Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 179 of 182
Found at i:54341531 original size:116 final size:116
Alignment explanation
Indices: 54341327--54341559 Score: 466
Period size: 116 Copynumber: 2.0 Consensus size: 116
54341317 CCTCAACAAC
54341327 ATGATTTTCACGATAAAAGAGGTGGGAAAGTTTAGATTAGAAAGTAAAAAAATACATTAAAACAA
1 ATGATTTTCACGATAAAAGAGGTGGGAAAGTTTAGATTAGAAAGTAAAAAAATACATTAAAACAA
54341392 AAATTAACCCTATCTTATACCGGTTTAGACTGTTAGTCTATTAATAAACAT
66 AAATTAACCCTATCTTATACCGGTTTAGACTGTTAGTCTATTAATAAACAT
54341443 ATGATTTTCACGATAAAAGAGGTGGGAAAGTTTAGATTAGAAAGTAAAAAAATACATTAAAACAA
1 ATGATTTTCACGATAAAAGAGGTGGGAAAGTTTAGATTAGAAAGTAAAAAAATACATTAAAACAA
54341508 AAATTAACCCTATCTTATACCGGTTTAGACTGTTAGTCTATTAATAAACAT
66 AAATTAACCCTATCTTATACCGGTTTAGACTGTTAGTCTATTAATAAACAT
54341559 A
1 A
54341560 AAAGAAGAAG
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (116 bp):
ATGATTTTCACGATAAAAGAGGTGGGAAAGTTTAGATTAGAAAGTAAAAAAATACATTAAAACAA
AAATTAACCCTATCTTATACCGGTTTAGACTGTTAGTCTATTAATAAACAT
Found at i:54342648 original size:22 final size:21
Alignment explanation
Indices: 54342600--54342648 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
54342590 AAAAAATTGT
* *
54342600 TGTTTTGCTGTTGTTTTCCAC
1 TGTTTTACTGTTATTTTCCAC
*
54342621 TATTTTACTGTTATTTTCTCAC
1 TGTTTTACTGTTATTTTC-CAC
54342643 TGTTTT
1 TGTTTT
54342649 GTTGTCATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.10, C:0.16, G:0.12, T:0.61
Consensus pattern (21 bp):
TGTTTTACTGTTATTTTCCAC
Found at i:54343200 original size:23 final size:23
Alignment explanation
Indices: 54343147--54343200 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
54343137 ATTTTTATCA
* *
54343147 AATAAATAAAGTGAGAACCATATT
1 AATAAA-AAAGTGAGAACCAAATC
* * *
54343171 AAAAAAAAAGTGGGAATCAAATC
1 AATAAAAAAGTGAGAACCAAATC
54343194 AATAAAA
1 AATAAAA
54343201 TTAAAATACG
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.61, C:0.07, G:0.13, T:0.19
Consensus pattern (23 bp):
AATAAAAAAGTGAGAACCAAATC
Found at i:54344305 original size:14 final size:15
Alignment explanation
Indices: 54344286--54344314 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
54344276 TTACAAATTA
54344286 ATTTTTTA-AAAAAT
1 ATTTTTTAGAAAAAT
54344300 ATTTTTTAGAAAAAT
1 ATTTTTTAGAAAAAT
54344315 TAAAATACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
ATTTTTTAGAAAAAT
Found at i:54369933 original size:25 final size:24
Alignment explanation
Indices: 54369878--54369933 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
54369868 TTTTCATTCC
* *
54369878 TATTTCAAATAATTATTAAATAAA
1 TATTTAAAATAATCATTAAATAAA
*
54369902 TAATTAAAATAATCATATAAATATAA
1 TATTTAAAATAATCAT-TAAATA-AA
54369928 -ATTTAA
1 TATTTAA
54369934 TAATTATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 13 0.50
25 11 0.42
26 2 0.08
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
TATTTAAAATAATCATTAAATAAA
Found at i:54370547 original size:25 final size:26
Alignment explanation
Indices: 54370519--54370568 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
54370509 AAGAGGAAAG
54370519 TTTAAAGAACATAAAA-GAAAAAAAA
1 TTTAAAGAACATAAAACGAAAAAAAA
** *
54370544 TTTAAATTACTTAAAACGAAAAAAA
1 TTTAAAGAACATAAAACGAAAAAAA
54370569 TATGGGGATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (26 bp):
TTTAAAGAACATAAAACGAAAAAAAA
Found at i:54370717 original size:15 final size:15
Alignment explanation
Indices: 54370697--54370747 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
54370687 ACAACATGAT
54370697 AACGTAAATGACTAA
1 AACGTAAATGACTAA
** *
54370712 AACGT-AATGTTTCA
1 AACGTAAATGACTAA
* *
54370726 AACATAAGTGACTAA
1 AACGTAAATGACTAA
54370741 AACGTAA
1 AACGTAA
54370748 TCTAAGGTAA
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (15 bp):
AACGTAAATGACTAA
Found at i:54373871 original size:4 final size:4
Alignment explanation
Indices: 54373862--54373889 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
54373852 AAATCAAGTA
54373862 TAAT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT
54373890 AGCTTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:54373976 original size:19 final size:20
Alignment explanation
Indices: 54373932--54373974 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
54373922 TTTTACCATA
54373932 ATTTATCTTTTTTTTTACTT
1 ATTTATCTTTTTTTTTACTT
54373952 ATTTATCTTTTTTTTTACTT
1 ATTTATCTTTTTTTTTACTT
54373972 ATT
1 ATT
54373975 ATAATAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTATCTTTTTTTTTACTT
Found at i:54391035 original size:21 final size:22
Alignment explanation
Indices: 54390995--54391038 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
54390985 TTTTTATTTT
54390995 TAAAATATTTAAAATATTAATA
1 TAAAATATTTAAAATATTAATA
* *
54391017 TAAAATA-TTAAATTTTTAATA
1 TAAAATATTTAAAATATTAATA
54391038 T
1 T
54391039 TATTAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAAATATTTAAAATATTAATA
Found at i:54392713 original size:6 final size:7
Alignment explanation
Indices: 54392696--54392721 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
54392686 ATATAAACTG
54392696 TTTTTTA
1 TTTTTTA
54392703 TTTTTTA
1 TTTTTTA
54392710 TTTTTTA
1 TTTTTTA
54392717 TTTTT
1 TTTTT
54392722 GGGTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:54393871 original size:37 final size:37
Alignment explanation
Indices: 54393830--54393902 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
54393820 GAAAGCCAAG
*
54393830 TATTTGTTTTGCAATAAATTTGCAAATTTTAAATAAT
1 TATTTGTTTTGCAATAAATTCGCAAATTTTAAATAAT
54393867 TATTTGTTTTGCAATAAATTCGCAAATTTTAAATAA
1 TATTTGTTTTGCAATAAATTCGCAAATTTTAAATAA
54393903 AAGCTTGTCG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (37 bp):
TATTTGTTTTGCAATAAATTCGCAAATTTTAAATAAT
Found at i:54394821 original size:32 final size:33
Alignment explanation
Indices: 54394756--54394821 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
54394746 AAATAAAGAT
* *
54394756 AAAAATGTATATGTGCATATATTTACAAAATAAA
1 AAAAATGTATAAGT-CATATATGTACAAAATAAA
54394790 AAAAATGTATAAGT-ATATATGTA-AAATATAAA
1 AAAAATGTATAAGTCATATATGTACAAA-ATAAA
54394822 GTATATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 3 0.10
32 13 0.45
34 13 0.45
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.32
Consensus pattern (33 bp):
AAAAATGTATAAGTCATATATGTACAAAATAAA
Found at i:54395139 original size:20 final size:19
Alignment explanation
Indices: 54395114--54395152 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
54395104 GGACTGAATT
54395114 GAATTTAAAAACAAAAAAAC
1 GAATTTAAAAA-AAAAAAAC
*
54395134 GAATTTAGAAAAAAAAAAC
1 GAATTTAAAAAAAAAAAAC
54395153 AAAAAAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (19 bp):
GAATTTAAAAAAAAAAAAC
Found at i:54401981 original size:22 final size:22
Alignment explanation
Indices: 54401953--54401995 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
54401943 TTTTTAAATC
*
54401953 AATCTAACAT-CTCTACCATATT
1 AATCTAAAATACTCTA-CATATT
54401975 AATCTAAAATACTCTACATAT
1 AATCTAAAATACTCTACATAT
54401996 CAATAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (22 bp):
AATCTAAAATACTCTACATATT
Found at i:54402016 original size:20 final size:20
Alignment explanation
Indices: 54401993--54402033 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
54401983 ATACTCTACA
54401993 TATCAATAAATATTCAGCAT
1 TATCAATAAATATTCAGCAT
54402013 TATCAATAAATATTCAGCAT
1 TATCAATAAATATTCAGCAT
54402033 T
1 T
54402034 TAAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (20 bp):
TATCAATAAATATTCAGCAT
Found at i:54407659 original size:20 final size:21
Alignment explanation
Indices: 54407618--54407661 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
54407608 TTTGGTAAAA
*
54407618 ATATCGATATTTTTGGTCCTAG
1 ATATCGATACTTTT-GTCCTAG
54407640 ATATCGATACTTTT-TCCTAG
1 ATATCGATACTTTTGTCCTAG
54407660 AT
1 AT
54407662 GGTGAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
22 13 0.62
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (21 bp):
ATATCGATACTTTTGTCCTAG
Found at i:54415381 original size:14 final size:14
Alignment explanation
Indices: 54415344--54415384 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
54415334 GCGAGTACAT
*
54415344 TTATAAAAATAATA
1 TTATAAAAATATTA
*
54415358 TTAT--ATATATTA
1 TTATAAAAATATTA
54415370 TTATAAAAATATTA
1 TTATAAAAATATTA
54415384 T
1 T
54415385 AATGGCTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
12 10 0.45
14 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTATAAAAATATTA
Found at i:54415440 original size:21 final size:23
Alignment explanation
Indices: 54415416--54415465 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
54415406 TTTAAATTTT
54415416 TATATTAT-AA-ATTTATAAATA
1 TATATTATCAATATTTATAAATA
*
54415437 TATATTATCAATATTTATCAATA
1 TATATTATCAATATTTATAAATA
54415460 TATATT
1 TATATT
54415466 TTTATAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 8 0.31
22 2 0.08
23 16 0.62
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (23 bp):
TATATTATCAATATTTATAAATA
Found at i:54415523 original size:28 final size:28
Alignment explanation
Indices: 54415458--54415523 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
54415448 TATTTATCAA
54415458 TATATATTTT-TATAAATCTATACGTTT
1 TATATATTTTATATAAATCTATACGTTT
* *
54415485 T-TATATGTTTATATATAT-TATAGGATTT
1 TATATAT-TTTATATAAATCTATACG-TTT
54415513 TATATATTTTA
1 TATATATTTTA
54415524 ATTTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 5 0.15
27 9 0.27
28 14 0.42
29 5 0.15
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (28 bp):
TATATATTTTATATAAATCTATACGTTT
Found at i:54417211 original size:16 final size:17
Alignment explanation
Indices: 54417192--54417228 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
54417182 TAATATTGAA
54417192 TATTATTT-AAATTTAT
1 TATTATTTAAAATTTAT
54417208 TATT-TTTAAAATTTAT
1 TATTATTTAAAATTTAT
54417224 TATTA
1 TATTA
54417229 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTTAAAATTTAT
Found at i:54417255 original size:50 final size:52
Alignment explanation
Indices: 54417161--54417259 Score: 123
Period size: 53 Copynumber: 1.9 Consensus size: 52
54417151 ATAATTGTAA
* * **
54417161 TAAATTTTTTTATTAAAATATTAATATTGAATATTATTTAAATTTATTATTTT
1 TAAAATTTATTATTAAAATA-TAATATTGAATATTAAATAAATTTATTATTTT
54417214 TAAAATTTATTATTAAAATA-AA-ATTGAAATATTAAAT-AATTTATTA
1 TAAAATTTATTATTAAAATATAATATTG-AATATTAAATAAATTTATTA
54417260 AAATAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
50 13 0.32
51 10 0.24
53 18 0.44
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (52 bp):
TAAAATTTATTATTAAAATATAATATTGAATATTAAATAAATTTATTATTTT
Found at i:54417367 original size:18 final size:18
Alignment explanation
Indices: 54417344--54417381 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
54417334 AGCTTGATTT
54417344 AATTTAATTTATATATAA
1 AATTTAATTTATATATAA
*
54417362 AATTTAATTTTTATATAA
1 AATTTAATTTATATATAA
54417380 AA
1 AA
54417382 ATAAAATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTTAATTTATATATAA
Found at i:54419216 original size:13 final size:15
Alignment explanation
Indices: 54419192--54419223 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
54419182 GATAATCATG
54419192 TATTTATTTTATT-A
1 TATTTATTTTATTCA
54419206 TATTT-TTTTATTCA
1 TATTTATTTTATTCA
54419220 TATT
1 TATT
54419224 ATATATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTATTTTATTCA
Found at i:54419240 original size:23 final size:22
Alignment explanation
Indices: 54419200--54419246 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
54419190 TGTATTTATT
* *
54419200 TTATTATATTTTTTTATTCATA
1 TTATTATATTTGTATATTCATA
54419222 TTATATATATTTGTATATTCATA
1 TTAT-TATATTTGTATATTCATA
54419245 TT
1 TT
54419247 GTTTTCTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (22 bp):
TTATTATATTTGTATATTCATA
Found at i:54424097 original size:11 final size:12
Alignment explanation
Indices: 54424068--54424102 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
54424058 AACTCGGCCG
54424068 TATTAATTTTTA
1 TATTAATTTTTA
54424080 TATTAATTTTTA
1 TATTAATTTTTA
54424092 TA-TAATTTTTA
1 TATTAATTTTTA
54424103 AATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTAATTTTTA
Found at i:54426533 original size:19 final size:19
Alignment explanation
Indices: 54426506--54426544 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
54426496 CAAATATGTT
*
54426506 AAAATTATTAATTAAAATA
1 AAAAATATTAATTAAAATA
**
54426525 AAAAATATTTTTTAAAATA
1 AAAAATATTAATTAAAATA
54426544 A
1 A
54426545 TACAACTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATATTAATTAAAATA
Found at i:54428442 original size:43 final size:43
Alignment explanation
Indices: 54428381--54428466 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
54428371 CTAACATGTG
* *
54428381 GTCCATATAATAATCCACATGTATGTCATGTTCTTAAATTTTT
1 GTCCATATAATAATCCACATGTATATCATGTTCTTAAAATTTT
54428424 GTCCATATAATAATCCACATGTATATCATGTTCTTAAAATTTT
1 GTCCATATAATAATCCACATGTATATCATGTTCTTAAAATTTT
54428467 CATTTATTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (43 bp):
GTCCATATAATAATCCACATGTATATCATGTTCTTAAAATTTT
Found at i:54428826 original size:9 final size:9
Alignment explanation
Indices: 54428812--54428853 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
54428802 TTAAATTTTT
*
54428812 AAATTTTAA
1 AAATTATAA
*
54428821 AAATTTTAA
1 AAATTATAA
*
54428830 AAAATATAA
1 AAATTATAA
54428839 AAA-TATAA
1 AAATTATAA
54428847 AAATTAT
1 AAATTAT
54428854 TTTTAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 8 0.27
9 22 0.73
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
AAATTATAA
Found at i:54429376 original size:29 final size:30
Alignment explanation
Indices: 54429307--54429377 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
54429297 TAATAAACAC
54429307 AAAAAAT-TTATTTTAAAAATAAAAAAATT
1 AAAAAATATTATTTTAAAAATAAAAAAATT
* *
54429336 AAAAAA-AGTATTTT-AAAAT-TAAAAATT
1 AAAAAATATTATTTTAAAAATAAAAAAATT
54429363 AAAAAATATATATTT
1 AAAAAATAT-TATTT
54429378 ATTATATTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 13 0.36
28 6 0.17
29 17 0.47
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (30 bp):
AAAAAATATTATTTTAAAAATAAAAAAATT
Found at i:54429378 original size:28 final size:28
Alignment explanation
Indices: 54429307--54429378 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 28
54429297 TAATAAACAC
*
54429307 AAAAAATTTATTTTAAAAATAAAAAAATT
1 AAAAAATATATTTT-AAAATAAAAAAATT
*
54429336 AAAAAA-AGTATTTTAAAAT-TAAAAATT
1 AAAAAATA-TATTTTAAAATAAAAAAATT
54429363 AAAAAATATATATTTA
1 AAAAAATATAT-TTTA
54429379 TTATATTCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
27 16 0.42
28 10 0.26
29 12 0.32
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (28 bp):
AAAAAATATATTTTAAAATAAAAAAATT
Found at i:54431709 original size:25 final size:25
Alignment explanation
Indices: 54431681--54431732 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
54431671 ATTTGAAGAG
54431681 TTATCTCTTAGCTTCGAAATGCACT
1 TTATCTCTTAGCTTCGAAATGCACT
54431706 TTATCTCTTAGCTTCGAAATGCACT
1 TTATCTCTTAGCTTCGAAATGCACT
54431731 TT
1 TT
54431733 GAATCACTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (25 bp):
TTATCTCTTAGCTTCGAAATGCACT
Found at i:54439058 original size:18 final size:19
Alignment explanation
Indices: 54439035--54439073 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
54439025 AAAGAAAAAT
54439035 AAATTGTAAC-TC-AGTTTC
1 AAATTG-AACGTCTAGTTTC
54439053 AAATTGAACGTCTAGTTTC
1 AAATTGAACGTCTAGTTTC
54439072 AA
1 AA
54439074 TCATTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 8 0.42
19 8 0.42
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (19 bp):
AAATTGAACGTCTAGTTTC
Found at i:54440836 original size:13 final size:14
Alignment explanation
Indices: 54440818--54440850 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
54440808 GTATTTTAAG
*
54440818 AATATTTTA-ATAA
1 AATATTTGACATAA
54440831 AATATTTGACATAA
1 AATATTTGACATAA
54440845 AATATT
1 AATATT
54440851 AATATTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (14 bp):
AATATTTGACATAA
Found at i:54441000 original size:14 final size:14
Alignment explanation
Indices: 54440981--54441009 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
54440971 CGACTCCCTT
54440981 TTCAATGTATGAAG
1 TTCAATGTATGAAG
54440995 TTCAATGTATGAAG
1 TTCAATGTATGAAG
54441009 T
1 T
54441010 AAGCTTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (14 bp):
TTCAATGTATGAAG
Found at i:54448409 original size:18 final size:18
Alignment explanation
Indices: 54448374--54448410 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
54448364 AAGAAATAAG
*
54448374 AAAGAAGGAAGCAGAAGA
1 AAAGAAGGAAGCAAAAGA
*
54448392 AAAGAAGGAAGGAAAAGA
1 AAAGAAGGAAGCAAAAGA
54448410 A
1 A
54448411 GAAAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.32, T:0.00
Consensus pattern (18 bp):
AAAGAAGGAAGCAAAAGA
Found at i:54451740 original size:6 final size:6
Alignment explanation
Indices: 54451729--54451767 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
54451719 AATGTAGTTT
* *
54451729 TGGCTC TGGCTC TGGCTT TGGCTC TGGCTT TGGCTC TGG
1 TGGCTC TGGCTC TGGCTC TGGCTC TGGCTC TGGCTC TGG
54451768 TGCATGATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.26, G:0.36, T:0.38
Consensus pattern (6 bp):
TGGCTC
Found at i:54451750 original size:12 final size:12
Alignment explanation
Indices: 54451729--54451767 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
54451719 AATGTAGTTT
*
54451729 TGGCTCTGGCTC
1 TGGCTTTGGCTC
54451741 TGGCTTTGGCTC
1 TGGCTTTGGCTC
54451753 TGGCTTTGGCTC
1 TGGCTTTGGCTC
54451765 TGG
1 TGG
54451768 TGCATGATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.00, C:0.26, G:0.36, T:0.38
Consensus pattern (12 bp):
TGGCTTTGGCTC
Found at i:54453565 original size:16 final size:15
Alignment explanation
Indices: 54453534--54453575 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
54453524 ACAAAATCAA
*
54453534 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
54453549 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
54453565 ATAAAAATTAA
1 ATAAAAGTTAA
54453576 ATGAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:54453655 original size:38 final size:38
Alignment explanation
Indices: 54453612--54453693 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
54453602 AAAAAGTCAG
54453612 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
*
54453650 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
54453688 TTATAA
1 TTATAA
54453694 ACTTTATATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
Found at i:54453803 original size:60 final size:60
Alignment explanation
Indices: 54453727--54453848 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
54453717 ATACTAAACT
* * * * * *
54453727 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATT-AATTATAAAATAATTAC
*
54453787 AAACACAAAAATTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
54453847 AA
1 AA
54453849 TATTCATACA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 4 0.07
60 50 0.93
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:54453915 original size:8 final size:8
Alignment explanation
Indices: 54453902--54453926 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
54453892 ACAATATTCA
54453902 TACAAAAT
1 TACAAAAT
54453910 TACAAAAT
1 TACAAAAT
54453918 TACAAAAT
1 TACAAAAT
54453926 T
1 T
54453927 CATACAAAAA
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (8 bp):
TACAAAAT
Found at i:54453958 original size:49 final size:49
Alignment explanation
Indices: 54453836--54454110 Score: 362
Period size: 49 Copynumber: 5.7 Consensus size: 49
54453826 AATTAATTAT
* *
54453836 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-C
1 AAAAAAATTACAATATTCATAC--AAAATTACAAAATTACAATATTCATAC
*** * *
54453884 -CCGACATTACAATATTCATACAAAATTACAAAATTACAAAATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAAAATTACAATATTCATAC
* * *
54453932 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAAAATTACAATATTCATAC
54453981 -AAAAAATTACAATATTCATACAAAATTACAAAATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAAAATTACAATATTCATAC
* * * *
54454029 AAAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAAAATTACAATATTCATAC
54454078 AAAAAAATTACAATATTCATACAAAAATTACAA
1 AAAAAAATTACAATATTCATAC-AAAATTACAA
54454111 TATTCATACA
Statistics
Matches: 196, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
45 18 0.09
46 1 0.01
47 18 0.09
48 46 0.23
49 105 0.54
50 8 0.04
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.29
Consensus pattern (49 bp):
AAAAAAATTACAATATTCATACAAAATTACAAAATTACAATATTCATAC
Found at i:54454001 original size:97 final size:97
Alignment explanation
Indices: 54453836--54454110 Score: 412
Period size: 97 Copynumber: 2.8 Consensus size: 97
54453826 AATTAATTAT
* * * *** *
54453836 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-CCCGACATTACAATA
1 AAAAAAATTGCAATATTCATAC--AAAATTATAATATTACAATATTCATACAAAAAATTACAATA
54453898 TTCATACAAAATTACAAAATTACAAAATTCATAC
64 TTCATACAAAATTACAAAATTACAAAATTCATAC
54453932 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAATTACAATATT
1 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAATTACAATATT
*
54453997 CATACAAAATTACAAAATTACAATATTCATAC
66 CATACAAAATTACAAAATTACAAAATTCATAC
*
54454029 AAAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATACAAAAAAATTACAATAT
1 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAC-AAAAAATTACAATAT
54454094 TCATACAAAAATTACAA
65 TCATAC-AAAATTACAA
54454111 TATTCATACA
Statistics
Matches: 165, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
94 19 0.12
95 1 0.01
96 22 0.13
97 92 0.56
98 21 0.13
99 10 0.06
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.29
Consensus pattern (97 bp):
AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAATTACAATATT
CATACAAAATTACAAAATTACAAAATTCATAC
Found at i:54454147 original size:69 final size:70
Alignment explanation
Indices: 54454010--54454251 Score: 172
Period size: 69 Copynumber: 3.7 Consensus size: 70
54454000 ACAAAATTAC
* ** * **
54454010 AAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCA
1 AAAATTACAATATTCATAC-AAAAAATTACAATATTCATACAAAACTATAATACCAAAATATAAA
54454075 TACAAA
65 TACAAA
*
54454081 AAAATTACAATATTCATAC-AAAAATTACAATATTCATAC-AAATTACTAAT-CCAAAACTATAA
1 AAAATTACAATATTCATACAAAAAATTACAATATTCATACAAAACTA-TAATACCAAAA-TATAA
54454143 ATAC---
64 ATACAAA
* *
54454147 -AAATT--TA-ATT-ATA-AAATAATTACAATATTCATAC--AAC-AT--TA-C--AATAT---T
1 AAAATTACAATATTCATACAAAAAATTACAATATTCATACAAAACTATAATACCAAAATATAAAT
54454195 -CATAA
66 ACA-AA
* *
54454200 AAAATTACAATATTCATACAAAAAAATTAGAATATTCATACAAAATTATAAT
1 AAAATTACAATATTCATAC-AAAAAATTACAATATTCATACAAAACTATAAT
54454252 CTAAACTATA
Statistics
Matches: 137, Mismatches: 14, Indels: 46
0.70 0.07 0.23
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
53 3 0.02
54 7 0.05
56 3 0.02
57 3 0.02
58 4 0.03
59 1 0.01
60 21 0.15
61 22 0.16
62 5 0.04
63 3 0.02
65 6 0.04
68 8 0.06
69 30 0.22
71 19 0.14
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.31
Consensus pattern (70 bp):
AAAATTACAATATTCATACAAAAAATTACAATATTCATACAAAACTATAATACCAAAATATAAAT
ACAAA
Found at i:54454220 original size:49 final size:47
Alignment explanation
Indices: 54454165--54454247 Score: 90
Period size: 41 Copynumber: 1.9 Consensus size: 47
54454155 TTATAAAATA
*
54454165 ATTACAATATTCATAC-AACATTACAATATTCATAAAAAATTACAAT
1 ATTACAATATTCATACAAAAATTACAATATTCATAAAAAATTACAAT
* *
54454211 ATT-C-ATA--CA-A-AAAAATTAGAATATTCATACAAAATTA
1 ATTACAATATTCATACAAAAATTACAATATTCATAAAAAATTA
54454248 TAATCTAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
41 24 0.73
42 2 0.06
44 3 0.09
45 1 0.03
46 3 0.09
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.31
Consensus pattern (47 bp):
ATTACAATATTCATACAAAAATTACAATATTCATAAAAAATTACAAT
Found at i:54454243 original size:22 final size:22
Alignment explanation
Indices: 54453889--54454122 Score: 240
Period size: 27 Copynumber: 9.9 Consensus size: 22
54453879 ATATCCCGAC
54453889 ATTACAATATTCATACAAAATTACAAA
1 ATTACAATATTCATAC--AA--A-AAA
*
54453916 ATTACAAAATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
*
54453938 ATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAA--A-AA
54453964 TATTACAATATTCATAC-AAAAA
1 -ATTACAATATTCATACAAAAAA
54453986 ATTACAATATTCATACAAAATTACAAA
1 ATTACAATATTCATAC--AA--A-AAA
54454013 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
*
54454035 ATTGCAATATTCATACAAAACTATAA
1 ATTACAATATTCATAC-AAA--A-AA
54454061 TATTACAATATTCATACAAAAAA
1 -ATTACAATATTCATACAAAAAA
54454084 ATTACAATATTCATAC--AAAA
1 ATTACAATATTCATACAAAAAA
54454104 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
54454123 TTACTAATCC
Statistics
Matches: 183, Mismatches: 6, Indels: 41
0.80 0.03 0.18
Matches are distributed among these distances:
20 20 0.11
21 16 0.09
22 54 0.30
23 11 0.06
24 2 0.01
25 8 0.04
26 8 0.04
27 64 0.35
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (22 bp):
ATTACAATATTCATACAAAAAA
Found at i:54454423 original size:17 final size:17
Alignment explanation
Indices: 54454398--54454448 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
54454388 CCTTTTTTCT
54454398 TTCTT-TCTTTTTCTTC
1 TTCTTCTCTTTTTCTTC
* *
54454414 TTCTTCTCTTCTTCTCC
1 TTCTTCTCTTTTTCTTC
*
54454431 TT-TCTCTCTTTTTTTTC
1 TTCT-TCTCTTTTTCTTC
54454448 T
1 T
54454449 CTATCGTGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
TTCTTCTCTTTTTCTTC
Found at i:54454630 original size:27 final size:27
Alignment explanation
Indices: 54454555--54454619 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
54454545 CAGAAGGCAC
54454555 CATTGGCGCCTCTCAATGAGGCACCTT
1 CATTGGCGCCTCTCAATGAGGCACCTT
*
54454582 CATTGGCGCCTCTCTATGAGGCACCTT
1 CATTGGCGCCTCTCAATGAGGCACCTT
54454609 CATTGGCGCCT
1 CATTGGCGCCT
54454620 ACCAGATAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.15, C:0.34, G:0.23, T:0.28
Consensus pattern (27 bp):
CATTGGCGCCTCTCAATGAGGCACCTT
Found at i:54462571 original size:13 final size:13
Alignment explanation
Indices: 54462553--54462577 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54462543 GTTGTATACA
54462553 CACTTATATGACT
1 CACTTATATGACT
54462566 CACTTATATGAC
1 CACTTATATGAC
54462578 AACAAACTAA
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:0.24, G:0.08, T:0.36
Consensus pattern (13 bp):
CACTTATATGACT
Found at i:54478170 original size:27 final size:27
Alignment explanation
Indices: 54478130--54478182 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
54478120 AAAATCATCT
* * *
54478130 AATTTTTTTGAATTTTATATATTTTTG
1 AATTTTATTAAATTTTAAATATTTTTG
54478157 AATTTTATTAAATTTTAAATATTTTT
1 AATTTTATTAAATTTTAAATATTTTT
54478183 TAGATTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (27 bp):
AATTTTATTAAATTTTAAATATTTTTG
Found at i:54478171 original size:18 final size:17
Alignment explanation
Indices: 54478134--54478172 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
54478124 TCATCTAATT
*
54478134 TTTTTGAATTTTATATA
1 TTTTTGAATTTTATAAA
54478151 TTTTTGAATTTTATTAAA
1 TTTTTGAATTTTA-TAAA
54478169 TTTT
1 TTTT
54478173 AAATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTTTGAATTTTATAAA
Found at i:54481555 original size:21 final size:21
Alignment explanation
Indices: 54481522--54481571 Score: 91
Period size: 21 Copynumber: 2.3 Consensus size: 21
54481512 TATTATTCCG
54481522 GGTGTGTTAGGTTGGATATTCT
1 GGTGTG-TAGGTTGGATATTCT
54481544 GGTGTGTAGGTTGGATATTCT
1 GGTGTGTAGGTTGGATATTCT
54481565 GGTGTGT
1 GGTGTGT
54481572 TTGGTTAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.12, C:0.04, G:0.40, T:0.44
Consensus pattern (21 bp):
GGTGTGTAGGTTGGATATTCT
Found at i:54486397 original size:21 final size:21
Alignment explanation
Indices: 54486371--54486429 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
54486361 CCAATAGGAG
* *
54486371 ACTCTTATTTTGTACTTCGGT
1 ACTCTTGTTTTGTACTTCAGT
*
54486392 ACTCTTGTTTCTGGCACTTCAGT
1 ACTCTTGTTT-T-GTACTTCAGT
54486415 ACTCTTGTTATTGTA
1 ACTCTTGTT-TTGTA
54486430 GTTCCAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 9 0.29
22 3 0.10
23 18 0.58
24 1 0.03
ACGTcount: A:0.15, C:0.20, G:0.15, T:0.49
Consensus pattern (21 bp):
ACTCTTGTTTTGTACTTCAGT
Found at i:54488640 original size:3 final size:3
Alignment explanation
Indices: 54488632--54488662 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
54488622 TATAAATTGC
54488632 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
54488663 AGATTGTGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:54490751 original size:3 final size:3
Alignment explanation
Indices: 54490743--54490809 Score: 59
Period size: 3 Copynumber: 22.7 Consensus size: 3
54490733 AAAACTATAG
* * *
54490743 TAA TAA TAA TAAA TCA TAA TAC TAA T-A TGCA TAA TAA -AA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
*
54490788 TAA TGA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
54490810 CAAAAGCACA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
2 6 0.12
3 41 0.79
4 5 0.10
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:54490799 original size:23 final size:23
Alignment explanation
Indices: 54490745--54490802 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
54490735 AACTATAGTA
*
54490745 ATAATAATAAATCATAATACTAAT
1 ATAATAATAAA-CATAATAATAAT
*
54490769 ATGCATAATAAA-ATAATAATAAT
1 AT-AATAATAAACATAATAATAAT
54490792 GATAATAATAA
1 -ATAATAATAA
54490803 TAAAATACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 17 0.59
24 4 0.14
25 8 0.28
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.31
Consensus pattern (23 bp):
ATAATAATAAACATAATAATAAT
Found at i:54490802 original size:26 final size:26
Alignment explanation
Indices: 54490721--54490809 Score: 78
Period size: 26 Copynumber: 3.4 Consensus size: 26
54490711 ATTAATATGC
54490721 ATAATAAAAT-ATAA-AACTATAGTAATA
1 ATAATAAAATAATAATAA-TA-A-TAATA
* * *
54490748 ATAAT-AAATCATAATACTAAT-ATGC
1 ATAATAAAATAATAATAATAATAAT-A
*
54490773 ATAATAAAATAATAATAATGATAATA
1 ATAATAAAATAATAATAATAATAATA
54490799 ATAATAAAATA
1 ATAATAAAATA
54490810 CAAAAGCACA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
24 2 0.04
25 6 0.12
26 29 0.57
27 13 0.25
28 1 0.02
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.30
Consensus pattern (26 bp):
ATAATAAAATAATAATAATAATAATA
Found at i:54497712 original size:112 final size:113
Alignment explanation
Indices: 54497575--54497777 Score: 273
Period size: 112 Copynumber: 1.8 Consensus size: 113
54497565 GATTAACAAA
* * * ** *
54497575 AAAAAACTATCAAAAACCCCCAAGAGACCCACCGCATCAGTAATGCGCAAAAAGCCACGTTTCAA
1 AAAAAACTATCAAAAACCCCCAAGAGACCCACCACATCAATAATGCACAAAAAGCCAAATCTCAA
* *
54497640 ATGGCCTATTCTCCTCTTCATCACCTTAGATTTATCACATCATGGTTG
66 ATGACCTATCCTCCTCTTCATCACCTTAGATTTATCACATCATGGTTG
* * * * *
54497688 AAAAAACTGTC-AAAAGCCCCAAGAGACCCACCACATCAATGATGCATAAAAGGCCAAATCTCAA
1 AAAAAACTATCAAAAACCCCCAAGAGACCCACCACATCAATAATGCACAAAAAGCCAAATCTCAA
*
54497752 ATGATCTATCCTCCTCTTCATCACCT
66 ATGACCTATCCTCCTCTTCATCACCT
54497778 CAAATCTATT
Statistics
Matches: 76, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
112 66 0.87
113 10 0.13
ACGTcount: A:0.36, C:0.30, G:0.11, T:0.22
Consensus pattern (113 bp):
AAAAAACTATCAAAAACCCCCAAGAGACCCACCACATCAATAATGCACAAAAAGCCAAATCTCAA
ATGACCTATCCTCCTCTTCATCACCTTAGATTTATCACATCATGGTTG
Found at i:54509277 original size:29 final size:27
Alignment explanation
Indices: 54509226--54509281 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
54509216 ATTTGCAACA
*
54509226 CTTTTTGATGCTTTAAGTGGGTGTTAG
1 CTTTTTGATGCTTTAAGTAGGTGTTAG
*
54509253 CTTTTTTATGCTTTAAAAGTAGGTGTTAG
1 CTTTTTGATGCTTT--AAGTAGGTGTTAG
54509282 GGTTTTGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.52
29 12 0.48
ACGTcount: A:0.20, C:0.07, G:0.25, T:0.48
Consensus pattern (27 bp):
CTTTTTGATGCTTTAAGTAGGTGTTAG
Found at i:54514793 original size:13 final size:13
Alignment explanation
Indices: 54514775--54514800 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54514765 ATCTTATGAT
54514775 ACTTTGTAAACAG
1 ACTTTGTAAACAG
54514788 ACTTTGTAAACAG
1 ACTTTGTAAACAG
54514801 TCTGGGTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ACTTTGTAAACAG
Found at i:54533038 original size:22 final size:21
Alignment explanation
Indices: 54533013--54533057 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
54533003 AATTAAAAGG
54533013 TATTAAGTATGATATTTTGAAT
1 TATTAAGTAT-ATATTTTGAAT
* * *
54533035 TATTAATTATATTTTTTTAAT
1 TATTAAGTATATATTTTGAAT
54533056 TA
1 TA
54533058 AATATTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
TATTAAGTATATATTTTGAAT
Found at i:54541364 original size:7 final size:8
Alignment explanation
Indices: 54541348--54541375 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
54541338 CTCACTCTGC
54541348 TTTTCTTT
1 TTTTCTTT
54541356 TTTTCTTT
1 TTTTCTTT
54541364 TTTTCTTT
1 TTTTCTTT
54541372 TTTT
1 TTTT
54541376 TTCTGAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTCTTT
Found at i:54543805 original size:76 final size:76
Alignment explanation
Indices: 54543714--54543869 Score: 249
Period size: 76 Copynumber: 2.1 Consensus size: 76
54543704 ATCTACATAG
** * *
54543714 AAAGTAAATTGATGGATTCGTATTTCTCAAAAAATGGACCACGTCTTCATTAAAGCTATGTGTTT
1 AAAGTAAATAAATGGATTCCTATTTCTCAAAAAATGGACCACGTCTTCATTAAAGCAATGTGTTT
54543779 GTGCCCAACAT
66 GTGCCCAACAT
* *
54543790 AAAGTAAATAAATGGATTCCTATTTCTCATAAAATGGACCATGTCTTCATTAAAGCAATGTGTTT
1 AAAGTAAATAAATGGATTCCTATTTCTCAAAAAATGGACCACGTCTTCATTAAAGCAATGTGTTT
*
54543855 GTGCCCAATAT
66 GTGCCCAACAT
54543866 AAAG
1 AAAG
54543870 GGTGGCACTG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (76 bp):
AAAGTAAATAAATGGATTCCTATTTCTCAAAAAATGGACCACGTCTTCATTAAAGCAATGTGTTT
GTGCCCAACAT
Found at i:54544606 original size:18 final size:18
Alignment explanation
Indices: 54544579--54544613 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54544569 GATTTGCAAA
54544579 GGGTTAATTTACAATGTT
1 GGGTTAATTTACAATGTT
* *
54544597 GGGTTTATTTAGAATGT
1 GGGTTAATTTACAATGT
54544614 AACTGTAGTT
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:0.26, C:0.03, G:0.26, T:0.46
Consensus pattern (18 bp):
GGGTTAATTTACAATGTT
Found at i:54548573 original size:23 final size:24
Alignment explanation
Indices: 54548524--54548573 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
54548514 TTTTTAAATT
*
54548524 TTTTAGAAGTTTAAAATGCTAGCA
1 TTTTAGAAGTTCAAAATGCTAGCA
* * *
54548548 TTTTAGAA-TTCATAATGTTAGGA
1 TTTTAGAAGTTCAAAATGCTAGCA
54548571 TTT
1 TTT
54548574 GTAATTGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (24 bp):
TTTTAGAAGTTCAAAATGCTAGCA
Found at i:54549786 original size:64 final size:65
Alignment explanation
Indices: 54549713--54549833 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 65
54549703 ATATATATCG
* *
54549713 AAATTATATTTATGTTAAATAATACTCATTAAAACTTATTAA-ATAATATTTATATTTAGAAAAA
1 AAATCATATTTATGTTAAATAATAATCATTAAAACTTATTAACATAATATTTATATTTAGAAAAA
* * * * *
54549777 AAATCATATTTATTTTAAATAATAATCATTACAAGTTATTAACATAATTTTTGTATT
1 AAATCATATTTATGTTAAATAATAATCATTAAAACTTATTAACATAATATTTATATT
54549834 AAAATAAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
64 37 0.76
65 12 0.24
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (65 bp):
AAATCATATTTATGTTAAATAATAATCATTAAAACTTATTAACATAATATTTATATTTAGAAAAA
Found at i:54559484 original size:51 final size:51
Alignment explanation
Indices: 54559379--54559477 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
54559369 ATATATTTCT
* * *
54559379 TTAATTTTTTAAAATTAAGATCTAAATGAAATTATTTATAAATTTTGAGAA
1 TTAATTTTTTAAAATTAAGATCTAAATGAAATAATATATAAATATTGAGAA
* * *
54559430 TTAATTTTTTAAAATTATGA-CTAAATTGATATAATATGTAAATATTGA
1 TTAATTTTTTAAAATTAAGATCTAAA-TGAAATAATATATAAATATTGA
54559478 ACATTAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 5 0.12
51 36 0.88
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.45
Consensus pattern (51 bp):
TTAATTTTTTAAAATTAAGATCTAAATGAAATAATATATAAATATTGAGAA
Found at i:54564096 original size:11 final size:11
Alignment explanation
Indices: 54564072--54564104 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
54564062 ATGATAAAAA
*
54564072 ATAAAAATCA-
1 ATAAAAATTAT
54564082 ATAAAAATTAT
1 ATAAAAATTAT
54564093 ATAAAAATTAT
1 ATAAAAATTAT
54564104 A
1 A
54564105 AAATGCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (11 bp):
ATAAAAATTAT
Found at i:54564208 original size:10 final size:10
Alignment explanation
Indices: 54564188--54564248 Score: 65
Period size: 10 Copynumber: 6.3 Consensus size: 10
54564178 TTTATAAAAG
*
54564188 TTTATAAATT
1 TTTATATATT
*
54564198 TTTTTATATT
1 TTTATATATT
*
54564208 TCTATATA-T
1 TTTATATATT
54564217 TTTATATATT
1 TTTATATATT
54564227 TTTA-ATGATT
1 TTTATAT-ATT
54564237 TTTATA-ATT
1 TTTATATATT
54564246 TTT
1 TTT
54564249 TCCTATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 16 0.37
10 26 0.60
11 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATATATT
Found at i:54564237 original size:19 final size:18
Alignment explanation
Indices: 54564198--54564248 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
54564188 TTTATAAATT
*
54564198 TTTTTATATTTCTATATA
1 TTTTTATATTTTTATATA
54564216 TTTTATATATTTTTA-ATGA
1 TTTT-TATATTTTTATAT-A
54564235 TTTTTATAATTTTT
1 TTTTTAT-ATTTTT
54564249 TCCTATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 9 0.31
19 20 0.69
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTTATATTTTTATATA
Found at i:54564237 original size:29 final size:27
Alignment explanation
Indices: 54564188--54564262 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 27
54564178 TTTATAAAAG
* *
54564188 TTTATAAATTTTTTTATATTTCTATATAT
1 TTTATATA-TTTTTAATATTTCTATA-AT
*
54564217 TTTATATATTTTTAATGATTTTTATAAT
1 TTTATATATTTTTAAT-ATTTCTATAAT
* *
54564245 TTTTTCCTATTTTTAATA
1 TTTAT-ATATTTTTAATA
54564263 AAATTTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 14 0.36
29 25 0.64
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (27 bp):
TTTATATATTTTTAATATTTCTATAAT
Found at i:54564284 original size:29 final size:30
Alignment explanation
Indices: 54564213--54564284 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 30
54564203 ATATTTCTAT
* * **
54564213 ATATTTTATATATTTTTAATGATTTTTATA
1 ATATTTTTTATATTTTTAATAAAATTTATA
**
54564243 AT-TTTTTCCTATTTTTAATAAAATTTA-A
1 ATATTTTTTATATTTTTAATAAAATTTATA
54564271 ATATTTTTTATATT
1 ATATTTTTTATATT
54564285 CTTTTATTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
28 3 0.09
29 28 0.85
30 2 0.06
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (30 bp):
ATATTTTTTATATTTTTAATAAAATTTATA
Found at i:54566566 original size:23 final size:23
Alignment explanation
Indices: 54566540--54566590 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
54566530 ATACTAGACT
54566540 TGTTTTAGGAGTTTTTTTTCTTC
1 TGTTTTAGGAGTTTTTTTTCTTC
54566563 TGTTTTAGGAGTTTTTTTTCTTC
1 TGTTTTAGGAGTTTTTTTTCTTC
54566586 T-TTTT
1 TGTTTT
54566591 GTAAGTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.08, C:0.08, G:0.16, T:0.69
Consensus pattern (23 bp):
TGTTTTAGGAGTTTTTTTTCTTC
Found at i:54569896 original size:27 final size:27
Alignment explanation
Indices: 54569866--54569923 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
54569856 TCGATTTTTT
*
54569866 TATTTTTTATATAAATTT-TAATAAATA
1 TATTTATTATATAAATTTGT-ATAAATA
*
54569893 TATTTATTATATAAATTTGTATATATA
1 TATTTATTATATAAATTTGTATAAATA
54569920 TATT
1 TATT
54569924 AATAATATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
TATTTATTATATAAATTTGTATAAATA
Found at i:54569931 original size:27 final size:27
Alignment explanation
Indices: 54569874--54569931 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
54569864 TTTATTTTTT
* *
54569874 ATATAAATTTTAATAAATATATTTATT
1 ATATAAATTTTAATAAATATATTAATA
*
54569901 ATATAAATTTGT-ATATATATATTAATA
1 ATATAAATTT-TAATAAATATATTAATA
54569928 ATAT
1 ATAT
54569932 GATTGGTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
ATATAAATTTTAATAAATATATTAATA
Found at i:54582591 original size:12 final size:14
Alignment explanation
Indices: 54582562--54582593 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
54582552 CCGTATTAAT
54582562 TTTTTATATTATTA
1 TTTTTATATTATTA
54582576 TTTTTATA-TA-TA
1 TTTTTATATTATTA
54582588 TTTTTA
1 TTTTTA
54582594 AAAAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 2 0.11
14 8 0.44
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTATATTATTA
Found at i:54588686 original size:16 final size:17
Alignment explanation
Indices: 54588667--54588699 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
54588657 AATCGACTTT
54588667 GAATCTAAAA-TGATCC
1 GAATCTAAAATTGATCC
*
54588683 GAATTTAAAATTGATCC
1 GAATCTAAAATTGATCC
54588700 AAATTCAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (17 bp):
GAATCTAAAATTGATCC
Found at i:54590563 original size:26 final size:27
Alignment explanation
Indices: 54590509--54590563 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
54590499 GCAATGTAAA
*
54590509 TTGTAAATTTTGTATATAATATTTTTC
1 TTGTAAATTTTGTATATAATATTTCTC
54590536 TTGT-AATTTTGTATAT-ATATATTCTC
1 TTGTAAATTTTGTATATAATAT-TTCTC
54590562 TT
1 TT
54590564 TCCATAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 18 0.69
27 4 0.15
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.60
Consensus pattern (27 bp):
TTGTAAATTTTGTATATAATATTTCTC
Found at i:54605175 original size:224 final size:224
Alignment explanation
Indices: 54604785--54605232 Score: 896
Period size: 224 Copynumber: 2.0 Consensus size: 224
54604775 AGCAGCAGCA
54604785 AAACAATAGAGATGGGTTTCCATTTGATGACAATCAGCTTCATGGAAATTGGTAGTTTTTCAAGC
1 AAACAATAGAGATGGGTTTCCATTTGATGACAATCAGCTTCATGGAAATTGGTAGTTTTTCAAGC
54604850 ACCAAAAATATGCTTGCATTTGAGTAGATGCTCATGGGGTCATTTATAAGAAAATTATTGGTAAT
66 ACCAAAAATATGCTTGCATTTGAGTAGATGCTCATGGGGTCATTTATAAGAAAATTATTGGTAAT
54604915 TTATTTGAATTTCCATTAAATTATATATTTTGATATATTTATATTCGTCACATCCACACAGCAAT
131 TTATTTGAATTTCCATTAAATTATATATTTTGATATATTTATATTCGTCACATCCACACAGCAAT
54604980 AAGTTCTGAAGGATGGATGTTGATATGCT
196 AAGTTCTGAAGGATGGATGTTGATATGCT
54605009 AAACAATAGAGATGGGTTTCCATTTGATGACAATCAGCTTCATGGAAATTGGTAGTTTTTCAAGC
1 AAACAATAGAGATGGGTTTCCATTTGATGACAATCAGCTTCATGGAAATTGGTAGTTTTTCAAGC
54605074 ACCAAAAATATGCTTGCATTTGAGTAGATGCTCATGGGGTCATTTATAAGAAAATTATTGGTAAT
66 ACCAAAAATATGCTTGCATTTGAGTAGATGCTCATGGGGTCATTTATAAGAAAATTATTGGTAAT
54605139 TTATTTGAATTTCCATTAAATTATATATTTTGATATATTTATATTCGTCACATCCACACAGCAAT
131 TTATTTGAATTTCCATTAAATTATATATTTTGATATATTTATATTCGTCACATCCACACAGCAAT
54605204 AAGTTCTGAAGGATGGATGTTGATATGCT
196 AAGTTCTGAAGGATGGATGTTGATATGCT
54605233 GAGTTGGATT
Statistics
Matches: 224, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
224 224 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (224 bp):
AAACAATAGAGATGGGTTTCCATTTGATGACAATCAGCTTCATGGAAATTGGTAGTTTTTCAAGC
ACCAAAAATATGCTTGCATTTGAGTAGATGCTCATGGGGTCATTTATAAGAAAATTATTGGTAAT
TTATTTGAATTTCCATTAAATTATATATTTTGATATATTTATATTCGTCACATCCACACAGCAAT
AAGTTCTGAAGGATGGATGTTGATATGCT
Found at i:54608830 original size:32 final size:32
Alignment explanation
Indices: 54608794--54608861 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
54608784 TCCAATTTGT
54608794 GAAACCCAACAACTAATCTCAAAATTCCTATA
1 GAAACCCAACAACTAATCTCAAAATTCCTATA
54608826 GAAACCCAACAACTAATCTCAAAATTCCTATA
1 GAAACCCAACAACTAATCTCAAAATTCCTATA
54608858 GAAA
1 GAAA
54608862 TTACATTACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.49, C:0.26, G:0.04, T:0.21
Consensus pattern (32 bp):
GAAACCCAACAACTAATCTCAAAATTCCTATA
Found at i:54610625 original size:278 final size:277
Alignment explanation
Indices: 54610121--54610669 Score: 676
Period size: 278 Copynumber: 2.0 Consensus size: 277
54610111 ATTATCTGAT
* * * * **
54610121 GGTCACCATTGTATCTTTTACAAAGAAAATGGTCATTACTCAAATTAGTAATGACGAAATCATTT
1 GGTCACCATTGTATCTTTCACAAAGAAAATGATCATTACACAAATTAGTAATGAAGAAATCAGGT
* * * *
54610186 GTCCCAGACAAATGACCCTTAACTAGGTTCTATTTTCATAATCCATACAATGTCAGTAAGACTAT
66 GTCCCAAACAAATGACCCTTAACCAGGTTCTATTTTCATAATCCATACAATCTCAGTAAGACGAT
* * * * *
54610251 ACCATTTACTCTTTTATCGAGCTATGATTCCACTACAGTGAGTGAAGCCATATCATGTATAAGTC
131 ACCATTTACTCATTTAACGAGCCATGATTCCACTACAGTGAGTGAAGCCATATCATGCATAAGTA
** * *
54610316 ATGTACCCAACATACCAACTTCCGGTCCACTATCATTAGAGCAGATGTTTTCAATATATCAAAGC
196 ATGTACCCAACATACCAACTTCCAATCCACTATCATGAGAGC--ATATTTTCAATATATCAAAGC
54610381 ACAT-AGTTACACCCGTAA
259 ACATGAGTTACACCCGTAA
* * *
54610399 GGTCACCATTGTATCTTTCACAATA-AAAATGATCATTACACAATTTATTAATGAAGAAATTAGG
1 GGTCACCATTGTATCTTTCACAA-AGAAAATGATCATTACACAAATTAGTAATGAAGAAATCAGG
** * *
54610463 TG-CCCTAAACAAATGA-CCTATGGCCAGGTTCTATTTTCATAATTCATACAATACT-AGTGAGA
65 TGTCCC-AAACAAATGACCCT-TAACCAGGTTCTATTTTCATAATCCATACAAT-CTCAGTAAGA
* ** ** ** *
54610525 GGATATTATTTACTCATTTAACGAGCCATGATTCCACTATTGTGAGTGACTCTATATCATGCATA
127 CGATACCATTTACTCATTTAACGAGCCATGATTCCACTACAGTGAGTGAAGCCATATCATGCATA
* * *
54610590 AGTAATGTACCTAACATACCAACTTCCAATCCACTATCATGAGTGCATATTTTCACTATATCAAA
192 AGTAATGTACCCAACATACCAACTTCCAATCCACTATCATGAGAGCATATTTTCAATATATCAAA
54610655 GCACATGAGTTACAC
257 GCACATGAGTTACAC
54610670 AAACATGGTC
Statistics
Matches: 229, Mismatches: 37, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
276 23 0.10
277 14 0.06
278 190 0.83
279 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (277 bp):
GGTCACCATTGTATCTTTCACAAAGAAAATGATCATTACACAAATTAGTAATGAAGAAATCAGGT
GTCCCAAACAAATGACCCTTAACCAGGTTCTATTTTCATAATCCATACAATCTCAGTAAGACGAT
ACCATTTACTCATTTAACGAGCCATGATTCCACTACAGTGAGTGAAGCCATATCATGCATAAGTA
ATGTACCCAACATACCAACTTCCAATCCACTATCATGAGAGCATATTTTCAATATATCAAAGCAC
ATGAGTTACACCCGTAA
Found at i:54612857 original size:15 final size:16
Alignment explanation
Indices: 54612831--54612860 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
54612821 TAGTGTTTAG
54612831 GTGGGTTATTGGGTTT
1 GTGGGTTATTGGGTTT
54612847 GTGGG-TATTGGGTT
1 GTGGGTTATTGGGTT
54612861 CTTTTGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.47
Consensus pattern (16 bp):
GTGGGTTATTGGGTTT
Found at i:54613531 original size:87 final size:87
Alignment explanation
Indices: 54613415--54613576 Score: 227
Period size: 87 Copynumber: 1.9 Consensus size: 87
54613405 AGACTTGATG
* * * * *
54613415 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTA-TTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGAT-CTCTAGCTTCAATCCGCTCCACTGTAACC
54613479 TCAGGGAGATAGGATAGTGTCTT
65 TCAGGGAGATAGGATAGTGTCTT
* * * *
54613502 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTAGCTTCAATCCGCTCCACTGTAACCT
54613567 CAGGGAGATA
66 CAGGGAGATA
54613577 AGATCCGAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
86 4 0.06
87 61 0.94
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTAGCTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAGGATAGTGTCTT
Found at i:54613744 original size:44 final size:43
Alignment explanation
Indices: 54613427--54613795 Score: 213
Period size: 44 Copynumber: 8.5 Consensus size: 43
54613417 ATCTACTCTG
* * * * *
54613427 CTGTAACCTCAGAGAGATAAGATCCTTTAT-TTTAATCCGCTCCA
1 CTGTAATCTCAGGGAGATAAGATAC--TATCTTTGATCTGCTCCA
* * * * *
54613471 CTGTAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGATACTATCTTTGATCTGCTCCA
* * **
54613514 CTGTAATCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGAT-ACTATCTTTGATCTGCTCCA
* * * * **
54613558 CTGTAACCTCAGGGAGATAAGATCCGAAATTCTTTGGTCTATTCCA
1 CTGTAATCTCAGGGAGATAAGATAC--TA-TCTTTGATCTGCTCCA
* * * *
54613604 CTGTAATCTCAGGGAGATAAGA-CCTGA--TGTGATTTTC-CCTA
1 CTGTAATCTCAGGGAGATAAGATACT-ATCTTTGATCTGCTCC-A
* * *
54613645 CTGTAA-CTTCAGAGAGATAAGAT-C---CTTTAATCCGCTCCA
1 CTGTAATC-TCAGGGAGATAAGATACTATCTTTGATCTGCTCCA
* * * *
54613684 TTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGA-TACTATCTTTGATCTGCTCCA
* *
54613728 CTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATACT---A-TCTTTGATCTGCTCCA
*
54613774 CTGTATTCTCAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
54613796 CCTGTATAAT
Statistics
Matches: 250, Mismatches: 52, Indels: 44
0.72 0.15 0.13
Matches are distributed among these distances:
39 22 0.09
40 7 0.03
41 27 0.11
42 4 0.02
43 33 0.13
44 88 0.35
45 4 0.02
46 65 0.26
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (43 bp):
CTGTAATCTCAGGGAGATAAGATACTATCTTTGATCTGCTCCA
Found at i:54622478 original size:56 final size:56
Alignment explanation
Indices: 54622405--54622516 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
54622395 GGCCTTAACC
*
54622405 TTTCTAAGAAGCCAAGCTAACTCTCGGCCCTTGTCCGACTCTAACTCATACTTCAA
1 TTTCTAAGAAGCCAAGCTAACTCTCGGCCCCTGTCCGACTCTAACTCATACTTCAA
* * *
54622461 TTTCTAAGAAGCCAAGCTAATTCTCGGCCCCTGTCCGACTCTGACTCATATTTCAA
1 TTTCTAAGAAGCCAAGCTAACTCTCGGCCCCTGTCCGACTCTAACTCATACTTCAA
54622517 ACTTAATAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.29
Consensus pattern (56 bp):
TTTCTAAGAAGCCAAGCTAACTCTCGGCCCCTGTCCGACTCTAACTCATACTTCAA
Found at i:54634905 original size:6 final size:6
Alignment explanation
Indices: 54634894--54634926 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
54634884 GCTGTAAAGA
*
54634894 CTCTCC CTCTCC CTCTCC CTCTCC CTTTCC CTC
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTC
54634927 CAGCTCTTTT
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:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
CTCTCC
Found at i:54638756 original size:3 final size:3
Alignment explanation
Indices: 54638743--54638825 Score: 159
Period size: 3 Copynumber: 28.0 Consensus size: 3
54638733 CATTTTCTAA
54638743 AAT AA- 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
54638790 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
54638826 CAATCCTATT
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.03
3 77 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:54642290 original size:5 final size:5
Alignment explanation
Indices: 54642280--54642308 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
54642270 GTAGCTTATT
54642280 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
54642309 TTGTTTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:54646047 original size:6 final size:6
Alignment explanation
Indices: 54646036--54646073 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
54646026 CATTTTTCAT
*
54646036 CCCATC CCCATC CCCATC CCCATC CCCATC CCCTTC CC
1 CCCATC CCCATC CCCATC CCCATC CCCATC CCCATC CC
54646074 TCTTCCCCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.13, C:0.68, G:0.00, T:0.18
Consensus pattern (6 bp):
CCCATC
Found at i:54656415 original size:16 final size:16
Alignment explanation
Indices: 54656394--54656424 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54656384 TATAAATCAT
54656394 TTTTTATAATAATTTG
1 TTTTTATAATAATTTG
*
54656410 TTTTTATCATAATTT
1 TTTTTATAATAATTT
54656425 AGAACTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTTTATAATAATTTG
Found at i:54662669 original size:4 final size:4
Alignment explanation
Indices: 54662660--54662703 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
54662650 CTCAACATTC
54662660 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
54662704 TGAGTATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:54666349 original size:38 final size:38
Alignment explanation
Indices: 54666298--54666374 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
54666288 CATTTATAGT
*
54666298 TATTGGGATACTATAAATATTTGAAAATGTTCCAACAA
1 TATTGGGATACTATAAATATTTGAAAATATTCCAACAA
54666336 TATTGGGATACTATAAATATTTGAAAATATTCCAACAA
1 TATTGGGATACTATAAATATTTGAAAATATTCCAACAA
54666374 T
1 T
54666375 CTCCCCCCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (38 bp):
TATTGGGATACTATAAATATTTGAAAATATTCCAACAA
Found at i:54672227 original size:248 final size:248
Alignment explanation
Indices: 54671789--54672288 Score: 876
Period size: 248 Copynumber: 2.0 Consensus size: 248
54671779 GAAAAACAAT
* * *
54671789 GTCTTCCACAATGGAATCTGATAAGCAAGATTTTGAGTAAGTGTTTACATGATTTTCTTCTATCT
1 GTCTTCCACAATGGAATCTGATAAACAAGATTTTGAGTAAGTATTTACATAATTTTCTTCTATCT
* * * *
54671854 GAAAAAATGATTCATGGAAATAATGAGGCACCATTGATATCAACACATTAGAGATTGCCAAATGT
66 GAAAAAATGATTCATGAAAATAATGAGGCACAATTGATATCAACACATTAGAGATTACCAAATAT
* * *
54671919 TCAAATTTGAATTTTTTATCTGAATAACGAATGCAGAGTCATATATTCAACAAATAATGATATTA
131 TCAAATCTGAATTTTTTATCTAAATAACGAATACAGAGTCATATATTCAACAAATAATGATATTA
*
54671984 AATTTGAATTCAAATTCGGATAATTTGCAAATATCCTATCGCTGTCATCCCTA
196 AATTTGAATTCAAATTCGGATAATTTGCAAATATCCTATCGCTGCCATCCCTA
54672037 GTCTTCCACAATGGAATCTGATAAACAAGATTTTGAGTAAGTATTTACATAATTTTCTTCTATCT
1 GTCTTCCACAATGGAATCTGATAAACAAGATTTTGAGTAAGTATTTACATAATTTTCTTCTATCT
54672102 -AAAAAATGATTCATGAAAATAATGAGGCACAATTGATATCAACACATTAGAGATTACCAAATAT
66 GAAAAAATGATTCATGAAAATAATGAGGCACAATTGATATCAACACATTAGAGATTACCAAATAT
*
54672166 TCAAATCTGAATTTTTTTATCTAAATAATGAATACAGAGTCATATATTCAACAAATAATGATATT
131 TCAAATCTGAA-TTTTTTATCTAAATAACGAATACAGAGTCATATATTCAACAAATAATGATATT
54672231 AAATTTGAATTCAAATTCGGATAATTTGCAAATATCCTATCGCTGCCATCCCTA
195 AAATTTGAATTCAAATTCGGATAATTTGCAAATATCCTATCGCTGCCATCCCTA
54672285 GTCT
1 GTCT
54672289 CCCCATGACC
Statistics
Matches: 239, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
247 70 0.29
248 169 0.71
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (248 bp):
GTCTTCCACAATGGAATCTGATAAACAAGATTTTGAGTAAGTATTTACATAATTTTCTTCTATCT
GAAAAAATGATTCATGAAAATAATGAGGCACAATTGATATCAACACATTAGAGATTACCAAATAT
TCAAATCTGAATTTTTTATCTAAATAACGAATACAGAGTCATATATTCAACAAATAATGATATTA
AATTTGAATTCAAATTCGGATAATTTGCAAATATCCTATCGCTGCCATCCCTA
Found at i:54673490 original size:20 final size:19
Alignment explanation
Indices: 54673445--54673500 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
54673435 TTTTGTATAG
* *
54673445 GTTAGAAATATTGGTAAAT
1 GTTAGAATTTTTGGTAAAT
*
54673464 TTCTAGAATTTTTGGTAAAT
1 GT-TAGAATTTTTGGTAAAT
54673484 CGTTAG-ATATTTTGGTA
1 -GTTAGAAT-TTTTGGTA
54673501 TAGGTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.10
20 26 0.87
21 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.45
Consensus pattern (19 bp):
GTTAGAATTTTTGGTAAAT
Found at i:54676713 original size:49 final size:49
Alignment explanation
Indices: 54676641--54676737 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
54676631 TGAGTGAATA
54676641 CTCTCAAATTTCTTATTAATAACTTAATGAATGTACAATGAGCAAAAAG
1 CTCTCAAATTTCTTATTAATAACTTAATGAATGTACAATGAGCAAAAAG
*
54676690 CTCTCAAATTTCTTATTAATAACTTAATGGATGTACAATGAGCAAAAA
1 CTCTCAAATTTCTTATTAATAACTTAATGAATGTACAATGAGCAAAAA
54676738 TGTCTCTATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.33
Consensus pattern (49 bp):
CTCTCAAATTTCTTATTAATAACTTAATGAATGTACAATGAGCAAAAAG
Found at i:54682085 original size:13 final size:13
Alignment explanation
Indices: 54682067--54682093 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54682057 AACAAGTTAT
54682067 TAATTTATTCTTC
1 TAATTTATTCTTC
54682080 TAATTTATTCTTC
1 TAATTTATTCTTC
54682093 T
1 T
54682094 TTTTATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (13 bp):
TAATTTATTCTTC
Found at i:54682104 original size:33 final size:33
Alignment explanation
Indices: 54682063--54682127 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
54682053 AACTAACAAG
54682063 TTATTAATTTATTCTTCTAATTTATTCTTCTTT
1 TTATTAATTTATTCTTCTAATTTATTCTTCTTT
* *
54682096 TTATTAATTTATTTTTCTAATTTCTTCTTCTT
1 TTATTAATTTATTCTTCTAATTTATTCTTCTT
54682128 CTTTTCTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (33 bp):
TTATTAATTTATTCTTCTAATTTATTCTTCTTT
Found at i:54689056 original size:33 final size:32
Alignment explanation
Indices: 54689010--54689081 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 32
54689000 AAATGAGTAC
54689010 ATTTGTATTATTTA-TATACAATTAGTAAAAAGAT
1 ATTT-TATTATTTATTAT-CAATTAGT-AAAAGAT
*
54689044 ATTTTATTATTTATTATTAATTAGTAAAAGAT
1 ATTTTATTATTTATTATCAATTAGTAAAAGAT
54689076 -TTTTAT
1 ATTTTAT
54689082 ATGATAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 6 0.17
32 7 0.19
33 16 0.44
34 7 0.19
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (32 bp):
ATTTTATTATTTATTATCAATTAGTAAAAGAT
Found at i:54689531 original size:18 final size:17
Alignment explanation
Indices: 54689504--54689557 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
54689494 AGTGAATGAA
54689504 AAAGTGAATTTGATATTG
1 AAAGTGAATTTGA-ATTG
* *
54689522 AAAGTAAATTTTGAAATG
1 AAAGTGAA-TTTGAATTG
54689540 AAAGTGAATTTGAATTG
1 AAAGTGAATTTGAATTG
54689557 A
1 A
54689558 GAATTGGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 9 0.29
18 17 0.55
19 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.35
Consensus pattern (17 bp):
AAAGTGAATTTGAATTG
Found at i:54689752 original size:38 final size:39
Alignment explanation
Indices: 54689650--54689758 Score: 114
Period size: 38 Copynumber: 2.8 Consensus size: 39
54689640 GACCTCGAGT
* **
54689650 CGATGAGACACTGGGTGTCACTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA--ACTTTACTTCGGATAGAGC
* * * *
54689691 CGATGAGATACTAGGTATC-ACTTTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
*
54689728 CGATGAGACACTGGGTGTCAACTTTGCTTCG
1 CGATGAGACACTGGGTGTCAACTTTACTTCG
54689759 AACTATCCGA
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
37 16 0.29
38 24 0.43
41 16 0.29
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
Found at i:54690955 original size:26 final size:26
Alignment explanation
Indices: 54690914--54691139 Score: 264
Period size: 26 Copynumber: 8.8 Consensus size: 26
54690904 AGTATATTGT
* *
54690914 TTATTTAGCAGACCTTGAGCCGGTGA
1 TTATTTAGTAGGCCTTGAGCCGGTGA
* *
54690940 TTATTTGGTAGGCCTTGAGCCAGTGA
1 TTATTTAGTAGGCCTTGAGCCGGTGA
54690966 TTATTTAGTAGGCCTTGAGCCGGTGA
1 TTATTTAGTAGGCCTTGAGCCGGTGA
* *
54690992 TTATTTAGTAAGCCTTGAGCCAGTGA
1 TTATTTAGTAGGCCTTGAGCCGGTGA
*
54691018 TTATTTAGTAGGCCTTGAGCCGGTGT
1 TTATTTAGTAGGCCTTGAGCCGGTGA
* **
54691044 TTATTTAGCAGGCCTTGAGCTAGTGA
1 TTATTTAGTAGGCCTTGAGCCGGTGA
*
54691070 TTATTTAGTAGGCTTTGAGCC----A
1 TTATTTAGTAGGCCTTGAGCCGGTGA
* * *
54691092 TTATTTAGTAAGCTTTGAGCCGATGA
1 TTATTTAGTAGGCCTTGAGCCGGTGA
* *
54691118 TTGTTT-GTCAGGCTTTGAGCCG
1 TTATTTAGT-AGGCCTTGAGCCG
54691140 ATGTTTGTTT
Statistics
Matches: 174, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
22 21 0.12
25 2 0.01
26 151 0.87
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.36
Consensus pattern (26 bp):
TTATTTAGTAGGCCTTGAGCCGGTGA
Found at i:54691097 original size:22 final size:22
Alignment explanation
Indices: 54691069--54691112 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
54691059 TGAGCTAGTG
*
54691069 ATTATTTAGTAGGCTTTGAGCC
1 ATTATTTAGTAAGCTTTGAGCC
54691091 ATTATTTAGTAAGCTTTGAGCC
1 ATTATTTAGTAAGCTTTGAGCC
54691113 GATGATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (22 bp):
ATTATTTAGTAAGCTTTGAGCC
Found at i:54692320 original size:54 final size:54
Alignment explanation
Indices: 54692201--54692320 Score: 127
Period size: 54 Copynumber: 2.2 Consensus size: 54
54692191 ACAGTCTGTT
* *
54692201 ACATGGCCGTGTGACCCTGAGTTACACAGGCACAGTGAGTTACACGGTTTGGAG
1 ACATGGCCGTGTGACCCTGAGTGACACAGGCACAGTGAGTTACACAGTTTGGAG
* * * * * *
54692255 ACACGGTCGTGTGATCCTGAAG-GACACGGGCACAGTTAGTTACATAGTTT-GAG
1 ACATGGCCGTGTGACCCTG-AGTGACACAGGCACAGTGAGTTACACAGTTTGGAG
*
54692308 CACATGGGCGTGT
1 -ACATGGCCGTGT
54692321 ATGGTAGCCA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
53 3 0.06
54 49 0.91
55 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (54 bp):
ACATGGCCGTGTGACCCTGAGTGACACAGGCACAGTGAGTTACACAGTTTGGAG
Found at i:54716327 original size:16 final size:16
Alignment explanation
Indices: 54716290--54716327 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
54716280 ACATATTCCA
54716290 ATTTAATATTTTATAT
1 ATTTAATATTTTATAT
*
54716306 AATTAATATTTTA-ATT
1 ATTTAATATTTTATA-T
54716322 ATTTAA
1 ATTTAA
54716328 CCGATAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 1 0.05
16 18 0.95
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTAATATTTTATAT
Found at i:54716565 original size:29 final size:30
Alignment explanation
Indices: 54716523--54716596 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
54716513 CCCATGTTCC
* * *
54716523 TATTTTGGTTACTCAT-TTAAAAAAATTGT
1 TATTTTAGTCACTCATAATAAAAAAATTGT
* * *
54716552 TATTTTAGTCACTCCTAATAGATAAATTGT
1 TATTTTAGTCACTCATAATAAAAAAATTGT
54716582 TAATTTTAGTCACTC
1 T-ATTTTAGTCACTC
54716597 CTAGTAGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 13 0.35
30 11 0.30
31 13 0.35
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.46
Consensus pattern (30 bp):
TATTTTAGTCACTCATAATAAAAAAATTGT
Found at i:54716591 original size:31 final size:31
Alignment explanation
Indices: 54716545--54716627 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 31
54716535 TCATTTAAAA
54716545 AAATTGTT-ATTTTAGTCACTCCTAATAGAT
1 AAATTGTTAATTTTAGTCACTCCTAATAGAT
*
54716575 AAATTGTTAATTTTAGTCACTCCTAGTAGAT
1 AAATTGTTAATTTTAGTCACTCCTAATAGAT
* * *
54716606 AAGTTGTCAATTTTAGTTACTC
1 AAATTGTTAATTTTAGTCACTC
54716628 TACCATTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 8 0.17
31 40 0.83
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.43
Consensus pattern (31 bp):
AAATTGTTAATTTTAGTCACTCCTAATAGAT
Found at i:54717922 original size:17 final size:17
Alignment explanation
Indices: 54717900--54717932 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
54717890 ATATTTAATT
54717900 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
54717917 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
54717933 TAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:54724776 original size:31 final size:31
Alignment explanation
Indices: 54724741--54724800 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
54724731 GTCATTAAAT
*
54724741 TATTC-AAAAGCTTTCATTTAAGTCACTGAAC
1 TATTCGAAAA-CTTTCATTTAAGTAACTGAAC
* *
54724772 TATTCGAAAATTTTTATTTAAGTAACTGA
1 TATTCGAAAACTTTCATTTAAGTAACTGA
54724801 GTTGCTTTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (31 bp):
TATTCGAAAACTTTCATTTAAGTAACTGAAC
Found at i:54730107 original size:103 final size:102
Alignment explanation
Indices: 54729956--54730292 Score: 489
Period size: 103 Copynumber: 3.3 Consensus size: 102
54729946 TTCCCTATTC
54729956 ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGGAAGGGGGTTGCTAAGTGCTGA
1 ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGT-GAAGGGGGTTGCTAAGTGCTGA
* *
54730021 TTCCCCCGAGGGGTTGCTAAGTGTTGATTCCCCTACCT
65 TTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGACCT
*
54730059 ATTGGTGGTTGCTAAGTGTTGATTCCACCGTATTTTAAATGTGAAAGGGGGTTGCTAAGTGCTGA
1 ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG-AAGGGGGTTGCTAAGTGCTGA
* *
54730124 TTCCCCCGAGGGGTTGGTAAGTGCTGATTCCCCGACCC
65 TTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGACCT
* * * *
54730162 ATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTAAAATGTGAAGGGGGTTGCTAAGTGCAGA
1 A-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGA
* ** *
54730227 TTCCCCCAAGGGGTTGCTGTGTGCTGATTCCCCGA-TT
65 TTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGACCT
* *
54730264 CATTGGTGG-TGCTAAGTGCGGAATCCACC
1 -ATTGGTGGTTGCTAAGTGCTGATTCCACC
54730293 AACAACGGTT
Statistics
Matches: 213, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
101 18 0.08
102 8 0.04
103 149 0.70
104 38 0.18
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (102 bp):
ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGAT
TCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGACCT
Found at i:54733704 original size:19 final size:18
Alignment explanation
Indices: 54733651--54733704 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
54733641 TAAGTGATTG
54733651 AATTTAGT-TTTAAGATTT
1 AATTTAGTATTTAA-ATTT
*
54733669 AATTTAGTATTTGAATTT
1 AATTTAGTATTTAAATTT
* *
54733687 AGTTTATTGATTTAAATT
1 AATTTAGT-ATTTAAATT
54733705 GATAATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 18 0.60
19 12 0.40
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (18 bp):
AATTTAGTATTTAAATTT
Found at i:54733714 original size:31 final size:31
Alignment explanation
Indices: 54733638--54733723 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 31
54733628 ATTTTGGTGC
* *
54733638 AATTAAGTGATTGAATTTAGTTTTAAGATTT
1 AATTGAGTAATTGAATTTAGTTTTAAGATTT
* * *
54733669 AATTTAGTATTTGAATTTAG-TTTATTGATTT
1 AATTGAGTAATTGAATTTAGTTTTA-AGATTT
* *
54733700 AAATTGA-TAATTGAACTTAATTTT
1 -AATTGAGTAATTGAATTTAGTTTT
54733724 TCGATCTAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
30 4 0.09
31 32 0.73
32 8 0.18
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.51
Consensus pattern (31 bp):
AATTGAGTAATTGAATTTAGTTTTAAGATTT
Found at i:54741995 original size:17 final size:18
Alignment explanation
Indices: 54741956--54741998 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
54741946 TTAATGTCTG
54741956 TTTCTTTTTGTTACTAAA
1 TTTCTTTTTGTTACTAAA
* * *
54741974 GTTCTTTTTTTTTC-AAA
1 TTTCTTTTTGTTACTAAA
54741991 TTTCTTTT
1 TTTCTTTT
54741999 GTTGGCTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.16, C:0.12, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTCTTTTTGTTACTAAA
Found at i:54758613 original size:10 final size:8
Alignment explanation
Indices: 54758588--54758612 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
54758578 TTATATAAGT
54758588 GTAAGAGA
1 GTAAGAGA
54758596 GTAAGAGA
1 GTAAGAGA
54758604 GTAAGAGA
1 GTAAGAGA
54758612 G
1 G
54758613 AAATATCATA
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:0.48, C:0.00, G:0.40, T:0.12
Consensus pattern (8 bp):
GTAAGAGA
Found at i:54771622 original size:43 final size:41
Alignment explanation
Indices: 54771562--54771653 Score: 112
Period size: 43 Copynumber: 2.2 Consensus size: 41
54771552 AATTATTGTT
* **
54771562 TATATTTTTTTTATAAATTTGTAATTTTTTTAATTCTTTTATA
1 TATATATTTTTTATAAATTT-TAATTTTTTT-ATTAATTTATA
* *
54771605 TATATATTTTTTGTAAATTTTTATTTTTTTATTAATTTATA
1 TATATATTTTTTATAAATTTTAATTTTTTTATTAATTTATA
54771646 TATTATAT
1 TA-TATAT
54771654 ATTACAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 11 0.26
42 14 0.33
43 18 0.42
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.67
Consensus pattern (41 bp):
TATATATTTTTTATAAATTTTAATTTTTTTATTAATTTATA
Found at i:54789467 original size:305 final size:304
Alignment explanation
Indices: 54788913--54789541 Score: 1073
Period size: 305 Copynumber: 2.1 Consensus size: 304
54788903 TTATTATCAC
* * *
54788913 TATTTTCCGCTCAATTTGGACAAATATCATACCGGGTTCCATGAAACTTTTTTTTTCTCAACGAA
1 TATTTTCCACTCAATTTGGACAAATATCACACCAGGTTCCATGAAACTTTTTTTTTCTCAACGAA
* *
54788978 AGATCACAAACTTCAAACAACGTTCTCATAAAAATAAATAAACAAACAAAATTAAATCGCTAGCA
66 AGATCACAAACTTCAAACAACGTTCTCATAAAAACAAACAAACAAACAAAATTAAATCGCTAGCA
54789043 ACCAGATAGCACAATCCTCGATTACTAACCAAACCGTGATGAAATTCAATAAGATCTTGATCACA
131 ACCAGATAGCACAATCCTC-ATTACTAACCAAACCGTGATGAAATTCAATAAGATCTTGATCACA
* *
54789108 AAAAAAACCATCAAAATAAAAATGAAAATTTCAATGAAAATGGAGCTTGAATATACCTGAAATCG
195 AAAAAAACCATCAAAATAAAAATGAAAATTTAAATGAAAATGGAGCTCGAATATACCTGAAATCG
*
54789173 GCATCCGAAGATTGCCGAGTTACGGTAGAAAACAACATATGCTCA
260 GCATCCGAAGACTGCCGAGTTACGGTAGAAAACAACATATGCTCA
*
54789218 TATTTTCCACTCAATTTGGACAAATATCACACCAGGTTCCATGAAAC-TTTTTTTTCTCAATGAA
1 TATTTTCCACTCAATTTGGACAAATATCACACCAGGTTCCATGAAACTTTTTTTTTCTCAACGAA
*
54789282 ATATCACAAACTTCAAACAACGTTCTCATAAAAACAAACAAACAAACAAAATTAAATCGCTAGCA
66 AGATCACAAACTTCAAACAACGTTCTCATAAAAACAAACAAACAAACAAAATTAAATCGCTAGCA
* *
54789347 ACCAGTTAGCACAATGCT-ATTACTAAACCAAACCGTGATGAAATTCAATAAGATCTTGATCACA
131 ACCAGATAGCACAATCCTCATTACT-AACCAAACCGTGATGAAATTCAATAAGATCTTGATCAC-
* *
54789411 AAAAAAAAATCATCAAAATAAAAATGAAATTTTAAATGAAAATGGAGCTCGAATATACCTGAAAT
194 -AAAAAAAACCATCAAAATAAAAATGAAAATTTAAATGAAAATGGAGCTCGAATATACCTGAAAT
54789476 CGGCATCCGAAGACTGCCGAGTTACGGTAGAAAACAACATATGCTCA
258 CGGCATCCGAAGACTGCCGAGTTACGGTAGAAAACAACATATGCTCA
54789523 TATTTTCCACTCAAATTTG
1 TATTTTCCACTC-AATTTG
54789542 TTTTCAAAAG
Statistics
Matches: 306, Mismatches: 14, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
302 6 0.02
303 38 0.12
304 94 0.31
305 162 0.53
306 6 0.02
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (304 bp):
TATTTTCCACTCAATTTGGACAAATATCACACCAGGTTCCATGAAACTTTTTTTTTCTCAACGAA
AGATCACAAACTTCAAACAACGTTCTCATAAAAACAAACAAACAAACAAAATTAAATCGCTAGCA
ACCAGATAGCACAATCCTCATTACTAACCAAACCGTGATGAAATTCAATAAGATCTTGATCACAA
AAAAAACCATCAAAATAAAAATGAAAATTTAAATGAAAATGGAGCTCGAATATACCTGAAATCGG
CATCCGAAGACTGCCGAGTTACGGTAGAAAACAACATATGCTCA
Found at i:54804164 original size:13 final size:13
Alignment explanation
Indices: 54804148--54804173 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54804138 ATTGCAGTGT
54804148 CTGATTCTATTAA
1 CTGATTCTATTAA
54804161 CTGATTCTATTAA
1 CTGATTCTATTAA
54804174 TGGTTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
CTGATTCTATTAA
Found at i:54807333 original size:3 final size:3
Alignment explanation
Indices: 54807325--54807350 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
54807315 CAAATTAGAT
54807325 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
54807351 ACCCAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:54810391 original size:31 final size:30
Alignment explanation
Indices: 54810323--54810398 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 30
54810313 TGGGGTCTAA
*
54810323 TTAAAATTTTT-AAAATTCTGTGAGATTAG
1 TTAAAATTTTTAAAAATTCTGAGAGATTAG
* * *
54810352 TGATAATTTTTAAAAATT-TAAGAGAGCTTAG
1 TTAAAATTTTTAAAAATTCT--GAGAGATTAG
54810383 TTAAAATTTTCTAAAA
1 TTAAAATTTT-TAAAA
54810399 GTTTCAAGGG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
29 10 0.27
30 6 0.16
31 16 0.43
32 5 0.14
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (30 bp):
TTAAAATTTTTAAAAATTCTGAGAGATTAG
Found at i:54815617 original size:17 final size:17
Alignment explanation
Indices: 54815567--54815617 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
54815557 TTTAGTAGTT
*
54815567 AAATATATATATTTTTA
1 AAATATATATATTTTAA
* * *
54815584 AAACATATGAGAATTTAA
1 AAATATAT-ATATTTTAA
54815602 AAATATATATATTTTA
1 AAATATATATATTTTA
54815618 GTTTTTTTAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (17 bp):
AAATATATATATTTTAA
Done.