Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 124 of 147
Found at i:22304939 original size:16 final size:16
Alignment explanation
Indices: 22304920--22304958 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22304910 TATATTTAAT
*
22304920 TATATATATTTTTATA
1 TATATATAATTTTATA
*
22304936 TATATTTAATTTTATA
1 TATATATAATTTTATA
*
22304952 TTTATAT
1 TATATAT
22304959 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATATAATTTTATA
Found at i:22306237 original size:27 final size:27
Alignment explanation
Indices: 22306183--22306255 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
22306173 TATTTATAAA
22306183 AATTTAT-TTTTA-AT-TATT-TATTT
1 AATTTATATTTTATATATATTATATTT
22306206 AATTTTATATTTTATATATATTATATTT
1 AA-TTTATATTTTATATATATTATATTT
* *
22306234 -ATTTAAATTTATATTTATATTA
1 AATTTATATTT-TATATATATTA
22306256 AAATAATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
23 2 0.05
24 5 0.12
25 5 0.12
26 10 0.24
27 15 0.36
28 5 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (27 bp):
AATTTATATTTTATATATATTATATTT
Found at i:22306259 original size:18 final size:16
Alignment explanation
Indices: 22306197--22306257 Score: 70
Period size: 16 Copynumber: 3.8 Consensus size: 16
22306187 TATTTTTAAT
*
22306197 TATTTATTTAATTTTA
1 TATTTATTTAAATTTA
* *
22306213 TATTT-TATATATATTA
1 TATTTATTTAAAT-TTA
22306229 TATTTATTTAAATTTA
1 TATTTATTTAAATTTA
22306245 TATTTATATTAAA
1 TATTTAT-TTAAA
22306258 ATAATATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
15 4 0.11
16 23 0.62
17 10 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTATTTAAATTTA
Found at i:22306264 original size:17 final size:17
Alignment explanation
Indices: 22306228--22306292 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
22306218 TATATATATT
* *
22306228 ATATTTAT-TTAAATTT
1 ATATTTATATTAAAATA
22306244 ATATTTATATTAAAATA
1 ATATTTATATTAAAATA
*
22306261 ATATTTTTATTTAAAAAATA
1 ATATTTATA-TT--AAAATA
22306281 ATATTT-TATTAA
1 ATATTTATATTAA
22306293 TTTCAGATCC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.24
17 14 0.33
18 4 0.10
19 2 0.05
20 12 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATTTATATTAAAATA
Found at i:22309319 original size:3 final size:3
Alignment explanation
Indices: 22309305--22309345 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
22309295 TATAAAAAAC
*
22309305 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22309346 AAGATATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:22311845 original size:40 final size:42
Alignment explanation
Indices: 22311801--22311878 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 42
22311791 TTTCTAAAAA
* *
22311801 AATTCCTATTTTATTTTATAAAA-AAAA-TTTGAGAAATTTC
1 AATTCCTATATAATTTTATAAAAGAAAAGTTTGAGAAATTTC
* *
22311841 AATTCTTATATAATTTTTTAAAAGAAAAGTTTGAGAAA
1 AATTCCTATATAATTTTATAAAAGAAAAGTTTGAGAAA
22311879 ACTTTATCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 19 0.59
41 4 0.12
42 9 0.28
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (42 bp):
AATTCCTATATAATTTTATAAAAGAAAAGTTTGAGAAATTTC
Found at i:22318693 original size:26 final size:25
Alignment explanation
Indices: 22318664--22318721 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
22318654 AAAAAAATTT
22318664 AATTTTT-ATTTAAAAAATATAAAATA
1 AATTTTTAATTTAAAAAA-AT-AAATA
* *
22318690 AATTTGTTAATTTAACATAATAAATA
1 AATTT-TTAATTTAAAAAAATAAATA
22318716 AATTTT
1 AATTTT
22318722 ATTAGTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.04
26 15 0.54
27 4 0.14
28 8 0.29
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
AATTTTTAATTTAAAAAAATAAATA
Found at i:22318800 original size:20 final size:20
Alignment explanation
Indices: 22318750--22318801 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
22318740 AAATAATTTA
* *
22318750 AATACATTTTGTTATTTATT
1 AATAAATTTTATTATTTATT
*
22318770 AATAAAATTTATTATTTATT
1 AATAAATTTTATTATTTATT
22318790 -ATCAAATTTTAT
1 AAT-AAATTTTAT
22318802 AAATATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (20 bp):
AATAAATTTTATTATTTATT
Found at i:22319003 original size:18 final size:18
Alignment explanation
Indices: 22318980--22319014 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22318970 ACTATCTTTC
22318980 TAAATAAATCCTACTAAT
1 TAAATAAATCCTACTAAT
*
22318998 TAAATATATCCTACTAA
1 TAAATAAATCCTACTAA
22319015 AGAAATATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAATAAATCCTACTAAT
Found at i:22319020 original size:18 final size:18
Alignment explanation
Indices: 22318981--22319022 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
22318971 CTATCTTTCT
* **
22318981 AAATAAATCCTACTAATT
1 AAATATATCCTACTAAAG
22318999 AAATATATCCTACTAAAG
1 AAATATATCCTACTAAAG
22319017 AAATAT
1 AAATAT
22319023 GTTACTCAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.31
Consensus pattern (18 bp):
AAATATATCCTACTAAAG
Found at i:22319653 original size:22 final size:21
Alignment explanation
Indices: 22319621--22319662 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
22319611 TGATAAGATT
*
22319621 AAAAAAAATAAACTAAAAAATG
1 AAAAAAAATAAA-AAAAAAATG
*
22319643 AAAAAATATAAAAAAAAAAT
1 AAAAAAAATAAAAAAAAAAT
22319663 TAGAAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (21 bp):
AAAAAAAATAAAAAAAAAATG
Found at i:22322812 original size:18 final size:18
Alignment explanation
Indices: 22322789--22322827 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22322779 CAAAGGAAAA
*
22322789 CTCTTCGTCTTCGTT-TTC
1 CTCTTCCTCTTC-TTCTTC
22322807 CTCTTCCTCTTCTTCTTC
1 CTCTTCCTCTTCTTCTTC
22322825 CTC
1 CTC
22322828 ATCTATTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.00, C:0.41, G:0.05, T:0.54
Consensus pattern (18 bp):
CTCTTCCTCTTCTTCTTC
Found at i:22325166 original size:23 final size:23
Alignment explanation
Indices: 22325129--22325172 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
22325119 CTATAAACAA
* *
22325129 AAATAAAAGTGAATTGTCTTACC
1 AAATAAAAATAAATTGTCTTACC
*
22325152 AAATAAAAATAAATTTTCTTA
1 AAATAAAAATAAATTGTCTTA
22325173 TAACATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.34
Consensus pattern (23 bp):
AAATAAAAATAAATTGTCTTACC
Found at i:22326974 original size:34 final size:34
Alignment explanation
Indices: 22326929--22327009 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
22326919 TATATCCAGT
* * * *
22326929 AAAATT-TATAACTCATTGAAAATGGATTTTCAA
1 AAAATTATATAACTCACTAAAAATGAATTTCCAA
*
22326962 AAAATTATATAACTTACTAAAAATGAATTTCCAA
1 AAAATTATATAACTCACTAAAAATGAATTTCCAA
* *
22326996 AAAGTTATAAAACT
1 AAAATTATATAACT
22327010 TTCAAGAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 6 0.15
34 34 0.85
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (34 bp):
AAAATTATATAACTCACTAAAAATGAATTTCCAA
Found at i:22327031 original size:34 final size:34
Alignment explanation
Indices: 22326947--22327046 Score: 96
Period size: 34 Copynumber: 2.9 Consensus size: 34
22326937 TAACTCATTG
* * * *
22326947 AAAATGGATTTTCAAAAAATTATATAACTTACTA
1 AAAATGAATTTTCAAAAAGTTATAAAACTTTCTA
*
22326981 AAAATGAATTTCCAAAAAGTTATAAAACTTTC-A
1 AAAATGAATTTTCAAAAAGTTATAAAACTTTCTA
**
22327014 AGAAATTCATTTTCAAAAAAAGTTAT-AAACTTT
1 A-AAATGAATTTTC--AAAAAGTTATAAAACTTT
22327047 TGTAAGAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
33 2 0.04
34 36 0.65
35 7 0.13
36 10 0.18
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.34
Consensus pattern (34 bp):
AAAATGAATTTTCAAAAAGTTATAAAACTTTCTA
Found at i:22330715 original size:28 final size:27
Alignment explanation
Indices: 22330665--22330718 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
22330655 CACTTGTGAT
22330665 TTTATTATTATATTTATTATTCTTTTA
1 TTTATTATTATATTTATTATTCTTTTA
*
22330692 TTTATGTATT-TATTTAATTTTTCTTTT
1 TTTAT-TATTATATTT-ATTATTCTTTT
22330719 TTATTCGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (27 bp):
TTTATTATTATATTTATTATTCTTTTA
Found at i:22330932 original size:117 final size:118
Alignment explanation
Indices: 22330811--22331061 Score: 353
Period size: 118 Copynumber: 2.1 Consensus size: 118
22330801 CTTTGTATGA
* * * *
22330811 AAAATTACCACTTGTGATTTTATTTTTTATTAATAATTTTTTTTACTTGAAAA-TTCTAAAATAT
1 AAAATCACCACTTGTGACTTTATTTTTTATTAACAATTTTTTATACTTGAAAATTTCTAAAATAT
*
22330875 TTCTAACACTTTT-GAAAAATTTTAGAAAATTTCTTTGTGTAAATATTTTTAAT
66 TTCTAACACTTTTAG-AAAATTTTAGAAAATTCCTTTGTGTAAATATTTTTAAT
* * *
22330928 AAAATCACTACTTGTGACTTTATTTTTTATTAACAATTTTTTATGCTTGAAAATTTTTAAAATAT
1 AAAATCACCACTTGTGACTTTATTTTTTATTAACAATTTTTTATACTTGAAAATTTCTAAAATAT
* ** * * *
22330993 TTCTAATACTTTTAGACTATTTTAGAAAATTCCTTTGTGTAATTTTTTTTTAT
66 TTCTAACACTTTTAGAAAATTTTAGAAAATTCCTTTGTGTAAATATTTTTAAT
22331046 AAAATCACCACTTGTG
1 AAAATCACCACTTGTG
22331062 GCTATATAAT
Statistics
Matches: 117, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
117 47 0.40
118 69 0.59
119 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.50
Consensus pattern (118 bp):
AAAATCACCACTTGTGACTTTATTTTTTATTAACAATTTTTTATACTTGAAAATTTCTAAAATAT
TTCTAACACTTTTAGAAAATTTTAGAAAATTCCTTTGTGTAAATATTTTTAAT
Found at i:22331283 original size:23 final size:23
Alignment explanation
Indices: 22331256--22331309 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
22331246 AGTCAACATC
*
22331256 AGTCAAAGGTGAGTTAACCTCAA
1 AGTCAAAGGTGAGTGAACCTCAA
* *
22331279 AGTCAAATGTGAGTGAACCTCAG
1 AGTCAAAGGTGAGTGAACCTCAA
22331302 AGTCAAAG
1 AGTCAAAG
22331310 CTGATCAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (23 bp):
AGTCAAAGGTGAGTGAACCTCAA
Found at i:22336497 original size:26 final size:26
Alignment explanation
Indices: 22336467--22336517 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
22336457 TAAATAAATT
*
22336467 TTTTTAATAAATTATTTAAATTGAATA
1 TTTTGAAT-AATTATTTAAATTGAATA
*
22336494 TTTTGGATAATTATTTAAATTGAA
1 TTTTGAATAATTATTTAAATTGAA
22336518 ATCAATATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (26 bp):
TTTTGAATAATTATTTAAATTGAATA
Found at i:22336715 original size:39 final size:39
Alignment explanation
Indices: 22336670--22336785 Score: 96
Period size: 39 Copynumber: 3.0 Consensus size: 39
22336660 CAAATAATTC
*
22336670 TATTTAATAAATTATTTAAATTTAATATTTTTAGATAAT
1 TATTTAATAAATTATTTAAATTTAATAATTTTAGATAAT
* * * * *
22336709 TATTTAAATTCAAATCA---AAATCTATTAAAATTT-GAAAAT
1 TATTT-AA-T-AAATTATTTAAATTTAAT-AATTTTAGATAAT
* *
22336748 TTTTTAATAAATTATTTAAATTTAATACTTTTAGATAA
1 TATTTAATAAATTATTTAAATTTAATAATTTTAGATAA
22336786 GGTAATAAAT
Statistics
Matches: 56, Mismatches: 13, Indels: 16
0.66 0.15 0.19
Matches are distributed among these distances:
36 5 0.09
37 1 0.02
38 6 0.11
39 32 0.57
40 6 0.11
41 1 0.02
42 5 0.09
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (39 bp):
TATTTAATAAATTATTTAAATTTAATAATTTTAGATAAT
Found at i:22337508 original size:2 final size:2
Alignment explanation
Indices: 22337501--22337527 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22337491 GTTCAATCAA
22337501 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
22337528 CACACACACA
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:22338879 original size:33 final size:33
Alignment explanation
Indices: 22338842--22338907 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
22338832 ATGAGGAGAC
*
22338842 ATGCCACTTGATTGCAAACAGAGGAAGGCATGG
1 ATGCCACTTGATTGCAAACAGAGGAACGCATGG
22338875 ATGCCACTTGATTGCAAACAGAGGAACGCATGG
1 ATGCCACTTGATTGCAAACAGAGGAACGCATGG
22338908 GATGGAATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (33 bp):
ATGCCACTTGATTGCAAACAGAGGAACGCATGG
Found at i:22339431 original size:29 final size:29
Alignment explanation
Indices: 22339399--22339456 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
22339389 TTAGAATGAT
*
22339399 AAAAGAAGTGATACAATTAAGATTGATGG
1 AAAAGAAGTGATACAATTAAGACTGATGG
*
22339428 AAAAGAAGTGATACAATTGAGACTGATGG
1 AAAAGAAGTGATACAATTAAGACTGATGG
22339457 GGCTGGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.05, G:0.26, T:0.22
Consensus pattern (29 bp):
AAAAGAAGTGATACAATTAAGACTGATGG
Found at i:22339957 original size:18 final size:19
Alignment explanation
Indices: 22339934--22339970 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
22339924 GAATAATAAA
22339934 ATATATTTA-ATTTAAATT
1 ATATATTTACATTTAAATT
*
22339952 ATATATTTACCTTTAAATT
1 ATATATTTACATTTAAATT
22339971 TTTTATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATATTTACATTTAAATT
Found at i:22340040 original size:14 final size:15
Alignment explanation
Indices: 22340008--22340043 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
22339998 ATTATCCAAC
22340008 AAAATACTTAATATT
1 AAAATACTTAATATT
22340023 AAAATA-TTAA-ATT
1 AAAATACTTAATATT
22340036 AAAA-ACTT
1 AAAATACTT
22340044 TAACACTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.05
13 9 0.45
14 4 0.20
15 6 0.30
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAATACTTAATATT
Found at i:22344019 original size:24 final size:24
Alignment explanation
Indices: 22343963--22344019 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
22343953 ATTATTTTTC
22343963 AATATAAAT-T-ATATTTTAATTA
1 AATATAAATATAATATTTTAATTA
* *
22343985 TATATAAATATAATATTTTTATTA
1 AATATAAATATAATATTTTAATTA
22344009 AAT-TAAGATAT
1 AATATAA-ATAT
22344020 TAAATATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 8 0.28
23 4 0.14
24 17 0.59
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
AATATAAATATAATATTTTAATTA
Found at i:22344048 original size:29 final size:30
Alignment explanation
Indices: 22343978--22344053 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 30
22343968 AAATTATATT
*
22343978 TTAATTATATATAAATATAATATTTTTATTAAA
1 TTAA-TATAT-TAAATAT-ATAATTTTATTAAA
*
22344011 TTAAGATATTAAATAT-TAATTTTATT-AA
1 TTAATATATTAAATATATAATTTTATTAAA
22344039 TATAATATA-TAAATA
1 T-TAATATATTAAATA
22344054 AAAAATAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 9 0.23
29 15 0.38
31 7 0.18
32 4 0.10
33 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (30 bp):
TTAATATATTAAATATATAATTTTATTAAA
Found at i:22344060 original size:15 final size:15
Alignment explanation
Indices: 22344036--22344083 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
22344026 TTAATTTTAT
*
22344036 TAATATAATATATAAA
1 TAATAAAATA-ATAAA
22344052 TAA-AAAATAAGTAAA
1 TAATAAAATAA-TAAA
22344067 TAATAAAATAATAAA
1 TAATAAAATAATAAA
22344082 TA
1 TA
22344084 TATTTATGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.03
15 18 0.62
16 10 0.34
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (15 bp):
TAATAAAATAATAAA
Found at i:22344067 original size:8 final size:7
Alignment explanation
Indices: 22344036--22344083 Score: 51
Period size: 8 Copynumber: 6.3 Consensus size: 7
22344026 TTAATTTTAT
22344036 TAATATAA
1 TAATA-AA
22344044 TATATAAA
1 TA-ATAAA
*
22344052 TAAAAAA
1 TAATAAA
22344059 TAAGTAAA
1 TAA-TAAA
22344067 TAATAAAA
1 TAAT-AAA
22344075 TAATAAA
1 TAATAAA
22344082 TA
1 TA
22344084 TATTTATGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
7 13 0.37
8 19 0.54
9 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (7 bp):
TAATAAA
Found at i:22345418 original size:23 final size:21
Alignment explanation
Indices: 22345365--22345418 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
22345355 TTGATATGTG
* *
22345365 TAAAATTTATGTTGATTTTAT
1 TAAAATTTAGGTTGATTGTAT
*
22345386 TATAAGTTTAGGTTTGATGTGTAT
1 TA-AAATTTAGG-TTGAT-TGTAT
22345410 TAAAATTTA
1 TAAAATTTA
22345419 TATTGGTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 7 0.27
23 11 0.42
24 6 0.23
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (21 bp):
TAAAATTTAGGTTGATTGTAT
Found at i:22345567 original size:116 final size:116
Alignment explanation
Indices: 22345366--22345594 Score: 318
Period size: 116 Copynumber: 2.0 Consensus size: 116
22345356 TGATATGTGT
* *
22345366 AAAATTTATGTTGATTTTATTATAAGTTTAGGTTTGATGTGTATTAAAATTTATATTGGTTTTGA
1 AAAATTTATGTTGATTTTATTATAAATTTAGGTTTAATGTGTATTAAAATTTATATTGGTTTTGA
* **** * *
22345431 TAATTTTTTATATTTAATTTTTTAAAATTTAATAATAATTATAGAAATTAA
66 AAAAAAATTATATTGAATTTTTTAAAAATTAATAATAATTATAGAAATTAA
* *
22345482 AAAATTTATGTTGATTTTA-TATTAAATTTGGGTTTAATGTGTATTAAAATTTATATTTGTTTTG
1 AAAATTTATGTTGATTTTATTA-TAAATTTAGGTTTAATGTGTATTAAAATTTATATTGGTTTTG
*
22345546 AAAAAAAATTAT-TTGATATTTTTTAAAAATTAATAATAATTATTGAAAT
65 AAAAAAAATTATATTGA-ATTTTTTAAAAATTAATAATAATTATAGAAAT
22345595 ATTGTAGTTA
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
115 5 0.05
116 94 0.95
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (116 bp):
AAAATTTATGTTGATTTTATTATAAATTTAGGTTTAATGTGTATTAAAATTTATATTGGTTTTGA
AAAAAAATTATATTGAATTTTTTAAAAATTAATAATAATTATAGAAATTAA
Found at i:22345808 original size:140 final size:140
Alignment explanation
Indices: 22345556--22345817 Score: 418
Period size: 140 Copynumber: 1.9 Consensus size: 140
22345546 AAAAAAAATT
* * *
22345556 ATTTGATATTTTTTAAAAATTAATAATAATTATTGAAATATTGTAGTTAGAGCTGTTCACAGGCC
1 ATTTGATATTTTTTAAAAATTAATAATAATTATTAAAATATTATAGTTAGAGCTATTCACAGGCC
* *
22345621 AAGCTGAGCCTAAGCGAGATATGAAACTGTTATAAACAAGCCTAGGTTCGACCTGGCCTGATTTT
66 AAGCTGAGCCTAAGCGAGATATGAAACAGTTATAAACAAGCCTAGGTTCAACCTGGCCTGATTTT
22345686 TAGGTCTTTC
131 TAGGTCTTTC
* * *
22345696 ATTTGATATTTTTTAAAACTTAATAATAATTATTAAAATATTAT-GATTAGATCTATTCATAGGC
1 ATTTGATATTTTTTAAAAATTAATAATAATTATTAAAATATTATAG-TTAGAGCTATTCACAGGC
* *
22345760 CAGGCTGAGCCTAAGCGGGATATGAAACAGTTATAAACAAGCCTAGGTTCAACCTGGC
65 CAAGCTGAGCCTAAGCGAGATATGAAACAGTTATAAACAAGCCTAGGTTCAACCTGGC
22345818 TTAACTTTTC
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
139 1 0.01
140 110 0.99
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (140 bp):
ATTTGATATTTTTTAAAAATTAATAATAATTATTAAAATATTATAGTTAGAGCTATTCACAGGCC
AAGCTGAGCCTAAGCGAGATATGAAACAGTTATAAACAAGCCTAGGTTCAACCTGGCCTGATTTT
TAGGTCTTTC
Found at i:22346325 original size:9 final size:9
Alignment explanation
Indices: 22346311--22346340 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
22346301 ATGGTAGAAG
22346311 CATCATTAT
1 CATCATTAT
22346320 CATCATTAT
1 CATCATTAT
*
22346329 CATCATTCT
1 CATCATTAT
22346338 CAT
1 CAT
22346341 TGTTGCTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (9 bp):
CATCATTAT
Found at i:22348784 original size:22 final size:21
Alignment explanation
Indices: 22348758--22348798 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
22348748 AATTGATTTT
22348758 AAAATAAAATAAAAGAGAAATA
1 AAAATAAAATAAAAG-GAAATA
*
22348780 AAAATGAAATAAAAGGAAA
1 AAAATAAAATAAAAGGAAA
22348799 CTGATGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (21 bp):
AAAATAAAATAAAAGGAAATA
Found at i:22348949 original size:33 final size:32
Alignment explanation
Indices: 22348907--22348991 Score: 80
Period size: 32 Copynumber: 2.6 Consensus size: 32
22348897 TATATAATGA
* * **
22348907 AAATAGGCTTTGTCTTATTATAACCAATAAAAC
1 AAATTGGCTTTGTC-CATTATAAAAAATAAAAC
* * *
22348940 ACATTGGCTTTATCCATTATAAAAAATAAAAT
1 AAATTGGCTTTGTCCATTATAAAAAATAAAAC
*
22348972 AAATTGGTTTTGTCCCATTA
1 AAATTGGCTTTGT-CCATTA
22348992 AAGAAGACAA
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
32 24 0.59
33 17 0.41
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.36
Consensus pattern (32 bp):
AAATTGGCTTTGTCCATTATAAAAAATAAAAC
Found at i:22352125 original size:26 final size:26
Alignment explanation
Indices: 22352096--22352150 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
22352086 TACTGATGGA
22352096 TTTACCAATAAAATTTATCAATGAAT
1 TTTACCAATAAAATTTATCAATGAAT
* * *
22352122 TTTACCAATAGATTTTATCGATGAAT
1 TTTACCAATAAAATTTATCAATGAAT
22352148 TTT
1 TTT
22352151 TCGTCAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (26 bp):
TTTACCAATAAAATTTATCAATGAAT
Found at i:22352149 original size:13 final size:13
Alignment explanation
Indices: 22352109--22352150 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
22352099 ACCAATAAAA
22352109 TTTATCAATGAAT
1 TTTATCAATGAAT
*
22352122 TTTACCAAT-AGAT
1 TTTATCAATGA-AT
*
22352135 TTTATCGATGAAT
1 TTTATCAATGAAT
22352148 TTT
1 TTT
22352151 TCGTCAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (13 bp):
TTTATCAATGAAT
Found at i:22355933 original size:5 final size:5
Alignment explanation
Indices: 22355925--22355991 Score: 52
Period size: 5 Copynumber: 13.8 Consensus size: 5
22355915 TTTTAGGAAA
***
22355925 AAAAT AAAA- AATAAT AAAAT -AAAT AAAAT AGGTT AGAAAT AAAAT AAAAT
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT
*
22355975 -CAA- AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAA
22355992 ATGAGAAAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
4 10 0.21
5 34 0.71
6 4 0.08
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:22356868 original size:3 final size:3
Alignment explanation
Indices: 22356851--22356887 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
22356841 AAAAAGGAAA
22356851 AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22356888 CGTTTAATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:22360428 original size:21 final size:20
Alignment explanation
Indices: 22360406--22360446 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
22360396 ATCTAACATA
*
22360406 TTGAATTTAATTTGATTAATAT
1 TTGAA-TTAA-TTGAATAATAT
22360428 TTGAATTAATTGAATAATA
1 TTGAATTAATTGAATAATA
22360447 AAATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (20 bp):
TTGAATTAATTGAATAATAT
Found at i:22362096 original size:16 final size:17
Alignment explanation
Indices: 22362070--22362104 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
22362060 GATATGAAAA
22362070 ATGTAAATATAACAATG
1 ATGTAAATATAACAATG
*
22362087 ATGT-AATATAAGAATG
1 ATGTAAATATAACAATG
22362103 AT
1 AT
22362105 AGAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.31
Consensus pattern (17 bp):
ATGTAAATATAACAATG
Found at i:22364141 original size:13 final size:13
Alignment explanation
Indices: 22364123--22364148 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22364113 CTACAATATT
22364123 TTTATTAAATTAA
1 TTTATTAAATTAA
22364136 TTTATTAAATTAA
1 TTTATTAAATTAA
22364149 AGTATTAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTATTAAATTAA
Found at i:22365051 original size:24 final size:22
Alignment explanation
Indices: 22365013--22365056 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 22
22365003 AAAAGTTTAG
22365013 GATAAAAATTGTTTAAAAATGT
1 GATAAAAATTGTTTAAAAATGT
22365035 GATAAAAATATGATTTAAAAAT
1 GATAAAAAT-TG-TTTAAAAAT
22365057 TTTAAGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.45
23 2 0.10
24 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (22 bp):
GATAAAAATTGTTTAAAAATGT
Found at i:22365410 original size:258 final size:258
Alignment explanation
Indices: 22364943--22365424 Score: 930
Period size: 258 Copynumber: 1.9 Consensus size: 258
22364933 TACTCAATAT
22364943 TTTTTTATTTTGAGTTTTTAGGCTAATTAAGGTCTAATTTAATATTATTATTATGGTTGAAAAAG
1 TTTTTTATTTTGAGTTTTTAGGCTAATTAAGGTCTAATTTAATATTATTATTATGGTTGAAAAAG
22365008 TTTAGGATAAAAATTGTTTAAAAATGTGATAAAAATATGATTTAAAAATTTTAAGTATTTAGGGT
66 TTTAGGATAAAAATTGTTTAAAAATGTGATAAAAATATGATTTAAAAATTTTAAGTATTTAGGGT
*
22365073 TATTGTGAAAAAATAGTATAGTGATTAAAAATGTTTAAAAATATATGCATAAAATAATAAAAATT
131 TATTGTGAAAAAATAGTATAGTGATTAAAAATATTTAAAAATATATGCATAAAATAATAAAAATT
22365138 TAAATATACAAAAAATAATGAAATCATTTTACCCATAAAAATTGGGTTTGAATGTAAAGCATC
196 TAAATATACAAAAAATAATGAAATCATTTTACCCATAAAAATTGGGTTTGAATGTAAAGCATC
22365201 TTTTTTATTTTGAGTTTTTAGGCTAATTAAGGTCTAATTTAATATTATTATTATGGTTGAAAAAG
1 TTTTTTATTTTGAGTTTTTAGGCTAATTAAGGTCTAATTTAATATTATTATTATGGTTGAAAAAG
*
22365266 TTTAGGATAAAAATTGTTTTAAAATGTGATAAAAATATGATTTAAAAATTTTAAGTATTTAGGGT
66 TTTAGGATAAAAATTGTTTAAAAATGTGATAAAAATATGATTTAAAAATTTTAAGTATTTAGGGT
22365331 TATTGTGAAAAAATAGTATAGTGATTAAAATATATTTAAAAATATATGCATAAAATAATAAAAAT
131 TATTGTGAAAAAATAGTATAGTGATTAAAA-ATATTTAAAAATATATGCATAAAATAATAAAAAT
22365396 TTAAATAT-CAAAAAATAATGAAATCATTT
195 TTAAATATACAAAAAATAATGAAATCATTT
22365425 AAAAATTTTA
Statistics
Matches: 221, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
258 180 0.81
259 41 0.19
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.40
Consensus pattern (258 bp):
TTTTTTATTTTGAGTTTTTAGGCTAATTAAGGTCTAATTTAATATTATTATTATGGTTGAAAAAG
TTTAGGATAAAAATTGTTTAAAAATGTGATAAAAATATGATTTAAAAATTTTAAGTATTTAGGGT
TATTGTGAAAAAATAGTATAGTGATTAAAAATATTTAAAAATATATGCATAAAATAATAAAAATT
TAAATATACAAAAAATAATGAAATCATTTTACCCATAAAAATTGGGTTTGAATGTAAAGCATC
Found at i:22365476 original size:116 final size:115
Alignment explanation
Indices: 22365305--22365539 Score: 445
Period size: 116 Copynumber: 2.0 Consensus size: 115
22365295 TAAAAATATG
22365305 ATTTAAAAATTTTAAGTATTTAGGGTTATTGTGAAAAAATAGTATAGTGATTAAAATATATTTAA
1 ATTTAAAAATTTTAAGTATTTAGGGTTATTGTGAAAAAATAGTATAGTGATTAAAA-ATATTTAA
22365370 AAATATATGCATAAAATAATAAAAATTTAAATAT-CAAAAAATAATGAAATC
65 AAATATATGCATAAAATAA-AAAAATTTAAATATACAAAAAATAATGAAATC
22365421 ATTTAAAAATTTTAAGTATTTAGGGTTATTGTGAAAAAATAGTATAGTGATTAAAAATATTTAAA
1 ATTTAAAAATTTTAAGTATTTAGGGTTATTGTGAAAAAATAGTATAGTGATTAAAAATATTTAAA
22365486 AATATATGCATAAAATAAAAAAATTTAAATATACAAAAAATAATGAAATC
66 AATATATGCATAAAATAAAAAAATTTAAATATACAAAAAATAATGAAATC
22365536 ATTT
1 ATTT
22365540 TACCCATAAA
Statistics
Matches: 118, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
114 14 0.12
115 48 0.41
116 56 0.47
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (115 bp):
ATTTAAAAATTTTAAGTATTTAGGGTTATTGTGAAAAAATAGTATAGTGATTAAAAATATTTAAA
AATATATGCATAAAATAAAAAAATTTAAATATACAAAAAATAATGAAATC
Found at i:22366238 original size:19 final size:21
Alignment explanation
Indices: 22366216--22366254 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
22366206 TGACTAAATT
22366216 AAATACAT-TTATT-TTGTTC
1 AAATACATATTATTATTGTTC
*
22366235 AAATACCTATTATTATTGTT
1 AAATACATATTATTATTGTT
22366255 TCTATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 5 0.29
21 5 0.29
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.51
Consensus pattern (21 bp):
AAATACATATTATTATTGTTC
Found at i:22367680 original size:17 final size:17
Alignment explanation
Indices: 22367654--22367687 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22367644 AGCACGAAAA
22367654 GAATAGGCAATATCTTT
1 GAATAGGCAATATCTTT
*
22367671 GAATATGCAATATCTTT
1 GAATAGGCAATATCTTT
22367688 CACCATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (17 bp):
GAATAGGCAATATCTTT
Found at i:22370947 original size:12 final size:13
Alignment explanation
Indices: 22370932--22370960 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22370922 TTAAATTAAA
22370932 ATTTA-TAAAAAT
1 ATTTACTAAAAAT
22370944 ATTTACTAAAAAT
1 ATTTACTAAAAAT
22370957 ATTT
1 ATTT
22370961 TAATCAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTACTAAAAAT
Found at i:22370988 original size:28 final size:28
Alignment explanation
Indices: 22370957--22371011 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
22370947 TACTAAAAAT
* *
22370957 ATTTTAATCAA-TTACTTTTAACATTAAA
1 ATTTTAAGCAATTTAATTTT-ACATTAAA
22370985 ATTTTAAGCAATTTAATTTTACATTAA
1 ATTTTAAGCAATTTAATTTTACATTAA
22371012 CTCTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (28 bp):
ATTTTAAGCAATTTAATTTTACATTAAA
Found at i:22375378 original size:11 final size:11
Alignment explanation
Indices: 22375364--22375389 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22375354 AAATTTTAAA
22375364 TTATATTATTT
1 TTATATTATTT
22375375 TTATATTATTT
1 TTATATTATTT
22375386 TTAT
1 TTAT
22375390 TTTGTACCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATATTATTT
Found at i:22375697 original size:22 final size:21
Alignment explanation
Indices: 22375659--22375701 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
22375649 GAATATATTA
**
22375659 TTTATAATTTTTTATTATAAT
1 TTTATAATTTTCAATTATAAT
22375680 TTTATAATTGTTCAATTATAAT
1 TTTATAATT-TTCAATTATAAT
22375702 AAAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTATAATTTTCAATTATAAT
Found at i:22377038 original size:33 final size:33
Alignment explanation
Indices: 22376989--22377135 Score: 118
Period size: 33 Copynumber: 4.5 Consensus size: 33
22376979 TCCATGTCTG
* * *
22376989 GGCATTCTGAACCCTGTGGGATCCCCATTTCCT
1 GGCATTCTAAACCCTGTAGGATCCCCATTTCCA
* * *
22377022 GGCATTCTAAATCCTGTAAGATCTCCATTTCCA
1 GGCATTCTAAACCCTGTAGGATCCCCATTTCCA
** * * *
22377055 GGCATTCTAATTCTTGCAGGATCCCTATGTT-CA
1 GGCATTCTAAACCCTGTAGGATCCCCAT-TTCCA
* * *
22377088 GGCATTCTGAACCCTAT-GTGATCTCCATTTCCA
1 GGCATTCTAAACCCTGTAG-GATCCCCATTTCCA
* *
22377121 GGCATTTTGAACCCT
1 GGCATTCTAAACCCT
22377136 TTATTGGGTT
Statistics
Matches: 90, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
32 3 0.03
33 85 0.94
34 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (33 bp):
GGCATTCTAAACCCTGTAGGATCCCCATTTCCA
Found at i:22379498 original size:19 final size:18
Alignment explanation
Indices: 22379476--22379514 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22379466 GTTTATATTT
*
22379476 TTTATAATATTTAAAAAAA
1 TTTA-AATAATTAAAAAAA
*
22379495 TTTAATTAATTAAAAAAA
1 TTTAAATAATTAAAAAAA
22379513 TT
1 TT
22379515 AAACAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTAAATAATTAAAAAAA
Found at i:22380557 original size:10 final size:9
Alignment explanation
Indices: 22380529--22380555 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
22380519 AGGTAAAAAC
22380529 AATTTTTTT
1 AATTTTTTT
22380538 AATTTTTTT
1 AATTTTTTT
22380547 AATTTTTTT
1 AATTTTTTT
22380556 TATATACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
AATTTTTTT
Found at i:22381008 original size:18 final size:17
Alignment explanation
Indices: 22380985--22381081 Score: 78
Period size: 16 Copynumber: 5.9 Consensus size: 17
22380975 TTCAAAATCC
22380985 TAAAATCCAAAACCCTCA
1 TAAAATCCAAAACCCT-A
**
22381003 TAAAATCTGAAACCCTA
1 TAAAATCCAAAACCCTA
22381020 -AAAATCCAAAATCCCT-
1 TAAAATCCAAAA-CCCTA
* *
22381036 T-AAATTC-AAACCC-C
1 TAAAATCCAAAACCCTA
* * *
22381050 TAAATTCGAAACCCCTA
1 TAAAATCCAAAACCCTA
22381067 TAAAATCCAAAACCC
1 TAAAATCCAAAACCC
22381082 CCCAAAATCT
Statistics
Matches: 60, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
14 4 0.07
15 6 0.10
16 19 0.32
17 17 0.28
18 14 0.23
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (17 bp):
TAAAATCCAAAACCCTA
Found at i:22381055 original size:14 final size:15
Alignment explanation
Indices: 22381036--22381066 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22381026 CAAAATCCCT
22381036 TAAATTC-AAACCCC
1 TAAATTCGAAACCCC
22381050 TAAATTCGAAACCCC
1 TAAATTCGAAACCCC
22381065 TA
1 TA
22381067 TAAAATCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.42, C:0.32, G:0.03, T:0.23
Consensus pattern (15 bp):
TAAATTCGAAACCCC
Found at i:22381082 original size:18 final size:18
Alignment explanation
Indices: 22380985--22381082 Score: 70
Period size: 18 Copynumber: 5.9 Consensus size: 18
22380975 TTCAAAATCC
22380985 TAAAATCCAAAA-CCCTCA
1 TAAAATCCAAAACCCCT-A
**
22381003 TAAAATCTGAAA-CCCTA
1 TAAAATCCAAAACCCCTA
*
22381020 -AAAATCCAAAATCCCT-
1 TAAAATCCAAAACCCCTA
*
22381036 T-AAATTC-AAACCCC--
1 TAAAATCCAAAACCCCTA
* *
22381050 T-AAATTCGAAACCCCTA
1 TAAAATCCAAAACCCCTA
22381067 TAAAATCCAAAACCCC
1 TAAAATCCAAAACCCC
22381083 CCAAAATCTA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
14 7 0.11
15 13 0.20
16 14 0.21
17 6 0.09
18 26 0.39
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.19
Consensus pattern (18 bp):
TAAAATCCAAAACCCCTA
Found at i:22381219 original size:29 final size:29
Alignment explanation
Indices: 22381146--22381221 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
22381136 TCAAACCCTT
* * *
22381146 AAATCAAAACCCCAAA-CCTCAAATTTTA
1 AAATCAAAACCCTAAATCTTCAAATTCTA
*
22381174 AAA-CGAAACCCTAAAATCTTC-AATCTCTA
1 AAATCAAAACCCT-AAATCTTCAAAT-TCTA
22381203 AAATCAAAACCCTAAATCT
1 AAATCAAAACCCTAAATCT
22381222 ATTTCAAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 7 0.18
28 9 0.23
29 15 0.38
30 8 0.21
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.22
Consensus pattern (29 bp):
AAATCAAAACCCTAAATCTTCAAATTCTA
Found at i:22382846 original size:22 final size:22
Alignment explanation
Indices: 22382815--22382862 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
22382805 TTACTCATTT
*
22382815 TTATTTATTTGTTTT-ATTTATA
1 TTATTGATTT-TTTTAATTTATA
*
22382837 TTATTGATTTTTTTAATTTTTA
1 TTATTGATTTTTTTAATTTATA
22382859 TTAT
1 TTAT
22382863 CTTCAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (22 bp):
TTATTGATTTTTTTAATTTATA
Found at i:22393896 original size:171 final size:170
Alignment explanation
Indices: 22393692--22394761 Score: 1172
Period size: 171 Copynumber: 6.3 Consensus size: 170
22393682 ATCATTTTAT
* * * *
22393692 TTTTTGACTTGCGATTTAATCTCGATCTCTTTATCCTCCGATTCACAGTTCAATCCCATTCTTTT
1 TTTTTAACTCGCGATTTAATCTCGATCTCTTTATCCTCCGATTCACAGTTCAATCCCACTCTCTT
* *
22393757 TAATTCAAAATTACAGTTTAATCTCGGTTGTTGTTATCCTTTGACTCATGGTTCAATCCCGATCT
66 TAATTCAAAATCACAGTTTAATCTCGATTGTTGTTATCCTTTGACTCATGGTTCAATCCCGATCT
* *
22393822 TCTTATTTTCGGACTTGTGATTCAATCTAGGTTAACGTCA
131 TCTTATTTTCGGACTTGTGATTCAATCCAAGTTAACGTCA
* * * * *
22393862 TTTTCTAACTCGTGGTTTAATCTCGATTTCTTTATCCTTCGATTCGA-GGTTCAATCCCGA-TCT
1 TTTT-TAACTCGCGATTTAATCTCGATCTCTTTATCCTCCGATTC-ACAGTTCAATCCC-ACTCT
* * * * * ** *
22393925 CTTTAATTTAAAATCATAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTTAATTTCGG
63 CTTTAATTCAAAATCACAGTTTAATCTCGATTGTTGTTATCCTTTGACTCATGGTTCAATCCCGA
*
22393990 TCTTCTTATTTTTGGACTTGTGATTCAATCCAAGTTAACGTCA
128 TCTTCTTATTTTCGGACTTGTGATTCAATCCAAGTTAACGTCA
* ** * * *** *
22394033 TTTTTTTACTTACGATTTAATTTCGATCTCTTTATCCTCTGATTCGTGGTTCAATCTCACTCTCT
1 -TTTTTAACTCGCGATTTAATCTCGATCTCTTTATCCTCCGATTCACAGTTCAATCCCACTCTCT
** ** *
22394098 TTAATTCAAAATCGTAGTTTAATCTCGGCTGTTGTTATCCTTTGACTCATGGTTCAATCTCGATC
65 TTAATTCAAAATCACAGTTTAATCTCGATTGTTGTTATCCTTTGACTCATGGTTCAATCCCGATC
22394163 TTCTTATTTTCGGACTTGTGATTCAATCCAAGTTAACGTCA
130 TTCTTATTTTCGGACTTGTGATTCAATCCAAGTTAACGTCA
* * * * *
22394204 TTTTCTAACTTGTGATTTAATCTCGATCTCTTTATCCTCCAATTCATAGTTCAATCCCATTCTCT
1 TTTT-TAACTCGCGATTTAATCTCGATCTCTTTATCCTCCGATTCACAGTTCAATCCCACTCTCT
* * * *
22394269 TTAATTCAAAATAATAGTTTAATCTCGATTGTTGTTATCCTTTGACTCGT-GATCTAATCCCGAT
65 TTAATTCAAAATCACAGTTTAATCTCGATTGTTGTTATCCTTTGACTCATGGTTC-AATCCCGAT
*
22394333 CTCCTTATTTTCGGACTTGTGATTCAATCCAAGTTAACGTCA
129 CTTCTTATTTTCGGACTTGTGATTCAATCCAAGTTAACGTCA
* * * **
22394375 TTTTTCAACTCGCGATTTAATCCCGGTCTCTTTATCCTCCAATTC-GTGATTCAATCCCACTCTC
1 TTTTT-AACTCGCGATTTAATCTCGATCTCTTTATCCTCCGATTCACAG-TTCAATCCCACTCTC
* * *
22394439 TTTAATTCAAAATCACAGTTTAATCTTGATTGTTGTTATCCTTTGACTCGTGG-TCTAATCCAG-
64 TTTAATTCAAAATCACAGTTTAATCTCGATTGTTGTTATCCTTTGACTCATGGTTC-AATCCCGA
* * * *
22394502 TCTCCTTATTTTCGGACTTGTAATTCAATCCAAGTTAAAGTTA
128 TCTTCTTATTTTCGGACTTGTGATTCAATCCAAGTTAACGTCA
* * * * * ** * * *
22394545 TTTTTCGACTCGTGATTTAATGCTAG-TCTCTTTATTCTCTGATTC-GTGATTCAATCCTAATCG
1 TTTTT-AACTCGCGATTTAAT-CTCGATCTCTTTATCCTCCGATTCACAG-TTCAATCCCACTCT
* ** * * * * *
22394608 CTTTAATTTAAAATCACAGTTTAATCTCGATTGTCATTAACCTCTGAC-AATGGTTTATTCCC-A
63 CTTTAATTCAAAATCACAGTTTAATCTCGATTGTTGTTATCCTTTGACTCATGGTTCAATCCCGA
** *
22394671 GTCGTT-TTATTTTCTAACTTGTGATTCAATCCAAGTTAACATCA
128 -TC-TTCTTATTTTCGGACTTGTGATTCAATCCAAGTTAACGTCA
* * * * *
22394715 TTTTTTGATTCGCGGTTTAATCTCGATCTCTTTATTCTCCAATTCAC
1 -TTTTTAACTCGCGATTTAATCTCGATCTCTTTATCCTCCGATTCAC
22394762 GATTTAATCT
Statistics
Matches: 772, Mismatches: 109, Indels: 37
0.84 0.12 0.04
Matches are distributed among these distances:
169 10 0.01
170 210 0.27
171 545 0.71
172 7 0.01
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (170 bp):
TTTTTAACTCGCGATTTAATCTCGATCTCTTTATCCTCCGATTCACAGTTCAATCCCACTCTCTT
TAATTCAAAATCACAGTTTAATCTCGATTGTTGTTATCCTTTGACTCATGGTTCAATCCCGATCT
TCTTATTTTCGGACTTGTGATTCAATCCAAGTTAACGTCA
Found at i:22394258 original size:342 final size:339
Alignment explanation
Indices: 22393690--22394759 Score: 1348
Period size: 342 Copynumber: 3.1 Consensus size: 339
22393680 CGATCATTTT
*** * *
22393690 ATTTTTTGACTTGCGATTTAATCTCGATCTCTTTATCCTCCGATTCACAGTTCAATCCCATTCTT
1 ATTTTTTGACTTGCGATTTAATCTCGATCTCTTTATCCTCCGATTCGTGGTTCAATCCCACTCTC
*
22393755 TTTAATTCAAAATTACAGTTTAATCTCGGTTGTTGTTATCCTTTGACTCATGGTTCAATCCCGAT
66 TTTAATTCAAAATCACAGTTTAATCTCGGTTGTTGTTATCCTTTGACTCATGGTTCAAT-CCGAT
* * *
22393820 CTTCTTATTTTCGGACTTGTGATTCAATCTAGGTTAACGTCATTTTCTAACTCGTGGTTTAATCT
130 CTTCTTATTTTCGGACTTGTGATTCAATCCAAGTTAACGTCATTTTCTAACTCGTGATTTAATCT
* * *
22393885 CGATTTCTTTATCCTTCGATTCGAGGTTCAATCCCGATCTCTTTAATTTAAAATCATAGTTTAAT
195 CGATCTCTTTATCCTCCGATTC-ATGTTCAATCCC-ATCTCTTTAATTTAAAATCATAGTTTAAT
*
22393950 CTCGATTGTTGTTATCCTCTGACTCGTGGTTTAATTTCGGTCTTCTTATTTTTGGACTTGTGATT
258 CTCGATTGTTGTTATCCTCTGACTCGTGGTTTAATTCCGGTCTTCTTATTTTTGGACTTGTGATT
22394015 CAATCCAAGTTAACGTC
323 CAATCCAAGTTAACGTC
* * * * *
22394032 ATTTTTTTACTTACGATTTAATTTCGATCTCTTTATCCTCTGATTCGTGGTTCAATCTCACTCTC
1 ATTTTTTGACTTGCGATTTAATCTCGATCTCTTTATCCTCCGATTCGTGGTTCAATCCCACTCTC
** *
22394097 TTTAATTCAAAATCGTAGTTTAATCTCGGCTGTTGTTATCCTTTGACTCATGGTTCAATCTCGAT
66 TTTAATTCAAAATCACAGTTTAATCTCGGTTGTTGTTATCCTTTGACTCATGGTTCAATC-CGAT
*
22394162 CTTCTTATTTTCGGACTTGTGATTCAATCCAAGTTAACGTCATTTTCTAACTTGTGATTTAATCT
130 CTTCTTATTTTCGGACTTGTGATTCAATCCAAGTTAACGTCATTTTCTAACTCGTGATTTAATCT
* * *
22394227 CGATCTCTTTATCCTCCAATTCATAGTTCAATCCCATTCTCTTTAATTCAAAATAATAGTTTAAT
195 CGATCTCTTTATCCTCCGATTCAT-GTTCAATCCCA-TCTCTTTAATTTAAAATCATAGTTTAAT
* * * * * * *
22394292 CTCGATTGTTGTTATCCTTTGACTCGTGATCTAATCCCGATCTCCTTATTTTCGGACTTGTGATT
258 CTCGATTGTTGTTATCCTCTGACTCGTGGTTTAATTCCGGTCTTCTTATTTTTGGACTTGTGATT
22394357 CAATCCAAGTTAACGTC
323 CAATCCAAGTTAACGTC
** * * * * *
22394374 ATTTTTCAACTCGCGATTTAATCCCGGTCTCTTTATCCTCCAATTCGTGATTCAATCCCACTCTC
1 ATTTTTTGACTTGCGATTTAATCTCGATCTCTTTATCCTCCGATTCGTGGTTCAATCCCACTCTC
* * *
22394439 TTTAATTCAAAATCACAGTTTAATCTTGATTGTTGTTATCCTTTGACTCGTGG-TCTAATCC-AG
66 TTTAATTCAAAATCACAGTTTAATCTCGGTTGTTGTTATCCTTTGACTCATGGTTC-AATCCGA-
* * * * *
22394502 TCTCCTTATTTTCGGACTTGTAATTCAATCCAAGTTAAAGTTATTTT-TCGACTCGTGATTTAAT
129 TCTTCTTATTTTCGGACTTGTGATTCAATCCAAGTTAACGTCATTTTCT-AACTCGTGATTTAAT
* * * * * * *
22394566 GCTAG-TCTCTTTATTCTCTGATTCGTGATTCAATCCTAATCGCTTTAATTTAAAATCACAGTTT
193 -CTCGATCTCTTTATCCTCCGATTCATG-TTCAATCC-CATCTCTTTAATTTAAAATCATAGTTT
** * ** * *
22394630 AATCTCGATTGTCATTAACCTCTGAC-AATGGTTT-ATTCCCAGTCGTT-TTATTTTCT-AACTT
255 AATCTCGATTGTTGTTATCCTCTGACTCGTGGTTTAATT-CCGGTC-TTCTTATTTT-TGGACTT
*
22394691 GTGATTCAATCCAAGTTAACATC
317 GTGATTCAATCCAAGTTAACGTC
* * *
22394714 ATTTTTTGA-TTCGCGGTTTAATCTCGATCTCTTTATTCTCCAATTC
1 ATTTTTTGACTT-GCGATTTAATCTCGATCTCTTTATCCTCCGATTC
22394760 ACGATTTAAT
Statistics
Matches: 628, Mismatches: 87, Indels: 28
0.85 0.12 0.04
Matches are distributed among these distances:
339 3 0.00
340 81 0.13
341 131 0.21
342 413 0.66
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (339 bp):
ATTTTTTGACTTGCGATTTAATCTCGATCTCTTTATCCTCCGATTCGTGGTTCAATCCCACTCTC
TTTAATTCAAAATCACAGTTTAATCTCGGTTGTTGTTATCCTTTGACTCATGGTTCAATCCGATC
TTCTTATTTTCGGACTTGTGATTCAATCCAAGTTAACGTCATTTTCTAACTCGTGATTTAATCTC
GATCTCTTTATCCTCCGATTCATGTTCAATCCCATCTCTTTAATTTAAAATCATAGTTTAATCTC
GATTGTTGTTATCCTCTGACTCGTGGTTTAATTCCGGTCTTCTTATTTTTGGACTTGTGATTCAA
TCCAAGTTAACGTC
Found at i:22394802 original size:34 final size:33
Alignment explanation
Indices: 22394720--22394804 Score: 116
Period size: 34 Copynumber: 2.5 Consensus size: 33
22394710 CATCATTTTT
22394720 TGATTCGCGGTTTAATCTCGATCTCTTTATTCTC
1 TGATTCGC-GTTTAATCTCGATCTCTTTATTCTC
** *
22394754 CAATTCACGATTTAATCTCGATCTCTTTATTCTC
1 TGATTCGCG-TTTAATCTCGATCTCTTTATTCTC
22394788 TGATTCGCAGTTTAATC
1 TGATTCGC-GTTTAATC
22394805 CTAATCCTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
33 1 0.02
34 41 0.95
35 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.45
Consensus pattern (33 bp):
TGATTCGCGTTTAATCTCGATCTCTTTATTCTC
Found at i:22395060 original size:36 final size:36
Alignment explanation
Indices: 22395014--22395105 Score: 121
Period size: 36 Copynumber: 2.6 Consensus size: 36
22395004 TAGTTTCTCA
*
22395014 ACTTGTGGTTTAATCCCAATCATTTTTATTTTTTTG
1 ACTTGCGGTTTAATCCCAATCATTTTTATTTTTTTG
* *
22395050 ACTTGCGGTTTAATCCTAGTCATTTTTATTTTTTTG
1 ACTTGCGGTTTAATCCCAATCATTTTTATTTTTTTG
* ** *
22395086 AATTGCAATTCAATCCCAAT
1 ACTTGCGGTTTAATCCCAAT
22395106 TGTCTTTAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (36 bp):
ACTTGCGGTTTAATCCCAATCATTTTTATTTTTTTG
Found at i:22396823 original size:16 final size:16
Alignment explanation
Indices: 22396802--22396898 Score: 88
Period size: 17 Copynumber: 5.9 Consensus size: 16
22396792 TTTTTAAAAT
* *
22396802 CCTAAAATTCGAAACC
1 CCTAAAATCCAAAACC
*
22396818 CCTAAAGATCCAAAATC
1 CCTAAA-ATCCAAAACC
* * *
22396835 CTTTAAAT-CTAAACC
1 CCTAAAATCCAAAACC
*
22396850 CCTAAAATCCGAAACC
1 CCTAAAATCCAAAACC
22396866 CTCATAAAATCCAAAACC
1 C-C-TAAAATCCAAAACC
22396884 CCATAAAATCCAAAA
1 CC-TAAAATCCAAAA
22396899 TCTCAAACCT
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
15 11 0.17
16 15 0.23
17 26 0.39
18 14 0.21
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.19
Consensus pattern (16 bp):
CCTAAAATCCAAAACC
Found at i:22396835 original size:32 final size:31
Alignment explanation
Indices: 22396797--22396900 Score: 93
Period size: 32 Copynumber: 3.2 Consensus size: 31
22396787 CTTAATTTTT
*
22396797 AAAATCCTAAAATTCGAAACCCCTAAAGATCC
1 AAAATCCTAAAATTCAAAACCCCTAAA-ATCC
* *
22396829 AAAATCCTTTAAA-TCTAAACCCCTAAAATCC
1 AAAATCC-TAAAATTCAAAACCCCTAAAATCC
* * *
22396860 GAAACCCTCATAAAATCCAAAACCCCATAAAATCC
1 -AAA--ATCCTAAAATTCAAAACCCC-TAAAATCC
22396895 AAAATC
1 AAAATC
22396901 TCAAACCTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
31 4 0.07
32 25 0.43
33 8 0.14
34 13 0.22
35 8 0.14
ACGTcount: A:0.48, C:0.30, G:0.03, T:0.19
Consensus pattern (31 bp):
AAAATCCTAAAATTCAAAACCCCTAAAATCC
Found at i:22408111 original size:22 final size:22
Alignment explanation
Indices: 22408086--22408129 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
22408076 TTTTCTGTCT
* *
22408086 TTAATTCTAGGGATACTAATAC
1 TTAATTCTAGGAATACGAATAC
22408108 TTAATTCTAGGAATACGAATAC
1 TTAATTCTAGGAATACGAATAC
22408130 AAATATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (22 bp):
TTAATTCTAGGAATACGAATAC
Found at i:22409335 original size:2 final size:2
Alignment explanation
Indices: 22409328--22409353 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22409318 TGGAACCTTC
22409328 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22409354 TTCTTCTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22411641 original size:22 final size:22
Alignment explanation
Indices: 22411613--22411656 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22411603 CTAAATCTTC
*
22411613 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22411635 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22411657 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:22415350 original size:23 final size:23
Alignment explanation
Indices: 22415295--22415378 Score: 125
Period size: 22 Copynumber: 3.6 Consensus size: 23
22415285 TTGAAAGGGT
* *
22415295 TCGGCAATGAAGGCCTAAACAGGAT
1 TCGGCAATGAAGGCCTAAA-A-AAG
22415320 TCGGCAATGAAGGCCTAAAAAAG
1 TCGGCAATGAAGGCCTAAAAAAG
22415343 TCGGCAATGAAGGCCT-AAAAAG
1 TCGGCAATGAAGGCCTAAAAAAG
22415365 TCGGCAATGAAGGC
1 TCGGCAATGAAGGC
22415379 TGAAAATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
22 20 0.35
23 17 0.30
24 1 0.02
25 19 0.33
ACGTcount: A:0.38, C:0.19, G:0.29, T:0.14
Consensus pattern (23 bp):
TCGGCAATGAAGGCCTAAAAAAG
Found at i:22415556 original size:22 final size:22
Alignment explanation
Indices: 22415528--22415571 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22415518 TAAAATCTTT
*
22415528 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22415550 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22415572 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:22424830 original size:18 final size:18
Alignment explanation
Indices: 22424799--22424837 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
22424789 CTTTGCAAAC
22424799 AAAAAATCACAATATAATA
1 AAAAAATCACAATATAA-A
*
22424818 AAAAAATTA-AATATAAA
1 AAAAAATCACAATATAAA
22424835 AAA
1 AAA
22424838 GTAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 7 0.37
19 8 0.42
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAAATCACAATATAAA
Found at i:22424848 original size:13 final size:13
Alignment explanation
Indices: 22424814--22424848 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
22424804 ATCACAATAT
*
22424814 AATAAAAAAATTA
1 AATAAAAAAAGTA
22424827 AATATAAAAAAGTA
1 AATA-AAAAAAGTA
22424841 AATAAAAA
1 AATAAAAA
22424849 TAAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (13 bp):
AATAAAAAAAGTA
Found at i:22426050 original size:22 final size:22
Alignment explanation
Indices: 22426007--22426050 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
22425997 TTAGTAAATT
*
22426007 AATTATTTTTATTTTAATTTAA
1 AATTATTTTTATTTTAACTTAA
22426029 AATT-TTTTTATTTTAAGCTTAA
1 AATTATTTTTATTTTAA-CTTAA
22426051 TATGATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
AATTATTTTTATTTTAACTTAA
Found at i:22426589 original size:2 final size:2
Alignment explanation
Indices: 22426582--22426637 Score: 67
Period size: 2 Copynumber: 28.0 Consensus size: 2
22426572 CCTTTCTAAT
* * * * *
22426582 TA TA TA TA TA AA TA TA TG TG TG TG TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22426624 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
22426638 ACGTTATGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (2 bp):
TA
Found at i:22427039 original size:18 final size:17
Alignment explanation
Indices: 22427018--22427051 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22427008 AATTTTAAAT
22427018 TTTGAGAAAAATATGATC
1 TTTGA-AAAAATATGATC
*
22427036 TTTGAAAAAGTATGAT
1 TTTGAAAAAATATGAT
22427052 TTCGAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (17 bp):
TTTGAAAAAATATGATC
Found at i:22427384 original size:63 final size:62
Alignment explanation
Indices: 22427315--22427650 Score: 231
Period size: 63 Copynumber: 5.5 Consensus size: 62
22427305 ATACACTTGT
* *
22427315 TTTAAAAAAATTATAATAAATAATTATTGCGTTTAGCTTTTAAAAAATATAGTAATTGATTAA
1 TTTAAAAAAATTATAATAAATAATTATTGCGTTTA-CTTTTAAAAAATATAATAATTAATTAA
* * * **
22427378 TTTAAAAAAATTATAATATACAATTATTGTGTTTA-TCCTAAAAAA-ATAATAATTAATT-A
1 TTTAAAAAAATTATAATAAATAATTATTGCGTTTACTTTTAAAAAATATAATAATTAATTAA
* * * * * *
22427437 TTTTAAAAAA--ATAATAAATAAGTATTGCATTTACTTTCAAAGAAATTTAATAATTAATTAT
1 TTTAAAAAAATTATAATAAATAATTATTGCGTTTACTTTTAAA-AAATATAATAATTAATTAA
** * ** * * * * *
22427498 TTTATTAAAATTATAATATATAATTACAGCATTTA-TGACTAAACAAAATACAATAATTGATT-A
1 TTTAAAAAAATTATAATAAATAATTATTGCGTTTACT--TTTAA-AAAATATAATAATTAATTAA
* * ** ** * * * *
22427561 TTT-TAAAAATTATAATGAATAATTGCTATGTTTATTTTTTAAAAGATGA-AATATTTAATTAT
1 TTTAAAAAAATTATAATAAATAATTATTGCGTTTA-CTTTTAAAAAAT-ATAATAATTAATTAA
* *
22427623 TTTAAATAAATTATAATAATTAATTATT
1 TTTAAAAAAATTATAATAAATAATTATT
22427651 ACATTTATTA
Statistics
Matches: 208, Mismatches: 51, Indels: 28
0.72 0.18 0.10
Matches are distributed among these distances:
57 18 0.09
58 4 0.02
59 13 0.06
60 23 0.11
61 28 0.13
62 31 0.15
63 72 0.35
64 18 0.09
65 1 0.00
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (62 bp):
TTTAAAAAAATTATAATAAATAATTATTGCGTTTACTTTTAAAAAATATAATAATTAATTAA
Found at i:22427443 original size:24 final size:24
Alignment explanation
Indices: 22427416--22427462 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
22427406 GTGTTTATCC
* *
22427416 TAAAAAAATAATAATTAATTATTT
1 TAAAAAAATAATAAATAAGTATTT
22427440 TAAAAAAATAATAAATAAGTATT
1 TAAAAAAATAATAAATAAGTATT
22427463 GCATTTACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAAAAAATAATAAATAAGTATTT
Found at i:22427508 original size:120 final size:123
Alignment explanation
Indices: 22427327--22427569 Score: 296
Period size: 120 Copynumber: 2.0 Consensus size: 123
22427317 TAAAAAAATT
* * * * *
22427327 ATAATAAATAATTATTGCGTTTAGCTTTTAAAAAATATAGTAATTGATTAATTTAAAAAAATTAT
1 ATAATAAATAAGTATTGCATTTAGCTTTCAAAAAATATAATAATTAATTAATTTAAAAAAATTAT
** ** *
22427392 AATATACAATTATTGTGTTTAT-CCTAAA-AAAAT-AATAATTAATTATTTTAAAAAA
66 AATATACAATTACAGCATTTATGACTAAACAAAATAAATAATTAATTATTTTAAAAAA
* * **
22427447 ATAATAAATAAGTATTGCATTTA-CTTTCAAAGAAATTTAATAATTAATTATTTTATTAAAATTA
1 ATAATAAATAAGTATTGCATTTAGCTTTCAAA-AAATATAATAATTAATTAATTTAAAAAAATTA
* *
22427511 TAATATATAATTACAGCATTTATGACTAAACAAAATACAATAATTGATTATTTTAAAAA
65 TAATATACAATTACAGCATTTATGACTAAACAAAATA-AATAATTAATTATTTTAAAAA
22427570 TTATAATGAA
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
119 7 0.07
120 65 0.64
121 5 0.05
122 5 0.05
124 20 0.20
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (123 bp):
ATAATAAATAAGTATTGCATTTAGCTTTCAAAAAATATAATAATTAATTAATTTAAAAAAATTAT
AATATACAATTACAGCATTTATGACTAAACAAAATAAATAATTAATTATTTTAAAAAA
Found at i:22431559 original size:13 final size:13
Alignment explanation
Indices: 22431541--22431567 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22431531 AATATTTAAA
22431541 AAAAAAAAAGAAG
1 AAAAAAAAAGAAG
22431554 AAAAAAAAAGAAG
1 AAAAAAAAAGAAG
22431567 A
1 A
22431568 TAAGATCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAG
Found at i:22432758 original size:13 final size:13
Alignment explanation
Indices: 22432740--22432785 Score: 51
Period size: 11 Copynumber: 3.6 Consensus size: 13
22432730 CGACTCAATT
22432740 ATTTTTTTTCTTC
1 ATTTTTTTTCTTC
*
22432753 A--TTTTTTCTTT
1 ATTTTTTTTCTTC
22432764 AGTTTTTTTTCTTC
1 A-TTTTTTTTCTTC
*
22432778 CTTTTTTT
1 ATTTTTTT
22432786 CACTTTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
11 10 0.37
13 8 0.30
14 9 0.33
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (13 bp):
ATTTTTTTTCTTC
Found at i:22434704 original size:34 final size:34
Alignment explanation
Indices: 22434666--22434730 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
22434656 TTATATATAG
* *
22434666 AAAATGTCACTATTTTAGTGACGTTTGTATCTTT
1 AAAATGTCACTAATTTAGTGACATTTGTATCTTT
**
22434700 AAAATGTCGTTAATTTAGTGACATTTGTATC
1 AAAATGTCACTAATTTAGTGACATTTGTATC
22434731 AGAAAAACAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (34 bp):
AAAATGTCACTAATTTAGTGACATTTGTATCTTT
Found at i:22440410 original size:83 final size:83
Alignment explanation
Indices: 22440299--22440464 Score: 305
Period size: 83 Copynumber: 2.0 Consensus size: 83
22440289 TTTTTTGATG
* *
22440299 CATCATAGGTCTTAACTGCTTCCTATAATTGTTTTAACTCTATAATAAGAGGTTATAAGTAGATG
1 CATCATAGGTCTTAACTCCTTCCCATAATTGTTTTAACTCTATAATAAGAGGTTATAAGTAGATG
22440364 TCTATATCATTACCTAGA
66 TCTATATCATTACCTAGA
*
22440382 CATCATAGGTCTTAACTCCTTCCCATAATTGTTTTAACTTTATAATAAGAGGTTATAAGTAGATG
1 CATCATAGGTCTTAACTCCTTCCCATAATTGTTTTAACTCTATAATAAGAGGTTATAAGTAGATG
22440447 TCTATATCATTACCTAGA
66 TCTATATCATTACCTAGA
22440465 GGTTATAAGT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (83 bp):
CATCATAGGTCTTAACTCCTTCCCATAATTGTTTTAACTCTATAATAAGAGGTTATAAGTAGATG
TCTATATCATTACCTAGA
Found at i:22442747 original size:93 final size:93
Alignment explanation
Indices: 22442643--22442832 Score: 281
Period size: 93 Copynumber: 2.0 Consensus size: 93
22442633 TATAGGCATC
* * *
22442643 TTTAATATTCTCATAGTAAAATCTTAAGCGATTATTAAAGGCATTTTTACCCAAAAAATGCCTTC
1 TTTAATATTCTCATAATAAAATCTTAAGCGATTATTAAAGACATTTTTACCCAAAAAATACCTTC
* *
22442708 ACTAATTTTCTCTAATTTTTATGGTGTA
66 ACTAATTTTATCTAATTTTTATGATGTA
* * ** * *
22442736 TTTAATATTCTCGTAATAAAATTTTAAGCGATTATTAAAGATGTTTTTGCCCGAAAAATACCTTC
1 TTTAATATTCTCATAATAAAATCTTAAGCGATTATTAAAGACATTTTTACCCAAAAAATACCTTC
22442801 ACTAATTTTATCTAATTTTTATGATGTA
66 ACTAATTTTATCTAATTTTTATGATGTA
22442829 TTTA
1 TTTA
22442833 TTGAAGGTAT
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 86 1.00
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (93 bp):
TTTAATATTCTCATAATAAAATCTTAAGCGATTATTAAAGACATTTTTACCCAAAAAATACCTTC
ACTAATTTTATCTAATTTTTATGATGTA
Found at i:22443246 original size:239 final size:237
Alignment explanation
Indices: 22442858--22443776 Score: 980
Period size: 239 Copynumber: 3.8 Consensus size: 237
22442848 GCATAATACG
* *
22442858 CCTTCAATAATTTTATTTTAAAAATTATTT-GAGATTATTAAAGGCATCTTCTAGTAGAAAACAA
1 CCTTCAATAATTTTATTTTAAAAATTATTTAG-GATTATTAAAGGCATCTTCTAGTAAAAAACAC
* * * * * *
22442922 CTTTAATATTTCACTACTAAAATTTTTAGACGGTTATTGAAGGCTTTTTTTCTAAAAAAATACCT
65 CTTTAATATTTCACTACAAAAATTTTTAGACGGTTATTGAAGGCATTTATTCCAAGAAAACACCT
* * *
22442987 TCACTAATTTGTTCTAATTTTTGAAAGAACTTATTGAAGGCGTTTTTTGCATTATACACCTTCAA
130 TCACTAATTCGTTTTAATTTTTGAAAGAATTTATTGAAGGCGTTTTTTGCATTATACACCTTCAA
* * *
22443052 TAATTTTTATCCAAAATTATTGATGACATTTTATGAGAAAAAATA
195 TAATTTTTGTACAAAATTATTAATG-CATTTTATGAG-AAAAATA
* * * **
22443097 CCTTCAATAGTATTTT-TTTT-AAAATTGTTTGGGATTATTAAAGGCATCTTATAGTAAAAAATG
1 CCTTCAATA--ATTTTATTTTAAAAATTATTTAGGATTATTAAAGGCATCTTCTAGTAAAAAACA
* * * * *
22443160 CCTTTGATATTCCACTAGAAAAATTTTTAGATGGTTATTGAATGCATTTATTCCAAGAAAACACC
64 CCTTTAATATTTCACTACAAAAATTTTTAGACGGTTATTGAAGGCATTTATTCCAAGAAAACACC
* * * * * *
22443225 TTCGCTAATTCGTTTTAATTTTTG-AAGTAATTTATTAAAGACGTTTTTTGCATAATACGCCTTT
129 TTCACTAATTCGTTTTAATTTTTGAAAG-AATTTATTGAAGGCGTTTTTTGCATTATACACCTTC
** * * * * *
22443289 AATGGTTTTTGTAGAGAATTAGTAAATGCATTTCT-TGATGCAAAACA
193 AATAATTTTTGTACAAAATTA-TTAATGCATTT-TATGA-GAAAAATA
* **** * *
22443336 CCTTCAATAATTTTATTTTAAAAATTATTTAGGATTATCAAATATGTCTTTTAGTAGAAAACACC
1 CCTTCAATAATTTTATTTTAAAAATTATTTAGGATTATTAAAGGCATCTTCTAGTAAAAAACACC
* * * * * *
22443401 TTCAATATTTTCACTACTAAAATTGTGT-GAACGATTATTGAAGGCGTTTATT-CTAGAAAA-AT
66 TTTAATA-TTTCACTACAAAAATT-TTTAG-ACGGTTATTGAAGGCATTTATTCCAAGAAAACA-
* * *
22443463 GCTTTCACTAATTCGTTTTAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCT
127 -CCTTCACTAATTCGTTTTAATTTTTGAAAGAATTTATTGAAGGCGTTTTTTGCATTATACACCT
*
22443528 TCAATAATTTTTGTTCAAAATTATTAATGGCATTTTATGAGAAAAATA
191 TCAATAATTTTTGTACAAAATTATTAAT-GCATTTTATGAGAAAAATA
* * * * *
22443576 CCTTCAATAAATTTT-TTTTATAAATTATTTAGGATTATTAAAAGCGTCTTCTAATAAAAAATAC
1 CCTTCAAT-AATTTTATTTTAAAAATTATTTAGGATTATTAAAGGCATCTTCTAGTAAAAAACAC
* * *
22443640 CTTTAATATTTCAC-AAATAAAATTTTTAGATGGTTATTGAAGGCATTTATTCCAGGAAAAC-CC
65 CTTTAATATTTCACTACA-AAAATTTTTAGACGGTTATTGAAGGCATTTATTCCAAGAAAACACC
* * * * *
22443703 ATTCATTAATTTGTTTTAATTTTT-AAACTAATTTATTGAATGTGTTTTTTGCATTATACACCTT
129 -TTCACTAATTCGTTTTAATTTTTGAAA-GAATTTATTGAAGGCGTTTTTTGCATTATACACCTT
22443767 CAATAATTTT
192 CAATAATTTT
22443777 ATTTTAAAAA
Statistics
Matches: 557, Mismatches: 99, Indels: 49
0.79 0.14 0.07
Matches are distributed among these distances:
237 9 0.02
238 91 0.16
239 245 0.44
240 98 0.18
241 111 0.20
242 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (237 bp):
CCTTCAATAATTTTATTTTAAAAATTATTTAGGATTATTAAAGGCATCTTCTAGTAAAAAACACC
TTTAATATTTCACTACAAAAATTTTTAGACGGTTATTGAAGGCATTTATTCCAAGAAAACACCTT
CACTAATTCGTTTTAATTTTTGAAAGAATTTATTGAAGGCGTTTTTTGCATTATACACCTTCAAT
AATTTTTGTACAAAATTATTAATGCATTTTATGAGAAAAATA
Found at i:22443754 original size:479 final size:478
Alignment explanation
Indices: 22442858--22443766 Score: 1283
Period size: 479 Copynumber: 1.9 Consensus size: 478
22442848 GCATAATACG
* *
22442858 CCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATTAAAGGCATCTTCTAGTAGAAAACAAC
1 CCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATCAAAGACATCTTCTAGTAGAAAACAAC
* * * * *
22442923 TTTAATATTTCACTACTAAAATTTTTAGACGGTTATTGAAGGCTTTTTTTCTAAAAAAATACCTT
66 TTCAATATTTCACTACTAAAATTTTGAGACGATTATTGAAGGCGTTTATTCTAAAAAAATACCTT
* *
22442988 CACTAATTTGTTCTAATTTTTGAAAGAACTTATTGAAGGCGTTTTTTGCATTATACACCTTCAAT
131 CACTAATTCGTTCTAATTTTTGAAAGAACTTATTGAAGGCATTTTTTGCATTATACACCTTCAAT
* *
22443053 AATTTTTATCCAAAATTATTGATGACATTTTATGAGAAAAAATACCTTCAATAGTATTTTTTTTA
196 AATTTTTATCCAAAATTATTAATGACATTTTATGAGAAAAAATACCTTCAATAGAATTTTTTTTA
* * * * * * *
22443118 AAATTGTTTGGGATTATTAAAGGCATCTTATAGTAAAAAATGCCTTTGATATTCCACTAGAAAAA
261 AAATTATTTAGGATTATTAAAAGCATCTTATAATAAAAAATACCTTTAATATTCCACTAAAAAAA
* *
22443183 TTTTTAGATGGTTATTGAATGCATTTATTCCAAGAAAACACCTTCGCTAATTCGTTTTAATTTTT
326 TTTTTAGATGGTTATTGAAGGCATTTATTCCAAGAAAACACCTTCACTAATTCGTTTTAATTTTT
* * *
22443248 GAAGTAATTTATTAAAGACGTTTTTTGCATAATACGCCTTTAATGGTTTTTGTAGAGAATTAGTA
391 AAACTAATTTATTAAAGACGTTTTTTGCATAATACACCTTTAATGGTTTTTGTAGAGAATTAGTA
22443313 AATGCATTTCTTGATGCAAAACA
456 AATGCATTTCTTGATGCAAAACA
* ** * *
22443336 CCTTCAATAATTTTATTTTAAAAATTATTT-AGGATTATCAAATATGTCTTTTAGTAGAAAACAC
1 CCTTCAATAATTTTATTTTAAAAATTATTTGA-GATTATCAAAGACATCTTCTAGTAGAAAACAA
* *
22443400 CTTCAATATTTTCACTACTAAAATTGTGTGA-ACGATTATTGAAGGCGTTTATTCTAGAAAAATG
65 CTTCAATA-TTTCACTACTAAAATT-T-TGAGACGATTATTGAAGGCGTTTATTCTAAAAAAATA
* * * *
22443464 CTTTCACTAATTCGTTTTAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTT
127 CCTTCACTAATTCGTTCTAATTTTTGAAAGAACTTATTGAAGGCATTTTTTGCATTATACACCTT
* * *
22443529 CAATAATTTTTGTTCAAAATTATTAATGGCATTTTATGAG-AAAAATACCTTCAATA-AATTTTT
192 CAATAATTTTTATCCAAAATTATTAATGACATTTTATGAGAAAAAATACCTTCAATAGAATTTTT
* * *
22443592 TTTATAAATTATTTAGGATTATTAAAAGCGTCTTCTAATAAAAAATACCTTTAATATTTCAC-AA
257 TTTA-AAATTATTTAGGATTATTAAAAGCATCTTATAATAAAAAATACCTTTAATATTCCACTAA
* * *
22443656 ATAAAATTTTTAGATGGTTATTGAAGGCATTTATTCCAGGAAAAC-CCATTCATTAATTTGTTTT
321 A-AAAATTTTTAGATGGTTATTGAAGGCATTTATTCCAAGAAAACACC-TTCACTAATTCGTTTT
* * *
22443720 AATTTTTAAACTAATTTATTGAATG-TGTTTTTTGCATTATACACCTT
384 AATTTTTAAACTAATTTATT-AAAGACGTTTTTTGCATAATACACCTT
22443767 CAATAATTTT
Statistics
Matches: 377, Mismatches: 46, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
477 1 0.00
478 76 0.20
479 171 0.45
480 127 0.34
481 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (478 bp):
CCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATCAAAGACATCTTCTAGTAGAAAACAAC
TTCAATATTTCACTACTAAAATTTTGAGACGATTATTGAAGGCGTTTATTCTAAAAAAATACCTT
CACTAATTCGTTCTAATTTTTGAAAGAACTTATTGAAGGCATTTTTTGCATTATACACCTTCAAT
AATTTTTATCCAAAATTATTAATGACATTTTATGAGAAAAAATACCTTCAATAGAATTTTTTTTA
AAATTATTTAGGATTATTAAAAGCATCTTATAATAAAAAATACCTTTAATATTCCACTAAAAAAA
TTTTTAGATGGTTATTGAAGGCATTTATTCCAAGAAAACACCTTCACTAATTCGTTTTAATTTTT
AAACTAATTTATTAAAGACGTTTTTTGCATAATACACCTTTAATGGTTTTTGTAGAGAATTAGTA
AATGCATTTCTTGATGCAAAACA
Found at i:22443850 original size:187 final size:187
Alignment explanation
Indices: 22443575--22443965 Score: 495
Period size: 188 Copynumber: 2.1 Consensus size: 187
22443565 TGAGAAAAAT
* * *
22443575 ACCTTCAATAAATTTTTTTTATAAATTATTTAGGATTATTAAAAGCGTCTTCTAATAAAAAATAC
1 ACCTTCAAT-AATTTTTTTTAAAAATTATTTAAGATTATTAAAAGCATCTTCTAATAAAAAATAC
* * * * *
22443640 CTTTAATATTTCACAAATAAAATTTT-TAGATGGTTATTGAAGGCATTTATTCCAGGAAAA-CCC
65 CTTCAATATTTCACAAATAAAATTTTGTAAATGGTTATTGAAGACATTTATTCCAGAAAAATACC
* * * *
22443703 ATTCATTAATTTGTTTTAATTTTT-AAACTAATTTATTG-AATGTGTTTTTTGCATTATAC
130 -TTCACTAATTCGTTTTAATTTTTGAAA-GAAGTTATTGAAAT-TGTTTTTTGCATTATAC
* * * *
22443762 ACCTTCAATAATTTTATTTTAAAAATTGTTTAAGATTATT-AAAGCCATCTTCTAGTAGAAAATG
1 ACCTTCAATAATTTT-TTTTAAAAATTATTTAAGATTATTAAAAG-CATCTTCTAATAAAAAATA
* * ** *
22443826 CCTTCAATATTTCACTACTAAAATTTTGTAAATGGTTATTGAAGATGTTTATTCTAGAAAAATAC
64 CCTTCAATATTTCACAAATAAAATTTTGTAAATGGTTATTGAAGACATTTATTCCAGAAAAATAC
22443891 CTTCACTAATTCGTTTTAATTTTTGAAAGAAGTTATTGAAATTGTTTTTTGCATTATAC
129 CTTCACTAATTCGTTTTAATTTTTGAAAGAAGTTATTGAAATTGTTTTTTGCATTATAC
*
22443950 ACCTTTAATAATTTTT
1 ACCTTCAATAATTTTT
22443966 GTCCAGAATT
Statistics
Matches: 176, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
186 10 0.06
187 70 0.40
188 88 0.50
189 8 0.05
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.44
Consensus pattern (187 bp):
ACCTTCAATAATTTTTTTTAAAAATTATTTAAGATTATTAAAAGCATCTTCTAATAAAAAATACC
TTCAATATTTCACAAATAAAATTTTGTAAATGGTTATTGAAGACATTTATTCCAGAAAAATACCT
TCACTAATTCGTTTTAATTTTTGAAAGAAGTTATTGAAATTGTTTTTTGCATTATAC
Found at i:22444717 original size:239 final size:238
Alignment explanation
Indices: 22443762--22444883 Score: 1232
Period size: 239 Copynumber: 4.7 Consensus size: 238
22443752 TGCATTATAC
* * * * * *
22443762 ACCTTCAATAATTTTATTTTAAAAATTGTTTAAGATTATTAAAGCCATCTTCTAGTAGAAAATGC
1 ACCTTCAATAATTTTCTTTTAAAAATTGTTTGAGATTATTAAAGACGTATTCTAGTAGAAAACGC
* * * * *
22443827 CTTCAATATTTCACTACTAAAATTTTGTAAATGGTTATTGAAGATGTTTATTCTAGAAAAATACC
66 CTTCAATATTCCACTACTAAAATTTTGTAGATGGTTATTGAAGGTGTTTATTCCAG-AAAATGCC
* **** * *
22443892 TTCACTAATTCGTTTTAATTTTTGAAAGAAGTTATTGAAATTGTTTTTTGCATTATACACCTTTA
130 TTCACTAATTCGTTTTAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTCA
* * *
22443957 ATAATTTTTGTCCAGAATTATT-ATTGGCATTTTATGAGAAAAAAT
195 ATAA-TTTTCTACAGAATTATTGA-AGGCATTTTATGAGAAAAAAT
* * * *
22444002 ACCTTTAATAATTTTCTTTTATAAATTGTTTGAG---ATTAAAGGCATATTCTAGTAGAAAACGC
1 ACCTTCAATAATTTTCTTTTAAAAATTGTTTGAGATTATTAAAGACGTATTCTAGTAGAAAACGC
* ** * * * *
22444064 CTTCGATATTCTGCTAGTAAAATTTT-TAGATGGTTATTGAAGGCGTTTATTCTAGAAAAATACC
66 CTTCAATATTCCACTACTAAAATTTTGTAGATGGTTATTGAAGGTGTTTATTCCAG-AAAATGCC
* * *
22444128 TTCACTAATTCGTTATAATTTTTG-AAGTAATTTATTAAAGGCA-TTTTTGCATTATACGTCTTC
130 TTCACTAATTCGTTTTAATTTTTGAAAG-AATTTATTGAAGGCATTTTTTGCATTATACGCCTTC
* * * * *
22444191 AATAATTTTTGTAGAGAATTATTGAAGGTATTTTTTGATG-CAAAAT
194 AATAA-TTTTCTACAGAATTATTGAAGGCATTTTATGA-GAAAAAAT
* * *
22444237 ACCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATTAAAGACGTTTTCTAGTA-AAAATCG
1 ACCTTCAATAATTTTCTTTTAAAAATTGTTTGAGATTATTAAAGACGTATTCTAGTAGAAAA-CG
** *
22444301 CCTTCAATATTCCACTACTTTAATTTTGT-GAATGGTTATTGAAGGTGTTTATTCCAAAAAGATG
65 CCTTCAATATTCCACTACTAAAATTTTGTAG-ATGGTTATTGAAGGTGTTTATTCCAGAAA-ATG
* * *
22444365 CCTTCACTAATTCATTTTTATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATATGCCTT
128 CCTTCACTAATTCGTTTTAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTT
* * *
22444430 CAATTATTTTCGTTCAGAATTATTGATGGCATTTTATGAGAAAAAAT
193 CAATAATTTTC-TACAGAATTATTGAAGGCATTTTATGAGAAAAAAT
* * *
22444477 ACCTTCAATAATTTTCTTTTATAAATTGTTTGGGATTATTAAAGACGTCTTCTAGTAGAAAAACG
1 ACCTTCAATAATTTTCTTTTAAAAATTGTTTGAGATTATTAAAGACGTATTCTAGTAG-AAAACG
* * * * * * *
22444542 CCTTCGATATTCCATTAGTAAAATTTT-TAGATGGTTATTGATGATGTTTATTCCAGGAAACGCC
65 CCTTCAATATTCCACTACTAAAATTTTGTAGATGGTTATTGAAGGTGTTTATTCCAGAAAATGCC
* * * *
22444606 TTCACTAATTCGTTCTAATTTTTGAAATAATTTATTGAAGGTATTTTTTGCATTATATGCCTTCA
130 TTCACTAATTCGTTTTAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTCA
* * *
22444671 ATAATTCTCTACAAGAATTATTGAAGGCATTCCT-TGATG-CAAAAT
195 ATAATTTTCTAC-AGAATTATTGAAGGCATT-TTATGA-GAAAAAAT
*
22444716 ACCTTCAATAA-TTTCATTTTAAAAATTTTTTGAGATTATTAAA-AGCGTATTCTAGTAGAAAAC
1 ACCTTCAATAATTTTC-TTTTAAAAATTGTTTGAGATTATTAAAGA-CGTATTCTAGTAGAAAAC
*** * * * * * *
22444779 ATATTCAATATTTCACTACTATAATTTTATAAACGGTTATTGAAGGCGTTTATTCCA-AAAATTG
64 GCCTTCAATATTCCACTACTAAAATTTTGTAGATGGTTATTGAAGGTGTTTATTCCAGAAAA-TG
* * *
22444843 CATTCAGTAATTCGTTTTAATTTTTGAAGGAATTTATTGAA
128 CCTTCACTAATTCGTTTTAATTTTTGAAAGAATTTATTGAA
22444884 TGCGNNNNNN
Statistics
Matches: 746, Mismatches: 112, Indels: 49
0.82 0.12 0.05
Matches are distributed among these distances:
235 86 0.12
236 69 0.09
237 50 0.07
238 79 0.11
239 271 0.36
240 162 0.22
241 25 0.03
242 4 0.01
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (238 bp):
ACCTTCAATAATTTTCTTTTAAAAATTGTTTGAGATTATTAAAGACGTATTCTAGTAGAAAACGC
CTTCAATATTCCACTACTAAAATTTTGTAGATGGTTATTGAAGGTGTTTATTCCAGAAAATGCCT
TCACTAATTCGTTTTAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTCAA
TAATTTTCTACAGAATTATTGAAGGCATTTTATGAGAAAAAAT
Found at i:22444788 original size:479 final size:474
Alignment explanation
Indices: 22443762--22444883 Score: 1516
Period size: 475 Copynumber: 2.4 Consensus size: 474
22443752 TGCATTATAC
* * * * * *
22443762 ACCTTCAATAATTTTATTTTAAAAATTGTTTAAGATTATTAAAGCCATCTTCTAGTAGAAAATGC
1 ACCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATTAAAGACGTATTCTAGTAGAAAACGC
* * * *
22443827 CTTCAATATTTCACTACTAAAATTTTGTAAATGGTTATTGAAGATGTTTATTCTAGAAAAATACC
66 CTTCAATATTTCACTACTATAATTTTGTAAATGGTTATTGAAGGTGTTTATTCCA-AAAAATGCC
* *** *
22443892 TTCACTAATTCGTTTTAATTTTTGAAAGAAGTTATTGAAATTGTTTTTTGCATTATACACCTTTA
130 TTCACTAATTCGTTTTAATTTTTGAAAGAATTTATTGAAAGCATTTTTTGCATTATACACCTTCA
* *
22443957 ATAATTTTTGTCCAGAATTATTATTGGCATTTTATGAGAAAAAATACCTTTAATAATTTTCTTTT
195 ATAATTTTCGTCCAGAATTATTATTGGCATTTTATGAGAAAAAATACCTTCAATAATTTTCTTTT
* **
22444022 ATAAATTGTTTGAGATTAAAGGCATATTCTAGTAGAAAACGCCTTCGATATTCTGCTAGTAAAAT
260 ATAAATTGTTTGAGATTAAAGACATATTCTAGTAGAAAACGCCTTCGATATTCCACTAGTAAAAT
* * *
22444087 TTTTAGATGGTTATTGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTCGTTATAATTTTTG
325 TTTTAGATGGTTATTGAAGACGTTTATTCCAGAAAAACACCTTCACTAATTCGTTATAATTTTTG
* * * * *
22444152 AAGTAATTTATTAAAGGCATTTTTGCATTATACGTCTTCAATAATTTTTGTAGAGAATTATTGAA
390 AAATAATTTATTAAAGGCATTTTTGCATTATACGCCTTCAATAATTTCTCTAAAGAATTATTGAA
* **
22444217 GGTATTTTTTGATGCAAAAT
455 GGCATTCCTTGATGCAAAAT
*
22444237 ACCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATTAAAGACGTTTTCTAGTA-AAAATCG
1 ACCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATTAAAGACGTATTCTAGTAGAAAA-CG
* * *
22444301 CCTTCAATATTCCACTACTTTAATTTTGTGAATGGTTATTGAAGGTGTTTATTCCAAAAAGATGC
65 CCTTCAATATTTCACTACTATAATTTTGTAAATGGTTATTGAAGGTGTTTATTCCAAAAA-ATGC
* * * **
22444366 CTTCACTAATTCATTTTTATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATATGCCTTC
129 CTTCACTAATTCGTTTTAATTTTTGAAAGAATTTATTGAAAGCATTTTTTGCATTATACACCTTC
* *
22444431 AATTATTTTCGTTCAGAATTATTGA-TGGCATTTTATGAGAAAAAATACCTTCAATAATTTTCTT
194 AATAATTTTCGTCCAGAATTATT-ATTGGCATTTTATGAGAAAAAATACCTTCAATAATTTTCTT
* * * *
22444495 TTATAAATTGTTTGGGATTATTAAAGACGTCTTCTAGTAGAAAAACGCCTTCGATATTCCATTAG
258 TTATAAATTGTTT--GA-GATTAAAGACATATTCTAGTAG-AAAACGCCTTCGATATTCCACTAG
* * * * *
22444560 TAAAATTTTTAGATGGTTATTGATGATGTTTATTCCAG-GAAACGCCTTCACTAATTCGTTCTAA
319 TAAAATTTTTAGATGGTTATTGAAGACGTTTATTCCAGAAAAACACCTTCACTAATTCGTTATAA
* * *
22444624 TTTTTGAAATAATTTATTGAAGGTATTTTTTGCATTATATGCCTTCAATAA-TTCTCTACAAGAA
384 TTTTTGAAATAATTTATTAAAGGCA-TTTTTGCATTATACGCCTTCAATAATTTCTCTA-AAGAA
22444688 TTATTGAAGGCATTCCTTGATGCAAAAT
447 TTATTGAAGGCATTCCTTGATGCAAAAT
* * *
22444716 ACCTTCAATAATTTCATTTTAAAAATTTTTTGAGATTATTAAA-AGCGTATTCTAGTAGAAAACA
1 ACCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATTAAAGA-CGTATTCTAGTAGAAAACG
** * * * * *
22444780 TATTCAATATTTCACTACTATAATTTTATAAACGGTTATTGAAGGCGTTTATTCCAAAAATTGCA
65 CCTTCAATATTTCACTACTATAATTTTGTAAATGGTTATTGAAGGTGTTTATTCCAAAAAATGCC
* *
22444845 TTCAGTAATTCGTTTTAATTTTTGAAGGAATTTATTGAA
130 TTCACTAATTCGTTTTAATTTTTGAAAGAATTTATTGAA
22444884 TGCGNNNNNN
Statistics
Matches: 565, Mismatches: 71, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
474 8 0.01
475 232 0.41
476 1 0.00
477 2 0.00
478 106 0.19
479 212 0.38
480 4 0.01
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (474 bp):
ACCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATTAAAGACGTATTCTAGTAGAAAACGC
CTTCAATATTTCACTACTATAATTTTGTAAATGGTTATTGAAGGTGTTTATTCCAAAAAATGCCT
TCACTAATTCGTTTTAATTTTTGAAAGAATTTATTGAAAGCATTTTTTGCATTATACACCTTCAA
TAATTTTCGTCCAGAATTATTATTGGCATTTTATGAGAAAAAATACCTTCAATAATTTTCTTTTA
TAAATTGTTTGAGATTAAAGACATATTCTAGTAGAAAACGCCTTCGATATTCCACTAGTAAAATT
TTTAGATGGTTATTGAAGACGTTTATTCCAGAAAAACACCTTCACTAATTCGTTATAATTTTTGA
AATAATTTATTAAAGGCATTTTTGCATTATACGCCTTCAATAATTTCTCTAAAGAATTATTGAAG
GCATTCCTTGATGCAAAAT
Found at i:22446063 original size:22 final size:22
Alignment explanation
Indices: 22446035--22446078 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22446025 CTAAATCTTC
*
22446035 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22446057 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22446079 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:22449775 original size:23 final size:25
Alignment explanation
Indices: 22449720--22449781 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
22449710 TTGAAAGGGT
* *
22449720 TCGGCAATGAAGGCCTAAACAGGAT
1 TCGGCAATGAAGGCCTAAACAGAAG
22449745 TCGGCAATGAAGGCCTAAA-A-AAG
1 TCGGCAATGAAGGCCTAAACAGAAG
22449768 TCGGCAATGAAGGC
1 TCGGCAATGAAGGC
22449782 TGAAAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 15 0.43
24 1 0.03
25 19 0.54
ACGTcount: A:0.37, C:0.19, G:0.29, T:0.15
Consensus pattern (25 bp):
TCGGCAATGAAGGCCTAAACAGAAG
Found at i:22449957 original size:22 final size:22
Alignment explanation
Indices: 22449929--22449972 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22449919 CTAAATCTTT
*
22449929 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22449951 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22449973 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:22455751 original size:2 final size:2
Alignment explanation
Indices: 22455746--22455771 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22455736 TGTTGCTTTC
22455746 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
22455772 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:22466643 original size:18 final size:18
Alignment explanation
Indices: 22466612--22466650 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
22466602 CTTTGCAAAC
22466612 AAAAAATCACAATATAATA
1 AAAAAATCACAATATAA-A
*
22466631 AAAAAATTA-AATATAAA
1 AAAAAATCACAATATAAA
22466648 AAA
1 AAA
22466651 GTAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 7 0.37
19 8 0.42
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAAATCACAATATAAA
Found at i:22466661 original size:13 final size:13
Alignment explanation
Indices: 22466627--22466661 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
22466617 ATCACAATAT
*
22466627 AATAAAAAAATTA
1 AATAAAAAAAGTA
22466640 AATATAAAAAAGTA
1 AATA-AAAAAAGTA
22466654 AATAAAAA
1 AATAAAAA
22466662 TAAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (13 bp):
AATAAAAAAAGTA
Found at i:22466896 original size:29 final size:30
Alignment explanation
Indices: 22466864--22466933 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 30
22466854 TTATTTAATT
*
22466864 TTATATTTATATGTATT-ATATTAAT-AAAA
1 TTATATTTATATATATTAAT-TTAATAAAAA
*
22466893 TTATTATTTA-ATATCTTAATTTAATAAAAAA
1 TTA-TATTTATATATATTAATTTAAT-AAAAA
22466924 TTATATTTAT
1 TTATATTTAT
22466934 GCATAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
29 13 0.38
30 14 0.41
31 7 0.21
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (30 bp):
TTATATTTATATATATTAATTTAATAAAAA
Found at i:22468977 original size:63 final size:62
Alignment explanation
Indices: 22468888--22469241 Score: 231
Period size: 63 Copynumber: 5.8 Consensus size: 62
22468878 TATACACTTG
* *
22468888 TTTTAAAAAAATTATAATAAATAATTATTGCATTTAGCTTTAAAAAAATATAGTAATTGATTAA
1 TTTT-AAAAAATTATAATATATAATTATTGCATTTAGCTTTAAAAAAATATAATAATTGATT-A
* * * * *
22468952 TTTGAAAAAATTATAATATACAATTATTGCGTTTATC-CTAAAAAAA-ATAATTAATT-A-T-
1 TTTTAAAAAATTATAATATATAATTATTGCATTTAGCTTTAAAAAAATATAA-TAATTGATTA
* * * *
22469010 TTTTAAAAAA-TA-ACA-A-ATAAGTATTGCATTTA-CTTTTAAAGAAATTTAATAATTAATTA
1 TTTTAAAAAATTATA-ATATATAATTATTGCATTTAGC-TTTAAAAAAATATAATAATTGATTA
* ** *
22469069 TTTTATTAAAATTATAATATATAATTACAGCATTTATGAC--TAAACAAAATACAATAATTGATT
1 TTTTA-AAAAATTATAATATATAATTATTGCATTTA-G-CTTTAAA-AAAATATAATAATTGATT
22469132 A
62 A
** ** ** * * * *
22469133 TTTTAAAAAATTATAATGA-ATAATTGCTGTGTTTATTTTTTAAAAGATGA-AATATTTAATTA
1 TTTTAAAAAATTATAAT-ATATAATTATTGCATTTAGCTTTAAAAAAAT-ATAATAATTGATTA
*
22469195 TTTTAAATAAATTATAATA-ATTAATTATTACATTTA---TTAAAAAAATA
1 TTTTAAA-AAATTATAATATA-TAATTATTGCATTTAGCTTTAAAAAAATA
22469242 CAATGATTAA
Statistics
Matches: 227, Mismatches: 40, Indels: 51
0.71 0.13 0.16
Matches are distributed among these distances:
54 1 0.00
55 13 0.06
56 14 0.06
57 7 0.03
58 10 0.04
59 6 0.03
60 13 0.06
61 7 0.03
62 38 0.17
63 93 0.41
64 24 0.11
66 1 0.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (62 bp):
TTTTAAAAAATTATAATATATAATTATTGCATTTAGCTTTAAAAAAATATAATAATTGATTA
Found at i:22469034 original size:24 final size:23
Alignment explanation
Indices: 22468990--22469034 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
22468980 GCGTTTATCC
* * *
22468990 TAAAAAAAATAATTAATTATTTT
1 TAAAAAAAACAAATAAGTATTTT
22469013 TAAAAAATAACAAATAAGTATT
1 TAAAAAA-AACAAATAAGTATT
22469035 GCATTTACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
TAAAAAAAACAAATAAGTATTTT
Found at i:22469105 original size:118 final size:123
Alignment explanation
Indices: 22468901--22469143 Score: 284
Period size: 118 Copynumber: 2.0 Consensus size: 123
22468891 TAAAAAAATT
* * * *
22468901 ATAATAAATAATTATTGCATTTAGCTTTAAAAAAATATAGTAATTGATTAATTTGAAAAAATTAT
1 ATAACAAATAAGTATTGCATTTAGCTTTAAAAAAATATAATAATTAATTAATTTGAAAAAATTAT
** * * *
22468966 AATATACAATTATTGCGTTTAT-CCTAAAAAAAATA-ATTAATT-A-T-TTTTAAAAA
66 AATATACAATTACAGCATTTATGACTAAAAAAAATACAATAATTGATTATTTTAAAAA
* * * *
22469019 ATAACAAATAAGTATTGCATTTA-CTTTTAAAGAAATTTAATAATTAATT-ATTTTATTAAAATT
1 ATAACAAATAAGTATTGCATTTAGC-TTTAAAAAAATATAATAATTAATTAATTTGA-AAAAATT
* *
22469082 ATAATATATAATTACAGCATTTATGACTAAACAAAATACAATAATTGATTATTTTAAAAA
64 ATAATATACAATTACAGCATTTATGACTAAAAAAAATACAATAATTGATTATTTTAAAAA
22469142 AT
1 AT
22469144 TATAATGAAT
Statistics
Matches: 103, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
117 6 0.06
118 67 0.65
119 11 0.11
120 6 0.06
121 1 0.01
122 1 0.01
123 11 0.11
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (123 bp):
ATAACAAATAAGTATTGCATTTAGCTTTAAAAAAATATAATAATTAATTAATTTGAAAAAATTAT
AATATACAATTACAGCATTTATGACTAAAAAAAATACAATAATTGATTATTTTAAAAA
Found at i:22469788 original size:61 final size:60
Alignment explanation
Indices: 22469680--22469796 Score: 139
Period size: 61 Copynumber: 1.9 Consensus size: 60
22469670 GGTAAATATT
* *
22469680 ATAATTATTGTATTTTAAAATTTATAATTTCAGTATTTGAATGAAAAAAATAAAAAAATTC
1 ATAATTATTGTATTTTAAAATATATAATGTCAGTATTTGAATGAAAAAAA-AAAAAAATTC
*** **
22469741 ATAATTATTGTATTTTTTTATATA-AATGTCA-TATTTGACATTTAAAAAAAAAAAAA
1 ATAATTATTGTATTTTAAAATATATAATGTCAGTATTTGA-ATGAAAAAAAAAAAAAA
22469797 CTCAAATGCT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 14 0.29
60 14 0.29
61 20 0.42
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (60 bp):
ATAATTATTGTATTTTAAAATATATAATGTCAGTATTTGAATGAAAAAAAAAAAAAATTC
Found at i:22475340 original size:12 final size:12
Alignment explanation
Indices: 22475325--22475357 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
22475315 GCAAAGTATG
22475325 AGGAGATGGCAA
1 AGGAGATGGCAA
22475337 AGGAGATGGCAA
1 AGGAGATGGCAA
22475349 AGGAG-TGGC
1 AGGAGATGGC
22475358 CTGAGAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.36, C:0.09, G:0.45, T:0.09
Consensus pattern (12 bp):
AGGAGATGGCAA
Found at i:22476458 original size:21 final size:21
Alignment explanation
Indices: 22476429--22476471 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22476419 AAAAAGCTAC
*
22476429 TATACTTCTATATTAATTTTT
1 TATACTTCTACATTAATTTTT
*
22476450 TATATTTCTACATTAATTTTT
1 TATACTTCTACATTAATTTTT
22476471 T
1 T
22476472 TTCAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (21 bp):
TATACTTCTACATTAATTTTT
Found at i:22477860 original size:17 final size:17
Alignment explanation
Indices: 22477838--22477871 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22477828 TTTAATTAAG
22477838 TTTTTCATTTTATATAT
1 TTTTTCATTTTATATAT
* *
22477855 TTTTTCTTTTTTTATAT
1 TTTTTCATTTTATATAT
22477872 ATTTAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCATTTTATATAT
Found at i:22478138 original size:21 final size:21
Alignment explanation
Indices: 22478114--22478156 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22478104 GAGGAGTCAA
22478114 TGTCATATCTTTTTTTTTTTT
1 TGTCATATCTTTTTTTTTTTT
* *
22478135 TGTCCTTTCTTTTTTTTTTTT
1 TGTCATATCTTTTTTTTTTTT
22478156 T
1 T
22478157 TTATCTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.79
Consensus pattern (21 bp):
TGTCATATCTTTTTTTTTTTT
Found at i:22478248 original size:13 final size:13
Alignment explanation
Indices: 22478230--22478275 Score: 51
Period size: 11 Copynumber: 3.6 Consensus size: 13
22478220 CGACTCAATT
22478230 ATTTTTTTTCTTC
1 ATTTTTTTTCTTC
*
22478243 A--TTTTTTCTTT
1 ATTTTTTTTCTTC
22478254 AGTTTTTTTTCTTC
1 A-TTTTTTTTCTTC
*
22478268 CTTTTTTT
1 ATTTTTTT
22478276 ACACTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
11 10 0.37
13 8 0.30
14 9 0.33
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (13 bp):
ATTTTTTTTCTTC
Found at i:22478663 original size:24 final size:24
Alignment explanation
Indices: 22478623--22478691 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
22478613 ACTCAATTTT
* *
22478623 TTTTATTTTATTGTTTTTTTATTA
1 TTTTATTTCATTATTTTTTTATTA
22478647 TTTTATTTCATTATTTTTTGT-TTA
1 TTTTATTTCATTATTTTTT-TATTA
* ** *
22478671 TTTAATTAGATAATTTTTTTA
1 TTTTATTTCATTATTTTTTTA
22478692 AGAAAAAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
23 1 0.03
24 35 0.95
25 1 0.03
ACGTcount: A:0.22, C:0.01, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTATTTCATTATTTTTTTATTA
Found at i:22485006 original size:55 final size:56
Alignment explanation
Indices: 22484920--22485032 Score: 194
Period size: 55 Copynumber: 2.0 Consensus size: 56
22484910 TGTGAAATCA
22484920 TGTGAACTTAAATAAAAAAAGTTTTTGCCCTTTAGATTCACACATCTTGATATATT
1 TGTGAACTTAAATAAAAAAAGTTTTTGCCCTTTAGATTCACACATCTTGATATATT
*
22484976 TGTG-ACTTCAATAAAAAAA-TTTTTGCCCCTTTAGATTCACACATCTTGATATATT
1 TGTGAACTTAAATAAAAAAAGTTTTTG-CCCTTTAGATTCACACATCTTGATATATT
22485031 TG
1 TG
22485033 ACGTATAGCT
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
54 6 0.11
55 45 0.82
56 4 0.07
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.40
Consensus pattern (56 bp):
TGTGAACTTAAATAAAAAAAGTTTTTGCCCTTTAGATTCACACATCTTGATATATT
Found at i:22485944 original size:83 final size:83
Alignment explanation
Indices: 22485832--22485997 Score: 278
Period size: 83 Copynumber: 2.0 Consensus size: 83
22485822 TTTTTTAATG
* **
22485832 CATCATAGGTCTTAACTGCTTCTTATAATTATTTTAACTCTATAATAAGAGGTTATAAGTAGATG
1 CATCATAGGTCTTAACTCCTTCCCATAATTATTTTAACTCTATAATAAGAGGTTATAAGTAGATG
22485897 TCTATATCATTACCTAGA
66 TCTATATCATTACCTAGA
* * *
22485915 CATCATAGGTCTTAACTCCTTCCCATAATTGTTTTAACTTTGTAATAAGAGGTTATAAGTAGATG
1 CATCATAGGTCTTAACTCCTTCCCATAATTATTTTAACTCTATAATAAGAGGTTATAAGTAGATG
22485980 TCTATATCATTACCTAGA
66 TCTATATCATTACCTAGA
22485998 GGTTATAAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (83 bp):
CATCATAGGTCTTAACTCCTTCCCATAATTATTTTAACTCTATAATAAGAGGTTATAAGTAGATG
TCTATATCATTACCTAGA
Found at i:22488272 original size:93 final size:93
Alignment explanation
Indices: 22488168--22488357 Score: 301
Period size: 93 Copynumber: 2.0 Consensus size: 93
22488158 TATAGGCATC
* *
22488168 TTTAATATTCTCGTAGTAAAATTTTAAGTGATTATTAAAGGT-ATTTTTACCCAAAAAATGCCTT
1 TTTAATATTCTCGTAGTAAAATTTTAAGCGATTATTAAAGATGA-TTTTACCCAAAAAATGCCTT
* *
22488232 CACTAATTTTCTCTAATTTTTTTGGTGTA
65 CACTAATTTTCTATAATTTTTATGGTGTA
* *
22488261 TTTAATATTCTCGTAGTAAAATTTTAAGCGATTATTAAAGATGATTTTACCCGAAAAATGCTTTC
1 TTTAATATTCTCGTAGTAAAATTTTAAGCGATTATTAAAGATGATTTTACCCAAAAAATGCCTTC
*
22488326 ACTAATTTTTTATAATTTTTATGGTGTA
66 ACTAATTTTCTATAATTTTTATGGTGTA
22488354 TTTA
1 TTTA
22488358 TTGAAGGTAT
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
93 88 0.99
94 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (93 bp):
TTTAATATTCTCGTAGTAAAATTTTAAGCGATTATTAAAGATGATTTTACCCAAAAAATGCCTTC
ACTAATTTTCTATAATTTTTATGGTGTA
Found at i:22489407 original size:239 final size:236
Alignment explanation
Indices: 22488383--22490505 Score: 2010
Period size: 239 Copynumber: 8.9 Consensus size: 236
22488373 GCATAATACA
* * **
22488383 CCTTCAATAATTTCATTTTAAAAATTATTTGAGATTATTAAACACGTCTTCTAGTAGAAAACACC
1 CCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATTAAA-GCGTCTTCTAGTAGAAAATGCC
* * * * *
22488448 TTTAATATTTCACTACTAAAATTTTTAGACGGTTATTGAAGGCTTTTTTTCTAAAAAAATACCTT
65 TTCAATATTTCACTACTAAAATTTTTAGATGGTTATTGAAGGCGTTTATTCTAGAAAAATACCTT
** * * * *
22488513 CACTAATTTGTTGTAATTTTTGAAAGAACTTATTGAATGCGTTTTTTGTATTCA-ACACCTTCAA
130 CACTAATTCATTTTAATTTTTG-AAGAATTTATTGAATGCGTTTTTTGCATT-ATACGCCTTCAA
* * * * *
22488577 TAATTTTTATCCAAAATTATTGATGGCATTTTATGAGAAAAAATG
193 TAATTTTTGTACAGAATTATTGAAGGCATTTTATGAG-AAAAACG
* * * * * * *
22488622 CCTTCAATAGTTTTTTTTTTTTTATAAATTGTTTGGGATTATTAAAGGCATCTTCTAGTAAAAAA
1 CCTTCAATA----ATTTTATTTTAAAAATTATTTGAGATTATTAAA-GCGTCTTCTAGTAGAAAA
** * * * * * * * *
22488687 TGCCTTTGATATTCCACTAGTAAAATTTTTAGACGATTATTGAAAGCGTTTATTTTAGGAAAACA
61 TGCCTTCAATATTTCACTACTAAAATTTTTAGATGGTTATTGAAGGCGTTTATTCTAGAAAAATA
* * *
22488752 CTTTCATTAATTCATTTTAATTTTTGAAGTAATTTATTGAA-GACGTTTTTTTGCATAATACGCC
126 CCTTCACTAATTCATTTTAATTTTTGAAG-AATTTATTGAATG-CG-TTTTTTGCATTATACGCC
* ** * * * * * *
22488816 TTTAATGGTTTTTGTAGAGAATTAGTAAATGCATTTCT-TGATGCAAAACA
188 TTCAATAATTTTTGTACAGAATTATTGAAGGCATTT-TATGA-GAAAAACG
* * * *
22488866 CCTTCAATAATTTTA-TTTGAAAATTATTT-AGGATTATCAAAGGTGTCTTCTAGTAGAAAACGC
1 CCTTCAATAATTTTATTTTAAAAATTATTTGA-GATTATTAAA-GCGTCTTCTAGTAGAAAATGC
* * * * * *
22488929 CTTCAATATTTTACTATTAAAATTTTGT-GAACGATTATTAAAGACGTTTATTCTAGAAAAATAC
64 CTTCAATATTTCACTACTAAAATTTT-TAG-ATGGTTATTGAAGGCGTTTATTCTAGAAAAATAC
* * ***
22488993 TTTCACTAATTCATTTTAATTTTTAAAAGAATTTATTGAAGGTATTTTTTTTGCATTATACGCCT
127 CTTCACTAATTCATTTTAATTTTT-GAAGAATTTATTGAA--TGCGTTTTTTGCATTATACGCCT
* * * **
22489058 TCAATAATTTTTGTTCAAAATTATTGATGGCATTTTATGAGAAAAATA
189 TCAATAATTTTTGTACAGAATTATTGAAGGCATTTTATGAGAAAAACG
* * * * * * * *
22489106 CATTCAATATTTTTTTTTTATAAATTGTTTGGGATTATTAAAGCGTCTTCTAATAAAAAATGCCT
1 CCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATTAAAGCGTCTTCTAGTAGAAAATGCCT
* * * * *
22489171 TCAATATTTCACTAGTAAAATTTTTAGATGGTTATTGAAGGCGTTTATTCCAGGAAAACACTTTC
66 TCAATATTTCACTACTAAAATTTTTAGATGGTTATTGAAGGCGTTTATTCTAGAAAAATACCTTC
* ** * *
22489236 ATTAATTTGTTTTAATTTTTGAAGTAATTTATTGAATGTGTTTTTTGCATTATACACCTTCAATA
131 ACTAATTCATTTTAATTTTTGAAG-AATTTATTGAATGCGTTTTTTGCATTATACGCCTTCAATA
* *
22489301 ATTTTTGTAGAGAATTATTGAAGGCATTTCT-TGATGCAAAACG
195 ATTTTTGTACAGAATTATTGAAGGCATTT-TATGA-GAAAAACG
* * * *
22489344 CATTCAATAATTTTATTTTAAAAATTGTTTGGGATTATTAAAGCCATCTTCTAGTAGAAAATGCC
1 CCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATTAAAG-CGTCTTCTAGTAGAAAATGCC
* * *
22489409 TTCAATATTTCATTACTAAAATTTTGT-GAATGGTTATTGAAGACGTTTATTCAATTAAAAAAAT
65 TTCAATATTTCACTACTAAAATTTT-TAG-ATGGTTATTGAAGGCGTTTATTC---TAGAAAAAT
* * * **
22489473 GCCTTCACTAATTCATTCTAATTTTTGAAAGAATTTATTGAAGGTATTTTTTGCATTATACGCCT
125 ACCTTCACTAATTCATTTTAATTTTTG-AAGAATTTATTGAATGCGTTTTTTGCATTATACGCCT
* * **
22489538 TCAATAAATTTTGTCCAGAATTATT-AATGGCATTTTATGAGAAAAAATA
189 TCAATAATTTTTGTACAGAATTATTGAA-GGCATTTTATGAG-AAAAACG
* * * * * * * *
22489587 CCTTTAATAATTTTCTTTCATAAATTATTTGAGATTATTAAAAGCATTTTCTAGTAGAAAACGTC
1 CCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATT-AAAGCGTCTTCTAGTAGAAAATGCC
* * * * * * *
22489652 TTCGATATTTCACTAGTAAAATTTTTAGATGGTTATTAAAGGTGTTTATTTTGGAAAAATGCCTT
65 TTCAATATTTCACTACTAAAATTTTTAGATGGTTATTGAAGGCGTTTATTCTAGAAAAATACCTT
* * * * *
22489717 CACTAATTCGTTATAATTTTTGAAGTAATTTATTAAAAGCG-TTTTTGCATTATACGTCTTCAAT
130 CACTAATTCATTTTAATTTTTGAAG-AATTTATTGAATGCGTTTTTTGCATTATACGCCTTCAAT
* ** * * * **
22489781 AATTTTTGTAGAGAATTATTGAAGGTGTTTTTTAATGCAAAATA
194 AATTTTTGTACAGAATTATTGAAGGCATTTTATGA-GAAAAACG
* * ** * *
22489825 TCTTCAATAATTTTATTTTAAAAATTATTTAAGATTATTAAATGTATTTTCTAGTA-AAAATCAC
1 CCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATTAAA-GCGTCTTCTAGTAGAAAAT-GC
* * * * *
22489889 CTTCAATATTCCACTACTATAATTGTGT-GAATTGTTATTGAAGGCGTTTATT-TAAAAAAAATA
64 CTTCAATATTTCACTACTAAAATT-TTTAG-ATGGTTATTGAAGGCGTTTATTCT-AGAAAAATA
* * * * *
22489952 CCTTCACTAATTCATTCTAATTTTTAAAGGAATTTATTGAAGGCATTTTTTGCATTATACGCTTT
126 CCTTCACTAATTCATTTTAATTTTTGAA-GAATTTATTGAATGCGTTTTTTGCATTATACGCCTT
* * *
22490017 TAATAATTTTTGTTCAGAATTATTGATGGCATTTTATGAGAAAAAACG
190 CAATAATTTTTGTACAGAATTATTGAAGGCATTTTATGAG-AAAAACG
* * * *
22490065 CCTTCAATAATTTTTTTTTATAAATTATTTGAGATTATTAAAAACGTCTTCTAGTAGAAAATGTC
1 CCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATT-AAAGCGTCTTCTAGTAGAAAATGCC
* * * * * * * * **
22490130 TTCGATATTCCATTAGTAAAATTTTTAAATGGTTATTAAAGACGTTTATTCCA-AAAAACGCCTT
65 TTCAATATTTCACTACTAAAATTTTTAGATGGTTATTGAAGGCGTTTATTCTAGAAAAATACCTT
* * *
22490194 CACTAATTCATTCTAATTTTTGAAGTAATTTATTGAAGGCGTTTTTTGCATTATATGCCTTCAAT
130 CACTAATTCATTTTAATTTTTGAAG-AATTTATTGAATGCGTTTTTTGCATTATACGCCTTCAAT
* * *
22490259 AATTTTTGTAGAGAATTATTGAAGGCATTCTCTA-AAGCAAAACG
194 AATTTTTGTACAGAATTATTGAAGGCATT-T-TATGAGAAAAACG
* * * * * ***
22490303 CCTTTAATAATTTCATTTTAAAAATTGTTTGAGATTATTAAAGGCGTTTTCTAGTAAAAAACATC
1 CCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATTAAA-GCGTCTTCTAGTAGAAAATGCC
* * * * *
22490368 TTCAATATTTTACTACTATAATTTTATAAATGGTTATTGAAGGCTTTTATTCCA-AAAAATACCT
65 TTCAATATTTCACTACTAAAATTTT-TAGATGGTTATTGAAGGCGTTTATTCTAGAAAAATACCT
*
22490432 TCACTAATTCGTTTTAATTTTTGAAAGAATTTATTGAATGCGTTTTTTGCATTATACGCCTTCAA
129 TCACTAATTCATTTTAATTTTTG-AAGAATTTATTGAATGCGTTTTTTGCATTATACGCCTTCAA
22490497 TAATTTTTG
193 TAATTTTTG
22490506 CCTTCAATAA
Statistics
Matches: 1547, Mismatches: 280, Indels: 114
0.80 0.14 0.06
Matches are distributed among these distances:
237 65 0.04
238 341 0.22
239 406 0.26
240 273 0.18
241 77 0.05
242 28 0.02
243 294 0.19
244 61 0.04
245 2 0.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (236 bp):
CCTTCAATAATTTTATTTTAAAAATTATTTGAGATTATTAAAGCGTCTTCTAGTAGAAAATGCCT
TCAATATTTCACTACTAAAATTTTTAGATGGTTATTGAAGGCGTTTATTCTAGAAAAATACCTTC
ACTAATTCATTTTAATTTTTGAAGAATTTATTGAATGCGTTTTTTGCATTATACGCCTTCAATAA
TTTTTGTACAGAATTATTGAAGGCATTTTATGAGAAAAACG
Found at i:22490119 original size:478 final size:478
Alignment explanation
Indices: 22488355--22490505 Score: 2567
Period size: 478 Copynumber: 4.5 Consensus size: 478
22488345 TATGGTGTAT
* *
22488355 TTATTGAAGGTATTT-TT--TGCATAATACACCTTCAATAATTTCATTTTAAAAATTATTTGAGA
1 TTATTGAAGGCATTTCTTAATGCA-AA-ACACCTTCAATAATTTTATTTTAAAAATTATTTGAGA
** * *
22488417 TTATTAAACACGTCTTCTAGTAGAAAACACCTTTAATATTTCACTACTAAAATTTT-T-AGACGG
64 TTATTAAAGGCGTCTTCTAGTAGAAAACACCTTCAATATTTCACTACTAAAATTTTGTGA-ATGG
* ** * *
22488480 TTATTGAAGGC-TTTTTTTCTAAAAAAATACCTTCACTAATTTGTTGTAATTTTTGAAAGAACTT
128 TTATTGAAGGCGTTTATTT-TAAAAAAATACCTTCACTAATTCATTCTAATTTTTGAAAGAATTT
* * * * *
22488544 ATTGAATGCGTTTTTTGTATTCA-ACACCTTCAATAATTTTTATCCAAAATTATTGATGGCATTT
192 ATTGAAGGCATTTTTTGCATT-ATACGCCTTCAATAATTTTTGTCCAAAATTATTGATGGCATTT
* * * *
22488608 TATGAGAAAAAATGCCTTCAATAGTTTTTTTTTTTTTATAAATTGTTTGGGATTATTAAAGGCAT
256 TATGAGAAAAAATGCCTTCAATA----ATTTTTTTTTATAAATTATTTGAGATTATTAAAAGCAT
* * *
22488673 CTTCTAGTAAAAAATGCCTTTGATATTCCACTAGTAAAATTTTTAGACGATTATTGAAA-GCGTT
317 CTTCTAGTAAAAAATGCCTTCGATATTCCACTAGTAAAATTTTTAGATGGTTATT-AAAGGCGTT
* *
22488737 TATTTTAGGAAAACACTTTCATTAATTCATTTTAATTTTTGAAGTAATTTATTG-AAGACGTTTT
381 TATTTT-GGAAAACACCTTCACTAATTCATTTTAATTTTTGAAGTAATTTATTGAAAG-CG-TTT
* * **
22488801 TTTGCATAATACGCCTTTAATGGTTTTTGTAGAGAA
443 TTTGCATTATACGCCTTCAATAATTTTTGTAGAGAA
* * * * *
22488837 TTAGTAAATGCATTTCTTGATGCAAAACACCTTCAATAATTTTA-TTTGAAAATTATTT-AGGAT
1 TTATTGAAGGCATTTCTTAATGCAAAACACCTTCAATAATTTTATTTTAAAAATTATTTGA-GAT
* * * * * * *
22488900 TATCAAAGGTGTCTTCTAGTAGAAAACGCCTTCAATATTTTACTATTAAAATTTTGTGAACGATT
65 TATTAAAGGCGTCTTCTAGTAGAAAACACCTTCAATATTTCACTACTAAAATTTTGTGAATGGTT
* * * * * * *
22488965 ATTAAAGACGTTTATTCTAGAAAAATACTTTCACTAATTCATTTTAATTTTTAAAAGAATTTATT
130 ATTGAAGGCGTTTATTTTAAAAAAATACCTTCACTAATTCATTCTAATTTTTGAAAGAATTTATT
* *
22489030 GAAGGTATTTTTTTTGCATTATACGCCTTCAATAATTTTTGTTCAAAATTATTGATGGCATTTTA
195 GAAGGCA--TTTTTTGCATTATACGCCTTCAATAATTTTTGTCCAAAATTATTGATGGCATTTTA
* * * * * *
22489095 TGAG-AAAAATACATTCAATATTTTTTTTTTATAAATTGTTTGGGATTATT-AAAGCGTCTTCTA
258 TGAGAAAAAATGCCTTCAATAATTTTTTTTTATAAATTATTTGAGATTATTAAAAGCATCTTCTA
* * * * **
22489158 ATAAAAAATGCCTTCAATATTTCACTAGTAAAATTTTTAGATGGTTATTGAAGGCGTTTATTCCA
323 GTAAAAAATGCCTTCGATATTCCACTAGTAAAATTTTTAGATGGTTATTAAAGGCGTTTATT-TT
* * ** * *
22489223 GGAAAACACTTTCATTAATTTGTTTTAATTTTTGAAGTAATTTATTGAATGTGTTTTTTGCATTA
387 GGAAAACACCTTCACTAATTCATTTTAATTTTTGAAGTAATTTATTGAAAGCGTTTTTTGCATTA
*
22489288 TACACCTTCAATAATTTTTGTAGAGAA
452 TACGCCTTCAATAATTTTTGTAGAGAA
* * * * *
22489315 TTATTGAAGGCATTTCTTGATGCAAAACGCATTCAATAATTTTATTTTAAAAATTGTTTGGGATT
1 TTATTGAAGGCATTTCTTAATGCAAAACACCTTCAATAATTTTATTTTAAAAATTATTTGAGATT
* * ** *
22489380 ATTAAAGCCATCTTCTAGTAGAAAATGCCTTCAATATTTCATTACTAAAATTTTGTGAATGGTTA
66 ATTAAAGGCGTCTTCTAGTAGAAAACACCTTCAATATTTCACTACTAAAATTTTGTGAATGGTTA
* *
22489445 TTGAAGACGTTTATTCAATTAAAAAAATGCCTTCACTAATTCATTCTAATTTTTGAAAGAATTTA
131 TTGAAGGCGTTTATT---TTAAAAAAATACCTTCACTAATTCATTCTAATTTTTGAAAGAATTTA
* * * *
22489510 TTGAAGGTATTTTTTGCATTATACGCCTTCAATAAATTTTGTCCAGAATTATTAATGGCATTTTA
193 TTGAAGGCATTTTTTGCATTATACGCCTTCAATAATTTTTGTCCAAAATTATTGATGGCATTTTA
* * * * *
22489575 TGAGAAAAAATACCTTTAATAATTTTCTTTCATAAATTATTTGAGATTATTAAAAGCATTTTCTA
258 TGAGAAAAAATGCCTTCAATAATTTTTTTTTATAAATTATTTGAGATTATTAAAAGCATCTTCTA
* * * * *
22489640 GTAGAAAACGTCTTCGATATTTCACTAGTAAAATTTTTAGATGGTTATTAAAGGTGTTTATTTTG
323 GTAAAAAATGCCTTCGATATTCCACTAGTAAAATTTTTAGATGGTTATTAAAGGCGTTTATTTTG
* * *
22489705 GAAAA-ATGCCTTCACTAATTCGTTATAATTTTTGAAGTAATTTATTAAAAGCG-TTTTTGCATT
388 GAAAACA--CCTTCACTAATTCATTTTAATTTTTGAAGTAATTTATTGAAAGCGTTTTTTGCATT
*
22489768 ATACGTCTTCAATAATTTTTGTAGAGAA
451 ATACGCCTTCAATAATTTTTGTAGAGAA
** * * * *
22489796 TTATTGAAGGTGTTTTTTAATGCAAAATATCTTCAATAATTTTATTTTAAAAATTATTTAAGATT
1 TTATTGAAGGCATTTCTTAATGCAAAACACCTTCAATAATTTTATTTTAAAAATTATTTGAGATT
* ** * * * * *
22489861 ATTAAATGTATTTTCTAGTA-AAAATCACCTTCAATATTCCACTACTATAATTGTGTGAATTGTT
66 ATTAAAGGCGTCTTCTAGTAGAAAA-CACCTTCAATATTTCACTACTAAAATTTTGTGAATGGTT
*
22489925 ATTGAAGGCGTTTATTTAAAAAAAATACCTTCACTAATTCATTCTAATTTTT-AAAGGAATTTAT
130 ATTGAAGGCGTTTATTTTAAAAAAATACCTTCACTAATTCATTCTAATTTTTGAAA-GAATTTAT
* * * *
22489989 TGAAGGCATTTTTTGCATTATACGCTTTTAATAATTTTTGTTCAGAATTATTGATGGCATTTTAT
194 TGAAGGCATTTTTTGCATTATACGCCTTCAATAATTTTTGTCCAAAATTATTGATGGCATTTTAT
* * *
22490054 GAGAAAAAACGCCTTCAATAATTTTTTTTTATAAATTATTTGAGATTATTAAAAACGTCTTCTAG
259 GAGAAAAAATGCCTTCAATAATTTTTTTTTATAAATTATTTGAGATTATTAAAAGCATCTTCTAG
* * * * * ****
22490119 TAGAAAATGTCTTCGATATTCCATTAGTAAAATTTTTAAATGGTTATTAAAGACGTTTATTCCAA
324 TAAAAAATGCCTTCGATATTCCACTAGTAAAATTTTTAGATGGTTATTAAAGGCGTTTATTTTGG
* * *
22490184 AAAACGCCTTCACTAATTCATTCTAATTTTTGAAGTAATTTATTGAAGGCGTTTTTTGCATTATA
389 AAAACACCTTCACTAATTCATTTTAATTTTTGAAGTAATTTATTGAAAGCGTTTTTTGCATTATA
*
22490249 TGCCTTCAATAATTTTTGTAGAGAA
454 CGCCTTCAATAATTTTTGTAGAGAA
* * * * *
22490274 TTATTGAAGGCA-TTCTCTAAAGCAAAACGCCTTTAATAATTTCATTTTAAAAATTGTTTGAGAT
1 TTATTGAAGGCATTTCT-TAATGCAAAACACCTTCAATAATTTTATTTTAAAAATTATTTGAGAT
* * * * * * *
22490338 TATTAAAGGCGTTTTCTAGTAAAAAACATCTTCAATATTTTACTACTATAATTTTATAAATGGTT
65 TATTAAAGGCGTCTTCTAGTAGAAAACACCTTCAATATTTCACTACTAAAATTTTGTGAATGGTT
* ** * *
22490403 ATTGAAGGCTTTTA-TTCCAAAAAATACCTTCACTAATTCGTTTTAATTTTTGAAAGAATTTATT
130 ATTGAAGGCGTTTATTTTAAAAAAATACCTTCACTAATTCATTCTAATTTTTGAAAGAATTTATT
* *
22490467 GAATGCGTTTTTTGCATTATACGCCTTCAATAATTTTTG
195 GAAGGCATTTTTTGCATTATACGCCTTCAATAATTTTTG
22490506 CCTTCAATAA
Statistics
Matches: 1443, Mismatches: 197, Indels: 63
0.85 0.12 0.04
Matches are distributed among these distances:
477 124 0.09
478 443 0.31
479 198 0.14
480 93 0.06
481 199 0.14
482 228 0.16
483 77 0.05
484 23 0.02
485 58 0.04
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (478 bp):
TTATTGAAGGCATTTCTTAATGCAAAACACCTTCAATAATTTTATTTTAAAAATTATTTGAGATT
ATTAAAGGCGTCTTCTAGTAGAAAACACCTTCAATATTTCACTACTAAAATTTTGTGAATGGTTA
TTGAAGGCGTTTATTTTAAAAAAATACCTTCACTAATTCATTCTAATTTTTGAAAGAATTTATTG
AAGGCATTTTTTGCATTATACGCCTTCAATAATTTTTGTCCAAAATTATTGATGGCATTTTATGA
GAAAAAATGCCTTCAATAATTTTTTTTTATAAATTATTTGAGATTATTAAAAGCATCTTCTAGTA
AAAAATGCCTTCGATATTCCACTAGTAAAATTTTTAGATGGTTATTAAAGGCGTTTATTTTGGAA
AACACCTTCACTAATTCATTTTAATTTTTGAAGTAATTTATTGAAAGCGTTTTTTGCATTATACG
CCTTCAATAATTTTTGTAGAGAA
Found at i:22490510 original size:16 final size:16
Alignment explanation
Indices: 22490489--22490521 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
22490479 TGCATTATAC
*
22490489 GCCTTCAATAATTTTT
1 GCCTTCAATAACTTTT
22490505 GCCTTCAATAACTTTT
1 GCCTTCAATAACTTTT
22490521 G
1 G
22490522 TGACCACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.45
Consensus pattern (16 bp):
GCCTTCAATAACTTTT
Found at i:22504262 original size:76 final size:77
Alignment explanation
Indices: 22504119--22504278 Score: 272
Period size: 77 Copynumber: 2.1 Consensus size: 77
22504109 CTAAAATGGG
*
22504119 TTTTTTTTTTTTTTTGTTTCAAAGGGGTAGAGCAAAAAAAGGGAGGGTTTTTAGTAAATTACAAA
1 TTTTTTTTTTTTTTTGTTTCAAAGGGGTAGAGCAAAAAAAGGGAGGGTTTTTAGTAAAATACAAA
22504184 AAAAGTTTCTTT
66 AAAAGTTTCTTT
22504196 TTTTTTTTTTTTTTTGTTTC-AAGGGG-ACGAGCAAAAAAAAGGGAGGGTTTTTAGTAAAATAC-
1 TTTTTTTTTTTTTTTGTTTCAAAGGGGTA-GAGC-AAAAAAAGGGAGGGTTTTTAGTAAAATACA
22504258 AAAAAAGTTTCTTT
64 AAAAAAGTTTCTTT
22504272 TTTTTTT
1 TTTTTTT
22504279 GTTTCAAGGG
Statistics
Matches: 80, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
75 1 0.01
76 31 0.39
77 48 0.60
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (77 bp):
TTTTTTTTTTTTTTTGTTTCAAAGGGGTAGAGCAAAAAAAGGGAGGGTTTTTAGTAAAATACAAA
AAAAGTTTCTTT
Found at i:22509535 original size:38 final size:38
Alignment explanation
Indices: 22509484--22509596 Score: 199
Period size: 38 Copynumber: 3.0 Consensus size: 38
22509474 TGAAGTCTGT
22509484 GTGGTTTGTTAGTTTAACTAAGGGTCTGTTTTATTTTG
1 GTGGTTTGTTAGTTTAACTAAGGGTCTGTTTTATTTTG
*
22509522 GTGGTTTGTTAGTTTAACTAAGGGTCTGTTCTATTTTG
1 GTGGTTTGTTAGTTTAACTAAGGGTCTGTTTTATTTTG
* *
22509560 GTGGTTTGTTAATTTAACTATGGGTCTGTTTTATTTT
1 GTGGTTTGTTAGTTTAACTAAGGGTCTGTTTTATTTT
22509597 ATCTATGGTA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 71 1.00
ACGTcount: A:0.16, C:0.06, G:0.25, T:0.53
Consensus pattern (38 bp):
GTGGTTTGTTAGTTTAACTAAGGGTCTGTTTTATTTTG
Found at i:22511206 original size:43 final size:43
Alignment explanation
Indices: 22511159--22511244 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
22511149 TTTGTGTTGA
*
22511159 TGAGTTAACTTCAATGTTAAATGTTCTATTTTGGCTGCCAAGC
1 TGAGTTAACTTCAACGTTAAATGTTCTATTTTGGCTGCCAAGC
22511202 TGAGTTAACTTCAACGTTAAATGTTCTATTTTGGCTGCCAAGC
1 TGAGTTAACTTCAACGTTAAATGTTCTATTTTGGCTGCCAAGC
22511245 ATTTAATATC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (43 bp):
TGAGTTAACTTCAACGTTAAATGTTCTATTTTGGCTGCCAAGC
Found at i:22512783 original size:26 final size:26
Alignment explanation
Indices: 22512728--22512798 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 26
22512718 TAATATTAAC
* *
22512728 TATTAAAATAT-TAAAAATTATTTAT
1 TATTAAAATATATTAAAATTATTCAT
* *
22512753 AATTAAAATATATTGAAATTATTCAT
1 TATTAAAATATATTAAAATTATTCAT
*
22512779 TATTAAAAT-TATTAATATTA
1 TATTAAAATATATTAAAATTA
22512799 AATAATATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 19 0.50
26 19 0.50
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (26 bp):
TATTAAAATATATTAAAATTATTCAT
Found at i:22512798 original size:25 final size:25
Alignment explanation
Indices: 22512728--22512798 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
22512718 TAATATTAAC
*
22512728 TATTAAAA-TATTAAAAATTATTTAT
1 TATTAAAATTATT-AAAATTATTCAT
* *
22512753 AATTAAAATATATTGAAATTATTCAT
1 TATTAAAAT-TATTAAAATTATTCAT
*
22512779 TATTAAAATTATTAATATTA
1 TATTAAAATTATTAAAATTA
22512799 AATAATATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
25 16 0.42
26 18 0.47
27 4 0.11
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (25 bp):
TATTAAAATTATTAAAATTATTCAT
Found at i:22512799 original size:15 final size:15
Alignment explanation
Indices: 22512762--22512847 Score: 52
Period size: 16 Copynumber: 5.5 Consensus size: 15
22512752 TAATTAAAAT
*
22512762 ATATTGAAATTATTCA
1 ATATTAAAATTATT-A
*
22512778 TTATTAAAATTATTA
1 ATATTAAAATTATTA
*
22512793 ATATT-AAATAATATA
1 ATATTAAAATTAT-TA
*
22512808 TATTTTAATAATAATATTTA
1 -ATATTAA-AAT--TA-TTA
22512828 ATATTAAAA-TATT-
1 ATATTAAAATTATTA
22512841 ATATTAA
1 ATATTAA
22512848 TATAGAAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 17
0.70 0.09 0.21
Matches are distributed among these distances:
13 7 0.12
14 8 0.14
15 9 0.16
16 16 0.29
17 1 0.02
18 5 0.09
19 6 0.11
20 3 0.05
21 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (15 bp):
ATATTAAAATTATTA
Found at i:22513161 original size:29 final size:27
Alignment explanation
Indices: 22513098--22513161 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
22513088 AATAATATCT
22513098 TTTAA-ATTGAAAAAAAAATTAAAATA
1 TTTAATATTGAAAAAAAAATTAAAATA
* * * *
22513124 TTTATTATTGAAAATAATAATTTATATTA
1 TTTAATATTGAAAA-AA-AAATTAAAATA
22513153 TTTAATATT
1 TTTAATATT
22513162 AATTACTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.13
27 8 0.27
28 2 0.07
29 16 0.53
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
TTTAATATTGAAAAAAAAATTAAAATA
Found at i:22520225 original size:42 final size:43
Alignment explanation
Indices: 22520174--22520256 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
22520164 TATTAAAATG
22520174 GATAGTTGAAAAA-AAAATTAAAACTTACAAAACAAAAAGATA
1 GATAGTTGAAAAAGAAAATTAAAACTTACAAAACAAAAAGATA
* *
22520216 GATAGTTGAAAAAGAAAATTGAAACTTACAAAACAGAAAGA
1 GATAGTTGAAAAAGAAAATTAAAACTTACAAAACAAAAAGA
22520257 AAACCACAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 13 0.34
43 25 0.66
ACGTcount: A:0.61, C:0.07, G:0.13, T:0.18
Consensus pattern (43 bp):
GATAGTTGAAAAAGAAAATTAAAACTTACAAAACAAAAAGATA
Found at i:22520253 original size:22 final size:22
Alignment explanation
Indices: 22520187--22520254 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
22520177 AGTTGAAAAA
* *
22520187 AAAATTAAAACTTACAAAACAA
1 AAAATTGAAACTTACAAAACAG
* * * *
22520209 AAAGATAGATAGTT-GAAAA-AG
1 AAA-ATTGAAACTTACAAAACAG
22520230 AAAATTGAAACTTACAAAACAG
1 AAAATTGAAACTTACAAAACAG
22520252 AAA
1 AAA
22520255 GAAAACCACA
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
20 7 0.21
21 8 0.24
22 12 0.36
23 6 0.18
ACGTcount: A:0.63, C:0.09, G:0.10, T:0.18
Consensus pattern (22 bp):
AAAATTGAAACTTACAAAACAG
Done.