Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 167 of 250
Found at i:53777641 original size:11 final size:11
Alignment explanation
Indices: 53777625--53777653 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
53777615 AAATAGAAAG
53777625 ATTTTATTTTT
1 ATTTTATTTTT
53777636 ATTTTA-TTTT
1 ATTTTATTTTT
53777646 ATTTTATT
1 ATTTTATT
53777654 AATTTAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:53777954 original size:16 final size:17
Alignment explanation
Indices: 53777924--53777955 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53777914 AAGCATGAAC
53777924 AATTTCATGCTTAACTA
1 AATTTCATGCTTAACTA
53777941 AATTTCAT-CTTAACT
1 AATTTCATGCTTAACT
53777956 TTAAGCCGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.44
Consensus pattern (17 bp):
AATTTCATGCTTAACTA
Found at i:53783919 original size:20 final size:21
Alignment explanation
Indices: 53783894--53783941 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
53783884 ATTTCTATTT
*
53783894 GTATAAACTA-TAGTTTATCC
1 GTATAAACTAGTAGTTCATCC
53783914 GTATAAA-TAGTAGTTCATCC
1 GTATAAACTAGTAGTTCATCC
*
53783934 ATATAAAC
1 GTATAAAC
53783942 ACATATCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (21 bp):
GTATAAACTAGTAGTTCATCC
Found at i:53784168 original size:24 final size:24
Alignment explanation
Indices: 53784112--53784168 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
53784102 GCTGATGAAC
*
53784112 AGTAAGCTCTATTGAACTGAAACG
1 AGTAAGCTCTAATGAACTGAAACG
53784136 -GTAAGCTCTAAT-AAGCTGAAA-G
1 AGTAAGCTCTAATGAA-CTGAAACG
53784158 TAGTAAGCTCT
1 -AGTAAGCTCT
53784169 TACGAGCTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 3 0.10
23 17 0.59
24 9 0.31
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (24 bp):
AGTAAGCTCTAATGAACTGAAACG
Found at i:53793649 original size:17 final size:18
Alignment explanation
Indices: 53793627--53793665 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
53793617 TGGTTTTTAG
*
53793627 TTTAATTT-TATTCCTTT
1 TTTAATTTATATTCATTT
*
53793644 TTTAATTTATTTTCATTT
1 TTTAATTTATATTCATTT
53793662 TTTA
1 TTTA
53793666 TTAAATATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTAATTTATATTCATTT
Found at i:53793917 original size:11 final size:10
Alignment explanation
Indices: 53793894--53793947 Score: 55
Period size: 11 Copynumber: 5.7 Consensus size: 10
53793884 GTTATATACG
53793894 TATATATT-T
1 TATATATTAT
53793903 TATATATTAT
1 TATATATTAT
53793913 GTATATATTA-
1 -TATATATTAT
53793923 T-T-T-TTAT
1 TATATATTAT
53793930 TATATATTAT
1 TATATATTAT
53793940 GTATATAT
1 -TATATAT
53793948 AACGCATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
6 3 0.08
7 2 0.05
8 2 0.05
9 10 0.26
10 5 0.13
11 16 0.42
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (10 bp):
TATATATTAT
Found at i:53799632 original size:43 final size:45
Alignment explanation
Indices: 53799584--53799685 Score: 136
Period size: 43 Copynumber: 2.3 Consensus size: 45
53799574 GCCACCCAGC
* ** *
53799584 CTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTG-AG-T
1 CTTATCTCTCTAAGGTAGCAAGAAAGCAGACTAAAGATTGAAGAT
*
53799627 CTTATCTTTCTAAGGTAGCAAGAAAGCAGACTAAAGATTGAAGAT
1 CTTATCTCTCTAAGGTAGCAAGAAAGCAGACTAAAGATTGAAGAT
*
53799672 CTTATCTCCCTAAG
1 CTTATCTCTCTAAG
53799686 CAGTAGTGGA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 35 0.70
44 2 0.04
45 13 0.26
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (45 bp):
CTTATCTCTCTAAGGTAGCAAGAAAGCAGACTAAAGATTGAAGAT
Found at i:53799816 original size:43 final size:45
Alignment explanation
Indices: 53799761--53799856 Score: 126
Period size: 43 Copynumber: 2.2 Consensus size: 45
53799751 GCCACCCAGC
**
53799761 CTTATCTCTCTGAGGTAGCAAGAGAA-CAGGTTGAAGATTG-AG-T
1 CTTATCTCTCTGAGGTAGCAAGA-AAGCAGACTGAAGATTGAAGAT
* *
53799804 CTTATCTTTCTGAGGTAGCCAGAAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
53799849 CTTATCTC
1 CTTATCTC
53799857 CCTAAGCAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
42 2 0.04
43 33 0.73
44 2 0.04
45 8 0.18
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
Found at i:53799853 original size:177 final size:177
Alignment explanation
Indices: 53799557--53800383 Score: 1118
Period size: 177 Copynumber: 4.7 Consensus size: 177
53799547 ACTAAATCGA
*
53799557 CAATGGAGCAGATTTAAGCCACCCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAT
1 CAATGGAGCAGATTTAAGCCACCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
* *
53799622 TGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGC
66 TGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGC
* *
53799687 AGTAGTGGAGTAGATCGCAGATGGTAAATCTTATCTCCATGTATCAG
131 AGTAGTGGAGCAGATCGAAGATGGTAAATCTTATCTCCATGTATCAG
* *
53799734 CAATGGAGTAGATTTAAGCCACCCAGCCTTATCTCTCTGAGGTAGCAAGAGAACAGGTTGAAGAT
1 CAATGGAGCAGATTTAAGCCACCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
*
53799799 TGAGTCTTATCTTTCTGAGGTAGCCAGAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGC
66 TGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGC
* * * *
53799864 AGTAGTAGAGCAGATCGCAGATGGTGAATCTTATCTCCATGTATCGG
131 AGTAGTGGAGCAGATCGAAGATGGTAAATCTTATCTCCATGTATCAG
* * *
53799911 GAATGGAGCAGATTTAAGCCACCCAGTCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAT
1 CAATGGAGCAGATTTAAGCCACCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
* * *
53799976 TGAGTCTTATCTTTTTGAGGTAGCAAGGAAGC--A-TGAAGATTAAAGATCTTATCTCCCTAAGC
66 TGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGC
* * *
53800038 AGTAGCGGAGCAGATCGAAAATGGCAAATCTTATCTCCATGTATCAG
131 AGTAGTGGAGCAGATCGAAGATGGTAAATCTTATCTCCATGTATCAG
* * * * **
53800085 CAATGGAGCAGATTTTAGCCA-CTAGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTCGGCGAT
1 CAATGGAGCAGATTTAAGCCACCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
*
53800149 TGTAGTCTTATC-TTCTTGAGGTAGCAAGGAAA-CAGACTGAAGATTGAAGATC-TATCTCTCTA
66 TG-AGTCTTATCTTTC-TGAGGTAGCAA-GAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTA
* * *
53800211 AGCAGTAGTGGAGCAGATCGAATATGGTGAATTTTATCTCCATGTATCAG
128 AGCAGTAGTGGAGCAGATCGAAGATGGTAAATCTTATCTCCATGTATCAG
* * * * * * * **
53800261 CAATGAAGCAGATGTTAA--CA-CTAGCCTTATCTTTTTGAGGAAGCAAGAGAACAGATTGGTGA
1 CAATGGAGCAGAT-TTAAGCCACCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
* * * * *
53800323 TTGTAGTCTTATATTCCTGAGGTAGCAAGGAAGCAGACT-AATGATTGTAGATTTTATCTCC
65 TTG-AGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAA-GATTGAAGATCTTATCTCC
53800384 TTGAGAAAAC
Statistics
Matches: 581, Mismatches: 58, Indels: 23
0.88 0.09 0.03
Matches are distributed among these distances:
173 42 0.07
174 113 0.19
175 78 0.13
176 75 0.13
177 273 0.47
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (177 bp):
CAATGGAGCAGATTTAAGCCACCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
TGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCGAAGATGGTAAATCTTATCTCCATGTATCAG
Found at i:53799942 original size:89 final size:89
Alignment explanation
Indices: 53799671--53799945 Score: 201
Period size: 89 Copynumber: 3.1 Consensus size: 89
53799661 AGATTGAAGA
* * * *
53799671 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCAGATGGTAAATCTTATCTCCATGTATCAGCA
1 TCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCAGATGGTGAATCTTATCTCCATGTATCAGGA
*
53799736 ATGGAGTAGATTTAAGCCACCCAG
66 ATGGAGCAGATTTAAGCCACCCAG
* * * * * * * * * *
53799760 CCTTATCTCTCTGAG--GTAGCAAGAGAACAGGTTGAAGAT--TGAGTCTTATCTTTCTGAGGTA
1 TCTTATCTCCCTAAGCAGTAG-TAGAG--CAGATCGCAGATGGTGAATCTTATC--TC-CATGTA
* * * ***
53799821 GCCA-GAA---AGCAGACTGAAG--ATTGAAG
60 -TCAGGAATGGAGCAGATTTAAGCCA-CCCAG
*
53799847 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCAGATGGTGAATCTTATCTCCATGTATCGGG
1 -TCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCAGATGGTGAATCTTATCTCCATGTATCAGG
53799912 AATGGAGCAGATTTAAGCCACCCAG
65 AATGGAGCAGATTTAAGCCACCCAG
53799937 TCTTATCTC
1 TCTTATCTC
53799946 TTTGAGGTAG
Statistics
Matches: 129, Mismatches: 38, Indels: 38
0.63 0.19 0.19
Matches are distributed among these distances:
85 1 0.01
86 8 0.06
87 17 0.13
88 33 0.26
89 45 0.35
90 16 0.12
91 7 0.05
92 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (89 bp):
TCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCAGATGGTGAATCTTATCTCCATGTATCAGGA
ATGGAGCAGATTTAAGCCACCCAG
Found at i:53805343 original size:20 final size:20
Alignment explanation
Indices: 53805309--53805357 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
53805299 AGGTTTATAC
53805309 TAAGTAAAT-GAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
*
53805328 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGGAATGGAAAG
* *
53805348 AAAATAAATG
1 TAAGTAAATG
53805358 AAGTAGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:53812580 original size:32 final size:29
Alignment explanation
Indices: 53812542--53812605 Score: 74
Period size: 32 Copynumber: 2.1 Consensus size: 29
53812532 CCTAAACTCA
*
53812542 TTTTAAACATATCCATATTATATATTTTAATT
1 TTTTAAAAATATCCATA-T-TAT-TTTTAATT
**
53812574 TTTTAAAAATATTTATATTATTTTTAATT
1 TTTTAAAAATATCCATATTATTTTTAATT
53812603 TTT
1 TTT
53812606 AATTTAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 11 0.38
30 3 0.10
31 1 0.03
32 14 0.48
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTTAAAAATATCCATATTATTTTTAATT
Found at i:53812629 original size:25 final size:25
Alignment explanation
Indices: 53812600--53812649 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
53812590 ATTATTTTTA
*
53812600 ATTTTTAAT-TTAAAATTTATATAT
1 ATTTTTTATATTAAAATTTATATAT
*
53812624 ATTTTTTGTATTAAAATTTATATAT
1 ATTTTTTATATTAAAATTTATATAT
53812649 A
1 A
53812650 GGTAATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTTTTTATATTAAAATTTATATAT
Found at i:53826050 original size:14 final size:16
Alignment explanation
Indices: 53826033--53826064 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
53826023 TAATTTTTGG
53826033 AAAATG-ATTT-CTAA
1 AAAATGAATTTCCTAA
53826047 AAAATGAATTTCCTAA
1 AAAATGAATTTCCTAA
53826063 AA
1 AA
53826065 TCATTTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 4 0.25
16 6 0.38
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.31
Consensus pattern (16 bp):
AAAATGAATTTCCTAA
Found at i:53826696 original size:23 final size:25
Alignment explanation
Indices: 53826666--53826741 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 25
53826656 CTATAAAACA
53826666 TTTAATATTATTTATTTA-TAA-AT
1 TTTAATATTATTTATTTATTAATAT
53826689 TTTAATATATATTTA-TTATTAATAT
1 TTTAATAT-TATTTATTTATTAATAT
* *
53826714 ATTAATA-TATTT-TTTAATAATAT
1 TTTAATATTATTTATTTATTAATAT
*
53826737 ATTAA
1 TTTAA
53826742 GAATGTAACA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
23 30 0.64
24 9 0.19
25 8 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTAATATTATTTATTTATTAATAT
Found at i:53834980 original size:20 final size:20
Alignment explanation
Indices: 53834928--53834980 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
53834918 ATCTAATTTT
* *
53834928 TATTTATCTATTTACATTTC
1 TATTTATATATTTACATTCC
*
53834948 TGTTTATTATATTT-CTATTCC
1 TATTTA-TATATTTAC-ATTCC
53834969 TATTTATATATT
1 TATTTATATATT
53834981 AATATTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.25, C:0.11, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTTATATATTTACATTCC
Found at i:53843716 original size:15 final size:15
Alignment explanation
Indices: 53843683--53843722 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
53843673 TTATATAAAC
*
53843683 TAAATA-TTAAATTA
1 TAAATATTTTAATTA
*
53843697 CAAATATTTTAATTA
1 TAAATATTTTAATTA
53843712 TAAATATTTTA
1 TAAATATTTTA
53843723 TCATTTCATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAATATTTTAATTA
Found at i:53845713 original size:24 final size:24
Alignment explanation
Indices: 53845668--53845715 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
53845658 TCTAGTTAAA
* * *
53845668 AAAATATCGAATTATATCAAAATT
1 AAAATATCAAATCAAATCAAAATT
*
53845692 AAAATATCAAATCAAATTAAAATT
1 AAAATATCAAATCAAATCAAAATT
53845716 TAACGTAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.31
Consensus pattern (24 bp):
AAAATATCAAATCAAATCAAAATT
Found at i:53847935 original size:28 final size:28
Alignment explanation
Indices: 53847901--53847956 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
53847891 ATCAAAATCA
53847901 TTATAATTGTATTTCCTTTCCTAAATTG
1 TTATAATTGTATTTCCTTTCCTAAATTG
*
53847929 TTATAATTGTATTTCCTTTCCTTAATTG
1 TTATAATTGTATTTCCTTTCCTAAATTG
53847957 ATGAATACGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.55
Consensus pattern (28 bp):
TTATAATTGTATTTCCTTTCCTAAATTG
Found at i:53848351 original size:18 final size:18
Alignment explanation
Indices: 53848328--53848370 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
53848318 GAATAGGTTT
* *
53848328 TTAATTAAACAAATTTAA
1 TTAATTAAAAAAATTAAA
53848346 TTAATTAAAAAAATTAAA
1 TTAATTAAAAAAATTAAA
53848364 TTAATTA
1 TTAATTA
53848371 CACCTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAATTAAAAAAATTAAA
Found at i:53851240 original size:4 final size:4
Alignment explanation
Indices: 53851226--53851258 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
53851216 AATCGAAAGC
53851226 TTTA CTTTA TTTA TTTA TTTA TTTA TTT- TTTA T
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
53851259 GTTGGCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
3 3 0.11
4 20 0.74
5 4 0.15
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:53854533 original size:31 final size:32
Alignment explanation
Indices: 53854477--53854547 Score: 108
Period size: 31 Copynumber: 2.2 Consensus size: 32
53854467 ATCAAATATT
* *
53854477 TATTTTAAATATCATTATTTTTATATGTAAAA
1 TATTTCAAATATCATCATTTTTATATGTAAAA
*
53854509 TATTTCAAATATCATCA-TTTTATATGTGAAA
1 TATTTCAAATATCATCATTTTTATATGTAAAA
53854540 TATTTCAA
1 TATTTCAA
53854548 TTAATTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 21 0.58
32 15 0.42
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.49
Consensus pattern (32 bp):
TATTTCAAATATCATCATTTTTATATGTAAAA
Found at i:53854990 original size:17 final size:17
Alignment explanation
Indices: 53854958--53854989 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
53854948 TTTGACATAT
53854958 AAAAATCATATAAAAAG
1 AAAAATCATATAAAAAG
53854975 AAAAAT-ATATAAAAA
1 AAAAATCATATAAAAA
53854990 AAAGTTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (17 bp):
AAAAATCATATAAAAAG
Found at i:53856316 original size:6 final size:6
Alignment explanation
Indices: 53856307--53856369 Score: 83
Period size: 6 Copynumber: 10.3 Consensus size: 6
53856297 TAATTTAGTC
*
53856307 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTAAT ATTTCT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT--T ATTTTT ATTTTT ATTTTT
*
53856357 A-TTTA ATTTTT AT
1 ATTTTT ATTTTT AT
53856370 ATTCTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
5 4 0.08
6 41 0.82
8 5 0.10
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:53856350 original size:32 final size:31
Alignment explanation
Indices: 53856286--53856381 Score: 99
Period size: 32 Copynumber: 3.1 Consensus size: 31
53856276 TTAGGAAAAC
* * *
53856286 TTTATTTCTA-TTAA-TTTAGTCATTTTTATT
1 TTTATTTTTATTTAATTTTAAT-ATTTCTATT
*
53856316 TTTATTTTTATTTTTATTTTAATATTTCTATT
1 TTTATTTTTA-TTTAATTTTAATATTTCTATT
*
53856348 TTTATTTTTATTTAATTTTTATA-TTCTAATT
1 TTTATTTTTATTTAATTTTAATATTTCT-ATT
53856379 TTT
1 TTT
53856382 TTCGTTTGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
30 13 0.23
31 17 0.30
32 21 0.38
33 5 0.09
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.72
Consensus pattern (31 bp):
TTTATTTTTATTTAATTTTAATATTTCTATT
Found at i:53856379 original size:19 final size:17
Alignment explanation
Indices: 53856307--53856379 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 17
53856297 TAATTTAGTC
* *
53856307 ATTTTTATTTTTATTTTT
1 ATTTTTA-TTTTAATTTA
*
53856325 ATTTTTATTTTAATATTTCT
1 ATTTTTATTTT-A-ATTT-A
*
53856345 ATTTTTATTTTTATTTA
1 ATTTTTATTTTAATTTA
53856362 ATTTTTATATTCTAATTT
1 ATTTTTAT-TT-TAATTT
53856380 TTTTCGTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.26
18 14 0.30
19 8 0.17
20 12 0.26
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTATTTTAATTTA
Found at i:53856382 original size:32 final size:32
Alignment explanation
Indices: 53856307--53856381 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
53856297 TAATTTAGTC
* *
53856307 ATTTTTATTTTTATTTTTATTTTTATTTTAAT
1 ATTTCTATTTTTATTTTTATTTTAATTTTAAT
*
53856339 ATTTCTATTTTTATTTTTA-TTTAATTTTTAT
1 ATTTCTATTTTTATTTTTATTTTAATTTTAAT
53856370 A-TTCTAATTTTT
1 ATTTCT-ATTTTT
53856382 TTCGTTTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 4 0.10
31 17 0.44
32 18 0.46
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (32 bp):
ATTTCTATTTTTATTTTTATTTTAATTTTAAT
Found at i:53857992 original size:34 final size:34
Alignment explanation
Indices: 53857953--53858019 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
53857943 CCGAGTTCAG
*
53857953 AATCAGATATCTCACACAATAGTTGTAACGCCCC
1 AATCAGATATCTCACACAACAGTTGTAACGCCCC
53857987 AATCAGATATCTCACACAACAGTTGTAACGCCC
1 AATCAGATATCTCACACAACAGTTGTAACGCCC
53858020 TAAATTTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (34 bp):
AATCAGATATCTCACACAACAGTTGTAACGCCCC
Found at i:53869276 original size:21 final size:21
Alignment explanation
Indices: 53869250--53869295 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
53869240 ACTCGAATTA
53869250 TGAACCTTAAACCTTGAGCCT
1 TGAACCTTAAACCTTGAGCCT
53869271 TGAACCTTAAACCTTGAGCCT
1 TGAACCTTAAACCTTGAGCCT
53869292 TGAA
1 TGAA
53869296 ATTTAAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (21 bp):
TGAACCTTAAACCTTGAGCCT
Found at i:53869292 original size:7 final size:7
Alignment explanation
Indices: 53869250--53869295 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
53869240 ACTCGAATTA
53869250 TGAACCT
1 TGAACCT
*
53869257 TAAACCT
1 TGAACCT
*
53869264 TGAGCCT
1 TGAACCT
53869271 TGAACCT
1 TGAACCT
*
53869278 TAAACCT
1 TGAACCT
*
53869285 TGAGCCT
1 TGAACCT
53869292 TGAA
1 TGAA
53869296 ATTTAAGGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (7 bp):
TGAACCT
Found at i:53869301 original size:21 final size:21
Alignment explanation
Indices: 53869250--53869301 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
53869240 ACTCGAATTA
*
53869250 TGAACCTTAAACCTTGAGCCT
1 TGAAACTTAAACCTTGAGCCT
*
53869271 TGAACCTTAAACCTTGAGCCT
1 TGAAACTTAAACCTTGAGCCT
*
53869292 TGAAATTTAA
1 TGAAACTTAA
53869302 GGTTTGGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (21 bp):
TGAAACTTAAACCTTGAGCCT
Found at i:53869756 original size:23 final size:25
Alignment explanation
Indices: 53869707--53869760 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
53869697 GCCGTGTGGT
* * *
53869707 TGGCCGTGTGCGAGACACAGCCGTG
1 TGGCCGTGCGCAAGACACAGACGTG
53869732 TGGCCGTGCGCAAGACAC-GACTGTG
1 TGGCCGTGCGCAAGACACAGAC-GTG
53869757 TGGC
1 TGGC
53869761 GGTGTAGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.17, C:0.28, G:0.39, T:0.17
Consensus pattern (25 bp):
TGGCCGTGCGCAAGACACAGACGTG
Found at i:53871061 original size:20 final size:19
Alignment explanation
Indices: 53870994--53871067 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
53870984 TTTGTGGTTA
*
53870994 TGGGTTTAGGGTTTTTATT
1 TGGGTTTAGGGTTTTGATT
* *
53871013 TAGAGTTT-GGGGTTTGTAGTT
1 T-GGGTTTAGGGTTTTG-A-TT
53871034 ATGGGTTTAGGGTTTTGATT
1 -TGGGTTTAGGGTTTTGATT
53871054 TGGGGTTTAGGGTT
1 T-GGGTTTAGGGTT
53871068 ATAAGTTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
19 8 0.18
20 20 0.45
21 8 0.18
22 8 0.18
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (19 bp):
TGGGTTTAGGGTTTTGATT
Found at i:53871067 original size:41 final size:41
Alignment explanation
Indices: 53870970--53871067 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
53870960 AATATTTAAG
* * * *
53870970 TTTAGATTTTAAGGTTTGTGGTTATGGGTTTAGGGTTTTTA
1 TTTAGAGTTTAGGGTTTGTAGTTATGGGTTTAGGGTTTTGA
*
53871011 TTTAGAGTTTGGGGTTTGTAGTTATGGGTTTAGGGTTTTGA
1 TTTAGAGTTTAGGGTTTGTAGTTATGGGTTTAGGGTTTTGA
* *
53871052 TTTGGGGTTTAGGGTT
1 TTTAGAGTTTAGGGTT
53871068 ATAAGTTTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (41 bp):
TTTAGAGTTTAGGGTTTGTAGTTATGGGTTTAGGGTTTTGA
Found at i:53871069 original size:34 final size:34
Alignment explanation
Indices: 53871018--53871083 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
53871008 TTATTTAGAG
** *
53871018 TTTGGGGTTTGTAGTTATGGGTTTAGGGTTTTGA
1 TTTGGGGTTTGTAGTTATAAGTTTAAGGTTTTGA
*
53871052 TTTGGGGTTTAG-GGTTATAAGTTTAAGGTTTT
1 TTTGGGGTTT-GTAGTTATAAGTTTAAGGTTTT
53871084 AGTTTAGGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (34 bp):
TTTGGGGTTTGTAGTTATAAGTTTAAGGTTTTGA
Found at i:53871178 original size:44 final size:43
Alignment explanation
Indices: 53871056--53871156 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 43
53871046 TTTTGATTTG
* * * * *
53871056 GGGTTTAGGGTTATAAGTT-TAAGGTTTTAG-TTTAGGATTCAA
1 GGGTTCAGGGTTATGAGTTATGA-GTTTAAGATTTAAGATTCAA
*
53871098 GGGTTCAGGGTTATGAGTTATGAGTTTAAGGTTTAAGATTCAA
1 GGGTTCAGGGTTATGAGTTATGAGTTTAAGATTTAAGATTCAA
53871141 GGGTTCAAGGGTTATG
1 GGGTTC-AGGGTTATG
53871157 GGTTCGAGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
42 23 0.45
43 19 0.37
44 9 0.18
ACGTcount: A:0.26, C:0.04, G:0.32, T:0.39
Consensus pattern (43 bp):
GGGTTCAGGGTTATGAGTTATGAGTTTAAGATTTAAGATTCAA
Found at i:53871188 original size:21 final size:21
Alignment explanation
Indices: 53871164--53871206 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
53871154 ATGGGTTCGA
53871164 GATTTTAAATTTAAGGTTCAG
1 GATTTTAAATTTAAGGTTCAG
* **
53871185 GATTTTAAGTTTGGGGTTCAG
1 GATTTTAAATTTAAGGTTCAG
53871206 G
1 G
53871207 GTAAAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.28, T:0.42
Consensus pattern (21 bp):
GATTTTAAATTTAAGGTTCAG
Found at i:53877411 original size:39 final size:40
Alignment explanation
Indices: 53877366--53877533 Score: 115
Period size: 40 Copynumber: 4.2 Consensus size: 40
53877356 CGGGGTTTAG
* * *
53877366 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
53877405 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
53877445 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * *
53877485 CCGGATGTAGTCGCTTAGCATAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
53877526 CCGGATAT
1 CCGGATAT
53877534 CATTCGAGTA
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 26 0.24
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:53877516 original size:41 final size:40
Alignment explanation
Indices: 53877389--53877533 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
53877379 CTCGCACAAG
* * * *
53877389 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCATAAAT
*
53877429 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCATAAAT
* * *
53877469 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCATAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCATAAAT
53877510 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
53877534 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.65
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCATAAAT
Found at i:53879323 original size:3 final size:3
Alignment explanation
Indices: 53879315--53879352 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
53879305 CACGATCCAA
53879315 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
53879353 ATAGAAACGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:53880536 original size:7 final size:7
Alignment explanation
Indices: 53880526--53880550 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
53880516 TTTTTTGCCA
53880526 AAAAAAT
1 AAAAAAT
53880533 AAAAAAT
1 AAAAAAT
53880540 AAAAAAT
1 AAAAAAT
53880547 AAAA
1 AAAA
53880551 GATCTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:53888328 original size:15 final size:15
Alignment explanation
Indices: 53888308--53888337 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53888298 GAATTTCAAA
*
53888308 TTATTTTTATTATTT
1 TTATTTTTATAATTT
53888323 TTATTTTTATAATTT
1 TTATTTTTATAATTT
53888338 CAAAAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTTTATAATTT
Found at i:53890232 original size:26 final size:26
Alignment explanation
Indices: 53890203--53890310 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
53890193 TGGTACAAAT
53890203 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
53890229 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53890255 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
53890281 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53890307 TGAT
1 TGAT
53890311 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:53891947 original size:27 final size:27
Alignment explanation
Indices: 53891907--53892018 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
53891897 AAGAAGAATC
* *
53891907 CTGGTGGCTATGCCACAAACATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
53891934 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
53891961 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
53891989 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
53892015 CTGG
1 CTGG
53892019 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.07
27 53 0.73
28 15 0.21
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:53892011 original size:54 final size:54
Alignment explanation
Indices: 53891907--53892018 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
53891897 AAGAAGAATC
*
53891907 CTGGTGGCTATGCCACAAACATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAACATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * ** *
53891961 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAACATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
53892015 CTGG
1 CTGG
53892019 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAACATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:53893162 original size:10 final size:10
Alignment explanation
Indices: 53893143--53893192 Score: 75
Period size: 10 Copynumber: 5.0 Consensus size: 10
53893133 TGAAATTCTA
53893143 AAAGATAAAT
1 AAAGATAAAT
53893153 ACAA-ATAAAT
1 A-AAGATAAAT
*
53893163 AAAGATAATT
1 AAAGATAAAT
53893173 AAAGATAAAT
1 AAAGATAAAT
53893183 AAAGATAAAT
1 AAAGATAAAT
53893193 GAAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 32 0.89
11 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:53893680 original size:38 final size:38
Alignment explanation
Indices: 53893638--53893771 Score: 139
Period size: 38 Copynumber: 3.5 Consensus size: 38
53893628 GATTCACGGG
*
53893638 CTAGTGCTGGGCACACATACATTTTTCGGATTCACCAA
1 CTAGTGCAGGGCACACATACATTTTTCGGATTCACCAA
* * **
53893676 CTAGTGCAGGGCACACATATATTCATT-GGATAT-A-TGA
1 CTAGTGCAGGGCACACATACATT-TTTCGGAT-TCACCAA
* * *
53893713 CTAGTGCTGGGCACACACATACATTTGTCGAATTCACCAA
1 CTAGTGCAGGG--CACACATACATTTTTCGGATTCACCAA
53893753 CTAGTGCAGGGCACACATA
1 CTAGTGCAGGGCACACATA
53893772 TATTCATTGG
Statistics
Matches: 76, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
37 11 0.14
38 36 0.47
39 18 0.24
40 11 0.14
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (38 bp):
CTAGTGCAGGGCACACATACATTTTTCGGATTCACCAA
Found at i:53893748 original size:77 final size:75
Alignment explanation
Indices: 53893638--53893817 Score: 270
Period size: 77 Copynumber: 2.4 Consensus size: 75
53893628 GATTCACGGG
* *
53893638 CTAGTGCTGGGCACACATACATTTTTCGGATTCACCAACTAGTGCAGGGCACACATATATTCATT
1 CTAGTGCTGGGCACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCACACATATATTCATT
53893703 GGATATATGA
66 GGATATATGA
53893713 CTAGTGCTGGGCACACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCACACATATATTCA
1 CTAGTGCTGGG--CACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCACACATATATTCA
*
53893778 TTGGATATACCGA
64 TTGGATATA-TGA
* * * *
53893791 CCAATGCTGAGCACACATACAATTGTC
1 CTAGTGCTGGGCACACATACATTTGTC
53893818 AGTTTTACCG
Statistics
Matches: 95, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
75 11 0.12
76 15 0.16
77 59 0.62
78 10 0.11
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (75 bp):
CTAGTGCTGGGCACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCACACATATATTCATT
GGATATATGA
Found at i:53893765 original size:40 final size:39
Alignment explanation
Indices: 53893649--53893769 Score: 117
Period size: 40 Copynumber: 3.1 Consensus size: 39
53893639 TAGTGCTGGG
*
53893649 CACACATACATTTTTCGGATTCACCAACTAGTGCAGGGCA
1 CACACATACATTTGTC-GATTCACCAACTAGTGCAGGGCA
* ** *
53893689 CACATATATTCA-TTG--GATAT-A-TGACTAGTGCTGGGCA
1 CACACATA--CATTTGTCGAT-TCACCAACTAGTGCAGGGCA
53893726 CACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCA
1 CACACATACATTTGTCG-ATTCACCAACTAGTGCAGGGCA
53893766 CACA
1 CACA
53893770 TATATTCATT
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
35 2 0.03
36 3 0.05
37 20 0.32
38 6 0.10
39 4 0.06
40 24 0.38
41 2 0.03
42 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (39 bp):
CACACATACATTTGTCGATTCACCAACTAGTGCAGGGCA
Found at i:53898441 original size:26 final size:25
Alignment explanation
Indices: 53898407--53898455 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
53898397 CTAATTTATA
*
53898407 TATTATTATTCTATGTGATTTATTGT
1 TATTATTATTCT-TATGATTTATTGT
*
53898433 TATTGTTATTCTTATGATTTATT
1 TATTATTATTCTTATGATTTATT
53898456 TCAAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.22, C:0.04, G:0.10, T:0.63
Consensus pattern (25 bp):
TATTATTATTCTTATGATTTATTGT
Found at i:53898517 original size:27 final size:28
Alignment explanation
Indices: 53898445--53898524 Score: 84
Period size: 26 Copynumber: 3.1 Consensus size: 28
53898435 TTGTTATTCT
* * *
53898445 TATG-ATTTAT-TTCAAATTTTTATATG
1 TATGAATTTATCTTTAAATGTTTATATA
53898471 TATGAA-TTA-CTTTAAA-GTTTATATA
1 TATGAATTTATCTTTAAATGTTTATATA
53898496 TAT-AATTTATCTTTAAATGTTT-TATA
1 TATGAATTTATCTTTAAATGTTTATATA
53898522 TAT
1 TAT
53898525 TATCAATCTC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 2 0.04
25 13 0.28
26 26 0.57
27 5 0.11
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (28 bp):
TATGAATTTATCTTTAAATGTTTATATA
Found at i:53898533 original size:26 final size:26
Alignment explanation
Indices: 53898480--53898533 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
53898470 GTATGAATTA
**
53898480 CTTTAAAGTTTATATATATAATTTAT
1 CTTTAAAGTTTATATATATAATCAAT
*
53898506 CTTTAAATGTTT-TATATATTATCAAT
1 CTTTAAA-GTTTATATATATAATCAAT
53898532 CT
1 CT
53898534 CAAATTCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (26 bp):
CTTTAAAGTTTATATATATAATCAAT
Found at i:53911337 original size:16 final size:16
Alignment explanation
Indices: 53911318--53911348 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53911308 TATCATGTAA
53911318 TTTACATAATTAAAAT
1 TTTACATAATTAAAAT
*
53911334 TTTACATTATTAAAA
1 TTTACATAATTAAAA
53911349 AATTTAATTA
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:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTACATAATTAAAAT
Found at i:53911358 original size:16 final size:16
Alignment explanation
Indices: 53911316--53911358 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
53911306 TGTATCATGT
*
53911316 AATTTACATAATTAAA
1 AATTTACATTATTAAA
*
53911332 ATTTTACATTATTAAAA
1 AATTTACATTATT-AAA
53911349 AATTTA-ATTA
1 AATTTACATTA
53911359 ATTTATTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTACATTATTAAA
Found at i:53911542 original size:29 final size:30
Alignment explanation
Indices: 53911503--53911561 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
53911493 TTTAGTTTAA
*
53911503 TGTGCAATTTTATATATG-AACTTTGATTT
1 TGTGCAATTTTATACATGAAACTTTGATTT
* *
53911532 TGTGCACTTTTATACATGAAATTTTGATTT
1 TGTGCAATTTTATACATGAAACTTTGATTT
53911562 GATCCAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (30 bp):
TGTGCAATTTTATACATGAAACTTTGATTT
Found at i:53912656 original size:12 final size:12
Alignment explanation
Indices: 53912639--53912663 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53912629 GTTGAGGATT
53912639 AAATTTATTAAA
1 AAATTTATTAAA
53912651 AAATTTATTAAA
1 AAATTTATTAAA
53912663 A
1 A
53912664 TGTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATTTATTAAA
Found at i:53914234 original size:49 final size:50
Alignment explanation
Indices: 53914174--53914274 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 50
53914164 TTTAGTTATT
* * * *
53914174 TTAGTTTAATTAATTAAGTTG-TTTTAATAGTCTTTAGTTATTTAAATAA
1 TTAGTTGAATTAACTAAGTTGTTTTTAATACTCTTTAGTTACTTAAATAA
* * *
53914223 TTAGTTGAATTAACTAAGTTGTTTTTAGTTCTCTTTAGTTGCTTAAATAA
1 TTAGTTGAATTAACTAAGTTGTTTTTAATACTCTTTAGTTACTTAAATAA
53914273 TT
1 TT
53914275 TCGGCAATTA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 19 0.43
50 25 0.57
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (50 bp):
TTAGTTGAATTAACTAAGTTGTTTTTAATACTCTTTAGTTACTTAAATAA
Found at i:53914347 original size:16 final size:17
Alignment explanation
Indices: 53914317--53914348 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53914307 TTGCTACAGC
53914317 CATTTAACTTGTTTAAA
1 CATTTAACTTGTTTAAA
53914334 CATTTAAC-TGTTTAA
1 CATTTAACTTGTTTAA
53914349 TTGTGCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
CATTTAACTTGTTTAAA
Found at i:53916448 original size:18 final size:17
Alignment explanation
Indices: 53916392--53916541 Score: 78
Period size: 18 Copynumber: 8.5 Consensus size: 17
53916382 AGGAAGCGAG
53916392 AAAAAGAAATTGATAGAAGAA
1 AAAAAGAAATTG--A-AA-AA
**
53916413 AAAAAGAAA-TG-ATTA
1 AAAAAGAAATTGAAAAA
53916428 AAAAAGAAATTGAAATAA
1 AAAAAGAAATTGAAA-AA
* ** *
53916446 AAATAGAGCTTGAAAGA
1 AAAAAGAAATTGAAAAA
*
53916463 AAAGAGAAA--GAAAAA
1 AAAAAGAAATTGAAAAA
53916478 GAAAAAG-AATGTGAAAAA
1 -AAAAAGAAAT-TGAAAAA
*
53916496 GAAAAGAAAATTGAAAAA
1 AAAAAG-AAATTGAAAAA
53916514 GAAAAA-AAGATTGAAGAAA
1 -AAAAAGAA-ATTGAA-AAA
*
53916533 GAAAAGAAA
1 AAAAAGAAA
53916542 GAGTACGAGA
Statistics
Matches: 100, Mismatches: 16, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
15 17 0.17
16 8 0.08
17 15 0.15
18 37 0.37
19 12 0.12
20 2 0.02
21 9 0.09
ACGTcount: A:0.69, C:0.01, G:0.19, T:0.12
Consensus pattern (17 bp):
AAAAAGAAATTGAAAAA
Found at i:53916478 original size:6 final size:6
Alignment explanation
Indices: 53916458--53916519 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
53916448 ATAGAGCTTG
* ***
53916458 AAAG-A AAAGAG AAAGAA AAAGAA AAAGAA TGTGAA AAAG-A AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
*
53916504 AATTGAA AAAGAA AAA
1 AA-AGAA AAAGAA AAA
53916520 AAGATTGAAG
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
5 9 0.20
6 30 0.68
7 5 0.11
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:53918384 original size:17 final size:17
Alignment explanation
Indices: 53918362--53918394 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53918352 TTGCTACAGC
53918362 CATTTAACTTATTTAAA
1 CATTTAACTTATTTAAA
*
53918379 CATTTAACTTGTTTAA
1 CATTTAACTTATTTAA
53918395 TTGTGCTTAT
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:0.12, G:0.03, T:0.48
Consensus pattern (17 bp):
CATTTAACTTATTTAAA
Found at i:53918494 original size:30 final size:30
Alignment explanation
Indices: 53918458--53918515 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
53918448 AAAGGGAGAA
*
53918458 ATGAATTAAA-GACCAGCAGCTGTTATGAAG
1 ATGAATTAAATG-CCAGCAGCTATTATGAAG
*
53918488 ATGAATTAAATGCCAGTAGCTATTATGA
1 ATGAATTAAATGCCAGCAGCTATTATGA
53918516 GCTTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (30 bp):
ATGAATTAAATGCCAGCAGCTATTATGAAG
Found at i:53923335 original size:12 final size:13
Alignment explanation
Indices: 53923312--53923340 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
53923302 ATAAAGGATC
53923312 ATAAAGTAAATAA
1 ATAAAGTAAATAA
53923325 ATAAA-TAAATAA
1 ATAAAGTAAATAA
53923337 ATAA
1 ATAA
53923341 TAGGAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
ATAAAGTAAATAA
Found at i:53927631 original size:30 final size:30
Alignment explanation
Indices: 53927595--53927656 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
53927585 GAGACAACTG
*
53927595 AAGGTAAATAGCATTGTCAAAAACGCCATT
1 AAGGTAAATAGCATCGTCAAAAACGCCATT
* * *
53927625 AAGGTAAATGGCATCGTCAGAAACTCCATT
1 AAGGTAAATAGCATCGTCAAAAACGCCATT
53927655 AA
1 AA
53927657 TCTTAAAGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.23
Consensus pattern (30 bp):
AAGGTAAATAGCATCGTCAAAAACGCCATT
Found at i:53934229 original size:27 final size:27
Alignment explanation
Indices: 53934199--53934250 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
53934189 AGCACATCAG
*
53934199 GAAAAAAAAGCCTTTGTGGTGAACTAT
1 GAAAAAAAAGCCTTTGTAGTGAACTAT
* *
53934226 GAAAGAATAGCCTTTGTAGTGAACT
1 GAAAAAAAAGCCTTTGTAGTGAACT
53934251 CTGTGTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (27 bp):
GAAAAAAAAGCCTTTGTAGTGAACTAT
Found at i:53935405 original size:18 final size:18
Alignment explanation
Indices: 53935378--53935416 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
53935368 GGTATGTCGG
* *
53935378 CCACATGAGCGTATGGGT
1 CCACACGAGCATATGGGT
53935396 CCACACGAGCATATGGGT
1 CCACACGAGCATATGGGT
53935414 CCA
1 CCA
53935417 TTATATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (18 bp):
CCACACGAGCATATGGGT
Found at i:53946683 original size:24 final size:23
Alignment explanation
Indices: 53946647--53946694 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 23
53946637 TTTTAAAATG
53946647 AAAAATATATATATCAACATTGA
1 AAAAATATATATATCAACATTGA
53946670 AAAATATATATATATCAACATTGA
1 AAAA-ATATATATATCAACATTGA
53946694 A
1 A
53946695 GATTAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.31
Consensus pattern (23 bp):
AAAAATATATATATCAACATTGA
Found at i:53948236 original size:3 final size:3
Alignment explanation
Indices: 53948228--53948259 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
53948218 TCCTTGTCTA
53948228 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
53948260 CCATCTGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:53949740 original size:38 final size:38
Alignment explanation
Indices: 53949698--53949785 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
53949688 CGTTCTAATT
* * *
53949698 TTCTTGAGGAATTAGTAGTGATATTGGACATCTCATGA
1 TTCTTGAAGAACTAGTAGTGATATTGAACATCTCATGA
*
53949736 TTCTTGAAGAACTAGTAGTGATATTGAACATCTCATGG
1 TTCTTGAAGAACTAGTAGTGATATTGAACATCTCATGA
53949774 TTCTTGAAGAAC
1 TTCTTGAAGAAC
53949786 CACTGCATGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (38 bp):
TTCTTGAAGAACTAGTAGTGATATTGAACATCTCATGA
Found at i:53957282 original size:28 final size:27
Alignment explanation
Indices: 53957250--53957333 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
53957240 AACTGTGATC
53957250 ACGTGTGTAGTACTAAGTGCAGGTTACT
1 ACGTGTGTAGTACTAAGTGCAGG-TACT
* * *
53957278 ACGTGTATCAG-A-T-GGT-TAGGT-C-
1 ACGTGTGT-AGTACTAAGTGCAGGTACT
53957300 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGG-TACT
53957328 ACGTGT
1 ACGTGT
53957334 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (27 bp):
ACGTGTGTAGTACTAAGTGCAGGTACT
Found at i:53957322 original size:50 final size:49
Alignment explanation
Indices: 53957202--53957377 Score: 235
Period size: 50 Copynumber: 3.5 Consensus size: 49
53957192 TGAGGTCGCA
* * * * *
53957202 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* * **
53957253 TGTGTAGTACTAAGTGCAGGTTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
*
53957303 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
53957352 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
53957378 TGCATACCAG
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 34 0.31
50 44 0.40
51 32 0.29
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:53960896 original size:22 final size:21
Alignment explanation
Indices: 53960858--53960898 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
53960848 CTTTTTATTT
* *
53960858 TACTATTTTATTCTTCTTAAA
1 TACTATTCTATTATTCTTAAA
53960879 TACTATTGCTATTATTCTTA
1 TACTATT-CTATTATTCTTA
53960899 TTTAAAGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.15, G:0.02, T:0.56
Consensus pattern (21 bp):
TACTATTCTATTATTCTTAAA
Found at i:53962353 original size:6 final size:6
Alignment explanation
Indices: 53962338--53962408 Score: 99
Period size: 6 Copynumber: 11.5 Consensus size: 6
53962328 AGTCTAATTG
53962338 TTTTATT TTTTATT TTTTATT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-
1 TTTTA-T TTTTA-T TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
53962388 TTTTAT GTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTT
53962409 CTTAGACTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.08
6 37 0.61
7 19 0.31
ACGTcount: A:0.15, C:0.00, G:0.01, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:53965729 original size:24 final size:24
Alignment explanation
Indices: 53965701--53965749 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
53965691 TAATTGAATG
53965701 TTGTATTGTATGTAATGTGATTTA
1 TTGTATTGTATGTAATGTGATTTA
53965725 TTGTATTGTATGTAATGTGATTTA
1 TTGTATTGTATGTAATGTGATTTA
53965749 T
1 T
53965750 GTTAATGTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.55
Consensus pattern (24 bp):
TTGTATTGTATGTAATGTGATTTA
Found at i:53966528 original size:96 final size:96
Alignment explanation
Indices: 53966364--53966556 Score: 368
Period size: 96 Copynumber: 2.0 Consensus size: 96
53966354 TAGGCCATTT
53966364 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
1 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
*
53966429 GTTTCTGTTATACGAACTTACTAAGCATGTA
66 GTTTCTGTTACACGAACTTACTAAGCATGTA
53966460 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
1 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
*
53966525 GTTTCTGTTACATGAACTTACTAAGCATGTA
66 GTTTCTGTTACACGAACTTACTAAGCATGTA
53966556 A
1 A
53966557 TACTTACTTT
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (96 bp):
AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
GTTTCTGTTACACGAACTTACTAAGCATGTA
Found at i:53972502 original size:19 final size:18
Alignment explanation
Indices: 53972478--53972521 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
53972468 ATATTTTATG
*
53972478 ATTATTTAATTAGATATAT
1 ATTATTTAATGA-ATATAT
*
53972497 ATTATTTTAATGAATATTT
1 ATTA-TTTAATGAATATAT
53972516 ATTATT
1 ATTATT
53972522 ATTTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 13 0.59
20 7 0.32
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
ATTATTTAATGAATATAT
Found at i:53974722 original size:46 final size:46
Alignment explanation
Indices: 53974670--53974944 Score: 415
Period size: 46 Copynumber: 6.0 Consensus size: 46
53974660 AGTGTGCTCT
53974670 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
53974716 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
53974762 CTAATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
53974808 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** *
53974854 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
53974900 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
53974945 TATGACAAAA
Statistics
Matches: 210, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 210 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:53974951 original size:46 final size:46
Alignment explanation
Indices: 53974670--53974991 Score: 401
Period size: 46 Copynumber: 7.0 Consensus size: 46
53974660 AGTGTGCTCT
*
53974670 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
53974716 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
53974762 CTAATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
53974808 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *** *
53974854 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
53974900 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * * *
53974946 ATGACAAAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGAC--ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
53974992 TCATGTCAAA
Statistics
Matches: 247, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 214 0.87
48 33 0.13
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:53984331 original size:63 final size:62
Alignment explanation
Indices: 53984204--53984331 Score: 136
Period size: 63 Copynumber: 2.0 Consensus size: 62
53984194 GCGAGCATCC
* * * *
53984204 TGATCAGTAGTGATCCTGCATATGTTGTGGACTACTACAGCTCTTTATGAACGTCCTATTATA
1 TGATCAGTAGTGATCCTGCATATCTTGCGGACTACAACAGCTCTTTATGAACGTCC-ATGATA
* *
53984267 TGATCAGTTA-TGATCCTGCATATCTTGCGGAC-ACAAACGCAGCTCTTTGTGAGCGTCC-TGAT
1 TGATCAG-TAGTGATCCTGCATATCTTGCGGACTAC-AA--CAGCTCTTTATGAACGTCCATGAT
53984329 A
62 A
53984330 TG
1 TG
53984332 GCTCGCTTGA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
62 2 0.04
63 34 0.62
64 2 0.04
65 17 0.31
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (62 bp):
TGATCAGTAGTGATCCTGCATATCTTGCGGACTACAACAGCTCTTTATGAACGTCCATGATA
Found at i:53986272 original size:29 final size:30
Alignment explanation
Indices: 53986239--53986305 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
53986229 ATGAAATTTC
*
53986239 AAATTATGAGGTTAAA-TTGAGAAA-AATGA
1 AAATTATGAGG-TAAAGGTGAGAAATAATGA
* *
53986268 AAATTATGTGGTAAAGGTGTGAAATAATGA
1 AAATTATGAGGTAAAGGTGAGAAATAATGA
53986298 AAATTATG
1 AAATTATG
53986306 GGATGCTATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 4 0.12
29 16 0.48
30 13 0.39
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (30 bp):
AAATTATGAGGTAAAGGTGAGAAATAATGA
Found at i:53997751 original size:13 final size:13
Alignment explanation
Indices: 53997735--53997768 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
53997725 AGAATTGTGA
53997735 TTTTAAATTATTT
1 TTTTAAATTATTT
53997748 TTTTACAA-TATTT
1 TTTTA-AATTATTT
53997761 TTTTAAAT
1 TTTTAAAT
53997769 GGAAGGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.11
13 15 0.79
14 2 0.11
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTAAATTATTT
Found at i:53998603 original size:18 final size:19
Alignment explanation
Indices: 53998566--53998603 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
53998556 TAGATGTTTG
*
53998566 GAGCCATTAGAAGTGAATTA
1 GAGCCATTACAAG-GAATTA
53998586 GAGCCATTACAA-GAATTA
1 GAGCCATTACAAGGAATTA
53998604 ATTTTGGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (19 bp):
GAGCCATTACAAGGAATTA
Found at i:54000447 original size:15 final size:16
Alignment explanation
Indices: 54000417--54000450 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
54000407 ATATCATGTA
*
54000417 TATATTTTTTTAATAT
1 TATATTTTTATAATAT
54000433 TATATTTTTAT-ATAT
1 TATATTTTTATAATAT
54000448 TAT
1 TAT
54000451 GTATATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATATTTTTATAATAT
Found at i:54000457 original size:13 final size:12
Alignment explanation
Indices: 54000395--54000605 Score: 69
Period size: 13 Copynumber: 16.8 Consensus size: 12
54000385 TATGCACATG
*
54000395 TATATTAATAT-
1 TATATTATTATA
*
54000406 TATATCATGTATA
1 TATATTAT-TATA
* *
54000419 TATTTTTTTAATA
1 TATATTATT-ATA
54000432 TTATATT-TT-TA
1 -TATATTATTATA
*
54000443 TATATTA-TGTA
1 TATATTATTATA
*
54000454 TATATTGTTAATA
1 TATATTATT-ATA
54000467 TCATATTATTCATA
1 T-ATATTATT-ATA
* *
54000481 TATTTTATTATG
1 TATATTATTATA
*
54000493 TATATTTTTTATAA
1 TATA-TTATTAT-A
*
54000507 CTATATTATGTACA
1 -TATATTAT-TATA
54000521 TAT-TTCA-TATA
1 TATATT-ATTATA
*
54000532 TATATCATGTATA
1 TATATTAT-TATA
*
54000545 TATATTTTTAATA
1 TATATTATT-ATA
*
54000558 TTATATT-TTTTA
1 -TATATTATTATA
54000570 CGTATATTATGTATA
1 --TATATTAT-TATA
* *
54000585 TATCTT-TAATA
1 TATATTATTATA
54000596 TCATATTATT
1 T-ATATTATT
54000606 CATACATTTT
Statistics
Matches: 148, Mismatches: 28, Indels: 46
0.67 0.13 0.21
Matches are distributed among these distances:
10 7 0.05
11 27 0.18
12 21 0.14
13 57 0.39
14 27 0.18
15 9 0.06
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.57
Consensus pattern (12 bp):
TATATTATTATA
Found at i:54000505 original size:129 final size:127
Alignment explanation
Indices: 54000381--54000619 Score: 360
Period size: 129 Copynumber: 1.9 Consensus size: 127
54000371 ATTATACTCC
*
54000381 ATATTATGCACATGTATATTAATAT-TATATCATGTATATATTTTTTTAATATTATA-TTTTTA-
1 ATATTATGCACA--TAT-TTAATATATATATCATGTATATATATTTTTAATATTATATTTTTTAC
*
54000443 TATATTATGTATATAT-TGTTAATATCATATTATTCATATATTTTATTATGTATATTTTTTATAA
63 TATATTATGTATATATCT-TTAATATCATATTATTCATACATTTT-TTATGTATATTTTTTATAA
54000507 CT
126 CT
* *
54000509 ATATTATGTACATATTTCATATATATATCATGTATATATATTTTTAATATTATATTTTTTACGTA
1 ATATTATGCACATATTTAATATATATATCATGTATATATATTTTTAATATTATATTTTTTAC-TA
54000574 TATTATGTATATATCTTTAATATCATATTATTCATACATTTTTTAT
65 TATTATGTATATATCTTTAATATCATATTATTCATACATTTTTTAT
54000620 ATTATCCCAT
Statistics
Matches: 102, Mismatches: 4, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
125 6 0.06
126 33 0.32
127 6 0.06
128 15 0.15
129 41 0.40
130 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (127 bp):
ATATTATGCACATATTTAATATATATATCATGTATATATATTTTTAATATTATATTTTTTACTAT
ATTATGTATATATCTTTAATATCATATTATTCATACATTTTTTATGTATATTTTTTATAACT
Found at i:54000514 original size:24 final size:24
Alignment explanation
Indices: 54000475--54000547 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
54000465 TATCATATTA
* *
54000475 TTCATATATTTTATTATGTATATTT
1 TTCATATA-TATATTATGTATATAT
* *
54000500 TTTATA-ACTATATTATGTACATAT
1 TTCATATA-TATATTATGTATATAT
*
54000524 TTCATATATATATCATGTATATAT
1 TTCATATATATATTATGTATATAT
54000548 ATTTTTAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
24 33 0.85
25 6 0.15
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (24 bp):
TTCATATATATATTATGTATATAT
Found at i:54000766 original size:26 final size:26
Alignment explanation
Indices: 54000736--54000787 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
54000726 ATTATGTATA
*
54000736 TATTTTTAATACTACGTATATATTTT
1 TATTTCTAATACTACGTATATATTTT
* *
54000762 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATATATTTT
54000788 AATACATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.60
Consensus pattern (26 bp):
TATTTCTAATACTACGTATATATTTT
Found at i:54000996 original size:15 final size:15
Alignment explanation
Indices: 54000978--54001009 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
54000968 TTATTATCAT
54000978 TTTATACTATTATTA
1 TTTATACTATTATTA
*
54000993 TTTATATTATTATTA
1 TTTATACTATTATTA
54001008 TT
1 TT
54001010 ATCGTTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATACTATTATTA
Found at i:54011981 original size:18 final size:18
Alignment explanation
Indices: 54011958--54011992 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
54011948 ATAATATAGA
54011958 TGGGGTTAGGTTTTTTTT
1 TGGGGTTAGGTTTTTTTT
54011976 TGGGGTTAGGTTTTTTT
1 TGGGGTTAGGTTTTTTT
54011993 GGGGGGCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.34, T:0.60
Consensus pattern (18 bp):
TGGGGTTAGGTTTTTTTT
Found at i:54011991 original size:16 final size:17
Alignment explanation
Indices: 54011958--54011996 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
54011948 ATAATATAGA
54011958 TGGGGTTAGGTTTTTTTT
1 TGGGGTTAGG-TTTTTTT
54011976 TGGGGTTAGG-TTTTTT
1 TGGGGTTAGGTTTTTTT
54011992 TGGGG
1 TGGGG
54011997 GGCTTAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.05, C:0.00, G:0.41, T:0.54
Consensus pattern (17 bp):
TGGGGTTAGGTTTTTTT
Found at i:54011997 original size:17 final size:18
Alignment explanation
Indices: 54011959--54011997 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
54011949 TAATATAGAT
*
54011959 GGGGTTAGGTTTTTTTTT
1 GGGGTTAGGTTTTTTTTG
54011977 GGGGTTAGG-TTTTTTTG
1 GGGGTTAGGTTTTTTTTG
54011994 GGGG
1 GGGG
54011998 GCTTAATGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.05, C:0.00, G:0.44, T:0.51
Consensus pattern (18 bp):
GGGGTTAGGTTTTTTTTG
Found at i:54011998 original size:18 final size:18
Alignment explanation
Indices: 54011959--54011998 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
54011949 TAATATAGAT
**
54011959 GGGGTTAGGTTTTTTTTT
1 GGGGTTAGGTTTTTTTGG
54011977 GGGGTTAGGTTTTTTTGG
1 GGGGTTAGGTTTTTTTGG
54011995 GGGG
1 GGGG
54011999 CTTAATGGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.00, G:0.45, T:0.50
Consensus pattern (18 bp):
GGGGTTAGGTTTTTTTGG
Found at i:54014924 original size:16 final size:16
Alignment explanation
Indices: 54014903--54014935 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
54014893 GTTTTCCCAC
54014903 TTTCTTTAT-TTTCTTT
1 TTTCTTT-TCTTTCTTT
54014919 TTTCTTTTCTTTCTTT
1 TTTCTTTTCTTTCTTT
54014935 T
1 T
54014936 GTTTCGGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTCTTTTCTTTCTTT
Found at i:54017043 original size:31 final size:34
Alignment explanation
Indices: 54016987--54017050 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
54016977 ATTAATTATT
54016987 ATTATTATAATTATAATACGATTACTT-TTAATGA
1 ATTATTATAATTATAATAC-ATTACTTCTTAATGA
*
54017021 ATTATTATAATTAT-ATA-TTTACTTCTTAAT
1 ATTATTATAATTATAATACATTACTTCTTAAT
54017051 ATATAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 6 0.21
32 5 0.18
33 3 0.11
34 14 0.50
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (34 bp):
ATTATTATAATTATAATACATTACTTCTTAATGA
Found at i:54022195 original size:10 final size:10
Alignment explanation
Indices: 54022175--54022233 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
54022165 TTTAAGATTC
54022175 AAAAAAGTTAT
1 AAAAAA-TTAT
54022186 AAAAAATTAT
1 AAAAAATTAT
**
54022196 TTAAAATT-T
1 AAAAAATTAT
54022205 -AAAAATTAT
1 AAAAAATTAT
*
54022214 -TAAAATTAT
1 AAAAAATTAT
*
54022223 AAAAAAATAT
1 AAAAAATTAT
54022233 A
1 A
54022234 TTTTTTAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
8 6 0.15
9 10 0.25
10 18 0.45
11 6 0.15
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:54022211 original size:8 final size:9
Alignment explanation
Indices: 54022176--54022227 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
54022166 TTAAGATTCA
54022176 AAAAAGTTAT
1 AAAAA-TTAT
54022186 AAAAAATTATT
1 -AAAAATTA-T
*
54022197 TAAAATT-T
1 AAAAATTAT
54022205 AAAAATTAT
1 AAAAATTAT
*
54022214 TAAAATTAT
1 AAAAATTAT
54022223 AAAAA
1 AAAAA
54022228 AATATATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 7 0.20
9 13 0.37
10 9 0.26
11 6 0.17
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:54022216 original size:17 final size:19
Alignment explanation
Indices: 54022177--54022227 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
54022167 TAAGATTCAA
54022177 AAAAGTTATAAAAAATTATTT
1 AAAA-TTAT-AAAAATTATTT
54022198 AAAATT-TAAAAATTA-TT
1 AAAATTATAAAAATTATTT
54022215 AAAATTATAAAAA
1 AAAATTATAAAAA
54022228 AATATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.28
18 14 0.48
19 1 0.03
20 2 0.07
21 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTATAAAAATTATTT
Found at i:54023937 original size:21 final size:19
Alignment explanation
Indices: 54023913--54023951 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
54023903 TAAAATCAAG
54023913 ATTTTCATTATATTAATCTCA
1 ATTTTCATT-T-TTAATCTCA
*
54023934 ATTTTTATTTTTAATCTC
1 ATTTTCATTTTTAATCTC
54023952 TTTTAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 1 0.06
21 8 0.47
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTCATTTTTAATCTCA
Found at i:54027540 original size:3 final size:3
Alignment explanation
Indices: 54027534--54027563 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
54027524 CATCAATTTG
54027534 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
54027564 TTAGCTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:54038490 original size:29 final size:29
Alignment explanation
Indices: 54038428--54038490 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
54038418 ATGAATTTTA
* **
54038428 AAAAATAGAAAGACTAAATTCCTAAAAAT
1 AAAAATACAAAGACTAAATTCCTAAATTT
*
54038457 AAAAATACAAAGACTAAATT-TTAAATTT
1 AAAAATACAAAGACTAAATTCCTAAATTT
54038485 ACAAAA
1 A-AAAA
54038491 AGCATCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.24
Consensus pattern (29 bp):
AAAAATACAAAGACTAAATTCCTAAATTT
Found at i:54040555 original size:29 final size:30
Alignment explanation
Indices: 54040513--54040574 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
54040503 ACTTAACAAG
*
54040513 CAAATGCCTCTAAAATAATAA-AAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAACTAA
* *
54040542 CAAATGTCTTTAAAATAATAACAAAACTAA
1 CAAATGCCTCTAAAATAATAACAAAACTAA
54040572 CAA
1 CAA
54040575 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAACTAA
Found at i:54040623 original size:14 final size:14
Alignment explanation
Indices: 54040606--54040635 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
54040596 TCCAAACAAC
54040606 AACAACAAAATAGT
1 AACAACAAAATAGT
*
54040620 AACAACATAATAGT
1 AACAACAAAATAGT
54040634 AA
1 AA
54040636 AATGGAGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.13, G:0.07, T:0.17
Consensus pattern (14 bp):
AACAACAAAATAGT
Found at i:54050070 original size:51 final size:51
Alignment explanation
Indices: 54050015--54050115 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
54050005 GATGAAGAAA
*
54050015 AAGAAAAGAAAGAGGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCAG
1 AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCAG
54050066 AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCA
1 AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCA
54050116 TCCATTGTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.43, C:0.06, G:0.28, T:0.24
Consensus pattern (51 bp):
AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCAG
Found at i:54051178 original size:15 final size:16
Alignment explanation
Indices: 54051152--54051184 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
54051142 ATTAAAAGTT
54051152 TTTTGAATTTGGGTTA
1 TTTTGAATTTGGGTTA
*
54051168 TTTTG-ATTTGGTTTA
1 TTTTGAATTTGGGTTA
54051183 TT
1 TT
54051185 ATAAGTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (16 bp):
TTTTGAATTTGGGTTA
Found at i:54068269 original size:9 final size:10
Alignment explanation
Indices: 54068245--54068278 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
54068235 AATTATTATT
54068245 TATTTTATAA
1 TATTTTATAA
54068255 TATTTTA-AA
1 TATTTTATAA
*
54068264 TGTTTTATAA
1 TATTTTATAA
54068274 TATTT
1 TATTT
54068279 ACTAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TATTTTATAA
Found at i:54068406 original size:9 final size:10
Alignment explanation
Indices: 54068392--54068416 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
54068382 AAATAATTTT
54068392 AAAAAATTCA
1 AAAAAATTCA
54068402 AAAAAATTCA
1 AAAAAATTCA
54068412 AAAAA
1 AAAAA
54068417 GTTTGAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAATTCA
Found at i:54068439 original size:11 final size:10
Alignment explanation
Indices: 54068426--54068458 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
54068416 AGTTTGAATA
54068426 AAAATATTAT
1 AAAATATTAT
*
54068436 AAAACATT-T
1 AAAATATTAT
54068445 AAAATATTAT
1 AAAATATTAT
54068455 AAAA
1 AAAA
54068459 AATAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATATTAT
Found at i:54068492 original size:87 final size:87
Alignment explanation
Indices: 54068324--54068520 Score: 272
Period size: 85 Copynumber: 2.4 Consensus size: 87
54068314 TAATTTTTTT
* *
54068324 AAAAACGTTTGAATAAATAAATATTTTAAAACATTTAAAATATTATAAAATAAATAATAAATAAT
1 AAAAAAGTTTGAATAAATAAATATTATAAAACATTTAAAATATTATAAAATAAATAATAAATAAT
54068389 TTTAAAAAATTCAAAAAAATTC
66 TTTAAAAAATTCAAAAAAATTC
*
54068411 AAAAAAGTTTGAAT-AA-AAATATTATAAAACATTTAAAATATTAT-AAA-AAATAATAATTAAT
1 AAAAAAGTTTGAATAAATAAATATTATAAAACATTTAAAATATTATAAAATAAATAATAAATAAT
*
54068472 TTT---AAA---AAAAAAATTT
66 TTTAAAAAATTCAAAAAAATTC
54068488 AAAAAATGTTTGAATAAA-AAATATTATAAAACA
1 AAAAAA-GTTTGAATAAATAAATATTATAAAACA
54068521 AATAATAAAT
Statistics
Matches: 104, Mismatches: 4, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
77 15 0.14
78 8 0.08
79 17 0.16
80 3 0.03
83 16 0.15
84 3 0.03
85 27 0.26
86 2 0.02
87 13 0.12
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (87 bp):
AAAAAAGTTTGAATAAATAAATATTATAAAACATTTAAAATATTATAAAATAAATAATAAATAAT
TTTAAAAAATTCAAAAAAATTC
Found at i:54068530 original size:21 final size:20
Alignment explanation
Indices: 54068500--54068551 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
54068490 AAAATGTTTG
54068500 AATAAAAAATA-TTATAAAACA
1 AATAAAAAATACTT-TAAAA-A
*
54068521 AATAATAAATACTTTAAAAA
1 AATAAAAAATACTTTAAAAA
*
54068541 AATAAATAATA
1 AATAAAAAATA
54068552 AACAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.37
21 15 0.56
22 2 0.07
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (20 bp):
AATAAAAAATACTTTAAAAA
Found at i:54068545 original size:79 final size:77
Alignment explanation
Indices: 54068324--54068550 Score: 226
Period size: 85 Copynumber: 2.8 Consensus size: 77
54068314 TAATTTTTTT
* * * *
54068324 AAAAACGTTTGAATAAATAAATATTTTAAAACATTTAAAATATTATAAAATAAATAATAAATAAT
1 AAAAAAGTTTGAAT-AA-AAATATTATAAAACAATAAAAATATTAT-AAA-AAATAATAAATAAT
54068389 TTTAAAAAATTCAAAAAAATTC
62 TTT---AAA---AAAAAAATTC
* * *
54068411 AAAAAAGTTTGAATAAAAATATTATAAAACATTTAAAATATTATAAAAAATAATAATTAATTTTA
1 AAAAAAGTTTGAATAAAAATATTATAAAACAATAAAAATATTATAAAAAATAATAAATAATTTTA
*
54068476 AAAAAAAAATTT
66 AAAAAAAAATTC
54068488 AAAAAATGTTTGAATAAAAAATATTATAAAACAAATAATAAATACTT-T-AAAAA-AATAAATAA
1 AAAAAA-GTTTGAAT-AAAAATATTATAAAAC-AATAA-AAATA-TTATAAAAAATAATAAATAA
54068550 T
61 T
54068551 AAACAAATAA
Statistics
Matches: 128, Mismatches: 7, Indels: 18
0.84 0.05 0.12
Matches are distributed among these distances:
77 15 0.12
78 8 0.06
79 25 0.20
80 11 0.09
81 6 0.05
82 2 0.02
83 16 0.12
84 3 0.02
85 27 0.21
86 2 0.02
87 13 0.10
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (77 bp):
AAAAAAGTTTGAATAAAAATATTATAAAACAATAAAAATATTATAAAAAATAATAAATAATTTTA
AAAAAAAAATTC
Found at i:54068563 original size:79 final size:76
Alignment explanation
Indices: 54068324--54068564 Score: 200
Period size: 79 Copynumber: 3.0 Consensus size: 76
54068314 TAATTTTTTT
* * * *
54068324 AAAAACGTTTGAATAAATAAATATTTTAAAACATTTAAAATATTATAAAATAAATAATAAATAAT
1 AAAAAAGTTTGAAT-AA-AAATATTATAAAACAATAAAAATATTAT-AAA-AAATAATAAATAA-
54068389 TTTAAAAAATTCAAAAAAATTC
61 -TT--AAAA---AAAAAAATTC
* * * *
54068411 AAAAAAGTTTGAATAAAAATATTATAAAACATTTAAAATATTATAAAAAATAATAATTAATTTTA
1 AAAAAAGTTTGAATAAAAATATTATAAAACAATAAAAATATTATAAAAAATAATAAATAA-TTAA
*
54068476 AAAAAAAAATTT
65 AAAAAAAAATTC
54068488 AAAAAATGTTTGAATAAAAAATATTATAAAACAAATAATAAATACTT-T-AAAAA-AATAAATAA
1 AAAAAA-GTTTGAAT-AAAAATATTATAAAAC-AATAA-AAATA-TTATAAAAAATAATAAATAA
*
54068550 TAAACAAATAAAAAA
61 TTAA-AAA-AAAAAA
54068565 ATAAGAAAAA
Statistics
Matches: 137, Mismatches: 10, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
77 15 0.11
78 10 0.07
79 27 0.20
80 17 0.12
81 6 0.04
82 5 0.04
83 12 0.09
84 3 0.02
85 27 0.20
86 2 0.01
87 13 0.09
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.31
Consensus pattern (76 bp):
AAAAAAGTTTGAATAAAAATATTATAAAACAATAAAAATATTATAAAAAATAATAAATAATTAAA
AAAAAAAATTC
Found at i:54075064 original size:135 final size:138
Alignment explanation
Indices: 54074877--54075148 Score: 379
Period size: 135 Copynumber: 2.0 Consensus size: 138
54074867 GATATGAAAT
* * *
54074877 AGCAGCAGCTCGACCATACCATCAGCCTATATAGAATCATTTAGAATGCAATGCTTTTAAGTATT
1 AGCAGCAGATCGACCATACCATCAGCCTATATAGAATCATGTAGAATGCAATGCTTATAAGTATT
* * *
54074942 AACCACACTATGATTGCAAGTTTC-AAACCAGTCAAGTTTTAGTTTCGATTTATGCTTTTTGTAG
66 AACCACACTACGATTGCAAGTTTCTAAACCAGTCAAGTCTTAGTTCCGATTTATGCTTTTTGTAG
54075006 GTCATAGC
131 GTCATAGC
* **
54075014 AGCAGCAGATCGTCCATACCATCAG-C-ATATAGAATTGTGTAGAATGCAATGCTTATAAGTATT
1 AGCAGCAGATCGACCATACCATCAGCCTATATAGAATCATGTAGAATGCAATGCTTATAAGTATT
* *** *
54075077 AACCACACTACGATTGCAAGTTTCTGTAAACTAGTTGTGTCTTAGTTCCGGTTTATGCTTTTTGT
66 AACCACACTACGATTGCAAGTTTC--TAAACCAGTCAAGTCTTAGTTCCGATTTATGCTTTTTGT
54075142 AGGTCAT
129 AGGTCAT
54075149 TCGATGAAGA
Statistics
Matches: 118, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
135 56 0.47
136 1 0.01
137 23 0.19
138 38 0.32
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (138 bp):
AGCAGCAGATCGACCATACCATCAGCCTATATAGAATCATGTAGAATGCAATGCTTATAAGTATT
AACCACACTACGATTGCAAGTTTCTAAACCAGTCAAGTCTTAGTTCCGATTTATGCTTTTTGTAG
GTCATAGC
Found at i:54088792 original size:46 final size:46
Alignment explanation
Indices: 54088712--54088977 Score: 334
Period size: 46 Copynumber: 6.0 Consensus size: 46
54088702 TTTGACATGA
* * * * * *
54088712 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
54088758 TACCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
54088804 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
54088850 TGCCATGGTATCTTTCAACCATAGTCTTACATATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
54088896 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
54088934 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
54088978 AGAGCACACT
Statistics
Matches: 192, Mismatches: 19, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
38 32 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 2 0.01
45 5 0.03
46 147 0.77
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:54088947 original size:38 final size:38
Alignment explanation
Indices: 54088891--54088966 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
54088881 TATTTCATAT
54088891 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
54088929 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
54088967 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (38 bp):
CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:54094261 original size:27 final size:25
Alignment explanation
Indices: 54094214--54094264 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
54094204 ACAAAAAAAT
*
54094214 TTGTTGTTTTTCTTTTGCTATTTTC
1 TTGTTGTTTTTCTTTTACTATTTTC
*
54094239 TTGTTGTTTTTTTTCTTCACTATTTT
1 TTGTTGTTTTTCTT-TT-ACTATTTT
54094265 GCTACTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
26 2 0.09
27 7 0.32
ACGTcount: A:0.06, C:0.12, G:0.10, T:0.73
Consensus pattern (25 bp):
TTGTTGTTTTTCTTTTACTATTTTC
Found at i:54094273 original size:11 final size:11
Alignment explanation
Indices: 54094257--54094298 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
54094247 TTTTTTCTTC
54094257 ACTATTTTGCT
1 ACTATTTTGCT
**
54094268 ACTATTTCACT
1 ACTATTTTGCT
*
54094279 ACTATGTTGCT
1 ACTATTTTGCT
54094290 ACTATTTTG
1 ACTATTTTG
54094299 TTGTTATTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (11 bp):
ACTATTTTGCT
Found at i:54094470 original size:34 final size:33
Alignment explanation
Indices: 54094408--54094472 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
54094398 TTAAGTGTAC
54094408 ATATTTTTTTAATTTATTTTCAATTTTTTAGGAA
1 ATATTTTTTTAA-TTATTTTCAATTTTTTAGGAA
*
54094442 ATATTTATTTTAA-TATTTTTAATATTTTTAG
1 ATATTT-TTTTAATTATTTTCAAT-TTTTTAG
54094473 TATTTTTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 9 0.32
34 13 0.46
35 6 0.21
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (33 bp):
ATATTTTTTTAATTATTTTCAATTTTTTAGGAA
Found at i:54094478 original size:8 final size:9
Alignment explanation
Indices: 54094449--54094479 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
54094439 GAAATATTTA
54094449 TTTTAATAT
1 TTTTAATAT
54094458 TTTTAATAT
1 TTTTAATAT
*
54094467 TTTTAGTAT
1 TTTTAATAT
54094476 TTTT
1 TTTT
54094480 GATGTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (9 bp):
TTTTAATAT
Found at i:54094496 original size:18 final size:19
Alignment explanation
Indices: 54094447--54094496 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
54094437 AGGAAATATT
54094447 TATTTTAATATTTTTAATA
1 TATTTTAATATTTTTAATA
* * *
54094466 T-TTTTAGTATTTTTGATG
1 TATTTTAATATTTTTAATA
54094484 TATTTTAAT-TTTT
1 TATTTTAATATTTT
54094497 AAAAAGATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (19 bp):
TATTTTAATATTTTTAATA
Found at i:54094715 original size:18 final size:18
Alignment explanation
Indices: 54094692--54094732 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
54094682 TAAACTCTAA
54094692 TTAATTTA-AATAAAACT
1 TTAATTTATAATAAAACT
*
54094709 CTTAA-TTATACTAAAACT
1 -TTAATTTATAATAAAACT
54094727 TTAATT
1 TTAATT
54094733 AATCTAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTTATAATAAAACT
Done.