Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 40 of 444
Found at i:9809639 original size:26 final size:26
Alignment explanation
Indices: 9809610--9809717 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
9809600 TGGTAAAAAT
9809610 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9809636 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9809662 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9809688 TGATAATGGTTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9809714 TGAT
1 TGAT
9809718 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9816691 original size:26 final size:26
Alignment explanation
Indices: 9816652--9816758 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
9816642 ATGGTAAAAT
9816652 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9816678 TGATAATGGATTAGGTAAAT-ATCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9816703 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9816729 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9816755 TGAT
1 TGAT
9816759 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9816707 original size:51 final size:52
Alignment explanation
Indices: 9816652--9816758 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
9816642 ATGGTAAAAT
9816652 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAAT-ATCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATGATCCA
* *
9816703 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATGATCCA
9816755 TGAT
1 TGAT
9816759 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 45 0.85
52 8 0.15
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATGATCCA
Found at i:9819846 original size:17 final size:17
Alignment explanation
Indices: 9819824--9819857 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9819814 AGGTTTAGGT
9819824 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
9819841 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
9819858 AAATCTATTT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:9820470 original size:14 final size:15
Alignment explanation
Indices: 9820451--9820479 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9820441 AAATCTTATT
9820451 TGAATATATG-CATG
1 TGAATATATGTCATG
9820465 TGAATATATGTCATG
1 TGAATATATGTCATG
9820480 AACTTGGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (15 bp):
TGAATATATGTCATG
Found at i:9821849 original size:13 final size:13
Alignment explanation
Indices: 9821831--9821862 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9821821 TTATTATTTG
9821831 ACCTATGAATTGA
1 ACCTATGAATTGA
9821844 ACCTATGAATTGA
1 ACCTATGAATTGA
*
9821857 GCCTAT
1 ACCTAT
9821863 AAATAGGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (13 bp):
ACCTATGAATTGA
Found at i:9823213 original size:40 final size:40
Alignment explanation
Indices: 9823150--9823233 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
9823140 AAAATCGAAT
* * * * *
9823150 AGATCGAGTATTAGAGGCGTTTTTATGAAAGCGCCACTAA
1 AGATCGAGCATTAGAGACATTTTTAAGAAAGCACCACTAA
* * *
9823190 AGATCGAGCATTAGCGACATTTTTAAGGAAGCACCGCTAA
1 AGATCGAGCATTAGAGACATTTTTAAGAAAGCACCACTAA
9823230 AGAT
1 AGAT
9823234 TGACCTATAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (40 bp):
AGATCGAGCATTAGAGACATTTTTAAGAAAGCACCACTAA
Found at i:9823398 original size:114 final size:115
Alignment explanation
Indices: 9823246--9823460 Score: 317
Period size: 114 Copynumber: 1.9 Consensus size: 115
9823236 ACCTATAGTG
* *
9823246 GCGCTTTTTTAAAAACGCCGCTAAAAGATTAAAGAGAACGACATCATTT-TTTCTAAGCTTCAGT
1 GCGCTTTCTTAAAAACGCCGCTAAAAGATTAAACAGAACGACATCATTTATTT-TAAGCTTCAGT
* *
9823310 GGCATTAGTGGCACTACC-CAAAAAATGCCGCTATAGGTCGATATATAGCA
65 GGCATTAGCGGCACTACCTCAAAAAATGCCGCAATAGGTCGATATATAGCA
* * *
9823360 GCGCTTTCTTAAAAACGCCGCTAAAAGATTAAACAGAACGACGTCGTTTATTTTGAGCTTCAGTG
1 GCGCTTTCTTAAAAACGCCGCTAAAAGATTAAACAGAACGACATCATTTATTTTAAGCTTCAGTG
* * *
9823425 GCATTAGCGGCGCTTCCTCAGAAAATGCCGCAATAG
66 GCATTAGCGGCACTACCTCAAAAAATGCCGCAATAG
9823461 TTTGGGTTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
114 70 0.79
115 19 0.21
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (115 bp):
GCGCTTTCTTAAAAACGCCGCTAAAAGATTAAACAGAACGACATCATTTATTTTAAGCTTCAGTG
GCATTAGCGGCACTACCTCAAAAAATGCCGCAATAGGTCGATATATAGCA
Found at i:9823508 original size:115 final size:113
Alignment explanation
Indices: 9823239--9823497 Score: 315
Period size: 114 Copynumber: 2.3 Consensus size: 113
9823229 AAGATTGACC
* *
9823239 TATAGTGGCGCTTTTTTAAAAACGCCGCTAAAAGATTAAAGAGAACGACATCATTTTTTCTAAGC
1 TATAGCGGCGC-TTTTTAAAAACGCCGCTAAAAGATTAAACAGAACGACATCATTTTTTCTAAGC
* *
9823304 TTCAGTGGCATTAGTGGCACTACCCAAAAAATGCCGCTATAGGTCGATA
65 TTCAGTGGCATTAGCGGCACTACCCAAAAAATGCCGCAATAGGTCGATA
* * * *
9823353 TATAGCAGCGCTTTCTTAAAAACGCCGCTAAAAGATTAAACAGAACGACGTCGTTTATTT-TGAG
1 TATAGCGGCGCTTT-TTAAAAACGCCGCTAAAAGATTAAACAGAACGACATCATTT-TTTCTAAG
* * * * * *
9823417 CTTCAGTGGCATTAGCGGCGCTTCCTCAGAAAATGCCGCAATAGTTTGGGT-
64 CTTCAGTGGCATTAGCGGCACTACC-CAAAAAATGCCGCAATAG-GTCGATA
*
9823468 TTTAGCGGCGCTTTTTGAAAAACGCCGCTA
1 TATAGCGGCGCTTTTT-AAAAACGCCGCTA
9823498 TAAATCTAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
113 3 0.02
114 74 0.60
115 44 0.35
116 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (113 bp):
TATAGCGGCGCTTTTTAAAAACGCCGCTAAAAGATTAAACAGAACGACATCATTTTTTCTAAGCT
TCAGTGGCATTAGCGGCACTACCCAAAAAATGCCGCAATAGGTCGATA
Found at i:9824087 original size:21 final size:20
Alignment explanation
Indices: 9824061--9824121 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 20
9824051 AATAACCCTT
9824061 TAAATCTCAAACCCTAAATCTA
1 TAAATCT-AAACCCTAAAT-TA
* *
9824083 T-AATCGTAAATCATAAATTA
1 TAAATC-TAAACCCTAAATTA
*
9824103 TAAACCTTAAACCCTAAAT
1 TAAATC-TAAACCCTAAAT
9824122 ATTAAACCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.30
Consensus pattern (20 bp):
TAAATCTAAACCCTAAATTA
Found at i:9824120 original size:14 final size:14
Alignment explanation
Indices: 9824061--9824148 Score: 52
Period size: 14 Copynumber: 6.3 Consensus size: 14
9824051 AATAACCCTT
* *
9824061 TAAATCTCAAACCC
1 TAAATCTTAAACCA
* *
9824075 TAAATC-TATAATCG
1 TAAATCTTA-AACCA
* **
9824089 TAAATCATAAATTA
1 TAAATCTTAAACCA
* *
9824103 TAAACCTTAAACCC
1 TAAATCTTAAACCA
* *
9824117 TAAATATTAAACCT
1 TAAATCTTAAACCA
*
9824131 TGAATCTTAAACCA
1 TAAATCTTAAACCA
9824145 TAAA
1 TAAA
9824149 ACCCTAAACT
Statistics
Matches: 55, Mismatches: 17, Indels: 4
0.72 0.22 0.05
Matches are distributed among these distances:
13 1 0.02
14 52 0.95
15 2 0.04
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (14 bp):
TAAATCTTAAACCA
Found at i:9824285 original size:21 final size:22
Alignment explanation
Indices: 9824249--9824294 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
9824239 ATTATAAAAC
9824249 ATCTTAAAACTATAAACCCTAA
1 ATCTTAAAACTATAAACCCTAA
*
9824271 ATCTTAAACCT-TAAACCCTAA
1 ATCTTAAAACTATAAACCCTAA
9824292 ATC
1 ATC
9824295 CAAAACCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (22 bp):
ATCTTAAAACTATAAACCCTAA
Found at i:9824300 original size:21 final size:21
Alignment explanation
Indices: 9824254--9824306 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
9824244 AAAACATCTT
* *
9824254 AAAACTATAAACCCTAAATCT
1 AAAACCATAAACCCTAAATCC
* *
9824275 TAAACCTTAAACCCTAAATCC
1 AAAACCATAAACCCTAAATCC
9824296 AAAACCATAAA
1 AAAACCATAAA
9824307 ACCTTAAACT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAACCATAAACCCTAAATCC
Found at i:9824669 original size:3 final size:3
Alignment explanation
Indices: 9824661--9824710 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
9824651 ATTAATAGTA
*
9824661 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9824709 AA
1 AA
9824711 AAGAGAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:9827878 original size:2 final size:2
Alignment explanation
Indices: 9827871--9827900 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9827861 CTGAAAGACA
*
9827871 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9827901 TACCTTTCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9828747 original size:19 final size:19
Alignment explanation
Indices: 9828723--9828838 Score: 78
Period size: 19 Copynumber: 5.8 Consensus size: 19
9828713 CAATCTTATT
9828723 TTAATTAATATAATTTGGA
1 TTAATTAATATAATTTGGA
* *
9828742 TTAATTTATTTAAATATT--A
1 TTAATTAATAT-AAT-TTGGA
9828761 TTTAATTAATATAATTTGGA
1 -TTAATTAATATAATTTGGA
*
9828781 TTAATTAATAATATAAATTGGA
1 TTAA-T--TAATATAATTTGGA
* *
9828803 TTAATTTATTTAAATATT--A
1 TTAATTAATAT-AAT-TTGGA
9828822 TTAAATTAATATAATTT
1 TT-AATTAATATAATTT
9828839 TTATAAATAT
Statistics
Matches: 76, Mismatches: 10, Indels: 23
0.70 0.09 0.21
Matches are distributed among these distances:
18 4 0.05
19 27 0.36
20 23 0.30
21 5 0.07
22 17 0.22
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TTAATTAATATAATTTGGA
Found at i:9828795 original size:22 final size:23
Alignment explanation
Indices: 9828757--9828808 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
9828747 TTATTTAAAT
* *
9828757 ATTATTTAATTAATATAATTTGG
1 ATTAATTAATTAATATAAATTGG
9828780 ATTAATTAA-TAATATAAATTGG
1 ATTAATTAATTAATATAAATTGG
9828802 ATTAATT
1 ATTAATT
9828809 TATTTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (23 bp):
ATTAATTAATTAATATAAATTGG
Found at i:9828805 original size:61 final size:62
Alignment explanation
Indices: 9828723--9828838 Score: 207
Period size: 61 Copynumber: 1.9 Consensus size: 62
9828713 CAATCTTATT
* *
9828723 TTAATTAATATAATTTGGATTAATTTATTTAAATATTATTTAATTAATATAATTTGGATTAA
1 TTAATTAATATAAATTGGATTAATTTATTTAAATATTATTAAATTAATATAATTTGGATTAA
9828785 TTAA-TAATATAAATTGGATTAATTTATTTAAATATTATTAAATTAATATAATTT
1 TTAATTAATATAAATTGGATTAATTTATTTAAATATTATTAAATTAATATAATTT
9828839 TTATAAATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
61 48 0.92
62 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (62 bp):
TTAATTAATATAAATTGGATTAATTTATTTAAATATTATTAAATTAATATAATTTGGATTAA
Found at i:9828858 original size:29 final size:29
Alignment explanation
Indices: 9828743--9828867 Score: 121
Period size: 29 Copynumber: 4.2 Consensus size: 29
9828733 TAATTTGGAT
*
9828743 TAATTTATTTAAATATTATTTAATTAATA
1 TAATTTATTTAAATATTATTAAATTAATA
* * *
9828772 TAATTTGGA-TTAATTAATAATATAAATTGGAT-
1 TAATTT--ATTTAAAT-ATTAT-TAAATT-AATA
9828804 TAATTTATTTAAATATTATTAAATTAATA
1 TAATTTATTTAAATATTATTAAATTAATA
* *
9828833 TAATTT-TTATAAATATTATTTAATTAAAA
1 TAATTTATT-TAAATATTATTAAATTAATA
9828862 TAATTT
1 TAATTT
9828868 TTTTCCATGT
Statistics
Matches: 79, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
28 4 0.05
29 42 0.53
30 10 0.13
31 10 0.13
32 11 0.14
33 2 0.03
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
TAATTTATTTAAATATTATTAAATTAATA
Found at i:9828860 original size:15 final size:15
Alignment explanation
Indices: 9828806--9828860 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
9828796 AATTGGATTA
*
9828806 ATTTATTTAAATATT
1 ATTTAATTAAATATT
*
9828821 ATTAAATTAATATAATT
1 ATTTAATTAA-AT-ATT
9828838 -TTT-A-TAAATATT
1 ATTTAATTAAATATT
9828850 ATTTAATTAAA
1 ATTTAATTAAA
9828861 ATAATTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
12 3 0.09
13 5 0.16
14 4 0.12
15 13 0.41
16 4 0.12
17 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:9829157 original size:9 final size:9
Alignment explanation
Indices: 9829140--9829468 Score: 356
Period size: 9 Copynumber: 37.7 Consensus size: 9
9829130 TATATACTTG
9829140 AACTTACAT
1 AACTTACAT
*
9829149 AACTCACAT
1 AACTTACAT
9829158 AACTTACAT
1 AACTTACAT
9829167 AACTTACAT
1 AACTTACAT
9829176 AACTTACAT
1 AACTTACAT
*
9829185 AACTCACAT
1 AACTTACAT
*
9829194 AACTCACAT
1 AACTTACAT
9829203 AACTTACAT
1 AACTTACAT
* *
9829212 AGCTTATAT
1 AACTTACAT
9829221 AACTTACAT
1 AACTTACAT
9829230 AAC-T-CAT
1 AACTTACAT
*
9829237 -A-TAAC-T
1 AACTTACAT
*
9829243 TACTTACAT
1 AACTTACAT
*
9829252 AACTCACAT
1 AACTTACAT
9829261 AACTTACAT
1 AACTTACAT
9829270 AACTTACAT
1 AACTTACAT
9829279 AACTTACAT
1 AACTTACAT
* * *
9829288 AACTAATAC
1 AACTTACAT
9829297 AACTTACAT
1 AACTTACAT
9829306 AACTTACAT
1 AACTTACAT
*
9829315 AACTCACAT
1 AACTTACAT
*
9829324 AACTCACAT
1 AACTTACAT
*
9829333 AACTCACAT
1 AACTTACAT
9829342 AACTTACAT
1 AACTTACAT
9829351 AACTT--AT
1 AACTTACAT
*
9829358 -ATTTACAT
1 AACTTACAT
9829366 AACTTACAT
1 AACTTACAT
*
9829375 AACTCACAT
1 AACTTACAT
*
9829384 AACTCACAT
1 AACTTACAT
*
9829393 AACTTACAG
1 AACTTACAT
9829402 AACTTACAT
1 AACTTACAT
*
9829411 AATTTACAT
1 AACTTACAT
9829420 AACTTACAT
1 AACTTACAT
*
9829429 TA--TACAT
1 AACTTACAT
* *
9829436 AA-ATATAT
1 AACTTACAT
* *
9829444 ATCATATCAT
1 AACTTA-CAT
9829454 AACTTACAT
1 AACTTACAT
9829463 AACTTA
1 AACTTA
9829469 ATTAGAGTTA
Statistics
Matches: 273, Mismatches: 36, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
6 5 0.02
7 13 0.05
8 11 0.04
9 238 0.87
10 6 0.02
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:9835002 original size:21 final size:21
Alignment explanation
Indices: 9834978--9835026 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
9834968 AGCAGAAAAA
* *
9834978 GAGGCAGCGGCAGCAGCGAGG
1 GAGGCAGCGACAGCAGCAAGG
* *
9834999 GAGGCAACGATAGCAGCAAGG
1 GAGGCAGCGACAGCAGCAAGG
9835020 GAGGCAG
1 GAGGCAG
9835027 AGCAGAGCAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.20, G:0.47, T:0.02
Consensus pattern (21 bp):
GAGGCAGCGACAGCAGCAAGG
Found at i:9837608 original size:29 final size:29
Alignment explanation
Indices: 9837567--9837622 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
9837557 CATAAATATA
*
9837567 AATTTTCTAAAAATATATACATTTTTTGC
1 AATTTTCTAAAAAAATATACATTTTTTGC
* * **
9837596 AATTTTTTTAAAAAATATTTATTTTTT
1 AATTTTCTAAAAAAATATACATTTTTT
9837623 AAAAAATCTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (29 bp):
AATTTTCTAAAAAAATATACATTTTTTGC
Found at i:9837622 original size:18 final size:18
Alignment explanation
Indices: 9837599--9837640 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
9837589 TTTTTGCAAT
*
9837599 TTTTTTAAAAAATATTTA
1 TTTTTTAAAAAATATATA
*
9837617 TTTTTTAAAAAATCTATA
1 TTTTTTAAAAAATATATA
9837635 TTTTTT
1 TTTTTT
9837641 TATTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTTAAAAAATATATA
Found at i:9837773 original size:17 final size:17
Alignment explanation
Indices: 9837751--9837784 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9837741 TTAGAATTTA
9837751 AAATTTCAAGAAAAATT
1 AAATTTCAAGAAAAATT
* *
9837768 AAATTTTATGAAAAATT
1 AAATTTCAAGAAAAATT
9837785 TTCTAGAAAA
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:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (17 bp):
AAATTTCAAGAAAAATT
Found at i:9838487 original size:14 final size:14
Alignment explanation
Indices: 9838464--9838498 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9838454 TAGAGATATT
9838464 AAAAAA-ATTTTAA
1 AAAAAATATTTTAA
*
9838477 AAAAAATATTTTTA
1 AAAAAATATTTTAA
9838491 AAAAAATA
1 AAAAAATA
9838499 AGTGACAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAAAATATTTTAA
Found at i:9839046 original size:6 final size:6
Alignment explanation
Indices: 9839037--9839063 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9839027 TACATCCTAA
9839037 TCCCAT TCCCAT TCCCAT TCCCAT TCC
1 TCCCAT TCCCAT TCCCAT TCCCAT TCC
9839064 TCAATTCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.52, G:0.00, T:0.33
Consensus pattern (6 bp):
TCCCAT
Found at i:9848148 original size:12 final size:12
Alignment explanation
Indices: 9848131--9848163 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
9848121 CGGCCCTTCC
9848131 ATATTAATTTTT
1 ATATTAATTTTT
9848143 ATATT-ATTTTT
1 ATATTAATTTTT
9848154 ATA-TAATTTT
1 ATATTAATTTT
9848164 AAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:9848188 original size:18 final size:18
Alignment explanation
Indices: 9848165--9848204 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
9848155 TATAATTTTA
*
9848165 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
9848183 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
9848201 AAAA
1 AAAA
9848205 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:9848383 original size:22 final size:22
Alignment explanation
Indices: 9848349--9848391 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9848339 TATCCAAATA
9848349 ATAATAAAAAAATAGTAGCAAC
1 ATAATAAAAAAATAGTAGCAAC
* *
9848371 ATAATAATAAAATGGTAGCAA
1 ATAATAAAAAAATAGTAGCAA
9848392 AATAGGGAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.07, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAATAAAAAAATAGTAGCAAC
Found at i:9857690 original size:24 final size:24
Alignment explanation
Indices: 9857660--9857712 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
9857650 CTATGTTATA
9857660 ATATTTGTAACTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
*
9857684 ATATTTGTATCTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
9857708 ATATT
1 ATATT
9857713 ATAAAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
ATATTTGTAACTAAAATTAATATT
Found at i:9858201 original size:9 final size:9
Alignment explanation
Indices: 9858183--9858331 Score: 135
Period size: 9 Copynumber: 16.6 Consensus size: 9
9858173 GTTTAAATGT
9858183 CATAACTTA
1 CATAACTTA
*
9858192 CATAATTTA
1 CATAACTTA
9858201 CATAACTTA
1 CATAACTTA
9858210 CATAA--TA
1 CATAACTTA
*
9858217 CATAA-ATA
1 CATAACTTA
* * *
9858225 TATATCATA
1 CATAACTTA
9858234 TCATAACTTA
1 -CATAACTTA
*
9858244 CATAACTCA
1 CATAACTTA
**
9858253 CCCAACTTA
1 CATAACTTA
9858262 CATAACTTA
1 CATAACTTA
9858271 -ATAACTTA
1 CATAACTTA
* *
9858279 TATAAATCATA
1 CAT-AA-CTTA
9858290 TCATAACTTA
1 -CATAACTTA
*
9858300 CATAACTCA
1 CATAACTTA
9858309 CATAACTTA
1 CATAACTTA
9858318 CATAACTTA
1 CATAACTTA
9858327 CATAA
1 CATAA
9858332 TACATAAATA
Statistics
Matches: 115, Mismatches: 18, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
7 7 0.06
8 13 0.11
9 77 0.67
10 11 0.10
11 5 0.04
12 2 0.02
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:9858305 original size:56 final size:54
Alignment explanation
Indices: 9858182--9858374 Score: 212
Period size: 56 Copynumber: 3.5 Consensus size: 54
9858172 AGTTTAAATG
* * *
9858182 TCATAACTTACATAATTTACATAACTTACATAA--TACATAAATATATATCATA
1 TCATAACTTACATAACTCACATAACTTACATAACTTACATAAATATAAATCATA
**
9858234 TCATAACTTACATAACTCACCCAACTTACATAACTTA-ATAACTTATATAAATCATA
1 TCATAACTTACATAACTCACATAACTTACATAACTTACATAA---ATATAAATCATA
* *
9858290 TCATAACTTACATAACTCACATAACTTACATAACTTACATAATACATAAATATATA
1 TCATAACTTACATAACTCACATAACTTACATAACTTACATAA-ATATAAAT-CATA
* * * *
9858346 TCATATCATATCATAATTTACATAACTTA
1 TCATAACTTA-CATAACTCACATAACTTA
9858375 ATTATACTTA
Statistics
Matches: 120, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
52 29 0.24
53 4 0.03
54 2 0.02
55 8 0.07
56 57 0.47
57 20 0.17
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (54 bp):
TCATAACTTACATAACTCACATAACTTACATAACTTACATAAATATAAATCATA
Found at i:9860096 original size:12 final size:12
Alignment explanation
Indices: 9860081--9860106 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9860071 CAAATCGAGG
9860081 GATGAATCTGAT
1 GATGAATCTGAT
9860093 GATGAATCTGAT
1 GATGAATCTGAT
9860105 GA
1 GA
9860107 AGAGGATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:9863858 original size:21 final size:21
Alignment explanation
Indices: 9863819--9863858 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9863809 AAATTGCTCA
* *
9863819 ACTTAAAGCGAAGGGAGCATC
1 ACTTAAAGAGAAGGCAGCATC
*
9863840 ACTTAAAGAGGAGGCAGCA
1 ACTTAAAGAGAAGGCAGCA
9863859 AAGAGGGAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.30, T:0.12
Consensus pattern (21 bp):
ACTTAAAGAGAAGGCAGCATC
Found at i:9864120 original size:47 final size:47
Alignment explanation
Indices: 9864061--9864154 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
9864051 CGTTGAAATT
9864061 TTGAAGTATCATTTAGATTTACTGTTATTGGTTGGATTTGATGTTGC
1 TTGAAGTATCATTTAGATTTACTGTTATTGGTTGGATTTGATGTTGC
* *
9864108 TTGAAGTGTCATTTAGATTTGCTGTTATTGGTTGGATTTGATGTTGC
1 TTGAAGTATCATTTAGATTTACTGTTATTGGTTGGATTTGATGTTGC
9864155 AAGAAGGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.19, C:0.06, G:0.26, T:0.49
Consensus pattern (47 bp):
TTGAAGTATCATTTAGATTTACTGTTATTGGTTGGATTTGATGTTGC
Found at i:9864294 original size:43 final size:43
Alignment explanation
Indices: 9864245--9864383 Score: 170
Period size: 43 Copynumber: 3.2 Consensus size: 43
9864235 AGAACATACA
* * *
9864245 TTTAGCGGCATTTGCAAAAAAAGCGCCACTTAAGGCCACGTTC
1 TTTAGCGGCATTTGTACAAAAAGCGCCACTAAAGGCCACGTTC
* * * *
9864288 TTTAGCGACGTTTGTACAAAAAGCGCCGCTAAAGGCCACATTC
1 TTTAGCGGCATTTGTACAAAAAGCGCCACTAAAGGCCACGTTC
* * ***
9864331 TTTAGCAGCGTTTGTACAAAAAGCGCCACTAAAGATTACGTTC
1 TTTAGCGGCATTTGTACAAAAAGCGCCACTAAAGGCCACGTTC
9864374 TTTAGCGGCA
1 TTTAGCGGCA
9864384 CTTTCATGTT
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (43 bp):
TTTAGCGGCATTTGTACAAAAAGCGCCACTAAAGGCCACGTTC
Found at i:9865309 original size:3 final size:3
Alignment explanation
Indices: 9865301--9865508 Score: 66
Period size: 3 Copynumber: 67.7 Consensus size: 3
9865291 ATTAGTTTAA
* * * * * *
9865301 TAT TAT TAT TAC TAT TAT TAT TAACG TAT CAT TAT TCT TGT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT T-A-T TAT TAT TAT TAT TAT TAT TAT
* * * *
9865348 TTT TA- TATT TAT GTAT TAA TAT CAT TAT T-T TTT TA- TAT TAT TAT
1 TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
9865392 TAT TAT CAC TAT TGT CT-T TAC GAT TAT TAT TAT TAAT GCAT TAT TGT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT
* * * * * * *
9865439 TGT TCTT TAT TTT TTT TAT TTT CTAT TAT TAT TAC TAT TAC TAT TAGT
1 TAT T-AT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TA-T
*
9865487 TAT TAT TAT TAT CA- TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
9865509 ATCAGTTTTG
Statistics
Matches: 148, Mismatches: 42, Indels: 30
0.67 0.19 0.14
Matches are distributed among these distances:
2 8 0.05
3 120 0.81
4 19 0.13
5 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:9865377 original size:28 final size:28
Alignment explanation
Indices: 9865346--9865404 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
9865336 TCTTGTTATC
*
9865346 ATTTTTATAT-TTATGTATTAATATCATT
1 ATTTTTATATATTAT-TATTAATATCACT
* *
9865374 ATTTTTTTATATTATTATTATTATCACT
1 ATTTTTATATATTATTATTAATATCACT
9865402 ATT
1 ATT
9865405 GTCTTTACGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (28 bp):
ATTTTTATATATTATTATTAATATCACT
Found at i:9865515 original size:28 final size:25
Alignment explanation
Indices: 9865462--9865515 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 25
9865452 TTTTATTTTC
*
9865462 TATTATTATTACTATTACTATTAGT
1 TATTATTATTACTATTACTATCAGT
*
9865487 TATTATTATTATCATATTATTAATCAGT
1 TATTATTATTA-C-TATTACT-ATCAGT
9865515 T
1 T
9865516 TTGCTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 1 0.04
27 6 0.25
28 6 0.25
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (25 bp):
TATTATTATTACTATTACTATCAGT
Found at i:9865581 original size:21 final size:22
Alignment explanation
Indices: 9865548--9865588 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9865538 ATTCTGTTCC
**
9865548 TTTTATATTTATTTA-CTTAAA
1 TTTTATACATATTTATCTTAAA
9865569 TTTTATACATATTTATCTTA
1 TTTTATACATATTTATCTTA
9865589 TTTTGTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTATACATATTTATCTTAAA
Found at i:9866462 original size:128 final size:127
Alignment explanation
Indices: 9866160--9866462 Score: 328
Period size: 128 Copynumber: 2.4 Consensus size: 127
9866150 TGTTTTGCAT
* * *
9866160 TTTGGAAATTCGAGAAAATCGTGTCCTAACTTACGGGGTTTTGATTTTTCTCGTCGAATATAAAT
1 TTTGGAAATTCGAGAAAATCGTG-CCTAACTTACAGGGTTTCGATTTTCCTCGTCGAATATAAAT
* * * * *
9866225 AGCCACATATCCGTCCAAATTTTAAAATATATGTTTTCTTAAAAATAAAGGCAATATTCCTTG
65 AGCCACATATCCGTCCAAATTTCAAAATACATGTTTTCTAAAAAATAAAGACAATATTCCATG
* * * *
9866288 TTTAGAAGTTCGAGAAAATCGTGCCTAACTTACAGGGTCTCGATTTTCCTCGTC-AATCTAAATA
1 TTTGGAAATTCGAGAAAATCGTGCCTAACTTACAGGGTTTCGATTTTCCTCGTCGAATATAAATA
* * *
9866352 GTCGA-ATAGTCC-TTCAAATTTCAAAATACATGATTTT-TAAATAAGATAATGACAATATTCCA
66 G-CCACATA-TCCGTCCAAATTTCAAAATACATG-TTTTCTAAA-AA-ATAAAGACAATATTCCA
9866414 TG
126 TG
* * ** *
9866416 TTTGGAAATTCGA-AAGATCGTGCCCTAACGTATTGGGTTTCCATTTT
1 TTTGGAAATTCGAGAAAATCGTG-CCTAACTTACAGGGTTTCGATTTT
9866463 TCTTGTTTAA
Statistics
Matches: 146, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
126 33 0.23
127 46 0.32
128 67 0.46
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (127 bp):
TTTGGAAATTCGAGAAAATCGTGCCTAACTTACAGGGTTTCGATTTTCCTCGTCGAATATAAATA
GCCACATATCCGTCCAAATTTCAAAATACATGTTTTCTAAAAAATAAAGACAATATTCCATG
Found at i:9870169 original size:42 final size:42
Alignment explanation
Indices: 9870110--9870192 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
9870100 ACACAACCTG
* *
9870110 AGCACACACTCATGTCCTTGCCCGTGTGGCTCACACGGCCTC
1 AGCACACACTCATGTCCTTGCACGTGTGGCTAACACGGCCTC
* *
9870152 AGCACACAACT-ATGTCCTTGCATGTGTGGCTAACATGGCCT
1 AGCACAC-ACTCATGTCCTTGCACGTGTGGCTAACACGGCCT
9870193 AGGCATACCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 33 0.92
43 3 0.08
ACGTcount: A:0.20, C:0.34, G:0.22, T:0.24
Consensus pattern (42 bp):
AGCACACACTCATGTCCTTGCACGTGTGGCTAACACGGCCTC
Found at i:9876010 original size:6 final size:6
Alignment explanation
Indices: 9875990--9876023 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
9875980 AAGATGTGGA
*
9875990 TTTCTT TTCTTTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TT-TCTT TTTCTT TTTCTT TTTCTT TTT
9876024 TAATAAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:9877277 original size:2 final size:2
Alignment explanation
Indices: 9877270--9877294 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9877260 TTCTAAACTT
9877270 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9877295 TAAGTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9885643 original size:16 final size:16
Alignment explanation
Indices: 9885622--9885658 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
9885612 GGTTTTTTTG
9885622 AGAGTAATCAAGAAGA
1 AGAGTAATCAAGAAGA
9885638 AGAGTAATCAAGAAGA
1 AGAGTAATCAAGAAGA
9885654 AGAGT
1 AGAGT
9885659 TATTGTAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.54, C:0.05, G:0.27, T:0.14
Consensus pattern (16 bp):
AGAGTAATCAAGAAGA
Found at i:9886028 original size:24 final size:23
Alignment explanation
Indices: 9885980--9886031 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
9885970 TTTTTTTTGT
*
9885980 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
9886003 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
9886027 TATTA
1 TATTA
9886032 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:9886101 original size:25 final size:25
Alignment explanation
Indices: 9885986--9886200 Score: 122
Period size: 25 Copynumber: 8.5 Consensus size: 25
9885976 TTGTTATTAT
* *
9885986 TATATTTCTTAATATTATATTATATA
1 TATATTT-TTAATACTATATTATGTA
* *
9886012 TATATTCTTT--TAATATATTA-G-G
1 TATATT-TTTAATACTATATTATGTA
* * *
9886034 TATATTCTAAATTCTATATTACGTGTA
1 TATATTTTTAATACTATATTA--TGTA
*
9886061 TATATATATATT-ATACTATTTTATGTA
1 TATAT-T-T-TTAATACTATATTATGTA
* *
9886088 TATATCTTTAATACTATATTATTTA
1 TATATTTTTAATACTATATTATGTA
* ** *
9886113 TATTTTTTTCTACATGTTATCTTATGTA
1 TA-TATTTT-TA-ATACTATATTATGTA
9886141 TATA-TTTTAAT--TATATTATGTA
1 TATATTTTTAATACTATATTATGTA
* * *
9886163 TGTATTTTTTACACTATATTATGTA
1 TATATTTTTAATACTATATTATGTA
*
9886188 CATATTTTTAATA
1 TATATTTTTAATA
9886201 TTATCACGTA
Statistics
Matches: 142, Mismatches: 30, Indels: 35
0.69 0.14 0.17
Matches are distributed among these distances:
21 1 0.01
22 19 0.13
23 13 0.09
24 13 0.09
25 38 0.27
26 16 0.11
27 18 0.13
28 14 0.10
29 9 0.06
30 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (25 bp):
TATATTTTTAATACTATATTATGTA
Found at i:9886374 original size:16 final size:15
Alignment explanation
Indices: 9886350--9886397 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
9886340 TTATTATTAT
*
9886350 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
9886366 TATTTTAATATTTTA
1 TATTTTAATATTTTA
*
9886381 TATTTTATATACTTTA
1 TATTTTA-ATATTTTA
9886397 T
1 T
9886398 TATTCACATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:9886385 original size:7 final size:8
Alignment explanation
Indices: 9886350--9886401 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
9886340 TTATTATTAT
*
9886350 TATTCTAA
1 TATTTTAA
*
9886358 TATTTTGA
1 TATTTTAA
9886366 TATTTTAA
1 TATTTTAA
9886374 TATTTT-A
1 TATTTTAA
9886381 TATTTTATA
1 TATTTTA-A
* *
9886390 TACTTTAT
1 TATTTTAA
9886398 TATT
1 TATT
9886402 CACATCACTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 22 0.61
9 7 0.19
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:9887721 original size:18 final size:16
Alignment explanation
Indices: 9887695--9887750 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 16
9887685 TCAAAGCCTA
9887695 AAAATATATATGAAATAG
1 AAAA-ATAT-TGAAATAG
*
9887713 AAAAGATATTTAAGATAG
1 AAAA-ATATTGAA-ATAG
9887731 AAAAATATTGCAAATA-
1 AAAAATATTG-AAATAG
9887747 AAAA
1 AAAA
9887751 TTTACCATGC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 4 0.12
17 11 0.33
18 18 0.55
ACGTcount: A:0.62, C:0.02, G:0.11, T:0.25
Consensus pattern (16 bp):
AAAAATATTGAAATAG
Found at i:9893028 original size:38 final size:38
Alignment explanation
Indices: 9892932--9893041 Score: 139
Period size: 38 Copynumber: 2.9 Consensus size: 38
9892922 AAAATAAAGT
* *
9892932 ATGGTTTTAATTAACAATAAAACAAAATAGTACGAGGAA
1 ATGGTTTTAATTAACAATAAAACAAAATAGCA-TAGGAA
* *
9892971 ATAGTTTTAATTAACAATAAAACAAAATAGCATAGGGA
1 ATGGTTTTAATTAACAATAAAACAAAATAGCATAGGAA
* * * *
9893009 GTGGTTTTGATTAATAATAAAACAAAGTAGCAT
1 ATGGTTTTAATTAACAATAAAACAAAATAGCAT
9893042 GGGGGGAGTG
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
38 32 0.52
39 30 0.48
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.28
Consensus pattern (38 bp):
ATGGTTTTAATTAACAATAAAACAAAATAGCATAGGAA
Found at i:9897659 original size:26 final size:26
Alignment explanation
Indices: 9897498--9897651 Score: 263
Period size: 26 Copynumber: 5.9 Consensus size: 26
9897488 CATGAAATTC
*
9897498 TTATCATAAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9897524 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
9897550 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
9897576 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
9897602 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
9897628 TTATCATGAAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
9897652 TTTTATCAAT
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 120 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:9900839 original size:15 final size:15
Alignment explanation
Indices: 9900819--9900849 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9900809 TTTACTTTCC
9900819 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
9900834 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
9900849 A
1 A
9900850 AAATCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:9902197 original size:15 final size:16
Alignment explanation
Indices: 9902177--9902209 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
9902167 TATATATTTT
9902177 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
9902192 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
9902209 T
1 T
9902210 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:9902313 original size:20 final size:22
Alignment explanation
Indices: 9902259--9902314 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
9902249 TTAAGAATTA
* *
9902259 TTTTAGTAT-TATTTTTATTTG
1 TTTTAATATATATTTTTATGTG
*
9902280 TTTTAATATTTATTTTTATGT-
1 TTTTAATATATATTTTTATGTG
9902301 TTTTAA-ATATATTT
1 TTTTAATATATATTT
9902315 GATTTATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 14 0.45
22 10 0.32
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTTAATATATATTTTTATGTG
Found at i:9903196 original size:14 final size:14
Alignment explanation
Indices: 9903162--9903205 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
9903152 GTACGAATGG
*
9903162 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
9903176 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
9903190 AATGGTATGAA-AA
1 AATGGTAGGAACAA
9903203 AAT
1 AAT
9903206 TGGTCGGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 5 0.19
14 21 0.81
ACGTcount: A:0.50, C:0.05, G:0.30, T:0.16
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:9911342 original size:26 final size:26
Alignment explanation
Indices: 9911306--9911467 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
9911296 CATGAAATTC
*
9911306 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
* *
9911332 TTATCATGAAACATTTACCTTACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
9911358 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
9911384 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
9911410 TTATCATGGAACACTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
9911436 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
9911462 TTATCA
1 TTATCA
9911468 ATTTGTATCA
Statistics
Matches: 129, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 129 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:9912989 original size:11 final size:10
Alignment explanation
Indices: 9912932--9912988 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 10
9912922 AAATCACTCT
*
9912932 TTTTTTTCGG
1 TTTTTTTCGA
*
9912942 TTTTTTT-TA
1 TTTTTTTCGA
9912951 TTTTTTTCGA
1 TTTTTTTCGA
*
9912961 ATTTTTTCGA
1 TTTTTTTCGA
*
9912971 TTTTTTTTTGA
1 -TTTTTTTCGA
9912982 TTTTTTT
1 TTTTTTT
9912989 TAACTTGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 7 0.18
10 24 0.62
11 8 0.21
ACGTcount: A:0.09, C:0.05, G:0.09, T:0.77
Consensus pattern (10 bp):
TTTTTTTCGA
Found at i:9913322 original size:18 final size:18
Alignment explanation
Indices: 9913299--9913335 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
9913289 AGGATTAGTT
9913299 GAGTTGAAGGTATAGTCA
1 GAGTTGAAGGTATAGTCA
9913317 GAGTTGAAGGTATAGTCA
1 GAGTTGAAGGTATAGTCA
9913335 G
1 G
9913336 TGTAGAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.35, T:0.27
Consensus pattern (18 bp):
GAGTTGAAGGTATAGTCA
Found at i:9913406 original size:14 final size:14
Alignment explanation
Indices: 9913359--9913406 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
9913349 GTACGAATGG
*
9913359 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
9913373 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
9913387 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
9913401 ATTGGT
1 AATGGT
9913407 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:9918749 original size:3 final size:3
Alignment explanation
Indices: 9918741--9918811 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
9918731 TAAATGAGAA
9918741 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9918789 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
9918812 CGAGAAAGAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9918891 original size:3 final size:3
Alignment explanation
Indices: 9918878--9918911 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
9918868 ATCATAGTAT
* *
9918878 ATA AAA ATA ATA ATA ATA ATA ATA ATA TTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9918912 AAAAGTGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9919847 original size:177 final size:177
Alignment explanation
Indices: 9919542--9920321 Score: 1197
Period size: 177 Copynumber: 4.4 Consensus size: 177
9919532 CGGGCTCTCT
* * * ** *
9919542 TACATAGAGATAAGACTCGCCATCTTTGATCTACTGCATTATTGCTTAGGGAGATAAGATCTGTA
1 TACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTA
* * * *
9919607 ATTTTCAGTCTGTTTCCTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACATACTCTCTTGC
66 ATTTTCAGTCCGCTTCCTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
*
9919672 TACATCAGAGAGATAAGCCTGGTGGCTAAAATCTGCTCCATAGCCGA
131 TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGA
* * *
9919719 TACATGGAAATAAGACTCACCATCTTTGATCTGCTCCGCTACTGCTCAGGGAGATAAGATCTGTA
1 TACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTA
* *
9919784 ATTTTCAGTCCGCTTCTTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTTCTCTCTTGC
66 ATTTTCAGTCCGCTTCCTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
*
9919849 TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTTCATAGCCGA
131 TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGA
* *
9919896 TACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTTAGAGAGATGAGATCTGTA
1 TACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTA
* * *
9919961 ATTTTCAGTTCGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATATTCAACCTGCTCTCTTGC
66 ATTTTCAGTCCGCTTCCTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
*
9920026 TACATCAGAGAGATAAGACTGGTGTG-TAAAATCTGCTCCATAGCCGA
131 TACATCAGAGAGATAAGGCTGGTG-GCTAAAATCTGCTCCATAGCCGA
* *
9920073 TACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCGCTACTACTTAGGGAGATAAGATCTGCA
1 TACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTA
* *
9920138 ATTTTTAGTCCACTTCCTTGCTACCTC-AGAAAGATAAGACTTGTATCTTCAACCTGCTCTCTTG
66 ATTTTCAGTCCGCTTCCTTGCTACCTCAAG-AAGATAAGACTTGTATCTTCAACCTGCTCTCTTG
* * * *
9920202 CTACATCAGAGAGATAAGGTTGGCGGCTAAAATTTGCTTCATAGCCGA
130 CTACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGA
* * * *
9920250 TACATGGAGATAAGACTTGCCAT-TTTCTATCTGCTCCACTACTGCTTAGGGAGATAAGATATGT
1 TACATGGAGATAAGACTCGCCATCTTT-GATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGT
9920314 AATTTTCA
65 AATTTTCA
9920322 CCGATGTTGC
Statistics
Matches: 550, Mismatches: 49, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
176 5 0.01
177 544 0.99
178 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (177 bp):
TACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTA
ATTTTCAGTCCGCTTCCTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGA
Found at i:9933161 original size:3 final size:3
Alignment explanation
Indices: 9933153--9933449 Score: 144
Period size: 3 Copynumber: 99.0 Consensus size: 3
9933143 GTAAATGAGA
9933153 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
9933201 AAT GAC AA- AGAT -AT AA- AGA- AAT AAT AAT AAG AAA AGAT AAC CAG
1 AAT AAT AAT A-AT AAT AAT A-AT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * * * *
9933245 AAA AAGT AA- ATAT AAG CAT AGT ATAT AAT AAT AAT AAT AAT AGT AGT
1 AAT AA-T AAT A-AT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * *
9933292 AAT AAT ATT AAT AAA AAG AGT -GT AAA AAT GAAT GTAT AGT AAT ATGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT A-AT
* * * * * * ** ** *
9933339 AAT AAT TAT TA- AAT AAC ACT AAT AAT AAA AAT -TT AGG AGG GA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9933384 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
9933432 AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT
9933450 TAATTTTACC
Statistics
Matches: 227, Mismatches: 51, Indels: 32
0.73 0.16 0.10
Matches are distributed among these distances:
2 11 0.05
3 201 0.89
4 15 0.07
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:9935087 original size:95 final size:95
Alignment explanation
Indices: 9934975--9935168 Score: 318
Period size: 95 Copynumber: 2.0 Consensus size: 95
9934965 AAATTTAGTT
9934975 TTTACTTTTAGTTTCTTTTTCTGATTTGTAAATTTAGGTTTTAGTTTTTTTACTGATTAATGTTT
1 TTTACTTTTAGTTTCTTTTTCTGATTTGTAAATTTAGGTTTTAGTTTTTTTACTGATTAATGTTT
* * *
9935040 AATG-TTTTATTATTATATTTTATATTAATC
66 AATGTTTTTATTATTAT-CTTCATATTAATA
* * *
9935070 TTTAGTTTTAGTTTCTTTTTCTGATTTGTGAATTTAGGTTTTAGTTTTTTTATTGATTAATGTTT
1 TTTACTTTTAGTTTCTTTTTCTGATTTGTAAATTTAGGTTTTAGTTTTTTTACTGATTAATGTTT
9935135 AATGTTTTTATTATTATCTTCATATTAATA
66 AATGTTTTTATTATTATCTTCATATTAATA
9935165 TTTA
1 TTTA
9935169 ATTTAGAATT
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
95 80 0.87
96 12 0.13
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (95 bp):
TTTACTTTTAGTTTCTTTTTCTGATTTGTAAATTTAGGTTTTAGTTTTTTTACTGATTAATGTTT
AATGTTTTTATTATTATCTTCATATTAATA
Found at i:9937243 original size:15 final size:15
Alignment explanation
Indices: 9937225--9937272 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
9937215 AATTATTAAT
*
9937225 ATATGATATGATATG
1 ATATGATATAATATG
*
9937240 ATATGATATAATATA
1 ATATGATATAATATG
* *
9937255 ACATTATATAATAT-
1 ATATGATATAATATG
9937269 ATAT
1 ATAT
9937273 ATAGTAGAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 3 0.11
15 25 0.89
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (15 bp):
ATATGATATAATATG
Found at i:9937423 original size:25 final size:26
Alignment explanation
Indices: 9937376--9937424 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
9937366 AATATATTAT
*
9937376 GTATTACTATTATAATATGTGATATA
1 GTATTACTATTAAAATATGTGATATA
9937402 GTATTAC-ATTAAAACTAT-TGATA
1 GTATTACTATTAAAA-TATGTGATA
9937425 CATAAATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (26 bp):
GTATTACTATTAAAATATGTGATATA
Found at i:9938965 original size:23 final size:23
Alignment explanation
Indices: 9938921--9938967 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
9938911 GAAAGGTGCA
* *
9938921 AAAATTGTTTTTTTTCATTTTTT
1 AAAATTGTTTATATTCATTTTTT
9938944 AAAATCTGTTTATATTCATTTTTT
1 AAAAT-TGTTTATATTCATTTTTT
9938968 TTCTTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (23 bp):
AAAATTGTTTATATTCATTTTTT
Found at i:9938986 original size:15 final size:14
Alignment explanation
Indices: 9938962--9938992 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
9938952 TTTATATTCA
9938962 TTTTTTTTCTTTCT
1 TTTTTTTTCTTTCT
9938976 TTTTGTTTTCTTTCT
1 TTTT-TTTTCTTTCT
9938991 TT
1 TT
9938993 AAAAAAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (14 bp):
TTTTTTTTCTTTCT
Found at i:9939707 original size:21 final size:21
Alignment explanation
Indices: 9939640--9939776 Score: 98
Period size: 21 Copynumber: 6.4 Consensus size: 21
9939630 CATTACTATC
** *
9939640 ATTATTATTGCCATTATTATT
1 ATTATTATTGTTATTATTTTT
*
9939661 ATTACTATTGCTAGTATTATTTTTT
1 ATTATTATTG-T--TATTA-TTTTT
*
9939686 ATTATCATTGTTATTATTTTT
1 ATTATTATTGTTATTATTTTT
* *
9939707 ATTTTTATTGCTATTATTTTT
1 ATTATTATTGTTATTATTTTT
* * *
9939728 ACTATTAATATTATTATTTTT
1 ATTATTATTGTTATTATTTTT
* * *
9939749 A-TATTTAGTATTATTATTATT
1 ATTA-TTATTGTTATTATTTTT
9939770 -TTATTAT
1 ATTATTAT
9939777 AACTACTACT
Statistics
Matches: 93, Mismatches: 17, Indels: 13
0.76 0.14 0.11
Matches are distributed among these distances:
20 5 0.05
21 66 0.71
22 5 0.05
24 5 0.05
25 12 0.13
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (21 bp):
ATTATTATTGTTATTATTTTT
Found at i:9939741 original size:27 final size:27
Alignment explanation
Indices: 9939711--9939796 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
9939701 ATTTTTATTT
* *
9939711 TTATTGCTATTATTTTTACTATTAATA
1 TTATTACTATTATATTTACTATTAATA
* * * *
9939738 TTATTATTTTTATATTTAGTATTATTA
1 TTATTACTATTATATTTACTATTAATA
* ** * *
9939765 TTATT-TTATTATAACTACTACTACTA
1 TTATTACTATTATATTTACTATTAATA
9939791 TTATTA
1 TTATTA
9939797 TAGTTTTTTT
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
26 20 0.43
27 26 0.57
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (27 bp):
TTATTACTATTATATTTACTATTAATA
Found at i:9939796 original size:3 final size:3
Alignment explanation
Indices: 9939624--9939776 Score: 80
Period size: 3 Copynumber: 52.0 Consensus size: 3
9939614 ATTTTACCAC
* * * ** * * **
9939624 TAT TAT CAT TAC TAT CAT TAT TAT TGC CAT TAT TAT TAT TAC TAT TGC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * **
9939672 TAG TAT TAT T-T T-T TAT TAT CAT TGT TAT TAT TTT TAT TTT TAT TGC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
9939718 TAT TAT TTT TAC TAT TAA TAT TAT TAT TTT TA- TATT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
9939763 TAT TAT T-T TAT TAT
1 TAT TAT TAT TAT TAT
9939777 AACTACTACT
Statistics
Matches: 105, Mismatches: 41, Indels: 8
0.68 0.27 0.05
Matches are distributed among these distances:
2 8 0.08
3 95 0.90
4 2 0.02
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:9940016 original size:18 final size:18
Alignment explanation
Indices: 9939995--9940038 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
9939985 TACTTATTTG
9939995 TATTATTTTTATTATCAT
1 TATTATTTTTATTATCAT
9940013 TATT-TTATTTATTATCAT
1 TATTATT-TTTATTATCAT
9940031 TATTATTT
1 TATTATTT
9940039 AAAAAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTTTTATTATCAT
Found at i:9940496 original size:25 final size:25
Alignment explanation
Indices: 9940456--9940636 Score: 294
Period size: 25 Copynumber: 7.2 Consensus size: 25
9940446 TGGTACAAAT
9940456 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
9940481 TGATAATGGATT-GGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
9940506 TGATAATGGGTTA-GTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
9940531 TGATAATGGTTAGGTAAATATTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
9940556 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
9940582 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
9940607 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
9940633 TGAT
1 TGAT
9940637 GGGCATTTCA
Statistics
Matches: 146, Mismatches: 4, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
24 5 0.03
25 93 0.64
26 48 0.33
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:9940518 original size:51 final size:51
Alignment explanation
Indices: 9940456--9940636 Score: 305
Period size: 51 Copynumber: 3.6 Consensus size: 51
9940446 TGGTACAAAT
9940456 TGATAAT-GGTTAGGTAAATGTTCCATGATAATGGATT-GGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGG-TTAGGTAAATATTCCA
9940506 TGATAATGGGTTA-GTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
* *
9940556 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
*
9940607 TGATAATGGTTTAGGTAAATGTTCCATGAT
1 TGATAATGGGTTAGGTAAATGTTCCATGAT
9940637 GGGCATTTCA
Statistics
Matches: 124, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
49 2 0.02
50 53 0.43
51 69 0.56
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
Found at i:9942162 original size:26 final size:26
Alignment explanation
Indices: 9942133--9942185 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
9942123 TTTACAGTTT
9942133 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
9942159 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
9942185 T
1 T
9942186 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:9947597 original size:26 final size:26
Alignment explanation
Indices: 9947568--9947753 Score: 300
Period size: 26 Copynumber: 7.2 Consensus size: 26
9947558 TGGTACAAAT
9947568 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9947594 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9947620 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9947646 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9947672 TGATAATAGGTTAGGCAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9947698 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9947724 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9947750 TGAT
1 TGAT
9947754 GGGCATTTCA
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 147 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9949266 original size:25 final size:26
Alignment explanation
Indices: 9949237--9949288 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
9949227 TTTACAGTTT
9949237 TACCCCTAGGAGATAAATT-ACC-AAA
1 TACCCCTAGG-GATAAATTGACCTAAA
*
9949262 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCTAAA
9949288 T
1 T
9949289 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 13 0.54
26 4 0.17
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCTAAA
Found at i:9962152 original size:23 final size:22
Alignment explanation
Indices: 9962121--9962163 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
9962111 ACTAATTAGT
*
9962121 TAGAAGTATATGAAGAAAAAATA
1 TAGAAGTATAGGAA-AAAAAATA
*
9962144 TAGATGTATAGGAAAAAAAA
1 TAGAAGTATAGGAAAAAAAA
9962164 GGGTTTATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (22 bp):
TAGAAGTATAGGAAAAAAAATA
Found at i:9963294 original size:25 final size:26
Alignment explanation
Indices: 9963265--9963315 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
9963255 TTAAATATTT
9963265 AACCACAAA-TTAT-TAGATATTAGAA
1 AACCACAAATTTATATAGATA-TAGAA
*
9963290 AACCATAAATTTATATAGATATAGAA
1 AACCACAAATTTATATAGATATAGAA
9963316 TTTTATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
26 9 0.39
27 6 0.26
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.29
Consensus pattern (26 bp):
AACCACAAATTTATATAGATATAGAA
Found at i:9963697 original size:28 final size:29
Alignment explanation
Indices: 9963666--9963720 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
9963656 CGAAATTGGA
* *
9963666 TTAAATTATTTTAATTTTAAAA-ATAATT
1 TTAAATTAATTTAATTGTAAAAGATAATT
*
9963694 TTAATTTAATTTAATTGTAAAAGATAA
1 TTAAATTAATTTAATTGTAAAAGATAA
9963721 AATAATGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
TTAAATTAATTTAATTGTAAAAGATAATT
Found at i:9965512 original size:20 final size:21
Alignment explanation
Indices: 9965474--9965532 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
9965464 ATGTAAGAAA
* * *
9965474 ATAAAAATATATAAAATTATC
1 ATAAACATAAATAATATTATC
9965495 A-AAACATAAATAATATTATC
1 ATAAACATAAATAATATTATC
* *
9965515 ATAAATATAAATATTATT
1 ATAAACATAAATAATATT
9965533 TAATTATCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAAACATAAATAATATTATC
Found at i:9965529 original size:18 final size:19
Alignment explanation
Indices: 9965477--9965531 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
9965467 TAAGAAAATA
*
9965477 AAAATATATAAA-ATTATC
1 AAAACATATAAATATTATC
*
9965495 AAAACATAAATAATATTATC
1 AAAACATATA-AATATTATC
*
9965515 ATAA-ATATAAATATTAT
1 AAAACATATAAATATTAT
9965532 TTAATTATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 16 0.52
19 6 0.19
20 9 0.29
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAACATATAAATATTATC
Found at i:9965543 original size:26 final size:26
Alignment explanation
Indices: 9965509--9965560 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
9965499 CATAAATAAT
*
9965509 ATTATCATAAATATAAATATTATTTA
1 ATTATCATAAAGATAAATATTATTTA
9965535 ATTATCATAAAGATAAATATTATTTA
1 ATTATCATAAAGATAAATATTATTTA
9965561 TCTTAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTATCATAAAGATAAATATTATTTA
Found at i:9970935 original size:21 final size:21
Alignment explanation
Indices: 9970910--9970965 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
9970900 TTAAATGTCC
*
9970910 TTGTTATTTTTATAATTAGTA
1 TTGTTATTATTATAATTAGTA
* *
9970931 TTGTTATTATTATTATTATTA
1 TTGTTATTATTATAATTAGTA
* *
9970952 TTGTTGTTACTATA
1 TTGTTATTATTATA
9970966 TATATTGGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.62
Consensus pattern (21 bp):
TTGTTATTATTATAATTAGTA
Found at i:9972764 original size:3 final size:3
Alignment explanation
Indices: 9972747--9972962 Score: 55
Period size: 3 Copynumber: 69.3 Consensus size: 3
9972737 AATTTTTTAT
* * * * * *
9972747 TTA TTA TCA TCA TTA TTA TTA TCA CTA TTA TTA TT- TTA TTT TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * **
9972794 CCTAA CGTA TCA TTA TTA TTA CTT- TTA TTT TTA TCA TTA TTA CCA TTA
1 --TTA -TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * **
9972842 TT- TTA TTA TTT TTA CTA TTA TTA CTTA -TA TTCC TTA ATA TCC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A TTA TTA TTA TTA
* * * * * *
9972887 TTA CTG TTA TCTCCA TT- TTC TTA CTA TTA TTT TTA TTA TCA TTA TTTA
1 TTA TTA TTA T-T--A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
9972935 TTCA TTTA TTTA TTA TTA TTA TTA TTA T
1 TT-A -TTA -TTA TTA TTA TTA TTA TTA T
9972963 CATATTATAT
Statistics
Matches: 152, Mismatches: 45, Indels: 32
0.66 0.20 0.14
Matches are distributed among these distances:
2 10 0.07
3 115 0.76
4 19 0.12
5 6 0.04
6 2 0.01
ACGTcount: A:0.28, C:0.12, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:9978315 original size:20 final size:18
Alignment explanation
Indices: 9978272--9978306 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9978262 AAATATCTAT
* *
9978272 AAAATAATATATAAATGC
1 AAAATAAAACATAAATGC
9978290 AAAATAAAACATAAATG
1 AAAATAAAACATAAATG
9978307 TTCAAAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (18 bp):
AAAATAAAACATAAATGC
Found at i:9985535 original size:21 final size:22
Alignment explanation
Indices: 9985492--9985538 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
9985482 TTATCAAAAG
* *
9985492 TTTAGGAAATCTTTTAGAAATT
1 TTTAAGAAATCTTTCAGAAATT
9985514 TTTAAGAAATCTTTCA-AAATT
1 TTTAAGAAATCTTTCAGAAATT
9985535 TTTA
1 TTTA
9985539 GTCTCTAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (22 bp):
TTTAAGAAATCTTTCAGAAATT
Found at i:9986033 original size:17 final size:17
Alignment explanation
Indices: 9985997--9986035 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
9985987 TGTATTTTTC
* *
9985997 AAAATGTTTATTTGCAT
1 AAAATCTTTATTTCCAT
*
9986014 AAAATCTTTATTTCCGT
1 AAAATCTTTATTTCCAT
9986031 AAAAT
1 AAAAT
9986036 TGTTAGTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (17 bp):
AAAATCTTTATTTCCAT
Found at i:9988819 original size:18 final size:18
Alignment explanation
Indices: 9988798--9988858 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
9988788 TTAAATTTTT
9988798 TAAAAGAATTAAAAATTA
1 TAAAAGAATTAAAAATTA
* * * *
9988816 TAAAAAAATCAGAAATTT
1 TAAAAGAATTAAAAATTA
*
9988834 TATAAA-AATATAAAAATGA
1 TA-AAAGAAT-TAAAAATTA
9988853 TAAAAG
1 TAAAAG
9988859 TATAAAAGTG
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
18 22 0.69
19 10 0.31
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (18 bp):
TAAAAGAATTAAAAATTA
Found at i:9989374 original size:16 final size:17
Alignment explanation
Indices: 9989337--9989371 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9989327 AATATTTTGC
9989337 AATTTCATAATTTTTAT
1 AATTTCATAATTTTTAT
9989354 AATTTC-TAATTTTATAT
1 AATTTCATAATTTT-TAT
9989371 A
1 A
9989372 TTTTTTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTTCATAATTTTTAT
Found at i:9989815 original size:5 final size:6
Alignment explanation
Indices: 9989799--9989829 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
9989789 TAAAATCTAT
9989799 GAAAAA GAAAAA GAAAAA GAAAAA GATAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GA-AAAA
9989830 TGTGACATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (6 bp):
GAAAAA
Found at i:9994568 original size:54 final size:54
Alignment explanation
Indices: 9994504--9994612 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
9994494 CTCATACCAC
9994504 AGTCCATACTTAAATAAAATTTACAGTCCCAAATAAAATAATTCCAAAACAATT
1 AGTCCATACTTAAATAAAATTTACAGTCCCAAATAAAATAATTCCAAAACAATT
9994558 AGTCCATACTTAAATAAAATTTACAGTCCCAAATAAAATAATTCCAAAACAATT
1 AGTCCATACTTAAATAAAATTTACAGTCCCAAATAAAATAATTCCAAAACAATT
9994612 A
1 A
9994613 AAGTAATTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.50, C:0.18, G:0.04, T:0.28
Consensus pattern (54 bp):
AGTCCATACTTAAATAAAATTTACAGTCCCAAATAAAATAATTCCAAAACAATT
Found at i:9996883 original size:13 final size:13
Alignment explanation
Indices: 9996861--9996893 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9996851 AATGGTTTGT
9996861 TTAT-TAAACTAA
1 TTATCTAAACTAA
9996873 TTATCTAAACTAA
1 TTATCTAAACTAA
*
9996886 TTAACTAA
1 TTATCTAA
9996894 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:9999800 original size:5 final size:5
Alignment explanation
Indices: 9999790--9999861 Score: 53
Period size: 6 Copynumber: 14.0 Consensus size: 5
9999780 ATATGTCTTG
*
9999790 TAAAA TAAAA T--AA TAAAA TTGAAA TGAAAA TAAAAA TAAAAA TAAAAA
1 TAAAA TAAAA TAAAA TAAAA -TAAAA T-AAAA T-AAAA T-AAAA T-AAAA
9999838 TAAAA T-AAA -AAAA TAAGAA TAAAA
1 TAAAA TAAAA TAAAA TAA-AA TAAAA
9999862 AGATAGGAGG
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 18 0.32
6 30 0.53
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:9999820 original size:6 final size:6
Alignment explanation
Indices: 9999811--9999862 Score: 68
Period size: 6 Copynumber: 8.5 Consensus size: 6
9999801 AATAAAATTG
* * *
9999811 AAATGA AAATAA AAATAA AAATAA AAATAA AATAAAA AAATAA GAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA-ATAA AAATAA AAATAA
9999860 AAA
1 AAA
9999863 GATAGGAGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
6 35 0.88
7 5 0.12
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:9999826 original size:12 final size:11
Alignment explanation
Indices: 9999790--9999862 Score: 65
Period size: 12 Copynumber: 6.0 Consensus size: 11
9999780 ATATGTCTTG
9999790 TAAAATAAAATAA
1 TAAAAT-AAA-AA
**
9999803 TAAAATTGAAA
1 TAAAATAAAAA
9999814 TGAAAATAAAAA
1 T-AAAATAAAAA
9999826 TAAAAATAAAAA
1 T-AAAATAAAAA
9999838 TAAAATAAAAAAA
1 TAAAAT--AAAAA
9999851 TAAGAATAAAAA
1 TAA-AATAAAAA
9999863 GATAGGAGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
11 8 0.16
12 26 0.51
13 14 0.27
14 3 0.06
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:10001314 original size:13 final size:13
Alignment explanation
Indices: 10001292--10001324 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10001282 AATGGTTTGT
10001292 TTAT-TAAACTAA
1 TTATCTAAACTAA
10001304 TTATCTAAACTAA
1 TTATCTAAACTAA
*
10001317 TTAACTAA
1 TTATCTAA
10001325 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:10009944 original size:40 final size:40
Alignment explanation
Indices: 10009890--10009968 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
10009880 CCAACACACT
* * * *
10009890 ATGTGGGGATAAAATCGACCCATCCATCCCTGCACACCAA
1 ATGTAGGGATAAAATCAACCCATCCAACCCTACACACCAA
* *
10009930 ATGTAGGGATAAAATTAACCCATCTAACCCTACACACCA
1 ATGTAGGGATAAAATCAACCCATCCAACCCTACACACCA
10009969 TAAGGTATCG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.37, C:0.30, G:0.14, T:0.19
Consensus pattern (40 bp):
ATGTAGGGATAAAATCAACCCATCCAACCCTACACACCAA
Found at i:10011478 original size:27 final size:26
Alignment explanation
Indices: 10011448--10011515 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 26
10011438 GGATAGGTAT
10011448 ATAATATAATATGAAA-AATATATGTAC
1 ATAATATAATATGAAAGAATATA--TAC
* *
10011475 ATAAGATAATGT-AAAGAATATATAC
1 ATAATATAATATGAAAGAATATATAC
10011500 ATAACTAATAATATGA
1 ATAA-T-ATAATATGA
10011516 GAAGTACGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
25 7 0.21
26 3 0.09
27 22 0.67
28 1 0.03
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (26 bp):
ATAATATAATATGAAAGAATATATAC
Found at i:10011887 original size:3 final size:3
Alignment explanation
Indices: 10011873--10011923 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
10011863 AAACATAAAC
* *
10011873 TAA TACA TAA TAA TAT TAA TAA TAA TAA -AA TTAA TAA T-A TAA AAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
10011918 TAA TAA
1 TAA TAA
10011924 GAGAATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 31 0.77
4 5 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10011905 original size:15 final size:15
Alignment explanation
Indices: 10011873--10011923 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
10011863 AAACATAAAC
*
10011873 TAATACATAATAATAT
1 TAATA-ATAATAAAAT
10011889 TAATAATAATAAAAT
1 TAATAATAATAAAAT
*
10011904 TAATAAT-ATAAAAA
1 TAATAATAATAAAAT
10011918 TAATAA
1 TAATAA
10011924 GAGAATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.36
15 16 0.48
16 5 0.15
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATAATAATAAAAT
Found at i:10012585 original size:18 final size:20
Alignment explanation
Indices: 10012549--10012585 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
10012539 TTAATAATAC
*
10012549 ATATGTTTTTATGTGTTTTG
1 ATATGTTTTTATGTATTTTG
10012569 ATAT-TTTTTA-GTATTTT
1 ATATGTTTTTATGTATTTT
10012586 TGTGTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 6 0.38
19 6 0.38
20 4 0.25
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.68
Consensus pattern (20 bp):
ATATGTTTTTATGTATTTTG
Found at i:10014106 original size:54 final size:55
Alignment explanation
Indices: 10014006--10014111 Score: 126
Period size: 54 Copynumber: 1.9 Consensus size: 55
10013996 GCCCCGAGGC
* *
10014006 TCAACTCACCTCTAGCAATATAAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTAGCAATATAAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * * * *
10014060 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTAGCAATATAAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
10014112 CAGAAATTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
54 32 0.74
55 11 0.26
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTAGCAATATAAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:10014118 original size:13 final size:13
Alignment explanation
Indices: 10014091--10014124 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
10014081 GAGTTGATTC
*
10014091 TTGAACAACATAAA
1 TTGAA-AACAGAAA
10014105 TTGAAAACAGAAA
1 TTGAAAACAGAAA
10014118 TTGAAAA
1 TTGAAAA
10014125 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:10014304 original size:14 final size:14
Alignment explanation
Indices: 10014285--10014311 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10014275 AAAAATTAAA
10014285 AACAGAATTTGAAT
1 AACAGAATTTGAAT
10014299 AACAGAATTTGAA
1 AACAGAATTTGAA
10014312 AATACCTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (14 bp):
AACAGAATTTGAAT
Found at i:10014407 original size:47 final size:49
Alignment explanation
Indices: 10014333--10014474 Score: 164
Period size: 54 Copynumber: 2.8 Consensus size: 49
10014323 ATGTGACCCG
* * *
10014333 AGGCTCAACTCATCTCTTGTAATATGAGTTGATTTTGAAAAAC-A-AAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAATAAA
*
10014380 AGG-TACAACTCACCTCTCGCAATATGAGTTGCTTTTTGAAAAACAGAAATTAAA
1 AGGCT-CAACTCACCTCTCGCAATATGAGTTG-ATTTTGAAAAAC---AA-TAAA
10014434 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TGAAA
10014475 GCAGAAGTAA
Statistics
Matches: 80, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
46 1 0.01
47 26 0.32
48 11 0.14
52 1 0.01
53 3 0.04
54 37 0.46
55 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (49 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAATAAA
Found at i:10027089 original size:93 final size:93
Alignment explanation
Indices: 10026977--10027148 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10026967 CGCCCATAAG
* *
10026977 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10027042 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
10027070 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10027135 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
10027149 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:10027145 original size:46 final size:46
Alignment explanation
Indices: 10026970--10027145 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
10026960 TGTAACCCGC
* * *
10026970 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
10027016 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
10027066 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
10027109 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
10027146 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:10034664 original size:93 final size:93
Alignment explanation
Indices: 10034552--10034723 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10034542 CGCCCATAAG
* *
10034552 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10034617 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
10034645 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10034710 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
10034724 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:10034720 original size:46 final size:46
Alignment explanation
Indices: 10034545--10034720 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
10034535 TGTAACCCGC
* * *
10034545 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
10034591 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
10034641 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
10034684 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
10034721 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:10038232 original size:17 final size:18
Alignment explanation
Indices: 10038210--10038251 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
10038200 AATCACAATC
10038210 TCACTA-CAATTTCAGTT
1 TCACTACCAATTTCAGTT
*
10038227 TCACTACCATTTTCAGTT
1 TCACTACCAATTTCAGTT
10038245 TACACTA
1 T-CACTA
10038252 ACTAAAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 11 0.50
19 5 0.23
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (18 bp):
TCACTACCAATTTCAGTT
Found at i:10042416 original size:2 final size:2
Alignment explanation
Indices: 10042411--10042451 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
10042401 AATTATTGCT
*
10042411 TA TA TA TA TA AA T- TA GTA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
10042452 AGGTTAAGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 2 0.06
2 30 0.88
3 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:10042989 original size:2 final size:2
Alignment explanation
Indices: 10042982--10043006 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10042972 ATTTATTACT
10042982 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10043007 TATTTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10046450 original size:26 final size:26
Alignment explanation
Indices: 10046421--10046528 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
10046411 TGATACAAAT
10046421 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10046447 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10046473 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10046499 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10046525 TGAT
1 TGAT
10046529 GGAAATTTTA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10051145 original size:3 final size:3
Alignment explanation
Indices: 10051132--10051220 Score: 117
Period size: 3 Copynumber: 30.0 Consensus size: 3
10051122 TATTTATTTC
* *
10051132 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
10051179 ATG ATA ATA ATG ATA ATA ATG ATA ATA ATG ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10051221 TATTATTATT
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
2 2 0.03
3 71 0.97
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:10051151 original size:9 final size:9
Alignment explanation
Indices: 10051132--10051216 Score: 145
Period size: 9 Copynumber: 9.6 Consensus size: 9
10051122 TATTTATTTC
10051132 ATAAT-ATA
1 ATAATGATA
*
10051140 ATAATAATA
1 ATAATGATA
*
10051149 ATAATAATA
1 ATAATGATA
10051158 ATAATGATA
1 ATAATGATA
10051167 ATAATGATA
1 ATAATGATA
10051176 ATAATGATA
1 ATAATGATA
10051185 ATAATGATA
1 ATAATGATA
10051194 ATAATGATA
1 ATAATGATA
10051203 ATAATGATA
1 ATAATGATA
10051212 ATAAT
1 ATAAT
10051217 AATATATTAT
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
8 5 0.07
9 70 0.93
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (9 bp):
ATAATGATA
Found at i:10051227 original size:3 final size:3
Alignment explanation
Indices: 10051221--10051364 Score: 243
Period size: 3 Copynumber: 48.0 Consensus size: 3
10051211 AATAATAATA
* * * *
10051221 TAT TAT TAT TAT TAT TAT CAT TAT TAT CAT TAT TAT CAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
10051269 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10051317 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10051365 CTTTTTACTT
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 131 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:10051534 original size:16 final size:16
Alignment explanation
Indices: 10051508--10051552 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
10051498 AATTCATATT
10051508 ATAATTTAAATAAAATA
1 ATAA-TTAAATAAAATA
*
10051525 ATAATTAAATAATATA
1 ATAATTAAATAAAATA
10051541 ATAATT-AATAAA
1 ATAATTAAATAAA
10051553 TTAAGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 5 0.19
16 17 0.65
17 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATTAAATAAAATA
Done.