Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 14 of 333
Found at i:3990594 original size:202 final size:202
Alignment explanation
Indices: 3990216--3990603 Score: 447
Period size: 202 Copynumber: 1.9 Consensus size: 202
3990206 TGAGCAGATC
* * *
3990216 ATCTCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGA
1 ATCTCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATTACAATGGA
*
3990281 GCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATTCCCT
66 GCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAGGTCTTATTCCCT
* *** * * * *
3990346 GAGTTACAGTGGAAGACCAGAATTCAGATCTTATCTCCTGAGTTACAGTGGAGCAGATTGAAGCC
131 GAGATACAGTGGAAGA-CAGAAAAAAAATCATATCTCCTAAGTTACAGCGGA-CAGATTGAAGCC
3990411 AGAGATCTT
194 AGAGATCTT
* *
3990420 ATCTCCCTGAGA-TACAGCGGAGCAGATC-GAGACACT-ATCCTATCTCCCTGA-AGTTACAGTG
1 ATCT-CCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGA-TTACAATG
*
3990481 GAGCGGATTAAAATAAAGGATCTTATCTCTCTG-AGTTACAGCAGAG-AGATCGCATCA-GTCTT
64 GAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAGGTCTT
*
3990543 ATTTCCCTGAAGAT-CAGTGGATAGA-TGAAAAAAAATCAT-TC-CCTAAGTTACAGCGGACAGA
124 A-TTCCCTG-AGATACAGTGGA-AGACAGAAAAAAAATCATATCTCCTAAGTTACAGCGGACAGA
3990604 GACAATTCTA
Statistics
Matches: 158, Mismatches: 16, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
201 5 0.03
202 42 0.27
203 8 0.05
204 34 0.22
205 31 0.20
206 18 0.11
207 20 0.13
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (202 bp):
ATCTCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATTACAATGGA
GCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAGGTCTTATTCCCT
GAGATACAGTGGAAGACAGAAAAAAAATCATATCTCCTAAGTTACAGCGGACAGATTGAAGCCAG
AGATCTT
Found at i:3991870 original size:15 final size:16
Alignment explanation
Indices: 3991839--3991874 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
3991829 ATTAGTCACC
3991839 ATTATTATTACTCATT
1 ATTATTATTACTCATT
*
3991855 ATTATT-TTACTTATT
1 ATTATTATTACTCATT
3991870 ATTAT
1 ATTAT
3991875 ATCTTTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATTATTACTCATT
Found at i:3991929 original size:16 final size:17
Alignment explanation
Indices: 3991908--3991959 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
3991898 TTATTGTTGT
3991908 TGACTATTTTATATATA
1 TGACTATTTTATATATA
3991925 T-ACTAGTTTTTATATATA
1 TGACTA--TTTTATATATA
*
3991943 TGTCTTATTTTATATAT
1 TGAC-TATTTTATATAT
3991960 GCATATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 4 0.13
17 1 0.03
18 22 0.73
19 1 0.03
20 2 0.07
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (17 bp):
TGACTATTTTATATATA
Found at i:3994578 original size:10 final size:10
Alignment explanation
Indices: 3994559--3994590 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
3994549 TTAACAGTCC
3994559 ATAAATATTT
1 ATAAATATTT
*
3994569 ATAAAAATTT
1 ATAAATATTT
3994579 ATAAATATTT
1 ATAAATATTT
3994589 AT
1 AT
3994591 GGCTCGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATAAATATTT
Found at i:4016551 original size:23 final size:23
Alignment explanation
Indices: 4016524--4016569 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
4016514 CTCCAAATTT
4016524 TAAGCTGAGCTTTAAGCTTTTTA
1 TAAGCTGAGCTTTAAGCTTTTTA
4016547 TAAGCTGAGCTTTAAGCTTTTTA
1 TAAGCTGAGCTTTAAGCTTTTTA
4016570 GTATTTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.43
Consensus pattern (23 bp):
TAAGCTGAGCTTTAAGCTTTTTA
Found at i:4016717 original size:33 final size:33
Alignment explanation
Indices: 4016675--4016741 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
4016665 ACCGAAATGA
4016675 CATAGAAAATTTTAAAACCCGATTTGATCTAAT
1 CATAGAAAATTTTAAAACCCGATTTGATCTAAT
4016708 CATAGAAAATTTTAAAACCCGATTTGATCTAAT
1 CATAGAAAATTTTAAAACCCGATTTGATCTAAT
4016741 C
1 C
4016742 TAAAACCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (33 bp):
CATAGAAAATTTTAAAACCCGATTTGATCTAAT
Found at i:4018576 original size:20 final size:20
Alignment explanation
Indices: 4018553--4018615 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
4018543 CTTTTTAAAT
*
4018553 AATTACACAAGATATTACCC
1 AATTACACAAAATATTACCC
* * **
4018573 AATTACAAAAAACATTACTA
1 AATTACACAAAATATTACCC
*
4018593 AATTATACAAAATATTACCC
1 AATTACACAAAATATTACCC
4018613 AAT
1 AAT
4018616 AATGAAAAAT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.27
Consensus pattern (20 bp):
AATTACACAAAATATTACCC
Found at i:4018691 original size:48 final size:49
Alignment explanation
Indices: 4018598--4018694 Score: 117
Period size: 48 Copynumber: 2.0 Consensus size: 49
4018588 TACTAAATTA
* * * *
4018598 TACAAAATATTACCCAATAATGAAAAATTATTACAATATTTGTAATGTT
1 TACAAAACATTAACCAATAATGAAAAATTATTACAATACTCGTAATGTT
* *
4018647 TACAAAACATTAACCAATTAT-ACAAATTATTACAACT-CTCGTAATGTT
1 TACAAAACATTAACCAATAATGAAAAATTATTACAA-TACTCGTAATGTT
4018695 GTGTAACAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
48 22 0.54
49 19 0.46
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.35
Consensus pattern (49 bp):
TACAAAACATTAACCAATAATGAAAAATTATTACAATACTCGTAATGTT
Found at i:4023210 original size:44 final size:44
Alignment explanation
Indices: 4023162--4023251 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
4023152 GCTTGATTGA
*
4023162 TACTAATATTTTAAAATTTGCCAATGGGACTTCAACATTGTTGG
1 TACTAATATTTTAAAATTTGCCAATGAGACTTCAACATTGTTGG
4023206 TACTAATATTTTAAAATTTGCCAATGAGACTTCAACATTGTTGG
1 TACTAATATTTTAAAATTTGCCAATGAGACTTCAACATTGTTGG
4023250 TA
1 TA
4023252 ACATACTAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.39
Consensus pattern (44 bp):
TACTAATATTTTAAAATTTGCCAATGAGACTTCAACATTGTTGG
Found at i:4033986 original size:7 final size:7
Alignment explanation
Indices: 4033974--4034001 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
4033964 TGGTTTTCTA
4033974 CTTCTTT
1 CTTCTTT
4033981 CTTCTTT
1 CTTCTTT
4033988 CTTCTTT
1 CTTCTTT
4033995 CTTCTTT
1 CTTCTTT
4034002 GTCAATTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (7 bp):
CTTCTTT
Found at i:4037487 original size:19 final size:20
Alignment explanation
Indices: 4037455--4037497 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
4037445 GACATGTAGC
4037455 AAAA-AAATATAAATAAATA
1 AAAATAAATATAAATAAATA
**
4037474 AAAATAAATA-AAATTTATA
1 AAAATAAATATAAATAAATA
4037493 AAAAT
1 AAAAT
4037498 TATTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAATAAATATAAATAAATA
Found at i:4037504 original size:19 final size:19
Alignment explanation
Indices: 4037471--4037536 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
4037461 ATATAAATAA
* *
4037471 ATAAAAATAAATAAAATTT
1 ATAAAAATTATTAAAATTT
*
4037490 ATAAAAATTATTAAATTTT
1 ATAAAAATTATTAAAATTT
* *
4037509 TTAAAAATTTTTTAAAAATTT
1 ATAAAAA-TTATT-AAAATTT
4037530 -TAAAAAT
1 ATAAAAAT
4037537 ATAAAAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 23 0.59
20 10 0.26
21 6 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAAAAATTATTAAAATTT
Found at i:4037518 original size:11 final size:11
Alignment explanation
Indices: 4037502--4037530 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
4037492 AAAAATTATT
4037502 AAATTTTTTAA
1 AAATTTTTTAA
4037513 AAATTTTTTAA
1 AAATTTTTTAA
4037524 AAATTTT
1 AAATTTT
4037531 AAAAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
AAATTTTTTAA
Found at i:4037530 original size:9 final size:9
Alignment explanation
Indices: 4037483--4037552 Score: 59
Period size: 9 Copynumber: 7.3 Consensus size: 9
4037473 AAAAATAAAT
4037483 AAAATTTATA
1 AAAATTT-TA
4037493 AAAATTATTA
1 AAAATT-TTA
**
4037503 AATTTTTTA
1 AAAATTTTA
4037512 AAAATTTTTTA
1 AAAA--TTTTA
4037523 AAAATTTTA
1 AAAATTTTA
* *
4037532 AAAATATAA
1 AAAATTTTA
*
4037541 AAAATTGTA
1 AAAATTTTA
4037550 AAA
1 AAA
4037553 TGCATCAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
9 26 0.54
10 12 0.25
11 10 0.21
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (9 bp):
AAAATTTTA
Found at i:4040220 original size:22 final size:21
Alignment explanation
Indices: 4040159--4040223 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
4040149 GCATTTATCT
* *
4040159 AAATATTTAATTAGACAGTTAA
1 AAATATTTAATT-GAAAATTAA
* * *
4040181 ATATAATTAATT-ATAATTAA
1 AAATATTTAATTGAAAATTAA
4040201 AAATATTTAATTCGAAAATTAA
1 AAATATTTAATT-GAAAATTAA
4040223 A
1 A
4040224 GTTTAACTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
20 16 0.47
22 18 0.53
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (21 bp):
AAATATTTAATTGAAAATTAA
Found at i:4040223 original size:42 final size:43
Alignment explanation
Indices: 4040159--4040250 Score: 105
Period size: 42 Copynumber: 2.1 Consensus size: 43
4040149 GCATTTATCT
* * * *
4040159 AAATATTTAATTAGACAGTTAAA-TATAATTAATTATAATTAA
1 AAATATTTAATTAGAAAATTAAAGTATAACTAACTATAATTAA
* * *
4040201 AAATATTTAATTCGAAAATTAAAGTTTAACTAACTGTAATTAA
1 AAATATTTAATTAGAAAATTAAAGTATAACTAACTATAATTAA
4040244 AATATAT
1 AA-ATAT
4040251 ATGAAGGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 20 0.49
43 17 0.41
44 4 0.10
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.39
Consensus pattern (43 bp):
AAATATTTAATTAGAAAATTAAAGTATAACTAACTATAATTAA
Found at i:4049056 original size:16 final size:16
Alignment explanation
Indices: 4049035--4049067 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4049025 CAATCTTCAA
4049035 ATGGGTAAATTACAGC
1 ATGGGTAAATTACAGC
*
4049051 ATGGGTTAATTACAGC
1 ATGGGTAAATTACAGC
4049067 A
1 A
4049068 AATGTCCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (16 bp):
ATGGGTAAATTACAGC
Found at i:4052932 original size:15 final size:15
Alignment explanation
Indices: 4052912--4052941 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4052902 AACTTCTGTA
4052912 CATTATTTCACATAT
1 CATTATTTCACATAT
*
4052927 CATTATTTCAGATAT
1 CATTATTTCACATAT
4052942 TTCTCTTCAC
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:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (15 bp):
CATTATTTCACATAT
Found at i:4054916 original size:46 final size:44
Alignment explanation
Indices: 4054812--4054919 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
4054802 TGTCTTTGAC
** * * *
4054812 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
4054856 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
4054902 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
4054920 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:4055901 original size:9 final size:9
Alignment explanation
Indices: 4055887--4055920 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
4055877 TTCTATTCTG
4055887 TTTCTTTTC
1 TTTCTTTTC
4055896 TTTCTTTT-
1 TTTCTTTTC
*
4055904 TTTCTATTC
1 TTTCTTTTC
4055913 TTTCTTTT
1 TTTCTTTT
4055921 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:4055913 original size:17 final size:17
Alignment explanation
Indices: 4055887--4055920 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4055877 TTCTATTCTG
*
4055887 TTTCTTTTCTTTCTTTT
1 TTTCTATTCTTTCTTTT
4055904 TTTCTATTCTTTCTTTT
1 TTTCTATTCTTTCTTTT
4055921 GTTTTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCTATTCTTTCTTTT
Found at i:4055942 original size:5 final size:5
Alignment explanation
Indices: 4055929--4056001 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
4055919 TTGTTTTATG
4055929 TATATA TATAA TATAA TATAA TAT-A T-TAA TGATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
4055977 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
4056002 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:4055954 original size:19 final size:19
Alignment explanation
Indices: 4055930--4055972 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
4055920 TGTTTTATGT
4055930 ATATATATAAT-ATAATATA
1 ATATAT-TAATGATAATATA
4055949 ATATATTAATGATAATATA
1 ATATATTAATGATAATATA
4055968 ATATA
1 ATATA
4055973 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATTAATGATAATATA
Found at i:4055982 original size:24 final size:24
Alignment explanation
Indices: 4055936--4056000 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
4055926 ATGTATATAT
* * *
4055936 ATAATATAATATAATATATTAATG
1 ATAATATAATATAATAAAATAATC
4055960 ATAATATAATATAA-AAACATAATC
1 ATAATATAATATAATAAA-ATAATC
*
4055984 ATTACTATAATATAATA
1 A-TAATATAATATAATA
4056001 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.56
25 12 0.35
26 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (24 bp):
ATAATATAATATAATAAAATAATC
Found at i:4065433 original size:80 final size:80
Alignment explanation
Indices: 4065339--4065495 Score: 287
Period size: 80 Copynumber: 2.0 Consensus size: 80
4065329 TTATATAATT
* *
4065339 TTTTAAAATAAAAAGTATCATTTGATAATTATGTAATAAATTTAAATTTACTATGAAAATTTTAA
1 TTTTAAAATAAAAAGTATCACTTGATAATTATGTAATAAACTTAAATTTACTATGAAAATTTTAA
4065404 TGATGTTAACAAATA
66 TGATGTTAACAAATA
*
4065419 TTTTAAAATAAAAAGTATCACTTGATAATTATGTAATAAACTTAAATTTATTATGAAAATTTTAA
1 TTTTAAAATAAAAAGTATCACTTGATAATTATGTAATAAACTTAAATTTACTATGAAAATTTTAA
4065484 TGATGTTAACAA
66 TGATGTTAACAA
4065496 TTAAATTAAT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (80 bp):
TTTTAAAATAAAAAGTATCACTTGATAATTATGTAATAAACTTAAATTTACTATGAAAATTTTAA
TGATGTTAACAAATA
Found at i:4067617 original size:21 final size:21
Alignment explanation
Indices: 4067593--4067640 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
4067583 GATTGATATT
4067593 ATTCAATTTTAAATAAAATTA
1 ATTCAATTTTAAATAAAATTA
4067614 ATTCAATTTTAAATAAAATTA
1 ATTCAATTTTAAATAAAATTA
4067635 A-TCAAT
1 ATTCAAT
4067641 AATTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTCAATTTTAAATAAAATTA
Found at i:4067646 original size:21 final size:21
Alignment explanation
Indices: 4067593--4067647 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
4067583 GATTGATATT
*
4067593 ATTCAATTTTAAATAAAATTA
1 ATTCAATATTAAATAAAATTA
*
4067614 ATTCAATTTTAAATAAAATTA
1 ATTCAATATTAAATAAAATTA
4067635 A-TCAATAATTAAA
1 ATTCAAT-ATTAAA
4067648 ATTAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 5 0.16
21 27 0.84
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTCAATATTAAATAAAATTA
Found at i:4068428 original size:31 final size:29
Alignment explanation
Indices: 4068360--4068415 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
4068350 AATAATAGCG
4068360 TAAGTGACTAAAATGTAATATTTCAAACA
1 TAAGTGACTAAAATGTAATATTTCAAACA
4068389 TAAGTGACTAAAATGTAAT-TTT-AAACA
1 TAAGTGACTAAAATGTAATATTTCAAACA
4068416 AATAAAAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 5 0.19
28 3 0.11
29 19 0.70
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (29 bp):
TAAGTGACTAAAATGTAATATTTCAAACA
Found at i:4083894 original size:18 final size:18
Alignment explanation
Indices: 4083871--4083905 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4083861 AAATTAAAAA
4083871 TATATTATAAA-AAAATTT
1 TATATT-TAAATAAAATTT
4083889 TATATTTAAATAAAATT
1 TATATTTAAATAAAATT
4083906 AAAATAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TATATTTAAATAAAATTT
Found at i:4084003 original size:11 final size:11
Alignment explanation
Indices: 4083989--4084024 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
4083979 ATATTTAAAT
4083989 AATAATAACAA
1 AATAATAACAA
4084000 AATAATAACAA
1 AATAATAACAA
* *
4084011 TATAATAGCAA
1 AATAATAACAA
4084022 AAT
1 AAT
4084025 TACATCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.22
Consensus pattern (11 bp):
AATAATAACAA
Found at i:4091580 original size:12 final size:12
Alignment explanation
Indices: 4091563--4091595 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4091553 TTATTTTACC
4091563 CAATTTCTTCAA
1 CAATTTCTTCAA
4091575 CAATTTCTTCAA
1 CAATTTCTTCAA
*
4091587 TAATTTCTT
1 CAATTTCTT
4091596 TTTCTAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (12 bp):
CAATTTCTTCAA
Found at i:4134650 original size:12 final size:12
Alignment explanation
Indices: 4134633--4134666 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4134623 TTATTTTACC
4134633 CAATTTCTTTAA
1 CAATTTCTTTAA
*
4134645 CAATTTCTTCAA
1 CAATTTCTTTAA
*
4134657 TAATTTCTTT
1 CAATTTCTTT
4134667 TTCTAACTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (12 bp):
CAATTTCTTTAA
Found at i:4144405 original size:19 final size:20
Alignment explanation
Indices: 4144381--4144427 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
4144371 AGTGAAAGTT
4144381 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
* *
4144400 TAATGCCAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
4144420 -AATGCAAA
1 TAATGCAAA
4144428 AGAAAGGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:4147030 original size:116 final size:121
Alignment explanation
Indices: 4146838--4147053 Score: 307
Period size: 116 Copynumber: 1.8 Consensus size: 121
4146828 ATTGGGTTGG
* * *
4146838 ATATAATGATAATAATAATATTAAAGTAAAGTAAATAATAATACTATATATAAATATATATGTAT
1 ATATAATAAAAATAATAATATTAAAGTAAAGTAAAAAATAATACTATATATAAATATATA-GTAT
* *
4146903 ATAATAGAAATACACACTACTATATAATAATAATAAATATAGAAATACAAAAAGCAA
65 ATAATAAAAATACACACTAATATATAATAATAATAAATATAGAAATACAAAAAGCAA
* *
4146960 ATATAATAAAAATATTAA-ATTAAAGT-AA-TAAAAAATAATACTATATATGAATATATA-TATA
1 ATATAATAAAAATAATAATATTAAAGTAAAGTAAAAAATAATACTATATATAAATATATAGTATA
* *
4147021 -CATAAAAATATACACTAATATATAATAATAATA
66 TAATAAAAATACACACTAATATATAATAATAATA
4147054 GTAATAGCAA
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
116 29 0.34
117 4 0.05
119 27 0.32
120 2 0.02
121 8 0.09
122 15 0.18
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.31
Consensus pattern (121 bp):
ATATAATAAAAATAATAATATTAAAGTAAAGTAAAAAATAATACTATATATAAATATATAGTATA
TAATAAAAATACACACTAATATATAATAATAATAAATATAGAAATACAAAAAGCAA
Found at i:4147149 original size:12 final size:13
Alignment explanation
Indices: 4147134--4147186 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 13
4147124 AATAGGGGTG
4147134 ATAATAATA-ATA
1 ATAATAATACATA
4147146 ATAATAATACA-A
1 ATAATAATACATA
*
4147158 ACAATAATACAT-
1 ATAATAATACATA
*
4147170 AT-AT-ATAGATA
1 ATAATAATACATA
4147181 ATAATA
1 ATAATA
4147187 GTAGTCAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
10 5 0.15
11 4 0.12
12 23 0.70
13 1 0.03
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (13 bp):
ATAATAATACATA
Found at i:4147274 original size:3 final size:3
Alignment explanation
Indices: 4147261--4147351 Score: 57
Period size: 3 Copynumber: 30.3 Consensus size: 3
4147251 GAGGGCATAT
**
4147261 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GGA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA
* * *
4147308 ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A-A ATA AAA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4147351 A
1 A
4147352 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
2 10 0.15
3 48 0.71
4 9 0.13
5 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:4147285 original size:12 final size:12
Alignment explanation
Indices: 4147261--4147341 Score: 69
Period size: 12 Copynumber: 6.8 Consensus size: 12
4147251 GAGGGCATAT
4147261 ATAATAT-AATA
1 ATAATATAAATA
4147272 ATAATATAAATA
1 ATAATATAAATA
*
4147284 ATAATATATACATG
1 ATAATATA-A-ATA
**
4147298 AGGA-AT-AATA
1 ATAATATAAATA
4147308 ATAATATAAATA
1 ATAATATAAATA
* *
4147320 ATAGTAAAAATA
1 ATAATATAAATA
*
4147332 ATAAAATAAA
1 ATAATATAAA
4147342 ATAAAAATAA
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
10 4 0.07
11 10 0.19
12 33 0.61
13 3 0.06
14 4 0.07
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:4147778 original size:13 final size:13
Alignment explanation
Indices: 4147760--4147819 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
4147750 GGGTGGTTTA
4147760 GGTGGCCAAGGTG
1 GGTGGCCAAGGTG
***
4147773 GGTGGCCAACAAG
1 GGTGGCCAAGGTG
*** *
4147786 GGTGGTGGA-GTA
1 GGTGGCCAAGGTG
4147798 GGTGGCCAAGGTG
1 GGTGGCCAAGGTG
4147811 GGTGGCCAA
1 GGTGGCCAA
4147820 CAAGGGTGGT
Statistics
Matches: 33, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
12 6 0.18
13 27 0.82
ACGTcount: A:0.20, C:0.15, G:0.50, T:0.15
Consensus pattern (13 bp):
GGTGGCCAAGGTG
Found at i:4147800 original size:38 final size:38
Alignment explanation
Indices: 4147758--4147840 Score: 166
Period size: 38 Copynumber: 2.2 Consensus size: 38
4147748 TGGGGTGGTT
4147758 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
4147796 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
4147834 TAGGTGG
1 TAGGTGG
4147841 GATTAGGGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.20, C:0.12, G:0.51, T:0.17
Consensus pattern (38 bp):
TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
Found at i:4153139 original size:27 final size:26
Alignment explanation
Indices: 4153109--4153170 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
4153099 CAAAACAAAG
*
4153109 TGGACAAAACAAAAACCACGAAAAATA
1 TGGACAAAACAAAAACCA-AAAAAATA
* * *
4153136 TGGACAAAA-TAAAACTAAAAAAATG
1 TGGACAAAACAAAAACCAAAAAAATA
4153161 TGGACAAAAC
1 TGGACAAAAC
4153171 CACAATGGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 15 0.50
26 6 0.20
27 9 0.30
ACGTcount: A:0.61, C:0.15, G:0.13, T:0.11
Consensus pattern (26 bp):
TGGACAAAACAAAAACCAAAAAAATA
Found at i:4156603 original size:10 final size:10
Alignment explanation
Indices: 4156588--4156615 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4156578 AAAGCTTAAA
4156588 TATGAAATAG
1 TATGAAATAG
4156598 TATGAAATAG
1 TATGAAATAG
4156608 TATGAAAT
1 TATGAAAT
4156616 CAAGACAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (10 bp):
TATGAAATAG
Found at i:4160733 original size:39 final size:39
Alignment explanation
Indices: 4160687--4160787 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
4160677 GCTCTAATGA
* *
4160687 GCTTCAGTTAGCTTTTGGGCTTCCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAACACTTATGT
*
4160726 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAACACTTATGT
* * *
4160765 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTTGGGCTTC
4160788 AAATCACGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTTGGGCTTCCGTTTAACACTTATGT
Found at i:4160769 original size:21 final size:20
Alignment explanation
Indices: 4160700--4160769 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 20
4160690 TCAGTTAGCT
* *
4160700 TTTGGGCTTCCGTTTAACAC
1 TTTGTGCTTCCGTTTAGCAC
*
4160720 TTGTGTGCTTCAG-TTAGC-C
1 TT-TGTGCTTCCGTTTAGCAC
*
4160739 TTTGGGCTTCCGTTTAGCAC
1 TTTGTGCTTCCGTTTAGCAC
4160759 TTATGTGCTTC
1 TT-TGTGCTTC
4160770 AGCTAGACTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
18 8 0.20
19 8 0.20
20 9 0.22
21 15 0.38
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.43
Consensus pattern (20 bp):
TTTGTGCTTCCGTTTAGCAC
Found at i:4163710 original size:12 final size:13
Alignment explanation
Indices: 4163695--4163724 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
4163685 AGTGTATCAA
4163695 ATAATTTTCTA-T
1 ATAATTTTCTATT
4163707 ATAATTTTCTATT
1 ATAATTTTCTATT
4163720 ATAAT
1 ATAAT
4163725 AAATATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (13 bp):
ATAATTTTCTATT
Found at i:4164615 original size:16 final size:17
Alignment explanation
Indices: 4164582--4164620 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
4164572 GAAACATTTA
*
4164582 TTTTAATGTTTTAGTAT
1 TTTTAATGTATTAGTAT
*
4164599 TTTTGATGTATTA-TAT
1 TTTTAATGTATTAGTAT
4164615 TTTTAA
1 TTTTAA
4164621 AATTTTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (17 bp):
TTTTAATGTATTAGTAT
Found at i:4170312 original size:21 final size:21
Alignment explanation
Indices: 4170286--4170326 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4170276 AGACGAGCAA
* *
4170286 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4170307 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4170327 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4181667 original size:46 final size:45
Alignment explanation
Indices: 4181561--4181719 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 45
4181551 CATATGACCT
*
4181561 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
4181604 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
4181650 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
4181687 CTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTA
4181720 ACCACTTATC
Statistics
Matches: 104, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
37 29 0.28
39 2 0.02
40 2 0.02
42 1 0.01
43 9 0.09
44 6 0.06
45 21 0.20
46 34 0.33
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:4181688 original size:37 final size:37
Alignment explanation
Indices: 4181646--4181822 Score: 291
Period size: 37 Copynumber: 4.8 Consensus size: 37
4181636 AGCTGAAGCT
* **
4181646 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
4181683 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
4181720 ACCACTTATCCCTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
4181757 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
4181794 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
4181823 AGTACTCAAA
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 132 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:4189366 original size:46 final size:45
Alignment explanation
Indices: 4189260--4189418 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 45
4189250 CATATGACCT
*
4189260 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
4189303 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
4189349 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
4189386 CTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTA
4189419 ACCACTTATC
Statistics
Matches: 104, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
37 29 0.28
39 2 0.02
40 2 0.02
42 1 0.01
43 9 0.09
44 6 0.06
45 21 0.20
46 34 0.33
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:4189387 original size:37 final size:37
Alignment explanation
Indices: 4189345--4189521 Score: 291
Period size: 37 Copynumber: 4.8 Consensus size: 37
4189335 AGCTGAAGCT
* **
4189345 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
4189382 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
4189419 ACCACTTATCCCTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
4189456 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
4189493 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
4189522 AGTACTCAAA
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 132 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:4194469 original size:25 final size:25
Alignment explanation
Indices: 4194427--4194484 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
4194417 CCATGAATAA
* * *
4194427 TATGAACAAAATAAAACTATGAAAC
1 TATGGACAGAATAAAACTATAAAAC
4194452 -AGTGGACAGAATAAAACTATAAAAC
1 TA-TGGACAGAATAAAACTATAAAAC
4194477 TATGGACA
1 TATGGACA
4194485 TGTGGATTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 1 0.04
25 26 0.93
26 1 0.04
ACGTcount: A:0.55, C:0.12, G:0.14, T:0.19
Consensus pattern (25 bp):
TATGGACAGAATAAAACTATAAAAC
Found at i:4195374 original size:19 final size:20
Alignment explanation
Indices: 4195330--4195375 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
4195320 GGCAATACCA
* *
4195330 AAAATTTTAAAGATTTATAG
1 AAAATTTTAAAGAGTTATAC
*
4195350 AAAATTTTAAATAGTTAT-C
1 AAAATTTTAAAGAGTTATAC
4195369 AAAATTT
1 AAAATTT
4195376 CTCAGGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (20 bp):
AAAATTTTAAAGAGTTATAC
Found at i:4195635 original size:120 final size:120
Alignment explanation
Indices: 4195368--4195632 Score: 268
Period size: 120 Copynumber: 2.2 Consensus size: 120
4195358 AAATAGTTAT
* * * *
4195368 CAAAATTTCTCAGG-TTATATAAAAAACTTC-AAGGCTTTACCAAAATTTCTAAGAATTTATCAA
1 CAAAATTTCTAAGGATT-TAT-CAAAATTTCTAAGGCTTTACCAAAATTTCGAAGAATTTATCAA
* * * * *
4195431 TATTTTTAAAGATTTCCTTAGTTTCCCATACCCAAACAACTCAACATTTTGACATAT
64 TATTTCTAAAGATTTCCTTAGATTCCCAGACCCAAACAACACAACATTTTGACATAC
* * * **
4195488 CAAAATTTCTAATGATTTATCAAAATTTCTAAGGCTTTGCCATAATTTCGAAGGGTTTATCAATA
1 CAAAATTTCTAAGGATTTATCAAAATTTCTAAGGCTTTACCAAAATTTCGAAGAATTTATCAATA
* * ** *
4195553 TTTCTACAGATTTTCTTAGATTCTTAGACTCC-ACCAACACAACATTTTTTG-CATAC
66 TTTCTAAAGATTTCCTTAGATTCCCAGAC-CCAAACAACACAACA--TTTTGACATAC
* *
4195609 CAAAATTTCTTAGGATTTCTCAAA
1 CAAAATTTCTAAGGATTTATCAAA
4195633 TTTTTTAGGA
Statistics
Matches: 118, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
119 7 0.06
120 77 0.65
121 29 0.25
122 5 0.04
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.37
Consensus pattern (120 bp):
CAAAATTTCTAAGGATTTATCAAAATTTCTAAGGCTTTACCAAAATTTCGAAGAATTTATCAATA
TTTCTAAAGATTTCCTTAGATTCCCAGACCCAAACAACACAACATTTTGACATAC
Found at i:4195815 original size:20 final size:20
Alignment explanation
Indices: 4195755--4195815 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
4195745 CATTTTCGTG
* * *
4195755 TACTAATATTTCTAAAAATT
1 TACTAAAATTTTTAAAGATT
*
4195775 TAC-CAAA-TTTTATAAGAATT
1 TACTAAAATTTTTA-AAG-ATT
4195795 TACTAAAATTTTTAAAGATT
1 TACTAAAATTTTTAAAGATT
4195815 T
1 T
4195816 CATTAGTGTC
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
18 4 0.12
19 4 0.12
20 13 0.41
21 6 0.19
22 5 0.16
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (20 bp):
TACTAAAATTTTTAAAGATT
Found at i:4204537 original size:19 final size:19
Alignment explanation
Indices: 4204505--4204547 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
4204495 TTTTAAAAAA
*
4204505 TAAAAAAAATAAGT-TTTT
1 TAAAAAAAATAAGTACTTT
*
4204523 TAAAAAAATTCAAGTACTTT
1 TAAAAAAAAT-AAGTACTTT
4204543 TAAAA
1 TAAAA
4204548 GGTATGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
19 4 0.19
20 8 0.38
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (19 bp):
TAAAAAAAATAAGTACTTT
Found at i:4205952 original size:22 final size:20
Alignment explanation
Indices: 4205917--4205959 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
4205907 TTAGTTTCTA
*
4205917 ATTTTCGAATATTTTCATTTTT
1 ATTTTCGAA-AATTT-ATTTTT
*
4205939 ATTTTCTAAAATTTATTTTT
1 ATTTTCGAAAATTTATTTTT
4205959 A
1 A
4205960 ATATTTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTTTCGAAAATTTATTTTT
Found at i:4210205 original size:23 final size:23
Alignment explanation
Indices: 4210151--4210211 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 23
4210141 ATCACATAAA
4210151 GTGCCT-AAA-ACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
4210172 GTGCCTG--ATACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
4210193 GTGCCTGAAATACGACACA
1 GTGCCTGAAATACGACACA
4210212 TAAAGTGCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.69
23 10 0.28
ACGTcount: A:0.34, C:0.28, G:0.25, T:0.13
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:4210219 original size:23 final size:23
Alignment explanation
Indices: 4210143--4210223 Score: 80
Period size: 21 Copynumber: 3.7 Consensus size: 23
4210133 CAGTATACAT
*
4210143 CACATAAAGTGCCT-AAA-ACGA
1 CACACAAAGTGCCTGAAATACGA
* *
4210164 CACACGAGGTGCCTG--ATACGA
1 CACACAAAGTGCCTGAAATACGA
* *
4210185 CACACGAGGTGCCTGAAATACGA
1 CACACAAAGTGCCTGAAATACGA
*
4210208 CACATAAAGTGCCTGA
1 CACACAAAGTGCCTGA
4210224 TCGATAAAGC
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 30 0.60
23 19 0.38
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (23 bp):
CACACAAAGTGCCTGAAATACGA
Found at i:4210616 original size:15 final size:15
Alignment explanation
Indices: 4210591--4210648 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
4210581 AATCATATAT
4210591 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
4210607 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
4210622 AATAATTTCAATCAA
1 TATAAATTCAATCAA
4210637 TATAAATTCAAT
1 TATAAATTCAAT
4210649 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:4211929 original size:5 final size:5
Alignment explanation
Indices: 4211921--4211960 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
4211911 TCTTTAGTTT
4211921 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
4211961 GTTAAAACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:4211998 original size:8 final size:8
Alignment explanation
Indices: 4211985--4212013 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
4211975 TAGCTTTATT
4211985 ATATAATA
1 ATATAATA
4211993 ATATAATA
1 ATATAATA
4212001 ATATAATA
1 ATATAATA
4212009 ATATA
1 ATATA
4212014 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:4214252 original size:23 final size:21
Alignment explanation
Indices: 4214200--4214287 Score: 95
Period size: 21 Copynumber: 4.1 Consensus size: 21
4214190 CCTGATCAGT
* * *
4214200 ATACGACACATAAAGTGCCTA
1 ATACGACACACAAGGTGCCTG
*
4214221 AAACGACACACAAGGTGCCTG
1 ATACGACACACAAGGTGCCTG
*
4214242 ATACGACACACGAGGTGCCTG
1 ATACGACACACAAGGTGCCTG
* *
4214263 AAATACGACACATAAAGTGCCTG
1 --ATACGACACACAAGGTGCCTG
4214286 AT
1 AT
4214288 CGATAAAGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
21 38 0.68
23 18 0.32
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (21 bp):
ATACGACACACAAGGTGCCTG
Found at i:4214683 original size:15 final size:15
Alignment explanation
Indices: 4214658--4214715 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
4214648 TCATATATAT
4214658 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
4214674 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
4214689 AATAATTTCAATCAA
1 TATAAATTCAATCAA
4214704 TATAAATTCAAT
1 TATAAATTCAAT
4214716 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:4215975 original size:20 final size:21
Alignment explanation
Indices: 4215940--4215979 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4215930 CTGCTCTCTG
*
4215940 TTTCGTTTCATTTTGTTTCTA
1 TTTCCTTTCATTTTGTTTCTA
4215961 TTTCCTTTC-TTTTGTTTCT
1 TTTCCTTTCATTTTGTTTCT
4215980 TTAGTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.05, C:0.17, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTCCTTTCATTTTGTTTCTA
Found at i:4216039 original size:8 final size:8
Alignment explanation
Indices: 4216026--4216054 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
4216016 TATCTTTATT
4216026 ATATAATA
1 ATATAATA
4216034 ATATAATA
1 ATATAATA
4216042 ATATAATA
1 ATATAATA
4216050 ATATA
1 ATATA
4216055 TTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:4216848 original size:33 final size:33
Alignment explanation
Indices: 4216758--4216883 Score: 139
Period size: 33 Copynumber: 3.8 Consensus size: 33
4216748 TTCTAAGTGG
* ** *
4216758 TATACATAAAGTATACCTTTCCTTTTCATATGG
1 TATACACAAAGTATACCTAACCTTTTCATATGT
**
4216791 TATACACAAAGTATACCTTTCCTTTTCATATGT
1 TATACACAAAGTATACCTAACCTTTTCATATGT
*
4216824 TATACACAAAGTATACCTAACCTTTCCA-A-GT
1 TATACACAAAGTATACCTAACCTTTTCATATGT
* * *
4216855 GTACACACAAAGTGTACATAACCTTTTCA
1 -TATACACAAAGTATACCTAACCTTTTCA
4216884 AGTTGTACCA
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
31 2 0.02
32 25 0.30
33 56 0.67
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (33 bp):
TATACACAAAGTATACCTAACCTTTTCATATGT
Found at i:4216850 original size:38 final size:33
Alignment explanation
Indices: 4216755--4216841 Score: 156
Period size: 33 Copynumber: 2.6 Consensus size: 33
4216745 CCTTTCTAAG
*
4216755 TGGTATACATAAAGTATACCTTTCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
4216788 TGGTATACACAAAGTATACCTTTCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
*
4216821 TGTTATACACAAAGTATACCT
1 TGGTATACACAAAGTATACCT
4216842 AACCTTTCCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (33 bp):
TGGTATACACAAAGTATACCTTTCCTTTTCATA
Found at i:4216877 original size:32 final size:33
Alignment explanation
Indices: 4216827--4216891 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
4216817 CATATGTTAT
*
4216827 ACACAAAGTATACCTAACCTTTCCAAG-TGTAC
1 ACACAAAGTATACATAACCTTTCCAAGTTGTAC
* *
4216859 ACACAAAGTGTACATAACCTTTTCAAGTTGTAC
1 ACACAAAGTATACATAACCTTTCCAAGTTGTAC
4216892 CATTTGGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 24 0.83
33 5 0.17
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.28
Consensus pattern (33 bp):
ACACAAAGTATACATAACCTTTCCAAGTTGTAC
Found at i:4222334 original size:51 final size:51
Alignment explanation
Indices: 4222183--4222336 Score: 236
Period size: 51 Copynumber: 3.0 Consensus size: 51
4222173 ACTTCTGATC
* * * *
4222183 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATTAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
4222234 AGTGACAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * *
4222285 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACGCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
4222336 A
1 A
4222337 ATGAGAAATG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 94 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:4224248 original size:10 final size:10
Alignment explanation
Indices: 4224217--4224262 Score: 53
Period size: 9 Copynumber: 4.9 Consensus size: 10
4224207 TATATATATA
4224217 AATTATATTT
1 AATTATATTT
*
4224227 -ATT-TAATT
1 AATTATATTT
*
4224235 AATTATTTTT
1 AATTATATTT
4224245 AATT-TATTT
1 AATTATATTT
4224254 AATTATATT
1 AATTATATT
4224263 CAATAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
8 4 0.14
9 14 0.48
10 11 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
AATTATATTT
Found at i:4224255 original size:19 final size:18
Alignment explanation
Indices: 4224202--4224262 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 18
4224192 ATTTATTATC
* *
4224202 ATATTTATATATATAAATT
1 ATATTTATTTA-ATTAATT
4224221 ATATTTATTTAATTAATT
1 ATATTTATTTAATTAATT
* *
4224239 ATTTTTAATTTATTTAATT
1 ATATTT-ATTTAATTAATT
4224258 ATATT
1 ATATT
4224263 CAATAATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
18 11 0.31
19 25 0.69
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTTATTTAATTAATT
Found at i:4233061 original size:21 final size:22
Alignment explanation
Indices: 4233008--4233063 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
4232998 TTCGTTGAAC
4233008 AATATTAATAACTAATAAACAAA
1 AATATTAATAA-TAATAAACAAA
** *
4233031 AATAAAAATAATAA-AAACATA
1 AATATTAATAATAATAAACAAA
4233052 AATATTAATAAT
1 AATATTAATAAT
4233064 TATTGGCTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 16 0.57
22 3 0.11
23 9 0.32
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (22 bp):
AATATTAATAATAATAAACAAA
Found at i:4233317 original size:19 final size:19
Alignment explanation
Indices: 4233293--4233330 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4233283 TATTTTTTCA
4233293 AAAAATGAT-TAAAAATTAT
1 AAAAAT-ATATAAAAATTAT
*
4233312 AAAAATATATAAATATTAT
1 AAAAATATATAAAAATTAT
4233331 TGTAGCACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
AAAAATATATAAAAATTAT
Found at i:4235911 original size:17 final size:18
Alignment explanation
Indices: 4235891--4235928 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4235881 TTTCACAATG
*
4235891 TAAAAAAT-ACAATAAAT
1 TAAAAAATAAAAATAAAT
*
4235908 TAAAATATAAAAATAAAT
1 TAAAAAATAAAAATAAAT
4235926 TAA
1 TAA
4235929 CAAGTTACGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAAAAATAAAAATAAAT
Found at i:4238633 original size:21 final size:20
Alignment explanation
Indices: 4238599--4238639 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
4238589 AAAACATCAA
* *
4238599 TAAATTTAATATATTATTTTT
1 TAAATATAAAATATT-TTTTT
4238620 TAAATATAAAATATTTTTTT
1 TAAATATAAAATATTTTTTT
4238640 ATATTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TAAATATAAAATATTTTTTT
Found at i:4246441 original size:87 final size:87
Alignment explanation
Indices: 4246295--4246471 Score: 345
Period size: 87 Copynumber: 2.0 Consensus size: 87
4246285 AACATATTGC
4246295 ACACCTTTATTAATCATGAATTGATAGATCTATTCTCTCATTTCAATTTCATTGGATCTTTAAAA
1 ACACCTTTATTAATCATGAATTGATAGATCTATTCTCTCATTTCAATTTCATTGGATCTTTAAAA
4246360 GACTAGAATGACTTACTAATTA
66 GACTAGAATGACTTACTAATTA
*
4246382 ACACCTTTATTAATCGTGAATTGATAGATCTATTCTCTCATTTCAATTTCATTGGATCTTTAAAA
1 ACACCTTTATTAATCATGAATTGATAGATCTATTCTCTCATTTCAATTTCATTGGATCTTTAAAA
4246447 GACTAGAATGACTTACTAATTA
66 GACTAGAATGACTTACTAATTA
4246469 ACA
1 ACA
4246472 TTCGAACTCA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (87 bp):
ACACCTTTATTAATCATGAATTGATAGATCTATTCTCTCATTTCAATTTCATTGGATCTTTAAAA
GACTAGAATGACTTACTAATTA
Found at i:4254047 original size:16 final size:16
Alignment explanation
Indices: 4254026--4254058 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4254016 GAACACTAAG
4254026 GCAGGAAAAAACGAAA
1 GCAGGAAAAAACGAAA
4254042 GCAGGAAAAAACGAAA
1 GCAGGAAAAAACGAAA
4254058 G
1 G
4254059 TGAAACTATG
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:0.61, C:0.12, G:0.27, T:0.00
Consensus pattern (16 bp):
GCAGGAAAAAACGAAA
Found at i:4254916 original size:26 final size:26
Alignment explanation
Indices: 4254880--4254929 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
4254870 ATTTGTCCTC
4254880 AACAGATTCTTACACGCAAATAAATT
1 AACAGATTCTTACACGCAAATAAATT
4254906 AACAGATTCTTACACGCAAATAAA
1 AACAGATTCTTACACGCAAATAAA
4254930 AATATAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (26 bp):
AACAGATTCTTACACGCAAATAAATT
Found at i:4265696 original size:26 final size:26
Alignment explanation
Indices: 4265678--4265731 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
4265668 ATATATATTT
4265678 TATTAAATTATATTTAATAATAATTA
1 TATTAAATTATATTTAATAATAATTA
* * *
4265704 TGTTAAATTATATTTCATAGT-ATTA
1 TATTAAATTATATTTAATAATAATTA
4265729 TAT
1 TAT
4265732 ATTATGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (26 bp):
TATTAAATTATATTTAATAATAATTA
Found at i:4265802 original size:18 final size:17
Alignment explanation
Indices: 4265776--4265810 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4265766 AATATTAAGA
*
4265776 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4265793 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4265811 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4265815 original size:120 final size:120
Alignment explanation
Indices: 4265659--4265951 Score: 439
Period size: 120 Copynumber: 2.4 Consensus size: 120
4265649 ATTAAATAAG
* * *
4265659 TTATTGAAAATATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATA
1 TTATT-AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACA
* * *
4265723 GTATTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATT
65 GTATCATATATTATGATTTCAGAAAATTAATATAAGAATA-TTAATTATTAAGAATT
* * *
4265779 TTATTAAATTATATATTTTAATTAAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAG
1 TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAG
*
4265844 TATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATT
66 TATCATATATTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATT
*
4265899 TTATTAAATTATATA-TTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
4265952 ATGATTAAAT
Statistics
Matches: 157, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
119 46 0.29
120 111 0.71
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (120 bp):
TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAG
TATCATATATTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATT
Found at i:4265916 original size:17 final size:17
Alignment explanation
Indices: 4265896--4265949 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 17
4265886 ATTATTAAGA
* *
4265896 ATTTTATTAAATTATAT
1 ATTTAATTAAAATATAT
4265913 ATTTAATT-AAA-ATAT
1 ATTTAATTAAAATATAT
*
4265928 ATTTAATAAAAAT-TAT
1 ATTTAATTAAAATATAT
*
4265944 GTTTAA
1 ATTTAA
4265950 ATATGATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 11 0.35
16 13 0.42
17 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAAATATAT
Found at i:4265929 original size:15 final size:15
Alignment explanation
Indices: 4265909--4265940 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4265899 TTATTAAATT
*
4265909 ATATATTTAATTAAA
1 ATATATTTAATAAAA
4265924 ATATATTTAATAAAA
1 ATATATTTAATAAAA
4265939 AT
1 AT
4265941 TATGTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATATTTAATAAAA
Found at i:4266192 original size:16 final size:16
Alignment explanation
Indices: 4266165--4266232 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
4266155 GATTTGCTAT
4266165 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
4266181 TACACATTTAATCCAA
1 TACACCTCTAATCCAA
4266197 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4266213 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4266229 TACA
1 TACA
4266233 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.40, C:0.34, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:4266413 original size:18 final size:17
Alignment explanation
Indices: 4266384--4266417 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
4266374 ACAATTTATA
4266384 TTAAATTATAATTATTT
1 TTAAATTATAATTATTT
4266401 TTAAATATATAATTATT
1 TTAAAT-TATAATTATT
4266418 ACCATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAATTATAATTATTT
Found at i:4269430 original size:2 final size:2
Alignment explanation
Indices: 4269423--4269457 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4269413 GTAGAAATTA
4269423 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
4269458 ACATATGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:4273391 original size:46 final size:46
Alignment explanation
Indices: 4273324--4273417 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
4273314 ACTGGAAATG
*
4273324 GACCTTCAATCCTTTGAAGAAATGCAAACATTTATCAACCATATTT
1 GACCTTCAATCCTTTAAAGAAATGCAAACATTTATCAACCATATTT
4273370 GACCTTCAATCCTTTAAAGAAATGCAAACATTTATCAACCATATTT
1 GACCTTCAATCCTTTAAAGAAATGCAAACATTTATCAACCATATTT
4273416 GA
1 GA
4273418 GAAGCCTATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (46 bp):
GACCTTCAATCCTTTAAAGAAATGCAAACATTTATCAACCATATTT
Found at i:4274826 original size:21 final size:21
Alignment explanation
Indices: 4274802--4274849 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
4274792 ACACGAGGTG
4274802 CCTGATACAACACATACAGTA
1 CCTGATACAACACATACAGTA
** * *
4274823 CCTGATATGACACATATAGTG
1 CCTGATACAACACATACAGTA
4274844 CCTGAT
1 CCTGAT
4274850 CGGCAAAGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (21 bp):
CCTGATACAACACATACAGTA
Found at i:4275761 original size:18 final size:18
Alignment explanation
Indices: 4275715--4275786 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 18
4275705 TTATTTTTAT
*
4275715 TTATTTACTTTATATTATAA
1 TTATTTAATTTATA--ATAA
* *
4275735 TAATATAATTTATAATAA
1 TTATTTAATTTATAATAA
*
4275753 TTATTTAATTAATAA-ATA
1 TTATTTAATTTATAATA-A
*
4275771 TTTTTTAA-TTATAATA
1 TTATTTAATTTATAATA
4275787 CAAGTGTATA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
17 6 0.14
18 25 0.60
20 11 0.26
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTTAATTTATAATAA
Found at i:4279571 original size:12 final size:12
Alignment explanation
Indices: 4279541--4279573 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
4279531 ATATTCTTTT
4279541 AAAATT-ATATA
1 AAAATTAATATA
4279552 AAAA-TAATATA
1 AAAATTAATATA
4279563 AAAATTAATAT
1 AAAATTAATAT
4279574 GGGCGGGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:4287862 original size:6 final size:6
Alignment explanation
Indices: 4287851--4287885 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
4287841 CTCACTGATG
4287851 TTTATA TTTATA TTTATA TTTATA TTTATA TTTAT
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTAT
4287886 TCTGCTTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTATA
Found at i:4298360 original size:64 final size:64
Alignment explanation
Indices: 4298286--4298413 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
4298276 CCCAAGCTAC
*
4298286 TTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTTGCTTGGCTTCTGTCACTTTTTTCTCA
1 TTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTTGCTTGGCTTCTGTCACTTTCTTCTCA
4298350 TTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTTGCTTGGCTTCTGTCACTTTCTTCTCA
1 TTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTTGCTTGGCTTCTGTCACTTTCTTCTCA
4298414 ATCATCTCAC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.17, C:0.29, G:0.11, T:0.43
Consensus pattern (64 bp):
TTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTTGCTTGGCTTCTGTCACTTTCTTCTCA
Found at i:4299111 original size:11 final size:11
Alignment explanation
Indices: 4299095--4299124 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
4299085 TGTTCTATAT
4299095 ATATATTTTTG
1 ATATATTTTTG
4299106 ATATATTTTTG
1 ATATATTTTTG
4299117 ATATATTT
1 ATATATTT
4299125 AAAAGTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (11 bp):
ATATATTTTTG
Found at i:4300713 original size:82 final size:82
Alignment explanation
Indices: 4300613--4300777 Score: 330
Period size: 82 Copynumber: 2.0 Consensus size: 82
4300603 GTTTCGAGTG
4300613 ATAGGATCTAGATATTATAGATCAACTGAGACAATTCACCGTTATTTTAGGGTTGTATTGAGAGC
1 ATAGGATCTAGATATTATAGATCAACTGAGACAATTCACCGTTATTTTAGGGTTGTATTGAGAGC
4300678 TATTTTGAAATTGTATA
66 TATTTTGAAATTGTATA
4300695 ATAGGATCTAGATATTATAGATCAACTGAGACAATTCACCGTTATTTTAGGGTTGTATTGAGAGC
1 ATAGGATCTAGATATTATAGATCAACTGAGACAATTCACCGTTATTTTAGGGTTGTATTGAGAGC
4300760 TATTTTGAAATTGTATA
66 TATTTTGAAATTGTATA
4300777 A
1 A
4300778 GCTAGTTATT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (82 bp):
ATAGGATCTAGATATTATAGATCAACTGAGACAATTCACCGTTATTTTAGGGTTGTATTGAGAGC
TATTTTGAAATTGTATA
Found at i:4304172 original size:22 final size:22
Alignment explanation
Indices: 4304146--4304212 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 22
4304136 AATGTGGTGT
4304146 AATATTAGTTATGCACTTGGAC
1 AATATTAGTTATGCACTTGGAC
* **
4304168 AATATTGTTGTTAT-CA-TGTGGTGT
1 AATA-T-TAGTTATGCACT-TGG-AC
4304192 AATATTAGTTATGCACTTGGA
1 AATATTAGTTATGCACTTGGA
4304213 TAATGTTGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 12
0.67 0.10 0.24
Matches are distributed among these distances:
22 11 0.32
23 12 0.35
24 11 0.32
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (22 bp):
AATATTAGTTATGCACTTGGAC
Found at i:4304190 original size:46 final size:46
Alignment explanation
Indices: 4304137--4304265 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
4304127 GATACTTTTA
*
4304137 ATGTGGTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATC
1 ATGTGGTGTAATATTAGTTATGCACTTGGATAATATTGTTGTTATC
*
4304183 ATGTGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATC
1 ATGTGGTGTAATATTAGTTATGCACTTGGATAATATTGTTGTTATC
* * *
4304229 ATGTGGTGTAATACTAATTATGCATTTGGATAATATT
1 ATGTGGTGTAATATTAGTTATGCACTTGGATAATATT
4304266 ATTAATTTCT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (46 bp):
ATGTGGTGTAATATTAGTTATGCACTTGGATAATATTGTTGTTATC
Found at i:4304216 original size:22 final size:22
Alignment explanation
Indices: 4304145--4304216 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
4304135 TAATGTGGTG
4304145 TAATATTAGTTATGCACTTGGA
1 TAATATTAGTTATGCACTTGGA
* * *
4304167 CAATATTGTTGTTAT-CA-TGTGGTG
1 TAATA-T-TAGTTATGCACT-TGG-A
4304191 TAATATTAGTTATGCACTTGGA
1 TAATATTAGTTATGCACTTGGA
4304213 TAAT
1 TAAT
4304217 GTTGTTGTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
22 15 0.39
23 12 0.32
24 11 0.29
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.43
Consensus pattern (22 bp):
TAATATTAGTTATGCACTTGGA
Found at i:4304683 original size:15 final size:14
Alignment explanation
Indices: 4304660--4304712 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
4304650 CCAGAAAAGT
*
4304660 AAATCATTTTCCAAA
1 AAATTATTTTCC-AA
*
4304675 AAATTATTTTCCAG
1 AAATTATTTTCCAA
*
4304689 AAATTATTTTTCGAA
1 AAATTA-TTTTCCAA
4304704 AAA-TATTTT
1 AAATTATTTT
4304713 ACCTGCAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 4 0.12
14 9 0.27
15 20 0.61
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (14 bp):
AAATTATTTTCCAA
Found at i:4304694 original size:14 final size:15
Alignment explanation
Indices: 4304660--4304712 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 15
4304650 CCAGAAAAGT
*
4304660 AAATCATTTTCCAAA
1 AAATTATTTTCCAAA
*
4304675 AAATTATTTTCC-AG
1 AAATTATTTTCCAAA
* *
4304689 AAATTATTTTTCGAA
1 AAATTATTTTCCAAA
4304704 AAA-TATTTT
1 AAATTATTTT
4304713 ACCTGCAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 18 0.55
15 15 0.45
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (15 bp):
AAATTATTTTCCAAA
Found at i:4308980 original size:19 final size:18
Alignment explanation
Indices: 4308958--4308996 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4308948 ACACATGCAC
4308958 TATACTGATAAAAAATATA
1 TATACTGAT-AAAAATATA
* *
4308977 TATATTTATAAAAATATA
1 TATACTGATAAAAATATA
4308995 TA
1 TA
4308997 AATATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
TATACTGATAAAAATATA
Found at i:4309004 original size:16 final size:18
Alignment explanation
Indices: 4308968--4309002 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4308958 TATACTGATA
*
4308968 AAAAATATATATATTTAT
1 AAAAATATATATATATAT
*
4308986 AAAAATATATAAATATA
1 AAAAATATATATATATA
4309003 AATTATTTTT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATATATATATATAT
Found at i:4309579 original size:26 final size:31
Alignment explanation
Indices: 4309521--4309597 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 31
4309511 ATTAAAATTT
*
4309521 AATTTAATTTAATTTATTTTAATAATATGAA
1 AATTAAATTTAATTTATTTTAATAATATGAA
*
4309552 AATTAAATTT-ATTTA-TTTAATAATA-AAA
1 AATTAAATTTAATTTATTTTAATAATATGAA
*
4309580 AACT-AATTTAAGTTTATT
1 AATTAAATTTAA-TTTATT
4309598 GTATCTATCA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 5 0.12
28 6 0.15
29 14 0.35
30 6 0.15
31 9 0.22
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (31 bp):
AATTAAATTTAATTTATTTTAATAATATGAA
Found at i:4310435 original size:24 final size:26
Alignment explanation
Indices: 4310408--4310458 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
4310398 AAAGGAATCA
4310408 AAAT-TATAATTTGACTTTTT-TTTT
1 AAATATATAATTTGACTTTTTATTTT
** *
4310432 AAATATATTTTTTGATTTTTTATTTT
1 AAATATATAATTTGACTTTTTATTTT
4310458 A
1 A
4310459 TTCAGTCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 4 0.18
25 13 0.59
26 5 0.23
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (26 bp):
AAATATATAATTTGACTTTTTATTTT
Found at i:4315207 original size:22 final size:23
Alignment explanation
Indices: 4315182--4315230 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
4315172 TCAAATTCCT
4315182 TTTTAGGATA-TAAAAATAAATA
1 TTTTAGGATACTAAAAATAAATA
*
4315204 TTTTATGATATCTAAAAATAAATA
1 TTTTAGGATA-CTAAAAATAAATA
4315228 TTT
1 TTT
4315231 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.38
24 15 0.62
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (23 bp):
TTTTAGGATACTAAAAATAAATA
Found at i:4322117 original size:30 final size:30
Alignment explanation
Indices: 4322081--4322144 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
4322071 ATTATAAAAT
* *
4322081 TAAAATTACACTTTTACCTTTTAAAAATGA
1 TAAAATTACAATTTAACCTTTTAAAAATGA
** * *
4322111 TAAAATTTTAATTTAATCTTTTAAAAATTA
1 TAAAATTACAATTTAACCTTTTAAAAATGA
4322141 TAAA
1 TAAA
4322145 GACATATGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.44
Consensus pattern (30 bp):
TAAAATTACAATTTAACCTTTTAAAAATGA
Found at i:4330831 original size:18 final size:20
Alignment explanation
Indices: 4330789--4330825 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4330779 ATATTTTATG
*
4330789 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
4330808 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
4330826 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:4332905 original size:23 final size:24
Alignment explanation
Indices: 4332853--4332899 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
4332843 TTAGCCCTCT
*
4332853 CGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATA-GGCTCTTG
4332878 CGAGCTTCCCGTTATA-GCTCTT
1 CGAGCTTCCCGTTATAGGCTCTT
4332900 CGGAGCGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
25 16 0.76
ACGTcount: A:0.13, C:0.28, G:0.21, T:0.38
Consensus pattern (24 bp):
CGAGCTTCCCGTTATAGGCTCTTG
Found at i:4332910 original size:23 final size:23
Alignment explanation
Indices: 4332831--4332911 Score: 58
Period size: 25 Copynumber: 3.4 Consensus size: 23
4332821 AACTCGAAAA
* *
4332831 AGCGTCCCGATATTAGCCCTCTC-G
1 AGCGTCCCGTTA-TAGCTCT-TCGG
* *
4332855 AGCTTCCCGTTATATGGTTCTT-GCG
1 AGCGTCCCGTTATA--GCTCTTCG-G
*
4332880 AGCTTCCCGTTATAGCTCTTCGG
1 AGCGTCCCGTTATAGCTCTTCGG
4332903 AGCGTCCCG
1 AGCGTCCCG
4332912 ATAGATTGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
23 16 0.35
24 12 0.26
25 18 0.39
ACGTcount: A:0.14, C:0.32, G:0.23, T:0.31
Consensus pattern (23 bp):
AGCGTCCCGTTATAGCTCTTCGG
Found at i:4333007 original size:23 final size:23
Alignment explanation
Indices: 4332973--4333134 Score: 114
Period size: 23 Copynumber: 6.9 Consensus size: 23
4332963 CCCGATATAT
*
4332973 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTTGTGAGCTTCCCGATA
4332996 GGCTCTTTGTGAGCTTCCCGATA
1 GGCTCTTTGTGAGCTTCCCGATA
** *
4333019 GTGCTCGCT-TGAACTTCCCGATATA
1 G-GCTCTTTGTGAGCTTCCCG--ATA
* ***
4333044 TGGCT-ATCCAGAGCTTCCCGATA
1 -GGCTCTTTGTGAGCTTCCCGATA
*
4333067 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTTGTGAGCTTCCCGATA
* * * *
4333090 TGGTTCTTTGTGAACTACCCGATTTC
1 -GGCTCTTTGTGAGCTTCCCGA--TA
*
4333116 GGCTCTAT-TGAGCTTCCCG
1 GGCTCTTTGTGAGCTTCCCG
4333135 TTATAGCCCG
Statistics
Matches: 109, Mismatches: 21, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
22 4 0.04
23 51 0.47
24 31 0.28
25 21 0.19
26 2 0.02
ACGTcount: A:0.15, C:0.28, G:0.23, T:0.33
Consensus pattern (23 bp):
GGCTCTTTGTGAGCTTCCCGATA
Found at i:4336118 original size:14 final size:14
Alignment explanation
Indices: 4336094--4336126 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4336084 TCCCTGCTTC
4336094 GTTTCTGTTTCTTTT
1 GTTTCTGTTTC-TTT
4336109 GTTT-TGTTTCTTT
1 GTTTCTGTTTCTTT
4336122 GTTTC
1 GTTTC
4336127 CTTAATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.73
Consensus pattern (14 bp):
GTTTCTGTTTCTTT
Found at i:4336459 original size:15 final size:14
Alignment explanation
Indices: 4336441--4336471 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
4336431 TTAATTTATT
4336441 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
4336456 TAATAATAATCTAA
1 TAATAATAATCTAA
4336470 TA
1 TA
4336472 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:4336482 original size:21 final size:20
Alignment explanation
Indices: 4336458--4336526 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
4336448 AATGCTAATA
4336458 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
4336479 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
4336498 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
4336519 ATAATAAT
1 ATAATAAT
4336527 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:4340857 original size:18 final size:17
Alignment explanation
Indices: 4340819--4340867 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
4340809 ATTTTAACAT
* * *
4340819 TATTATATTAATATCAT
1 TATTATGTTATTATCAA
4340836 TATTATGTCTATTATCAA
1 TATTATGT-TATTATCAA
*
4340854 TATTCTGTTATTAT
1 TATTATGTTATTAT
4340868 TATCGGTACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (17 bp):
TATTATGTTATTATCAA
Found at i:4341503 original size:27 final size:27
Alignment explanation
Indices: 4341450--4341497 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 27
4341440 ATATCAATAT
4341450 TTTATTTATTATTATTACTATTATTTC
1 TTTATTTATTATTATTACTATTATTTC
4341477 TTTA-TT-TTA-TATTA-TATTATT
1 TTTATTTATTATTATTACTATTATT
4341498 AGTTTCCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.33
24 5 0.24
25 3 0.14
26 2 0.10
27 4 0.19
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTATTTATTATTATTACTATTATTTC
Found at i:4343450 original size:34 final size:35
Alignment explanation
Indices: 4343406--4343472 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
4343396 CAGTAAAATA
* *
4343406 TTTTCCGTAAAATGATTT-TTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
4343440 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
4343473 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:4343476 original size:14 final size:15
Alignment explanation
Indices: 4343400--4343476 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
4343390 GATTGCCAGT
* *
4343400 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
4343414 AAAATGATTTT-TGG
1 AAAATGATTTTCTGG
*
4343428 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
4343448 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
4343463 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
4343477 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 20 0.40
15 16 0.32
16 1 0.02
18 1 0.02
19 4 0.08
20 8 0.16
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:4350718 original size:16 final size:16
Alignment explanation
Indices: 4350687--4350720 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4350677 TCAGATTTAA
* *
4350687 ATCATTTCTAATTTAT
1 ATCATTTCGAACTTAT
4350703 ATCATTTCGAACTTAT
1 ATCATTTCGAACTTAT
4350719 AT
1 AT
4350721 ATAAGAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.50
Consensus pattern (16 bp):
ATCATTTCGAACTTAT
Found at i:4350991 original size:30 final size:30
Alignment explanation
Indices: 4350955--4351013 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
4350945 ATACACCATA
**
4350955 ATGTCGTTATTTTCATACATAGACTAATTG
1 ATGTCGTTACATTCATACATAGACTAATTG
* *
4350985 ATGTCGTTACATTCATATATAGATTAATT
1 ATGTCGTTACATTCATACATAGACTAATT
4351014 CAATTGAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (30 bp):
ATGTCGTTACATTCATACATAGACTAATTG
Found at i:4353088 original size:16 final size:16
Alignment explanation
Indices: 4353063--4353093 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4353053 ATGGATTAGG
4353063 ATTTACATTAACTATA
1 ATTTACATTAACTATA
*
4353079 ATTTATATTAACTAT
1 ATTTACATTAACTAT
4353094 CAAAGCTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTACATTAACTATA
Found at i:4356568 original size:15 final size:15
Alignment explanation
Indices: 4356548--4356577 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4356538 GTATCCATAG
4356548 CGACAATAGTGACTA
1 CGACAATAGTGACTA
4356563 CGACAATAGTGACTA
1 CGACAATAGTGACTA
4356578 ATTCTTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (15 bp):
CGACAATAGTGACTA
Done.