Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 24 of 356
Found at i:8259909 original size:30 final size:29
Alignment explanation
Indices: 8259875--8259938 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
8259865 AATTTACAAT
* * *
8259875 AATTAGATCAAATGAAAATTTCGTATATAA
1 AATTAGATAAAATCAAAATTT-ATATATAA
* *
8259905 AATTATATAAAATCAAAATTTATATATAC
1 AATTAGATAAAATCAAAATTTATATATAA
8259934 AATTA
1 AATTA
8259939 CCGTAATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.36
Consensus pattern (29 bp):
AATTAGATAAAATCAAAATTTATATATAA
Found at i:8266127 original size:38 final size:39
Alignment explanation
Indices: 8266068--8266145 Score: 97
Period size: 38 Copynumber: 2.0 Consensus size: 39
8266058 TCAGATGGCC
*
8266068 AAACATTTACAAGTTACAATAATCT-ACCATTTGCAGTG
1 AAACATTTACAAGTTACAATAACCTCACCATTTGCAGTG
* * *
8266106 AAACGTTTAC-AGCTTATAATAACCTCATCATTTGCAGTG
1 AAACATTTACAAG-TTACAATAACCTCACCATTTGCAGTG
8266145 A
1 A
8266146 GTACTGGTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 2 0.06
38 19 0.56
39 13 0.38
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (39 bp):
AAACATTTACAAGTTACAATAACCTCACCATTTGCAGTG
Found at i:8291025 original size:12 final size:11
Alignment explanation
Indices: 8291008--8291034 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8290998 TGCTGGCAAG
8291008 TTTTTTTTTTC
1 TTTTTTTTTTC
8291019 TTTTTTTTTTC
1 TTTTTTTTTTC
8291030 TTTTT
1 TTTTT
8291035 GTACTGCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:8293900 original size:28 final size:28
Alignment explanation
Indices: 8293860--8293917 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
8293850 ATTTTTTTCA
8293860 TACTTGGATCATTTGCTTTCATCAACTT
1 TACTTGGATCATTTGCTTTCATCAACTT
8293888 TACTTGGATCATTTGCTTTCATCAACTT
1 TACTTGGATCATTTGCTTTCATCAACTT
8293916 TA
1 TA
8293918 ATCTTGTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.47
Consensus pattern (28 bp):
TACTTGGATCATTTGCTTTCATCAACTT
Found at i:8297584 original size:25 final size:26
Alignment explanation
Indices: 8297532--8297585 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
8297522 ATTAAATTTT
8297532 TAATTTTTAAAAATTTTAACAAGTTA
1 TAATTTTTAAAAATTTTAACAAGTTA
* *
8297558 TAATTTTTAAAATTTTTAAGAAG-TA
1 TAATTTTTAAAAATTTTAACAAGTTA
8297583 TAA
1 TAA
8297586 AAATTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (26 bp):
TAATTTTTAAAAATTTTAACAAGTTA
Found at i:8314607 original size:34 final size:35
Alignment explanation
Indices: 8314563--8314629 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
8314553 CTGTAAAATG
8314563 TTTTCCGTAAAATGAATT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
* *
8314597 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTT
8314630 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
Found at i:8314694 original size:32 final size:32
Alignment explanation
Indices: 8314619--8314695 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 32
8314609 TGACTTACTG
* * *
8314619 GAAAATATTTTCTGGTGTTTGATTGAATCTGT
1 GAAAATATTTTCTGCTGTTTGATAGAATCTCT
*
8314651 GTAAAATATTTTCTGCTGTTTGATAG-ATTTCCT
1 G-AAAATATTTTCTGCTGTTTGATAGAATCT-CT
8314684 GAAAATATTTTC
1 GAAAATATTTTC
8314696 CGGAAAAGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 15 0.38
33 24 0.62
ACGTcount: A:0.27, C:0.09, G:0.17, T:0.47
Consensus pattern (32 bp):
GAAAATATTTTCTGCTGTTTGATAGAATCTCT
Found at i:8316004 original size:27 final size:27
Alignment explanation
Indices: 8315974--8316043 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
8315964 AATAATCAAT
*
8315974 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
8316001 TCAATATCTAACCAATTCAAGACATATA
1 TCAATATCCAA-CAATTCAAAACATATA
*
8316029 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
8316044 CTAAAATCTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:8318590 original size:6 final size:6
Alignment explanation
Indices: 8318579--8318609 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
8318569 AATATTTCCC
*
8318579 ACAGAA ACAGAA ACAGAA ACAAAA ACAGAA A
1 ACAGAA ACAGAA ACAGAA ACAGAA ACAGAA A
8318610 ATACAAACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.71, C:0.16, G:0.13, T:0.00
Consensus pattern (6 bp):
ACAGAA
Found at i:8336342 original size:19 final size:19
Alignment explanation
Indices: 8336318--8336354 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8336308 TATCCAATCC
8336318 AAGTTCAAGTGCCAAATTG
1 AAGTTCAAGTGCCAAATTG
*
8336337 AAGTTCAGGTGCCAAATT
1 AAGTTCAAGTGCCAAATT
8336355 CCGGGACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (19 bp):
AAGTTCAAGTGCCAAATTG
Found at i:8342712 original size:18 final size:18
Alignment explanation
Indices: 8342678--8342713 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8342668 GAGACAGTGA
*
8342678 CCTTTAGTTTCTGCCTCT
1 CCTTTAGTTCCTGCCTCT
*
8342696 CCTTTAGTTCCTTCCTCT
1 CCTTTAGTTCCTGCCTCT
8342714 TTTTTGCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.36, G:0.08, T:0.50
Consensus pattern (18 bp):
CCTTTAGTTCCTGCCTCT
Found at i:8346748 original size:12 final size:12
Alignment explanation
Indices: 8346722--8346756 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
8346712 TAGGTGGTTC
*
8346722 TTTCTT-TTATT
1 TTTCTTATTTTT
8346733 TTTCTTATTTTT
1 TTTCTTATTTTT
8346745 TTTCTTATTTTT
1 TTTCTTATTTTT
8346757 CCATTTCCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTCTTATTTTT
Found at i:8348982 original size:2 final size:2
Alignment explanation
Indices: 8348977--8349001 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8348967 ATATATATAT
8348977 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
8349002 TAATATGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8349301 original size:29 final size:30
Alignment explanation
Indices: 8349268--8349342 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 30
8349258 CTTAATTAAT
8349268 TATTTTAAAATTTTAAAAATC-TAAAAAAA
1 TATTTTAAAATTTTAAAAATCATAAAAAAA
*
8349297 TATTTTAATAA---TAAAAATCATTAAAAAA
1 TATTTTAA-AATTTTAAAAATCATAAAAAAA
8349325 TATTTCT-AAATTTTAAAA
1 TATTT-TAAAATTTTAAAA
8349343 TAATTAATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
27 10 0.26
28 13 0.33
29 9 0.23
30 7 0.18
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (30 bp):
TATTTTAAAATTTTAAAAATCATAAAAAAA
Found at i:8349343 original size:29 final size:28
Alignment explanation
Indices: 8349268--8349349 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
8349258 CTTAATTAAT
*
8349268 TATTTTAAAATTTTAAAAATC-TAAAAAAA
1 TATTTT-AAATTTT-AAAATCATTAAAAAA
* *
8349297 TATTTT-AATAATAAAAATCATTAAAAAA
1 TATTTTAAAT-TTTAAAATCATTAAAAAA
*
8349325 TATTTCTAAATTTTAAAATAATTAA
1 TATTT-TAAATTTTAAAATCATTAA
8349350 TTAATTTCTG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
27 9 0.21
28 13 0.30
29 18 0.42
30 3 0.07
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (28 bp):
TATTTTAAATTTTAAAATCATTAAAAAA
Found at i:8353431 original size:15 final size:16
Alignment explanation
Indices: 8353397--8353433 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
8353387 AAAGCCCTAA
8353397 TTTTCTCATTCTTTTC
1 TTTTCTCATTCTTTTC
*
8353413 -TTTCTC-TTTTTTTC
1 TTTTCTCATTCTTTTC
8353427 TTTTCTC
1 TTTTCTC
8353434 CATTTTTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTCTCATTCTTTTC
Found at i:8353476 original size:18 final size:19
Alignment explanation
Indices: 8353455--8353495 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
8353445 TCTGTTTCGT
8353455 TTTC-TATTCTGTTTG-TTC
1 TTTCTTATTCT-TTTGTTTC
*
8353473 TTTCTTCTTCTTTTGTTTC
1 TTTCTTATTCTTTTGTTTC
8353492 TTTC
1 TTTC
8353496 ATTTCATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.02, C:0.20, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTCTTATTCTTTTGTTTC
Found at i:8355503 original size:39 final size:40
Alignment explanation
Indices: 8355449--8355543 Score: 158
Period size: 39 Copynumber: 2.4 Consensus size: 40
8355439 TATACGATAG
8355449 TTGAGAGCTTTTAACTCTCGCTAACTGTTTGGAGGACAA-
1 TTGAGAGCTTTTAACTCTCGCTAACTGTTTGGAGGACAAT
* *
8355488 TTGAGAGTTTTTAACTCTCGTTAACTGTTTGGAGGACAAT
1 TTGAGAGCTTTTAACTCTCGCTAACTGTTTGGAGGACAAT
8355528 TTG-GAGCTTTTAACTC
1 TTGAGAGCTTTTAACTC
8355544 ACCGCACCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
39 49 0.94
40 3 0.06
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (40 bp):
TTGAGAGCTTTTAACTCTCGCTAACTGTTTGGAGGACAAT
Found at i:8360671 original size:29 final size:29
Alignment explanation
Indices: 8360608--8360675 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
8360598 TAATCAACCG
8360608 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
8360637 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
8360666 CGCACACTTA
1 CGCACACTTA
8360676 CCTTTTTCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:8360788 original size:174 final size:174
Alignment explanation
Indices: 8360497--8360824 Score: 566
Period size: 174 Copynumber: 1.9 Consensus size: 174
8360487 AACTCAAGGT
* **
8360497 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCTTGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
8360562 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
8360627 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* * *
8360671 ACTTACCTTTTTCGCTGTCCAAAATCGACTCTGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
8360736 GAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
8360801 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
8360825 TGTACAATTT
Statistics
Matches: 144, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 144 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:8360816 original size:29 final size:30
Alignment explanation
Indices: 8360777--8360855 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
8360767 CTTAATAATC
8360777 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
8360807 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
8360836 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
8360856 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:8366155 original size:21 final size:22
Alignment explanation
Indices: 8366117--8366157 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
8366107 TTGTTTGCTA
*
8366117 TAAATAATTAAAACAAAAAAGT
1 TAAATAATAAAAACAAAAAAGT
*
8366139 TAAA-AATAAAAATAAAAAA
1 TAAATAATAAAAACAAAAAA
8366158 TTATTCATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (22 bp):
TAAATAATAAAAACAAAAAAGT
Found at i:8366803 original size:13 final size:13
Alignment explanation
Indices: 8366785--8366809 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8366775 CATGTTCATA
8366785 TTAAGATTTATAT
1 TTAAGATTTATAT
8366798 TTAAGATTTATA
1 TTAAGATTTATA
8366810 ATTATTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
TTAAGATTTATAT
Found at i:8369504 original size:28 final size:27
Alignment explanation
Indices: 8369437--8369535 Score: 139
Period size: 28 Copynumber: 3.7 Consensus size: 27
8369427 TTTGCGAGAT
8369437 TATCTTTCAAATAAGAGTTCGCATG--
1 TATCTTTCAAATAAGAGTTCGCATGAC
8369462 TATCTTTCAAATAAGAGTTCGCATGAAC
1 TATCTTTCAAATAAGAGTTCGCATG-AC
* *
8369490 TATCTTTCAAGTAAGAGTCCGCATGGAC
1 TATCTTTCAAATAAGAGTTCGCAT-GAC
*
8369518 TATCTTTCAAAAAAGAGT
1 TATCTTTCAAATAAGAGT
8369536 CCCCAAGAAC
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
25 25 0.38
28 40 0.61
29 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Consensus pattern (27 bp):
TATCTTTCAAATAAGAGTTCGCATGAC
Found at i:8369547 original size:28 final size:28
Alignment explanation
Indices: 8369437--8369547 Score: 138
Period size: 28 Copynumber: 4.1 Consensus size: 28
8369427 TTTGCGAGAT
*
8369437 TATCTTTCAAATAAGAGTTCGCATG---
1 TATCTTTCAAATAAGAGTCCGCATGAAC
*
8369462 TATCTTTCAAATAAGAGTTCGCATGAAC
1 TATCTTTCAAATAAGAGTCCGCATGAAC
* *
8369490 TATCTTTCAAGTAAGAGTCCGCATGGAC
1 TATCTTTCAAATAAGAGTCCGCATGAAC
* * *
8369518 TATCTTTCAAAAAAGAGTCCCCAAGAAC
1 TATCTTTCAAATAAGAGTCCGCATGAAC
8369546 TA
1 TA
8369548 ATTGATGAGT
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
25 25 0.33
28 50 0.67
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (28 bp):
TATCTTTCAAATAAGAGTCCGCATGAAC
Found at i:8373090 original size:15 final size:15
Alignment explanation
Indices: 8373070--8373103 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8373060 TGATATAAAA
8373070 TAAATATTTCATATT
1 TAAATATTTCATATT
**
8373085 TAAATATTTTGTATT
1 TAAATATTTCATATT
8373100 TAAA
1 TAAA
8373104 ATAGGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (15 bp):
TAAATATTTCATATT
Found at i:8396222 original size:16 final size:16
Alignment explanation
Indices: 8396201--8396236 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8396191 AATTCCTAAC
*
8396201 AATCTTCAAATCCCTA
1 AATCTTCAAATACCTA
*
8396217 AATCTTGAAATACCTA
1 AATCTTCAAATACCTA
8396233 AATC
1 AATC
8396237 GTTAGCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.31
Consensus pattern (16 bp):
AATCTTCAAATACCTA
Found at i:8401763 original size:43 final size:44
Alignment explanation
Indices: 8401684--8401818 Score: 175
Period size: 43 Copynumber: 3.1 Consensus size: 44
8401674 TATCGAAATG
* *
8401684 TGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * * *
8401728 TGATA-TCGGGCTTTGAGCTTAGTAGGCCATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
8401771 T-ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
8401816 TGA
1 TGA
8401819 AATGTTATGT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 1 0.01
43 35 0.46
44 8 0.11
45 31 0.41
46 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:8401808 original size:45 final size:43
Alignment explanation
Indices: 8401701--8401818 Score: 157
Period size: 45 Copynumber: 2.7 Consensus size: 43
8401691 CGGGCTTCGG
*
8401701 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
* * * *
8401744 GCTTAGTAGGCCATGATGCCGGTGAAAT-ATTATTCGAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GCCTTTGA
8401789 GCCTAGCAGGCTATAATGCCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
8401819 AATGTTATGT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
42 1 0.02
43 26 0.42
44 3 0.05
45 31 0.50
46 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
Found at i:8402308 original size:114 final size:114
Alignment explanation
Indices: 8402078--8402301 Score: 315
Period size: 114 Copynumber: 2.0 Consensus size: 114
8402068 ATGATATTTG
8402078 TATCCGGCTTAAAGACCGCAGACTATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
1 TATCCGGCTTAAAGACCGCAGACTATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
8402143 TGCTGGTAATATATCCAGGTTAATTCCCGCAGGCTTCGTGCTGGTAATA
66 TGCTGGTAATATATCCAGGTTAAATCCCGCAGGCCTAGTGCTGGTAATA
* ** * * * *
8402192 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAA-TATATCCGGGTTAATTCCCGCAGGCTTC
1 TATCCGGCTTAAAGACCGCAGACTATATGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTC
* * *
8402256 GTGCTGGTATTATATTCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
65 GTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCCTAGTGCTGGT
8402302 GTTATATTCG
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
114 94 0.98
115 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.30
Consensus pattern (114 bp):
TATCCGGCTTAAAGACCGCAGACTATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
TGCTGGTAATATATCCAGGTTAAATCCCGCAGGCCTAGTGCTGGTAATA
Found at i:8402311 original size:38 final size:38
Alignment explanation
Indices: 8402105--8402301 Score: 306
Period size: 38 Copynumber: 5.2 Consensus size: 38
8402095 GCAGACTATA
8402105 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCG
* *
8402143 TGCTGGTAATATATCCAGGTTAATTCCCGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
*
8402181 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTTG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
*
8402219 TGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
* * * *
8402257 TGCTGGTATTATATTCGGGTTAAATCCCGCAGGCCTAG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
8402295 TGCTGGT
1 TGCTGGT
8402302 GTTATATTCG
Statistics
Matches: 146, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
38 144 0.99
39 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.31
Consensus pattern (38 bp):
TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:8402403 original size:45 final size:45
Alignment explanation
Indices: 8402315--8402429 Score: 121
Period size: 45 Copynumber: 2.6 Consensus size: 45
8402305 ATATTCGAGC
* * * * *
8402315 CTTT-GAGCCTAGCAGGCTATTATGCCGGTGAGATACTATTCGGG
1 CTTTCGAGCCTAGCAGGCTATAATGCCGATAAAATACTAATCGGG
8402359 CTTTCGAGCCTAGCAGGCTATAATGCCGATAAAATGA-TAATCGGG
1 CTTTCGAGCCTAGCAGGCTATAATGCCGATAAAAT-ACTAATCGGG
* * *
8402404 C-CTCGATCCTAGCAGGCGA-AATGCCG
1 CTTTCGAGCCTAGCAGGCTATAATGCCG
8402430 GTGATTTGAG
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
43 7 0.11
44 19 0.31
45 34 0.56
46 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (45 bp):
CTTTCGAGCCTAGCAGGCTATAATGCCGATAAAATACTAATCGGG
Found at i:8403439 original size:14 final size:14
Alignment explanation
Indices: 8403420--8403449 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8403410 TCAGACAAAA
8403420 TAAAATAAAAAATT
1 TAAAATAAAAAATT
*
8403434 TAAAATAAAAACTT
1 TAAAATAAAAAATT
8403448 TA
1 TA
8403450 CTTAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAAATAAAAAATT
Found at i:8405052 original size:21 final size:22
Alignment explanation
Indices: 8405026--8405084 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
8405016 GTTTTAAGAA
*
8405026 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
8405047 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
8405069 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
8405085 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:8405099 original size:26 final size:24
Alignment explanation
Indices: 8405055--8405102 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
8405045 ATTTGTTTTA
*
8405055 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
8405079 ATATTTGATTTATTATATTTTTAA
1 ATATTTG-TTT-TTATATTTTTAA
8405103 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:8406018 original size:51 final size:51
Alignment explanation
Indices: 8405958--8406107 Score: 228
Period size: 51 Copynumber: 2.9 Consensus size: 51
8405948 CGTGCAGCAG
* * * *
8405958 CAACATTATCCAGTCCATCAGATGCTGCAAAATCACTAGCATATTCATCAA
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAA
* * *
8406009 CAACATTATCCACTCCATCTGATATTGCAAAATCACCAACACATTCATCAA
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAA
*
8406060 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGTATATTCAT
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
8406108 TAGCAGCAAC
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 88 1.00
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (51 bp):
CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAA
Found at i:8407156 original size:117 final size:117
Alignment explanation
Indices: 8406970--8407180 Score: 280
Period size: 117 Copynumber: 1.8 Consensus size: 117
8406960 GGTAACAGAA
* * * * * * *
8406970 ATCAACATCATCGAGACCACTGTCGCATAAAAAATAGACAAAACAAACCAATAGTTTTGGCATTG
1 ATCAACAACATCGAGACCACTATCGCATAAAAAATAGACAAAACAAACCAATAATTGTCGCACTA
*
8407035 AAATTGCAACAATAAATCACAATTAACCATCTACAATTTTTACAACAATTTT
66 AAATTGCAACAATAAATCACAAATAACCATCTACAATTTTTACAACAATTTT
* * * *
8407087 ATCAACAACATTGGGACCACTATCGCATAAAAAATCGACAAAACAAACC-CTACATTGTCGCACT
1 ATCAACAACATCGAGACCACTATCGCATAAAAAATAGACAAAACAAACCAATA-ATTGTCGCACT
* *
8407151 AAAATTGCAATAGTAAATCACAAATAACCA
65 AAAATTGCAACAATAAATCACAAATAACCA
8407181 ACAAATCAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
116 2 0.03
117 77 0.97
ACGTcount: A:0.45, C:0.22, G:0.09, T:0.23
Consensus pattern (117 bp):
ATCAACAACATCGAGACCACTATCGCATAAAAAATAGACAAAACAAACCAATAATTGTCGCACTA
AAATTGCAACAATAAATCACAAATAACCATCTACAATTTTTACAACAATTTT
Found at i:8407386 original size:16 final size:16
Alignment explanation
Indices: 8407365--8407410 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
8407355 AAAAGCTAAT
*
8407365 GATTTAGGTATTTCAA
1 GATTTAGGGATTTCAA
*
8407381 GATTTAGGGATTTGAA
1 GATTTAGGGATTTCAA
8407397 GATTGTTAGGGATT
1 GA-T-TTAGGGATT
8407411 CGATGAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 16 0.62
17 1 0.04
18 9 0.35
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.41
Consensus pattern (16 bp):
GATTTAGGGATTTCAA
Found at i:8415260 original size:108 final size:108
Alignment explanation
Indices: 8415019--8415261 Score: 375
Period size: 108 Copynumber: 2.3 Consensus size: 108
8415009 TGTAATTTGT
*
8415019 TAAAATTTTTGACGTGTTTTTTT-AA-AATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAA
1 TAAAATTTTTGACGTGTTTTTTTAAACAATGATATGTTAAGTTAGAATAAGATTTAAATAATAAA
*
8415082 ATTTCTAACAAAATTGTATTAAAATTTTTGTTAATTACTTTGA
66 ATTTCTAACAAAATTGTATTAAAATTTTTGTTAATTACTCTGA
* * **** *
8415125 TAAAATTTTTTA-TTAGTTTAACAAAACAATGATATGTTAAGTTGGAATAAGATTTAAATAATAA
1 TAAAATTTTTGACGT-GTTTTTTTAAACAATGATATGTTAAGTTAGAATAAGATTTAAATAATAA
8415189 AATTTCTAACAAAATTGTATTAAAATTTTTGTTAATTACTCTGA
65 AATTTCTAACAAAATTGTATTAAAATTTTTGTTAATTACTCTGA
8415233 TAAAATTTTTGACGTGTTTTTTTAAACAA
1 TAAAATTTTTGACGTGTTTTTTTAAACAA
8415262 AATATTAGTT
Statistics
Matches: 118, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
105 1 0.01
106 15 0.13
107 2 0.02
108 99 0.84
109 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (108 bp):
TAAAATTTTTGACGTGTTTTTTTAAACAATGATATGTTAAGTTAGAATAAGATTTAAATAATAAA
ATTTCTAACAAAATTGTATTAAAATTTTTGTTAATTACTCTGA
Found at i:8415694 original size:24 final size:24
Alignment explanation
Indices: 8415671--8415715 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
8415661 ATCCATATAT
8415671 TAAT-ATAAATATTAAAAATAATA
1 TAATAATAAATATTAAAAATAATA
* *
8415694 TAATAATAAATTTTTAAAATAA
1 TAATAATAAATATTAAAAATAA
8415716 AAAAAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TAATAATAAATATTAAAAATAATA
Found at i:8418832 original size:16 final size:16
Alignment explanation
Indices: 8418811--8418843 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8418801 TTAAATATAC
8418811 TTCTAACCTTATTTGA
1 TTCTAACCTTATTTGA
8418827 TTCTAACCTTATTTGA
1 TTCTAACCTTATTTGA
8418843 T
1 T
8418844 CACAGATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (16 bp):
TTCTAACCTTATTTGA
Found at i:8423567 original size:18 final size:18
Alignment explanation
Indices: 8423544--8423654 Score: 150
Period size: 18 Copynumber: 6.2 Consensus size: 18
8423534 CCCAACTACT
*
8423544 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
8423562 GTATACGTGAATAGTTCC
1 GTATACGTGAATAGTACC
*
8423580 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
8423598 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* **
8423616 ATATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
*
8423634 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
8423652 GTA
1 GTA
8423655 AACGGTCGTA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 82 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:8425224 original size:15 final size:15
Alignment explanation
Indices: 8425204--8425234 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8425194 AATATTTTAA
8425204 AAATTATAAAAATAT
1 AAATTATAAAAATAT
*
8425219 AAATTATAAAATTAT
1 AAATTATAAAAATAT
8425234 A
1 A
8425235 TTTTTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATTATAAAAATAT
Found at i:8433676 original size:17 final size:16
Alignment explanation
Indices: 8433631--8433678 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
8433621 ACTTATATAT
* *
8433631 ATTTTTTGAA-TTTTG
1 ATTTTTTTAATTTTTA
*
8433646 ATTGTTTTAATTTTTA
1 ATTTTTTTAATTTTTA
*
8433662 ATTTTTTTAAATTTTA
1 ATTTTTTTAATTTTTA
8433678 A
1 A
8433679 ATTATTTGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
ATTTTTTTAATTTTTA
Found at i:8441384 original size:3 final size:3
Alignment explanation
Indices: 8441376--8441490 Score: 101
Period size: 3 Copynumber: 38.3 Consensus size: 3
8441366 GGAAAGAGCG
**
8441376 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TATA TTTA TTA CCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA
* * ** * *
8441422 TTTA TTT TTA TTA TTA TTA GTA ACA -TA TTG TTA TTT TTA TTA TT-
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
8441466 TTA TTA TTT TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
8441491 CATGGTTCTA
Statistics
Matches: 90, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
2 5 0.06
3 77 0.86
4 7 0.08
5 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:8441450 original size:23 final size:23
Alignment explanation
Indices: 8441424--8441487 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
8441414 TACCATTATT
8441424 TATTTTTATTATTATTA-GTAACA
1 TATTTTTATTATTATTATGTAA-A
* * * * *
8441447 TATTGTTATTTTTATTATTTTAT
1 TATTTTTATTATTATTATGTAAA
8441470 TATTTTTATTATTATTAT
1 TATTTTTATTATTATTAT
8441488 TATCATGGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
23 31 0.94
24 2 0.06
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (23 bp):
TATTTTTATTATTATTATGTAAA
Found at i:8441642 original size:3 final size:3
Alignment explanation
Indices: 8441636--8441676 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
8441626 TTTTTTCCTA
*
8441636 TAT TAT TAT TAT TAT TAT TAT TAA TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8441677 CTTCTATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:8443184 original size:21 final size:19
Alignment explanation
Indices: 8443155--8443193 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
8443145 ATTTAATTTA
8443155 ATAATAATTAAAATATTTTT
1 ATAATAATT-AAATATTTTT
*
8443175 ATAATAAATTATATATTTT
1 ATAAT-AATTAAATATTTT
8443194 AATTATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAATAATTAAATATTTTT
Found at i:8443584 original size:130 final size:130
Alignment explanation
Indices: 8443347--8443975 Score: 663
Period size: 130 Copynumber: 4.8 Consensus size: 130
8443337 AAAAGAATCT
* * * **
8443347 AAATTTAATTGCGTAAGTTTGAGGTAACCTGAATCGAGTGATAGATGAATTTACTAAATGAGTGA
1 AAATTTAATTGCGTAAGTTTGAGGTAACCTGAATCAAGTGATTGATAAATTTACTAAAAAAGTGA
* **
8443412 CTACGCGTTCATACCAAAT-TCTAAGAGAATTTGAATACTTTTTCAATTAAAGTAACCTAAAGTT
66 CTACGTGTTCATATTAAATCT-TAAGAGAATTTGAATACTTTTTCAATTAAAGTAACCTAAAGTT
8443476 A
130 A
* * * ** * * * *
8443477 TAATTTGATTGCGTAAGTTTGAGGCAACCCCAAACAAATAATTGATAAATTTACTAAAAAAGTGG
1 AAATTTAATTGCGTAAGTTTGAGGTAACCTGAATCAAGTGATTGATAAATTTACTAAAAAAGTGA
* * * **
8443542 CTACGTGTTTATATTAAATCTTAAGAGAATTTGAATATTTTTTCAATTAAAGCAA-CTTGAGATT
66 CTACGTGTTCATATTAAATCTTAAGAGAATTTGAATACTTTTTCAATTAAAGTAACCTAAAG-TT
8443606 A
130 A
* * * * * *
8443607 AAATTTGATTGCGTAAGTTTGAGGCAACCTAAATCGAGTGATGATTGATAAATTTACTAAAAGAT
1 AAATTTAATTGCGTAAGTTTGAGGTAACCTGAATC-A-AG-TGATTGATAAATTTACTAAAAAAG
* * * * * **
8443672 TGACTATGTGTTCATATTAAATCCTAAGAGAATTTAAATACTTTTTCAGTTAGAGTAACCTATGG
63 TGACTACGTGTTCATATTAAATCTTAAGAGAATTTGAATACTTTTTCAATTAAAGTAACCTAAAG
8443737 TTA
128 TTA
* * ** * * * *
8443740 AAATTTAATTTCGTAAGTTTGAGATAACCTGAATTGAGGGGTTGATAAATTTATTAAAAAAATGA
1 AAATTTAATTGCGTAAGTTTGAGGTAACCTGAATCAAGTGATTGATAAATTTACTAAAAAAGTGA
* * * ** *
8443805 CTACATGTTCATATTAAATCTTAAGAGAATTTGAATACGTTTTCAATTAAAGTGATATAAGGTTA
66 CTACGTGTTCATATTAAATCTTAAGAGAATTTGAATACTTTTTCAATTAAAGTAACCTAAAGTTA
* *
8443870 AAA-TCAAGTTGCGTAAGTTTGAGGTAACCTGAATCAAGTGATTGATAAATTTACT-AATAAGTG
1 AAATTTAA-TTGCGTAAGTTTGAGGTAACCTGAATCAAGTGATTGATAAATTTACTAAAAAAGTG
* * * * * *
8443933 ACTACATGTTTATATCAAACCTTAAGAGAATCTGAATAATTTT
65 ACTACGTGTTCATATTAAATCTTAAGAGAATTTGAATACTTTT
8443976 CTATTTAAAA
Statistics
Matches: 409, Mismatches: 83, Indels: 15
0.81 0.16 0.03
Matches are distributed among these distances:
129 50 0.12
130 251 0.61
131 3 0.01
133 102 0.25
134 3 0.01
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (130 bp):
AAATTTAATTGCGTAAGTTTGAGGTAACCTGAATCAAGTGATTGATAAATTTACTAAAAAAGTGA
CTACGTGTTCATATTAAATCTTAAGAGAATTTGAATACTTTTTCAATTAAAGTAACCTAAAGTTA
Found at i:8443821 original size:263 final size:263
Alignment explanation
Indices: 8443347--8443963 Score: 705
Period size: 263 Copynumber: 2.4 Consensus size: 263
8443337 AAAAGAATCT
* *
8443347 AAATTTAATTGCGTAAGTTTGAGGTAACCTGAATCGAGTGAT-A--GATGAATTTACTAAATGAG
1 AAATTTAATTGCGTAAGTTTGAGGTAACCTGAATCGAGTGATGATTGATAAATTTACTAAAAGAG
* *
8443409 TGACTACGCGTTCATACCAAATTCTAAGAGAATTTGAATACTTTTTCAATTAAAGTAACCTAAAG
66 TGACTACGCGTTCATACCAAATCCTAAGAGAATTTAAATACTTTTTCAATTAAAGTAACCTAAAG
* * * * *
8443474 TTATAATTTGATTGCGTAAGTTTGAGGCAACCCCAAACAAATAATTGATAAATTTACTAAAAAAG
131 TTAAAATTTAATTGCGTAAGTTTGAGACAACCCCAAACAAAGAATTGATAAATTTACTAAAAAAA
* * * ** *
8443539 TGGCTACGTGTTTATATTAAATCTTAAGAGAATTTGAATATTTTTTCAATTAAAGCAACT-TGAG
196 TGACTACATGTTCATATTAAATCTTAAGAGAATTTGAATACGTTTTCAATTAAAGCAA-TATAAG
8443603 ATTA
260 ATTA
* * * *
8443607 AAATTTGATTGCGTAAGTTTGAGGCAACCTAAATCGAGTGATGATTGATAAATTTACTAAAAGAT
1 AAATTTAATTGCGTAAGTTTGAGGTAACCTGAATCGAGTGATGATTGATAAATTTACTAAAAGAG
* * ** * * **
8443672 TGACTATGTGTTCATATTAAATCCTAAGAGAATTTAAATACTTTTTCAGTTAGAGTAACCTATGG
66 TGACTACGCGTTCATACCAAATCCTAAGAGAATTTAAATACTTTTTCAATTAAAGTAACCTAAAG
* * ** *** * ** *
8443737 TTAAAATTTAATTTCGTAAGTTTGAGATAACCTGAATTGAGGGGTTGATAAATTTATTAAAAAAA
131 TTAAAATTTAATTGCGTAAGTTTGAGACAACCCCAAACAAAGAATTGATAAATTTACTAAAAAAA
** *
8443802 TGACTACATGTTCATATTAAATCTTAAGAGAATTTGAATACGTTTTCAATTAAAGTGATATAAGG
196 TGACTACATGTTCATATTAAATCTTAAGAGAATTTGAATACGTTTTCAATTAAAGCAATATAAGA
8443867 TTA
261 TTA
* * *
8443870 AAA-TCAAGTTGCGTAAGTTTGAGGTAACCTGAATC-A-AG-TGATTGATAAATTTACTAATA-A
1 AAATTTAA-TTGCGTAAGTTTGAGGTAACCTGAATCGAGTGATGATTGATAAATTTACTAAAAGA
** * *
8443930 GTGACTACATGTTTATATCAAA-CCTTAAGAGAAT
65 GTGACTACGCGTTCATACCAAATCC-TAAGAGAAT
8443964 CTGAATAATT
Statistics
Matches: 299, Mismatches: 52, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
258 2 0.01
259 27 0.09
260 59 0.20
261 2 0.01
262 4 0.01
263 205 0.69
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (263 bp):
AAATTTAATTGCGTAAGTTTGAGGTAACCTGAATCGAGTGATGATTGATAAATTTACTAAAAGAG
TGACTACGCGTTCATACCAAATCCTAAGAGAATTTAAATACTTTTTCAATTAAAGTAACCTAAAG
TTAAAATTTAATTGCGTAAGTTTGAGACAACCCCAAACAAAGAATTGATAAATTTACTAAAAAAA
TGACTACATGTTCATATTAAATCTTAAGAGAATTTGAATACGTTTTCAATTAAAGCAATATAAGA
TTA
Found at i:8445379 original size:9 final size:9
Alignment explanation
Indices: 8445368--8445418 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
8445358 TTCGGTGCAG
*
8445368 CAGCAACAG
1 CAGCAACAA
8445377 CAGCAACAA
1 CAGCAACAA
*
8445386 CAACAACAA
1 CAGCAACAA
*
8445395 CAACAACAA
1 CAGCAACAA
* *
8445404 CAGCAGCAG
1 CAGCAACAA
8445413 CAGCAA
1 CAGCAA
8445419 ATAGCGTCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.53, C:0.33, G:0.14, T:0.00
Consensus pattern (9 bp):
CAGCAACAA
Found at i:8445386 original size:3 final size:3
Alignment explanation
Indices: 8445380--8445405 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8445370 GCAACAGCAG
8445380 CAA CAA CAA CAA CAA CAA CAA CAA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CA
8445406 GCAGCAGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:8451403 original size:34 final size:34
Alignment explanation
Indices: 8451360--8451426 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
8451350 TAATAATCAC
*
8451360 TTATCATACTGCTGTTTGTAATGATGTTATTTCG
1 TTATCATACTGCTATTTGTAATGATGTTATTTCG
*
8451394 TTATCATACTGCTATTTGTAATGGTGTTATTTC
1 TTATCATACTGCTATTTGTAATGATGTTATTTC
8451427 ATTGGCTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.21, C:0.12, G:0.16, T:0.51
Consensus pattern (34 bp):
TTATCATACTGCTATTTGTAATGATGTTATTTCG
Found at i:8456355 original size:55 final size:55
Alignment explanation
Indices: 8456273--8456383 Score: 168
Period size: 55 Copynumber: 2.0 Consensus size: 55
8456263 AAACATTGTA
* * *
8456273 ATGTTCACTTAGTGATAGCATTCTTAGCAATTATATTCTATCCAAATCTCAACAT
1 ATGTTCACTTAGTAAGAACATTCTTAGCAATTATATTCTATCCAAATCTCAACAT
* * *
8456328 ATGTTCACTTAGTAAGAACATTTTTAGCAGTTATATTCTATTCAAATCTCAACAT
1 ATGTTCACTTAGTAAGAACATTCTTAGCAATTATATTCTATCCAAATCTCAACAT
8456383 A
1 A
8456384 GGAAAATACC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (55 bp):
ATGTTCACTTAGTAAGAACATTCTTAGCAATTATATTCTATCCAAATCTCAACAT
Found at i:8458349 original size:8 final size:9
Alignment explanation
Indices: 8458318--8458346 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
8458308 ATTTAAGCCC
8458318 TTTAAAATT
1 TTTAAAATT
8458327 TTTAAAATT
1 TTTAAAATT
8458336 TTTAAAATT
1 TTTAAAATT
8458345 TT
1 TT
8458347 AAACTAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTAAAATT
Found at i:8459974 original size:16 final size:16
Alignment explanation
Indices: 8459953--8459986 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8459943 CCACTTTGTA
*
8459953 TTGTTTGCCATTAATG
1 TTGTTTCCCATTAATG
8459969 TTGTTTCCCATTAATG
1 TTGTTTCCCATTAATG
8459985 TT
1 TT
8459987 AACAATCTCC
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:0.18, C:0.15, G:0.15, T:0.53
Consensus pattern (16 bp):
TTGTTTCCCATTAATG
Found at i:8461918 original size:21 final size:21
Alignment explanation
Indices: 8461892--8461932 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8461882 ATATGCTCAA
* *
8461892 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
8461913 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
8461933 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:8467577 original size:15 final size:16
Alignment explanation
Indices: 8467547--8467580 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
8467537 ATCAACTTTT
8467547 TATTTATTAGTAAAAAA
1 TATTTATTA-TAAAAAA
8467564 TATTTATT-TAAAAAA
1 TATTTATTATAAAAAA
8467579 TA
1 TA
8467581 AAATTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TATTTATTATAAAAAA
Found at i:8468885 original size:37 final size:37
Alignment explanation
Indices: 8468829--8468903 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
8468819 CTAATTCCAT
* * *
8468829 CACCTTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTAACTCCAGCACCCCCA
*
8468866 CACCCTACTAAACCGTCCACTAACTCCAGCACCCCCA
1 CACCCTACTAAACCATCCACTAACTCCAGCACCCCCA
8468903 C
1 C
8468904 TACCTCCATC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.29, C:0.52, G:0.03, T:0.16
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTAACTCCAGCACCCCCA
Found at i:8468905 original size:18 final size:18
Alignment explanation
Indices: 8468882--8468916 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8468872 ACTAAACCGT
8468882 CCACTAACTCCAGCACCC
1 CCACTAACTCCAGCACCC
* *
8468900 CCACTACCTCCATCACC
1 CCACTAACTCCAGCACC
8468917 TTACTTGTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.57, G:0.03, T:0.14
Consensus pattern (18 bp):
CCACTAACTCCAGCACCC
Found at i:8468994 original size:11 final size:11
Alignment explanation
Indices: 8468978--8469005 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
8468968 TGTATGAGGG
8468978 GGATTTGGAGA
1 GGATTTGGAGA
8468989 GGATTTGGAGA
1 GGATTTGGAGA
8469000 GGATTT
1 GGATTT
8469006 TTGGGGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.43, T:0.32
Consensus pattern (11 bp):
GGATTTGGAGA
Found at i:8469353 original size:19 final size:18
Alignment explanation
Indices: 8469329--8469365 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
8469319 TTATGTTTCA
8469329 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
8469348 TATTATTATATATTTATT
1 TATTATTATATATTTATT
8469366 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:8469377 original size:17 final size:14
Alignment explanation
Indices: 8469337--8469367 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8469327 CATATTATTA
*
8469337 TATTATTTATTTAT
1 TATTATATATTTAT
8469351 TATTATATATTTAT
1 TATTATATATTTAT
8469365 TAT
1 TAT
8469368 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:8473537 original size:5 final size:5
Alignment explanation
Indices: 8473488--8473528 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
8473478 TTAAAAAATA
* *
8473488 TATAT TAAAT TAGTAT TATAT TATAG TATAT TATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT
8473529 ATTATATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (5 bp):
TATAT
Found at i:8476344 original size:5 final size:5
Alignment explanation
Indices: 8476318--8476374 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
8476308 ATGTGTTAAA
* *
8476318 ATATAT ATATT AAATT AGTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
8476367 ATATT ATA
1 ATATT ATA
8476375 CAAATAAGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
5 30 0.68
6 10 0.23
7 4 0.09
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (5 bp):
ATATT
Found at i:8476366 original size:12 final size:12
Alignment explanation
Indices: 8476321--8476374 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
8476311 TGTTAAAATA
*
8476321 TATATATTAAAT
1 TATATATTATAT
*
8476333 TA-GTATTATATT
1 TATATATTATA-T
8476345 ATAGTATATTATAT
1 -TA-TATATTATAT
8476359 TATATATTATAT
1 TATATATTATAT
8476371 TATA
1 TATA
8476375 CAAATAAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
11 6 0.17
12 17 0.49
13 4 0.11
14 1 0.03
15 7 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (12 bp):
TATATATTATAT
Found at i:8477534 original size:18 final size:19
Alignment explanation
Indices: 8477511--8477549 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
8477501 ATATATAGAT
8477511 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
8477529 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
8477548 AT
1 AT
8477550 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:8477899 original size:39 final size:40
Alignment explanation
Indices: 8477789--8477899 Score: 102
Period size: 39 Copynumber: 2.8 Consensus size: 40
8477779 GACCTCGAGT
* * **
8477789 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGATAGAGC
** * *
8477830 CGATGAG-CTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGAC-ACTGGGTGTCAAATATTACTTCGGATAGAGC
*
8477868 CGATGAGACACTGGGTGTCAAATATTGCTTCG
1 CGATGAGACACTGGGTGTCAAATATTACTTCG
8477900 AACTATCCGA
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
38 18 0.33
39 19 0.35
40 2 0.04
41 16 0.29
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGC
Found at i:8478067 original size:18 final size:19
Alignment explanation
Indices: 8478046--8478086 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
8478036 AATGAAATGA
8478046 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
8478064 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
8478083 GAAA
1 GAAA
8478087 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:8482608 original size:5 final size:5
Alignment explanation
Indices: 8482582--8482639 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
8482572 ATGTGTTAAA
* *
8482582 ATATAT ATATT AAATT AGTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
8482631 ATATT ATAT
1 ATATT ATAT
8482640 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (5 bp):
ATATT
Found at i:8482630 original size:12 final size:12
Alignment explanation
Indices: 8482585--8482640 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
8482575 TGTTAAAATA
*
8482585 TATATATTAAAT
1 TATATATTATAT
*
8482597 TA-GTATTATATT
1 TATATATTATA-T
8482609 ATAGTATATTATAT
1 -TA-TATATTATAT
8482623 TATATATTATAT
1 TATATATTATAT
8482635 TATATA
1 TATATA
8482641 AATAAGTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 6 0.16
12 19 0.51
13 4 0.11
14 1 0.03
15 7 0.19
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (12 bp):
TATATATTATAT
Found at i:8483798 original size:18 final size:19
Alignment explanation
Indices: 8483775--8483813 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
8483765 ATATATAGAT
8483775 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
8483793 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
8483812 AT
1 AT
8483814 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:8484163 original size:39 final size:39
Alignment explanation
Indices: 8484053--8484187 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
8484043 GACCTCGAGT
* * * *
8484053 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
8484094 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
8484132 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
8484171 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
8484188 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:8484331 original size:18 final size:19
Alignment explanation
Indices: 8484310--8484350 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
8484300 AATGAAATGA
8484310 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
8484328 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
8484347 GAAA
1 GAAA
8484351 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:8491187 original size:21 final size:22
Alignment explanation
Indices: 8491152--8491195 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
8491142 GTCTTTAAAG
8491152 TAATATATATTTATATAAATTT
1 TAATATATATTTATATAAATTT
* *
8491174 TAATAT-TTTTTATATAGATTT
1 TAATATATATTTATATAAATTT
8491195 T
1 T
8491196 CACTTCTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TAATATATATTTATATAAATTT
Found at i:8491791 original size:15 final size:15
Alignment explanation
Indices: 8491755--8491784 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8491745 CAATCAATAA
*
8491755 TCATAAATTTGAAAT
1 TCATAATTTTGAAAT
8491770 TCATAATTTTGAAAT
1 TCATAATTTTGAAAT
8491785 ATATAATCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (15 bp):
TCATAATTTTGAAAT
Found at i:8492338 original size:15 final size:15
Alignment explanation
Indices: 8492318--8492347 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8492308 GTTTAATTAT
*
8492318 TTATGAGATGTTGGA
1 TTATGACATGTTGGA
8492333 TTATGACATGTTGGA
1 TTATGACATGTTGGA
8492348 AAAACGGCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.30, T:0.40
Consensus pattern (15 bp):
TTATGACATGTTGGA
Found at i:8492644 original size:20 final size:19
Alignment explanation
Indices: 8492594--8492655 Score: 76
Period size: 20 Copynumber: 3.3 Consensus size: 19
8492584 ATAATCAAAT
8492594 TTAATTAGTTTAATATTAAA
1 TTAATTA-TTTAATATTAAA
8492614 TTAA--ATTTAATATTAAGA
1 TTAATTATTTAATATTAA-A
8492632 -TAATTATTTTAATATTAAA
1 TTAATTA-TTTAATATTAAA
8492651 TTAAT
1 TTAAT
8492656 AAAATACTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
17 14 0.38
18 2 0.05
19 2 0.05
20 19 0.51
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TTAATTATTTAATATTAAA
Found at i:8501959 original size:99 final size:99
Alignment explanation
Indices: 8501788--8501998 Score: 395
Period size: 99 Copynumber: 2.1 Consensus size: 99
8501778 CTAAATTTCT
*
8501788 ACCGTTCATTTCATTCTATGTCGGCTTTGGTCTCGTATAACGGTCTTCCCCGCAGTCTCTGATCC
1 ACCGTCCATTTCATTCTATGTCGGCTTTGGTCTCGTATAACGGTCTTCCCCGCAGTCTCTGATCC
*
8501853 TATGCATTCGGAATGCGGTACTCCTTTGATCTCC
66 TATGCATTCGAAATGCGGTACTCCTTTGATCTCC
*
8501887 ACCGTCCATTTCATTCTATGTCGGCTTTGGTCTCGTATAACGGTCTTCCCCGCAGTCTCTGATTC
1 ACCGTCCATTTCATTCTATGTCGGCTTTGGTCTCGTATAACGGTCTTCCCCGCAGTCTCTGATCC
8501952 TATGCATTCGAAATGCGGTACTCCTTTGATCTCC
66 TATGCATTCGAAATGCGGTACTCCTTTGATCTCC
8501986 ACCGTCCATTTCA
1 ACCGTCCATTTCA
8501999 AACGACAGTT
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 109 1.00
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (99 bp):
ACCGTCCATTTCATTCTATGTCGGCTTTGGTCTCGTATAACGGTCTTCCCCGCAGTCTCTGATCC
TATGCATTCGAAATGCGGTACTCCTTTGATCTCC
Found at i:8520516 original size:21 final size:21
Alignment explanation
Indices: 8520490--8520530 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8520480 ATCTGCTCAA
* *
8520490 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
8520511 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
8520531 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:8524766 original size:14 final size:14
Alignment explanation
Indices: 8524747--8524774 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8524737 CATTTAGCCT
8524747 AACCAAACTGGCCC
1 AACCAAACTGGCCC
8524761 AACCAAACTGGCCC
1 AACCAAACTGGCCC
8524775 GGTGATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.43, G:0.14, T:0.07
Consensus pattern (14 bp):
AACCAAACTGGCCC
Found at i:8529884 original size:14 final size:14
Alignment explanation
Indices: 8529865--8529896 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
8529855 AGGTCATTTA
8529865 GCCCAACCAAACTG
1 GCCCAACCAAACTG
*
8529879 GCCCAACCAAATTG
1 GCCCAACCAAACTG
8529893 GCCC
1 GCCC
8529897 GGTGATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.44, G:0.16, T:0.09
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:8532563 original size:3 final size:3
Alignment explanation
Indices: 8532549--8532582 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
8532539 TTCTATACTT
*
8532549 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8532583 ATTGTGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8537564 original size:30 final size:30
Alignment explanation
Indices: 8537518--8537641 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
8537508 TTTTATTATG
*
8537518 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
8537549 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
8537579 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
8537609 TCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
8537639 CCA
1 CCA
8537642 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:8537573 original size:15 final size:15
Alignment explanation
Indices: 8537528--8537635 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
8537518 CCAATATCTC
8537528 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
8537543 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
8537558 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
8537573 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
8537588 GATACCCATATCTTT
1 GATACCCATATCTTT
*** *
8537603 GACTTTTCAT-TATTT
1 GA-TACCCATATCTTT
8537618 GATACCCATATCTTT
1 GATACCCATATCTTT
8537633 GAT
1 GAT
8537636 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:8541410 original size:7 final size:7
Alignment explanation
Indices: 8541400--8541437 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
8541390 AAGGGTAGGA
8541400 TGAAAGT
1 TGAAAGT
8541407 TGAAAGT
1 TGAAAGT
8541414 TGAAAGT
1 TGAAAGT
8541421 TGAAAGT
1 TGAAAGT
8541428 TGAAAGT
1 TGAAAGT
8541435 TGA
1 TGA
8541438 GGTGTTGCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (7 bp):
TGAAAGT
Found at i:8543510 original size:2 final size:2
Alignment explanation
Indices: 8543498--8543536 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
8543488 TATACAGACA
*
8543498 GT GT AT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
8543537 AGGAGTGAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.03, C:0.00, G:0.49, T:0.49
Consensus pattern (2 bp):
GT
Found at i:8554615 original size:15 final size:16
Alignment explanation
Indices: 8554595--8554629 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
8554585 AAAAATGGAG
8554595 AAAGAAAAGA-ATATA
1 AAAGAAAAGAGATATA
*
8554610 AAAGAAAAGAGCTATA
1 AAAGAAAAGAGATATA
8554626 AAAG
1 AAAG
8554630 CCATGGTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.69, C:0.03, G:0.17, T:0.11
Consensus pattern (16 bp):
AAAGAAAAGAGATATA
Found at i:8556004 original size:25 final size:25
Alignment explanation
Indices: 8555944--8555998 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
8555934 ACCTTAGCAC
* * *
8555944 GCTCTCTAATTATTAGCATGTTAGT
1 GCTCTCTGATTATTAGCACGTCAGT
*
8555969 GCTCTCTGATTATTATCACGTCAGT
1 GCTCTCTGATTATTAGCACGTCAGT
8555994 GCTCT
1 GCTCT
8555999 TCGATTTGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTCAGT
Found at i:8556994 original size:12 final size:12
Alignment explanation
Indices: 8556977--8557001 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8556967 GCCGACTACT
8556977 GTTACTGTTACC
1 GTTACTGTTACC
8556989 GTTACTGTTACC
1 GTTACTGTTACC
8557001 G
1 G
8557002 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:8557032 original size:45 final size:45
Alignment explanation
Indices: 8556979--8557087 Score: 155
Period size: 45 Copynumber: 2.4 Consensus size: 45
8556969 CGACTACTGT
* **
8556979 TACTGTTACCGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
* * * *
8557024 TATTGTTACTGTTACCGTTATCGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
8557069 TACTGTTACTGTTACTGTT
1 TACTGTTACTGTTACTGTT
8557088 CCGGATTTGT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
Found at i:8557084 original size:51 final size:51
Alignment explanation
Indices: 8556964--8557087 Score: 134
Period size: 45 Copynumber: 2.5 Consensus size: 51
8556954 CAGGCACTTA
* * * * **
8556964 TGTGCCGACTACTGTTACTGTTACCGTTACTGTTACCGATTCGGCACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCAACACTTTG
*
8557015 TGTGTCGAATA----T--TGTTACTGTTACCGTTATCGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCAACACTTTG
*
8557060 TGTGTTGAATACTGTTACTGTTACTGTT
1 TGTGTCGAATACTGTTACTGTTACTGTT
8557088 CCGGATTTGT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
45 38 0.64
47 1 0.02
49 1 0.02
51 19 0.32
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (51 bp):
TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCAACACTTTG
Found at i:8557388 original size:72 final size:72
Alignment explanation
Indices: 8557251--8557401 Score: 173
Period size: 72 Copynumber: 2.1 Consensus size: 72
8557241 AAAGGTATAA
* * * *
8557251 AATAACTGATTATTACTGAAAAATTGACTGTTACCGAATAATTGACTGTTACAAGATAATAGACT
1 AATAACTGAATATTACTGAAAAATTGACTATTACCGAATAACTGACTGTCACAAGATAATAGACT
*
8557316 GTTATTG
66 GTTACTG
* * * *
8557323 AATAACTGAATATTACTGAATAATTGA-TCATTACTGAATAACTGATTGTCAC-TGAATAA-ATG
1 AATAACTGAATATTACTGAAAAATTGACT-ATTACCGAATAACTGACTGTCACAAG-ATAATA-G
8557385 ACTGTTACTG
63 ACTGTTACTG
8557395 AATAACT
1 AATAACT
8557402 TAATTGCTAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
71 3 0.04
72 64 0.96
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (72 bp):
AATAACTGAATATTACTGAAAAATTGACTATTACCGAATAACTGACTGTCACAAGATAATAGACT
GTTACTG
Found at i:8557448 original size:18 final size:18
Alignment explanation
Indices: 8557263--8557447 Score: 135
Period size: 18 Copynumber: 10.3 Consensus size: 18
8557253 TAACTGATTA
*
8557263 TTACTGAAAAATTGACTG
1 TTACTGAATAATTGACTG
*
8557281 TTACCGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
8557299 TTAC-AAGATAATAGACTG
1 TTACTGA-ATAATTGACTG
* * * *
8557317 TTATTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
8557335 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
8557353 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
* *
8557371 TCACTGAATAAATGACTG
1 TTACTGAATAATTGACTG
* *
8557389 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
* * *
8557408 CTATTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
8557425 TTACTAAATAATTGACTG
1 TTACTGAATAATTGACTG
8557443 TTACT
1 TTACT
8557448 AGATAACCGA
Statistics
Matches: 130, Mismatches: 29, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
17 13 0.10
18 104 0.80
19 13 0.10
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:8561174 original size:20 final size:22
Alignment explanation
Indices: 8561149--8561190 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
8561139 TTAATGTTTT
8561149 AAATATATTAT-TTA-ATTATA
1 AAATATATTATATTATATTATA
8561169 AAATATATTATATTATATTATA
1 AAATATATTATATTATATTATA
8561191 TTATTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.55
21 3 0.15
22 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATATATTATATTATATTATA
Found at i:8561182 original size:22 final size:20
Alignment explanation
Indices: 8561149--8561190 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
8561139 TTAATGTTTT
8561149 AAATATATTATT-TAATTATA
1 AAATATATTATTAT-ATTATA
8561169 AAATATATTATATTATATTATA
1 AAATATA-T-TATTATATTATA
8561191 TTATTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 10 0.53
23 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATATATTATTATATTATA
Found at i:8561328 original size:21 final size:21
Alignment explanation
Indices: 8561294--8561334 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8561284 ATGTTTACTT
*
8561294 ATTATATAAGTATATTATTAA
1 ATTATATAAGTATAATATTAA
* *
8561315 ATTATATTATTATAATATTA
1 ATTATATAAGTATAATATTA
8561335 TTATAAATCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTATATAAGTATAATATTAA
Found at i:8562200 original size:27 final size:27
Alignment explanation
Indices: 8562170--8562225 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
8562160 ATCGAGCCTT
* *
8562170 TCTCTGAGGCGCAAATGATTGTACCTA
1 TCTCAGAGGCACAAATGATTGTACCTA
* *
8562197 TCTCAGAGGCACAAATGGTTGTGCCTA
1 TCTCAGAGGCACAAATGATTGTACCTA
8562224 TC
1 TC
8562226 CCAAAGGCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (27 bp):
TCTCAGAGGCACAAATGATTGTACCTA
Found at i:8562233 original size:27 final size:27
Alignment explanation
Indices: 8562176--8562241 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
8562166 CCTTTCTCTG
* * *
8562176 AGGCGCAAATGATTGTACCTATCTCAG
1 AGGCGCAAATGGTTGTACCTATCCCAA
* *
8562203 AGGCACAAATGGTTGTGCCTATCCCAA
1 AGGCGCAAATGGTTGTACCTATCCCAA
8562230 AGGCGC-AATGGT
1 AGGCGCAAATGGT
8562242 GGGGCCCACA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 6 0.18
27 27 0.82
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (27 bp):
AGGCGCAAATGGTTGTACCTATCCCAA
Found at i:8565101 original size:72 final size:72
Alignment explanation
Indices: 8564974--8565112 Score: 158
Period size: 72 Copynumber: 1.9 Consensus size: 72
8564964 AAAAACCATA
* *
8564974 AAATTGATAAATAAAATGGCAAAAAAGTCAATACATAAATATAAAGTTAACTATTTAAATTGCAA
1 AAATTGATAAATAAAATGGCAAAAAAGTCAATACATAAATATAAAGTGAACTATTTAAATTACAA
8565039 AAAAATT
66 AAAAATT
* * * * * *
8565046 AAATTGTTAATTAAAAT-GCTAAAAAATTCATTACATAAATA-AATA-TGAAGTTATTTATATTA
1 AAATTGATAAATAAAATGGC-AAAAAAGTCAATACATAAATATAA-AGTGAA-CTATTTAAATTA
8565108 CAAAA
63 CAAAA
8565113 CCCCCTAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
71 7 0.12
72 49 0.88
ACGTcount: A:0.55, C:0.06, G:0.07, T:0.32
Consensus pattern (72 bp):
AAATTGATAAATAAAATGGCAAAAAAGTCAATACATAAATATAAAGTGAACTATTTAAATTACAA
AAAAATT
Found at i:8565358 original size:33 final size:33
Alignment explanation
Indices: 8565287--8565351 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
8565277 CTTGAGTCGG
* *
8565287 GAGGAGTGGAGTACGGCGATTGATACGAGCCGA
1 GAGGAGTGGAGTACGACGATGGATACGAGCCGA
* * *
8565320 GAGGAGTGGAGTACGATGGTGGATACGGGCCG
1 GAGGAGTGGAGTACGACGATGGATACGAGCCG
8565352 GAAGGAGCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.14, G:0.46, T:0.15
Consensus pattern (33 bp):
GAGGAGTGGAGTACGACGATGGATACGAGCCGA
Found at i:8568654 original size:60 final size:60
Alignment explanation
Indices: 8568570--8568688 Score: 186
Period size: 60 Copynumber: 2.0 Consensus size: 60
8568560 ATACTAAACT
* * * *
8568570 AAACACAACAATTTATAACTTAATCCTAAATTACTAATACATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
8568630 AAACACAAAAAATTT-TAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACAC-AAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
8568689 TAAAAAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 47 0.87
61 7 0.13
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:8568701 original size:60 final size:61
Alignment explanation
Indices: 8568579--8568702 Score: 178
Period size: 60 Copynumber: 2.0 Consensus size: 61
8568569 TAAACACAAC
* * * *
8568579 AATTTATAACTTAATCCTAAATTACTAATACATTAATTTTAAAATAATTACAAACACAAAA
1 AATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAACAAAAAA
* *
8568640 AATTT-TAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATAAAAAATAAAA
1 AATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAACAA-AAAA
8568701 AA
1 AA
8568703 ATTACATTCA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
60 45 0.80
61 11 0.20
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (61 bp):
AATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAACAAAAAA
Found at i:8568873 original size:3 final size:3
Alignment explanation
Indices: 8568867--8568891 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8568857 TCTGTTTTCT
8568867 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
8568892 CTCCTCCTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:8568916 original size:20 final size:22
Alignment explanation
Indices: 8568861--8568930 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 22
8568851 TTTTTTTCTG
*
8568861 TTTTCTTTCTTCTTCTT-CT-TC
1 TTTT-TTTCTTCTCCTTCCTCTC
*
8568882 TTCTTCTTC-TCTCC-TCCTC-C
1 TT-TTTTTCTTCTCCTTCCTCTC
*
8568902 TTTTTTTCTTCTCCTTTCTCTC
1 TTTTTTTCTTCTCCTTCCTCTC
8568924 TTTTTTT
1 TTTTTTT
8568931 TCTCTCTTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
19 6 0.15
20 14 0.36
21 9 0.23
22 10 0.26
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTTTCTTCTCCTTCCTCTC
Found at i:8570192 original size:44 final size:44
Alignment explanation
Indices: 8570092--8570181 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 44
8570082 TGTTCAGGGA
*
8570092 TACTTCGACCTT-GAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGA-CTTCGAGTCGATGAGGCACTATAAGTGCCGTACTGT
**
8570136 TACTTCGACTTCGAGTCGATGAGGCACCT-TGTGTGCCGTACTGT
1 TACTTCGACTTCGAGTCGATGAGGCA-CTATAAGTGCCGTACTGT
8570180 TA
1 TA
8570182 TTGTTACTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
43 3 0.07
44 36 0.88
45 2 0.05
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (44 bp):
TACTTCGACTTCGAGTCGATGAGGCACTATAAGTGCCGTACTGT
Found at i:8570381 original size:36 final size:35
Alignment explanation
Indices: 8570341--8570452 Score: 118
Period size: 36 Copynumber: 3.1 Consensus size: 35
8570331 TAAATAAAAG
* * *
8570341 TACTGAATGACTGACTGTTACTGAATAATTGATCGT
1 TACTGAATAACTGAATGCTACTGAATAATTGAT-GT
** *
8570377 TACTGAATAACTGAATGCTACTGAGCAAATGATTGT
1 TACTGAATAACTGAATGCTACTGAATAATTGA-TGT
*
8570413 TACTGAATAACT-AATTGCTACTAAATAATTGAATGT
1 TACTGAATAACTGAA-TGCTACTGAATAATTG-ATGT
8570449 TACT
1 TACT
8570453 AAATGAAACT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
35 2 0.03
36 59 0.94
37 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (35 bp):
TACTGAATAACTGAATGCTACTGAATAATTGATGT
Found at i:8570456 original size:18 final size:18
Alignment explanation
Indices: 8570341--8570452 Score: 93
Period size: 18 Copynumber: 6.2 Consensus size: 18
8570331 TAAATAAAAG
* *
8570341 TACTGAATGACTGACTGT
1 TACTGAATAACTGAATGT
*
8570359 TACTGAATAATTG-ATCGT
1 TACTGAATAACTGAAT-GT
*
8570377 TACTGAATAACTGAATGC
1 TACTGAATAACTGAATGT
** * *
8570395 TACTGAGCAAATGATTGT
1 TACTGAATAACTGAATGT
*
8570413 TACTGAATAACT-AATTGC
1 TACTGAATAACTGAA-TGT
* *
8570431 TACTAAATAATTGAATGT
1 TACTGAATAACTGAATGT
8570449 TACT
1 TACT
8570453 AAATGAAACT
Statistics
Matches: 72, Mismatches: 18, Indels: 8
0.73 0.18 0.08
Matches are distributed among these distances:
17 2 0.03
18 66 0.92
19 4 0.06
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGAATGT
Found at i:8571628 original size:12 final size:12
Alignment explanation
Indices: 8571611--8571637 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8571601 TGTTACAGAA
8571611 ATAATGAAGAGT
1 ATAATGAAGAGT
8571623 ATAATGAAGAGT
1 ATAATGAAGAGT
8571635 ATA
1 ATA
8571638 TTCAGGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (12 bp):
ATAATGAAGAGT
Found at i:8573039 original size:20 final size:18
Alignment explanation
Indices: 8573011--8573049 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8573001 AAGTTGACTT
8573011 TAAACTTAAAGTTGTTAGAA
1 TAAACTT-AA-TTGTTAGAA
*
8573031 TAAAGTTAATTGTTAGAA
1 TAAACTTAATTGTTAGAA
8573049 T
1 T
8573050 GAATATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (18 bp):
TAAACTTAATTGTTAGAA
Found at i:8574149 original size:25 final size:25
Alignment explanation
Indices: 8574121--8574180 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
8574111 CCTTAGCGCA
*
8574121 CTCTCTGATTATTAGCACGTTAGTG
1 CTCTCTGATTATTAGCACGTCAGTG
*
8574146 CTCTTTGATTATTAGCACGTCAGTG
1 CTCTCTGATTATTAGCACGTCAGTG
8574171 CTCTCTGATT
1 CTCTCTGATT
8574181 CGCACATTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (25 bp):
CTCTCTGATTATTAGCACGTCAGTG
Found at i:8577523 original size:17 final size:19
Alignment explanation
Indices: 8577488--8577532 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
8577478 GAAAATAAAT
8577488 ATATATAAAATTCAGAAAA
1 ATATATAAAATTCAGAAAA
* *
8577507 ATATATATAATT-AAAAAA
1 ATATATAAAATTCAGAAAA
8577525 AT-TATAAA
1 ATATATAAA
8577533 TCATAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 5 0.22
18 7 0.30
19 11 0.48
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
ATATATAAAATTCAGAAAA
Found at i:8577926 original size:25 final size:25
Alignment explanation
Indices: 8577896--8577943 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
8577886 TATAATTATT
8577896 TATTTTAGAA-TTTTATAAAAAAAGG
1 TATTTTAGAACTTTT-TAAAAAAAGG
*
8577921 TATTTTTGAACTTTTTAAAAAAA
1 TATTTTAGAACTTTTTAAAAAAA
8577944 ATTATGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (25 bp):
TATTTTAGAACTTTTTAAAAAAAGG
Found at i:8585652 original size:38 final size:39
Alignment explanation
Indices: 8585601--8585685 Score: 154
Period size: 38 Copynumber: 2.2 Consensus size: 39
8585591 AAGAGGAAGT
8585601 TAAGAAATTGAAGACAAAGTGTTTTAATTAAGGGTAAA-
1 TAAGAAATTGAAGACAAAGTGTTTTAATTAAGGGTAAAC
8585639 TAAGAAATTGAAGACAAAGTGTTTTAATTAAGGGTAAAC
1 TAAGAAATTGAAGACAAAGTGTTTTAATTAAGGGTAAAC
*
8585678 TAAAAAAT
1 TAAGAAAT
8585686 AGTCACTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 38 0.84
39 7 0.16
ACGTcount: A:0.49, C:0.04, G:0.19, T:0.28
Consensus pattern (39 bp):
TAAGAAATTGAAGACAAAGTGTTTTAATTAAGGGTAAAC
Found at i:8586537 original size:4 final size:4
Alignment explanation
Indices: 8586528--8586557 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
8586518 GGAGGAGAAG
8586528 AAGA AAGA AAGA AAGA AAGA AAGA AA-A AAG
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG
8586558 TATGTATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:8586914 original size:88 final size:88
Alignment explanation
Indices: 8586728--8587177 Score: 380
Period size: 88 Copynumber: 4.8 Consensus size: 88
8586718 TTTAAAGTTG
* * *
8586728 TTTTGTTAGTAATTTAGGATTA-TGTTATAAATTGTTGTGTTTAGTTTAGTATTTTGTGATTTTT
1 TTTTGTTAGTAATTTATGATTAGT-TTATAAATTGTTG-G--T-GTTTTGTGTTTTGTGATTTTT
* * *
8586792 TATTAATATAAAATTATTATGTTAACTA
61 TATTAATGTAAAATTATTATATTAATTA
* *
8586820 TTTTGTTAGTAATTTATGATTAGATTATAAATTGTTGGTGTTTTGTGTTTTCTGATTTTTTATTA
1 TTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTGGTGTTTTGTGTTTTGTGATTTTTTATTA
*
8586885 ATGTAAAATTATTTTATTAATTA
66 ATGTAAAATTATTATATTAATTA
** * *
8586908 TTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTACTGTTTTGTGTTTTGTGATTTATTAGTA
1 TTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTGGTGTTTTGTGTTTTGTGATTTTTTATTA
* *
8586973 ATGTAAATTCTTTTTTTAAAAATATTATAATTA
66 ATGTAAA----ATTATT----ATA-T-TAATTA
* * * *
8587006 TTTTGTTAGTAATTTATGATTAGTTTAGAAATTTTTAGTGTTTAGTTTAGGGTTTTGTGATTTTT
1 TTTTGTTAGTAATTTATGATTAGTTTATAAATTGTT-G-G--T-GTTTTGTGTTTTGTGATTTTT
* ** ** *
8587071 CATTAATGTAATTTTTAAAAAAAATTATAGTTA
61 TATTAATGTAA-AATT--ATTATATTA-A-TTA
* * * * *
8587104 TTTTGTTAGTAATTTATTATTAGGTTATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTATGAG
1 TTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTGGTGTTTTGTGTTTTGTGATTTTTTAT
8587169 TAATGTAAA
64 TAATGTAAA
8587178 TTCTTTTTAA
Statistics
Matches: 293, Mismatches: 42, Indels: 44
0.77 0.11 0.12
Matches are distributed among these distances:
88 108 0.37
89 1 0.00
91 1 0.00
92 38 0.13
95 27 0.09
96 5 0.02
97 3 0.01
98 67 0.23
99 3 0.01
100 12 0.04
102 1 0.00
103 27 0.09
ACGTcount: A:0.29, C:0.01, G:0.15, T:0.55
Consensus pattern (88 bp):
TTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTGGTGTTTTGTGTTTTGTGATTTTTTATTA
ATGTAAAATTATTATATTAATTA
Found at i:8587009 original size:98 final size:95
Alignment explanation
Indices: 8586905--8587393 Score: 471
Period size: 98 Copynumber: 4.9 Consensus size: 95
8586895 ATTTTATTAA
* *
8586905 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTACTGTTTTGTGTTTTGTGATTTATTA
1 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTTGGGTTTTGTGATTTATTA
* *
8586970 GTAATGTAAATTCTTTTTTTAAAAATATTATAA
66 GTAATGT-AA-T-TTTTTTAAAAAATATTATAG
* *
8587003 TTATTTTGTTAGTAATTTATGATTAGTTTAGAAATTTTTAGTGTTTAGTTTAGGGTTTTGTGATT
1 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTG--T--TTT-GGGTTTTGTGATT
* *
8587068 T-TTCATTAATGTAA--TTTTTAAAAAAAATTATAG
61 TATT-AGTAATGTAATTTTTTTAAAAAATATTATAG
* *
8587101 TTATTTTGTTAGTAATTTATTATTAGGTTATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTAT
1 TTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTAGTGTTTTGGGTTTTGTGATTTAT
* *
8587166 GAGTAATGTAAATTCTTTTTAAAAAAATGTTATAG
64 TAGTAATGT-AATT-TTTTT-AAAAAATATTATAG
* * *
8587201 TTATTTTGTCAGTAATTTATGATTAGTTTATAAATTGTTAGTATTTAGTTTAGGGTTTTATGATT
1 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAG----T-GTTTTGGGTTTTGTGA-T
* *
8587266 TTTTTAGTAATGTAATTTTTTTCAAAAATAATTTTATAG
60 TTATTAGTAATGTAATTTTTTT--AAAA-AATATTATAG
* * * *
8587305 TTATTTTATTACTAATTTATGATTAGGTTATATAAATTATTAGTGTTTAGTTTAGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTAGTG--T--TTT-GGGTTTTGTGA
* * *
8587370 TTTTTTATTAATCTAATTTTTTTA
59 TTTATTAGTAATGTAATTTTTTTA
8587394 TAATGTAATT
Statistics
Matches: 329, Mismatches: 33, Indels: 53
0.79 0.08 0.13
Matches are distributed among these distances:
95 20 0.06
96 6 0.02
98 94 0.29
99 11 0.03
100 49 0.15
101 1 0.00
102 14 0.04
103 44 0.13
104 43 0.13
105 26 0.08
106 21 0.06
ACGTcount: A:0.29, C:0.02, G:0.14, T:0.55
Consensus pattern (95 bp):
TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTTGGGTTTTGTGATTTATTA
GTAATGTAATTTTTTTAAAAAATATTATAG
Found at i:8587137 original size:198 final size:203
Alignment explanation
Indices: 8586905--8587352 Score: 676
Period size: 198 Copynumber: 2.2 Consensus size: 203
8586895 ATTTTATTAA
*
8586905 TTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTACTGTTTTGTGTTTTGTGATTTAT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTAT
* ** *
8586968 TAGTAATGTAAATTCTTTTTTTAAAAATATTATAATTATTTTGTTAGTAATTTATGATTAGTTTA
66 GAGTAATGTAAATTCTTTTTAAAAAAATATTATAATTATTTTGTCAGTAATTTATGATTAGTTTA
* * * *
8587033 GAAATTTTTAGTGTTTAGTTTAGGGTTTTGTGA-TTTTTCATTAATGTAA-TTTTT-AAAAA-AA
131 GAAATTGTTAGTATTTAGTTTAGGGTTTTATGATTTTTTCAGTAATGTAATTTTTTCAAAAATAA
8587094 -ATTATAG
196 TATTATAG
*
8587101 TTATTTTGTTAGTAATTTATTATTAGGTTATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTAT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTAT
* *
8587166 GAGTAATGTAAATTCTTTTTAAAAAAATGTTATAGTTATTTTGTCAGTAATTTATGATTAGTTTA
66 GAGTAATGTAAATTCTTTTTAAAAAAATATTATAATTATTTTGTCAGTAATTTATGATTAGTTTA
* *
8587231 TAAATTGTTAGTATTTAGTTTAGGGTTTTATGATTTTTTTAGTAATGTAATTTTTTTCAAAAATA
131 GAAATTGTTAGTATTTAGTTTAGGGTTTTATGATTTTTTCAGTAATGTAA-TTTTTTCAAAAATA
*
8587296 ATTTTATAG
195 ATATTATAG
* * *
8587305 TTATTTTATTACTAATTTATGATTAGGTTATATAAATTATTAGTGTTT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTT
8587353 AGTTTAGTGT
Statistics
Matches: 225, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
196 24 0.11
197 3 0.01
198 122 0.54
199 14 0.06
201 5 0.02
202 5 0.02
203 2 0.01
204 50 0.22
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.54
Consensus pattern (203 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTAT
GAGTAATGTAAATTCTTTTTAAAAAAATATTATAATTATTTTGTCAGTAATTTATGATTAGTTTA
GAAATTGTTAGTATTTAGTTTAGGGTTTTATGATTTTTTCAGTAATGTAATTTTTTCAAAAATAA
TATTATAG
Found at i:8587392 original size:17 final size:16
Alignment explanation
Indices: 8587370--8587405 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8587360 TGTTTTGTGA
8587370 TTTTTTATTAATCTAAT
1 TTTTTTA-TAATCTAAT
*
8587387 TTTTTTATAATGTAAT
1 TTTTTTATAATCTAAT
8587403 TTT
1 TTT
8587406 ATTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTTTATAATCTAAT
Found at i:8589767 original size:44 final size:42
Alignment explanation
Indices: 8589713--8589838 Score: 122
Period size: 43 Copynumber: 3.1 Consensus size: 42
8589703 TTATAGGTTC
8589713 TTTTTGCAATTTAAATAGTCAGCTTTGTATTTATGTAATGACT
1 TTTTTGCAATTTAAATAGTCA-CTTTGTATTTATGTAATGACT
* * * * **
8589756 TTTTTGGCAATTTAATTA-TTAATTT-TA--TAAGT--T-TTT
1 TTTTT-GCAATTTAAATAGTCACTTTGTATTTATGTAATGACT
8589792 TTTTTGCAATTTAAATAGTCAACTTTGTATTTATGTAATGACT
1 TTTTTGCAATTTAAATAGTC-ACTTTGTATTTATGTAATGACT
8589835 TTTT
1 TTTT
8589839 CGTTATTTCA
Statistics
Matches: 62, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
35 11 0.18
36 7 0.11
37 5 0.08
38 2 0.03
39 4 0.06
40 4 0.06
41 2 0.03
42 4 0.06
43 12 0.19
44 11 0.18
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (42 bp):
TTTTTGCAATTTAAATAGTCACTTTGTATTTATGTAATGACT
Done.