Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 32 of 171
Found at i:14588108 original size:2 final size:2
Alignment explanation
Indices: 14588101--14588127 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14588091 AGTAGTAAAC
14588101 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
14588128 ATTCATTTTT
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:14605169 original size:31 final size:31
Alignment explanation
Indices: 14605134--14605198 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
14605124 TTATTTGGCA
* *
14605134 TAAATATAGATATAAAACTTTAATTATATTT
1 TAAATATAAATATAAAACTTTAATTATAATT
* * * *
14605165 TAAATGTAAATATGAAATTTTAATTTTAATT
1 TAAATATAAATATAAAACTTTAATTATAATT
14605196 TAA
1 TAA
14605199 TCGTACACAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (31 bp):
TAAATATAAATATAAAACTTTAATTATAATT
Found at i:14610686 original size:23 final size:23
Alignment explanation
Indices: 14610657--14610700 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
14610647 GTAGAGGAGC
14610657 TTATTAAAGGATAAAATTAAAGA
1 TTATTAAAGGATAAAATTAAAGA
*
14610680 TTATTAAAGGATAAATTTAAA
1 TTATTAAAGGATAAAATTAAA
14610701 ATGAGTTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (23 bp):
TTATTAAAGGATAAAATTAAAGA
Found at i:14610926 original size:17 final size:18
Alignment explanation
Indices: 14610906--14610942 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
14610896 ATTATTAGTT
*
14610906 TTAATCAAATATT-TTTA
1 TTAATAAAATATTATTTA
14610923 TTAATAAAATATTATTTA
1 TTAATAAAATATTATTTA
14610941 TT
1 TT
14610943 TTATGTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATAAAATATTATTTA
Found at i:14635886 original size:2 final size:2
Alignment explanation
Indices: 14635879--14635920 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
14635869 GTTGATTTGT
14635879 TA TA TA TA TA TA TA TA TA TA 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
14635921 CCTTATGAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14639254 original size:29 final size:28
Alignment explanation
Indices: 14639204--14639284 Score: 67
Period size: 29 Copynumber: 2.8 Consensus size: 28
14639194 TTTAAATATA
** *
14639204 TTAAAAATGTTTTTGAATATTTTTATACTT
1 TTAAAAATAATTTTGAATATTTCTA-A-TT
14639234 TT-AAAATAATTTT-AATGATTTCTAATT
1 TTAAAAATAATTTTGAAT-ATTTCTAATT
*
14639261 TTGAAAAATAATTTTTATATATTT
1 TT-AAAAATAATTTTGA-ATATTT
14639285 TTTTAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
27 4 0.09
28 4 0.09
29 26 0.60
30 7 0.16
31 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.54
Consensus pattern (28 bp):
TTAAAAATAATTTTGAATATTTCTAATT
Found at i:14646588 original size:26 final size:27
Alignment explanation
Indices: 14646550--14646614 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 27
14646540 GGACCCTTTA
*
14646550 AAAAATGATAAAAAAATTTCAAAT-T-TT
1 AAAAATTA-AAAAAAATTT-AAATCTCTT
14646577 AAAAATT-AAAAAAATTTAAATCTCTT
1 AAAAATTAAAAAAAATTTAAATCTCTT
*
14646603 AAAAACTAAAAA
1 AAAAATTAAAAA
14646615 GTAAAAAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 4 0.12
25 11 0.33
26 8 0.24
27 10 0.30
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (27 bp):
AAAAATTAAAAAAAATTTAAATCTCTT
Found at i:14646592 original size:25 final size:26
Alignment explanation
Indices: 14646558--14646614 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
14646548 TAAAAAATGA
*
14646558 TAAAAAAATTTCAAAT-T-TTAAAAAT
1 TAAAAAAATTT-AAATCTCTTAAAAAC
14646583 TAAAAAAATTTAAATCTCTTAAAAAC
1 TAAAAAAATTTAAATCTCTTAAAAAC
14646609 TAAAAA
1 TAAAAA
14646615 GTAAAAAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 4 0.14
25 12 0.41
26 13 0.45
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (26 bp):
TAAAAAAATTTAAATCTCTTAAAAAC
Found at i:14647188 original size:12 final size:13
Alignment explanation
Indices: 14647163--14647195 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
14647153 AACAGAATTT
14647163 TTAATTTAATTTAA
1 TTAA-TTAATTTAA
14647177 TTAATTAA-TTAA
1 TTAATTAATTTAA
14647189 TTAATTA
1 TTAATTA
14647196 TAATATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 4 0.21
14 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATTAATTTAA
Found at i:14651476 original size:17 final size:17
Alignment explanation
Indices: 14651454--14651486 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14651444 TTGAGGGAAA
14651454 AAAGAAAGAAAAAAGAG
1 AAAGAAAGAAAAAAGAG
*
14651471 AAAGAAAGAAAGAAGA
1 AAAGAAAGAAAAAAGA
14651487 AGGAAGAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAAAAAGAG
Found at i:14651895 original size:20 final size:21
Alignment explanation
Indices: 14651854--14651896 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
14651844 TAATTTACTT
14651854 TAATTTAATTTTGCTGGTTAG
1 TAATTTAATTTTGCTGGTTAG
* *
14651875 TAATTTTATTTTG-TTGTTAG
1 TAATTTAATTTTGCTGGTTAG
14651895 TA
1 TA
14651897 GTAGTAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.23, C:0.02, G:0.16, T:0.58
Consensus pattern (21 bp):
TAATTTAATTTTGCTGGTTAG
Found at i:14652024 original size:47 final size:47
Alignment explanation
Indices: 14651879--14652025 Score: 128
Period size: 49 Copynumber: 3.1 Consensus size: 47
14651869 GGTTAGTAAT
*
14651879 TTTATTTTGTTGTTAGTAGTAGTAGTAAGTAAAAACTATTGTTCATA
1 TTTATTTTGTTGTTAGTAGTAGTAGTAAGTAAAAAATATTGTTCATA
* * * * *
14651926 TTTA--TTGAT-TTA-AAAT-TTAATAATGTTTAAAAAA-ATTAGTT-AGTAA
1 TTTATTTTGTTGTTAGTAGTAGTAGTAA-G--TAAAAAATATT-GTTCA-T-A
14651972 TTTTATTTTGTTGTTAGTAGTAGTAGTAAGTAAAAAATATTGTTCATA
1 -TTTATTTTGTTGTTAGTAGTAGTAGTAAGTAAAAAATATTGTTCATA
14652020 TTTATT
1 TTTATT
14652026 GATTTAAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 28
0.66 0.10 0.25
Matches are distributed among these distances:
42 5 0.07
43 3 0.04
44 7 0.09
45 14 0.19
46 1 0.01
47 14 0.19
48 1 0.01
49 15 0.20
50 7 0.09
51 3 0.04
52 5 0.07
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (47 bp):
TTTATTTTGTTGTTAGTAGTAGTAGTAAGTAAAAAATATTGTTCATA
Found at i:14652273 original size:16 final size:16
Alignment explanation
Indices: 14652228--14652277 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
14652218 TAAACCTAAC
*
14652228 TAATTAATTACCAAAA
1 TAATTAATTATCAAAA
*
14652244 T-A-TAA-TATAAAAAA
1 TAATTAATTAT-CAAAA
14652258 TAATTAATTATCAAAA
1 TAATTAATTATCAAAA
14652274 TAAT
1 TAAT
14652278 ATCCTCCATC
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
13 2 0.07
14 8 0.30
15 2 0.07
16 12 0.44
17 3 0.11
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
TAATTAATTATCAAAA
Found at i:14653656 original size:43 final size:43
Alignment explanation
Indices: 14653574--14653658 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
14653564 ATTAACATGT
* * *
14653574 TAAATTATATTACTTGACTCGTGTTAATATGGTTGCATGTTAC
1 TAAAATATATTACTTGACTCGTATTAATATGCTTGCATGTTAC
* *
14653617 TAAAATATATTACTTTACTCTTATTAATAT-CTTGACATGTTA
1 TAAAATATATTACTTGACTCGTATTAATATGCTTG-CATGTTA
14653659 TTAATTGTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.46
Consensus pattern (43 bp):
TAAAATATATTACTTGACTCGTATTAATATGCTTGCATGTTAC
Found at i:14654326 original size:21 final size:21
Alignment explanation
Indices: 14654282--14654328 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
14654272 ACGAGCCACC
* *
14654282 GCAATACTTTACTCCTCTCGG
1 GCAATACTCTACTCCTCTCAG
14654303 GCAATACTCTACTCCTC-CAAG
1 GCAATACTCTACTCCTCTC-AG
14654324 GCAAT
1 GCAAT
14654329 TGGACCCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.26, C:0.34, G:0.13, T:0.28
Consensus pattern (21 bp):
GCAATACTCTACTCCTCTCAG
Found at i:14663233 original size:30 final size:29
Alignment explanation
Indices: 14663178--14663240 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
14663168 TAAAAATGTA
*
14663178 ATTTTTAAAGGATTAAATCAAAATTTTAT
1 ATTTTTAAAGGATCAAATCAAAATTTTAT
*
14663207 CATTTTTAAAGGATCAAAGT-ACAATTTTAT
1 -ATTTTTAAAGGATCAAA-TCAAAATTTTAT
14663237 ATTT
1 ATTT
14663241 ACTAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 4 0.13
30 25 0.83
31 1 0.03
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.44
Consensus pattern (29 bp):
ATTTTTAAAGGATCAAATCAAAATTTTAT
Found at i:14665152 original size:45 final size:43
Alignment explanation
Indices: 14665075--14665195 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 43
14665065 GAACGCTAGC
* *
14665075 GCGCTTACTG-TTTCACTTCGTGTGCCTACTGATTTGCGCTATGT
1 GCGCTTACTGATTGCACTT-GTGTGCCTACTGA-TTGCACTATGT
*
14665119 GCGCTTACTGATTGCACTATGTGCGCCTACTGATTGCACTATGT
1 GCGCTTACTGATTGCACT-TGTGTGCCTACTGATTGCACTATGT
* *
14665163 GTGCCTACTGGATTGCACTGTGTGTGCCTACTG
1 GCGCTTACT-GATTGCACT-TGTGTGCCTACTG
14665196 TTTCCCCAGC
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
44 27 0.40
45 39 0.58
46 1 0.01
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.36
Consensus pattern (43 bp):
GCGCTTACTGATTGCACTTGTGTGCCTACTGATTGCACTATGT
Found at i:14665180 original size:23 final size:22
Alignment explanation
Indices: 14665094--14665195 Score: 141
Period size: 22 Copynumber: 4.5 Consensus size: 22
14665084 GTTTCACTTC
*
14665094 GTGTGCCTACTGATTTGCGCTAT
1 GTGTGCCTACTGA-TTGCACTAT
* *
14665117 GTGCGCTTACTGATTGCACTAT
1 GTGTGCCTACTGATTGCACTAT
*
14665139 GTGCGCCTACTGATTGCACTAT
1 GTGTGCCTACTGATTGCACTAT
*
14665161 GTGTGCCTACTGGATTGCACTGT
1 GTGTGCCTACT-GATTGCACTAT
14665184 GTGTGCCTACTG
1 GTGTGCCTACTG
14665196 TTTCCCCAGC
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
22 40 0.56
23 32 0.44
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (22 bp):
GTGTGCCTACTGATTGCACTAT
Found at i:14671336 original size:22 final size:22
Alignment explanation
Indices: 14671293--14671368 Score: 98
Period size: 23 Copynumber: 3.4 Consensus size: 22
14671283 CACTTCATGT
* *
14671293 GCCTACTGATTTGCGCTATGTGC
1 GCCTACTGA-TTGCACTGTGTGC
14671316 GCCTACTGATTGCACTGTGTGC
1 GCCTACTGATTGCACTGTGTGC
*
14671338 GCCTACTGGATTGCACTGTGTGT
1 GCCTACT-GATTGCACTGTGTGC
*
14671361 GCTTACTG
1 GCCTACTG
14671369 TTTCCCCAGC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
22 19 0.40
23 29 0.60
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (22 bp):
GCCTACTGATTGCACTGTGTGC
Found at i:14674611 original size:62 final size:62
Alignment explanation
Indices: 14674540--14674665 Score: 234
Period size: 62 Copynumber: 2.0 Consensus size: 62
14674530 TTTACTAATT
* *
14674540 TCCTAAAACTTGATCTCAAGATCCGACACTATAGTTTTTCTCATAAAATTGGATATTCTCTC
1 TCCTAAAACTTGATCTCAAGATCCGACACTATAATTTTTCTCATAAAATTGGACATTCTCTC
14674602 TCCTAAAACTTGATCTCAAGATCCGACACTATAATTTTTCTCATAAAATTGGACATTCTCTC
1 TCCTAAAACTTGATCTCAAGATCCGACACTATAATTTTTCTCATAAAATTGGACATTCTCTC
14674664 TC
1 TC
14674666 TTCCACTACT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.37
Consensus pattern (62 bp):
TCCTAAAACTTGATCTCAAGATCCGACACTATAATTTTTCTCATAAAATTGGACATTCTCTC
Found at i:14680442 original size:23 final size:23
Alignment explanation
Indices: 14680416--14680479 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
14680406 TTAAATTCTT
*
14680416 TTATTCCTTTTTTTTCTTTTGCA
1 TTATTCCTTTTTTTTCTTTTGAA
* * *
14680439 TTATTCTTTTTTTTTAATTTTTAA
1 TTATTCCTTTTTTTT-CTTTTGAA
14680463 TT-TTCCTTTTTTTTCTT
1 TTATTCCTTTTTTTTCTT
14680480 CCTTTATAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 2 0.06
23 25 0.74
24 7 0.21
ACGTcount: A:0.11, C:0.12, G:0.02, T:0.75
Consensus pattern (23 bp):
TTATTCCTTTTTTTTCTTTTGAA
Found at i:14680876 original size:2 final size:2
Alignment explanation
Indices: 14680869--14680899 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14680859 AATAAAAAGA
14680869 AT AT 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 AT AT A
14680900 AGAGCAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14693000 original size:17 final size:18
Alignment explanation
Indices: 14692980--14693037 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 18
14692970 AAAAATAAAA
*
14692980 ATTTTATAAA-TATTTTG
1 ATTTTAAAAATTATTTTG
*
14692997 ATTTTAAAAATTATTTTCA
1 ATTTTAAAAATTATTTT-G
*
14693016 ATTTTTGAAAATTATTTTG
1 A-TTTTAAAAATTATTTTG
14693035 ATT
1 ATT
14693038 ATTTTGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 9 0.26
18 8 0.24
19 2 0.06
20 15 0.44
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (18 bp):
ATTTTAAAAATTATTTTG
Found at i:14698819 original size:48 final size:45
Alignment explanation
Indices: 14698750--14698945 Score: 175
Period size: 48 Copynumber: 4.2 Consensus size: 45
14698740 ACACTAGTGC
14698750 GCTCTCTG-ATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTCTCGT
1 GCTCTCTGTATTAGCACTGTGTGTGCTCTCTGTTTAGCAC-T-TCGT
* * *
14698796 GCTCTCTGTTATTAGCACTGTGTGTGCTATCCGATTAGCACTTCGTAT
1 GCTCTCTG-TATTAGCACTGTGTGTGCTCTCTGTTTAGCACTTCG--T
* * *
14698844 GCTCTCTGT-TTAGCACTTTGTGTACTCTCTGTTTAGCACTTTGTGT
1 GCTCTCTGTATTAGCACTGTGTGTGCTCTCTGTTTAGCAC-TT-CGT
* * *
14698890 GCTCTCTGT-TGCCTAGCACT-TATGTGCTCTCTGTTCAGTACTTCGGT
1 GCTCTCTGTAT---TAGCACTGTGTGTGCTCTCTGTTTAGCACTTC-GT
*
14698937 ACTCTCTGT
1 GCTCTCTGT
14698946 TTGTTCCGTT
Statistics
Matches: 125, Mismatches: 15, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
46 47 0.38
47 16 0.13
48 55 0.44
49 7 0.06
ACGTcount: A:0.12, C:0.25, G:0.21, T:0.42
Consensus pattern (45 bp):
GCTCTCTGTATTAGCACTGTGTGTGCTCTCTGTTTAGCACTTCGT
Found at i:14698898 original size:23 final size:23
Alignment explanation
Indices: 14698750--14698947 Score: 177
Period size: 23 Copynumber: 8.5 Consensus size: 23
14698740 ACACTAGTGC
* *
14698750 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
* *
14698773 GCTCTCTGTTTAGCACGTCT-CGT
1 GCTCTCTGTTTAGCAC-TTTGTGT
*
14698796 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTTTGTGT
* * * * *
14698821 GCTATCCGATTAGCACTTCGTAT
1 GCTCTCTGTTTAGCACTTTGTGT
14698844 GCTCTCTGTTTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
*
14698867 ACTCTCTGTTTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
*
14698890 GCTCTCTGTTGCCTAGCAC-TTATGT
1 GCTCTCTGTT---TAGCACTTTGTGT
* * *
14698915 GCTCTCTGTTCAGTACTTCG-GT
1 GCTCTCTGTTTAGCACTTTGTGT
*
14698937 ACTCTCTGTTT
1 GCTCTCTGTTT
14698948 GTTCCGTTTA
Statistics
Matches: 142, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
22 15 0.11
23 86 0.61
24 5 0.04
25 30 0.21
26 6 0.04
ACGTcount: A:0.12, C:0.25, G:0.21, T:0.42
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTTTGTGT
Found at i:14698918 original size:71 final size:68
Alignment explanation
Indices: 14698757--14698947 Score: 199
Period size: 71 Copynumber: 2.7 Consensus size: 68
14698747 TGCGCTCTCT
14698757 GATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTCTCGTG--CTCTCTGTTATTAGCACTGTGTG
1 GATTAGCACT-TGTGTGCTCTCTGTTTAGCAC-T-TCGTGTACTCTCTG-T-TTAGCACTGTGTG
14698820 TGCTATCC
61 TGCTATCC
* * *
14698828 GATTAGCACTTCGTATGCTCTCTGTTTAGCACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCT
1 GATTAGCACTT-GTGTGCTCTCTGTTTAGCACTTCGTGTACTCTCTGTTTAGCACTGTGTGTGCT
* *
14698893 CTCT
65 ATCC
* * * *
14698897 GTTGCCTAGCACTTATGTGCTCTCTGTTCAGTACTTCG-GTACTCTCTGTTT
1 GAT---TAGCACTTGTGTGCTCTCTGTTTAGCACTTCGTGTACTCTCTGTTT
14698948 GTTCCGTTTA
Statistics
Matches: 103, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
69 24 0.23
70 16 0.16
71 55 0.53
72 8 0.08
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.42
Consensus pattern (68 bp):
GATTAGCACTTGTGTGCTCTCTGTTTAGCACTTCGTGTACTCTCTGTTTAGCACTGTGTGTGCTA
TCC
Found at i:14701022 original size:16 final size:16
Alignment explanation
Indices: 14700993--14701034 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
14700983 AGAACAATTA
*
14700993 TGTTTAAAATAATTTT
1 TGTTTAAAACAATTTT
*
14701009 TGTTTGAAACAATTTT
1 TGTTTAAAACAATTTT
*
14701025 TATTTAAAAC
1 TGTTTAAAAC
14701035 TTCTTTCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (16 bp):
TGTTTAAAACAATTTT
Found at i:14714620 original size:21 final size:21
Alignment explanation
Indices: 14714594--14714634 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
14714584 CAGTATCTGC
14714594 AGTCAAGGACAAAACATTATA
1 AGTCAAGGACAAAACATTATA
14714615 AGTCAAGGACAAAACATTAT
1 AGTCAAGGACAAAACATTAT
14714635 CTGATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.20
Consensus pattern (21 bp):
AGTCAAGGACAAAACATTATA
Found at i:14741798 original size:48 final size:46
Alignment explanation
Indices: 14741725--14741848 Score: 115
Period size: 48 Copynumber: 2.6 Consensus size: 46
14741715 ACACTAGCGC
* * * *
14741725 GCTCTCTGTTTAGCACATCTCGTGCTCTCTATTAT-TAGCACTGTGTGT
1 GCTCTCTG-TTAGCAC-TTTGGTGCTCTCTATTATCCAGCACT-TATGT
* * *
14741773 GCTCTCTGATTAGCACTTTGTGTGCTCTTTGTTGTCCAGCACTTATGT
1 GCTCTCTG-TTAGCACTTTG-GTGCTCTCTATTATCCAGCACTTATGT
* *
14741821 GCTCTCTGTTAGTACTTTGGTACTCTCT
1 GCTCTCTGTTAGCACTTTGGTGCTCTCT
14741849 GGTTGTTCCG
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
46 7 0.11
47 12 0.19
48 38 0.60
49 6 0.10
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (46 bp):
GCTCTCTGTTAGCACTTTGGTGCTCTCTATTATCCAGCACTTATGT
Found at i:14747073 original size:93 final size:93
Alignment explanation
Indices: 14746914--14747339 Score: 581
Period size: 93 Copynumber: 4.7 Consensus size: 93
14746904 CTACTGAATT
* * * *
14746914 GAGTCAAGGG-GAAAACCCTCCAAGGTCAAATTCTGATGGAAAAAAAGAAACCAAAAACTTTAAA
1 GAGTC-AGGGTGAAAACCCTCCAAGGCCAAGTTCTGAAGGAAAAAAAGAAACCAATAACTTTAAA
* *
14746978 CCAAAGGTTACCGAATTGAGTCAGGGGGA
65 CCAAAGGCTACTGAATTGAGTCAGGGGGA
** * *
14747007 GAGTCAGGGTGAAAACCCTTTAAGGTCAAGTTCTAAAGGAAAAAAAGAAACCAATAACTTTAAAC
1 GAGTCAGGGTGAAAACCCTCCAAGGCCAAGTTCTGAAGGAAAAAAAGAAACCAATAACTTTAAAC
14747072 CAAAGGCTACTGAATTGAGTCAGGGGGA
66 CAAAGGCTACTGAATTGAGTCAGGGGGA
* *
14747100 GAATCAGGGTGAAAACCCTCCAAGGCCAAGTTCTGAAGGAAAGAAAGAAACCAATAACTTTAAAC
1 GAGTCAGGGTGAAAACCCTCCAAGGCCAAGTTCTGAAGGAAAAAAAGAAACCAATAACTTTAAAC
14747165 CAAAGGCTACTGAATTGAGTCAGGGGGA
66 CAAAGGCTACTGAATTGAGTCAGGGGGA
* *
14747193 GAGTCAGGGGGAAAACCCTCCAAGGCCAAGTTCTGAAGGAAAGAAAGAAACCAATAACTTTAAAC
1 GAGTCAGGGTGAAAACCCTCCAAGGCCAAGTTCTGAAGGAAAAAAAGAAACCAATAACTTTAAAC
* *
14747258 CAAAGGTTACTAAATTGAGTC-------
66 CAAAGGCTACTGAATTGAGTCAGGGGGA
* * *
14747279 -A---AGGG-GAAAACCCTCCAAGGCCAAGTTCTGAAGGAAAGAAAGAAACGAATAACTTCAAAC
1 GAGTCAGGGTGAAAACCCTCCAAGGCCAAGTTCTGAAGGAAAAAAAGAAACCAATAACTTTAAAC
14747339 C
66 C
14747340 CAATACTTTA
Statistics
Matches: 312, Mismatches: 20, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
81 54 0.17
82 4 0.01
85 1 0.00
92 4 0.01
93 249 0.80
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.16
Consensus pattern (93 bp):
GAGTCAGGGTGAAAACCCTCCAAGGCCAAGTTCTGAAGGAAAAAAAGAAACCAATAACTTTAAAC
CAAAGGCTACTGAATTGAGTCAGGGGGA
Found at i:14747424 original size:33 final size:33
Alignment explanation
Indices: 14747382--14747478 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 33
14747372 AGGGGAACAC
*
14747382 CACAGAAACCCAATCACTCCCCAAACCCAAGCA
1 CACAGAAACCCAACCACTCCCCAAACCCAAGCA
14747415 CACAGAAACCCAACCACT-CCCAAACCCAAGCA
1 CACAGAAACCCAACCACTCCCCAAACCCAAGCA
*
14747447 CACAGAAACCCAACCACTCCTCAAACCCAAGC
1 CACAGAAACCCAACCACTCCCCAAACCCAAGC
14747479 TTGAAAAGAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
32 32 0.52
33 29 0.48
ACGTcount: A:0.42, C:0.46, G:0.06, T:0.05
Consensus pattern (33 bp):
CACAGAAACCCAACCACTCCCCAAACCCAAGCA
Found at i:14747425 original size:16 final size:16
Alignment explanation
Indices: 14747404--14747459 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
14747394 ATCACTCCCC
14747404 AAACCCAAGCACACAG
1 AAACCCAAGCACACAG
* * **
14747420 AAACCCAACCACTCCC
1 AAACCCAAGCACACAG
14747436 AAACCCAAGCACACAG
1 AAACCCAAGCACACAG
14747452 AAACCCAA
1 AAACCCAA
14747460 CCACTCCTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.48, C:0.43, G:0.07, T:0.02
Consensus pattern (16 bp):
AAACCCAAGCACACAG
Found at i:14762807 original size:23 final size:24
Alignment explanation
Indices: 14762776--14762822 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
14762766 TAATATATGT
* * *
14762776 GAACCTAAATATTTAAAT-TTTCA
1 GAACATAAAAATTGAAATGTTTCA
14762799 GAACATAAAAATTGAAATGTTTCA
1 GAACATAAAAATTGAAATGTTTCA
14762823 CAGCAGCGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.34
Consensus pattern (24 bp):
GAACATAAAAATTGAAATGTTTCA
Found at i:14763954 original size:22 final size:20
Alignment explanation
Indices: 14763929--14764004 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 20
14763919 GTTTTAGTGC
14763929 TTTTTTACTGTTCTGGTTGCTG
1 TTTTTTACTGTT-TGGTTG-TG
* **
14763951 TTTTTTACTGTTTTGACGTTG
1 TTTTTTACTGTTTGGTTG-TG
14763972 TTTTTTACTGTTTTGGTAT-T-
1 TTTTTTACTG-TTTGGT-TGTG
14763992 TTTTTTACTGTTT
1 TTTTTTACTGTTT
14764005 TGATGCTGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
19 3 0.07
20 10 0.22
21 16 0.36
22 16 0.36
ACGTcount: A:0.08, C:0.09, G:0.17, T:0.66
Consensus pattern (20 bp):
TTTTTTACTGTTTGGTTGTG
Found at i:14763973 original size:21 final size:21
Alignment explanation
Indices: 14763949--14764007 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
14763939 TTCTGGTTGC
14763949 TGTTTTTTACTGTTTTGACGT-
1 TGTTTTTTACTGTTTTGA-GTA
14763970 TGTTTTTTACTGTTTTG-GTA
1 TGTTTTTTACTGTTTTGAGTA
*
14763990 TTTTTTTTACTGTTTTGA
1 TGTTTTTTACTGTTTTGA
14764008 TGCTGTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 2 0.06
20 16 0.46
21 17 0.49
ACGTcount: A:0.10, C:0.07, G:0.17, T:0.66
Consensus pattern (21 bp):
TGTTTTTTACTGTTTTGAGTA
Found at i:14763995 original size:20 final size:19
Alignment explanation
Indices: 14763929--14764006 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 19
14763919 GTTTTAGTGC
*
14763929 TTTTTTACTGTTCTGGTTGCT
1 TTTTTTACTGTTTTGGTT--T
*
14763950 GTTTTTTACTGTTTTGACGTTG
1 -TTTTTTACTGTTTTG--GTTT
14763972 TTTTTTACTGTTTTGGTATT
1 TTTTTTACTGTTTTGGT-TT
14763992 TTTTTTACTGTTTTG
1 TTTTTTACTGTTTTG
14764007 ATGCTGTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
19 2 0.04
20 16 0.32
21 15 0.30
22 14 0.28
24 3 0.06
ACGTcount: A:0.08, C:0.09, G:0.18, T:0.65
Consensus pattern (19 bp):
TTTTTTACTGTTTTGGTTT
Found at i:14764041 original size:24 final size:24
Alignment explanation
Indices: 14764014--14764083 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
14764004 TTGATGCTGT
14764014 TATTTTTGTTACTATTTTTGTTGC
1 TATTTTTGTTACTATTTTTGTTGC
* * *
14764038 TATTTTTGCTATTA-TTTTGTTTC
1 TATTTTTGTTACTATTTTTGTTGC
* *
14764061 TGTTTTTGTTGCTATTTTTGTTG
1 TATTTTTGTTACTATTTTTGTTG
14764084 TTTTGCTGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 18 0.49
24 19 0.51
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (24 bp):
TATTTTTGTTACTATTTTTGTTGC
Found at i:14764083 original size:12 final size:12
Alignment explanation
Indices: 14764014--14764083 Score: 79
Period size: 12 Copynumber: 5.9 Consensus size: 12
14764004 TTGATGCTGT
*
14764014 TATTTTTGTTAC
1 TATTTTTGTTGC
14764026 TATTTTTGTTGC
1 TATTTTTGTTGC
* **
14764038 TATTTTTGCTAT
1 TATTTTTGTTGC
*
14764050 TA-TTTTGTTTC
1 TATTTTTGTTGC
*
14764061 TGTTTTTGTTGC
1 TATTTTTGTTGC
14764073 TATTTTTGTTG
1 TATTTTTGTTG
14764084 TTTTGCTGTA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
11 7 0.15
12 40 0.85
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (12 bp):
TATTTTTGTTGC
Found at i:14764142 original size:44 final size:44
Alignment explanation
Indices: 14764061--14764144 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
14764051 ATTTTGTTTC
* * ***
14764061 TGTTTTTGTTGCTATTTTTGTTGTTTTGCTGTAATTTTTACTGT
1 TGTTTTGGTTGCTATTTTAGTTGTTTAAATGTAATTTTTACTGT
* *
14764105 TGTTTTGGTTGTTATTTTAGTTGTTTAAATGTTATTTTTA
1 TGTTTTGGTTGCTATTTTAGTTGTTTAAATGTAATTTTTA
14764145 TTCGTTTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.13, C:0.04, G:0.18, T:0.65
Consensus pattern (44 bp):
TGTTTTGGTTGCTATTTTAGTTGTTTAAATGTAATTTTTACTGT
Found at i:14764192 original size:22 final size:22
Alignment explanation
Indices: 14764149--14764192 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
14764139 TTTTTATTCG
* * *
14764149 TTTTTACTATTGTTTCACTATT
1 TTTTTAATATTATTTCAATATT
*
14764171 TTTTTAATATTATTTGAATATT
1 TTTTTAATATTATTTCAATATT
14764193 GTAGAATTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTTTAATATTATTTCAATATT
Found at i:14766738 original size:17 final size:16
Alignment explanation
Indices: 14766706--14766745 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
14766696 CATATAATTT
14766706 ATAAAAATTTTAAAAA
1 ATAAAAATTTTAAAAA
14766722 ATCAAAATATTTT-AAAA
1 AT-AAAA-ATTTTAAAAA
14766739 ATAAAAA
1 ATAAAAA
14766746 AATTCATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.05
16 6 0.27
17 10 0.45
18 5 0.23
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAAAATTTTAAAAA
Found at i:14766746 original size:18 final size:17
Alignment explanation
Indices: 14766708--14766746 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
14766698 TATAATTTAT
14766708 AAAAATTTTAAAAAATCA
1 AAAAATTTTAAAAAAT-A
*
14766726 AAATATTTT-AAAAATA
1 AAAAATTTTAAAAAATA
14766742 AAAAA
1 AAAAA
14766747 ATTCATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 5 0.26
17 6 0.32
18 8 0.42
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAATTTTAAAAAATA
Found at i:14779041 original size:7 final size:7
Alignment explanation
Indices: 14779029--14779061 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
14779019 GGCCTGTCAT
14779029 CCATTAC
1 CCATTAC
14779036 CCATTAC
1 CCATTAC
14779043 CCATTAC
1 CCATTAC
14779050 CCATTAC
1 CCATTAC
14779057 CCATT
1 CCATT
14779062 TGCCATAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.42, G:0.00, T:0.30
Consensus pattern (7 bp):
CCATTAC
Found at i:14781062 original size:22 final size:21
Alignment explanation
Indices: 14781005--14781062 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
14780995 TAAAAATGAT
* *
14781005 AAATTTTAATTTAATTTTTTAA
1 AAATTATAATTT-ATTTTGTAA
*
14781027 AAATTATATTTTTATTATTGTAA
1 AAATTATA-ATTTATT-TTGTAA
14781050 AAATTATAATTTA
1 AAATTATAATTTA
14781063 ACTTCGATCC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 14 0.47
23 16 0.53
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
AAATTATAATTTATTTTGTAA
Found at i:14784788 original size:8 final size:8
Alignment explanation
Indices: 14784775--14784799 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14784765 CTAAGTTGAC
14784775 AGGGAAAG
1 AGGGAAAG
14784783 AGGGAAAG
1 AGGGAAAG
14784791 AGGGAAAG
1 AGGGAAAG
14784799 A
1 A
14784800 AAAGATACGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (8 bp):
AGGGAAAG
Found at i:14795961 original size:22 final size:23
Alignment explanation
Indices: 14795936--14795983 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
14795926 AAAGAAGTTA
* *
14795936 TTTTGTTGTTGTTTTTCTACT-G
1 TTTTGCTGTTGTTTTCCTACTAG
14795958 TTTTGCTGTTGTTTTCCTACTAG
1 TTTTGCTGTTGTTTTCCTACTAG
14795981 TTT
1 TTT
14795984 CTCACTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.06, C:0.12, G:0.17, T:0.65
Consensus pattern (23 bp):
TTTTGCTGTTGTTTTCCTACTAG
Found at i:14799197 original size:20 final size:20
Alignment explanation
Indices: 14799172--14799213 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
14799162 TCCATACACG
14799172 AAAATCATACCTAGCAAGGA
1 AAAATCATACCTAGCAAGGA
14799192 AAAATCATACCTAGCAAGGA
1 AAAATCATACCTAGCAAGGA
14799212 AA
1 AA
14799214 TAAGAGATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.19, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAATCATACCTAGCAAGGA
Found at i:14807903 original size:42 final size:42
Alignment explanation
Indices: 14807844--14807930 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
14807834 CATGTCAGCA
* * * * * *
14807844 AAAACTCGTTTAGCTAGAC-ATGTTTTCCTGCCAATTGTGTAG
1 AAAACTCGCTCAGCTAGACGA-GCTTTACTGACAACTGTGTAG
14807886 AAAACTCGCTCAGCTAGACGAGCTTTACTGACAACTGTGTAG
1 AAAACTCGCTCAGCTAGACGAGCTTTACTGACAACTGTGTAG
14807928 AAA
1 AAA
14807931 GCATGCTCAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (42 bp):
AAAACTCGCTCAGCTAGACGAGCTTTACTGACAACTGTGTAG
Found at i:14810391 original size:16 final size:17
Alignment explanation
Indices: 14810372--14810406 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
14810362 TGTATTTTAA
14810372 TATTTTCAATAAAT-TT
1 TATTTTCAATAAATATT
*
14810388 TATTTTTAATAAATATT
1 TATTTTCAATAAATATT
14810405 TA
1 TA
14810407 AATTAAATAT
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:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTTTCAATAAATATT
Found at i:14813402 original size:5 final size:5
Alignment explanation
Indices: 14813392--14813419 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
14813382 CTACAATCCA
14813392 AAACC AAACC AAACC AAACC AAACC AAA
1 AAACC AAACC AAACC AAACC AAACC AAA
14813420 AGAGTTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACC
Found at i:14821226 original size:13 final size:13
Alignment explanation
Indices: 14821208--14821232 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14821198 GGGCGCTTGT
14821208 AGCCCAACATTCG
1 AGCCCAACATTCG
14821221 AGCCCAACATTC
1 AGCCCAACATTC
14821233 TAAAGAGATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.40, G:0.12, T:0.16
Consensus pattern (13 bp):
AGCCCAACATTCG
Found at i:14827070 original size:40 final size:38
Alignment explanation
Indices: 14827002--14827095 Score: 93
Period size: 40 Copynumber: 2.4 Consensus size: 38
14826992 ACCAGAATGG
* *
14827002 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAG-AATAAAGTGA
* *
14827042 CACCCAGTGTCTCATCGGCCTAGCCGAAG--TAAAGTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAATAAAGTGA
* *
14827079 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
14827096 TATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
37 21 0.46
40 22 0.48
41 3 0.07
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAATAAAGTGA
Found at i:14827255 original size:12 final size:12
Alignment explanation
Indices: 14827240--14827276 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
14827230 ACAATTCATA
14827240 TCACTTTCAATT
1 TCACTTTCAATT
*
14827252 TCACTTTCACTT
1 TCACTTTCAATT
14827264 TCACTTTCAATT
1 TCACTTTCAATT
14827276 T
1 T
14827277 TGATCACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (12 bp):
TCACTTTCAATT
Found at i:14827259 original size:6 final size:6
Alignment explanation
Indices: 14827240--14827272 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
14827230 ACAATTCATA
*
14827240 TCACTT TCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCA
14827273 ATTTTGATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.48
Consensus pattern (6 bp):
TCACTT
Found at i:14835701 original size:17 final size:19
Alignment explanation
Indices: 14835679--14835720 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
14835669 TAAAAAATAA
14835679 TTTTTTTC-T-TCATAATC
1 TTTTTTTCTTGTCATAATC
*
14835696 TTTTTTTCTTGTCATGATC
1 TTTTTTTCTTGTCATAATC
14835715 TTTTTT
1 TTTTTT
14835721 CTAACATCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 1 0.05
19 13 0.59
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTTTTTCTTGTCATAATC
Found at i:14836716 original size:48 final size:48
Alignment explanation
Indices: 14836661--14836753 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 48
14836651 TTGAAAAAAA
*
14836661 CATCTTAAATAAGATATTAATAGATGAAGTATAC-AGCATATACCAAAC
1 CATCTTAAATAAGAGATTAATAGATGAAGTATACTA-CATATACCAAAC
* * *
14836709 CATCTTAAGTAAGAGATTAATGGATGAAGTATGCTACATATACCA
1 CATCTTAAATAAGAGATTAATAGATGAAGTATACTACATATACCA
14836754 TAATAAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (48 bp):
CATCTTAAATAAGAGATTAATAGATGAAGTATACTACATATACCAAAC
Found at i:14839981 original size:26 final size:26
Alignment explanation
Indices: 14839952--14840003 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
14839942 AATTGATGAG
14839952 ATGTTTGTAACATAAAATATTAAAAA
1 ATGTTTGTAACATAAAATATTAAAAA
14839978 ATGTTTGTAACATAAAATATTAAAAA
1 ATGTTTGTAACATAAAATATTAAAAA
14840004 TAATCTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (26 bp):
ATGTTTGTAACATAAAATATTAAAAA
Found at i:14846784 original size:14 final size:13
Alignment explanation
Indices: 14846765--14846804 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
14846755 ACATACGGGG
14846765 TTCTTTTTTTCTCT
1 TTCTTTTTTT-TCT
14846779 TTCTTTTCTTTTCT
1 TTCTTTT-TTTTCT
*
14846793 TTATTTTTTTTC
1 TTCTTTTTTTTC
14846805 ACCAACATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 5 0.21
14 16 0.67
15 3 0.12
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (13 bp):
TTCTTTTTTTTCT
Found at i:14857197 original size:40 final size:41
Alignment explanation
Indices: 14857111--14857212 Score: 179
Period size: 40 Copynumber: 2.5 Consensus size: 41
14857101 AAAACTAAAA
*
14857111 AAACATGGAAACAGAACTTAATTTAGTAATAATTCCTTTTT
1 AAACATGGAAACAGAACTTAATTTAGTAATAATTCCTTTCT
*
14857152 AAACATGGAAACAAAACTTAATTTAGTAAT-ATTCCTTTCT
1 AAACATGGAAACAGAACTTAATTTAGTAATAATTCCTTTCT
14857192 AAACATGGAAACAGAACTTAA
1 AAACATGGAAACAGAACTTAA
14857213 CATGTCATGC
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
40 29 0.50
41 29 0.50
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (41 bp):
AAACATGGAAACAGAACTTAATTTAGTAATAATTCCTTTCT
Found at i:14883764 original size:2 final size:2
Alignment explanation
Indices: 14883757--14883783 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14883747 ACCATTATCA
14883757 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
14883784 ACACACACAC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:14894167 original size:21 final size:21
Alignment explanation
Indices: 14894142--14894191 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
14894132 AACTAAATTC
14894142 TTAAATTT-AAATATATGAA-AA
1 TTAAATTTCAAAT-TAT-AATAA
*
14894163 TTAAATTTCAAATTATAATAT
1 TTAAATTTCAAATTATAATAA
14894184 TTAAATTT
1 TTAAATTT
14894192 TTACTCGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 20 0.77
22 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TTAAATTTCAAATTATAATAA
Found at i:14894528 original size:26 final size:25
Alignment explanation
Indices: 14894483--14894536 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
14894473 TAAAATTTAA
14894483 TATTTAATTTGTATGCTTTAATTTTT
1 TATTTAATTTGTATGCTTT-ATTTTT
*
14894509 TATTTAATTTG-ATTCTTTTATTTTT
1 TATTTAATTTGTATGC-TTTATTTTT
14894534 TAT
1 TAT
14894537 GATTTGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.69
Consensus pattern (25 bp):
TATTTAATTTGTATGCTTTATTTTT
Found at i:14894532 original size:25 final size:26
Alignment explanation
Indices: 14894483--14894536 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
14894473 TAAAATTTAA
14894483 TATTTAATTTGTATGCTTTAATTTTT
1 TATTTAATTTGTATGCTTTAATTTTT
* *
14894509 TATTTAATTTG-ATTCTTTTATTTTT
1 TATTTAATTTGTATGCTTTAATTTTT
14894534 TAT
1 TAT
14894537 GATTTGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.69
Consensus pattern (26 bp):
TATTTAATTTGTATGCTTTAATTTTT
Found at i:14896817 original size:2 final size:2
Alignment explanation
Indices: 14896810--14896844 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14896800 AATAGAACTG
*
14896810 CT CT CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
14896845 GCGTTCATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (2 bp):
CT
Found at i:14898429 original size:6 final size:6
Alignment explanation
Indices: 14898418--14898442 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14898408 GAGACAAACA
14898418 GGCATG GGCATG GGCATG GGCATG G
1 GGCATG GGCATG GGCATG GGCATG G
14898443 CATTAGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.52, T:0.16
Consensus pattern (6 bp):
GGCATG
Found at i:14906519 original size:36 final size:37
Alignment explanation
Indices: 14906468--14906548 Score: 128
Period size: 36 Copynumber: 2.2 Consensus size: 37
14906458 TAACATTGCT
* *
14906468 AAATATATTAGGTTAATAAATATTAAATCTTTTAAA-
1 AAATATATTAGGTTAATAAATATTAAATATTCTAAAC
*
14906504 AAATATATTATGTTAATAAATATTAAATATTCTAAAC
1 AAATATATTAGGTTAATAAATATTAAATATTCTAAAC
14906541 AAATATAT
1 AAATATAT
14906549 ATTTTATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 33 0.80
37 8 0.20
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (37 bp):
AAATATATTAGGTTAATAAATATTAAATATTCTAAAC
Found at i:14906524 original size:17 final size:17
Alignment explanation
Indices: 14906467--14906526 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
14906457 GTAACATTGC
*
14906467 TAAATATATTAGGTTAA
1 TAAATATATTATGTTAA
* * *
14906484 TAAATATTAAATCTTTTAA
1 TAAATA-T-ATTATGTTAA
*
14906503 AAAATATATTATGTTAA
1 TAAATATATTATGTTAA
14906520 TAAATAT
1 TAAATAT
14906527 TAAATATTCT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
17 19 0.59
18 2 0.06
19 11 0.34
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (17 bp):
TAAATATATTATGTTAA
Found at i:14916396 original size:31 final size:31
Alignment explanation
Indices: 14916343--14916408 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
14916333 GTATTCATTT
14916343 ATTTAAATGTACACATTAAATCAAAATTAAA
1 ATTTAAATGTACACATTAAATCAAAATTAAA
* * * *
14916374 ATTT-AATGTATACATATGAATCACAATTCAA
1 ATTTAAATGTACACAT-TAAATCAAAATTAAA
14916405 ATTT
1 ATTT
14916409 TTTTACATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 10 0.33
31 20 0.67
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (31 bp):
ATTTAAATGTACACATTAAATCAAAATTAAA
Found at i:14916905 original size:17 final size:16
Alignment explanation
Indices: 14916885--14916920 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14916875 TCTCTCTCAT
14916885 TTATGATTCTCTTTTAA
1 TTATG-TTCTCTTTTAA
*
14916902 TTATGTTTTCTTTTAA
1 TTATGTTCTCTTTTAA
14916918 TTA
1 TTA
14916921 AATAAGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.22, C:0.08, G:0.06, T:0.64
Consensus pattern (16 bp):
TTATGTTCTCTTTTAA
Found at i:14923216 original size:16 final size:16
Alignment explanation
Indices: 14923195--14923226 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14923185 ACGGTAATGC
*
14923195 CTAATTGTATATGTAT
1 CTAATTATATATGTAT
14923211 CTAATTATATATGTAT
1 CTAATTATATATGTAT
14923227 GTTTTGGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.50
Consensus pattern (16 bp):
CTAATTATATATGTAT
Found at i:14923512 original size:17 final size:17
Alignment explanation
Indices: 14923490--14923524 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
14923480 ACAAAATGAA
14923490 AGGATTGTGTGGTAGCC
1 AGGATTGTGTGGTAGCC
14923507 AGGATTGTGTGGTAGCC
1 AGGATTGTGTGGTAGCC
14923524 A
1 A
14923525 TGAGATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.11, G:0.40, T:0.29
Consensus pattern (17 bp):
AGGATTGTGTGGTAGCC
Found at i:14924053 original size:27 final size:26
Alignment explanation
Indices: 14924023--14924073 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
14924013 ATAGTTGAGC
14924023 GTCAAAATGACCAAAAAAAAAAAAAGG
1 GTCAAAATGA-CAAAAAAAAAAAAAGG
* * *
14924050 GTCACAATGACAAAATAAATAAAA
1 GTCAAAATGACAAAAAAAAAAAAA
14924074 TTAGGAGCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (26 bp):
GTCAAAATGACAAAAAAAAAAAAAGG
Found at i:14936883 original size:9 final size:9
Alignment explanation
Indices: 14936869--14936900 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
14936859 TTTAGGCCTC
14936869 AACTCTTTT
1 AACTCTTTT
14936878 AACTCTTTT
1 AACTCTTTT
14936887 AACTCTTTT
1 AACTCTTTT
14936896 AACTC
1 AACTC
14936901 GTCCACATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (9 bp):
AACTCTTTT
Found at i:14943574 original size:25 final size:24
Alignment explanation
Indices: 14943532--14943585 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
14943522 ATTTTATATT
* * *
14943532 AATATTTATGTTATTATTAAATAA
1 AATAATTATATTAATATTAAATAA
14943556 ATATAATTATATTAATATTAAATAA
1 A-ATAATTATATTAATATTAAATAA
14943581 AATAA
1 AATAA
14943586 AAATCCCCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
AATAATTATATTAATATTAAATAA
Found at i:14943740 original size:18 final size:18
Alignment explanation
Indices: 14943719--14943759 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
14943709 ATTTTTCAAA
*
14943719 ATATTTATGTATTTATAT
1 ATATTTATGTATATATAT
* *
14943737 ATATGTGTGTATATATAT
1 ATATTTATGTATATATAT
14943755 ATATT
1 ATATT
14943760 AAATTTTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (18 bp):
ATATTTATGTATATATAT
Found at i:14946615 original size:19 final size:20
Alignment explanation
Indices: 14946580--14946617 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
14946570 TCAATTAGTT
*
14946580 AGTTAGCTGGGTAGTTAATC
1 AGTTAGCTGGATAGTTAATC
14946600 AGTTAGCT-GATAGTTAAT
1 AGTTAGCTGGATAGTTAAT
14946618 TTGTATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (20 bp):
AGTTAGCTGGATAGTTAATC
Found at i:14965210 original size:3 final size:3
Alignment explanation
Indices: 14965204--14965238 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
14965194 AATAATACAA
14965204 AAG AAG AAG AA- AATG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG AAG AA
14965239 AACGTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 26 0.87
4 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:14965223 original size:12 final size:11
Alignment explanation
Indices: 14965202--14965240 Score: 60
Period size: 12 Copynumber: 3.4 Consensus size: 11
14965192 CAAATAATAC
14965202 AAAAGAAGAAG
1 AAAAGAAGAAG
14965213 AAAATGAAGAAG
1 AAAA-GAAGAAG
14965225 AAGAAGAAGAAG
1 AA-AAGAAGAAG
14965237 AAAA
1 AAAA
14965241 CGTTAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 6 0.23
12 18 0.69
13 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.03
Consensus pattern (11 bp):
AAAAGAAGAAG
Found at i:14966021 original size:17 final size:17
Alignment explanation
Indices: 14965999--14966034 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
14965989 ATGCTGATAA
14965999 TGCAGAGGCAGTGGCAG
1 TGCAGAGGCAGTGGCAG
14966016 TGCAGAGGCAGTGGCAG
1 TGCAGAGGCAGTGGCAG
14966033 TG
1 TG
14966035 TTAGCAGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.17, G:0.47, T:0.14
Consensus pattern (17 bp):
TGCAGAGGCAGTGGCAG
Found at i:14968693 original size:23 final size:23
Alignment explanation
Indices: 14968667--14968787 Score: 156
Period size: 23 Copynumber: 5.2 Consensus size: 23
14968657 ACACTAGCGC
14968667 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
14968690 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
14968713 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
14968738 GCTCTCCGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
14968761 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
14968784 GCTC
1 GCTC
14968788 AGTACTTTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
22 4 0.05
23 62 0.72
24 1 0.01
25 16 0.19
26 3 0.03
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:14968736 original size:48 final size:46
Alignment explanation
Indices: 14968667--14968787 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
14968657 ACACTAGCGC
* *
14968667 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT-GT
*
14968713 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
*
14968761 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
14968788 AGTACTTTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
Found at i:14968816 original size:39 final size:39
Alignment explanation
Indices: 14968752--14968826 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
14968742 TCCGATTAGC
*
14968752 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
14968791 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
14968827 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:14975144 original size:23 final size:23
Alignment explanation
Indices: 14975118--14975238 Score: 156
Period size: 23 Copynumber: 5.2 Consensus size: 23
14975108 ACACTAGCGC
14975118 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
14975141 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
14975164 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
14975189 GCTCTCCGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
14975212 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
14975235 GCTC
1 GCTC
14975239 AGTACTTTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
22 4 0.05
23 62 0.72
24 1 0.01
25 16 0.19
26 3 0.03
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:14975187 original size:48 final size:46
Alignment explanation
Indices: 14975118--14975238 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
14975108 ACACTAGCGC
* *
14975118 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT-GT
*
14975164 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
*
14975212 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
14975239 AGTACTTTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
Found at i:14987404 original size:3 final size:3
Alignment explanation
Indices: 14987396--14987426 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
14987386 TGTAAGCCAT
14987396 AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
14987427 AGGGAACAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14992609 original size:27 final size:28
Alignment explanation
Indices: 14992571--14992626 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
14992561 CTTTTTTTTT
14992571 CGGAATAATATGAAAAAG-ATTAATTAC
1 CGGAATAATATGAAAAAGAATTAATTAC
14992598 CGGAATAATATGAAAAAGAAATTAATTAC
1 CGGAATAATATGAAAAAG-AATTAATTAC
14992627 TAAAATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 18 0.67
29 9 0.33
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (28 bp):
CGGAATAATATGAAAAAGAATTAATTAC
Found at i:14992633 original size:29 final size:27
Alignment explanation
Indices: 14992574--14992637 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 27
14992564 TTTTTTTCGG
**
14992574 AATAATATGAAAAAGATTAATTACCGG
1 AATAATATGAAAAAGATTAATTACCAA
*
14992601 AATAATATGAAAAAGAAATTAATTACTAA
1 AATAATATGAAAAAG--ATTAATTACCAA
14992630 AATAATAT
1 AATAATAT
14992638 AGGTTGAGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 15 0.47
29 17 0.53
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.28
Consensus pattern (27 bp):
AATAATATGAAAAAGATTAATTACCAA
Found at i:14993080 original size:27 final size:25
Alignment explanation
Indices: 14993050--14993101 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
14993040 TTCGATCGAC
*
14993050 TAATTAAAAGTTTTTATATTATTCCAA
1 TAATT-AAAG-TTTTATATTATCCCAA
*
14993077 TAATTAATGTTTTATATTATCCCAA
1 TAATTAAAGTTTTATATTATCCCAA
14993102 AATACAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 15 0.65
26 3 0.13
27 5 0.22
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (25 bp):
TAATTAAAGTTTTATATTATCCCAA
Found at i:14994218 original size:17 final size:17
Alignment explanation
Indices: 14994196--14994228 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14994186 AAATTTTTCA
14994196 TTTAAACCTTTAAATTT
1 TTTAAACCTTTAAATTT
*
14994213 TTTAAACTTTTAAATT
1 TTTAAACCTTTAAATT
14994229 ATTAAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAAACCTTTAAATTT
Found at i:14994233 original size:16 final size:17
Alignment explanation
Indices: 14994197--14994234 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
14994187 AATTTTTCAT
*
14994197 TTAAACCTTTAAATTTT
1 TTAAACCTTTAAATTTA
*
14994214 TTAAACTTTTAAA-TTA
1 TTAAACCTTTAAATTTA
14994230 TTAAA
1 TTAAA
14994235 GATAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAACCTTTAAATTTA
Found at i:14995051 original size:22 final size:22
Alignment explanation
Indices: 14995023--14995083 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
14995013 TTAACATTAA
14995023 AATAAATAATTTAACAATATA-T
1 AATAAATAATTTAA-AATATATT
*
14995045 AATAAATAACTTATAAATATATT
1 AATAAATAATTTA-AAATATATT
*
14995068 AATAACATTATTTAAA
1 AATAA-ATAATTTAAA
14995084 TTACAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 18 0.55
23 9 0.27
24 6 0.18
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (22 bp):
AATAAATAATTTAAAATATATT
Found at i:15010581 original size:2 final size:2
Alignment explanation
Indices: 15010576--15010602 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15010566 TATCTCCTAT
15010576 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
15010603 TTTGTTTTCC
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:15024444 original size:10 final size:10
Alignment explanation
Indices: 15024409--15024493 Score: 66
Period size: 10 Copynumber: 8.3 Consensus size: 10
15024399 TTGCATTAAT
15024409 TTTTTTA-AA
1 TTTTTTATAA
15024418 TTTTTT-TACA
1 TTTTTTATA-A
*
15024428 ATTTTTATAA
1 TTTTTTATAA
15024438 TTTTTTATAA
1 TTTTTTATAA
* *
15024448 TGTTTAATAA
1 TTTTTTATAA
* *
15024458 ATTTTAATATA
1 TTTTTTATA-A
15024469 TATTTTTATATA
1 T-TTTTTATA-A
*
15024481 TTTTTTAAAA
1 TTTTTTATAA
15024491 TTT
1 TTT
15024494 AATAATTTCA
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
9 7 0.11
10 35 0.56
11 10 0.16
12 10 0.16
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:15031630 original size:28 final size:28
Alignment explanation
Indices: 15031590--15031645 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
15031580 AAGTCAAGTT
15031590 GAGTTAACGAATCCTATTATCTATACTC
1 GAGTTAACGAATCCTATTATCTATACTC
15031618 GAGTTAACGAATCCTATTATCTATACTC
1 GAGTTAACGAATCCTATTATCTATACTC
15031646 AATGTTGCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (28 bp):
GAGTTAACGAATCCTATTATCTATACTC
Found at i:15031803 original size:20 final size:21
Alignment explanation
Indices: 15031770--15031809 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
15031760 TCAAAACGAT
*
15031770 ATAGTTTTGTCTTTTAACTTG
1 ATAGTTTTGACTTTTAACTTG
15031791 ATAG-TTTGACTTTTAACTT
1 ATAGTTTTGACTTTTAACTT
15031810 TAGAAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.23, C:0.10, G:0.12, T:0.55
Consensus pattern (21 bp):
ATAGTTTTGACTTTTAACTTG
Found at i:15032329 original size:12 final size:12
Alignment explanation
Indices: 15032312--15032416 Score: 62
Period size: 12 Copynumber: 9.1 Consensus size: 12
15032302 TCATTAATAT
15032312 TGTTCATGAACA
1 TGTTCATGAACA
* *
15032324 TGTTCAAT-TATA
1 TGTTC-ATGAACA
15032336 TGTTCATGAACA
1 TGTTCATGAACA
* * *
15032348 TG--AAT-TATA
1 TGTTCATGAACA
*
15032357 TGTTTATGAACA
1 TGTTCATGAACA
15032369 TGTTCATGAACA
1 TGTTCATGAACA
*
15032381 TGTTCAAT-TA-A
1 TGTTC-ATGAACA
*
15032392 -GTTAAATGAACA
1 TGTT-CATGAACA
15032404 TGTTCATGAACA
1 TGTTCATGAACA
15032416 T
1 T
15032417 TAAACAAATG
Statistics
Matches: 68, Mismatches: 15, Indels: 20
0.66 0.15 0.19
Matches are distributed among these distances:
9 4 0.06
10 7 0.10
11 6 0.09
12 44 0.65
13 7 0.10
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (12 bp):
TGTTCATGAACA
Found at i:15032355 original size:21 final size:22
Alignment explanation
Indices: 15032312--15032371 Score: 86
Period size: 21 Copynumber: 2.7 Consensus size: 22
15032302 TCATTAATAT
15032312 TGTTCATGAACATGTTCAATTATA
1 TGTTCATGAACATG-T-AATTATA
15032336 TGTTCATGAACATG-AATTATA
1 TGTTCATGAACATGTAATTATA
*
15032357 TGTTTATGAACATGT
1 TGTTCATGAACATGT
15032372 TCATGAACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
21 20 0.59
24 14 0.41
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (22 bp):
TGTTCATGAACATGTAATTATA
Found at i:15039101 original size:21 final size:20
Alignment explanation
Indices: 15039054--15039099 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
15039044 TTTTTTTAGG
* *
15039054 AAAAAATTTCAAAGACAAAT
1 AAAAAATTTCAAAAAAAAAT
*
15039074 TAAAAATTTCAAAAAAAAAT
1 AAAAAATTTCAAAAAAAAAT
15039094 AAAAAA
1 AAAAAA
15039100 ATCAAAACTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAAAATTTCAAAAAAAAAT
Found at i:15039342 original size:22 final size:22
Alignment explanation
Indices: 15039315--15039356 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15039305 GATGGTAACT
* *
15039315 TAAAAACTGTTTTAAAATTTGA
1 TAAAAAATGCTTTAAAATTTGA
15039337 TAAAAAATGCTTTAAAATTT
1 TAAAAAATGCTTTAAAATTT
15039357 TATTATATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (22 bp):
TAAAAAATGCTTTAAAATTTGA
Found at i:15041348 original size:25 final size:25
Alignment explanation
Indices: 15041320--15041368 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
15041310 ATTTTGTTTC
*
15041320 AAATTTATTTCTAAATTTAAATTTA
1 AAATTCATTTCTAAATTTAAATTTA
* *
15041345 AAATTCATTTTTTAATTTAAATTT
1 AAATTCATTTCTAAATTTAAATTT
15041369 GTTCTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (25 bp):
AAATTCATTTCTAAATTTAAATTTA
Found at i:15043556 original size:29 final size:29
Alignment explanation
Indices: 15043422--15043717 Score: 132
Period size: 29 Copynumber: 10.0 Consensus size: 29
15043412 CTCTATAAGT
* ** *
15043422 CCCTAAACTTCCCAAAAATTGTATTTTGA-
1 CCCTAAACTTTCC-AAAATTCCATTTTTAC
*
15043451 CCCTGAAAC-TTCCAAAAATTACATTTTTAC
1 CCCT-AAACTTTCC-AAAATTCCATTTTTAC
* * *
15043481 CCCCAAACTTTCTAAAATTCCATTTTTAA
1 CCCTAAACTTTCCAAAATTCCATTTTTAC
15043510 CCC--AA-TTTCACCAAAAATTACCA-TTTTAC
1 CCCTAAACTTT--CC-AAAATT-CCATTTTTAC
*
15043539 CCCTAAACTTTCCAAAATTCTATTTTTGAC
1 CCCTAAACTTTCCAAAATTCCATTTTT-AC
* *
15043569 CACGATTTAAACTTTCCAAAATTCTATTTTTGAC
1 C-C---CTAAACTTTCCAAAATTCCATTTTT-AC
* * * *
15043603 CAC--GATTTTACCAAAAAATACCA-TTTTAC
1 CCCTAAACTTT-CC--AAAATTCCATTTTTAC
* *
15043632 CCCTAAACTTTTCAAAATTCCA-TTTTAA
1 CCCTAAACTTTCCAAAATTCCATTTTTAC
* *
15043660 CCCTGAA-TTCATCAAAAATTACCA-TTTTAC
1 CCCTAAACTT--TCCAAAATT-CCATTTTTAC
* *
15043690 ACCCT-AATTTTCCAAAATTCTATTTTTA
1 -CCCTAAACTTTCCAAAATTCCATTTTTA
15043718 ACATCGATTT
Statistics
Matches: 210, Mismatches: 30, Indels: 54
0.71 0.10 0.18
Matches are distributed among these distances:
26 3 0.01
27 4 0.02
28 28 0.13
29 91 0.43
30 33 0.16
31 20 0.10
32 3 0.01
34 28 0.13
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (29 bp):
CCCTAAACTTTCCAAAATTCCATTTTTAC
Found at i:15043581 original size:34 final size:34
Alignment explanation
Indices: 15043542--15043610 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
15043532 ATTTTACCCC
15043542 TAAACTTTCCAAAATTCTATTTTTGACCACGATT
1 TAAACTTTCCAAAATTCTATTTTTGACCACGATT
15043576 TAAACTTTCCAAAATTCTATTTTTGACCACGATT
1 TAAACTTTCCAAAATTCTATTTTTGACCACGATT
15043610 T
1 T
15043611 TACCAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (34 bp):
TAAACTTTCCAAAATTCTATTTTTGACCACGATT
Found at i:15043600 original size:151 final size:150
Alignment explanation
Indices: 15043425--15043716 Score: 382
Period size: 151 Copynumber: 1.9 Consensus size: 150
15043415 TATAAGTCCC
* *
15043425 TAAACTTCCCAAAAATTGTATTTTGACC-CTGAAACTT-CCAAAAATTA-CATTTTTACCCCCAA
1 TAAACTTCCCAAAAATTCTATTTTGACCAC-G-AACTTACCAAAAAATACCA-TTTTACCCCCAA
15043487 AC-TTTCTAAAATTCCATTTTTAACCC-AATTTCACCAAAAATTACCATTTTAC-CCCTAAACTT
63 ACTTTTC-AAAATTCCA-TTTTAACCCGAA-TTCACCAAAAATTACCATTTTACACCCT-AACTT
15043549 TCCAAAATTCTATTTTTGACCACGATT
124 TCCAAAATTCTATTTTTGACCACGATT
* ** *
15043576 TAAACTTTCC-AAAATTCTATTTTTGACCACGATTTTACCAAAAAATACCATTTTACCCCTAAAC
1 TAAACTTCCCAAAAATTCTA-TTTTGACCACGAACTTACCAAAAAATACCATTTTACCCCCAAAC
* *
15043640 TTTTCAAAATTCCATTTTAACCCTGAATTCATCAAAAATTACCATTTTACACCCTAATTTTCCAA
65 TTTTCAAAATTCCATTTTAACCC-GAATTCACCAAAAATTACCATTTTACACCCTAACTTTCCAA
15043705 AATTCTATTTTT
129 AATTCTATTTTT
15043717 AACATCGATT
Statistics
Matches: 125, Mismatches: 8, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
150 20 0.16
151 92 0.74
152 13 0.10
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (150 bp):
TAAACTTCCCAAAAATTCTATTTTGACCACGAACTTACCAAAAAATACCATTTTACCCCCAAACT
TTTCAAAATTCCATTTTAACCCGAATTCACCAAAAATTACCATTTTACACCCTAACTTTCCAAAA
TTCTATTTTTGACCACGATT
Found at i:15043633 original size:93 final size:92
Alignment explanation
Indices: 15043485--15043657 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 92
15043475 TTTTACCCCC
* *
15043485 AAACTTTCTAAAATTCCATTTTTAACCCAATTTCACCAAAAATTACCATTTTACCCCTAAACTTT
1 AAACTTTCCAAAATTCCATTTTTAACCCAATTTCACCAAAAAATACCATTTTACCCCTAAACTTT
*
15043550 CCAAAATTCTATTTTTGACCACGATTT
66 CCAAAATTCCATTTTTGACCACGATTT
* * * *
15043577 AAACTTTCCAAAATTCTATTTTTGACCACGATTTTACCAAAAAATACCATTTTACCCCTAAACTT
1 AAACTTTCCAAAATTCCATTTTTAACC-CAATTTCACCAAAAAATACCATTTTACCCCTAAACTT
*
15043642 TTCAAAATTCCATTTT
65 TCCAAAATTCCATTTT
15043658 AACCCTGAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 24 0.33
93 48 0.67
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.38
Consensus pattern (92 bp):
AAACTTTCCAAAATTCCATTTTTAACCCAATTTCACCAAAAAATACCATTTTACCCCTAAACTTT
CCAAAATTCCATTTTTGACCACGATTT
Found at i:15043648 original size:59 final size:59
Alignment explanation
Indices: 15043576--15043735 Score: 184
Period size: 58 Copynumber: 2.7 Consensus size: 59
15043566 GACCACGATT
*
15043576 TAAACTTTCCAAAATTCTATTTTTGACCACGATTTTACCAAAAAATACCATTTTAC-CCC
1 TAAACTTTTCAAAATTCTATTTTT-ACCACGATTTTACCAAAAAATACCATTTTACACCC
* * * * * *
15043635 TAAACTTTTCAAAATTCCATTTTAACC-CTGAATTCATCAAAAATTACCATTTTACACCC
1 TAAACTTTTCAAAATTCTATTTTTACCAC-GATTTTACCAAAAAATACCATTTTACACCC
*
15043694 T-AA-TTTTCCAAAATTCTATTTTTAACATCGATTTTACCAAAA
1 TAAACTTTT-CAAAATTCTATTTTTACCA-CGATTTTACCAAAA
15043736 GTTACTATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 10
0.78 0.12 0.09
Matches are distributed among these distances:
57 5 0.06
58 42 0.51
59 35 0.42
60 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.38
Consensus pattern (59 bp):
TAAACTTTTCAAAATTCTATTTTTACCACGATTTTACCAAAAAATACCATTTTACACCC
Found at i:15043746 original size:59 final size:59
Alignment explanation
Indices: 15043576--15043751 Score: 191
Period size: 59 Copynumber: 3.0 Consensus size: 59
15043566 GACCACGATT
* *
15043576 TAAAC-TTTCCAAAATTCTATTTTTGACCACGATTTTACCAAAAAATACCATTTTACCCC
1 TAAACTTTTCCAAAATTCTATTTTT-AACACGATTTTACCAAAAATTACCATTTTACCCC
* * * * *
15043635 TAAACTTTT-CAAAATTCCA-TTTTAACCCTGAATTCATCAAAAATTACCATTTTACACCC
1 TAAACTTTTCCAAAATTCTATTTTTAACAC-GATTTTACCAAAAATTACCATTTTAC-CCC
* * *
15043694 T-AA-TTTTCCAAAATTCTATTTTTAACATCGATTTTACCAAAAGTTACTATTTTTCCCC
1 TAAACTTTTCCAAAATTCTATTTTTAACA-CGATTTTACCAAAAATTACCATTTTACCCC
15043752 CGAGAATCCA
Statistics
Matches: 96, Mismatches: 15, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
57 7 0.07
58 40 0.42
59 45 0.47
60 4 0.04
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.39
Consensus pattern (59 bp):
TAAACTTTTCCAAAATTCTATTTTTAACACGATTTTACCAAAAATTACCATTTTACCCC
Found at i:15049286 original size:6 final size:6
Alignment explanation
Indices: 15049270--15049324 Score: 62
Period size: 6 Copynumber: 9.5 Consensus size: 6
15049260 TTCAATAGAT
* *
15049270 AAAAG- AAAAGA AAAAGA AAAAG- AGAA-A AAGAGA AAAAGAA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAG-A AAAAGA
15049316 AAAAGA AAA
1 AAAAGA AAA
15049325 GGAGAGGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
5 10 0.24
6 26 0.62
7 6 0.14
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:15049297 original size:8 final size:8
Alignment explanation
Indices: 15049270--15049319 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
15049260 TTCAATAGAT
*
15049270 AAAAGAAA
1 AAAAGAGA
*
15049278 AGAAAAAGA
1 A-AAAGAGA
15049287 AAAAGAGA
1 AAAAGAGA
15049295 AAAAGAGA
1 AAAAGAGA
15049303 AAAAGA-A
1 AAAAGAGA
15049310 AAAAGA-A
1 AAAAGAGA
15049317 AAA
1 AAA
15049320 GAAAAGGAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
7 11 0.29
8 21 0.55
9 6 0.16
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (8 bp):
AAAAGAGA
Found at i:15050642 original size:100 final size:100
Alignment explanation
Indices: 15050461--15051033 Score: 722
Period size: 100 Copynumber: 5.8 Consensus size: 100
15050451 CCACAGAAAT
** *
15050461 AACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAAGATAAAAGGGAAAGGTCTA
1 AACGGGAAAGATCTAAGACTACAACGGCGGATCCAGTACCGCAAAAGACAAAAGGGAAAGGTCTA
* *
15050526 AGTCACAACAGCAGACCGTGTACCTCAAAAGACAC
66 AGTCGCAACGGCAGACCGTGTACCTCAAAAGACAC
* * * *
15050561 AACGGGAAAGATCTAAGACTACAACGGCAGATCCAGTACTGTAAAAGACAAAAGGGAAAGGTTTA
1 AACGGGAAAGATCTAAGACTACAACGGCGGATCCAGTACCGCAAAAGACAAAAGGGAAAGGTCTA
* *
15050626 AGTCGCAACGGTAGACCGTGTACCTCAAAAGACAT
66 AGTCGCAACGGCAGACCGTGTACCTCAAAAGACAC
* * * * * *
15050661 AACGGTAAAGGTCTAAGTC-GCAACGGCGGATCCAGTACCGCAAAAGATAAAAGAGAAAGGTCTA
1 AACGGGAAAGATCTAAGACTACAACGGCGGATCCAGTACCGCAAAAGACAAAAGGGAAAGGTCTA
* *
15050725 AGTCGTAACGGCAGACCGTGTACCTTAAAAGACAC
66 AGTCGCAACGGCAGACCGTGTACCTCAAAAGACAC
* * * * *
15050760 AACGAGAAAGATCTAAGACTGCAACGACGGATCCAGTACCACAAAAGACAAAAGGGAAATGTCTA
1 AACGGGAAAGATCTAAGACTACAACGGCGGATCCAGTACCGCAAAAGACAAAAGGGAAAGGTCTA
* * * *
15050825 AGTCTCAACGGTAGATCGTGTACTTCAAAAGACAC
66 AGTCGCAACGGCAGACCGTGTACCTCAAAAGACAC
* * *
15050860 -ACTGGAAAGATCTAAGACTACAACGGCGGATCCAGTACCGTAAAAGACAAAAAGGAAAGGTCTA
1 AACGGGAAAGATCTAAGACTACAACGGCGGATCCAGTACCGCAAAAGACAAAAGGGAAAGGTCTA
* *
15050924 AGTCGCAACGGCAGACCATGTACCGCAAAAAGAC-C
66 AGTCGCAACGGCAGACCGTGTACCTC-AAAAGACAC
* * ** * * * *
15050959 AGACGGGAAAGATCTAAGACCACAATGGCAAATCCAGTACCAC-GAAGACATAAGGGAAAGATCT
1 A-ACGGGAAAGATCTAAGACTACAACGGCGGATCCAGTACCGCAAAAGACAAAAGGGAAAGGTCT
*
15051023 AAGCCGCAACG
65 AAGTCGCAACG
15051034 ACGGATCTAG
Statistics
Matches: 403, Mismatches: 66, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
99 161 0.40
100 208 0.52
101 34 0.08
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.14
Consensus pattern (100 bp):
AACGGGAAAGATCTAAGACTACAACGGCGGATCCAGTACCGCAAAAGACAAAAGGGAAAGGTCTA
AGTCGCAACGGCAGACCGTGTACCTCAAAAGACAC
Found at i:15050836 original size:199 final size:198
Alignment explanation
Indices: 15050459--15051033 Score: 744
Period size: 199 Copynumber: 2.9 Consensus size: 198
15050449 TACCACAGAA
*
15050459 ATAACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAAGATAAAAGGGAAAGGTC
1 ATAAC-GGAAAGATCTAAGA-CGCAACGGCGGATCCAGTACCGCAAAAGATAAAAGAGAAAGGTC
* * * *
15050524 TAAGTCACAACAGCAGACCGTGTACCTCAAAAGACACAACGGGAAAGATCTAAGACTACAACGGC
64 TAAGTCGCAACGGCAGACCGTGTACCTAAAAAGACACAACGGGAAAGATCTAAGACTACAACGAC
*** *
15050589 AGATCCAGTACTGTAAAAGACAAAAGGGAAAGGTTTAAGTCGCAACGGTAGACCGTGTACCTCAA
129 AGATCCAGTACCACAAAAGACAAAAGGGAAAGGTCTAAGTCGCAACGGTAGACCGTGTACCTCAA
15050654 AAGAC
194 AAGAC
* *
15050659 ATAACGGTAAAGGTCTAAGTCGCAACGGCGGATCCAGTACCGCAAAAGATAAAAGAGAAAGGTCT
1 ATAACGG-AAAGATCTAAGACGCAACGGCGGATCCAGTACCGCAAAAGATAAAAGAGAAAGGTCT
* * * * *
15050724 AAGTCGTAACGGCAGACCGTGTACCTTAAAAGACACAACGAGAAAGATCTAAGACTGCAACGACG
65 AAGTCGCAACGGCAGACCGTGTACCTAAAAAGACACAACGGGAAAGATCTAAGACTACAACGACA
* * * *
15050789 GATCCAGTACCACAAAAGACAAAAGGGAAATGTCTAAGTCTCAACGGTAGATCGTGTACTTCAAA
130 GATCCAGTACCACAAAAGACAAAAGGGAAAGGTCTAAGTCGCAACGGTAGACCGTGTACCTCAAA
15050854 AGAC
195 AGAC
* * * *
15050858 A-CACTGGAAAGATCTAAGACTACAACGGCGGATCCAGTACCGTAAAAGACAAAA-AGGAAAGGT
1 ATAAC-GGAAAGATCTAAGAC-GCAACGGCGGATCCAGTACCGCAAAAGATAAAAGA-GAAAGGT
* * * *
15050921 CTAAGTCGCAACGGCAGACCATGTACCGCAAAAAGAC-CAGACGGGAAAGATCTAAGACCACAAT
63 CTAAGTCGCAACGGCAGACCGTGTACC-TAAAAAGACACA-ACGGGAAAGATCTAAGACTACAAC
* * * * * *
15050985 GGCAAATCCAGTACCAC-GAAGACATAAGGGAAAGATCTAAGCCGCAACG
126 GACAGATCCAGTACCACAAAAGACAAAAGGGAAAGGTCTAAGTCGCAACG
15051034 ACGGATCTAG
Statistics
Matches: 327, Mismatches: 42, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
198 14 0.04
199 257 0.79
200 56 0.17
ACGTcount: A:0.41, C:0.22, G:0.23, T:0.14
Consensus pattern (198 bp):
ATAACGGAAAGATCTAAGACGCAACGGCGGATCCAGTACCGCAAAAGATAAAAGAGAAAGGTCTA
AGTCGCAACGGCAGACCGTGTACCTAAAAAGACACAACGGGAAAGATCTAAGACTACAACGACAG
ATCCAGTACCACAAAAGACAAAAGGGAAAGGTCTAAGTCGCAACGGTAGACCGTGTACCTCAAAA
GAC
Found at i:15051018 original size:49 final size:49
Alignment explanation
Indices: 15050963--15051073 Score: 152
Period size: 49 Copynumber: 2.3 Consensus size: 49
15050953 AAGACCAGAC
* *
15050963 GGGAAAGATCTAAGACCACAATGGCAAATCCAGTACCACGAAGACAT-AA
1 GGGAAAGATCTAAG-CCACAACGACAAATCCAGTACCACGAAGACATGAA
* ** *
15051012 GGGAAAGATCTAAGCCGCAACGACGGATCTAGTACCACGAAGACATGAA
1 GGGAAAGATCTAAGCCACAACGACAAATCCAGTACCACGAAGACATGAA
15051061 GGGAAAGATCTAA
1 GGGAAAGATCTAA
15051074 ATCGCGACGG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 26 0.47
49 29 0.53
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (49 bp):
GGGAAAGATCTAAGCCACAACGACAAATCCAGTACCACGAAGACATGAA
Found at i:15051922 original size:200 final size:200
Alignment explanation
Indices: 15051324--15051923 Score: 903
Period size: 200 Copynumber: 3.0 Consensus size: 200
15051314 CACAAACAGT
* * * *
15051324 GAGGCGGTTATCTTCCTGATGAGATATAGAGAAGTATACCAACTTAACGCTCAATGCGAGAAAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGAAAAT
* * * * *
15051389 CTTCGAACCCGGCTTCCTGATGAGACACTGAGAAGCTGGTCGAAGCAATAAAACGATTAGCTTCT
66 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCC
* *
15051454 TGATGAGACATAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGATCTAGAGAAGCGAATTAAAG
131 TGATGAGACAAAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGATCTAGAGAAGCGAATTAAAA
*
15051519 CAAAC
196 CAAGC
* * ** **
15051524 GAGGCGCTCATCTTCCTGATAAGATACAGAGAAGAATACCAACTCAACGCTCAACACGAGCTAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGAAAAT
*
15051589 CTTCGAACCCAGCTTCGTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCC
66 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCC
* * * *
15051654 TGATGAGGCACAGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCTAGAGAAGCGAATTAAAA
131 TGATGAGACAAAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGATCTAGAGAAGCGAATTAAAA
15051719 CAAGC
196 CAAGC
* *
15051724 GAGGCGGTCACCTTCCTGATGAGATACAGAGAAGAATGCCAACTCAACGCTCAATGCGAGAAAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGAAAAT
* * * *
15051789 TTTCGAACCCAGCTTCCTGATAAGACACTGAGAAGCAGGTCAAAGTAATAAAATGGTTAGCTTCC
66 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCC
* * * *
15051854 TGATGAGATAAAAAGAAGTAGACCAAATTCATCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAA
131 TGATGAGACAAAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGATCTAGAGAAGCGAATTAAAA
15051919 CAAGC
196 CAAGC
15051924 AGAGAAGAAT
Statistics
Matches: 357, Mismatches: 43, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
200 357 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (200 bp):
GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGAAAAT
CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCC
TGATGAGACAAAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGATCTAGAGAAGCGAATTAAAA
CAAGC
Found at i:15052046 original size:173 final size:173
Alignment explanation
Indices: 15051750--15052097 Score: 581
Period size: 173 Copynumber: 2.0 Consensus size: 173
15051740 TGATGAGATA
* *
15051750 CAGAGAAGAATGCCAACTCAACGCTCAATGCGAGAAAATTTTCGAACCCAGCTTCCTGATAAGAC
1 CAGAGAAGAATACCAACTCAACGCTCAATGCGAGAAAATTTTAGAACCCAGCTTCCTGATAAGAC
* *
15051815 ACTGAGAAGCAGGTCAAAGTAATAAAATGGTTAGCTTCCTGATGAGATAAAAAGAAGTAGACCAA
66 ACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTGATGAGATAAAAAGAAGTAGAACAA
*
15051880 ATTCATCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAG
131 ATTCATCTTCCTGAGGACATCCAGAGAAGCGAATTAAAACAAG
* *
15051923 CAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATTTTAGAACCCAGCTTCCTGATGAGAC
1 CAGAGAAGAATACCAACTCAACGCTCAATGCGAGAAAATTTTAGAACCCAGCTTCCTGATAAGAC
* * *
15051988 ACTGAGAAGCAGGTCGAAA-CAATAAAGTGGTTAGCTTCCTGATGAGATACAGAGAAGTAGAACA
66 ACTGAGAAGCAGGTC-AAAGCAATAAAATGGTTAGCTTCCTGATGAGATAAAAAGAAGTAGAACA
*
15052052 AATTCGTCTTCCTGAGGACATCCAGAGAAGCGAATTAAAACAAG
130 AATTCATCTTCCTGAGGACATCCAGAGAAGCGAATTAAAACAAG
15052096 CA
1 CA
15052098 AGGCGGTCAT
Statistics
Matches: 163, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
173 160 0.98
174 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (173 bp):
CAGAGAAGAATACCAACTCAACGCTCAATGCGAGAAAATTTTAGAACCCAGCTTCCTGATAAGAC
ACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTGATGAGATAAAAAGAAGTAGAACAA
ATTCATCTTCCTGAGGACATCCAGAGAAGCGAATTAAAACAAG
Found at i:15052639 original size:18 final size:17
Alignment explanation
Indices: 15052626--15052658 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15052616 TAAAATTCAT
15052626 TTTTAAATTTAAATTTG
1 TTTTAAATTTAAATTTG
*
15052643 TTCTAAATTTAAATTT
1 TTTTAAATTTAAATTT
15052659 AGCTTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (17 bp):
TTTTAAATTTAAATTTG
Found at i:15052666 original size:17 final size:16
Alignment explanation
Indices: 15052628--15052667 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
15052618 AAATTCATTT
*
15052628 TTAAATTTAAATTTGT
1 TTAAATTTAAATTTGC
15052644 TCTAAATTTAAATTTAGC
1 T-TAAATTTAAATTT-GC
15052662 TTAAAT
1 TTAAAT
15052668 ATGAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 18 0.86
18 2 0.10
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (16 bp):
TTAAATTTAAATTTGC
Found at i:15054733 original size:30 final size:30
Alignment explanation
Indices: 15054670--15054793 Score: 130
Period size: 30 Copynumber: 4.2 Consensus size: 30
15054660 CTTTATAGGT
** *
15054670 CCCTAAAC-TTCCTAAAAATTGCATTTTGA-
1 CCCTAAACTTTCC-AAAAATTATATTTTTAC
15054699 CCCTAAAAC-TTCCAAAAATTATATTTTTAC
1 CCCT-AAACTTTCCAAAAATTATATTTTTAC
* *
15054729 CCCTAAACTTTTCAAAAATTATGTTTTTAC
1 CCCTAAACTTTCCAAAAATTATATTTTTAC
* * *
15054759 CCCTAAACTTTCC-CAAATTCTATTTTTAA
1 CCCTAAACTTTCCAAAAATTATATTTTTAC
15054788 CCCTAA
1 CCCTAA
15054794 TTTCACCAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
29 39 0.48
30 43 0.52
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.38
Consensus pattern (30 bp):
CCCTAAACTTTCCAAAAATTATATTTTTAC
Found at i:15054770 original size:29 final size:29
Alignment explanation
Indices: 15054670--15054793 Score: 124
Period size: 29 Copynumber: 4.2 Consensus size: 29
15054660 CTTTATAGGT
* ** *
15054670 CCCTAAACTTCCTAAAAATTGCATTTTGA-
1 CCCTAAACTTTC-AAAAATTATATTTTTAC
*
15054699 CCCTAAAACTTCCAAAAATTATATTTTTAC
1 CCCT-AAACTTTCAAAAATTATATTTTTAC
*
15054729 CCCTAAACTTTTCAAAAATTATGTTTTTAC
1 CCCTAAAC-TTTCAAAAATTATATTTTTAC
** * *
15054759 CCCTAAACTTTCCCAAATTCTATTTTTAA
1 CCCTAAACTTTCAAAAATTATATTTTTAC
15054788 CCCTAA
1 CCCTAA
15054794 TTTCACCAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
29 43 0.52
30 39 0.48
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.38
Consensus pattern (29 bp):
CCCTAAACTTTCAAAAATTATATTTTTAC
Found at i:15054816 original size:59 final size:60
Alignment explanation
Indices: 15054753--15055001 Score: 202
Period size: 59 Copynumber: 4.2 Consensus size: 60
15054743 AAAATTATGT
* *
15054753 TTTTA-CCCCTAAACTTTCCCAAATTCTATTTTTAACCCTAATTTCACCAAAAAATATCA
1 TTTTACCCCCTAAACTTTCCAAAATTCTATTTTTAACCCTAATTTCACCAAAAAATACCA
* * * * * * **
15054812 TTTTACCACCCGAACCCCTTTCTAAAATCCCATTTTTGACCCCGATTTCACCAAAAAATACCA
1 TTTTACC-CCCTAA--ACTTTCCAAAATTCTATTTTTAACCCTAATTTCACCAAAAAATACCA
* * * * * * * *
15054875 -TTTACCCTC-GAACTTTTCAAAACTCTATTTTTGACCCCGAA-TTCATCAAAAATTACCA
1 TTTTACCCCCTAAACTTTCCAAAATTCTATTTTT-AACCCTAATTTCACCAAAAAATACCA
* * * * * *
15054933 TTTTACCCCCT-AATTTTCCAAAATTCTATTTTTAACCCTGATTTTATCAAAAATTACTA
1 TTTTACCCCCTAAACTTTCCAAAATTCTATTTTTAACCCTAATTTCACCAAAAAATACCA
*
15054992 TTTTGCCCCC
1 TTTTACCCCC
15055002 GGGAATCCAA
Statistics
Matches: 148, Mismatches: 34, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
58 35 0.24
59 60 0.41
60 2 0.01
61 7 0.05
62 6 0.04
63 38 0.26
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.36
Consensus pattern (60 bp):
TTTTACCCCCTAAACTTTCCAAAATTCTATTTTTAACCCTAATTTCACCAAAAAATACCA
Found at i:15060916 original size:31 final size:31
Alignment explanation
Indices: 15060856--15060916 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
15060846 ACCTAATAGT
*
15060856 AACTTAAATAAAAATTTTGGAATAATTCAAA
1 AACTTAAATAAAAATTTTGAAATAATTCAAA
* * *
15060887 AACTTAAATAAAATTTTTTAAATAGTTCAA
1 AACTTAAATAAAAATTTTGAAATAATTCAA
15060917 TGACTATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (31 bp):
AACTTAAATAAAAATTTTGAAATAATTCAAA
Found at i:15069013 original size:21 final size:22
Alignment explanation
Indices: 15068988--15069029 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15068978 TTATATTTTA
*
15068988 TATTTTTTA-TAATTTTTAAAT
1 TATTTGTTAGTAATTTTTAAAT
*
15069009 TATTTGTTAGTATTTTTTAAA
1 TATTTGTTAGTAATTTTTAAA
15069030 GTTAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (22 bp):
TATTTGTTAGTAATTTTTAAAT
Done.