Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 53 of 113
Found at i:13570412 original size:26 final size:26
Alignment explanation
Indices: 13570349--13570426 Score: 63
Period size: 26 Copynumber: 3.0 Consensus size: 26
13570339 ATTATAATTG
*
13570349 ATTAA-TATAAATGATAATAATAATA
1 ATTAATTATATATGATAATAATAATA
* *
13570374 A--AATTATTAATATGATATTATTAATA
1 ATTAATTA-T-ATATGATAATAATAATA
* *
13570400 ATTAATTATATATAATAAAAACTAATA
1 ATTAATTATATATGATAATAA-TAATA
13570427 TATTTGGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
23 2 0.05
24 2 0.05
25 2 0.05
26 23 0.57
27 6 0.15
28 5 0.12
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (26 bp):
ATTAATTATATATGATAATAATAATA
Found at i:13572037 original size:21 final size:22
Alignment explanation
Indices: 13571991--13572037 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
13571981 TTATCATATC
* *
13571991 AAAATCTTTATTTTATTGTTTT
1 AAAATCTTTATTTTATTATTTA
13572013 AAAAT-TTTAATTTT-TTATTTA
1 AAAATCTTT-ATTTTATTATTTA
13572034 AAAA
1 AAAA
13572038 ATATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
AAAATCTTTATTTTATTATTTA
Found at i:13572763 original size:17 final size:17
Alignment explanation
Indices: 13572741--13572773 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13572731 GTTTGATTAT
13572741 ATATTTATTA-ATAAATA
1 ATATTT-TTATATAAATA
13572758 ATATTTTTATATAAAT
1 ATATTTTTATATAAAT
13572774 TTTTTAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATTTTTATATAAATA
Found at i:13573532 original size:5 final size:5
Alignment explanation
Indices: 13573518--13573553 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
13573508 TGTTATTCAT
*
13573518 TAATA TAATA CAATA TAATA TAATA TAATA TAATA T
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA T
13573554 TATTACTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:13577053 original size:59 final size:58
Alignment explanation
Indices: 13576910--13577058 Score: 165
Period size: 59 Copynumber: 2.5 Consensus size: 58
13576900 TTTGTTATAA
* *
13576910 ATTTGTTAAAATTTGTTTGGTTTTTGGTTACCGATGTGTTGAGTTTTTGTTAGTTATTT
1 ATTTGTTAAAATTTGTTTGG-TTTTGGTTATCAATGTGTTGAGTTTTTGTTAGTTATTT
* * * * * *
13576969 ATTAGTTTAAATTTATTTGGGTTTTGGTTATCAATTTGTTGGGTTTTTGTTGGTT-TTAT
1 ATTTGTTAAAATTTGTTT-GGTTTTGGTTATCAATGTGTTGAGTTTTTGTTAGTTATT-T
* *
13577028 ATTTGTTGAAATTTGTTTAGGTTTTGATTAT
1 ATTTGTTAAAATTTGTTT-GGTTTTGGTTAT
13577059 ATATTTATTG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
58 2 0.03
59 71 0.95
60 2 0.03
ACGTcount: A:0.18, C:0.02, G:0.21, T:0.58
Consensus pattern (58 bp):
ATTTGTTAAAATTTGTTTGGTTTTGGTTATCAATGTGTTGAGTTTTTGTTAGTTATTT
Found at i:13580954 original size:22 final size:19
Alignment explanation
Indices: 13580909--13580945 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
13580899 TCGGGAATTA
13580909 ATAAAATATTATTTTTAAT
1 ATAAAATATTATTTTTAAT
13580928 ATAAAATATTATTTTTAA
1 ATAAAATATTATTTTTAA
13580946 AAATATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAAAATATTATTTTTAAT
Found at i:13586852 original size:32 final size:33
Alignment explanation
Indices: 13586803--13586867 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
13586793 TAATTAAAAA
*
13586803 ATTTACAAAAATTTAAAA-TATATGATAAATAAT
1 ATTTACAAAAATCTAAAAGT-TATGATAAATAAT
*
13586836 ATTTA-AAAAATCTAAAAGTTATTATAAATAAT
1 ATTTACAAAAATCTAAAAGTTATGATAAATAAT
13586868 GTTATTAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 23 0.79
33 6 0.21
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (33 bp):
ATTTACAAAAATCTAAAAGTTATGATAAATAAT
Found at i:13587684 original size:18 final size:17
Alignment explanation
Indices: 13587661--13587703 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
13587651 TGATTATATT
*
13587661 TATAATTTTTATTTGTAA
1 TATAATTTTAATTT-TAA
13587679 TATAATCTTTAATTTTAA
1 TATAAT-TTTAATTTTAA
*
13587697 TACAATT
1 TATAATT
13587704 ATCAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 14 0.64
19 7 0.32
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (17 bp):
TATAATTTTAATTTTAA
Found at i:13591680 original size:19 final size:18
Alignment explanation
Indices: 13591623--13591690 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 18
13591613 TTAAATTTAG
*
13591623 TAATATTAAAAATAA-ATA
1 TAATATT-AAAATAATATT
*
13591641 T-ATTTTAATAATAATATT
1 TAATATTAA-AATAATATT
*
13591659 TAATATTAAAATATTATGT
1 TAATATTAAAATAATAT-T
*
13591678 TAATATAAAAATA
1 TAATATTAAAATA
13591691 CTTAAAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
16 2 0.05
17 9 0.22
18 11 0.27
19 19 0.46
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (18 bp):
TAATATTAAAATAATATT
Found at i:13591768 original size:17 final size:17
Alignment explanation
Indices: 13591746--13591779 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13591736 TATTTCAAAT
13591746 AATATTACTATTATTAA
1 AATATTACTATTATTAA
* *
13591763 AATATTATTTTTATTAA
1 AATATTACTATTATTAA
13591780 TATTAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
AATATTACTATTATTAA
Found at i:13591771 original size:20 final size:20
Alignment explanation
Indices: 13591742--13591822 Score: 56
Period size: 23 Copynumber: 3.9 Consensus size: 20
13591732 AAAATATTTC
*
13591742 AAATAATATTACTATTATTA
1 AAATATTATTACTATTATTA
* *
13591762 AAATATTATTTTTATTAATATTA
1 AAATATTA---TTACTATTATTA
* * *
13591785 AAATAGTAATATTTATTATTA
1 AAATATTATTA-CTATTATTA
13591806 AAATATT-TATACTATTA
1 AAATATTAT-TACTATTA
13591823 AAGTATTTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
20 14 0.30
21 16 0.34
23 17 0.36
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (20 bp):
AAATATTATTACTATTATTA
Found at i:13591823 original size:17 final size:16
Alignment explanation
Indices: 13591792--13591833 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
13591782 TTAAAATAGT
13591792 AATATTTAT-TATTAA
1 AATATTTATATATTAA
13591807 AATATTTATACTATTAA
1 AATATTTATA-TATTAA
*
13591824 AGTATTTATA
1 AATATTTATA
13591834 ATTTTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 9 0.38
17 15 0.62
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
AATATTTATATATTAA
Found at i:13591908 original size:39 final size:35
Alignment explanation
Indices: 13591865--13591949 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 35
13591855 TATTAAATAA
*
13591865 TATTATTAAATCATAACAAAAATCTTTTTTATTTATAT
1 TATTATTAAATCATAACAAAAA---ATTTTATTTATAT
**
13591903 CTATTATTAAATTGTAACAAAAAATTTTATTTATAT
1 -TATTATTAAATCATAACAAAAAATTTTATTTATAT
13591939 TAATTATTAAA
1 T-ATTATTAAA
13591950 ATAATAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
35 1 0.02
36 21 0.50
39 20 0.48
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.48
Consensus pattern (35 bp):
TATTATTAAATCATAACAAAAAATTTTATTTATAT
Found at i:13592075 original size:39 final size:39
Alignment explanation
Indices: 13592032--13592135 Score: 104
Period size: 39 Copynumber: 2.6 Consensus size: 39
13592022 TAAATATTCA
*
13592032 TATTAAAAAAATATTATTATTATATTAT-TTAACATTAAT
1 TATTAAAATAATA-TATTATTATATTATGTTAACATTAAT
* * ** *
13592071 TATTAAAATAATAAAAATATTATA-TATGTTATTATTTAT
1 TATTAAAATAAT-ATATTATTATATTATGTTAACATTAAT
*
13592110 TATTAAAATAATGATATAATTATATT
1 TATTAAAATAAT-ATATTATTATATT
13592136 TATTATTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
38 3 0.06
39 47 0.90
40 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (39 bp):
TATTAAAATAATATATTATTATATTATGTTAACATTAAT
Found at i:13592142 original size:39 final size:39
Alignment explanation
Indices: 13592069--13592143 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
13592059 TTTAACATTA
*
13592069 ATTATTAAAATAATAAAAATATTATATATGTTATTATTT
1 ATTATTAAAATAATAAAAATATTATATATATTATTATTT
* * *
13592108 ATTATTAAAATAAT-GATATAATTATATTTATTATTA
1 ATTATTAAAATAATAAAAAT-ATTATATATATTATTA
13592144 AAATATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.10
39 28 0.90
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (39 bp):
ATTATTAAAATAATAAAAATATTATATATATTATTATTT
Found at i:13592792 original size:28 final size:28
Alignment explanation
Indices: 13592760--13592816 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
13592750 TTATCAAGCC
** * *
13592760 ATTACATTATTGCATGATGTTAAATCAA
1 ATTACATTATAACATAATGTTAAAGCAA
13592788 ATTACATTATAACATAATGTTAAAGCAA
1 ATTACATTATAACATAATGTTAAAGCAA
13592816 A
1 A
13592817 AGCTTAATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (28 bp):
ATTACATTATAACATAATGTTAAAGCAA
Found at i:13597465 original size:16 final size:15
Alignment explanation
Indices: 13597446--13597488 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
13597436 AAAAACAATA
*
13597446 AATAAAAAATAAATTT
1 AATAAAAAATAAA-GT
*
13597462 AATAATAATATAAAGT
1 AATAA-AAAATAAAGT
13597478 AATAAAAAATA
1 AATAAAAAATA
13597489 TAGGAAAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.22
16 11 0.48
17 7 0.30
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (15 bp):
AATAAAAAATAAAGT
Found at i:13598083 original size:193 final size:193
Alignment explanation
Indices: 13597744--13598126 Score: 698
Period size: 193 Copynumber: 2.0 Consensus size: 193
13597734 GCATGGCATG
* *
13597744 CATGACATAATTTCTTACGAAAAGTAAATTTAGACCTCCAAAGATGAGATTCTAAAAGTATTCCG
1 CATGACAT-ATTTCTTACGAAAAATAAATTGAGACCTCCAAAGATGAGATTCTAAAAGTATTCCG
13597809 AGTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGA
65 AGTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGA
13597874 ACATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAAATTTTTTTTA
130 ACATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAAT-AATTTTTTTTA
13597939 CATGACAT-TTTCTTACGAAAAATAAATTCGAG-CCTCCAAAGATGAGATTCTAAAAGTATTCCG
1 CATGACATATTTCTTACGAAAAATAAATT-GAGACCTCCAAAGATGAGATTCTAAAAGTATTCCG
13598002 AGTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGA
65 AGTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGA
*
13598067 ACATTTTAAGAATTATTTCAATAAAAAGGTTTTGATTTATTTTTCTCGAGAATAATTTTT
130 ACATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTT
13598127 AATAAATAAA
Statistics
Matches: 184, Mismatches: 3, Indels: 5
0.96 0.02 0.03
Matches are distributed among these distances:
192 7 0.04
193 167 0.91
194 2 0.01
195 8 0.04
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (193 bp):
CATGACATATTTCTTACGAAAAATAAATTGAGACCTCCAAAGATGAGATTCTAAAAGTATTCCGA
GTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAA
CATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTTA
Found at i:13598595 original size:15 final size:15
Alignment explanation
Indices: 13598577--13598628 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
13598567 AAAAAAGGTT
13598577 AAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAC
* * *
13598592 AAAACAAAACAAATC
1 AAAAAAAAAAAAAAC
* *
13598607 AAAAAAATAAAAAGC
1 AAAAAAAAAAAAAAC
13598622 AAAAAAA
1 AAAAAAA
13598629 TTCACACACA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.85, C:0.10, G:0.02, T:0.04
Consensus pattern (15 bp):
AAAAAAAAAAAAAAC
Found at i:13614222 original size:17 final size:17
Alignment explanation
Indices: 13614200--13614239 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
13614190 TGAAAAACAC
* *
13614200 ATACATTTTGTTTAGTT
1 ATACATTTTGATTACTT
13614217 ATACATTTTGATTACTT
1 ATACATTTTGATTACTT
13614234 AT-CATT
1 ATACATT
13614240 CTATTTATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (17 bp):
ATACATTTTGATTACTT
Found at i:13619601 original size:6 final size:6
Alignment explanation
Indices: 13619590--13619617 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
13619580 ACCTCCCAGG
13619590 CCTCGA CCTCGA CCTCGA CCTCGA CCTC
1 CCTCGA CCTCGA CCTCGA CCTCGA CCTC
13619618 ATTATCTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.54, G:0.14, T:0.18
Consensus pattern (6 bp):
CCTCGA
Found at i:13619919 original size:21 final size:20
Alignment explanation
Indices: 13619880--13619919 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
13619870 ATCAAATTAT
* *
13619880 AATAATTAAAAATTAAAACA
1 AATAAATAAAAAGTAAAACA
13619900 AATAAATAATAAAGTAAAAC
1 AATAAATAA-AAAGTAAAAC
13619920 CTTAAACTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (20 bp):
AATAAATAAAAAGTAAAACA
Found at i:13625952 original size:22 final size:23
Alignment explanation
Indices: 13625910--13625954 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
13625900 TTTATTTATT
13625910 TTTATTTAAAATAATAAAATAAA
1 TTTATTTAAAATAATAAAATAAA
* *
13625933 TTTA-TTAAAGTAATATAATAAA
1 TTTATTTAAAATAATAAAATAAA
13625955 AATATTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
TTTATTTAAAATAATAAAATAAA
Found at i:13625960 original size:22 final size:22
Alignment explanation
Indices: 13625915--13625961 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
13625905 TTATTTTTAT
**
13625915 TTAAAATAATAAAATAAATTTA
1 TTAAAATAATAAAATAAAAATA
* *
13625937 TTAAAGTAATATAATAAAAATA
1 TTAAAATAATAAAATAAAAATA
13625959 TTA
1 TTA
13625962 TTTGCTATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
TTAAAATAATAAAATAAAAATA
Found at i:13626017 original size:19 final size:20
Alignment explanation
Indices: 13625993--13626031 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13625983 TTAATTTTTA
13625993 ATTA-TTTAT-TAATAAAATT
1 ATTATTTTATATAA-AAAATT
13626012 ATTATTTTATATAAAAAATT
1 ATTATTTTATATAAAAAATT
13626032 CAATAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 11 0.61
21 3 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTATTTTATATAAAAAATT
Found at i:13626079 original size:18 final size:20
Alignment explanation
Indices: 13626036--13626080 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
13626026 AAAATTCAAT
* *
13626036 AATTATTTACTAATTTTATA
1 AATTATTAAATAATTTTATA
13626056 AA-TATTAAATAA-TTTA-A
1 AATTATTAAATAATTTTATA
13626073 AATTATTA
1 AATTATTA
13626081 TTACATATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 3 0.14
18 9 0.41
19 8 0.36
20 2 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTATTAAATAATTTTATA
Found at i:13632720 original size:21 final size:22
Alignment explanation
Indices: 13632696--13632736 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13632686 AAATTAATCT
13632696 AAATCTAAAACTT-AAATAAAA
1 AAATCTAAAACTTCAAATAAAA
* *
13632717 AAATTTAAAATTTCAAATAA
1 AAATCTAAAACTTCAAATAA
13632737 GCTTACTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATCTAAAACTTCAAATAAAA
Found at i:13633013 original size:3 final size:3
Alignment explanation
Indices: 13633007--13633038 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13632997 ATTAACTACC
13633007 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13633039 AATTTTATTT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13633586 original size:19 final size:21
Alignment explanation
Indices: 13633546--13633592 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
13633536 TATATATATA
13633546 TTTTATTTTTTCAAAATATTTT
1 TTTTA-TTTTTCAAAATATTTT
13633568 TTTTATTTTT-AAAAT-TTTT
1 TTTTATTTTTCAAAATATTTT
*
13633587 TATTAT
1 TTTTAT
13633593 ACAAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 9 0.38
20 5 0.21
21 5 0.21
22 5 0.21
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTATTTTTCAAAATATTTT
Found at i:13633682 original size:11 final size:12
Alignment explanation
Indices: 13633659--13633708 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
13633649 ATTTTAAAAT
13633659 TTAAATATTAAA
1 TTAAATATTAAA
13633671 TTAAAT-TTAAA
1 TTAAATATTAAA
13633682 -TAAATATATAAA
1 TTAAATAT-TAAA
*
13633694 CTATTAATATTAAA
1 -T-TAAATATTAAA
13633708 T
1 T
13633709 ATGAAGATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
10 5 0.16
11 6 0.19
12 10 0.31
13 1 0.03
14 4 0.12
15 6 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
TTAAATATTAAA
Found at i:13634311 original size:22 final size:21
Alignment explanation
Indices: 13634286--13634334 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
13634276 AAATAATGGC
13634286 TTAAATTTTATAAAAAATATAT
1 TTAAA-TTTATAAAAAATATAT
* *
13634308 TTAAGATTTATTAAAAATTTAT
1 TTAA-ATTTATAAAAAATATAT
13634330 TTAAA
1 TTAAA
13634335 ATTGATTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TTAAATTTATAAAAAATATAT
Found at i:13634342 original size:22 final size:22
Alignment explanation
Indices: 13634298--13634342 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13634288 AAATTTTATA
* *
13634298 AAAAATATATTTAAGATTTATT
1 AAAAATATATTTAAAATTGATT
*
13634320 AAAAATTTATTTAAAATTGATT
1 AAAAATATATTTAAAATTGATT
13634342 A
1 A
13634343 GATATTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (22 bp):
AAAAATATATTTAAAATTGATT
Found at i:13634378 original size:14 final size:14
Alignment explanation
Indices: 13634359--13634412 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
13634349 ATTTGAGAAT
13634359 AAAAAAATTTATAA-
1 AAAAAAATTT-TAAG
13634373 AAAAAAATTTTAAGAG
1 AAAAAAATTTT-A-AG
*
13634389 AAAAAAATTTTAAT
1 AAAAAAATTTTAAG
13634403 AAAAAAATTT
1 AAAAAAATTT
13634413 AACTTGCAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
13 1 0.03
14 22 0.61
15 2 0.06
16 11 0.31
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
AAAAAAATTTTAAG
Found at i:13635819 original size:9 final size:9
Alignment explanation
Indices: 13635805--13635842 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
13635795 GAATTATAAA
13635805 TAATATTTT
1 TAATATTTT
13635814 TAATATTTTT
1 TAATA-TTTT
13635824 TAAATATTTT
1 T-AATATTTT
13635834 TAAT-TTTT
1 TAATATTTT
13635842 T
1 T
13635843 CATTAAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 5 0.19
9 8 0.30
10 10 0.37
11 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TAATATTTT
Found at i:13640780 original size:23 final size:23
Alignment explanation
Indices: 13640750--13640795 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
13640740 CAGCTTCCTT
*
13640750 TGATGCTAACGCCCACCTAAGGC
1 TGATGCTAACCCCCACCTAAGGC
*
13640773 TGATGCTAACCCCCACGTAAGGC
1 TGATGCTAACCCCCACCTAAGGC
13640796 CAATTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.35, G:0.22, T:0.17
Consensus pattern (23 bp):
TGATGCTAACCCCCACCTAAGGC
Found at i:13646039 original size:45 final size:44
Alignment explanation
Indices: 13645975--13646059 Score: 152
Period size: 45 Copynumber: 1.9 Consensus size: 44
13645965 CCCCTTGTGC
13645975 TTATAAAGTTTAATTTAATATTATTGTTGGAAGTCAGTTTTGTTT
1 TTATAAAGTTTAATTTAATATTATTGTTGGAAGTC-GTTTTGTTT
*
13646020 TTATAAAGTTTAATTTAATATTGTTGTTGGAAGTCGTTTT
1 TTATAAAGTTTAATTTAATATTATTGTTGGAAGTCGTTTT
13646060 ACATCTAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 5 0.13
45 34 0.87
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.53
Consensus pattern (44 bp):
TTATAAAGTTTAATTTAATATTATTGTTGGAAGTCGTTTTGTTT
Found at i:13646670 original size:19 final size:19
Alignment explanation
Indices: 13646625--13646670 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
13646615 GATAGTGTAT
* *
13646625 AAATATGAATTCTTTTATTA
1 AAATAT-AATTATTTTATAA
*
13646645 AACTATAATTATTTTATAA
1 AAATATAATTATTTTATAA
13646664 AAATATA
1 AAATATA
13646671 TTTGAAAGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (19 bp):
AAATATAATTATTTTATAA
Found at i:13646948 original size:2 final size:2
Alignment explanation
Indices: 13646941--13646972 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13646931 ATTCAACCGA
*
13646941 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13646973 TATTATGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13647901 original size:59 final size:58
Alignment explanation
Indices: 13647838--13648172 Score: 386
Period size: 58 Copynumber: 5.7 Consensus size: 58
13647828 TTGTACAGGA
* * *
13647838 AAAATTGATACTTTCAACTTTTCCCTAAAATATTTTTTTTGAAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTGAAAAC-TTATTTTCAAGG
* * *
13647897 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-CTATTTTTGAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTTGAAAACTTATTTTCAAGG
* * *
13647955 AGAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTAGAAAGCTCATTTTCAAGG
1 AAAATTGATACTTTCAACTTTT-CCCAAAAATA-TTTTTTTT-GAAAACTTATTTTCAAGG
* * *
13648016 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTTGAAAACTTATTTTCAAGG
* * ** * ** *
13648075 AAAATTGATACTTTTAACTTTTCCTCAAAAGT-CCTTTTTAGAAAGTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTTGAAAACTTATTTTCAAGG
* *
13648133 AAAATTGATATTTTCAACTTTTCTTCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTT
13648173 GAATTTTATT
Statistics
Matches: 238, Mismatches: 29, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
58 91 0.38
59 83 0.35
60 19 0.08
61 41 0.17
62 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTGAAAACTTATTTTCAAGG
Found at i:13647984 original size:58 final size:58
Alignment explanation
Indices: 13647838--13648175 Score: 426
Period size: 59 Copynumber: 5.7 Consensus size: 58
13647828 TTGTACAGGA
* * * *
13647838 AAAATTGATACTTTCAACTTTTCC-CTAAAATATTTTTTTTGAAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAAGC-TTATTTTCAAGG
* * * *
13647897 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTATTTTTGAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAGCTTATTTTCAAGG
* * *
13647955 AGAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTAGAAAGCTCATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTT-GAAAGCTTATTTTCAAGG
*
13648016 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT-GAAAGCTTATTTTCAAGG
* * ** * * *
13648075 AAAATTGATACTTTTAACTTTTCCTCAAAAGTCCTTTTTAGAAAGTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAGCTTATTTTCAAGG
* *
13648133 AAAATTGATATTTTCAACTTTTCTTCAAAAATATTTTTTTGAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAA
13648176 TTTTATTTAA
Statistics
Matches: 243, Mismatches: 32, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
58 91 0.37
59 95 0.39
60 12 0.05
61 45 0.19
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAGCTTATTTTCAAGG
Found at i:13648141 original size:178 final size:178
Alignment explanation
Indices: 13647838--13648172 Score: 485
Period size: 178 Copynumber: 1.9 Consensus size: 178
13647828 TTGTACAGGA
* * *
13647838 AAAATTGATACTTTCAACTTTTCCCTAAAATATTTTTTTTGAAAACTTTAATTTCGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTAGAAAACTTTAATTTCAAGGAAAATT
* * * *
13647903 GATACTTTCAACTTTTCCTCAAAAATCTATTTTTGAAAACTTATTTTTAAGGAGAATTGATACTT
66 GATACTTTCAACTTTTCCTCAAAAATCTATTTTAGAAAACTTATTTTCAAGAAAAATTGATACTT
13647968 TCAACTTTTCCCCAAAAATATTTTTTTTTAGAAAGCTCATTTTCAAGG
131 TCAACTTTTCCCCAAAAATATTTTTTTTTAGAAAGCTCATTTTCAAGG
* * *
13648016 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAGC-TTATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTAGAAAACTTTAATTTCAAGGAAAAT
* * ** *
13648080 TGATACTTTTAACTTTTCCTCAAAAGTCCT-TTTTAGAAAGTTTATTTTCAAGAAAAATTGATAT
65 TGATACTTTCAACTTTTCCTCAAAAAT-CTATTTTAGAAAACTTATTTTCAAGAAAAATTGATAC
**
13648144 TTTCAACTTTTCTTCAAAAATATTTTTTT
129 TTTCAACTTTTCCCCAAAAATATTTTTTT
13648173 GAATTTTATT
Statistics
Matches: 138, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
178 112 0.81
179 26 0.19
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (178 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTAGAAAACTTTAATTTCAAGGAAAATT
GATACTTTCAACTTTTCCTCAAAAATCTATTTTAGAAAACTTATTTTCAAGAAAAATTGATACTT
TCAACTTTTCCCCAAAAATATTTTTTTTTAGAAAGCTCATTTTCAAGG
Found at i:13648232 original size:21 final size:19
Alignment explanation
Indices: 13648188--13648337 Score: 76
Period size: 21 Copynumber: 7.5 Consensus size: 19
13648178 TTATTTAAAG
13648188 AAAAT-AAAATAATAAAAT
1 AAAATAAAAATAATAAAAT
13648206 -AAATAAAAATAATGAAAAT
1 AAAATAAAAATAAT-AAAAT
*
13648225 AAAAATAAAAATAA-AAAGT
1 -AAAATAAAAATAATAAAAT
* * * **
13648244 ATTAA-ACAAATCTATCTAAT
1 A-AAATAAAAAT-AATAAAAT
*
13648264 -CAATAAATAATAATAATAAT
1 AAAATAAA-AATAATAA-AAT
*
13648284 AATAATAATAATAATAATAAT
1 AA-AATAAAAATAATAA-AAT
*
13648305 AAATATATAAATACATAAAAAAT
1 AAA-ATAAAAATA-AT--AAAAT
13648328 AAAATAAAAA
1 AAAATAAAAA
13648338 ATGAAAACAA
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
17 4 0.04
18 16 0.16
19 16 0.16
20 9 0.09
21 33 0.33
22 13 0.13
23 6 0.06
24 2 0.02
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.25
Consensus pattern (19 bp):
AAAATAAAAATAATAAAAT
Found at i:13648277 original size:3 final size:3
Alignment explanation
Indices: 13648269--13648306 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
13648259 CTAATCAATA
13648269 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13648307 ATATATAAAT
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:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13648344 original size:13 final size:12
Alignment explanation
Indices: 13648265--13648350 Score: 50
Period size: 13 Copynumber: 6.7 Consensus size: 12
13648255 CTATCTAATC
*
13648265 AATAAATAATAA
1 AATAAAAAATAA
13648277 TAATAATAATAATAA
1 -AATAA-AA-AATAA
13648292 TAATAATAATAAT-A
1 -AATAA-AA-AATAA
*
13648306 AATATATAAAT-A
1 AATA-AAAAATAA
*
13648318 CATAAAAAATAA
1 AATAAAAAATAA
13648330 AATAAAAAATGAA
1 AATAAAAAAT-AA
*
13648343 AACAAAAA
1 AATAAAAA
13648351 CCTGGGAACG
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
11 5 0.08
12 17 0.27
13 19 0.31
14 3 0.05
15 18 0.29
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.24
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:13649228 original size:36 final size:33
Alignment explanation
Indices: 13649186--13649324 Score: 106
Period size: 36 Copynumber: 4.0 Consensus size: 33
13649176 AAAATAAAAA
13649186 AGATAAATATATTAATAGATAACAAAAAAAATAATT
1 AGATAAATATATTAATA-ATAA-AAAAAAAATAA-T
*
13649222 AGATAAATA-A-TAATAATAAAAAAAGTAGATAAAT
1 AGATAAATATATTAATAATAAAAAAA--AAAT-AAT
*
13649256 A-ATAAGA-ATATTAATAGATAAAAAAAATAACTAAA
1 AGATAA-ATATATTAATA-ATAAAAAAAA-AA-TAAT
* *
13649291 AAATATATATATTAAATAATAAAAATAAAAATAA
1 AGATAAATATATT-AATAATAAAAA-AAAAATAA
13649325 AAGCCCATTG
Statistics
Matches: 86, Mismatches: 4, Indels: 27
0.74 0.03 0.23
Matches are distributed among these distances:
32 5 0.06
33 9 0.10
34 13 0.15
35 16 0.19
36 36 0.42
37 7 0.08
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.26
Consensus pattern (33 bp):
AGATAAATATATTAATAATAAAAAAAAAATAAT
Found at i:13649250 original size:26 final size:27
Alignment explanation
Indices: 13649212--13649265 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
13649202 AGATAACAAA
* *
13649212 AAAAATAATTAGATAAATAATAATAAT
1 AAAAATAAGTAGATAAATAATAAGAAT
13649239 AAAAA-AAGTAGATAAATAATAAGAAT
1 AAAAATAAGTAGATAAATAATAAGAAT
13649265 A
1 A
13649266 TTAATAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (27 bp):
AAAAATAAGTAGATAAATAATAAGAAT
Found at i:13649326 original size:12 final size:13
Alignment explanation
Indices: 13649177--13649325 Score: 53
Period size: 13 Copynumber: 11.2 Consensus size: 13
13649167 AAATTAATCA
13649177 AAATAA-AAAAGAT
1 AAATAATAAAA-AT
**
13649190 AAAT-ATATTAAT
1 AAATAATAAAAAT
* *
13649202 AGATAACAAAAA-
1 AAATAATAAAAAT
* *
13649214 AAATAAT-TAGAT
1 AAATAATAAAAAT
*
13649226 AAATAATAATAAT
1 AAATAATAAAAAT
*
13649239 AAA-AA-AAGTAGAT
1 AAATAATAA--AAAT
13649252 AAATAATAAGAATAT
1 AAATAATAA-AA-AT
*
13649267 TAATAGATAAAAA-
1 AAATA-ATAAAAAT
13649280 AAATAACTAAAAAAT
1 AAATAA-T-AAAAAT
*
13649295 ATATATATTAAATAAT
1 A-A-ATAATAAA-AAT
13649311 AAA-AATAAAAAT
1 AAATAATAAAAAT
13649323 AAA
1 AAA
13649326 AGCCCATTGG
Statistics
Matches: 99, Mismatches: 21, Indels: 33
0.65 0.14 0.22
Matches are distributed among these distances:
11 4 0.04
12 27 0.27
13 30 0.30
14 10 0.10
15 15 0.15
16 10 0.10
17 3 0.03
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.25
Consensus pattern (13 bp):
AAATAATAAAAAT
Found at i:13655907 original size:25 final size:25
Alignment explanation
Indices: 13655879--13655933 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
13655869 AGCTTCTTTC
*
13655879 TTTTT-TTTTTCTTTTT-ATGTTTTA
1 TTTTTCTTTTT-TTTTTGTTGTTTTA
*
13655903 TTTTTCTTTTTTTTTTGTTGTTTTG
1 TTTTTCTTTTTTTTTTGTTGTTTTA
13655928 TTTTTC
1 TTTTTC
13655934 AGCCCTCCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.04, C:0.05, G:0.07, T:0.84
Consensus pattern (25 bp):
TTTTTCTTTTTTTTTTGTTGTTTTA
Found at i:13655909 original size:30 final size:30
Alignment explanation
Indices: 13655875--13655931 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
13655865 CAACAGCTTC
13655875 TTTCTTTTTTTTTTCTT-TTTATGTTTTATT
1 TTTCTTTTTTTTTTCTTGTTT-TGTTTTATT
*
13655905 TTTCTTTTTTTTTTGTTGTTTTGTTTT
1 TTTCTTTTTTTTTTCTTGTTTTGTTTT
13655932 TCAGCCCTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.04, C:0.05, G:0.07, T:0.84
Consensus pattern (30 bp):
TTTCTTTTTTTTTTCTTGTTTTGTTTTATT
Found at i:13656610 original size:145 final size:145
Alignment explanation
Indices: 13656278--13656672 Score: 398
Period size: 145 Copynumber: 2.7 Consensus size: 145
13656268 TTAAAACACC
* * * **
13656278 AAAAATCATGAAATATTATAAGATTATGATCTAAAAAGTTTCATGAAATTTTGAGCTCGGAAAGG
1 AAAAATCATGAAATATTATAAGATTAAGGTCTAAAAAGTTTCATGAAAATTTGAGCTCAAAAAGG
* * * * ** *
13656343 CTAAATTACGAAAATACCTCTATAAGGGTATTTTGATAAATTCACACTTCTCAGGGTGTTGCTAT
66 CCAAATTACAAAAATACCCCTATAAGGGTATTTTGATAAATTCACACTTCTCAAGGTACTACTAT
*
13656408 AATTTCAAATGCATT
131 AATTTCAAATGCATA
* * * *
13656423 AAAAATCATAAAATATTATAAAACT-AGGATCTAAAAAATTTCATGAAAATTTGAGCTCAAAAAG
1 AAAAATCATGAAATATTATAAGATTAAGG-TCTAAAAAGTTTCATGAAAATTTGAGCTCAAAAAG
* * *
13656487 GCCAAATTACAAAAATACCCCTATAAGTGTATTTTGTTAATTTCACACTT-TCTAAGGTACTACT
65 GCCAAATTACAAAAATACCCCTATAAGGGTATTTTGATAAATTCACACTTCTC-AAGGTACTACT
* * * *
13656551 GTGATTTTAAATGTATA
129 ATAATTTCAAATGCATA
* * ** * ** * * *
13656568 AAAAATCATGAAATATTATAGGATTAAGGTTTGGAAGGTTTCATGAAAATTCAAACTCGAGAAGG
1 AAAAATCATGAAATATTATAAGATTAAGGTCTAAAAAGTTTCATGAAAATTTGAGCTCAAAAAGG
* ** * *
13656633 TCAAATTATGAAAATAACTCTTATAAGGGTATTTTGATAA
66 CCAAATTACAAAAAT-ACCCCTATAAGGGTATTTTGATAA
13656673 TTTAGCCTTT
Statistics
Matches: 201, Mismatches: 45, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
144 3 0.01
145 175 0.87
146 23 0.11
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (145 bp):
AAAAATCATGAAATATTATAAGATTAAGGTCTAAAAAGTTTCATGAAAATTTGAGCTCAAAAAGG
CCAAATTACAAAAATACCCCTATAAGGGTATTTTGATAAATTCACACTTCTCAAGGTACTACTAT
AATTTCAAATGCATA
Found at i:13657281 original size:33 final size:33
Alignment explanation
Indices: 13657242--13657370 Score: 186
Period size: 33 Copynumber: 3.9 Consensus size: 33
13657232 CTTTTGAATG
*
13657242 CTCCTCTAATCAAAGGCCATGAAACTTTACGTA
1 CTCCTCTAATCAAAGGCCATGAAACTTTAAGTA
*
13657275 CTCCTCTAACCAAAGGCCATGAAACTTTAAGTA
1 CTCCTCTAATCAAAGGCCATGAAACTTTAAGTA
* * * *
13657308 CTCCTTTAATTAAAGGCCATAAAACTTTAAGTG
1 CTCCTCTAATCAAAGGCCATGAAACTTTAAGTA
* *
13657341 CTCCTCTAATCAAAGGCCAAGCAACTTTAA
1 CTCCTCTAATCAAAGGCCATGAAACTTTAA
13657371 AGTGTTTGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 84 1.00
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.27
Consensus pattern (33 bp):
CTCCTCTAATCAAAGGCCATGAAACTTTAAGTA
Found at i:13657459 original size:33 final size:33
Alignment explanation
Indices: 13657421--13657518 Score: 151
Period size: 33 Copynumber: 3.0 Consensus size: 33
13657411 AATCTTTAAA
* * *
13657421 TGCTCCTCCAATCAGAGGCCCTAAAACTTTGAG
1 TGCTCCTCTAATCAGAGGCCATGAAACTTTGAG
* *
13657454 TGCTCCTCTAATAAGAGGCCATGAAACTTTAAG
1 TGCTCCTCTAATCAGAGGCCATGAAACTTTGAG
13657487 TGCTCCTCTAATCAGAGGCCATGAAACTTTGA
1 TGCTCCTCTAATCAGAGGCCATGAAACTTTGA
13657519 ATTTAAAATG
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (33 bp):
TGCTCCTCTAATCAGAGGCCATGAAACTTTGAG
Found at i:13657594 original size:154 final size:148
Alignment explanation
Indices: 13657288--13657606 Score: 397
Period size: 154 Copynumber: 2.1 Consensus size: 148
13657278 CTCTAACCAA
* *
13657288 AGGCCATGAAACTTTAAGTACTCCTTTAATTAAAGGCCATAAAACTTTAAGTGCTCCTCTAATCA
1 AGGCCATAAAACTTTAAGTACTCCTCTAATTAAAGGCCATAAAACTTTAAGTGCTCCTCTAATCA
* * * * * * *
13657353 AAGGCCAAGCAACTTTAAAGTGTTTGTAGATTATGCTCAAAAGTCTTATATATCTCAAAATCTTT
66 AAGGCCAAGAAACTTTAAAATGTTCGAAGATTATGCTCAAAAGTCTTACAAATCTCAAAATCCTT
13657418 AAATGCTCCTCCAATCAG
131 AAATGCTCCTCCAATCAG
* * * *
13657436 AGGCCCTAAAACTTTGAGTGCTCCTCTAA-TAAGAGGCCATGAAACTTTAAGTGCTCCTCTAATC
1 AGGCCATAAAACTTTAAGTACTCCTCTAATTAA-AGGCCATAAAACTTTAAGTGCTCCTCTAATC
* * * *
13657500 AGAGGCCATGAAACTTTGAATTTAAAATGTTCGAAGATTATGCTCAAAGGTTTTACAAATCTCAA
65 AAAGGCCAAGAAAC------TTTAAAATGTTCGAAGATTATGCTCAAAAGTCTTACAAATCTCAA
*
13657565 AATCCTTAAATGCTCTTCCAATCAG
124 AATCCTTAAATGCTCCTCCAATCAG
*
13657590 AGGCCATGAAACTTTAA
1 AGGCCATAAAACTTTAA
13657607 AATTTTAAAA
Statistics
Matches: 143, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
147 3 0.02
148 65 0.45
154 75 0.52
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (148 bp):
AGGCCATAAAACTTTAAGTACTCCTCTAATTAAAGGCCATAAAACTTTAAGTGCTCCTCTAATCA
AAGGCCAAGAAACTTTAAAATGTTCGAAGATTATGCTCAAAAGTCTTACAAATCTCAAAATCCTT
AAATGCTCCTCCAATCAG
Found at i:13657897 original size:69 final size:69
Alignment explanation
Indices: 13657781--13657919 Score: 174
Period size: 69 Copynumber: 2.0 Consensus size: 69
13657771 TTTAGAGGTC
* * * *
13657781 TTACAAATCTCAAAATCTTTGAACGCTCTTCTAATCAGAGGCCATGAAACTTT-GAATATTTAAA
1 TTACAAATCTCAAAATCTTTGAACGCTCTTCCAATCAGAGGCAATGAAACTTTAAAAAATTT-AA
13657845 ATGTT
65 ATGTT
* * * *
13657850 TTACAAATCTCAAAA-CTTTTGAATGCTTTTCCAGTCAGAGGTAATGAAACTTTAAAAAATTTAA
1 TTACAAATCTCAAAATC-TTTGAACGCTCTTCCAATCAGAGGCAATGAAACTTTAAAAAATTTAA
13657914 ATGTT
65 ATGTT
13657919 T
1 T
13657920 GCAAATGATT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
68 1 0.02
69 53 0.88
70 6 0.10
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (69 bp):
TTACAAATCTCAAAATCTTTGAACGCTCTTCCAATCAGAGGCAATGAAACTTTAAAAAATTTAAA
TGTT
Found at i:13658320 original size:1 final size:1
Alignment explanation
Indices: 13658310--13658352 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
13658300 ACATCAATCA
* * * *
13658310 TTTTTCTTTTTTTCTTTTTTTTTTCTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13658353 CTTTAAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.07, G:0.02, T:0.91
Consensus pattern (1 bp):
T
Found at i:13658332 original size:11 final size:11
Alignment explanation
Indices: 13658316--13658352 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
13658306 ATCATTTTTC
13658316 TTTTTTTCTTT
1 TTTTTTTCTTT
13658327 TTTTTTTCTTT
1 TTTTTTTCTTT
13658338 TTTTTGTT-TTT
1 TTTTT-TTCTTT
13658349 TTTT
1 TTTT
13658353 CTTTAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 23 0.92
12 2 0.08
ACGTcount: A:0.00, C:0.05, G:0.03, T:0.92
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:13658334 original size:19 final size:19
Alignment explanation
Indices: 13658310--13658356 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
13658300 ACATCAATCA
13658310 TTTTTCTTTTTTTCT-TTTT
1 TTTTTCTTTTTTT-TGTTTT
13658329 TTTTTCTTTTTTTTGTTTT
1 TTTTTCTTTTTTTTGTTTT
13658348 TTTTTCTTT
1 TTTTTCTTT
13658357 AAAAAACCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 1 0.04
19 26 0.96
ACGTcount: A:0.00, C:0.09, G:0.02, T:0.89
Consensus pattern (19 bp):
TTTTTCTTTTTTTTGTTTT
Found at i:13658518 original size:18 final size:18
Alignment explanation
Indices: 13658495--13658529 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13658485 GATATGAATA
*
13658495 CAAATGTCAATGCAAATG
1 CAAATGTAAATGCAAATG
13658513 CAAATGTAAATGCAAAT
1 CAAATGTAAATGCAAAT
13658530 ATAGATGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (18 bp):
CAAATGTAAATGCAAATG
Found at i:13658711 original size:38 final size:39
Alignment explanation
Indices: 13658669--13658744 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 39
13658659 GATACAGATG
13658669 CAAGTGATGCAAATGTAAA-TTTTTTCATAATGCAAATT
1 CAAGTGATGCAAATGTAAATTTTTTTCATAATGCAAATT
*
13658707 CAAGTGATGCAAATGTAAATTTTTTTCATGATGCAAAT
1 CAAGTGATGCAAATGTAAATTTTTTTCATAATGCAAAT
13658745 GCAAATTTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 19 0.53
39 17 0.47
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (39 bp):
CAAGTGATGCAAATGTAAATTTTTTTCATAATGCAAATT
Found at i:13658759 original size:21 final size:22
Alignment explanation
Indices: 13658711--13658762 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
13658701 CAAATTCAAG
*
13658711 TGATGCAAATGTAAATTTTTTTCA
1 TGATGCAAATGCAAA--TTTTTCA
*
13658735 TGATGCAAATGCAAA-TTTTCT
1 TGATGCAAATGCAAATTTTTCA
13658756 TGATGCA
1 TGATGCA
13658763 GGTGCTAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 12 0.46
24 14 0.54
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (22 bp):
TGATGCAAATGCAAATTTTTCA
Found at i:13659708 original size:18 final size:18
Alignment explanation
Indices: 13659665--13659700 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13659655 TTTGCTCTAG
13659665 ATTACCCTTTTTAGGGTT
1 ATTACCCTTTTTAGGGTT
13659683 ATTACCCTTTTTAGGGTT
1 ATTACCCTTTTTAGGGTT
13659701 TTCACCCTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (18 bp):
ATTACCCTTTTTAGGGTT
Found at i:13660136 original size:21 final size:18
Alignment explanation
Indices: 13660100--13660188 Score: 65
Period size: 21 Copynumber: 4.6 Consensus size: 18
13660090 CATTCATTTC
*
13660100 TTTTTCTTTTTTTTTCTT
1 TTTTTCTTTTTTTTTCAT
13660118 TTTTTCTTCCTTTTCTTTCAT
1 TTTTTCTT--TTTT-TTTCAT
13660139 TTTTTCTTTCCCTTTTTT--T
1 TTTTTCTTT---TTTTTTCAT
* *
13660158 TTTTACTTTTTTTTGCTAT
1 TTTTTCTTTTTTTTTC-AT
13660177 CTTTTTCTTTTT
1 -TTTTTCTTTTT
13660189 GCTTTCTCTA
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
16 5 0.09
18 8 0.14
19 11 0.19
20 14 0.25
21 16 0.28
22 3 0.05
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTTTTTTTCAT
Found at i:13660193 original size:7 final size:6
Alignment explanation
Indices: 13660096--13660193 Score: 53
Period size: 6 Copynumber: 16.2 Consensus size: 6
13660086 CACCCATTCA
* * *
13660096 TTTCTT TTTC-T TTT-TT TTTCTT TTT-TT CTTCCT TTTCTT TCAT-TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T-TTCTT
** *
13660141 TTTCTT TCCCTT TTTTTT TTTACTT TTT-TT TGCTATCTT TTTCTT TTTGCTT
1 TTTCTT TTTCTT TTTCTT TTT-CTT TTTCTT T--T-TCTT TTTCTT TTT-CTT
13660193 T
1 T
13660194 CTCTATATAT
Statistics
Matches: 69, Mismatches: 12, Indels: 21
0.68 0.12 0.21
Matches are distributed among these distances:
5 16 0.23
6 37 0.54
7 12 0.17
8 1 0.01
9 3 0.04
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTCTT
Found at i:13660736 original size:15 final size:14
Alignment explanation
Indices: 13660700--13660745 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
13660690 TCATAACCAT
*
13660700 TTTTTC-TTATTTC
1 TTTTTCATTTTTTC
13660713 TTTTT--TTTTTTC
1 TTTTTCATTTTTTC
13660725 ATTTTTCATTTTTTC
1 -TTTTTCATTTTTTC
13660740 TTTTTC
1 TTTTTC
13660746 TCTTTTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 6 0.21
13 10 0.34
14 6 0.21
15 7 0.24
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTCATTTTTTC
Found at i:13660749 original size:8 final size:7
Alignment explanation
Indices: 13660699--13660774 Score: 59
Period size: 7 Copynumber: 10.9 Consensus size: 7
13660689 GTCATAACCA
13660699 TTTTTTC
1 TTTTTTC
*
13660706 TTATTTC
1 TTTTTTC
13660713 -TTTTT-
1 TTTTTTC
13660718 TTTTTTC
1 TTTTTTC
*
13660725 ATTTTTC
1 TTTTTTC
13660732 ATTTTTTC
1 -TTTTTTC
13660740 TTTTTCTC
1 TTTTT-TC
*
13660748 TTTTATTA
1 TTTT-TTC
*
13660756 GTTTTT-
1 TTTTTTC
*
13660762 TTTTTTA
1 TTTTTTC
13660769 TTTTTT
1 TTTTTT
13660775 TACATGCCCC
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
6 14 0.25
7 25 0.45
8 16 0.29
9 1 0.02
ACGTcount: A:0.08, C:0.09, G:0.01, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:13660764 original size:34 final size:33
Alignment explanation
Indices: 13660697--13660774 Score: 77
Period size: 34 Copynumber: 2.2 Consensus size: 33
13660687 ACGTCATAAC
*
13660697 CATTTTTTCTTATTTCTTTTTTTTTTTCATTTTT
1 CATTTTTTCTTATTTCTTTTTTTGTTT-ATTTTT
*
13660731 CATTTTTTCTT-TTTCTCTTTTATTAGTTTTTTTTTT
1 CATTTTTTCTTATTTCT-TTTT-TT-G-TTTATTTTT
*
13660767 TATTTTTT
1 CATTTTTT
13660775 TACATGCCCC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
33 5 0.14
34 15 0.41
35 2 0.05
36 12 0.32
37 3 0.08
ACGTcount: A:0.09, C:0.10, G:0.01, T:0.79
Consensus pattern (33 bp):
CATTTTTTCTTATTTCTTTTTTTGTTTATTTTT
Found at i:13663084 original size:76 final size:76
Alignment explanation
Indices: 13662982--13663135 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 76
13662972 AAGAGAAGGG
13662982 ATTTTTTATATAAGGCCCCAAATGGTAAAAGTTTTCTCATCCATGCATGTGTATGCAAGGAATGT
1 ATTTTTTATATAAGGCCCCAAATGGTAAAAGTTTTCTCATCCATGCATGTGTATGCAAGGAATGT
13663047 AATGAAATGCA
66 AATGAAATGCA
*
13663058 ATTTTTTATATAAGGCCCCAAATGGTAAAAGTTTTCTCATCCATGCATGTGTTTGCAAGGAATGT
1 ATTTTTTATATAAGGCCCCAAATGGTAAAAGTTTTCTCATCCATGCATGTGTATGCAAGGAATGT
13663123 AATGAAATGCA
66 AATGAAATGCA
13663134 AT
1 AT
13663136 GCATGTTCTA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (76 bp):
ATTTTTTATATAAGGCCCCAAATGGTAAAAGTTTTCTCATCCATGCATGTGTATGCAAGGAATGT
AATGAAATGCA
Found at i:13663460 original size:23 final size:23
Alignment explanation
Indices: 13663430--13663478 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
13663420 TATACTATCC
13663430 ATTGATGTGAATAAGATGCATCT
1 ATTGATGTGAATAAGATGCATCT
* *
13663453 ATTGATGTGAATGAGATGCATGT
1 ATTGATGTGAATAAGATGCATCT
13663476 ATT
1 ATT
13663479 ATCCTTGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (23 bp):
ATTGATGTGAATAAGATGCATCT
Found at i:13663670 original size:23 final size:23
Alignment explanation
Indices: 13663640--13663688 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
13663630 TATACTATCC
13663640 ATTGATGTGAAT-AGGATGCATCT
1 ATTGATGTGAATGA-GATGCATCT
*
13663663 ATTGATGTGAATGAGATGCATGT
1 ATTGATGTGAATGAGATGCATCT
13663686 ATT
1 ATT
13663689 ATCCTTGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.37
Consensus pattern (23 bp):
ATTGATGTGAATGAGATGCATCT
Found at i:13663775 original size:210 final size:210
Alignment explanation
Indices: 13663413--13663822 Score: 811
Period size: 210 Copynumber: 2.0 Consensus size: 210
13663403 GCATAAAATG
13663413 GGATGCATATACTATCCATTGATGTGAATAAGATGCATCTATTGATGTGAATGAGATGCATGTAT
1 GGATGCATATACTATCCATTGATGTGAATAAGATGCATCTATTGATGTGAATGAGATGCATGTAT
13663478 TATCCTTGATGTGGATGGGATGCAATGCATGTATGATCTTATTATAGTGTAATCAGATGGGATGC
66 TATCCTTGATGTGGATGGGATGCAATGCATGTATGATCTTATTATAGTGTAATCAGATGGGATGC
13663543 ATATACTATCTATTAGGATGCATGGGATGGGACGTATATACAATTCGATTATTATTTTTTATTTT
131 ATATACTATCTATTAGGATGCATGGGATGGGACGTATATACAATTCGATTATTATTTTTTATTTT
13663608 TTTTAGATGTGAATA
196 TTTTAGATGTGAATA
*
13663623 GGATGCATATACTATCCATTGATGTGAATAGGATGCATCTATTGATGTGAATGAGATGCATGTAT
1 GGATGCATATACTATCCATTGATGTGAATAAGATGCATCTATTGATGTGAATGAGATGCATGTAT
13663688 TATCCTTGATGTGGATGGGATGCAATGCATGTATGATCTTATTATAGTGTAATCAGATGGGATGC
66 TATCCTTGATGTGGATGGGATGCAATGCATGTATGATCTTATTATAGTGTAATCAGATGGGATGC
13663753 ATATACTATCTATTAGGATGCATGGGATGGGACGTATATACAATTCGATTATTATTTTTTATTTT
131 ATATACTATCTATTAGGATGCATGGGATGGGACGTATATACAATTCGATTATTATTTTTTATTTT
13663818 TTTTA
196 TTTTA
13663823 TTTTTTGAAC
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 199 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (210 bp):
GGATGCATATACTATCCATTGATGTGAATAAGATGCATCTATTGATGTGAATGAGATGCATGTAT
TATCCTTGATGTGGATGGGATGCAATGCATGTATGATCTTATTATAGTGTAATCAGATGGGATGC
ATATACTATCTATTAGGATGCATGGGATGGGACGTATATACAATTCGATTATTATTTTTTATTTT
TTTTAGATGTGAATA
Found at i:13668480 original size:145 final size:144
Alignment explanation
Indices: 13668273--13668693 Score: 435
Period size: 145 Copynumber: 2.9 Consensus size: 144
13668263 TTATGATTTG
* * * *
13668273 GAAAGTTTCATGAAATTTCGAGCT-TAGAAAGGCTAAATTATGAAAATACCCTTATGAGGGTATT
1 GAAAGTTTCATGAAATTTTGAGCTCGA-AAAGGC-AAATTATGAAAATACCCCTATAAGGGTATT
* * * *
13668337 TTGATAATTTCACTCTTTTCAGGGTGCTGTTATAATTTCAAACGCATCAAAAATCATGAAATGTT
64 TTGGTAATTTCACTCTTTTCAGGGTACTATTATGATTTCAAACGCATCAAAAATCATGAAATGTT
13668402 ATAAAACT-AGAATCTA
129 ATAAAACTGAG-ATCTA
* *
13668418 GAAAGTTTCATGAAATTTTGAGATCGAAAAGGCCAAATTATGAAAATACCCCTCA-AAAGGTATT
1 GAAAGTTTCATGAAATTTTGAGCTCGAAAAGG-CAAATTATGAAAATACCCCT-ATAAGGGTATT
* * * * * *
13668482 TTGGTAATTTCACGCTTTTC-GGGATACTACTATGTTTTCGAACTCACCAAAAATCATGAAATGT
64 TTGGTAATTTCACTCTTTTCAGGG-TACTATTATGATTTCAAACGCATCAAAAATCATGAAATGT
* * * *
13668546 TACAAAAAGTGAGATTTG
128 TA-TAAAACTGAGATCTA
* * *
13668564 GAAAGTTTCAAGAAATTATGAGCTCAGAAAAGTG-AAATTATCAAAATACCCCTATAAGGGTATT
1 GAAAGTTTCATGAAATTTTGAGCTC-GAAAAG-GCAAATTATGAAAATACCCCTATAAGGGTATT
* * * * * *
13668628 TTGGCAATTTCACAT-TTTT-AGGGTACCATTATGATTT-TAATGCATAAAAAATCATGAAATAT
64 TTGGTAATTTCAC-TCTTTTCAGGGTACTATTATGATTTCAAACGCATCAAAAATCATGAAATGT
13668690 TATA
128 TATA
13668694 GGATTAAGGT
Statistics
Matches: 228, Mismatches: 37, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
143 1 0.00
144 24 0.11
145 116 0.51
146 78 0.34
147 8 0.04
148 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (144 bp):
GAAAGTTTCATGAAATTTTGAGCTCGAAAAGGCAAATTATGAAAATACCCCTATAAGGGTATTTT
GGTAATTTCACTCTTTTCAGGGTACTATTATGATTTCAAACGCATCAAAAATCATGAAATGTTAT
AAAACTGAGATCTA
Found at i:13672279 original size:9 final size:9
Alignment explanation
Indices: 13672265--13672295 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
13672255 ATTTTTCTTA
13672265 AAAAAAATG
1 AAAAAAATG
13672274 -AAAAAATG
1 AAAAAAATG
13672282 AAAAAAATG
1 AAAAAAATG
13672291 AAAAA
1 AAAAA
13672296 CAAAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAAAAATG
Found at i:13672285 original size:7 final size:8
Alignment explanation
Indices: 13672266--13672295 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
13672256 TTTTTCTTAA
13672266 AAAAAATG
1 AAAAAATG
13672274 AAAAAATG
1 AAAAAATG
13672282 AAAAAAATG
1 -AAAAAATG
13672291 AAAAA
1 AAAAA
13672296 CAAAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAAATG
Found at i:13673432 original size:35 final size:35
Alignment explanation
Indices: 13673384--13673544 Score: 164
Period size: 35 Copynumber: 4.6 Consensus size: 35
13673374 CGAGTCGTAG
13673384 TTCAATC-CTAGTCATATTTATTCTTTGACTTACGA
1 TTCAATCTC-AGTCATATTTATTCTTTGACTTACGA
*
13673419 TTCAATCTCAGTCATATTTATTCTTTGACTTACGG
1 TTCAATCTCAGTCATATTTATTCTTTGACTTACGA
* * * * * *
13673454 TTCAGTTTCAATCATATTTATTCCCTT-ACTTGCTA
1 TTCAATCTCAGTCATATTTATT-CTTTGACTTACGA
* * * * *
13673489 GTCAATCCCAGTCATATTTATTCTTTAACTCACAA
1 TTCAATCTCAGTCATATTTATTCTTTGACTTACGA
**
13673524 TTCAATCTTGGTCATATTTAT
1 TTCAATCTCAGTCATATTTAT
13673545 AATTTAACTC
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
34 3 0.03
35 95 0.93
36 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.45
Consensus pattern (35 bp):
TTCAATCTCAGTCATATTTATTCTTTGACTTACGA
Found at i:13673681 original size:35 final size:35
Alignment explanation
Indices: 13673642--13673948 Score: 157
Period size: 35 Copynumber: 8.8 Consensus size: 35
13673632 AATCCTGGTT
* *
13673642 ATTTTCATTCTTTGACTCACAATTCAATC-CTAATC
1 ATTTTCATTCTTTGACTCACAGTTCAATCTC-GATC
* * **** *
13673677 ATTTTTTATTTTTTGACTTGTGGTTCAATTTCGATC
1 A-TTTTCATTCTTTGACTCACAGTTCAATCTCGATC
* * * * *
13673713 ATATTT--TT-TTTAACTTATAGTTCAATCCCGATT
1 AT-TTTCATTCTTTGACTCACAGTTCAATCTCGATC
* *
13673746 ATTTTCATTCTTCGACTCACAGTTCAATATCGATC
1 ATTTTCATTCTTTGACTCACAGTTCAATCTCGATC
* ** *** *
13673781 ATTTTTATTCTTCAACT-TTTGATTCAATCTCAATC
1 ATTTTCATTCTTTGACTCACAG-TTCAATCTCGATC
* ** *
13673816 ATTTTTATTCTTTGACTCATGGTTCAATCT-GGTC
1 ATTTTCATTCTTTGACTCACAGTTCAATCTCGATC
* *
13673850 ATTTTCACTT-TTTAACTCACAATTCAATCTCGATC
1 ATTTTCA-TTCTTTGACTCACAGTTCAATCTCGATC
* ** *
13673885 ATATTT-ATTCTTCGACTTGC-GATTCAATC-CCAGTC
1 AT-TTTCATTCTTTGACTCACAG-TTCAATCTCGA-TC
* *
13673920 ATTTTCATTCCTTGACTCACAGTTAAATC
1 ATTTTCATTCTTTGACTCACAGTTCAATC
13673949 CTGGTTATTT
Statistics
Matches: 204, Mismatches: 52, Indels: 32
0.71 0.18 0.11
Matches are distributed among these distances:
32 3 0.01
33 21 0.10
34 36 0.18
35 110 0.54
36 33 0.16
37 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (35 bp):
ATTTTCATTCTTTGACTCACAGTTCAATCTCGATC
Found at i:13673825 original size:20 final size:19
Alignment explanation
Indices: 13673768--13673825 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 19
13673758 CGACTCACAG
*
13673768 TTCAATATCGATCATTTTTA
1 TTCAAT-TCAATCATTTTTA
*
13673788 TTC--TTCAA-C-TTTTGA
1 TTCAATTCAATCATTTTTA
13673803 TTCAATCTCAATCATTTTTA
1 TTCAAT-TCAATCATTTTTA
13673823 TTC
1 TTC
13673826 TTTGACTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
15 8 0.27
16 1 0.03
17 4 0.13
18 5 0.17
19 1 0.03
20 11 0.37
ACGTcount: A:0.26, C:0.19, G:0.03, T:0.52
Consensus pattern (19 bp):
TTCAATTCAATCATTTTTA
Found at i:13673854 original size:104 final size:105
Alignment explanation
Indices: 13673632--13673971 Score: 343
Period size: 104 Copynumber: 3.3 Consensus size: 105
13673622 TTCGAGGTTT
* * * *
13673632 AATCCTGGTTATTTTCA-TTCTTTGACTCACAATTCAATCCTAATCATTTTTTATTTTTTGACTT
1 AATCCTGGTTATTTTCACTTCTTTGACTCACAATTCAATTC-GATCA-TTTTTATTCTTCGACTT
* * * * * *
13673696 GTGGTTCAATTTCGATCATATTT-TT-TTTAACTTATAGTTC
64 GTGATTCAATCTCAATCATTTTTATTCTTTGACTCATAGTTC
* * * * * *
13673736 AATCCCGATTATTTTCA-TTCTTCGACTCACAGTTCAATATCGATCATTTTTATTCTTCAACTTT
1 AATCCTGGTTATTTTCACTTCTTTGACTCACAATTCAAT-TCGATCATTTTTATTCTTCGACTTG
*
13673800 TGATTCAATCTCAATCATTTTTATTCTTTGACTCATGGTTC
65 TGATTCAATCTCAATCATTTTTATTCTTTGACTCATAGTTC
* * *
13673841 AAT-CTGGTCATTTTCACTT-TTTAACTCACAATTCAATCTCGATCATATTTATTCTTCGACTTG
1 AATCCTGGTTATTTTCACTTCTTTGACTCACAATTCAAT-TCGATCATTTTTATTCTTCGACTTG
* * * * * * *
13673904 CGATTCAATCCCAGTCATTTTCATTCCTTGACTCACAGTTA
65 TGATTCAATCTCAATCATTTTTATTCTTTGACTCATAGTTC
*
13673945 AATCCTGGTTATTTTCATTTC-TTGACT
1 AATCCTGGTTATTTTCACTTCTTTGACT
13673972 TGCAGTTCAA
Statistics
Matches: 192, Mismatches: 38, Indels: 11
0.80 0.16 0.05
Matches are distributed among these distances:
103 32 0.17
104 123 0.64
105 37 0.19
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.47
Consensus pattern (105 bp):
AATCCTGGTTATTTTCACTTCTTTGACTCACAATTCAATTCGATCATTTTTATTCTTCGACTTGT
GATTCAATCTCAATCATTTTTATTCTTTGACTCATAGTTC
Found at i:13673972 original size:70 final size:71
Alignment explanation
Indices: 13673892--13674036 Score: 190
Period size: 70 Copynumber: 2.1 Consensus size: 71
13673882 ATCATATTTA
* *
13673892 TTCTTCGACTTGC-GATTCAATCCCAGTCAT-TTTCATTCCTTGACTCACAGT-TAAATCCTGGT
1 TTCTTCGACTTGCAG-TTCAACCCCAGTCATATTT-ATTCCTTGACTCACAGTCTAAA-CCTGAT
13673954 TATTTTCAT
63 TATTTTCAT
* * *
13673963 TTCTT-GACTTGCAGTTCAACCCCAGTCATATTTATTCTTTGGCTCATAGTCTAAACCTGATTAT
1 TTCTTCGACTTGCAGTTCAACCCCAGTCATATTTATTCCTTGACTCACAGTCTAAACCTGATTAT
13674027 TTTCAT
66 TTTCAT
13674033 TTCT
1 TTCT
13674037 CAACTAGCAG
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
70 53 0.80
71 13 0.20
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.43
Consensus pattern (71 bp):
TTCTTCGACTTGCAGTTCAACCCCAGTCATATTTATTCCTTGACTCACAGTCTAAACCTGATTAT
TTTCAT
Found at i:13678916 original size:15 final size:15
Alignment explanation
Indices: 13678891--13678926 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
13678881 TCTTCTTAGT
13678891 CTTAGTTAGTTTACTC
1 CTTA-TTAGTTTACTC
13678907 CTTATTAGTTTACTC
1 CTTATTAGTTTACTC
13678922 CTTAT
1 CTTAT
13678927 GCAAGCAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.19, C:0.19, G:0.08, T:0.53
Consensus pattern (15 bp):
CTTATTAGTTTACTC
Found at i:13685672 original size:14 final size:13
Alignment explanation
Indices: 13685617--13685672 Score: 69
Period size: 14 Copynumber: 4.2 Consensus size: 13
13685607 ATGAAAATTT
13685617 AATTAAAAATTATTA
1 AATTAAAAATTA--A
13685632 AA-TAAAAATTAA
1 AATTAAAAATTAA
*
13685644 AATTAAAAGTTAA
1 AATTAAAAATTAA
13685657 AATTAATAAATTAA
1 AATTAA-AAATTAA
13685671 AA
1 AA
13685673 GATTTTGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
12 3 0.08
13 15 0.41
14 17 0.46
15 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (13 bp):
AATTAAAAATTAA
Found at i:13686441 original size:22 final size:20
Alignment explanation
Indices: 13686402--13686448 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 20
13686392 ATTTATACTT
13686402 TTTAATTTTTTATAAAATATTG
1 TTTAATTTTTTAT-AAA-ATTG
13686424 TTTAATTATTTTAT-AAATTG
1 TTTAATT-TTTTATAAAATTG
13686444 TTTAA
1 TTTAA
13686449 ATAAGTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.38
21 2 0.08
22 7 0.29
23 6 0.25
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTAATTTTTTATAAAATTG
Found at i:13690973 original size:18 final size:20
Alignment explanation
Indices: 13690950--13691011 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
13690940 AATTTTAAAT
*
13690950 ATATTTAT-ATAA-AGTCAA
1 ATATTTATAAAAATAGTCAA
*
13690968 ATATTTTTAAAAATAGTCAA
1 ATATTTATAAAAATAGTCAA
* *
13690988 ATATTTCTAAAAATA-TAAA
1 ATATTTATAAAAATAGTCAA
13691007 ATATT
1 ATATT
13691012 AAAATATTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 7 0.18
19 11 0.29
20 20 0.53
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (20 bp):
ATATTTATAAAAATAGTCAA
Found at i:13691036 original size:29 final size:27
Alignment explanation
Indices: 13690974--13691046 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 27
13690964 TCAAATATTT
* * *
13690974 TTAAAAATAGTCAAATATTTCTAAAAA
1 TTAAAAATATTAAAATATTTATAAAAA
13691001 -TATAAAATATTAAAATATTTGTATAAAAA
1 TTA-AAAATATTAAAATA-TT-TATAAAAA
*
13691030 TTAAAAAGTATAAAAAT
1 TTAAAAA-TATTAAAAT
13691047 TCAATTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
26 2 0.05
27 12 0.32
28 2 0.05
29 11 0.30
30 10 0.27
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (27 bp):
TTAAAAATATTAAAATATTTATAAAAA
Found at i:13693628 original size:13 final size:13
Alignment explanation
Indices: 13693591--13693635 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
13693581 ATGAAAATTT
13693591 AATTAAAAATTATTA
1 AATTAAAAATTA--A
*
13693606 AA-TGAAAATTAA
1 AATTAAAAATTAA
13693618 AATTAAAAATTAA
1 AATTAAAAATTAA
13693631 AATTA
1 AATTA
13693636 TAGGTTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 3 0.11
13 14 0.52
14 8 0.30
15 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
AATTAAAAATTAA
Found at i:13698200 original size:2 final size:2
Alignment explanation
Indices: 13698193--13698227 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
13698183 TCATTTCATA
* *
13698193 AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13698228 ATTTTAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:13708657 original size:24 final size:24
Alignment explanation
Indices: 13708612--13708657 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
13708602 GATTTTGATG
*
13708612 TTTATATAAAATATTTTATTAGAC
1 TTTATATAAAATATATTATTAGAC
** *
13708636 TTTATATTTAATATATTGTTAG
1 TTTATATAAAATATATTATTAG
13708658 TGCTTATATC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (24 bp):
TTTATATAAAATATATTATTAGAC
Found at i:13708932 original size:19 final size:19
Alignment explanation
Indices: 13708887--13708932 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
13708877 GGTAGTGTAT
* *
13708887 AAATATGAATTCTTTTATTA
1 AAATAT-AATTATTTTATAA
*
13708907 AATTATAATTATTTTATAA
1 AAATATAATTATTTTATAA
13708926 AAATATA
1 AAATATA
13708933 TTTGAAAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
AAATATAATTATTTTATAA
Found at i:13713430 original size:20 final size:22
Alignment explanation
Indices: 13713401--13713441 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
13713391 CAAACCACAA
13713401 AGTAAAATG-TC-TACACATAC
1 AGTAAAATGTTCGTACACATAC
*
13713421 AGTAAGATGTTCGTACACATA
1 AGTAAAATGTTCGTACACATA
13713442 GTAGGATGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (22 bp):
AGTAAAATGTTCGTACACATAC
Found at i:13721778 original size:12 final size:12
Alignment explanation
Indices: 13721755--13721787 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
13721745 AATGGTTATT
13721755 ATATTATAATATA
1 ATATT-TAATATA
13721768 ATATTTAATATA
1 ATATTTAATATA
13721780 ATATTTAA
1 ATATTTAA
13721788 ATTTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATTTAATATA
Found at i:13722413 original size:15 final size:15
Alignment explanation
Indices: 13722393--13722426 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13722383 ATATATTTAT
13722393 TGAAAAATTCTA-TAC
1 TGAAAAATT-TAGTAC
13722408 TGAAAAATTTAGTAC
1 TGAAAAATTTAGTAC
13722423 TGAA
1 TGAA
13722427 TTTTCAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 16 0.89
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (15 bp):
TGAAAAATTTAGTAC
Found at i:13723237 original size:76 final size:76
Alignment explanation
Indices: 13723143--13723289 Score: 206
Period size: 76 Copynumber: 1.9 Consensus size: 76
13723133 GGGGAGGTTA
* * * *
13723143 ACTGTGCTACCTATAGGCTACGACCATCAATCATACTGATCCTTTTCGAA-AACTATTGTATAAG
1 ACTGTGATACCTACAGGCTACAACCATCAATCAAACTGATCCTTTTCGAAGAA-TATTGTATAAG
13723207 TTTCTAAGATTC
65 TTTCTAAGATTC
* * * *
13723219 ACTGTGATACCTGCAGGCTACAACCATCAATCAAATTGATCGTTTTTGAAGAATATTGTATAAGT
1 ACTGTGATACCTACAGGCTACAACCATCAATCAAACTGATCCTTTTCGAAGAATATTGTATAAGT
13723284 TTCTAA
66 TTCTAA
13723290 AAGATTCCAA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
76 60 0.97
77 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (76 bp):
ACTGTGATACCTACAGGCTACAACCATCAATCAAACTGATCCTTTTCGAAGAATATTGTATAAGT
TTCTAAGATTC
Found at i:13724686 original size:22 final size:22
Alignment explanation
Indices: 13724661--13724712 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
13724651 TGAATTCTGG
**
13724661 TATTTTTTTTATTTTATTCCTT
1 TATTTTTTTTAAATTATTCCTT
* * *
13724683 TATTTCTATTAAATTATTTCTT
1 TATTTTTTTTAAATTATTCCTT
13724705 TATTTTTT
1 TATTTTTT
13724713 AATTGTTTAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (22 bp):
TATTTTTTTTAAATTATTCCTT
Found at i:13731237 original size:13 final size:14
Alignment explanation
Indices: 13731219--13731247 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13731209 TGATATGGGC
13731219 AATGAGAAAA-TGA
1 AATGAGAAAAGTGA
13731232 AATGAGAAAAGTGA
1 AATGAGAAAAGTGA
13731246 AA
1 AA
13731248 AACCTTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.14
Consensus pattern (14 bp):
AATGAGAAAAGTGA
Found at i:13731520 original size:23 final size:23
Alignment explanation
Indices: 13731493--13731536 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13731483 TTTGATATAG
* *
13731493 ATTTCATACATTGCATTCATTAC
1 ATTTCATACATTCCATGCATTAC
*
13731516 ATTTCATGCATTCCATGCATT
1 ATTTCATACATTCCATGCATT
13731537 GTCTGCATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (23 bp):
ATTTCATACATTCCATGCATTAC
Found at i:13736522 original size:21 final size:22
Alignment explanation
Indices: 13736498--13736540 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
13736488 AAAAAAATAG
*
13736498 TTTTT-CATAAAATCTTATTAA
1 TTTTTACAAAAAATCTTATTAA
13736519 TTTTTGACAAAAAATCTTATTA
1 TTTTT-ACAAAAAATCTTATTA
13736541 TTTCTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
23 14 0.74
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTTTACAAAAAATCTTATTAA
Found at i:13736555 original size:22 final size:23
Alignment explanation
Indices: 13736506--13736556 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
13736496 AGTTTTTCAT
* *
13736506 AAAATCTTATTAATTTTTGACAA
1 AAAATCTTATTAATTTCTGAAAA
13736529 AAAATCTTATT-ATTTCT-AAAA
1 AAAATCTTATTAATTTCTGAAAA
13736550 ATAAATC
1 A-AAATC
13736557 ATTTTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.16
22 10 0.40
23 11 0.44
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (23 bp):
AAAATCTTATTAATTTCTGAAAA
Found at i:13741437 original size:39 final size:39
Alignment explanation
Indices: 13741390--13741465 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 39
13741380 ATATTAACAC
13741390 AAATTATAAA-AAATAAT-TTTTATATAAAATATAATAAA
1 AAATTATAAATAAATAATATTTTATATAAAATA-AATAAA
* * *
13741428 AAATATATAAATTATTAATATTTTATATAATATAAATA
1 AAAT-TATAAATAAATAATATTTTATATAAAATAAATA
13741466 CGTTAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 4 0.12
39 6 0.19
40 9 0.28
41 13 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (39 bp):
AAATTATAAATAAATAATATTTTATATAAAATAAATAAA
Found at i:13742230 original size:17 final size:17
Alignment explanation
Indices: 13742208--13742243 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
13742198 TTCACATACC
13742208 ATCTCTCTTTGCTTGAG
1 ATCTCTCTTTGCTTGAG
13742225 ATCTCTCTTTGCTTGAG
1 ATCTCTCTTTGCTTGAG
13742242 AT
1 AT
13742244 TGTTGGTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (17 bp):
ATCTCTCTTTGCTTGAG
Found at i:13742614 original size:2 final size:2
Alignment explanation
Indices: 13742607--13742635 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13742597 ATATAAGAGC
13742607 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13742636 AAGCAAGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13746980 original size:22 final size:22
Alignment explanation
Indices: 13746903--13746981 Score: 57
Period size: 19 Copynumber: 4.0 Consensus size: 22
13746893 TGCAAGAATG
13746903 TCATGCAAATATATTAAT--TA
1 TCATGCAAATATATTAATAATA
* *
13746923 TCTTAC-AATA-A-TAATAATA
1 TCATGCAAATATATTAATAATA
* * *
13746942 --AT-CATATAAATTTATAATA
1 TCATGCAAATATATTAATAATA
13746961 TCATGCAAATATATTAATAAT
1 TCATGCAAATATATTAATAAT
13746982 TATGTAATTA
Statistics
Matches: 43, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
16 1 0.02
17 8 0.19
18 2 0.05
19 13 0.30
20 4 0.09
21 2 0.05
22 13 0.30
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (22 bp):
TCATGCAAATATATTAATAATA
Found at i:13747713 original size:128 final size:129
Alignment explanation
Indices: 13747548--13747805 Score: 338
Period size: 129 Copynumber: 2.0 Consensus size: 129
13747538 ATGGTATTTT
* *
13747548 CATAATTTGGCCTTCCCAAACTTGGATTTTCATGAAACTTTTCAGAT-TTAATTTCATAATATTT
1 CATAATTTGGCCTTCCCAAACTTGAATTTTCATGAAACTTTTCAGATATCAATTTCATAATATTT
* *
13747612 CATGATTTTTAATGCATTTCAAATCACAGTAGTACATTAAAAAGTATAAAATTACCAAAATACC
66 CATGATTTTTAATGCATTTCAAATCACAGTAATACACTAAAAAGTATAAAATTACCAAAATACC
* ** * * *
13747676 CATAATTTGGCTTTTTCAAGCTTGAATTTTCATGAAACTTTTCAGATATCAATTTTATAGTATTT
1 CATAATTTGGCCTTCCCAAACTTGAATTTTCATGAAACTTTTCAGATATCAATTTCATAATATTT
** * * * * * **
13747741 CATGATTTTTGGTGCATTTGAAATCGCAGTAATACCCTAAAAAGTGTGAAATTATGAAAATACC
66 CATGATTTTTAATGCATTTCAAATCACAGTAATACACTAAAAAGTATAAAATTACCAAAATACC
13747805 C
1 C
13747806 CATACAAGGG
Statistics
Matches: 110, Mismatches: 19, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
128 42 0.38
129 68 0.62
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.38
Consensus pattern (129 bp):
CATAATTTGGCCTTCCCAAACTTGAATTTTCATGAAACTTTTCAGATATCAATTTCATAATATTT
CATGATTTTTAATGCATTTCAAATCACAGTAATACACTAAAAAGTATAAAATTACCAAAATACC
Found at i:13749010 original size:14 final size:13
Alignment explanation
Indices: 13748993--13749036 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
13748983 ATATTTCCCC
13748993 TTTTTTATTTTA-
1 TTTTTTATTTTAT
*
13749005 TTTTTTA-CTTAT
1 TTTTTTATTTTAT
13749017 TTTTTTATATTTAT
1 TTTTTTAT-TTTAT
13749031 TTTTTT
1 TTTTTT
13749037 TATAAAGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 3 0.11
12 14 0.52
14 10 0.37
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTATTTTAT
Found at i:13749068 original size:31 final size:30
Alignment explanation
Indices: 13749032--13749099 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
13749022 TATATTTATT
*
13749032 TTTTTTAT-AAAGGATAAAATAATAATTTTCC
1 TTTTTTATAAAAAGATAAAA-AA-AATTTTCC
*
13749063 TTTTTTATGAAAAAGATAAAAAAAATTTTTC
1 TTTTTTAT-AAAAAGATAAAAAAAATTTTCC
13749094 TTTTTT
1 TTTTTT
13749100 TTCTTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 21 0.64
32 2 0.06
33 10 0.30
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (30 bp):
TTTTTTATAAAAAGATAAAAAAAATTTTCC
Found at i:13749109 original size:33 final size:30
Alignment explanation
Indices: 13749030--13749101 Score: 81
Period size: 33 Copynumber: 2.3 Consensus size: 30
13749020 TTTATATTTA
*
13749030 TTTTTTTTATAAAGGATAAAATAATAATTTTCC
1 TTTTTTTTA-AAAAGATAAAA-AA-AATTTTCC
* *
13749063 TTTTTTATGAAAAAGATAAAAAAAATTTTTC
1 TTTTTT-TTAAAAAGATAAAAAAAATTTTCC
13749094 TTTTTTTT
1 TTTTTTTT
13749102 CTTAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
30 1 0.03
31 13 0.38
32 2 0.06
33 16 0.47
34 2 0.06
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (30 bp):
TTTTTTTTAAAAAGATAAAAAAAATTTTCC
Found at i:13749605 original size:23 final size:22
Alignment explanation
Indices: 13749568--13749618 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
13749558 TCCCAAACCC
13749568 AAAAAAACCTAGAAAAATTTCAA
1 AAAAAAACCTAGAAAAA-TTCAA
* *
13749591 AAAAAAATCTTGAAAAATTCAA
1 AAAAAAACCTAGAAAAATTCAA
13749613 AAAAAA
1 AAAAAA
13749619 TTCCTAGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.69, C:0.10, G:0.04, T:0.18
Consensus pattern (22 bp):
AAAAAAACCTAGAAAAATTCAA
Found at i:13750035 original size:6 final size:6
Alignment explanation
Indices: 13750026--13750105 Score: 61
Period size: 6 Copynumber: 13.0 Consensus size: 6
13750016 AAGGAAACAA
* * * * *
13750026 AAAAAT AAAAAC AAAAAT AAAAGT AAAAAAT AAAAAT AACAAT AATAGT
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT
* * * *
13750075 AATAAT AATAAT AATAAT AATAAT ACAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT
13750106 TTAATTGTAC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
6 54 0.86
7 9 0.14
ACGTcount: A:0.72, C:0.04, G:0.03, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:13750041 original size:13 final size:13
Alignment explanation
Indices: 13750020--13750061 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
13750010 GTAGAAAAGG
13750020 AAACAAAAAAATAA
1 AAAC-AAAAAATAA
13750034 AAAC-AAAAATAA
1 AAACAAAAAATAA
**
13750046 AAGTAAAAAATAA
1 AAACAAAAAATAA
13750059 AAA
1 AAA
13750062 TAACAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 10 0.42
13 10 0.42
14 4 0.17
ACGTcount: A:0.83, C:0.05, G:0.02, T:0.10
Consensus pattern (13 bp):
AAACAAAAAATAA
Found at i:13750053 original size:25 final size:25
Alignment explanation
Indices: 13750025--13750085 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
13750015 AAAGGAAACA
13750025 AAAAAATAAAAACAAAAATAAAAGT
1 AAAAAATAAAAACAAAAATAAAAGT
* * *
13750050 AAAAAATAAAAATAACAATAATAGT
1 AAAAAATAAAAACAAAAATAAAAGT
13750075 AATAATAATAA
1 AA-AA-AATAA
13750086 TAATAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 24 0.77
26 2 0.06
27 5 0.16
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (25 bp):
AAAAAATAAAAACAAAAATAAAAGT
Found at i:13750080 original size:3 final size:3
Alignment explanation
Indices: 13750054--13750099 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
13750044 AAAAGTAAAA
* * *
13750054 AAT AAA AAT AAC AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13750100 CAAAATTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:13751060 original size:118 final size:118
Alignment explanation
Indices: 13750757--13751066 Score: 397
Period size: 119 Copynumber: 2.6 Consensus size: 118
13750747 ATCGGGGCAA
* *** * *
13750757 AACCATAAGTCGAAATAAAATGACCAGGACTGAGTCAAGGTCAAAAATAAATGATC-GAAACGAA
1 AACCATAAGTCAAAATAAAGCAACCAGGACCGAGTCAAGGTCAAAAATAAATGATCAG-GACGAA
* * *
13750821 ATCACGAATTATTAGAAGTGATCTAGGTTGAGCCAAGATCAAATGACTAAAGTG
65 ACCACGAATTATTAGAAGTGATCTAGGCTGAGCCAAGATCAAACGACTAAAGTG
* * * * * * *
13750875 ACACCACAAGTCAAAAGAAAGCAACTAGGATCGAGTCAATGTCGAAAATAAATGATCAAGACGAA
1 A-ACCATAAGTCAAAATAAAGCAACCAGGACCGAGTCAAGGTCAAAAATAAATGATCAGGACGAA
* * * *
13750940 ACCACGAATTATTAGAAGTGATCTGGGCTGAGCCAAGATCAAACGATTGAGGTG
65 ACCACGAATTATTAGAAGTGATCTAGGCTGAGCCAAGATCAAACGACTAAAGTG
* *
13750994 AACCATAAGTCAAAATAAAGCAACCAGGACCGAGTCAAGGTAAAAAATAAATGATCAGGACAAAA
1 AACCATAAGTCAAAATAAAGCAACCAGGACCGAGTCAAGGTCAAAAATAAATGATCAGGACGAAA
13751059 CCACGAAT
66 CCACGAAT
13751067 CATAAAAAAT
Statistics
Matches: 161, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
118 64 0.40
119 97 0.60
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (118 bp):
AACCATAAGTCAAAATAAAGCAACCAGGACCGAGTCAAGGTCAAAAATAAATGATCAGGACGAAA
CCACGAATTATTAGAAGTGATCTAGGCTGAGCCAAGATCAAACGACTAAAGTG
Found at i:13762023 original size:12 final size:11
Alignment explanation
Indices: 13762006--13762055 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
13761996 ATATTTTCCC
13762006 TTTTTTATTTTAT
1 TTTTTTA-TTT-T
* *
13762019 TTTTTTACTTA
1 TTTTTTATTTT
13762030 TTTTTTATTTT
1 TTTTTTATTTT
13762041 TTTTTTATTTT
1 TTTTTTATTTT
13762052 TTTT
1 TTTT
13762056 ATAAAGGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 24 0.73
12 2 0.06
13 7 0.21
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTATTTT
Found at i:13762032 original size:31 final size:30
Alignment explanation
Indices: 13761997--13762054 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13761987 GTAAATTTTA
*
13761997 TATTTTCCCTTTTTTATTTTATTTTTTTACT
1 TATTTTCCATTTTTT-TTTTATTTTTTTACT
**
13762028 TATTTTTTATTTTTTTTTTATTTTTTT
1 TATTTTCCATTTTTTTTTTATTTTTTT
13762055 TATAAAGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (30 bp):
TATTTTCCATTTTTTTTTTATTTTTTTACT
Found at i:13762033 original size:11 final size:9
Alignment explanation
Indices: 13762006--13762057 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
13761996 ATATTTTCCC
13762006 TTTTTTATT
1 TTTTTTATT
*
13762015 TTATTT-TT
1 TTTTTTATT
**
13762023 TTACTTATT
1 TTTTTTATT
13762032 TTTTATT-TT
1 TTTT-TTATT
13762041 TTTTTTATT
1 TTTTTTATT
13762050 TTTTTTAT
1 TTTTTTAT
13762058 AAAGGATAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 9 0.25
9 25 0.69
10 2 0.06
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTATT
Found at i:13762054 original size:19 final size:19
Alignment explanation
Indices: 13762013--13762053 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
13762003 CCCTTTTTTA
13762013 TTTTATTTTTTTACTTATT
1 TTTTATTTTTTTACTTATT
*
13762032 TTTTATTTTTTT-TTTATT
1 TTTTATTTTTTTACTTATT
13762050 TTTT
1 TTTT
13762054 TTATAAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTATTTTTTTACTTATT
Found at i:13762195 original size:19 final size:20
Alignment explanation
Indices: 13762153--13762203 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
13762143 AAATAGGGGT
13762153 AAAAT-AAATAAATCAAAATC
1 AAAATCAAA-AAATCAAAATC
*
13762173 AAAATCAAAAAAT-AAAATG
1 AAAATCAAAAAATCAAAATC
13762192 AAAATACAAAAA
1 AAAAT-CAAAAA
13762204 GGAAAACCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 10 0.36
20 15 0.54
21 3 0.11
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.16
Consensus pattern (20 bp):
AAAATCAAAAAATCAAAATC
Found at i:13763091 original size:3 final size:3
Alignment explanation
Indices: 13763083--13763117 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
13763073 AAAATAAAAG
13763083 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13763118 GAATCTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:13766061 original size:33 final size:32
Alignment explanation
Indices: 13766018--13766190 Score: 105
Period size: 32 Copynumber: 5.9 Consensus size: 32
13766008 TAAATAAATT
* *
13766018 AATAACCATGCAATTAACGATATA-AATCATTCA
1 AATAAACATGCAATTAA--ATATATAATCATGCA
13766051 AATAAACATGCAATTAAATATATAATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
* *
13766083 AAT-AA-A---AA-T--ATATA-AAACTATGTA
1 AATAAACATGCAATTAAATATATAATC-ATGCA
* *
13766107 AATAAATATGTAATTAAATATATAATCATGC-
1 AATAAACATGCAATTAAATATATAATCATGCA
* *
13766138 AAT-TA-AT--AA-T--ACATA-AATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
*
13766162 AATAAATATGCAATTAAATATATAATCAT
1 AATAAACATGCAATTAAATATATAATCAT
13766191 ATAATAATAA
Statistics
Matches: 110, Mismatches: 10, Indels: 41
0.68 0.06 0.25
Matches are distributed among these distances:
23 11 0.10
24 19 0.17
25 3 0.03
26 5 0.05
27 4 0.04
28 2 0.02
29 5 0.05
30 3 0.03
31 14 0.13
32 25 0.23
33 19 0.17
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (32 bp):
AATAAACATGCAATTAAATATATAATCATGCA
Found at i:13766080 original size:20 final size:20
Alignment explanation
Indices: 13766052--13766170 Score: 77
Period size: 20 Copynumber: 6.0 Consensus size: 20
13766042 AATCATTCAA
*
13766052 ATAAACATGCAATTAAATAT
1 ATAATCATGCAATTAAATAT
* *
13766072 ATAATCATGCAAATAAAAAT
1 ATAATCATGCAATTAAATAT
* ** *
13766092 AT-ATAAAACTATGT-AA-AT
1 ATAATCATGCAAT-TAAATAT
*
13766110 A-AAT-ATGTAATTAAATAT
1 ATAATCATGCAATTAAATAT
*
13766128 ATAATCATGCAATTAATAATAC
1 ATAATCATGCAATT-A-AATAT
*
13766150 ATAAATCATGCAAATAAATAT
1 AT-AATCATGCAATTAAATAT
13766171 GCAATTAAAT
Statistics
Matches: 74, Mismatches: 16, Indels: 17
0.69 0.15 0.16
Matches are distributed among these distances:
16 1 0.01
17 5 0.07
18 8 0.11
19 10 0.14
20 27 0.36
21 5 0.07
22 7 0.09
23 11 0.15
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.31
Consensus pattern (20 bp):
ATAATCATGCAATTAAATAT
Found at i:13766109 original size:24 final size:22
Alignment explanation
Indices: 13766052--13766112 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 22
13766042 AATCATTCAA
*
13766052 ATAAACATGC-AAT-TAAATAT
1 ATAAACATGCAAATAAAAATAT
*
13766072 ATAATCATGCAAATAAAAATAT
1 ATAAACATGCAAATAAAAATAT
*
13766094 ATAAAACTATGTAAATAAA
1 AT-AAAC-ATGCAAATAAA
13766113 TATGTAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.27
21 3 0.09
22 8 0.24
23 3 0.09
24 10 0.30
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (22 bp):
ATAAACATGCAAATAAAAATAT
Found at i:13766122 original size:56 final size:55
Alignment explanation
Indices: 13766037--13766238 Score: 264
Period size: 56 Copynumber: 3.7 Consensus size: 55
13766027 GCAATTAACG
** *
13766037 ATATAAATCATTCAAATAAACATGCAATTAAATATATAATCATGCAAATAAAAAT
1 ATATAAATCATGAAAATAAACATGCAATTAAATATATAATCATGCAAATAATAAT
* * * * *
13766092 ATATAAAACTATGTAAATAAATATGTAATTAAATATATAATCATGCAATTAATAAT
1 ATATAAATC-ATGAAAATAAACATGCAATTAAATATATAATCATGCAAATAATAAT
* * *
13766148 ACATAAATCATGCAAATAAATATGCAATTAAATATATAATCAT--ATAATAATAAT
1 ATATAAATCATGAAAATAAACATGCAATTAAATATATAATCATGCA-AATAATAAT
*
13766202 ATATAAATCATGAAAATAAACATGTAATTAAATATAT
1 ATATAAATCATGAAAATAAACATGCAATTAAATATAT
13766239 TAATAATCAT
Statistics
Matches: 129, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 41 0.32
55 40 0.31
56 47 0.36
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.32
Consensus pattern (55 bp):
ATATAAATCATGAAAATAAACATGCAATTAAATATATAATCATGCAAATAATAAT
Done.