Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 246 of 259
Found at i:77247089 original size:22 final size:24
Alignment explanation
Indices: 77247063--77247120 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
77247053 ACATGTTATC
77247063 TTATGTATATATTTT-A-ACTATA
1 TTATGTATATATTTTAACACTATA
* *
77247085 TTATGTATGTTTTTTAACACTATA
1 TTATGTATATATTTTAACACTATA
*
77247109 TTATGTACATAT
1 TTATGTATATAT
77247121 ATAAATATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 13 0.45
23 1 0.03
24 15 0.52
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (24 bp):
TTATGTATATATTTTAACACTATA
Found at i:77247340 original size:37 final size:35
Alignment explanation
Indices: 77247275--77247344 Score: 81
Period size: 37 Copynumber: 1.9 Consensus size: 35
77247265 TTATATATAG
77247275 TATTATTTTCATACATTATCATATTTATTATTATACC
1 TATTATTTTCATA-ATTATCATATTTATT-TTATACC
77247312 TATTATTTTCACT-ATTATCACT-TATTATTTTAT
1 TATTATTTTCA-TAATTATCA-TAT-TTATTTTAT
77247345 TTTAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
36 12 0.40
37 17 0.57
38 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (35 bp):
TATTATTTTCATAATTATCATATTTATTTTATACC
Found at i:77247479 original size:25 final size:24
Alignment explanation
Indices: 77247451--77247506 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
77247441 GTTATATTTT
*
77247451 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
77247476 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
77247499 CACTATTA
1 CACTATTA
77247507 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:77247548 original size:21 final size:21
Alignment explanation
Indices: 77247522--77247564 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
77247512 TATAAATATT
77247522 TATATATATATTACGTACATA
1 TATATATATATTACGTACATA
* * *
77247543 TATATATTTATTATGTATATA
1 TATATATATATTACGTACATA
77247564 T
1 T
77247565 TCGTTGTTTT
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:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (21 bp):
TATATATATATTACGTACATA
Found at i:77265153 original size:44 final size:44
Alignment explanation
Indices: 77265090--77265177 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
77265080 TTACAATTAA
77265090 CTCGTTACTTACATGGGTAAACAATGAGAATATTATTAGTTATT
1 CTCGTTACTTACATGGGTAAACAATGAGAATATTATTAGTTATT
77265134 CTCGTTACTTACATGGGTAAACAATGAGAATATTATTAGTTATT
1 CTCGTTACTTACATGGGTAAACAATGAGAATATTATTAGTTATT
77265178 GGTTTAGCCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (44 bp):
CTCGTTACTTACATGGGTAAACAATGAGAATATTATTAGTTATT
Found at i:77267082 original size:24 final size:25
Alignment explanation
Indices: 77267055--77267103 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
77267045 GCTTTTTTAT
*
77267055 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
77267079 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
77267104 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:77267096 original size:25 final size:23
Alignment explanation
Indices: 77267067--77267131 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
77267057 AATAAAAAAC
*
77267067 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
77267092 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
77267113 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
77267132 AAAAATAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:77267130 original size:19 final size:20
Alignment explanation
Indices: 77267093--77267131 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
77267083 TCAAATACAT
77267093 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
77267113 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
77267132 AAAAATAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:77267244 original size:22 final size:20
Alignment explanation
Indices: 77267191--77267245 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 20
77267181 AATAAAAAGT
*
77267191 AATTATATTAAAATTGAAACA
1 AATTATATT-AAATTAAAACA
*
77267212 AATTAAAATTAAATTAAGAACTA
1 AATT-ATATTAAATTAA-AAC-A
77267235 AATTATATTAA
1 AATTATATTAA
77267246 TAACAAAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 10 0.36
22 13 0.46
23 5 0.18
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (20 bp):
AATTATATTAAATTAAAACA
Found at i:77269646 original size:20 final size:20
Alignment explanation
Indices: 77269621--77269660 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
77269611 TATTCTTAGA
77269621 AAAACAACTAAATTATCATT
1 AAAACAACTAAATTATCATT
77269641 AAAACAACTAAATTATCATT
1 AAAACAACTAAATTATCATT
77269661 CCAACTCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAACAACTAAATTATCATT
Found at i:77271131 original size:15 final size:16
Alignment explanation
Indices: 77271113--77271143 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
77271103 GTATAATTGA
77271113 AAATTAAATTT-AAAT
1 AAATTAAATTTGAAAT
77271128 AAATTAAATTTGAAAT
1 AAATTAAATTTGAAAT
77271144 TTAACTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AAATTAAATTTGAAAT
Found at i:77271597 original size:21 final size:21
Alignment explanation
Indices: 77271573--77271640 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
77271563 TTTAATAGTT
77271573 TATATTTTTATAAATTTTAAA
1 TATATTTTTATAAATTTTAAA
* *
77271594 TATAATTTTAT-TATTTTAATA
1 TATATTTTTATAAATTTTAA-A
*
77271615 GTTTATATCTTTATAAATTTTAAA
1 ---TATATTTTTATAAATTTTAAA
77271639 TA
1 TA
77271641 GTTAAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
20 7 0.19
21 13 0.35
24 10 0.27
25 7 0.19
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (21 bp):
TATATTTTTATAAATTTTAAA
Found at i:77271601 original size:45 final size:45
Alignment explanation
Indices: 77271546--77271640 Score: 181
Period size: 45 Copynumber: 2.1 Consensus size: 45
77271536 ACTATAATAA
*
77271546 AAATATAATTTTATTATTTTAATAGTTTATATTTTTATAAATTTT
1 AAATATAATTTTATTATTTTAATAGTTTATATCTTTATAAATTTT
77271591 AAATATAATTTTATTATTTTAATAGTTTATATCTTTATAAATTTT
1 AAATATAATTTTATTATTTTAATAGTTTATATCTTTATAAATTTT
77271636 AAATA
1 AAATA
77271641 GTTAAATTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (45 bp):
AAATATAATTTTATTATTTTAATAGTTTATATCTTTATAAATTTT
Found at i:77271687 original size:32 final size:32
Alignment explanation
Indices: 77271624--77271689 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
77271614 AGTTTATATC
* * *
77271624 TTTATAAATTTTAAATAGTTAAATTTTAAAAT
1 TTTATAAATTATAAATACTTAAATTTGAAAAT
*
77271656 TTTATAAATTATACCATACTTAAA-TTGAAAAT
1 TTTATAAATTATA-AATACTTAAATTTGAAAAT
77271688 TT
1 TT
77271690 ACCACTGCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 21 0.72
33 8 0.28
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (32 bp):
TTTATAAATTATAAATACTTAAATTTGAAAAT
Found at i:77276638 original size:10 final size:11
Alignment explanation
Indices: 77276622--77276653 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
77276612 CTTAAAAAGG
77276622 AGAAAAAAAAA
1 AGAAAAAAAAA
77276633 AGAAAAAAAAA
1 AGAAAAAAAAA
77276644 AGAAGAAAAA
1 AGAA-AAAAA
77276654 CTTAGAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:77287315 original size:16 final size:16
Alignment explanation
Indices: 77287294--77287339 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
77287284 TGCAACAACC
77287294 AAGAAATATTATAAAG
1 AAGAAATATTATAAAG
* *
77287310 AAGAAAAAGTTAAAAAG
1 AAGAAATA-TTATAAAG
*
77287327 CAGAAATATTATA
1 AAGAAATATTATA
77287340 CTAACCAAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.63, C:0.02, G:0.13, T:0.22
Consensus pattern (16 bp):
AAGAAATATTATAAAG
Found at i:77313394 original size:16 final size:16
Alignment explanation
Indices: 77313355--77313396 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
77313345 ATAATAAAAA
*
77313355 TATAATTTTATTATTTT
1 TATAAGTTT-TTATTTT
*
77313372 AAT-AGTTTTTATTTT
1 TATAAGTTTTTATTTT
77313387 TATAAGTTTT
1 TATAAGTTTT
77313397 AAAGGATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 9 0.43
16 10 0.48
17 2 0.10
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (16 bp):
TATAAGTTTTTATTTT
Found at i:77314783 original size:17 final size:16
Alignment explanation
Indices: 77314745--77314778 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
77314735 AGGTTTGAAA
77314745 TTTTTAATTAATTAAAT
1 TTTTTAATTAA-TAAAT
77314762 TTTTTAATTAA-AAAT
1 TTTTTAATTAATAAAT
77314777 TT
1 TT
77314779 ATTTTCATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTTAATTAATAAAT
Found at i:77318801 original size:2 final size:2
Alignment explanation
Indices: 77318794--77318844 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
77318784 TCTTGTTGTT
77318794 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
77318836 GA GA GA GA G
1 GA GA GA GA G
77318845 GTTAAAATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:77323489 original size:22 final size:21
Alignment explanation
Indices: 77323463--77323506 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
77323453 TCAAAGAAAG
77323463 AGAAAAAAAGATACCAGAAAAA
1 AGAAAAAAA-ATACCAGAAAAA
* * *
77323485 AGAAACAAATTACCAGTAAAA
1 AGAAAAAAAATACCAGAAAAA
77323506 A
1 A
77323507 TAAATGAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.68, C:0.11, G:0.11, T:0.09
Consensus pattern (21 bp):
AGAAAAAAAATACCAGAAAAA
Found at i:77325708 original size:12 final size:13
Alignment explanation
Indices: 77325691--77325720 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
77325681 TACGAAATAA
77325691 AAATTTAAA-ATC
1 AAATTTAAATATC
77325703 AAATTTAAATATC
1 AAATTTAAATATC
77325716 AAATT
1 AAATT
77325721 ATGACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATTTAAATATC
Found at i:77331540 original size:70 final size:70
Alignment explanation
Indices: 77331447--77331586 Score: 235
Period size: 70 Copynumber: 2.0 Consensus size: 70
77331437 TTTACAATCT
* * * *
77331447 TTCAAAAATATCTTATTGGAATAATGAAAGATTAATCTTTGTTCCCTTTAACAAACACCGTCCAT
1 TTCAAAAATATCCTATTAGAATAATGAAAGAGTAATCTTTGTTCCCTTTAACAAACACCATCCAT
77331512 AATGA
66 AATGA
*
77331517 TTCAAAAATATCCTATTAGAATAATGAAAGAGTAATCTTTGTTCCCTTTAACAAACACCATCGAT
1 TTCAAAAATATCCTATTAGAATAATGAAAGAGTAATCTTTGTTCCCTTTAACAAACACCATCCAT
77331582 AATGA
66 AATGA
77331587 ACATAACAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (70 bp):
TTCAAAAATATCCTATTAGAATAATGAAAGAGTAATCTTTGTTCCCTTTAACAAACACCATCCAT
AATGA
Found at i:77332313 original size:11 final size:11
Alignment explanation
Indices: 77332297--77332330 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
77332287 AAATATTTTA
77332297 TATTTAATATT
1 TATTTAATATT
77332308 TATTTAATATT
1 TATTTAATATT
* *
77332319 AATTTGATATT
1 TATTTAATATT
77332330 T
1 T
77332331 GTCAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
TATTTAATATT
Found at i:77333340 original size:18 final size:17
Alignment explanation
Indices: 77333299--77333333 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
77333289 TCTTTAAGAA
77333299 GAAAAAAATACTCAAAC
1 GAAAAAAATACTCAAAC
77333316 GAAAAAAATACTCAAAC
1 GAAAAAAATACTCAAAC
77333333 G
1 G
77333334 GTAAAAAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.63, C:0.17, G:0.09, T:0.11
Consensus pattern (17 bp):
GAAAAAAATACTCAAAC
Found at i:77340976 original size:6 final size:6
Alignment explanation
Indices: 77340965--77340998 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
77340955 TTCAGAAAAC
77340965 AATAAA AATAAAA AATAAAA AATAAA AATAAA AA
1 AATAAA AAT-AAA AAT-AAA AATAAA AATAAA AA
77340999 CCAATCTGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 14 0.52
7 13 0.48
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:77340980 original size:7 final size:7
Alignment explanation
Indices: 77340968--77340998 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
77340958 AGAAAACAAT
77340968 AAAAATA
1 AAAAATA
77340975 AAAAATA
1 AAAAATA
77340982 AAAAAT-
1 AAAAATA
77340988 AAAAATA
1 AAAAATA
77340995 AAAA
1 AAAA
77340999 CCAATCTGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAATA
Found at i:77340983 original size:13 final size:12
Alignment explanation
Indices: 77340960--77340998 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
77340950 TCCCTTTCAG
*
77340960 AAAACAATAAAA
1 AAAAAAATAAAA
77340972 ATAAAAAATAAAA
1 A-AAAAAATAAAA
77340985 AATAAAAATAAAA
1 AA-AAAAATAAAA
77340998 A
1 A
77340999 CCAATCTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 2 0.08
13 22 0.92
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAAAATAAAA
Found at i:77352171 original size:3 final size:3
Alignment explanation
Indices: 77352163--77352204 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
77352153 TTTAGTGTGC
*
77352163 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
77352205 CCGAAGCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:77353886 original size:12 final size:12
Alignment explanation
Indices: 77353856--77353895 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
77353846 CAATCTAGGA
77353856 TTAGAATTT-GAT
1 TTAG-ATTTCGAT
*
77353868 TTTGATTTCGAT
1 TTAGATTTCGAT
77353880 TTAGATTTCGAT
1 TTAGATTTCGAT
77353892 TTAG
1 TTAG
77353896 GGTTATTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.53
Consensus pattern (12 bp):
TTAGATTTCGAT
Found at i:77354103 original size:16 final size:16
Alignment explanation
Indices: 77354078--77354114 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
77354068 ACTGATCTTT
77354078 ATTGTGTGTATCTGCC
1 ATTGTGTGTATCTGCC
* *
77354094 ATTGTTTGTATCTGTC
1 ATTGTGTGTATCTGCC
77354110 ATTGT
1 ATTGT
77354115 ATGAATGCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.22, T:0.51
Consensus pattern (16 bp):
ATTGTGTGTATCTGCC
Found at i:77354104 original size:64 final size:64
Alignment explanation
Indices: 77354032--77354162 Score: 235
Period size: 64 Copynumber: 2.0 Consensus size: 64
77354022 TATTTTGATG
*
77354032 TGTTTGTATCTGCCATTCTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCTGCCAT
1 TGTTTGTATCTGCCATTCTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
* *
77354096 TGTTTGTATCTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTCTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
77354160 TGT
1 TGT
77354163 ATGAATGTCA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.22, C:0.17, G:0.16, T:0.45
Consensus pattern (64 bp):
TGTTTGTATCTGCCATTCTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
Found at i:77354158 original size:34 final size:34
Alignment explanation
Indices: 77354056--77354160 Score: 89
Period size: 34 Copynumber: 3.2 Consensus size: 34
77354046 ATTCTATGAA
*
77354056 TGCCATTATCAAACTGATCTTTATTGTGTGTATC
1 TGCCATTATCAAACTGATCTTTATTGTGTATATC
* * * *
77354090 TGCCATTGT----TTGTATCTGTCA-T-TGTATGA-A
1 TGCCATTATCAAACTG-ATCT-TTATTGTGTAT-ATC
77354120 TGCCATTATCAAACTGATCTTTATTGTGTATATC
1 TGCCATTATCAAACTGATCTTTATTGTGTATATC
77354154 TGCCATT
1 TGCCATT
77354161 GTATGAATGT
Statistics
Matches: 52, Mismatches: 9, Indels: 20
0.64 0.11 0.25
Matches are distributed among these distances:
30 14 0.27
31 6 0.12
32 4 0.08
33 6 0.12
34 22 0.42
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (34 bp):
TGCCATTATCAAACTGATCTTTATTGTGTATATC
Found at i:77354165 original size:48 final size:48
Alignment explanation
Indices: 77354102--77354210 Score: 182
Period size: 48 Copynumber: 2.3 Consensus size: 48
77354092 CCATTGTTTG
*
77354102 TATCTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTA
1 TATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTA
* * *
77354150 TATCTGCCATTGTATGAATGTCATTATCAAATTGATGTTTATTGTGTA
1 TATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTA
77354198 TATCTGCCATTGT
1 TATCTGCCATTGT
77354211 TTGTATCTGC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.45
Consensus pattern (48 bp):
TATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTA
Found at i:77354194 original size:112 final size:110
Alignment explanation
Indices: 77354038--77354396 Score: 439
Period size: 124 Copynumber: 3.1 Consensus size: 110
77354028 GATGTGTTTG
* * * *
77354038 TATCTGCCATTCTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCTGCCATTGTTTGT
1 TATCTGCCATTGTATGAATGTCATTATCAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGT
* ** * * * *
77354103 ATCTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTA
66 ATCTGCCATTAAAT-TAT-ACATTATTAAACTGATGTTTATTGTGTA
*
77354150 TATCTGCCATTGTATGAATGTCATTATCAAATTGATGTTTATTGTGTATATCTGCCATTGTTTGT
1 TATCTGCCATTGTATGAATGTCATTATCAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGT
*
77354215 ATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTATGTA
66 ATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTA
* *
77354260 TATCTGCCATTGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATAT
1 TATCTGCCA----TTGTA--TG------AA-TGT-CATTATCAAACTGATGTTTATTGTGTATAT
77354325 CTGCCATTGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTA
52 CTGCCATTGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTA
77354384 TATCTGCCATTGT
1 TATCTGCCATTGT
77354397 TTGTATCTGC
Statistics
Matches: 216, Mismatches: 17, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
110 33 0.15
111 2 0.01
112 71 0.33
114 5 0.02
116 2 0.01
120 4 0.02
122 2 0.01
123 2 0.01
124 95 0.44
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (110 bp):
TATCTGCCATTGTATGAATGTCATTATCAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGT
ATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTA
Found at i:77354253 original size:62 final size:62
Alignment explanation
Indices: 77354171--77354465 Score: 554
Period size: 62 Copynumber: 4.8 Consensus size: 62
77354161 GTATGAATGT
* *
77354171 CATTATCAAATTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
1 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
*
77354233 CATTATTAAACTGATGTTTATTATGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
1 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
77354295 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
1 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
77354357 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
1 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
*
77354419 CATTATTAAACTGATGTTTATTGTGTATATCTGTCATTGTTTGTATC
1 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATC
77354466 CAGGCTCCTA
Statistics
Matches: 228, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 228 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (62 bp):
CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
Found at i:77354760 original size:15 final size:15
Alignment explanation
Indices: 77354740--77354783 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
77354730 GAAGAAAATA
77354740 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
*
77354755 TGTCTGGTAGTGAAG
1 TGTCTGGTAGTGATG
*
77354770 TATCTGGTAGTGAT
1 TGTCTGGTAGTGAT
77354784 AGTGATGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.18, C:0.07, G:0.36, T:0.39
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:77356495 original size:43 final size:43
Alignment explanation
Indices: 77356393--77356570 Score: 213
Period size: 43 Copynumber: 4.2 Consensus size: 43
77356383 TTGTTGATCA
* * * *
77356393 CATGCAGTGATTGTTGGAAAGCTATTGAGT-TTTTTTAATATG
1 CATGCAATGATAGTTGGAAAGCTGTTGACTATTTTTTAATATG
* * *
77356435 TATGCAGTGATTA-TTGGAAAGTTGTTGACTATTTTTTAATATG
1 CATGCAATGA-TAGTTGGAAAGCTGTTGACTATTTTTTAATATG
77356478 CATGCAATGATAGTTGGAAAGCTGTTGACTATTTTTTAATATG
1 CATGCAATGATAGTTGGAAAGCTGTTGACTATTTTTTAATATG
* * *
77356521 CATGCAATGATTGTTGG--TG-TGTTGCCTATTTTTTAATATG
1 CATGCAATGATAGTTGGAAAGCTGTTGACTATTTTTTAATATG
*
77356561 CATGCGATGA
1 CATGCAATGA
77356571 GTTTTTTTTA
Statistics
Matches: 121, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
40 29 0.24
41 1 0.01
42 25 0.21
43 66 0.55
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.43
Consensus pattern (43 bp):
CATGCAATGATAGTTGGAAAGCTGTTGACTATTTTTTAATATG
Found at i:77356562 original size:83 final size:84
Alignment explanation
Indices: 77356393--77356570 Score: 234
Period size: 83 Copynumber: 2.1 Consensus size: 84
77356383 TTGTTGATCA
* * * * *
77356393 CATGCAGTGATTGTTGGAAAGCTATTGAGTTTTTTTAATATGTATGCAGTGATTATTGGAAAGTT
1 CATGCAATGATAGTTGGAAAGCTATTGACTTTTTTTAATATGCATGCAATGATTATTGG-AAGTT
77356458 GTTGACTATTTTTTAATATG
65 GTTGACTATTTTTTAATATG
* * *
77356478 CATGCAATGATAGTTGGAAAGCTGTTGACTATTTTTTAATATGCATGCAATGATTGTTGG-TG-T
1 CATGCAATGATAGTTGGAAAGCTATTGACT-TTTTTTAATATGCATGCAATGATTATTGGAAGTT
*
77356541 GTTGCCTATTTTTTAATATG
65 GTTGACTATTTTTTAATATG
*
77356561 CATGCGATGA
1 CATGCAATGA
77356571 GTTTTTTTTA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
83 29 0.35
84 1 0.01
85 26 0.32
86 26 0.32
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.43
Consensus pattern (84 bp):
CATGCAATGATAGTTGGAAAGCTATTGACTTTTTTTAATATGCATGCAATGATTATTGGAAGTTG
TTGACTATTTTTTAATATG
Found at i:77357250 original size:22 final size:21
Alignment explanation
Indices: 77357225--77357271 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
77357215 AAGTTGGTGT
77357225 CCAAACCTAGCAAGAGGCTACC
1 CCAAACC-AGCAAGAGGCTACC
** *
77357247 CCAAGTCAGCAAGAGGGTACC
1 CCAAACCAGCAAGAGGCTACC
77357268 CCAA
1 CCAA
77357272 CTCAACAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.36, C:0.34, G:0.21, T:0.09
Consensus pattern (21 bp):
CCAAACCAGCAAGAGGCTACC
Found at i:77357257 original size:21 final size:21
Alignment explanation
Indices: 77357233--77357280 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
77357223 GTCCAAACCT
*
77357233 AGCAAGAGGCTACCCCAAGTC
1 AGCAAGAGGCTACCCCAACTC
*
77357254 AGCAAGAGGGTACCCCAACTC
1 AGCAAGAGGCTACCCCAACTC
*
77357275 AACAAG
1 AGCAAG
77357281 GTGCCCCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.31, G:0.23, T:0.08
Consensus pattern (21 bp):
AGCAAGAGGCTACCCCAACTC
Found at i:77357793 original size:56 final size:56
Alignment explanation
Indices: 77357702--77357813 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
77357692 TTATCATATT
* *
77357702 ATTTGTTATCCAACTGTTATCTTTTCTAACTAGCAGCCATGTATACCAACTGTTAA
1 ATTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
*
77357758 ATTTGTATAT-CAATTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
1 ATTTGT-TATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
77357814 GCAATTTGTA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
56 49 0.94
57 3 0.06
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (56 bp):
ATTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
Found at i:77358394 original size:20 final size:23
Alignment explanation
Indices: 77358369--77358415 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
77358359 TATCCATTTT
77358369 TTCTCTT-CTCCTT-T-TTCTTC
1 TTCTCTTCCTCCTTCTCTTCTTC
*
77358389 TTCTCTTCCTGCTTCTCTTCTTC
1 TTCTCTTCCTCCTTCTCTTCTTC
77358412 TTCT
1 TTCT
77358416 TTTTTTCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 5 0.22
22 1 0.04
23 10 0.43
ACGTcount: A:0.00, C:0.36, G:0.02, T:0.62
Consensus pattern (23 bp):
TTCTCTTCCTCCTTCTCTTCTTC
Found at i:77361056 original size:51 final size:50
Alignment explanation
Indices: 77360981--77361081 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 50
77360971 CTTCTCCTTA
* * *
77360981 CTTATCTTACATCACTTGTTTTGAAACACACAACATT-TGCAAAGCTAAAGC
1 CTTATCCTACATCACTCGTTTTGAAACA-A-AAAATTCTGCAAAGCTAAAGC
77361032 CTTATCCTACATCACTCGTTTTGAAACAAAAAATTGCTGCAAAGCTAAAG
1 CTTATCCTACATCACTCGTTTTGAAACAAAAAATT-CTGCAAAGCTAAAG
77361082 TATCCATTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
49 5 0.11
50 1 0.02
51 39 0.87
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.30
Consensus pattern (50 bp):
CTTATCCTACATCACTCGTTTTGAAACAAAAAATTCTGCAAAGCTAAAGC
Found at i:77362577 original size:19 final size:20
Alignment explanation
Indices: 77362532--77362577 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
77362522 GAGTTCTATA
77362532 TAAAAATTATAAAAAAACCT
1 TAAAAATTATAAAAAAACCT
* *
77362552 T-ACAATTATAAAAAAA-TT
1 TAAAAATTATAAAAAAACCT
77362570 TAAAAATT
1 TAAAAATT
77362578 CTATATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 2 0.09
19 19 0.86
20 1 0.05
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (20 bp):
TAAAAATTATAAAAAAACCT
Found at i:77363340 original size:13 final size:13
Alignment explanation
Indices: 77363322--77363382 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
77363312 CTTAAATTTT
77363322 TCAAAAGCACTTC
1 TCAAAAGCACTTC
* * *
77363335 TCAAAAGTATTTT
1 TCAAAAGCACTTC
* *
77363348 TCCATAGCACTTC
1 TCAAAAGCACTTC
* *
77363361 TCAAAAGCAATTT
1 TCAAAAGCACTTC
77363374 TCAAAAGCA
1 TCAAAAGCA
77363383 TTGCCAAACT
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:77363348 original size:26 final size:26
Alignment explanation
Indices: 77363317--77363382 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
77363307 AAACACTTAA
*
77363317 ATTTTTCAAAAGCACTTCTCAAAAGT
1 ATTTTTCAAAAGCACTTCTCAAAAGC
* *
77363343 ATTTTTCCATAGCACTTCTCAAAAGC
1 ATTTTTCAAAAGCACTTCTCAAAAGC
*
77363369 AATTTTCAAAAGCA
1 ATTTTTCAAAAGCA
77363383 TTGCCAAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (26 bp):
ATTTTTCAAAAGCACTTCTCAAAAGC
Found at i:77370433 original size:16 final size:18
Alignment explanation
Indices: 77370398--77370437 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
77370388 GAATACTTAT
77370398 TAAAATAAAATATAAGAG
1 TAAAATAAAATATAAGAG
77370416 TAAAATAAAATA-AA-AG
1 TAAAATAAAATATAAGAG
77370432 TAAAAT
1 TAAAAT
77370438 TCATATAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 8 0.36
17 2 0.09
18 12 0.55
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
TAAAATAAAATATAAGAG
Found at i:77375415 original size:21 final size:22
Alignment explanation
Indices: 77375386--77375432 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
77375376 CAGAAGGAGT
*
77375386 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
77375408 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
77375429 GAGT
1 GAGT
77375433 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:77384999 original size:14 final size:15
Alignment explanation
Indices: 77384973--77385001 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
77384963 GATTTAGCAC
77384973 TTGAAGTAAACGGGA
1 TTGAAGTAAACGGGA
77384988 TTGAAG-AAACGGGA
1 TTGAAGTAAACGGGA
77385002 GGACGTGTGA
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:0.41, C:0.07, G:0.34, T:0.17
Consensus pattern (15 bp):
TTGAAGTAAACGGGA
Found at i:77388923 original size:9 final size:9
Alignment explanation
Indices: 77388909--77388940 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
77388899 AACTTGGTGC
77388909 ATTTTGTTT
1 ATTTTGTTT
77388918 ATTTTGTTT
1 ATTTTGTTT
77388927 ATTTTGTTT
1 ATTTTGTTT
77388936 ATTTT
1 ATTTT
77388941 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:77393346 original size:9 final size:9
Alignment explanation
Indices: 77393332--77393363 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
77393322 AACTTGGTGC
77393332 ATTTTGTTT
1 ATTTTGTTT
77393341 ATTTTGTTT
1 ATTTTGTTT
77393350 ATTTTGTTT
1 ATTTTGTTT
77393359 ATTTT
1 ATTTT
77393364 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:77396041 original size:15 final size:16
Alignment explanation
Indices: 77396015--77396049 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
77396005 AAGAGAGAGA
77396015 AAAACAAACACTCAAC
1 AAAACAAACACTCAAC
77396031 AAAAC-AACACTCAAC
1 AAAACAAACACTCAAC
77396046 AAAA
1 AAAA
77396050 TTACATCTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.66, C:0.29, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAACAAACACTCAAC
Found at i:77396094 original size:44 final size:44
Alignment explanation
Indices: 77396031--77396124 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
77396021 AACACTCAAC
77396031 AAAACAACACTCAACAAAATTACATCTGCAATTAGATCGATAAG
1 AAAACAACACTCAACAAAATTACATCTGCAATTAGATCGATAAG
77396075 AAAACAACACTCAACAAAATTACATCTGCAATTAGATCGATAAG
1 AAAACAACACTCAACAAAATTACATCTGCAATTAGATCGATAAG
77396119 AAAACA
1 AAAACA
77396125 TACTCTTACA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.52, C:0.20, G:0.09, T:0.19
Consensus pattern (44 bp):
AAAACAACACTCAACAAAATTACATCTGCAATTAGATCGATAAG
Found at i:77399634 original size:21 final size:21
Alignment explanation
Indices: 77399610--77399651 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
77399600 GTTACCCTTG
*
77399610 ATTATAAGTTTTAATAATTTT
1 ATTATAAGTTCTAATAATTTT
* *
77399631 ATTATAGGTTCTAATTATTTT
1 ATTATAAGTTCTAATAATTTT
77399652 TTTTGACATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
ATTATAAGTTCTAATAATTTT
Found at i:77400766 original size:16 final size:17
Alignment explanation
Indices: 77400745--77400787 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
77400735 TTGAGACAAG
77400745 AATAAATTT-TTAATTA
1 AATAAATTTATTAATTA
77400761 AATAAATTTAATTAATTA
1 AATAAATTT-ATTAATTA
77400779 AA-AAATTTA
1 AATAAATTTA
77400788 AATTAATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.40
17 6 0.24
18 9 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAAATTTATTAATTA
Found at i:77400777 original size:18 final size:18
Alignment explanation
Indices: 77400745--77400795 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
77400735 TTGAGACAAG
77400745 AATAAATTT--TTAATTA
1 AATAAATTTAATTAATTA
77400761 AATAAATTTAATTAATTA
1 AATAAATTTAATTAATTA
77400779 AA-AAATTTAAATTAATT
1 AATAAATTT-AATTAATT
77400796 TGGAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.28
17 6 0.19
18 17 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATAAATTTAATTAATTA
Found at i:77404403 original size:27 final size:28
Alignment explanation
Indices: 77404367--77404426 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
77404357 TATTTTTATT
77404367 TGTTTCAAA-TTACATTTTAATCACTTA
1 TGTTTCAAAGTTACATTTTAATCACTTA
* * *
77404394 TGTTTGAAATGTTATATTTTAGTCACTTA
1 TGTTTCAAA-GTTACATTTTAATCACTTA
77404423 TGTT
1 TGTT
77404427 ATCATTTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 8 0.29
29 20 0.71
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (28 bp):
TGTTTCAAAGTTACATTTTAATCACTTA
Found at i:77409329 original size:26 final size:26
Alignment explanation
Indices: 77409296--77409350 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
77409286 GGTTATTAAC
77409296 TTAGTTAACTAATAATTAACTATACT
1 TTAGTTAACTAATAATTAACTATACT
77409322 TTAGTTAACTAATAATTAACTATACT
1 TTAGTTAACTAATAATTAACTATACT
77409348 TTA
1 TTA
77409351 ATAATAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.44
Consensus pattern (26 bp):
TTAGTTAACTAATAATTAACTATACT
Found at i:77410439 original size:88 final size:88
Alignment explanation
Indices: 77410257--77410454 Score: 222
Period size: 88 Copynumber: 2.2 Consensus size: 88
77410247 CTAATATACC
* *
77410257 ATCAATATACCAG-TTCCATAAACATAAGCCATCAAATTAAAGACATTTTTTCCATCATGATCAA
1 ATCAATATACCAGTTTCCATAAACACAAGCCATCAAATTAAAGACA--TTTTCCATCATGACCAA
* * *
77410321 ATATTCAATTTACACCTAATATGCG
64 ATATTCAATATACAACAAATATGCG
* * * *
77410346 ATCAATATACCAGTTTCCCATAAACACAAGCCATTC-AATTCAAGACA-TTTCTATTATGGCCAA
1 ATCAATATACCAGTTT-CCATAAACACAAGCCA-TCAAATTAAAGACATTTTCCATCATGACCAA
*
77410409 ATATTCAATATACAACAAATATGCT
64 ATATTCAATATACAACAAATATGCG
* *
77410434 ATCAATAAACCAATTTTCCAT
1 ATCAATATACC-AGTTTCCAT
77410455 TTTTATCATT
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
88 47 0.51
89 17 0.18
90 2 0.02
91 25 0.27
92 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (88 bp):
ATCAATATACCAGTTTCCATAAACACAAGCCATCAAATTAAAGACATTTTCCATCATGACCAAAT
ATTCAATATACAACAAATATGCG
Found at i:77414184 original size:69 final size:69
Alignment explanation
Indices: 77414105--77414243 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
77414095 TAATCTGTAC
77414105 ATTGTTTTTTCTTTTAAATTAATAGAAAGTAGCTCTTTTATTTACTTTATGCAATTCAATAAATA
1 ATTGTTTTTTCTTTTAAATTAATAGAAAGTAGCTCTTTTATTTACTTTATGCAATTCAATAAATA
77414170 ATAT
66 ATAT
77414174 ATTGTTTTTTCTTTTAAATTAATAGAAAGTAGCTCTTTTATTTACTTTATGCAATTCAATAAATA
1 ATTGTTTTTTCTTTTAAATTAATAGAAAGTAGCTCTTTTATTTACTTTATGCAATTCAATAAATA
77414239 ATAT
66 ATAT
77414243 A
1 A
77414244 CCCTTTTTTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (69 bp):
ATTGTTTTTTCTTTTAAATTAATAGAAAGTAGCTCTTTTATTTACTTTATGCAATTCAATAAATA
ATAT
Found at i:77423494 original size:66 final size:66
Alignment explanation
Indices: 77423388--77423766 Score: 616
Period size: 66 Copynumber: 5.7 Consensus size: 66
77423378 CAGGTTGACC
* *
77423388 TTGAGGAATCAAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTACAAAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
77423453 T
66 T
* * *
77423454 TTGAGGAATCCAAGAAAA-AGGAAAGTGCAAGGTTTGAATCTAATTTGCAAAAGAAGGAACTTGA
1 TTGAGGAATCCAA-AAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGA
77423518 GT
65 GT
* *
77423520 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCACAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
77423585 T
66 T
* * * *
77423586 TTGAGGAATCCAAGAAACAGGAAAGTGAAAGGTTTGAATCTACTTTCCACAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
77423651 T
66 T
**
77423652 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTACGCAAAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
77423717 T
66 T
*
77423718 TTGAGGAATCCAAAAAACAGGAAAGAGCAAGGTTTGAATCTACTTTGCA
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCA
77423767 CAGAAAGGAA
Statistics
Matches: 290, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
65 4 0.01
66 282 0.97
67 4 0.01
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (66 bp):
TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
T
Found at i:77423814 original size:21 final size:21
Alignment explanation
Indices: 77423775--77423826 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
77423765 CACAGAAAGG
* * *
77423775 AACTTCAGTTTCAGCAACTGC
1 AACTTGAGTTGCAGAAACTGC
*
77423796 AATTTGAGTTGCAGAAACTGC
1 AACTTGAGTTGCAGAAACTGC
*
77423817 AGCTTGAGTT
1 AACTTGAGTT
77423827 TGAGGAATCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (21 bp):
AACTTGAGTTGCAGAAACTGC
Found at i:77423910 original size:66 final size:66
Alignment explanation
Indices: 77423819--77423965 Score: 249
Period size: 66 Copynumber: 2.2 Consensus size: 66
77423809 GAAACTGCAG
*
77423819 CTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAGGA
1 CTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAGGA
77423884 A
66 A
* * * *
77423885 CTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGTACAAGAAGGA
1 CTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAGGA
77423950 A
66 A
77423951 CTTGAGTTTCAGGAA
1 CTTGAGTTTCAGGAA
77423966 CTGCAAGTTG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 76 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.22
Consensus pattern (66 bp):
CTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAGGA
A
Found at i:77423935 original size:174 final size:174
Alignment explanation
Indices: 77423639--77424004 Score: 518
Period size: 174 Copynumber: 2.1 Consensus size: 174
77423629 TTTCCACAAG
* * *** *
77423639 ATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTACGCAAAA
1 ATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTACGCAAAA
* * **
77423704 GATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGCAAGGTTTGAATCTACTTTGCAC-
66 GAAGCAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGCACA
*
77423768 AGAAAGGAACTTCAGTTTCAGCAACTGCAATTTGAGTTGCAGAAA
131 AG-AAGGAACTTCAGTTTCAGCAACTGCAAGTTGAGTTGCAGAAA
* * ** *
77423813 CTGCAGCTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAA
1 ATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTACGCAAAA
* *
77423878 GAAGGAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGTACA
66 GAAGCAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGCACA
* * *
77423943 AGAAGGAACTTGAGTTTCAGGAACTGCAAGTTGAGTTTCAGAAA
131 AGAAGGAACTTCAGTTTCAGCAACTGCAAGTTGAGTTGCAGAAA
*
77423987 ATGCAACTTGAGCTTGAG
1 ATGCAACTTGAGTTTGAG
77424005 AAAACAAAAG
Statistics
Matches: 167, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
174 165 0.99
175 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (174 bp):
ATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTACGCAAAA
GAAGCAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGCACA
AGAAGGAACTTCAGTTTCAGCAACTGCAAGTTGAGTTGCAGAAA
Found at i:77423978 original size:21 final size:21
Alignment explanation
Indices: 77423949--77424008 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
77423939 TACAAGAAGG
* *
77423949 AACTTGAGTTTCAGGAACTGC
1 AACTTGAGTTTCAGAAAATGC
*
77423970 AAGTTGAGTTTCAGAAAATGC
1 AACTTGAGTTTCAGAAAATGC
* *
77423991 AACTTGAGCTTGAGAAAA
1 AACTTGAGTTTCAGAAAA
77424009 CAAAAGAGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (21 bp):
AACTTGAGTTTCAGAAAATGC
Found at i:77424790 original size:33 final size:33
Alignment explanation
Indices: 77424742--77424870 Score: 222
Period size: 33 Copynumber: 3.9 Consensus size: 33
77424732 CAGGAGATCC
* * *
77424742 CCGTTGTTGACGATGAATCAATGAATAAACCTA
1 CCGTTATTGAAGATGAATCAATGAATAAACATA
77424775 CCGTTATTGAAGATGAATCAATGAATAAACATA
1 CCGTTATTGAAGATGAATCAATGAATAAACATA
77424808 CCGTTATTGAAGATGAATCAATGAATAAACATA
1 CCGTTATTGAAGATGAATCAATGAATAAACATA
*
77424841 CCGTTATTGATGATGAATCAATGAATAAAC
1 CCGTTATTGAAGATGAATCAATGAATAAAC
77424871 TTACTCCTGA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 92 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (33 bp):
CCGTTATTGAAGATGAATCAATGAATAAACATA
Found at i:77425445 original size:347 final size:347
Alignment explanation
Indices: 77424810--77425659 Score: 1477
Period size: 347 Copynumber: 2.4 Consensus size: 347
77424800 TAAACATACC
* *
77424810 GTTATTGAAGATGAATCAATGAATAAACATACCGTTATTGATGATGAATCAATGAATAAACTTAC
1 GTTATTGAA-ATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTAC
* *
77424875 TCCTGAAAATGAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCAAATACTATCTCAGGTTTG
65 TGCTGAAAATGAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTG
*
77424940 ACTAAAGGCTTTCTTGATGTCATTTGGAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAAC
130 ACTAAAGGCTTTCTTGATGTCATTTGAAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAAC
* * *
77425005 CACAGCAGCAGGCCATGCTGAGTTCACTGAGTACTACCATTTCAGAGGTGACATCTGCAGTAAGA
195 CACAGCAGCAGGCCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGA
*
77425070 TATATCTCAACATTCTTTCCTTTTA-TTTTATTGAGTAGAATTATTCTTTCCTTATCTCAACAAG
260 TATATCTCAACATTCTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAG
77425134 TTCCTGTGGTTCAGGAGATCCCT
325 TTCCTGTGGTTCAGGAGATCCCT
*
77425157 GTTATTGAGAATGAATCAATGAATAAACCTACCGTTAATGACGATGAATCAATGAATAAACTTAC
1 GTTATTGA-AATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTAC
*
77425222 TGCTGAAAAAGAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTG
65 TGCTGAAAATGAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTG
77425287 ACTAAAGGCTTTCTTGATGTCATTTGAAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAAC
130 ACTAAAGGCTTTCTTGATGTCATTTGAAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAAC
*
77425352 CACAGCAGCTGGCCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGA
195 CACAGCAGCAGGCCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGA
77425417 TATATCTCAACATTCTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAG
260 TATATCTCAACATTCTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAG
77425482 TTCCTGTGGTTCAGGAGATCCCT
325 TTCCTGTGGTTCAGGAGATCCCT
* * * *
77425505 GTTATTGACAATGAATCAATGAATAAACCTACCGTTATTGACGATGGATCAATAAATAGACTTAT
1 GTTATTGA-AATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTAC
* * * * *
77425570 TGCTGAAAATGAGCAGCTGAAGGTATTGTTAGATATTTTTTGCTTCGAATACTATCTTAGTTTTG
65 TGCTGAAAATGAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTG
77425635 ACTAAAGGCTTTCTTGATGTCATTT
130 ACTAAAGGCTTTCTTGATGTCATTT
77425660 TTAAACTTGG
Statistics
Matches: 477, Mismatches: 24, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
347 272 0.57
348 205 0.43
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (347 bp):
GTTATTGAAATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTACT
GCTGAAAATGAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTGA
CTAAAGGCTTTCTTGATGTCATTTGAAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAACC
ACAGCAGCAGGCCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGAT
ATATCTCAACATTCTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAGT
TCCTGTGGTTCAGGAGATCCCT
Found at i:77433039 original size:14 final size:14
Alignment explanation
Indices: 77433022--77433058 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
77433012 ATATTTACAA
*
77433022 TATTATCTATTATG
1 TATTATATATTATG
77433036 TATTATATATTATG
1 TATTATATATTATG
77433050 TATT-TATAT
1 TATTATATAT
77433059 AATTTCCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (14 bp):
TATTATATATTATG
Found at i:77437261 original size:2 final size:2
Alignment explanation
Indices: 77437254--77437287 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
77437244 TATAAATATA
77437254 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
77437288 TTAAATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:77438535 original size:21 final size:21
Alignment explanation
Indices: 77438511--77438553 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
77438501 TACACCACAC
*
77438511 AAACGCACCTAGCCTAACCAT
1 AAACGCACCTAGACTAACCAT
77438532 AAACGCACCTAGACTAACCAT
1 AAACGCACCTAGACTAACCAT
77438553 A
1 A
77438554 TGATATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.35, G:0.09, T:0.14
Consensus pattern (21 bp):
AAACGCACCTAGACTAACCAT
Found at i:77442845 original size:20 final size:20
Alignment explanation
Indices: 77442822--77442860 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
77442812 TAAATGTGTT
*
77442822 AAAATTATTAATTAAAATAA
1 AAAAATATTAATTAAAATAA
**
77442842 AAAAATATTTTTTAAAATA
1 AAAAATATTAATTAAAATA
77442861 CTAATTACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATATTAATTAAAATAA
Found at i:77445203 original size:13 final size:12
Alignment explanation
Indices: 77445184--77445256 Score: 62
Period size: 13 Copynumber: 6.0 Consensus size: 12
77445174 TCCAACAACT
77445184 TCACTAAACCAC
1 TCACTAAACCAC
77445196 TACACTAAACCAC
1 T-CACTAAACCAC
77445209 TCTACTAAACCA-
1 TC-ACTAAACCAC
*
77445221 TC-C-CAACCAC
1 TCACTAAACCAC
* *
77445231 CCTACTAAATCAC
1 TC-ACTAAACCAC
77445244 TCCACTAAACCAC
1 T-CACTAAACCAC
77445257 ACCAACCACT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
9 5 0.10
10 2 0.04
12 5 0.10
13 35 0.73
14 1 0.02
ACGTcount: A:0.40, C:0.42, G:0.00, T:0.18
Consensus pattern (12 bp):
TCACTAAACCAC
Found at i:77445229 original size:35 final size:35
Alignment explanation
Indices: 77445190--77445271 Score: 105
Period size: 35 Copynumber: 2.3 Consensus size: 35
77445180 AACTTCACTA
* *
77445190 AACCACTACACTAAACCACTCTACTAAACCATC-CC
1 AACCACTCCACTAAACCACTCCACTAAACCA-CACC
*
77445225 AACCAC-CCTACTAAATCACTCCACTAAACCACACC
1 AACCACTCC-ACTAAACCACTCCACTAAACCACACC
77445260 AACCACTCCACT
1 AACCACTCCACT
77445272 TGCCTACAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 2 0.05
35 37 0.90
36 2 0.05
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (35 bp):
AACCACTCCACTAAACCACTCCACTAAACCACACC
Found at i:77445666 original size:3 final size:3
Alignment explanation
Indices: 77445653--77445731 Score: 60
Period size: 3 Copynumber: 26.3 Consensus size: 3
77445643 GTTGAGAGAT
* *
77445653 TTA TT- TTA TTA TTA TT- TTT TTA CTA TTA TT- TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
77445696 TTA TT- TCTCA TGTA TATA TTA TTA TTA -TA TTA TTA T
1 TTA TTA T-T-A T-TA T-TA TTA TTA TTA TTA TTA TTA T
77445732 ATCATTATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
2 8 0.13
3 47 0.75
4 6 0.10
5 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:77445738 original size:11 final size:10
Alignment explanation
Indices: 77445676--77445739 Score: 51
Period size: 11 Copynumber: 6.3 Consensus size: 10
77445666 ATTTTTTTAC
*
77445676 TATTATTTA-
1 TATTATATAT
77445685 TATTAT-TAT
1 TATTATATAT
* *
77445694 TATTATTTCT
1 TATTATATAT
*
77445704 CATGTATATAT
1 TAT-TATATAT
77445715 TATTATTATAT
1 TATTA-TATAT
77445726 TATTATATCAT
1 TATTATAT-AT
77445737 TAT
1 TAT
77445740 ATCCAACCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
8 2 0.04
9 12 0.27
10 9 0.20
11 22 0.49
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (10 bp):
TATTATATAT
Found at i:77445740 original size:29 final size:29
Alignment explanation
Indices: 77445658--77445741 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
77445648 GAGATTTATT
* * *
77445658 TTATTATTATTTTTTTACTATTATT-TATA
1 TTATTATTATATTATTA-TATCATTATATA
*
77445687 TTATTA-T-TATTATT-TCTCATGTATATA
1 TTATTATTATATTATTATATCAT-TATATA
77445714 TTATTATTATATTATTATATCATTATAT
1 TTATTATTATATTATTATATCATTATAT
77445742 CCAACCCAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
25 4 0.09
26 1 0.02
27 15 0.33
28 2 0.04
29 18 0.40
30 5 0.11
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (29 bp):
TTATTATTATATTATTATATCATTATATA
Found at i:77446708 original size:7 final size:8
Alignment explanation
Indices: 77446696--77446729 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
77446686 ATAATAAAAT
77446696 ATAT-AAA
1 ATATCAAA
77446703 ATAT-AAA
1 ATATCAAA
77446710 ATATCAAA
1 ATATCAAA
77446718 ATATCAAA
1 ATATCAAA
77446726 ATAT
1 ATAT
77446730 TAGAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (8 bp):
ATATCAAA
Found at i:77446712 original size:24 final size:24
Alignment explanation
Indices: 77446685--77446740 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
77446675 TAATGATGTG
*
77446685 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
*
77446709 AAT-ATCAAAATATCAAAATATTAG
1 AATAAT-AAAATATCAAAATATTAA
77446733 AATAATAA
1 AATAATAA
77446741 TAATTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 8 0.30
24 17 0.63
25 2 0.07
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:77446736 original size:16 final size:15
Alignment explanation
Indices: 77446689--77446736 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
77446679 GATGTGAATA
77446689 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
*
77446705 ATAAAATATCAAAAT
1 ATAAAATATTAAAAT
*
77446720 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
77446736 A
1 A
77446737 ATAATAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 7 0.25
16 21 0.75
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:77446952 original size:22 final size:24
Alignment explanation
Indices: 77446889--77446953 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
77446879 CGTGATAATA
*
77446889 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
77446914 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
77446937 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
77446954 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:77447002 original size:23 final size:24
Alignment explanation
Indices: 77446974--77447107 Score: 75
Period size: 25 Copynumber: 5.5 Consensus size: 24
77446964 AGAAAAAAAT
77446974 ATATATAAATAATATAATATTAAAG
1 ATATAT-AATAATATAATATTAAAG
* * * *
77446999 ATATATACATAAAATAGTATAAAAT
1 ATATATA-ATAATATAATATTAAAG
77447024 ATATATATACGTAATATAGA-ATTTAAA-
1 ATATATA-A--TAATATA-ATA-TTAAAG
** *
77447051 ATATA-CCTAATAT-AT-TAAAAG
1 ATATATAATAATATAATATTAAAG
77447072 A-ATATATATAATATAATATT-AAG
1 ATATATA-ATAATATAATATTAAAG
*
77447095 AAATATAATAATA
1 ATATATAATAATA
77447108 ACAAAAAAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 26
0.67 0.11 0.21
Matches are distributed among these distances:
20 7 0.08
21 2 0.02
22 6 0.07
23 18 0.22
24 7 0.08
25 27 0.33
27 12 0.14
28 4 0.05
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (24 bp):
ATATATAATAATATAATATTAAAG
Found at i:77447010 original size:25 final size:25
Alignment explanation
Indices: 77446974--77447107 Score: 86
Period size: 23 Copynumber: 5.6 Consensus size: 25
77446964 AGAAAAAAAT
*
77446974 ATATATAAATAATATAATATTAAAG
1 ATATATACATAATATAATATTAAAG
* * * *
77446999 ATATATACATAAAATAGTATAAAATAT
1 ATATATACATAATATAATAT-TAA-AG
* *
77447026 ATATATACGTAATATAGA-ATTTAA-
1 ATATATACATAATATA-ATATTAAAG
* *
77447050 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATACATAATATAATATTAAAG
*
77447072 A-ATATATATAATATAATATT-AAG
1 ATATATACATAATATAATATTAAAG
*
77447095 AAATATA-ATAATA
1 ATATATACATAATA
77447108 ACAAAAAAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 24 0.28
24 7 0.08
25 18 0.21
26 3 0.04
27 17 0.20
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATACATAATATAATATTAAAG
Found at i:77447054 original size:27 final size:27
Alignment explanation
Indices: 77446969--77447055 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
77446959 CATGTAGAAA
*
77446969 AAAATATATATAAATAATAT--AATATT
1 AAAATATATATACATAATATAGAAT-TT
* * * *
77446995 -AAAGATATATACATAAAATAGTA-TA
1 AAAATATATATACATAATATAGAATTT
*
77447020 AAATATATATATACGTAATATAGAATTT
1 AAA-ATATATATACATAATATAGAATTT
77447048 AAAATATA
1 AAAATATA
77447056 CCTAATATAT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
25 17 0.37
26 2 0.04
27 23 0.50
28 4 0.09
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (27 bp):
AAAATATATATACATAATATAGAATTT
Found at i:77447675 original size:30 final size:30
Alignment explanation
Indices: 77447641--77447761 Score: 172
Period size: 30 Copynumber: 4.0 Consensus size: 30
77447631 AATGGAGCAA
*
77447641 GTGTGGCTAGTGGATTTGGTGGTGAAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGAAAAAG
*
77447671 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGAAAAAG
* *
77447701 GAGTGGCTAGTAGAGTTGGTGGT-AGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGA-AAAAG
* *
77447731 GTGTGGCTAGTGGAGTTGATGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGAAAAAG
77447761 G
1 G
77447762 CTAAGATTTA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
30 80 1.00
ACGTcount: A:0.24, C:0.03, G:0.46, T:0.26
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGAAAAAG
Found at i:77447707 original size:60 final size:60
Alignment explanation
Indices: 77447643--77447761 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
77447633 TGGAGCAAGT
* * *
77447643 GTGGCTAGTGGATTTGGTGGT-GAAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
1 GTGGCTAGTAGAGTTGGTGGTAG-AAAAGGTGTGGCTAGTGGAGTTGATGGTGGAAAAGGA
77447703 GTGGCTAGTAGAGTTGGTGGTAGAAAAGGTGTGGCTAGTGGAGTTGATGGTGGAAAAGG
1 GTGGCTAGTAGAGTTGGTGGTAGAAAAGGTGTGGCTAGTGGAGTTGATGGTGGAAAAGG
77447762 CTAAGATTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 54 0.98
61 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.46, T:0.26
Consensus pattern (60 bp):
GTGGCTAGTAGAGTTGGTGGTAGAAAAGGTGTGGCTAGTGGAGTTGATGGTGGAAAAGGA
Found at i:77448653 original size:15 final size:15
Alignment explanation
Indices: 77448620--77448667 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
77448610 TTGATTTTTT
* *
77448620 AAAAAGCAGAATTTG
1 AAAAAGCAAAAATTG
*
77448635 -AAAAGCATAAATTG
1 AAAAAGCAAAAATTG
*
77448649 AAAAAACAAAAATTG
1 AAAAAGCAAAAATTG
77448664 AAAA
1 AAAA
77448668 TACCTCAGCG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.17
Consensus pattern (15 bp):
AAAAAGCAAAAATTG
Found at i:77448782 original size:89 final size:87
Alignment explanation
Indices: 77448652--77449149 Score: 682
Period size: 89 Copynumber: 5.8 Consensus size: 87
77448642 TAAATTGAAA
* *
77448652 AAACAAAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCCCAATATGAGTTGAT
1 AAACAAAAATCGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
77448717 TTTTTTGAAGAGCAGAAATTGG
66 TTTTTTGAAGAGCAGAAATTGG
*
77448739 AAAGCAAAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTG
1 AAA-CAAAAATCGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
77448804 ATTTTTTTGAAGAGCAGAAATT-G
64 ATTTTTTTGAAGAGCAGAAATTGG
* * * * *
77448827 AAA-ATACATC----A-GCGT--GC---CCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGAT
1 AAACAAAAATCGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
77448881 TTTTTTGAAGAGCAGAAATTGAA
66 TTTTTTGAAGAGCAGAAATTG-G
* * * * *
77448904 AAACATAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
1 AAACAAAAATCGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
77448969 TTTTTTTGAAGAGCAGAAATTGG
65 TTTTTTTGAAGAGCAGAAATTGG
*
77448992 AAAGCAGAAATCGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAA-CAAAAATCGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
77449057 TTTTTTTGAAGAGCAGAAATT-G
65 TTTTTTTGAAGAGCAGAAATTGG
* *
77449079 AAAAACAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG-TG
1 AAACA-AAAATCGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
77449143 ATTTTTT
64 ATTTTTT
77449150 AAGAGAAATG
Statistics
Matches: 365, Mismatches: 27, Indels: 38
0.85 0.06 0.09
Matches are distributed among these distances:
75 55 0.15
77 3 0.01
78 5 0.01
79 2 0.01
81 2 0.01
82 1 0.00
83 2 0.01
85 2 0.01
86 6 0.02
87 37 0.10
88 118 0.32
89 132 0.36
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (87 bp):
AAACAAAAATCGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTGAAGAGCAGAAATTGG
Found at i:77448878 original size:75 final size:75
Alignment explanation
Indices: 77448741--77448909 Score: 286
Period size: 75 Copynumber: 2.3 Consensus size: 75
77448731 GAAATTGGAA
* * *
77448741 AGCAAAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAT
1 AGCAGAAATTGAAAATACATCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAT
77448806 TTTTTTGAAG
66 TTTTTTGAAG
* *
77448816 AGCAGAAATTGAAAATACATCAGCGTGCCCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGAT
1 AGCAGAAATTGAAAATACATCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAT
77448881 TTTTTTGAAG
66 TTTTTTGAAG
77448891 AGCAGAAATTGAAAA-ACAT
1 AGCAGAAATTGAAAATACAT
77448910 AAATTGAAAT
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
74 4 0.04
75 85 0.96
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (75 bp):
AGCAGAAATTGAAAATACATCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAT
TTTTTTGAAG
Found at i:77448928 original size:164 final size:161
Alignment explanation
Indices: 77448658--77449149 Score: 723
Period size: 164 Copynumber: 2.9 Consensus size: 161
77448648 GAAAAAACAA
*
77448658 AAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCCCAATATGAGTTGATTTTTTT
1 AAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * *
77448723 GAAGAGCAGAAATTGGAAAGCAAAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCT
66 GAAGAGCAGAAATTGAAAAAC-AAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCT
*
77448788 CTCGCAATATAAGTTGATTTTTTTGAAGAGCAG
130 CTCGCAATATGAG-TGATTTTTTTGAAGAGCAG
* *
77448821 AAATTGAAAATACATCAGCGTGCCCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * *
77448886 TGAAGAGCAGAAATTGAAAAACATAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACC
65 TGAAGAGCAGAAATTGAAAAACA-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACC
77448951 TCTCGCAATATGAGCTGATTTTTTTGAAGAGCAG
129 TCTCGCAATATGAG-TGATTTTTTTGAAGAGCAG
77448985 AAATTGGAAAGCAGAAATCGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAA-T------------T-GAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATAT
77449050 GAGTTGATTTTTTTGAAGAGCAGAAATTGAAAAACAAAATTGAAAATACCTCAGCGTGCCCTGAG
52 GAGTTGATTTTTTTGAAGAGCAGAAATTGAAAAACAAAATTGAAAATACCTCAGCGTGCCCTGAG
77449115 GCTCAACTCACCTCTCGCAATATGAGTGATTTTTT
117 GCTCAACTCACCTCTCGCAATATGAGTGATTTTTT
77449150 AAGAGAAATG
Statistics
Matches: 297, Mismatches: 16, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
163 22 0.07
164 132 0.44
165 1 0.00
175 9 0.03
176 52 0.18
177 65 0.22
178 16 0.05
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (161 bp):
AAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GAAGAGCAGAAATTGAAAAACAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTC
TCGCAATATGAGTGATTTTTTTGAAGAGCAG
Found at i:77449208 original size:32 final size:32
Alignment explanation
Indices: 77449162--77449222 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
77449152 GAGAAATGAA
77449162 AGCAGAAATCAAAAA-AAACATTGAAAATAAAT
1 AGCAGAAATCAAAAACAAA-ATTGAAAATAAAT
*
77449194 AGCAGAAATGAAAAACAAAATTGAAAATA
1 AGCAGAAATCAAAAACAAAATTGAAAATA
77449223 CCTCAGCGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 24 0.89
33 3 0.11
ACGTcount: A:0.66, C:0.08, G:0.11, T:0.15
Consensus pattern (32 bp):
AGCAGAAATCAAAAACAAAATTGAAAATAAAT
Found at i:77449472 original size:13 final size:13
Alignment explanation
Indices: 77449454--77449479 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77449444 TTTTGAAGAG
77449454 CAGAAATTGAAAA
1 CAGAAATTGAAAA
77449467 CAGAAATTGAAAA
1 CAGAAATTGAAAA
77449480 TACCTCAGCG
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:0.62, C:0.08, G:0.15, T:0.15
Consensus pattern (13 bp):
CAGAAATTGAAAA
Found at i:77449519 original size:88 final size:87
Alignment explanation
Indices: 77449194--77449641 Score: 755
Period size: 87 Copynumber: 5.2 Consensus size: 87
77449184 GAAAATAAAT
77449194 AGCAGAAA-TGAAAAACA-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCG
1 AGCAGAAATTG-AAAACAGAAATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCG
77449257 CAATATGAGTTGATTTTTTTGAAG
64 CAATATGAGTTGATTTTTTTGAAG
* *
77449281 AGCAAAAATTGAAAA-A-AAATTG-AAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCA
1 AGCAGAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCA
*
77449343 ATATGAGCTGATTTTTTTGAAG
66 ATATGAGTTGATTTTTTTGAAG
*
77449365 AGCAGAAATTGAAAACAGAAATCGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCA
1 AGCAGAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCA
77449430 ATATGAGTTGATTTTTTTGAAG
66 ATATGAGTTGATTTTTTTGAAG
77449452 AGCAGAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGC
1 AGCAGAAATTGAAAACAGAAATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGC
77449517 AATATGAGTTGATTTTTTTGAAG
65 AATATGAGTTGATTTTTTTGAAG
* *
77449540 AGCA-AAATTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGC
1 AGCAGAAATTG-AAAACAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGC
*
77449604 AATATGAGCTGATTTTTTTGAAG
65 AATATGAGTTGATTTTTTTGAAG
77449627 AGCAGAAATTGAAAA
1 AGCAGAAATTGAAAA
77449642 TACCTCAGCT
Statistics
Matches: 343, Mismatches: 11, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
84 59 0.17
85 16 0.05
86 12 0.03
87 169 0.49
88 87 0.25
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (87 bp):
AGCAGAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTGAAG
Found at i:77449574 original size:175 final size:172
Alignment explanation
Indices: 77449194--77449641 Score: 760
Period size: 175 Copynumber: 2.6 Consensus size: 172
77449184 GAAAATAAAT
77449194 AGCAGAAA-TGAAAAACA-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCG
1 AGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCG
* *
77449257 CAATATGAGTTGATTTTTTTGAAGAGCAAAAATTGAAAAAAAATTGAAATACCTCAGCGTGTCTG
65 CAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAAAAAATTGAAATACCTCAGCGTGCCTG
77449322 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAG
130 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAG
*
77449365 AGCAGAAATTG-AAAACAGAAATCGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGC
1 AGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGC
77449429 AATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGCC
66 AATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAA-A-AAATTG-AAATACCTCAGCGTG-C
*
77449494 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAG
127 CTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAG
* *
77449540 AGCA-AAATTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGC
1 AGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGC
*
77449604 AATATGAGCTGATTTTTTTGAAGAGCAGAAATTGAAAA
66 AATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAA
77449642 TACCTCAGCT
Statistics
Matches: 262, Mismatches: 8, Indels: 10
0.94 0.03 0.04
Matches are distributed among these distances:
171 75 0.29
172 24 0.09
173 6 0.02
174 21 0.08
175 136 0.52
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (172 bp):
AGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAAAAAATTGAAATACCTCAGCGTGCCTGA
GGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAG
Found at i:77469412 original size:4 final size:4
Alignment explanation
Indices: 77469405--77469438 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
77469395 TTATATTAAT
77469405 TAAA TAAA GTAAA TAAA TAAA TAAAA TAAA TAAA
1 TAAA TAAA -TAAA TAAA TAAA T-AAA TAAA TAAA
77469439 GACAAATGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:77469419 original size:9 final size:9
Alignment explanation
Indices: 77469405--77469439 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
77469395 TTATATTAAT
77469405 TAAATAAAG
1 TAAATAAAG
77469414 TAAATAAA-
1 TAAATAAAG
*
77469422 TAAATAAAA
1 TAAATAAAG
77469431 TAAATAAAG
1 TAAATAAAG
77469440 ACAAATGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (9 bp):
TAAATAAAG
Found at i:77469421 original size:13 final size:14
Alignment explanation
Indices: 77469405--77469439 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
77469395 TTATATTAAT
77469405 TAAATAAAGT-AAA
1 TAAATAAAGTAAAA
77469418 TAAATAAA-TAAAA
1 TAAATAAAGTAAAA
77469431 TAAATAAAG
1 TAAATAAAG
77469440 ACAAATGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.05
13 19 0.95
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (14 bp):
TAAATAAAGTAAAA
Found at i:77469583 original size:16 final size:16
Alignment explanation
Indices: 77469535--77469588 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
77469525 ATTTACTATT
77469535 TATAA-AAGATATTTA
1 TATAATAAGATATTTA
*
77469550 T-TAATTAAG-TAATTA
1 TATAA-TAAGATATTTA
*
77469565 TATTATAAGATATTTA
1 TATAATAAGATATTTA
77469581 TATAATAA
1 TATAATAA
77469589 ATAAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 3 0.10
15 11 0.35
16 17 0.55
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
TATAATAAGATATTTA
Found at i:77471322 original size:18 final size:18
Alignment explanation
Indices: 77471266--77471381 Score: 108
Period size: 18 Copynumber: 6.4 Consensus size: 18
77471256 TAAATAAAGG
* * *
77471266 TACTAAATACATGACTGC
1 TACTGAATAAATGACTGT
* * * *
77471284 TATTGAATAATTAACTAT
1 TACTGAATAAATGACTGT
*
77471302 TACTAAATAAATGACTGT
1 TACTGAATAAATGACTGT
77471320 TACTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
* *
77471338 TATTGAATAACTGACTGT
1 TACTGAATAAATGACTGT
* *
77471356 TACTGAACAATTGA-TCGT
1 TACTGAATAAATGACT-GT
77471374 TACTGAAT
1 TACTGAAT
77471382 GATATTGATA
Statistics
Matches: 78, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
17 1 0.01
18 77 0.99
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:77471359 original size:54 final size:54
Alignment explanation
Indices: 77471266--77471381 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 54
77471256 TAAATAAAGG
* * * *
77471266 TACTAAATACATGACTGCTATTGAATAATTAACTATTACTAAATAAATGA-CTGT
1 TACTGAATAAATGACTGCTATTGAATAACTAACTATTACTAAACAAATGATC-GT
* * * * *
77471320 TACTGAATAAATGACTGTTATTGAATAACTGACTGTTACTGAACAATTGATCGT
1 TACTGAATAAATGACTGCTATTGAATAACTAACTATTACTAAACAAATGATCGT
77471374 TACTGAAT
1 TACTGAAT
77471382 GATATTGATA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 51 0.98
55 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (54 bp):
TACTGAATAAATGACTGCTATTGAATAACTAACTATTACTAAACAAATGATCGT
Found at i:77479172 original size:16 final size:16
Alignment explanation
Indices: 77479151--77479184 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
77479141 AATATATTGT
*
77479151 AAAATGTATTTTTAAC
1 AAAATGTACTTTTAAC
77479167 AAAATGTACTTTTAAC
1 AAAATGTACTTTTAAC
77479183 AA
1 AA
77479185 TTAAATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (16 bp):
AAAATGTACTTTTAAC
Found at i:77479887 original size:114 final size:113
Alignment explanation
Indices: 77479655--77479948 Score: 295
Period size: 114 Copynumber: 2.6 Consensus size: 113
77479645 AGATGGAGCT
* * * * * *
77479655 TTAGCGGCGTTTTTAAAAAAGCGCCGCAATAGGTCGACCTTTAGCAGCG-TTTTTTAAAAACACC
1 TTAGCGGCGTTTTCAAAAAA-CGCCGCAATAGATCAAACTTTAGCGGCGTTTTTTTAAAAACGCC
* * * * * **
77479719 GCTAAAAGGTTAAGCAAAACGACATCATTTTACATGAGCTTCATTGGCA
65 GATAAAACGTTAAGCAAAACGACATCATTTTAAATGAACTTCAATGAAA
* * * *
77479768 GTAGCGGCGTTTTCCCAAAAACACCGCAATAGATCAAACTTTAGCGGCGTTTTTTTCTAAAACGC
1 TTAGCGGCGTTTT-CAAAAAACGCCGCAATAGATCAAACTTTAGCGGCGTTTTTTT-AAAAACGC
* * *
77479833 CGAT-AAACGTTAAGCAAAACTACGTCGTTTTAAATGAACTTCAATGAAA
64 CGATAAAACGTTAAGCAAAACGACATCATTTTAAATGAACTTCAATGAAA
* * * * * *
77479882 TTAGCGGCGCTTTACTAAAAACGCCACAATAGCTCACACTTTAGCGGCATTTTTGTTAAAAACGC
1 TTAGCGGCG-TTTTCAAAAAACGCCGCAATAGATCAAACTTTAGCGGCGTTTTT-TTAAAAACGC
77479947 CG
64 CG
77479949 CTATAGGTTG
Statistics
Matches: 147, Mismatches: 29, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
113 35 0.24
114 98 0.67
115 14 0.10
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (113 bp):
TTAGCGGCGTTTTCAAAAAACGCCGCAATAGATCAAACTTTAGCGGCGTTTTTTTAAAAACGCCG
ATAAAACGTTAAGCAAAACGACATCATTTTAAATGAACTTCAATGAAA
Found at i:77480098 original size:156 final size:156
Alignment explanation
Indices: 77479808--77480105 Score: 379
Period size: 156 Copynumber: 1.9 Consensus size: 156
77479798 AGATCAAACT
* * *
77479808 TTAGCGGCGTTTTTTTCTAAAACGCCGATAAACGTTAAGCAAAACTACGTCGTTTTAAATGAACT
1 TTAGCGGCGTTTTTGTCAAAAACGCCGATAAACGTTAAGCAAAACTACGTCATTTTAAATGAACT
* *
77479873 TCAATGAAATTAGCGGCGCTTTACTAAAAACGCCACAATAGCTCACACTTTAGCGGCATTTTTGT
66 TCAATGAAATTAGCGGCGCTTTACTAAAAACGCCACAATAGATCACACTTTAACGGCATTTTTGT
*
77479938 TAAAAACGCCGCTATAGGTTGCTCCA
131 TAAAAACACCGCTATAGGTTGCTCCA
* * ** * *
77479964 TTAGCGGCGTTTTTGT-AAAAACGCCGCTAAAAGGTTAAGCAGCACGT-CGTCATTTTAAATTAG
1 TTAGCGGCGTTTTTGTCAAAAACGCCGAT-AAACGTTAAGCAAAAC-TACGTCATTTTAAATGAA
** * * *
77480027 CTTCAATGGCATTAGCGGCGCTTTACTAAAAACGCCGCAATATATCA-ATCTTTAACGGCGTTTT
64 CTTCAATGAAATTAGCGGCGCTTTACTAAAAACGCCACAATAGATCACA-CTTTAACGGCATTTT
77480091 T-TGTAAAAACACCGC
128 TGT-TAAAAACACCGC
77480106 GAAAATATTA
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
155 12 0.10
156 108 0.89
157 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (156 bp):
TTAGCGGCGTTTTTGTCAAAAACGCCGATAAACGTTAAGCAAAACTACGTCATTTTAAATGAACT
TCAATGAAATTAGCGGCGCTTTACTAAAAACGCCACAATAGATCACACTTTAACGGCATTTTTGT
TAAAAACACCGCTATAGGTTGCTCCA
Found at i:77480785 original size:14 final size:14
Alignment explanation
Indices: 77480759--77480802 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
77480749 TTTAAGGGTT
77480759 ATGATTTAGGTTTG
1 ATGATTTAGGTTTG
* *
77480773 ATGATTTATGTTTT
1 ATGATTTAGGTTTG
*
77480787 ATGATTGAGGGTTTG
1 ATGATTTA-GGTTTG
77480802 A
1 A
77480803 GGTTTATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (14 bp):
ATGATTTAGGTTTG
Found at i:77480851 original size:7 final size:7
Alignment explanation
Indices: 77480841--77480880 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
77480831 AGGGTTGAAG
77480841 GGTTAGT
1 GGTTAGT
77480848 GGTTAGT
1 GGTTAGT
77480855 GGTTAGT
1 GGTTAGT
77480862 GG-TAGT
1 GGTTAGT
77480868 GGTTAGT
1 GGTTAGT
77480875 GGTTAG
1 GGTTAG
77480881 GATTAAGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.40
Consensus pattern (7 bp):
GGTTAGT
Found at i:77480869 original size:13 final size:13
Alignment explanation
Indices: 77480841--77480877 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
77480831 AGGGTTGAAG
77480841 GGTTAGTGGTTAGT
1 GGTTAGTGG-TAGT
77480855 GGTTAGTGGTAGT
1 GGTTAGTGGTAGT
77480868 GGTTAGTGGT
1 GGTTAGTGGT
77480878 TAGGATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.14, C:0.00, G:0.46, T:0.41
Consensus pattern (13 bp):
GGTTAGTGGTAGT
Found at i:77481938 original size:16 final size:16
Alignment explanation
Indices: 77481917--77481968 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
77481907 TTTGGTTCGC
77481917 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
77481933 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
77481949 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
77481965 TGTA
1 TGTA
77481969 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:77482015 original size:45 final size:44
Alignment explanation
Indices: 77481949--77482043 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
77481939 GGATTAGAGG
* *
77481949 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
77481994 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
77482038 TGTAAT
1 TGTAAT
77482044 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:77482226 original size:18 final size:17
Alignment explanation
Indices: 77482205--77482239 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
77482195 TTATTATTTA
*
77482205 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
77482223 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
77482240 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:77482233 original size:28 final size:27
Alignment explanation
Indices: 77482163--77482235 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
77482153 TTTATTATCA
*
77482163 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
77482191 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
77482218 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
77482236 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:77482373 original size:18 final size:17
Alignment explanation
Indices: 77482352--77482386 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
77482342 TTATTATTAA
*
77482352 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
77482370 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
77482387 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:77482398 original size:147 final size:149
Alignment explanation
Indices: 77482124--77482398 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
77482114 ATGATTATTG
*
77482124 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
77482189 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
77482254 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
* *
77482273 TTATT-TTATTTAAATTTTAATGAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
77482336 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
77482399 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 95 0.78
148 22 0.18
149 5 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:77482432 original size:61 final size:61
Alignment explanation
Indices: 77482367--77482554 Score: 176
Period size: 61 Copynumber: 3.1 Consensus size: 61
77482357 TTTTAATTAA
*
77482367 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * *
77482428 AATATATGATACTGTAA-AATATAAATTAA-AA-TAATAATTATTAAAT--ATATTA-T--AATT
1 AATATAT-A-A-TTTAATAAAAT-TATTAATAATTAAT-ATTCTTATATGAAT-TTACTCAAATC
*
77482485 AA
60 AT
* *
77482487 AATATATAATTTAATAAAATTTTTAATAATTAATAGTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
77482548 AATATAT
1 AATATAT
77482555 GATACTATAA
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 8 0.08
57 14 0.15
58 8 0.08
59 14 0.15
61 21 0.22
62 8 0.08
63 15 0.16
64 8 0.08
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:77482491 original size:16 final size:16
Alignment explanation
Indices: 77482451--77482519 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 16
77482441 GTAAAATATA
77482451 AATTAAAATA-ATAAT
1 AATTAAAATATATAAT
* *
77482466 TATT-AAATATATTAT
1 AATTAAAATATATAAT
77482481 AATTAAAATATATAATTT
1 AATTAAAATATATAA--T
* *
77482499 AA-TAAAATTTTTAAT
1 AATTAAAATATATAAT
77482514 AATTAA
1 AATTAA
77482520 TAGTCTTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
14 5 0.12
15 13 0.30
16 12 0.28
17 10 0.23
18 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTAAAATATATAAT
Found at i:77482628 original size:120 final size:120
Alignment explanation
Indices: 77482332--77482638 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
77482322 TTAATCATAT
* *
77482332 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTAAA-ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAATAAT
* * *
77482397 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
65 TAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAA
*
77482453 TTAAAATAA-TAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATAAT
1 TTAAAATAATTAA-TATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAATAAT
77482517 TAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAA
65 TAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAA
* * **
77482572 TTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAAATAAT
1 -TTAAAATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAATAAT
77482637 TA
65 TA
77482639 TAACTAATAA
Statistics
Matches: 172, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
119 5 0.03
120 159 0.92
121 8 0.05
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
TTAAAATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAATAATT
AATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAA
Found at i:77482638 original size:54 final size:54
Alignment explanation
Indices: 77482445--77482638 Score: 151
Period size: 54 Copynumber: 3.4 Consensus size: 54
77482435 GATACTGTAA
* *
77482445 AATATAAA-TTAAAATAA-TAATTATTAAATATATTATAATTAAAATATATAATTT
1 AATA-AAATTTAAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTT
** * * *
77482499 AATAAAATTTTTAATAATTAATAGTCT-TATATGAATTTACTCAAATCATAATATATGATACTAT
1 AATAAAATTTAAAATAATTAATA-T-TAAATAT--ATTT--T--AATTAAAATATATGAT--T-T
* *
77482563 AAAAGAAAATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
1 --AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
77482619 AATAAAATTTAAAATAATTA
1 AATAAAATTTAAAATAATTA
77482639 TAACTAATAA
Statistics
Matches: 109, Mismatches: 15, Indels: 32
0.70 0.10 0.21
Matches are distributed among these distances:
53 3 0.03
54 31 0.28
55 8 0.07
56 2 0.02
57 4 0.04
59 15 0.14
61 14 0.13
63 5 0.05
64 2 0.02
65 5 0.05
66 20 0.18
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (54 bp):
AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
Found at i:77482683 original size:101 final size:93
Alignment explanation
Indices: 77482570--77482848 Score: 309
Period size: 91 Copynumber: 2.9 Consensus size: 93
77482560 TATAAAAGAA
* * * *
77482570 AATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAAAT
1 AATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT----T
* * *
77482634 AATTATAACTAATAAATTATCTTATATGAATTTGTAT
61 --CT-TAA-TAATAAATTATCTTATATGAATTTATAC
* * *
77482671 AATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTTGA
1 AATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTTAA
*
77482734 TAATAAATTTTCTTATATGAATTTATAC
66 TAATAAATTATCTTATATGAATTTATAC
*
77482762 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTTAA
1 AATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTTAA
77482825 TAATAAAATGT-TCTTATATGAATT
66 TAAT-AAAT-TATCTTATATGAATT
77482849 CATATAAGAT
Statistics
Matches: 160, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
91 88 0.55
92 19 0.12
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 46 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTTAA
TAATAAATTATCTTATATGAATTTATAC
Found at i:77482697 original size:26 final size:28
Alignment explanation
Indices: 77482668--77482728 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
77482658 TATGAATTTG
*
77482668 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
77482694 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
77482722 TAAAATT
1 TATAATT
77482729 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:77482726 original size:47 final size:46
Alignment explanation
Indices: 77482675--77482818 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
77482665 TTGTATAATT
77482675 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
77482722 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
77482766 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
77482813 TAAAAT
1 TAAAAT
77482819 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:77482738 original size:91 final size:90
Alignment explanation
Indices: 77482643--77482848 Score: 322
Period size: 91 Copynumber: 2.2 Consensus size: 90
77482633 TAATTATAAC
* * * *
77482643 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
77482708 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
77482734 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
77482799 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
77482825 TAATAAAATGTTCTTATATGAATT
1 TAAT-AAAT-TTCTTATATGAATT
77482849 CATATAAGAT
Statistics
Matches: 106, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.82
92 19 0.18
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:77482810 original size:44 final size:43
Alignment explanation
Indices: 77482668--77482810 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
77482658 TATGAATTTG
* *
77482668 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
77482712 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
77482759 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
77482803 TATAATTT
1 TATAATTT
77482811 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Done.