAAAAGAATG
*
18579289 AAGTAAAAGAATG
1 AA-AAAAAGAATG
18579302 AAAAAAA-AAGTG
1 AAAAAAAGAA-TG
18579314 AAAAAAAG-A-G
1 AAAAAAAGAATG
*
18579324 AAAAAAATGAAAG
1 AAAAAAA-GAATG
* **
18579337 AAAGAAAGAAAA
1 AAAAAAAGAATG
18579349 AAAAAAAGAAATG
1 AAAAAAAG-AATG
18579362 AA
1 AA
18579364 TGAGTGGAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
10 8 0.13
11 5 0.08
12 34 0.57
13 13 0.22
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (12 bp):
AAAAAAAGAATG
Found at i:18579312 original size:20 final size:19
Alignment explanation
Indices: 18579292--18579359 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
18579282 AAAGAATAAG
*
18579292 TAAAAGAATGAAAAAAAAA
1 TAAAAGAAAGAAAAAAAAA
*
18579311 GTGAAAA-AAAGAGAAAAAAA
1 -T-AAAAGAAAGAAAAAAAAA
*
18579331 TGAAAGAAAGAAAGAAAAAA
1 TAAAAGAAAGAAA-AAAAAA
*
18579351 AAAAAGAAA
1 TAAAAGAAA
18579360 TGAATGAGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 3 0.08
19 7 0.18
20 25 0.64
21 4 0.10
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (19 bp):
TAAAAGAAAGAAAAAAAAA
Found at i:18580576 original size:32 final size:32
Alignment explanation
Indices: 18580557--18580929 Score: 230
Period size: 32 Copynumber: 11.7 Consensus size: 32
18580547 CTAGTTTATA
* * **
18580557 TAGCACTAATGAAAATTTAAACCCAGTCTAAT
1 TAGCACTAATGAAAATTTAAGCCTAGTCTAGC
*
18580589 TGGCACTCAATGAAAATTTAAGCCTAGTCTAGC
1 TAGCACT-AATGAAAATTTAAGCCTAGTCTAGC
* * *
18580622 TAGCACGAATG-AAATTTAAG-CTCAGTTTTGC
1 TAGCACTAATGAAAATTTAAGCCT-AGTCTAGC
* * *
18580653 TAGCA-TCAATGAAAATTTAAGCTTAATCTAAC
1 TAGCACT-AATGAAAATTTAAGCCTAGTCTAGC
* *
18580685 TAGCACGCAATG-AAATTTAAG-CTCAATCTAGC
1 TAGCAC-TAATGAAAATTTAAGCCT-AGTCTAGC
* * *
18580717 TAGCACCTAATG-AAATTTAAGCCCAGTTTGGC
1 TAGCA-CTAATGAAAATTTAAGCCTAGTCTAGC
* * * *
18580749 TAACA-TCAATGAAAATTTAAGCTTAATCTAAC
1 TAGCACT-AATGAAAATTTAAGCCTAGTCTAGC
* * *
18580781 TGGCACCAATAAAAATTTAAGTCC-AGTCTAGC
1 TAGCACTAATGAAAATTTAAG-CCTAGTCTAGC
* * * * *
18580813 TGGCACCCAATG-AAATTAAAGCCTAGTTTAGT
1 TAGCA-CTAATGAAAATTTAAGCCTAGTCTAGC
* * * *
18580845 TGGCACCAATGAAAATTTAAACCTAGTTTAGC
1 TAGCACTAATGAAAATTTAAGCCTAGTCTAGC
* * *
18580877 TAGCACCAAAT-AAAATTTAAGTCTAGT-TCAGA
1 TAGCA-CTAATGAAAATTTAAGCCTAGTCT-AGC
*
18580909 TGGC-CTAAATGAAAATTTAAG
1 TAGCACT-AATGAAAATTTAAG
18580930 TCCAATTTAT
Statistics
Matches: 269, Mismatches: 51, Indels: 42
0.74 0.14 0.12
Matches are distributed among these distances:
30 4 0.01
31 41 0.15
32 181 0.67
33 43 0.16
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (32 bp):
TAGCACTAATGAAAATTTAAGCCTAGTCTAGC
Found at i:18580899 original size:96 final size:96
Alignment explanation
Indices: 18580540--18580897 Score: 341
Period size: 96 Copynumber: 3.7 Consensus size: 96
18580530 CCACTCAAGT
* ** * * * * * * *
18580540 TTTAAGTCTAGTTTATATAGCACTAATGAAAATTTAAACCCAGTCTAATTGGCACTCAATGAAAA
1 TTTAAGCCTAGTTTAGCTAGCACCAATGAAAATTTAAACCTAATCTAACTAGCACGCAATAAAAA
*
18580605 TTTAAGCCTAGTCTAGCTAGCA-CGAATGAAA
66 TTTAAGCC-AGTCTAGCTAGCACCCAATGAAA
* * * * *
18580636 TTTAAG-CTCAGTTTTGCTAGCATCAATGAAAATTTAAGCTTAATCTAACTAGCACGCAAT-GAA
1 TTTAAGCCT-AGTTTAGCTAGCACCAATGAAAATTTAAACCTAATCTAACTAGCACGCAATAAAA
* *
18580699 ATTTAAGCTCAATCTAGCTAGCACCTAATGAAA
65 ATTTAAGC-CAGTCTAGCTAGCACCCAATGAAA
* * * * * * *
18580732 TTTAAGCCCAGTTTGGCTAACATCAATGAAAATTTAAGCTTAATCTAACTGGCAC-CAATAAAAA
1 TTTAAGCCTAGTTTAGCTAGCACCAATGAAAATTTAAACCTAATCTAACTAGCACGCAATAAAAA
*
18580796 TTTAAGTCCAGTCTAGCTGGCACCCAATGAAA
66 TTTAAG-CCAGTCTAGCTAGCACCCAATGAAA
* * * * * *
18580828 TTAAAGCCTAGTTTAGTTGGCACCAATGAAAATTTAAACCTAGTTTAGCTAGCAC-CAA-ATAAA
1 TTTAAGCCTAGTTTAGCTAGCACCAATGAAAATTTAAACCTAATCTAACTAGCACGCAATA-AAA
18580891 ATTTAAG
65 ATTTAAG
18580898 TCTAGTTCAG
Statistics
Matches: 219, Mismatches: 36, Indels: 14
0.81 0.13 0.05
Matches are distributed among these distances:
95 29 0.13
96 188 0.86
97 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.29
Consensus pattern (96 bp):
TTTAAGCCTAGTTTAGCTAGCACCAATGAAAATTTAAACCTAATCTAACTAGCACGCAATAAAAA
TTTAAGCCAGTCTAGCTAGCACCCAATGAAA
Found at i:18580903 original size:64 final size:62
Alignment explanation
Indices: 18580589--18580929 Score: 292
Period size: 64 Copynumber: 5.3 Consensus size: 62
18580579 CCAGTCTAAT
* *
18580589 TGGCACTCAATGAAAATTTAAGCCTAGTCTAGCTAGCACGAATGAAATTTAAGCTCAGTTTTGC
1 TGGCAC-CAATGAAAATTTAAGCCTAGTCTAGCTAGCACCAATGAAATTTAAGCT-AGTTTAGC
* * * * * * *
18580653 TAGCATCAATGAAAATTTAAGCTTAATCTAACTAGCACGCAATGAAATTTAAGCTCAATCTAGC
1 TGGCACCAATGAAAATTTAAGCCTAGTCTAGCTAGCAC-CAATGAAATTTAAGCT-AGTTTAGC
* * * * * * * * *
18580717 TAGCACCTAATG-AAATTTAAGCCCAGTTTGGCTAACATCAATGAAAATTTAAGCTTAATCTAAC
1 TGGCACC-AATGAAAATTTAAGCCTAGTCTAGCTAGCACCAATG-AAATTTAAGC-TAGTTTAGC
* * * *
18580781 TGGCACCAATAAAAATTTAAGTCC-AGTCTAGCTGGCACCCAATGAAATTAAAGCCTAGTTTAGT
1 TGGCACCAATGAAAATTTAAG-CCTAGTCTAGCTAGCA-CCAATGAAATTTAAG-CTAGTTTAGC
* * * * *
18580845 TGGCACCAATGAAAATTTAAACCTAGTTTAGCTAGCACCAAATAAAATTTAAGTCTAGTTCAGA
1 TGGCACCAATGAAAATTTAAGCCTAGTCTAGCTAGCACC-AATGAAATTTAAG-CTAGTTTAGC
*
18580909 TGGC-CTAAATGAAAATTTAAG
1 TGGCAC-CAATGAAAATTTAAG
18580930 TCCAATTTAT
Statistics
Matches: 224, Mismatches: 42, Indels: 22
0.78 0.15 0.08
Matches are distributed among these distances:
63 42 0.19
64 169 0.75
65 13 0.06
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (62 bp):
TGGCACCAATGAAAATTTAAGCCTAGTCTAGCTAGCACCAATGAAATTTAAGCTAGTTTAGC
Found at i:18581211 original size:31 final size:31
Alignment explanation
Indices: 18581129--18581212 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
18581119 AGGTTACTTT
** *
18581129 ATTTAACTTGTGGTTCAATCACAATCATCTC
1 ATTTAACTTGTGGTTCAATCTTAATCAACTC
**
18581160 ATTTAACTTGCAGTTCAATCTTAATCAACTC
1 ATTTAACTTGTGGTTCAATCTTAATCAACTC
* *
18581191 ATTTGACTTATGGTTCAATCTT
1 ATTTAACTTGTGGTTCAATCTT
18581213 GGTTACTTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.42
Consensus pattern (31 bp):
ATTTAACTTGTGGTTCAATCTTAATCAACTC
Found at i:18581404 original size:9 final size:9
Alignment explanation
Indices: 18581392--18581477 Score: 83
Period size: 9 Copynumber: 10.0 Consensus size: 9
18581382 GAAGTAAAGG
18581392 AAAAAAAA-
1 AAAAAAAAT
*
18581400 CAAAAAAAT
1 AAAAAAAAT
* *
18581409 ATCAAAATAT
1 A-AAAAAAAT
*
18581419 CAA-AAAAT
1 AAAAAAAAT
*
18581427 CAA-AAAAT
1 AAAAAAAAT
18581435 -AA-AAAAT
1 AAAAAAAAT
18581442 AAAAAAAAT
1 AAAAAAAAT
18581451 AAAAAAAAT
1 AAAAAAAAT
18581460 AAAAAAAAT
1 AAAAAAAAT
18581469 AAAAAAAAT
1 AAAAAAAAT
18581478 CTCTTTTAAG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.10
8 21 0.31
9 33 0.49
10 6 0.09
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:18581432 original size:1 final size:1
Alignment explanation
Indices: 18581428--18581476 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
18581418 TCAAAAAATC
* * * * *
18581428 AAAAAATAAAAAATAAAAAAAATAAAAAAAATAAAAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18581477 TCTCTTTTAA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (1 bp):
A
Found at i:18581472 original size:8 final size:8
Alignment explanation
Indices: 18581393--18581475 Score: 78
Period size: 8 Copynumber: 9.9 Consensus size: 8
18581383 AAGTAAAGGA
*
18581393 AAAAAAAC
1 AAAAAAAT
18581401 AAAAAAAT
1 AAAAAAAT
*
18581409 ATCAAAATAT
1 A--AAAAAAT
*
18581419 CAAAAAAT
1 AAAAAAAT
*
18581427 CAAAAAAT
1 AAAAAAAT
18581435 -AAAAAAT
1 AAAAAAAT
18581442 AAAAAAAAT
1 -AAAAAAAT
18581451 AAAAAAAAT
1 -AAAAAAAT
18581460 AAAAAAAAT
1 -AAAAAAAT
18581469 AAAAAAA
1 AAAAAAA
18581476 ATCTCTTTTA
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
7 7 0.10
8 29 0.43
9 25 0.37
10 6 0.09
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:18581849 original size:22 final size:20
Alignment explanation
Indices: 18581812--18581853 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
18581802 ATAAAAAAAC
18581812 AAATAAATAGTAATAATAATA
1 AAATAAATAGTAATAA-AATA
18581833 AAATGAAATA-TATATAAAATA
1 AAAT-AAATAGTA-ATAAAATA
18581854 GCAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
AAATAAATAGTAATAAAATA
Found at i:18583743 original size:19 final size:19
Alignment explanation
Indices: 18583721--18583771 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
18583711 AAATAGTTAG
18583721 TGAAACTCTAAACCCTAAA
1 TGAAACTCTAAACCCTAAA
**
18583740 TGAAA-TGCCTAAACCCTAGT
1 TGAAACT--CTAAACCCTAAA
*
18583760 TGAAACCCTAAA
1 TGAAACTCTAAA
18583772 TAAAATCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 1 0.04
19 10 0.38
20 15 0.58
ACGTcount: A:0.43, C:0.25, G:0.10, T:0.22
Consensus pattern (19 bp):
TGAAACTCTAAACCCTAAA
Found at i:18583963 original size:18 final size:17
Alignment explanation
Indices: 18583942--18583976 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18583932 TAATTATAAT
*
18583942 AATAAAATTAAACAAAAG
1 AATAAAAATAAA-AAAAG
18583960 AATAAAAATAAAAAAAG
1 AATAAAAATAAAAAAAG
18583977 GGATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (17 bp):
AATAAAAATAAAAAAAG
Found at i:18586592 original size:11 final size:11
Alignment explanation
Indices: 18586578--18586602 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18586568 AAAAAGGCAT
18586578 AAAAAAAGAAA
1 AAAAAAAGAAA
18586589 AAAAAAAGAAA
1 AAAAAAAGAAA
18586600 AAA
1 AAA
18586603 GGGAAATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:18586840 original size:17 final size:17
Alignment explanation
Indices: 18586812--18586854 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
18586802 TAAATTAAGG
*
18586812 TATAAA-ATAATACATT
1 TATAAATATAATACATA
*
18586828 TATTAATATAATACATA
1 TATAAATATAATACATA
18586845 TATAAATATA
1 TATAAATATA
18586855 TAATTAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
TATAAATATAATACATA
Found at i:18586852 original size:12 final size:12
Alignment explanation
Indices: 18586833--18586881 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
18586823 ACATTTATTA
*
18586833 ATAT-AATACAT
1 ATATAAATATAT
18586844 ATATAAATATAT
1 ATATAAATATAT
18586856 A-ATTAAATATAT
1 ATA-TAAATATAT
*
18586868 ATATATATATAT
1 ATATAAATATAT
18586880 AT
1 AT
18586882 CACACAATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
11 5 0.15
12 27 0.82
13 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATAAATATAT
Found at i:18586855 original size:2 final size:2
Alignment explanation
Indices: 18586833--18586881 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
18586823 ACATTTATTA
* * *
18586833 AT AT A- AT AC AT AT AT AA AT AT AT A- AT -T AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18586872 AT AT AT AT AT
1 AT AT AT AT AT
18586882 CACACAATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
1 3 0.08
2 35 0.92
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:18588413 original size:24 final size:26
Alignment explanation
Indices: 18588372--18588422 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
18588362 CATTTAATTT
18588372 ATATTATTATAAACTATTATTATATTA
1 ATATTATTAT-AACTATTATTATATTA
*
18588399 ATATTATTAT-A-TATTATTTTATTA
1 ATATTATTATAACTATTATTATATTA
18588423 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 12 0.52
25 1 0.04
27 10 0.43
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
ATATTATTATAACTATTATTATATTA
Found at i:18588416 original size:27 final size:27
Alignment explanation
Indices: 18588372--18588448 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
18588362 CATTTAATTT
18588372 ATATTATTATAAACTATTATTA-TATTA
1 ATATTATTATAAACTATT-TTATTATTA
* *
18588399 ATATTATTATATATTATTTTATTATTA
1 ATATTATTATAAACTATTTTATTATTA
* * *
18588426 AAATTTAATATAAA-TATATTATT
1 ATA-TTATTATAAACTATTTTATT
18588449 TTTCACATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 3 0.07
27 31 0.74
28 8 0.19
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (27 bp):
ATATTATTATAAACTATTTTATTATTA
Found at i:18589469 original size:11 final size:11
Alignment explanation
Indices: 18589442--18589503 Score: 54
Period size: 11 Copynumber: 5.4 Consensus size: 11
18589432 CAAATTAAAA
*
18589442 AAATAAAATTT
1 AAATCAAATTT
18589453 -AATCAAATTT
1 AAATCAAATTT
18589463 AAATCAAATTTT
1 AAATCAAA-TTT
*
18589475 GAATCTCAAATTTT
1 -AA-ATCAAA-TTT
*
18589489 GAATCAAATTT
1 AAATCAAATTT
18589500 AAAT
1 AAAT
18589504 TTAAGTTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
10 9 0.21
11 13 0.31
12 8 0.19
13 3 0.07
14 9 0.21
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (11 bp):
AAATCAAATTT
Found at i:18589485 original size:14 final size:14
Alignment explanation
Indices: 18589466--18589493 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18589456 CAAATTTAAA
18589466 TCAAATTTTGAATC
1 TCAAATTTTGAATC
18589480 TCAAATTTTGAATC
1 TCAAATTTTGAATC
18589494 AAATTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TCAAATTTTGAATC
Found at i:18589495 original size:12 final size:12
Alignment explanation
Indices: 18589453--18589499 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
18589443 AATAAAATTT
*
18589453 AATCAAA-TTTA
1 AATCAAATTTTG
18589464 AATCAAATTTTG
1 AATCAAATTTTG
18589476 AATCTCAAATTTTG
1 AA--TCAAATTTTG
18589490 AATCAAATTT
1 AATCAAATTT
18589500 AAATTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
11 7 0.22
12 13 0.41
14 12 0.38
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (12 bp):
AATCAAATTTTG
Found at i:18592767 original size:61 final size:61
Alignment explanation
Indices: 18592702--18592824 Score: 219
Period size: 61 Copynumber: 2.0 Consensus size: 61
18592692 GAATTCTTGC
*
18592702 AAATAATTGTAATAATATAATAACATATTATTTCAAAGTTTTATATATAATTTATATATAT
1 AAATAATTGTAATAATATAATAACATATTATATCAAAGTTTTATATATAATTTATATATAT
* *
18592763 AAATAATTGTAATAATATAGTAACATATTATATCAAAGTTTTATTTATAATTTATATATAT
1 AAATAATTGTAATAATATAATAACATATTATATCAAAGTTTTATATATAATTTATATATAT
18592824 A
1 A
18592825 TATATATATG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (61 bp):
AAATAATTGTAATAATATAATAACATATTATATCAAAGTTTTATATATAATTTATATATAT
Found at i:18596592 original size:14 final size:16
Alignment explanation
Indices: 18596573--18596604 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
18596563 TGCTTTAGTT
18596573 TCAATA-TTTGTT-TA
1 TCAATACTTTGTTATA
18596587 TCAATACTTTGTTATA
1 TCAATACTTTGTTATA
18596603 TC
1 TC
18596605 TTGGTTACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 6 0.38
16 4 0.25
ACGTcount: A:0.28, C:0.12, G:0.06, T:0.53
Consensus pattern (16 bp):
TCAATACTTTGTTATA
Found at i:18597494 original size:17 final size:17
Alignment explanation
Indices: 18597462--18597495 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
18597452 TCTCTCTTTA
18597462 CTTTTGGCTTTCTATTT
1 CTTTTGGCTTTCTATTT
18597479 CTTTTAGGCTTT-TATTT
1 CTTTT-GGCTTTCTATTT
18597496 TTAGATGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.09, C:0.15, G:0.12, T:0.65
Consensus pattern (17 bp):
CTTTTGGCTTTCTATTT
Found at i:18600033 original size:33 final size:33
Alignment explanation
Indices: 18599996--18600059 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
18599986 AAACTAACTG
18599996 GGTAAACTCTACCATGCATTTGACCATAATCAT
1 GGTAAACTCTACCATGCATTTGACCATAATCAT
* *
18600029 GGTAAACTCTACCATGTATTTGATCATAATC
1 GGTAAACTCTACCATGCATTTGACCATAATC
18600060 CTTGGCAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (33 bp):
GGTAAACTCTACCATGCATTTGACCATAATCAT
Found at i:18602232 original size:321 final size:319
Alignment explanation
Indices: 18601652--18602294 Score: 1169
Period size: 321 Copynumber: 2.0 Consensus size: 319
18601642 ATAAAATCCT
* *
18601652 AAGCTAAAGTCTCTCTAAAATGATTGGATCCGCTCCTATTTATATGCAGGTGAGTGGTGAATGAA
1 AAGCTAAAGTCTCTCTAAAATGACTGGATCCGCTCCTATTTATATACAGGTGAGTGGTGAATGAA
18601717 GCTCTAAAAAATCTCTCCAAAATATTTACAATGAGGTAAGCTTCTAGAGACTCATTTTTTTTTTG
66 GCTCTAAAAAATCTCTCCAAAATATTTACAATGAGGTAAGCTTCTAGAGACTCATTTTTTTTTTG
*
18601782 CTTTTGCATTTGGTGTATAGCTATTTAGCTTTAAAACTCTTCACTAGTTTACAAGCTTCTTTCCA
131 CTTTTGCACTTGGTGTATAGCTATTTAGCTTTAAAACTCTTCACTAGTTTACAAGCTTCTTTCCA
18601847 TACATTTTTGCCACACCAAAAAGTTCTCTTTATAGCCAATAAGAGCTCTCGAAAGTACCATGTTA
196 TACATTTTTGCCACACCAAAAAGTTCTCTTTATAGCCAATAAGAGCTCTCGAAAGTACCATGTTA
18601912 TTACCTCTTAAAGTCTTCCTTTGAATGCTAAAATGTGATGCCCAATTCTCATACAAATG
261 TTACCTCTTAAAGTCTTCCTTTGAATGCTAAAATGTGATGCCCAATTCTCATACAAATG
*
18601971 AAGCTAAAGTCTCTCTAAAATGACTGGATCTGCTCCTATTTATATACAGGTGAGTGGTGAATGAA
1 AAGCTAAAGTCTCTCTAAAATGACTGGATCCGCTCCTATTTATATACAGGTGAGTGGTGAATGAA
18602036 GCTCTAAAAAATCTCTCCAAAATATTTACAATGAGGTAAGCTTCTAGAGACTCATTTTTTTTTTT
66 GCTCTAAAAAATCTCTCCAAAATATTTACAATGAGGTAAGCTTCTAGAGACTCA--TTTTTTTTT
*
18602101 TGCTTTTGCACTTGGTGTATAGCTATTTAGCTTTAAAACTCTTTACTAGTTTACAAGCTTCTTTC
129 TGCTTTTGCACTTGGTGTATAGCTATTTAGCTTTAAAACTCTTCACTAGTTTACAAGCTTCTTTC
* * * * * *
18602166 TATACATTTTTGCCACACTAAAAAGTTCTTTTTATAGCCAATAGGAGCTCTTGAAAGTGCCATGT
194 CATACATTTTTGCCACACCAAAAAGTTCTCTTTATAGCCAATAAGAGCTCTCGAAAGTACCATGT
18602231 TATTACCTCTTAAAGTCTTCCTTTGAATGCTAAAATGTGATGCCCAATTCTCATACAAATG
259 TATTACCTCTTAAAGTCTTCCTTTGAATGCTAAAATGTGATGCCCAATTCTCATACAAATG
18602292 AAG
1 AAG
18602295 GTTGCATTTC
Statistics
Matches: 311, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
319 116 0.37
321 195 0.63
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (319 bp):
AAGCTAAAGTCTCTCTAAAATGACTGGATCCGCTCCTATTTATATACAGGTGAGTGGTGAATGAA
GCTCTAAAAAATCTCTCCAAAATATTTACAATGAGGTAAGCTTCTAGAGACTCATTTTTTTTTTG
CTTTTGCACTTGGTGTATAGCTATTTAGCTTTAAAACTCTTCACTAGTTTACAAGCTTCTTTCCA
TACATTTTTGCCACACCAAAAAGTTCTCTTTATAGCCAATAAGAGCTCTCGAAAGTACCATGTTA
TTACCTCTTAAAGTCTTCCTTTGAATGCTAAAATGTGATGCCCAATTCTCATACAAATG
Found at i:18607723 original size:32 final size:32
Alignment explanation
Indices: 18607657--18607725 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
18607647 AATTTAAAAA
*
18607657 TTTTAATAGAAAATAGATTCAAAATATATATT
1 TTTTAATAGAAAATAGATTAAAAATATATATT
* *
18607689 TTTTTATAGAAAATATATTAATAAAT-T-TATT
1 TTTTAATAGAAAATAGATTAA-AAATATATATT
18607720 TTTTAA
1 TTTTAA
18607726 AATGATATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 9 0.28
32 19 0.59
33 4 0.12
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (32 bp):
TTTTAATAGAAAATAGATTAAAAATATATATT
Found at i:18610368 original size:29 final size:29
Alignment explanation
Indices: 18610335--18610391 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
18610325 ATTATGCATG
18610335 TATTTCAACTTGTTGCAAGATGATAAACT
1 TATTTCAACTTGTTGCAAGATGATAAACT
*
18610364 TATTTCAACTTTTTGCAAGATGATAAAC
1 TATTTCAACTTGTTGCAAGATGATAAAC
18610392 CATTAGTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (29 bp):
TATTTCAACTTGTTGCAAGATGATAAACT
Found at i:18612357 original size:2 final size:2
Alignment explanation
Indices: 18612352--18612385 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
18612342 TTTGGGGGGG
*
18612352 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18612386 GCTTATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18612902 original size:17 final size:18
Alignment explanation
Indices: 18612853--18612906 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
18612843 ATTTTTTAAA
18612853 ATAAATTATATATTAATTTAT
1 ATAAATTA-ATATT--TTTAT
*
18612874 ATAAATGCAATATTTTTAT
1 ATAAAT-TAATATTTTTAT
18612893 -TAAATTAATATTTT
1 ATAAATTAATATTTT
18612907 AAATTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 8 0.27
18 5 0.17
19 5 0.17
21 11 0.37
22 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
ATAAATTAATATTTTTAT
Found at i:18612910 original size:13 final size:13
Alignment explanation
Indices: 18612892--18612933 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
18612882 AATATTTTTA
18612892 TTAAATTAATATT
1 TTAAATTAATATT
* *
18612905 TTAAATTAAAATA
1 TTAAATTAATATT
18612918 TTAAA-TAATAATT
1 TTAAATTAAT-ATT
18612931 TTA
1 TTA
18612934 TTAATATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 3 0.12
13 21 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAATTAATATT
Found at i:18612938 original size:37 final size:38
Alignment explanation
Indices: 18612896--18612967 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
18612886 TTTTTATTAA
*
18612896 ATTAATAT-TTTAAATTAAAATATTAAAT-AATAATTTT
1 ATTAATATATATAAA-TAAAATATTAAATAAATAATTTT
18612933 ATTAATATATATAAATAAAATATTAAATAAATAAT
1 ATTAATATATATAAATAAAATATTAAATAAATAAT
18612968 AAAATATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 21 0.66
38 11 0.34
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (38 bp):
ATTAATATATATAAATAAAATATTAAATAAATAATTTT
Found at i:18612944 original size:26 final size:24
Alignment explanation
Indices: 18612890--18612950 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 24
18612880 GCAATATTTT
18612890 TATTAAATTAATATTTTAAATTAAAA
1 TATTAAA-TAATATTTT-AATTAAAA
*
18612916 TATTAAATAATAATTTT-ATTAATA
1 TATTAAATAAT-ATTTTAATTAAAA
18612940 TATATAAATAA
1 TAT-TAAATAA
18612951 AATATTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 9 0.28
25 11 0.34
26 12 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TATTAAATAATATTTTAATTAAAA
Found at i:18613180 original size:17 final size:19
Alignment explanation
Indices: 18613148--18613185 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
18613138 TATATTTTAA
18613148 TTTATATAAATGTAATATT
1 TTTATATAAATGTAATATT
18613167 TTTAT-TAAAT-TAATATT
1 TTTATATAAATGTAATATT
18613184 TT
1 TT
18613186 AAATTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 5 0.26
19 5 0.26
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTATATAAATGTAATATT
Found at i:18613189 original size:13 final size:13
Alignment explanation
Indices: 18613171--18613212 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
18613161 AATATTTTTA
18613171 TTAAATTAATATT
1 TTAAATTAATATT
* *
18613184 TTAAATTAAAATA
1 TTAAATTAATATT
18613197 TTAAA-TAATAGTT
1 TTAAATTAATA-TT
18613210 TTA
1 TTA
18613213 TTAATATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
TTAAATTAATATT
Found at i:18618206 original size:33 final size:33
Alignment explanation
Indices: 18618102--18618207 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 33
18618092 AAAAAACGCT
* *
18618102 ACTAAATTAACGGTATTTGAAGTCACAAATGCC
1 ACTAAATTAACGGTATTTGTAGACACAAATGCC
* ** ** * *
18618135 ACTAACTTAGTGACATTT-TAAGATACAAACGCC
1 ACTAAATTAACGGTATTTGT-AGACACAAATGCC
* *
18618168 GCTAAATTAACGGTGTTTGTAGACACAAATGCC
1 ACTAAATTAACGGTATTTGTAGACACAAATGCC
18618201 ACTAAAT
1 ACTAAAT
18618208 GAAGGAATTT
Statistics
Matches: 52, Mismatches: 19, Indels: 4
0.69 0.25 0.05
Matches are distributed among these distances:
33 51 0.98
34 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (33 bp):
ACTAAATTAACGGTATTTGTAGACACAAATGCC
Found at i:18620004 original size:160 final size:160
Alignment explanation
Indices: 18619335--18620447 Score: 699
Period size: 160 Copynumber: 6.9 Consensus size: 160
18619325 TAGTAATTTT
* ** * * *
18619335 AAATTTGCATATTTG-CCTTTTAATATTACAA-AAAGTCCTAAACAA-ACATAAATCATAACTTA
1 AAATTTGCAT-TTTGACCTTTTAACAGCATAACAAAGTCCTAAA-AAGATATAAATGATAACTT-
* * * * * *
18619397 TTCATACATATCAAGTCATGAAAACTAAATTCAATCATTTAGATAAGTTTAATATCATGTATTGA
63 TTCACACATATCAA-TCGTGGAAACTAAATTCAATCATTCAGACAAGTTTAATATAATGTATTGA
* * *
18619462 AGCTATATAAACTGTTAAAACATA-AAT-ATAATTGC
127 AGCTAT-CAAACTATT-AAA-ATAGAATAATAAATGC
* ** * * *
18619497 AAAATTATATTTTTACCCTTTAAC-G-ATGTAACAAAGTCCTAAAAAGATATAAACGATAACATT
1 AAATTTGCATTTTGACCTTTTAACAGCA--TAACAAAGTCCTAAAAAGATATAAATGATAAC-TT
* * * * * *
18619560 TTCACACATATCAA-CAT-GAAAATCAAGTTCAATCAATCATTCAGATAAATTTAATATTATGTA
63 TTCACACATATCAATCGTGGAAACT-AA----ATTCAATCATTCAGACAAGTTTAATATAATGTA
* * * * * ***
18619623 TTAAAGCTATCTAAATTGTCAAAACAGAATAATAAACAT
123 TTGAAGCTATC-AAACTATTAAAATAGAATAATAAATGC
* ** * * * * * *
18619662 AAATTTGCATTTTGGCCTTTTAATGGCACAA-AAAGTGCTAAATAGATATAAACGACAATTTTTT
1 AAATTTGCATTTTGACCTTTTAACAGCATAACAAAGTCCTAAAAAGATATAAATGATAA-CTTTT
* * * * * * * * * *
18619726 TACAC--ATCATTCATAGAAA-TCAAGTTTAATCATT-TGAAAAAGTTTAATATAATATATTTAA
65 CACACATATCAATCGTGGAAACT-AAATTCAATCATTCAG-ACAAGTTTAATATAATGTATTGAA
* * *
18619787 GCTATCTAAACTATTAAAACATAAAAATAAATGC
128 GCTATC-AAACTATTAAAATAGAATAATAAATGC
* *
18619821 TAAA--TGACATTTTTACCTTTTAACAGCATAACAAAGTCCTAAAAAGATATAAATGGTAACTTT
1 -AAATTTG-CATTTTGACCTTTTAACAGCATAACAAAGTCCTAAAAAGATATAAATGATAACTTT
** * * * * * * *
18619884 TTGCACATTTCAATCGTGGAAGCTAAATTCAATTATCCAGACAAGTTTAATATTATGTATTAAAA
64 TCACACATATCAATCGTGGAAACTAAATTCAATCATTCAGACAAGTTTAATATAATGTATTGAAG
* *
18619949 CTATCAAACTGTTAAAATAGAATAATAAATGT
129 CTATCAAACTATTAAAATAGAATAATAAATGC
* * * ** * *
18619981 AAATTTGCATTTTGGCTTTTTAACAGCACAA-ACAA-TTTTAAATAGATATAAACGATAACCTTT
1 AAATTTGCATTTTGACCTTTTAACAGCATAACA-AAGTCCTAAAAAGATATAAATGATAA-CTTT
* * * * * *
18620044 TCACACATATCAA-CGATGCAAAGTAAGTTCAATCATTCAAACAAGTTTAATATCATTTATTGAA
64 TCACACATATCAATCG-TGGAAACTAAATTCAATCATTCAGACAAGTTTAATATAATGTATTGAA
* * * **
18620108 GCTATTTAAACTGTTAAAATGGAATAATAAAAAC
128 GCTA-TCAAACTATTAAAATAGAATAATAAATGC
* * ** * * * * * *
18620142 AAATTTGCTTTTTGACTTTTTAATGGTATAAAAAAGTGCTAAACAGACATAAATAATAACTTTTT
1 AAATTTGCATTTTGACCTTTTAACAGCATAACAAAGTCCTAAAAAGATATAAATGATAAC-TTTT
* * * * *
18620207 CTCAC-T-TCAATAGTGGAAACTAAATTTAATCATTCAGACAAGTTTAATATCATGTATTTAAGC
65 CACACATATCAATCGTGGAAACTAAATTCAATCATTCAGACAAGTTTAATATAATGTATTGAAGC
* *
18620270 TATCCAAACTCTTAAAACATA-AAT-ATAACTGC
130 TAT-CAAACTATT-AAA-ATAGAATAATAAATGC
* ** * * * *
18620302 ATATTTATATTTTTG-CCCTTTAACGGCATAACAAAATCCTAAAAAGATATAAATGGTAACTTTT
1 AAATTTGCA-TTTTGACCTTTTAACAGCATAACAAAGTCCTAAAAAGATATAAATGATAACTTTT
* * * * * * *
18620366 CACACATATCAACCATGGAAACCAAGTTCAATAATTCGGATAAGTTTAATATAATGTATTGAAGC
65 CACACATATCAATCGTGGAAACTAAATTCAATCATTCAGACAAGTTTAATATAATGTATTGAAGC
18620431 TATCCAAACTATTAAAA
130 TAT-CAAACTATTAAAA
18620448 CAAAAACAAA
Statistics
Matches: 735, Mismatches: 173, Indels: 89
0.74 0.17 0.09
Matches are distributed among these distances:
158 3 0.00
159 114 0.16
160 233 0.32
161 176 0.24
162 52 0.07
163 44 0.06
164 44 0.06
165 67 0.09
166 1 0.00
167 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (160 bp):
AAATTTGCATTTTGACCTTTTAACAGCATAACAAAGTCCTAAAAAGATATAAATGATAACTTTTC
ACACATATCAATCGTGGAAACTAAATTCAATCATTCAGACAAGTTTAATATAATGTATTGAAGCT
ATCAAACTATTAAAATAGAATAATAAATGC
Found at i:18620287 original size:481 final size:482
Alignment explanation
Indices: 18619536--18620447 Score: 1113
Period size: 481 Copynumber: 1.9 Consensus size: 482
18619526 AACAAAGTCC
18619536 TAAAAAGATATAAACGATAACATTTTCACACATATCAACATGAAAATCAAGTTCAATCAATCATT
1 TAAAAAGATATAAACGATAACATTTTCACACATATCAACATGAAAATCAAGTT--ATCAATCATT
* * * * * *
18619601 CAGATAAATTTAATATTATGTATTAAAGCTATCTAAATTGTCAAAACAGAATAATAAACATAAAT
64 CAAACAAATTTAATATCATGTATTAAAGCTATCTAAACTGTCAAAACAGAATAATAAAAACAAAT
* * * * * *
18619666 TTGCATTTTGGCCTTTTAATGGCACAAAAAGTGCTAAATAGATATAAACGACAATTTTTTTACAC
129 TTGCATTTTGACCTTTTAATGGCAAAAAAAGTGCTAAACAGACATAAACAACAATTTTTCTACAC
* * * *
18619731 ATCATTCATAGAAATCAAGTTTAATCATTTGAAAAAGTTTAATATAATATATTTAAGCTATCTAA
194 ATCAATCATAGAAATCAAATTTAATCATTAGAAAAAGTTTAATATAATATATTTAAGCTATCCAA
* *
18619796 ACTATTAAAACATAAAAATAAATGC-TAAATGACATTTTTACCTTTTAACAGCATAACAAAGTCC
259 ACTATTAAAACATAAAAATAAATGCAT-AATGACATTTTTACCCTTTAACAGCATAACAAAATCC
** * * * * * *
18619860 TAAAAAGATATAAATGGTAACTTTTTGCACATTTCAATCGTGGAAGCTAAATTCAATTATCCAGA
323 TAAAAAGATATAAATGGTAACTTTTCACACATATCAACCATGGAAACCAAATTCAATAATCCAGA
* *
18619925 CAAGTTTAATATTATGTATTAAAACTAT-CAAACTGTTAAAATAGAATAATAAATGTAAATTTGC
388 CAAGTTTAATATAATGTATTAAAACTATCCAAACTATTAAAATAGAATAATAAATGTAAATTTGC
18619989 ATTTTGGCTTTTTAACAGCACAAACAATTT
453 ATTTTGGCTTTTTAACAGCACAAACAATTT
* * *
18620019 TAAATAGATATAAACGATAACCTTTTCACACATATCAACGATGCAAAGT-AAG-T-TCAATCATT
1 TAAAAAGATATAAACGATAACATTTTCACACATATCAAC-ATG-AAAATCAAGTTATCAATCATT
* * * * * **
18620081 CAAACAAGTTTAATATCATTTATTGAAGCTATTTAAACTGTTAAAATGGAATAATAAAAACAAAT
64 CAAACAAATTTAATATCATGTATTAAAGCTATCTAAACTGTCAAAACAGAATAATAAAAACAAAT
* * * * *
18620146 TTGCTTTTTGACTTTTTAATGGTATAAAAAAGTGCTAAACAGACATAAATAATAACTTTTTCT-C
129 TTGCATTTTGACCTTTTAATGGCA-AAAAAAGTGCTAAACAGACATAAACAACAA-TTTTTCTAC
* * * * *
18620210 ACTTCAAT-AGTGGAAA-CTAAATTTAATCATTCAG-ACAAGTTTAATATCATGTATTTAAGCTA
192 ACATCAATCA-TAGAAATC-AAATTTAATCATT-AGAAAAAGTTTAATATAATATATTTAAGCTA
* * * * * * * *
18620272 TCCAAACTCTTAAAACATAAATATAACTGCATATTTATATTTTTGCCCTTTAACGGCATAACAAA
254 TCCAAACTATTAAAACATAAAAATAAATGCATAATGACATTTTTACCCTTTAACAGCATAACAAA
* *
18620337 ATCCTAAAAAGATATAAATGGTAACTTTTCACACATATCAACCATGGAAACCAAGTTCAATAATT
319 ATCCTAAAAAGATATAAATGGTAACTTTTCACACATATCAACCATGGAAACCAAATTCAATAATC
* * * *
18620402 CGGATAAGTTTAATATAATGTATTGAAGCTATCCAAACTATTAAAA
384 CAGACAAGTTTAATATAATGTATTAAAACTATCCAAACTATTAAAA
18620448 CAAAAACAAA
Statistics
Matches: 358, Mismatches: 62, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
480 83 0.23
481 207 0.58
482 20 0.06
483 38 0.11
484 6 0.02
485 4 0.01
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (482 bp):
TAAAAAGATATAAACGATAACATTTTCACACATATCAACATGAAAATCAAGTTATCAATCATTCA
AACAAATTTAATATCATGTATTAAAGCTATCTAAACTGTCAAAACAGAATAATAAAAACAAATTT
GCATTTTGACCTTTTAATGGCAAAAAAAGTGCTAAACAGACATAAACAACAATTTTTCTACACAT
CAATCATAGAAATCAAATTTAATCATTAGAAAAAGTTTAATATAATATATTTAAGCTATCCAAAC
TATTAAAACATAAAAATAAATGCATAATGACATTTTTACCCTTTAACAGCATAACAAAATCCTAA
AAAGATATAAATGGTAACTTTTCACACATATCAACCATGGAAACCAAATTCAATAATCCAGACAA
GTTTAATATAATGTATTAAAACTATCCAAACTATTAAAATAGAATAATAAATGTAAATTTGCATT
TTGGCTTTTTAACAGCACAAACAATTT
Found at i:18620487 original size:321 final size:317
Alignment explanation
Indices: 18619592--18620505 Score: 763
Period size: 321 Copynumber: 2.9 Consensus size: 317
18619582 TCAAGTTCAA
* * * * * * * * *
18619592 TCAATCATTCAGATAAATTTAATATTATGTATTAAAGCTATCTAAATTGTCAAAACAGAATAATA
1 TCAATCATCCAGACAAGTTTAATATCATGTATTAAAACTATC-AAACTCTTAAAATAGAATAATA
*** * * ** * * * * **
18619657 AACATAAATTTGCATTTTGGCCTTTTAATGGCACAAAAAGTGCTAAATAGATATAAACGACAATT
65 AATGCAAATTTACATTTTGGCCCTTTAACAGCACAAAAAATCCTAAAAAGATATAAACGATAACC
* ** * * * *
18619722 TTTTTACAC--ATCATTCATAG-AAATCAAGTTTAATCATTTGAAA-AAGTTTAATATAATATAT
130 TTTTCACACATATCAACCAT-GCAAACCAAGTTCAAT-AATTCAAACAAGTTTAATATAATATAT
* * * * *
18619783 TTAAGCTATCTAAACTATTAAAACATAAAAATAAATGC-TAAATGACATTTTTACCTTTTAACAG
193 TGAAGCTATCTAAACTATTAAAACA-AAAAA-AAATGCAT-ATTTACATTTTTGCCTTTTAA-TG
* * * * ** * * *
18619847 CATAACAAAGTCCTAAAAAGATATAAATGGTAACTTTTTGCACATTTCAATCGTGGAAGCTAAAT
254 -ATAAAAAAGTGCTAAACAGACATAAATAATAACTTTTTGCACACTTCAATAGTGGAAACTAAAT
* * *
18619912 TCAATTATCCAGACAAGTTTAATATTATGTATTAAAACTATCAAACTGTTAAAATAGAATAATAA
1 TCAATCATCCAGACAAGTTTAATATCATGTATTAAAACTATCAAACTCTTAAAATAGAATAATAA
* * ** * ** *
18619977 ATGTAAATTTGCATTTTGGCTTTTTAACAGCACAAACAATTTTAAATAGATATAAACGATAACCT
66 ATGCAAATTTACATTTTGGCCCTTTAACAGCACAAAAAATCCTAAAAAGATATAAACGATAACCT
* ** * * *
18620042 TTTCACACATATCAACGATGCAAAGTAAGTTCAATCATTCAAACAAGTTTAATATCATTTATTGA
131 TTTCACACATATCAACCATGCAAACCAAGTTCAATAATTCAAACAAGTTTAATATAATATATTGA
* * * * * *
18620107 AGCTATTTAAACTGTTAAAATGGAATAATAAAAA--CAAATTTGC-TTTTTGACTTTTTAATGGT
196 AGCTATCTAAACTATTAAAA--CAA-AA-AAAAATGCATATTTACATTTTTG-CCTTTTAAT-G-
*
18620169 ATAAAAAAGTGCTAAACAGACATAAATAATAACTTTTT-CTCACTTCAATAGTGGAAACTAAAT
254 ATAAAAAAGTGCTAAACAGACATAAATAATAACTTTTTGCACACTTCAATAGTGGAAACTAAAT
* * * *
18620232 TTAATCATTCAGACAAGTTTAATATCATGTATTTAAGCTATCCAAACTCTTAAAACATA-AAT-A
1 TCAATCATCCAGACAAGTTTAATATCATGTATTAAAACTAT-CAAACTCTT-AAA-ATAGAATAA
* * * * * * * *
18620295 TAACTGCATATTTATATTTTTGCCCTTTAACGGCATAACAAAATCCTAAAAAGATATAAATGGTA
63 TAAATGCAAATTTACATTTTGGCCCTTTAACAGCACAA-AAAATCCTAAAAAGATATAAACGATA
* ** * *
18620360 A-CTTTTCACACATATCAACCATGGAAACCAAGTTCAATAATTCGGATAAGTTTAATATAATGTA
127 ACCTTTTCACACATATCAACCATGCAAACCAAGTTCAATAATTCAAACAAGTTTAATATAATATA
* *
18620424 TTGAAGCTATCCAAACTATTAAAACAAAAACAAAATTGCATATTTACATTTTTGCCCTTTAATGA
192 TTGAAGCTATCTAAACTATTAAAACAAAAA-AAAA-TGCATATTTACATTTTTGCCTTTTAATGA
*
18620489 CACAAAAAGTGCTAAAC
255 TA-AAAAAGTGCTAAAC
18620506 GGATATAACT
Statistics
Matches: 477, Mismatches: 96, Indels: 42
0.78 0.16 0.07
Matches are distributed among these distances:
317 1 0.00
318 6 0.01
319 84 0.18
320 119 0.25
321 222 0.47
322 34 0.07
323 9 0.02
324 2 0.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.34
Consensus pattern (317 bp):
TCAATCATCCAGACAAGTTTAATATCATGTATTAAAACTATCAAACTCTTAAAATAGAATAATAA
ATGCAAATTTACATTTTGGCCCTTTAACAGCACAAAAAATCCTAAAAAGATATAAACGATAACCT
TTTCACACATATCAACCATGCAAACCAAGTTCAATAATTCAAACAAGTTTAATATAATATATTGA
AGCTATCTAAACTATTAAAACAAAAAAAAATGCATATTTACATTTTTGCCTTTTAATGATAAAAA
AGTGCTAAACAGACATAAATAATAACTTTTTGCACACTTCAATAGTGGAAACTAAAT
Found at i:18628028 original size:56 final size:56
Alignment explanation
Indices: 18627968--18628167 Score: 219
Period size: 56 Copynumber: 3.6 Consensus size: 56
18627958 AAATTGACCC
* * *
18627968 AAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGAATTTCTAAATGGGTCT
1 AAATGGTGAAAAATTTAGAAATCTAACAAAAAAAGAGAGAATTTCTAAATAGGCCT
*** * * *
18628024 AAATGGT-AGAAAATTTAGAAAT-TTTGAAAAAAAGA-AAATATTTCTAAATTGACCT
1 AAATGGTGA-AAAATTTAGAAATCTAACAAAAAAAGAGAGA-ATTTCTAAATAGGCCT
* * * *
18628079 AAATTGTGGAAAATTTAGAAATCTAACAAAAAAAGAGAGAATTTCTACATAGGCCC
1 AAATGGTGAAAAATTTAGAAATCTAACAAAAAAAGAGAGAATTTCTAAATAGGCCT
* *
18628135 AAATGGTGAAAAGTTTAGAAAT-TAAAAAAAAAA
1 AAATGGTGAAAAATTTAGAAATCTAACAAAAAAA
18628168 AATTTCTAAT
Statistics
Matches: 117, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
54 2 0.02
55 52 0.44
56 61 0.52
57 2 0.02
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.25
Consensus pattern (56 bp):
AAATGGTGAAAAATTTAGAAATCTAACAAAAAAAGAGAGAATTTCTAAATAGGCCT
Found at i:18628073 original size:111 final size:107
Alignment explanation
Indices: 18627945--18628200 Score: 336
Period size: 111 Copynumber: 2.4 Consensus size: 107
18627935 ATAAATAAAG
*
18627945 AAAAAATATTTTTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGAAT
1 AAAAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGAAT
* * *
18628010 TTCTAAATGGGTCTAAATGGTAGAAAA-TTTAGAAATTTTGAAAAA
66 TTCTAAATAGGCCCAAATGGT-GAAAAGTTTAGAAA--TT-AAAAA
* * * *
18628055 AAGAAAATATTTCTAAATTGACCTAAATTGTGGAAAATTTAGAAATCTAACAAAAAAAGAGAGAA
1 AA-AAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGAA
*
18628120 TTTCTACATAGGCCCAAATGGTGAAAAGTTTAGAAATTAAAAA
65 TTTCTAAATAGGCCCAAATGGTGAAAAGTTTAGAAATTAAAAA
* * *
18628163 AAAAAA-ATTTCTAATTTGGCCCAAATGATGAAATAATT
1 AAAAAATATTTCTAAATTGACCCAAATGGTGAAA-AATT
18628201 AGATATATTT
Statistics
Matches: 128, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
106 21 0.16
107 8 0.06
108 7 0.05
109 2 0.02
110 7 0.05
111 83 0.65
ACGTcount: A:0.50, C:0.09, G:0.14, T:0.27
Consensus pattern (107 bp):
AAAAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGAAT
TTCTAAATAGGCCCAAATGGTGAAAAGTTTAGAAATTAAAAA
Found at i:18628081 original size:55 final size:54
Alignment explanation
Indices: 18627947--18628195 Score: 213
Period size: 56 Copynumber: 4.6 Consensus size: 54
18627937 AAATAAAGAA
* *
18627947 AAAATATTTTTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAG
1 AAAA-ATTTCTAAATTGACCCAAATGGTG-AAAATTTAGAAATCTAACAAAAAAAG
* * ** * ***
18628003 AGAGAATTTCTAAATGGGTCTAAATGGTAGAAAATTTAGAAAT-TTTGAAAAAAAG
1 A-AAAATTTCTAAATTGACCCAAATGGT-GAAAATTTAGAAATCTAACAAAAAAAG
* *
18628058 AAAATATTTCTAAATTGACCTAAATTGTGGAAAATTTAGAAATCTAACAAAAAAAG
1 AAAA-ATTTCTAAATTGACCCAAATGGT-GAAAATTTAGAAATCTAACAAAAAAAG
* * * *
18628114 AGAGAATTTCTACATAGGCCCAAATGGTGAAAAGTTTAGAAAT-T---AAAAAAA-
1 A-AAAATTTCTAAATTGACCCAAATGGTGAAAA-TTTAGAAATCTAACAAAAAAAG
* * *
18628165 AAAAATTTCTAATTTGGCCCAAATGATGAAA
1 AAAAATTTCTAAATTGACCCAAATGGTGAAA
18628196 TAATTAGATA
Statistics
Matches: 157, Mismatches: 30, Indels: 18
0.77 0.15 0.09
Matches are distributed among these distances:
50 25 0.16
51 1 0.01
52 7 0.04
54 2 0.01
55 48 0.31
56 69 0.44
57 5 0.03
ACGTcount: A:0.50, C:0.09, G:0.14, T:0.27
Consensus pattern (54 bp):
AAAAATTTCTAAATTGACCCAAATGGTGAAAATTTAGAAATCTAACAAAAAAAG
Found at i:18632171 original size:1 final size:1
Alignment explanation
Indices: 18632160--18632261 Score: 87
Period size: 1 Copynumber: 102.0 Consensus size: 1
18632150 TAATGGATGG
* * * * * * *
18632160 AAAAAATAAAAAAACAAAAAAAAATAAAAAAATAAAAAAAATAAAAAAATAAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * * *
18632225 TAAAAAAATGAAAAATAAAAAATAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18632262 GGAATACTTA
Statistics
Matches: 76, Mismatches: 25, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.87, C:0.01, G:0.01, T:0.11
Consensus pattern (1 bp):
A
Found at i:18632172 original size:7 final size:7
Alignment explanation
Indices: 18632160--18632260 Score: 100
Period size: 7 Copynumber: 13.9 Consensus size: 7
18632150 TAATGGATGG
18632160 AAAAAAT
1 AAAAAAT
18632167 AAAAAA-
1 AAAAAAT
18632173 ACAAAAA-
1 A-AAAAAT
18632180 AAAATAA-
1 AAAA-AAT
*
18632187 AAAAATAA
1 AAAAA-AT
18632195 AAAAAAT
1 AAAAAAT
18632202 AAAAAAAT
1 -AAAAAAT
18632210 AAAAAAAT
1 -AAAAAAT
18632218 AAAAAAAT
1 -AAAAAAT
18632226 AAAAAAAT
1 -AAAAAAT
*
18632234 GAAAAAT
1 AAAAAAT
18632241 AAAAAAT
1 AAAAAAT
18632248 AAAAAAT
1 AAAAAAT
18632255 AAAAAA
1 AAAAAA
18632261 AGGAATACTT
Statistics
Matches: 86, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
6 5 0.06
7 45 0.52
8 36 0.42
ACGTcount: A:0.87, C:0.01, G:0.01, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:18632173 original size:8 final size:8
Alignment explanation
Indices: 18632160--18632261 Score: 138
Period size: 8 Copynumber: 12.8 Consensus size: 8
18632150 TAATGGATGG
18632160 AAAAAATAA
1 AAAAAAT-A
*
18632169 AAAAACAAA
1 AAAAA-ATA
18632178 AAAAAATA
1 AAAAAATA
18632186 AAAAAATAA
1 AAAAAAT-A
18632195 AAAAAATA
1 AAAAAATA
18632203 AAAAAATA
1 AAAAAATA
18632211 AAAAAATA
1 AAAAAATA
18632219 AAAAAATA
1 AAAAAATA
18632227 AAAAAAT-
1 AAAAAATA
*
18632234 GAAAAAT-
1 AAAAAATA
18632241 AAAAAAT-
1 AAAAAATA
18632248 AAAAAATA
1 AAAAAATA
18632256 AAAAAA
1 AAAAAA
18632262 GGAATACTTA
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
7 19 0.22
8 47 0.55
9 19 0.22
10 1 0.01
ACGTcount: A:0.87, C:0.01, G:0.01, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:18633554 original size:65 final size:65
Alignment explanation
Indices: 18633388--18633689 Score: 283
Period size: 65 Copynumber: 4.6 Consensus size: 65
18633378 TTGTGAATCC
* * * *
18633388 TCAAATGAGAATCTTTGAGTCCTAAATGAGAATCTTTAAGTCTT-AAATGAGAATCTTTAAGAAA
1 TCAAATAAGAATCTTTGAGTCTTAAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTAAG--A
*
18633452 TCC
64 T-T
* * * *
18633455 TCAAATAAGAATCTTTGAGT-TTCAAATAAAAATCTTTGAGCTTTTCAAATGAGAATTTTTTAG-
1 TCAAATAAGAATCTTTGAGTCTT-AAATGAGAATCTTTGAG-TTTTCAAATGAGAATCTTTAAGA
18633518 TT
64 TT
* * *
18633520 TCAAATAAGAATTTTTGAGTCTTAAATGAGAATCTTTGAG-TTTCAAATAAGAATCTTTAAGTTT
1 TCAAATAAGAATCTTTGAGTCTTAAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTAAGATT
* * * * * * * * *
18633584 TCAAATAAGAATATTTAAATTTTAAATAAGAAAT-TTTGAGTTTTCAACTGAAAATCTTTGAGTT
1 TCAAATAAGAATCTTTGAGTCTTAAATGAG-AATCTTTGAGTTTTCAAATGAGAATCTTTAAGAT
18633648 T
65 T
* *
18633649 TCAAATGAGAATCTTTGCA-TTTTGAAATGAGAATCTTTGAG
1 TCAAATAAGAATCTTTG-AGTCTT-AAATGAGAATCTTTGAG
18633690 ATGGGAAACC
Statistics
Matches: 197, Mismatches: 28, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
63 18 0.09
64 33 0.17
65 78 0.40
66 17 0.09
67 33 0.17
68 3 0.02
69 15 0.08
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (65 bp):
TCAAATAAGAATCTTTGAGTCTTAAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTAAGATT
Found at i:18633588 original size:22 final size:22
Alignment explanation
Indices: 18633388--18633689 Score: 246
Period size: 21 Copynumber: 13.9 Consensus size: 22
18633378 TTGTGAATCC
* **
18633388 TCAAATGAGAATCTTTGAGTCC
1 TCAAATAAGAATCTTTGAGTTT
* * *
18633410 T-AAATGAGAATCTTTAAGTCT
1 TCAAATAAGAATCTTTGAGTTT
* * **
18633431 T-AAATGAGAATCTTTAAGAAATCC
1 TCAAATAAGAATCTTT--G-AGTTT
18633455 TCAAATAAGAATCTTTGAG-TT
1 TCAAATAAGAATCTTTGAGTTT
*
18633476 TCAAATAAAAATCTTTGAGCTTT
1 TCAAATAAGAATCTTTGAG-TTT
* * *
18633499 TCAAATGAGAATTTTTTAG-TT
1 TCAAATAAGAATCTTTGAGTTT
* *
18633520 TCAAATAAGAATTTTTGAGTCT
1 TCAAATAAGAATCTTTGAGTTT
*
18633542 T-AAATGAGAATCTTTGAG-TT
1 TCAAATAAGAATCTTTGAGTTT
*
18633562 TCAAATAAGAATCTTTAAGTTT
1 TCAAATAAGAATCTTTGAGTTT
* * *
18633584 TCAAATAAGAATATTTAAATTT
1 TCAAATAAGAATCTTTGAGTTT
18633606 T-AAATAAGAAAT-TTTGAGTTT
1 TCAAATAAG-AATCTTTGAGTTT
*
18633627 TCAACTGAA-AATCTTTGAGTTT
1 TCAAAT-AAGAATCTTTGAGTTT
*
18633649 TCAAATGAGAATCTTTGCA-TTT
1 TCAAATAAGAATCTTTG-AGTTT
* *
18633671 TGAAATGAGAATCTTTGAG
1 TCAAATAAGAATCTTTGAG
18633690 ATGGGAAACC
Statistics
Matches: 234, Mismatches: 30, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
20 2 0.01
21 120 0.51
22 74 0.32
23 21 0.09
24 4 0.02
25 13 0.06
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (22 bp):
TCAAATAAGAATCTTTGAGTTT
Found at i:18634048 original size:42 final size:43
Alignment explanation
Indices: 18633959--18634049 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 43
18633949 AGATTTATTA
* * * * *
18633959 AATGTGAATCTTCGAACTTGAATGAGAAACTTTGAACTTTTTG
1 AATGTGAATCTCCAAAATTGAATGAGAAACTTTGAACATGTTG
*
18634002 -ATGTGAATCTCCAAAATTCGAATGAGAATCTTT-AA-ATGTTG
1 AATGTGAATCTCCAAAATT-GAATGAGAAACTTTGAACATGTTG
18634043 AATGTGA
1 AATGTGA
18634050 GCTTTGCAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
41 4 0.10
42 23 0.57
43 13 0.32
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (43 bp):
AATGTGAATCTCCAAAATTGAATGAGAAACTTTGAACATGTTG
Found at i:18634359 original size:41 final size:41
Alignment explanation
Indices: 18634291--18634471 Score: 199
Period size: 41 Copynumber: 4.4 Consensus size: 41
18634281 GATTGTCAAA
* * *
18634291 GAGCATTTAATTTTTCAAAGTTGTTGTGCCTCTATTTAAAT
1 GAGCTTTTTATTTTTCAAAGTTGTTGTGCCTCTATTTAGAT
* * *
18634332 GAGCTTTTTATTTTTCAAAGTTATTGTGCCTTTGTTTAGA-
1 GAGCTTTTTATTTTTCAAAGTTGTTGTGCCTCTATTTAGAT
*
18634372 GAAG-TCTTTTATTTTTCAAAGTTGTTGTGCATCTATTTAGAT
1 G-AGCT-TTTTATTTTTCAAAGTTGTTGTGCCTCTATTTAGAT
* * *
18634414 GAGCTTTTTATTTTTCAAAGTTG-TGAAGCCTTTGTTTAGAT
1 GAGCTTTTTATTTTTCAAAGTTGTTG-TGCCTCTATTTAGAT
* *
18634455 GAG-TTTTTGTTATTCAA
1 GAGCTTTTTATTTTTCAA
18634472 GGAGTCTGAG
Statistics
Matches: 119, Mismatches: 16, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
40 16 0.13
41 101 0.85
42 2 0.02
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (41 bp):
GAGCTTTTTATTTTTCAAAGTTGTTGTGCCTCTATTTAGAT
Found at i:18634394 original size:82 final size:82
Alignment explanation
Indices: 18634300--18634453 Score: 256
Period size: 82 Copynumber: 1.9 Consensus size: 82
18634290 AGAGCATTTA
* * *
18634300 ATTTTTCAAAGTTGTTGTGCCTCTATTTAAATGAGCTTTTTATTTTTCAAAGTTATTG-TGCCTT
1 ATTTTTCAAAGTTGTTGTGCATCTATTTAAATGAGCTTTTTATTTTTCAAAGTT-GTGAAGCCTT
18634364 TGTTTAGAGAAGTCTTTT
65 TGTTTAGAGAAGTCTTTT
*
18634382 ATTTTTCAAAGTTGTTGTGCATCTATTTAGATGAGCTTTTTATTTTTCAAAGTTGTGAAGCCTTT
1 ATTTTTCAAAGTTGTTGTGCATCTATTTAAATGAGCTTTTTATTTTTCAAAGTTGTGAAGCCTTT
18634447 GTTTAGA
66 GTTTAGA
18634454 TGAGTTTTTG
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
81 2 0.03
82 65 0.97
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (82 bp):
ATTTTTCAAAGTTGTTGTGCATCTATTTAAATGAGCTTTTTATTTTTCAAAGTTGTGAAGCCTTT
GTTTAGAGAAGTCTTTT
Found at i:18634625 original size:8 final size:8
Alignment explanation
Indices: 18634612--18634656 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
18634602 TAATTTTGTT
18634612 AATAAAAA
1 AATAAAAA
18634620 AAT-AAAA
1 AATAAAAA
*
18634627 ATTAAAAA
1 AATAAAAA
*
18634635 ATTAAAAA
1 AATAAAAA
18634643 AATGAAAAA
1 AAT-AAAAA
18634652 AATAA
1 AATAA
18634657 GTAGTTGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 6 0.18
8 19 0.58
9 8 0.24
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (8 bp):
AATAAAAA
Found at i:18635770 original size:56 final size:56
Alignment explanation
Indices: 18635708--18635906 Score: 234
Period size: 56 Copynumber: 3.7 Consensus size: 56
18635698 AAGAGAAAAT
18635708 ATTTCTAAATTAACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGA
1 ATTTCTAAATTAACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGA
*** * * **
18635764 ATTTCTAAATGGGCCCAAATTGTGGAAAATTTAGAAAT----TTAAAAAA-A-A-A
1 ATTTCTAAATTAACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGA
*
18635813 ATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGA
1 ATTTCTAAATTAACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGA
* * *
18635869 ATTTCTAAA-TAGGCCCAAATGGTGAAAATTTTAAAAAT
1 ATTTCTAAATTA-ACCCAAATGGTGAAAAATTTAGAAAT
18635907 TAAAAAAAAT
Statistics
Matches: 118, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
49 35 0.30
50 1 0.01
51 1 0.01
52 6 0.05
53 6 0.05
54 1 0.01
55 2 0.02
56 66 0.56
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (56 bp):
ATTTCTAAATTAACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGA
Found at i:18635829 original size:105 final size:104
Alignment explanation
Indices: 18635703--18635950 Score: 363
Period size: 105 Copynumber: 2.3 Consensus size: 104
18635693 AAATAAAGAG
* *
18635703 AAAATATTTCTAAATTAACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGAATTT
1 AAAAAATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGAATTT
* * *
18635768 CTAAATGGGCCCAAATTGTGGAAAA-TTTAGAAATTTAAAA
66 CTAAATAGGCCCAAATGGT-GAAAATTTTA-AAAATTAAAA
18635808 AAAAAATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGAATTT
1 AAAAAATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGAATTT
18635873 CTAAATAGGCCCAAATGGTGAAAATTTTAAAAATTAAAA
66 CTAAATAGGCCCAAATGGTGAAAATTTTAAAAATTAAAA
* * * *
18635912 AAAATATATTTCTTATTTGGCCTAAATGGTGAAATAATT
1 AAAA-A-ATTTCTAAATTGACCCAAATGGTGAAA-AATT
18635951 AATATATTTT
Statistics
Matches: 130, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
104 18 0.14
105 85 0.65
106 23 0.18
107 4 0.03
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (104 bp):
AAAAAATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGAATTT
CTAAATAGGCCCAAATGGTGAAAATTTTAAAAATTAAAA
Found at i:18635860 original size:49 final size:49
Alignment explanation
Indices: 18635703--18635862 Score: 176
Period size: 49 Copynumber: 3.1 Consensus size: 49
18635693 AAATAAAGAG
* *
18635703 AAAATATTTCTAAATTAACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAA
1 AAAAAATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAAC----A
* * * * ** *
18635756 AAGAGAGAATTTCTAAATGGGCCCAAATTGTGGAAAATTTAGAAATTTAAAA
1 AA-A-A-AATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACA
18635808 AAAAAATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACA
1 AAAAAATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACA
18635857 AAAAAA
1 AAAAAA
18635863 GAGAGAATTT
Statistics
Matches: 88, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
49 44 0.50
50 1 0.01
51 1 0.01
52 3 0.03
53 2 0.02
54 1 0.01
55 1 0.01
56 35 0.40
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.24
Consensus pattern (49 bp):
AAAAAATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACA
Found at i:18636696 original size:15 final size:16
Alignment explanation
Indices: 18636678--18636717 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
18636668 AAAAAACGTT
18636678 TTGAATAATG-GATTA
1 TTGAATAATGAGATTA
18636693 TTGAATAATGAAGATTA
1 TTGAATAATG-AGATTA
*
18636710 TTAAATAA
1 TTGAATAA
18636718 CGGGGTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.45
17 12 0.55
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (16 bp):
TTGAATAATGAGATTA
Found at i:18638117 original size:19 final size:19
Alignment explanation
Indices: 18638093--18638130 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18638083 AATAAAGATA
18638093 AAGCTTCAATAAGGGAACC
1 AAGCTTCAATAAGGGAACC
*
18638112 AAGCTTCAGTAAGGGAACC
1 AAGCTTCAATAAGGGAACC
18638131 GACCTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (19 bp):
AAGCTTCAATAAGGGAACC
Found at i:18638137 original size:19 final size:19
Alignment explanation
Indices: 18638096--18638139 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
18638086 AAAGATAAAG
*
18638096 CTTCAATAAGGGAACCAAG
1 CTTCAATAAGGGAACCAAC
* *
18638115 CTTCAGTAAGGGAACCGAC
1 CTTCAATAAGGGAACCAAC
18638134 CTTCAA
1 CTTCAA
18638140 ACCACCAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.18
Consensus pattern (19 bp):
CTTCAATAAGGGAACCAAC
Found at i:18646132 original size:21 final size:21
Alignment explanation
Indices: 18646093--18646132 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18646083 TCTTTTAGGT
*
18646093 GATCGATCCCCTATGTGGGGG
1 GATCGATCCCCTATCTGGGGG
* *
18646114 GATCGATCCCTTTTCTGGG
1 GATCGATCCCCTATCTGGG
18646133 TTTCCACACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.30
Consensus pattern (21 bp):
GATCGATCCCCTATCTGGGGG
Found at i:18648473 original size:2 final size:2
Alignment explanation
Indices: 18648466--18648497 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
18648456 CAAATTCCTT
18648466 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18648498 TCTCCACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:18650718 original size:24 final size:28
Alignment explanation
Indices: 18650693--18650754 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
18650683 TTTGGTATAA
*
18650693 AATATTAT-AATAAAATAAGATAAAAAT
1 AATATTATAAATAAAATAAGATTAAAAT
*
18650720 AATATTATAAATAAAATTAGATT-AAAT
1 AATATTATAAATAAAATAAGATTAAAAT
18650747 AATATTAT
1 AATATTAT
18650755 TTTGTTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 20 0.62
28 12 0.38
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (28 bp):
AATATTATAAATAAAATAAGATTAAAAT
Found at i:18650844 original size:17 final size:20
Alignment explanation
Indices: 18650821--18650866 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 20
18650811 AAAATTATTT
18650821 TTTTTAAAGT-TT-ATATAA
1 TTTTTAAAGTATTAATATAA
*
18650839 -TTTTAAATTATTAATATAA
1 TTTTTAAAGTATTAATATAA
18650858 TTTTTAAAG
1 TTTTTAAAG
18650867 GTATAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 8 0.35
18 2 0.09
19 6 0.26
20 7 0.30
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTTTAAAGTATTAATATAA
Found at i:18651380 original size:21 final size:22
Alignment explanation
Indices: 18651351--18651393 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
18651341 ATAAATAAAT
18651351 AATTAAATAAT-ATATGTATATA
1 AATTAAAT-ATCATATGTATATA
*
18651373 AATT-AATATCATATGTCTATA
1 AATTAAATATCATATGTATATA
18651394 TGTATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 13 0.68
22 4 0.21
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (22 bp):
AATTAAATATCATATGTATATA
Found at i:18651494 original size:12 final size:13
Alignment explanation
Indices: 18651479--18651511 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18651469 ATATTATAAA
18651479 TTTTATTTTT-AT
1 TTTTATTTTTGAT
*
18651491 TTTTATTTTTGTT
1 TTTTATTTTTGAT
18651504 TTTTATTT
1 TTTTATTT
18651512 GAAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (13 bp):
TTTTATTTTTGAT
Found at i:18652307 original size:12 final size:13
Alignment explanation
Indices: 18652285--18652313 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
18652275 ATGGGATATG
18652285 ATAATATAAGATT
1 ATAATATAAGATT
18652298 ATAA-ATAAGATT
1 ATAATATAAGATT
18652310 ATAA
1 ATAA
18652314 CAAATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (13 bp):
ATAATATAAGATT
Done.