Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold726
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: 990522
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.25
Warning! 295012 characters in sequence are not A, C, G, or T
File 1 of 5
Found at i:645 original size:40 final size:40
Alignment explanation
Indices: 601--683 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
591 ATAGCAACGT
601 TTTAATTTAAAACGTCACT-AAATAAAATCATATAACGGCA
1 TTTAATTTAAAACGTC-CTAAAATAAAATCATATAACGGCA
* * * *
641 TTTAATTTAAAATGTCGTAAAATAAAATCATATAGCGGTA
1 TTTAATTTAAAACGTCCTAAAATAAAATCATATAACGGCA
681 TTT
1 TTT
684 CATTAAAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.03
40 37 0.97
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.35
Consensus pattern (40 bp):
TTTAATTTAAAACGTCCTAAAATAAAATCATATAACGGCA
Found at i:1742 original size:17 final size:17
Alignment explanation
Indices: 1701--1757 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 17
1691 AAATATTTCG
1701 AATTAAATATTAATAA-AT
1 AATTAAATA--AATAATAT
*
1719 AAATAAATAAATAATAT
1 AATTAAATAAATAATAT
1736 AATTAAAATAAA-AATAT
1 AATT-AAATAAATAATAT
1753 AATTA
1 AATTA
1758 CATCTTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.17
17 14 0.40
18 15 0.43
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTAAATAAATAATAT
Found at i:3488 original size:111 final size:112
Alignment explanation
Indices: 3364--3583 Score: 343
Period size: 112 Copynumber: 2.0 Consensus size: 112
3354 GCTAAAACGT
** * *
3364 CGCTAAATA-TTTTTTCCTAACTATAAAATTTAAACCTTTATAGTTGTTTAAAAATGCCGTGAAA
1 CGCTAAATATTTTTTTCCTAACTATAAAATTTAAACCTTTATAGTCATTTAAAAACGCCATGAAA
3428 TGTAAATAAAACGTCTATAATTTAGCAACGTTTGTAGTAATAAATGC
66 TGTAAATAAAACGTCTATAATTTAGCAACGTTTGTAGTAATAAATGC
* * *
3475 CGCTAAATATTTTTTTCCTAACTATAAAATTTAAACTTTTATAGTCATTTTAAAACGTCATGAAA
1 CGCTAAATATTTTTTTCCTAACTATAAAATTTAAACCTTTATAGTCATTTAAAAACGCCATGAAA
* **
3540 TGTAAATAAAACGTCTTTAATTTAGCTGCGTTTGTAGTAATAAA
66 TGTAAATAAAACGTCTATAATTTAGCAACGTTTGTAGTAATAAA
3584 CACCGTTAAA
Statistics
Matches: 98, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
111 9 0.09
112 89 0.91
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (112 bp):
CGCTAAATATTTTTTTCCTAACTATAAAATTTAAACCTTTATAGTCATTTAAAAACGCCATGAAA
TGTAAATAAAACGTCTATAATTTAGCAACGTTTGTAGTAATAAATGC
Found at i:3838 original size:18 final size:18
Alignment explanation
Indices: 3817--3854 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3807 AGTTTTTGTG
3817 TAATACAATATTT-TTGAT
1 TAATA-AATATTTATTGAT
*
3835 TAATATATATTTATTGAT
1 TAATAAATATTTATTGAT
3853 TA
1 TA
3855 TTTTATTACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (18 bp):
TAATAAATATTTATTGAT
Found at i:14801 original size:17 final size:18
Alignment explanation
Indices: 14769--14802 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14759 ATTACATGTT
14769 TAAAATATAATATTTTAA
1 TAAAATATAATATTTTAA
*
14787 TAAAAT-TATTATTTTA
1 TAAAATATAATATTTTA
14803 TTAGTCATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAAATATAATATTTTAA
Found at i:14851 original size:23 final size:24
Alignment explanation
Indices: 14819--14865 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
14809 ATTAAGATTT
*
14819 AAAATTTTAAAATAA-ATTAATAA
1 AAAATATTAAAATAAGATTAATAA
*
14842 AAAATATTAAAATAAGATTTATAA
1 AAAATATTAAAATAAGATTAATAA
14866 TTAAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (24 bp):
AAAATATTAAAATAAGATTAATAA
Found at i:17379 original size:17 final size:17
Alignment explanation
Indices: 17357--17391 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17347 ACTTTGGAAT
17357 CTATAGTATCAATTGGG
1 CTATAGTATCAATTGGG
17374 CTATAGTATCAATTGGG
1 CTATAGTATCAATTGGG
17391 C
1 C
17392 ACCTGTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (17 bp):
CTATAGTATCAATTGGG
Found at i:18881 original size:2 final size:2
Alignment explanation
Indices: 18868--18897 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18858 GAAGGAAGAA
*
18868 AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18898 TGGACCAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20703 original size:26 final size:27
Alignment explanation
Indices: 20674--20727 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
20664 TTTTCCTCGG
**
20674 TGAC-AAAAGGTTTTGGGTTTAAAAAT
1 TGACAAAAAGGTTTCCGGTTTAAAAAT
20700 TGACAAAAAGGTTTCCGGTTTAAAAAT
1 TGACAAAAAGGTTTCCGGTTTAAAAAT
20727 T
1 T
20728 AATTGGTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.33
Consensus pattern (27 bp):
TGACAAAAAGGTTTCCGGTTTAAAAAT
Found at i:21834 original size:2 final size:2
Alignment explanation
Indices: 21822--21857 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
21812 CAAATGCATT
21822 TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
21858 TTCTAATCGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:22537 original size:18 final size:19
Alignment explanation
Indices: 22516--22568 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 19
22506 ATAAAAAAAT
22516 TTAAAATATTTT-TTATAA
1 TTAAAATATTTTATTATAA
*
22534 TTAAATTTATTTTAATTATAA
1 TTAAA-ATATTTT-ATTATAA
22555 -TAAAA-A-TTTATTAT
1 TTAAAATATTTTATTAT
22569 TAAATAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
16 5 0.17
17 3 0.10
18 6 0.20
19 6 0.20
20 4 0.13
21 6 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAAAATATTTTATTATAA
Found at i:22554 original size:21 final size:23
Alignment explanation
Indices: 22528--22589 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
22518 AAAATATTTT
22528 TTATAATTAAATTTATT-TT-AA
1 TTATAATTAAATTTATTATTAAA
*
22549 TTATAATAAAAATTTATTATTAAA
1 TTATAAT-TAAATTTATTATTAAA
*
22573 TAATAATTTAAAATTTA
1 TTATAA-TT-AAATTTA
22590 AATTAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 7 0.21
22 9 0.27
23 2 0.06
24 7 0.21
25 8 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTATAATTAAATTTATTATTAAA
Found at i:23041 original size:21 final size:21
Alignment explanation
Indices: 23017--23084 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
23007 TTACAAAAAC
23017 ATTTATTATTAAAATATTAAT
1 ATTTATTATTAAAATATTAAT
*
23038 ATTT-TATATTAAAAT-TAAAT
1 ATTTAT-TATTAAAATATTAAT
* *
23058 ATTTTATTTATAAAAATAATAAT
1 A-TTTA-TTATTAAAATATTAAT
23081 ATTT
1 ATTT
23085 GATTCTAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
20 6 0.16
21 16 0.42
22 11 0.29
23 5 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTATTATTAAAATATTAAT
Found at i:23060 original size:20 final size:21
Alignment explanation
Indices: 23018--23064 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
23008 TACAAAAACA
*
23018 TTTATTATTAAAATATTAATAT
1 TTTA-TATTAAAATATAAATAT
23040 TTTATATTAAAAT-TAAATAT
1 TTTATATTAAAATATAAATAT
23060 TTTAT
1 TTTAT
23065 TTATAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 11 0.46
21 9 0.38
22 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATATTAAAATATAAATAT
Found at i:23078 original size:20 final size:19
Alignment explanation
Indices: 23018--23078 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 19
23008 TACAAAAACA
23018 TTTATTATTAAAATATTAATAT
1 TTTA-TATTAAAA-A-TAATAT
*
23040 TTTATATTAAAATTAAATAT
1 TTTATATTAAAAAT-AATAT
*
23060 TTTATTTATAAAAATAATA
1 TTTATAT-TAAAAATAATA
23079 ATATTTGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.03
20 15 0.44
21 14 0.41
22 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTATATTAAAAATAATAT
Found at i:23665 original size:16 final size:16
Alignment explanation
Indices: 23641--23671 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23631 TTTTAAAGTA
*
23641 TCGTGCCCGAATCTAC
1 TCGTACCCGAATCTAC
23657 TCGTACCCGAATCTA
1 TCGTACCCGAATCTA
23672 AGTAATATAG
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:0.23, C:0.35, G:0.16, T:0.26
Consensus pattern (16 bp):
TCGTACCCGAATCTAC
Found at i:23975 original size:43 final size:41
Alignment explanation
Indices: 23915--23998 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 41
23905 ATCCGATAGA
*
23915 TTTTTTAATATGAATATAAAAATATAACCTCAAAAAAAAACC
1 TTTTTTAATATAAATATAAAAATATAA-CTCAAAAAAAAACC
*
23957 TTTTTTGAATATAAATATAAAAATATAACTTAAAAAAAAACC
1 TTTTTT-AATATAAATATAAAAATATAACTCAAAAAAAAACC
23999 CTCTAAACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 19 0.49
43 20 0.51
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (41 bp):
TTTTTTAATATAAATATAAAAATATAACTCAAAAAAAAACC
Found at i:26291 original size:18 final size:19
Alignment explanation
Indices: 26268--26304 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
26258 AATTTTATTT
*
26268 TATAAAT-TTAATTAAAAA
1 TATAAATATTAAATAAAAA
26286 TATAAATATTAAATAAAAA
1 TATAAATATTAAATAAAAA
26305 GTAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TATAAATATTAAATAAAAA
Found at i:26839 original size:14 final size:13
Alignment explanation
Indices: 26820--26866 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
26810 AGGAAAGAAA
26820 AAAAAAAGAAAGAG
1 AAAAAAAGAAA-AG
26834 AAAAAAAGAAAACG
1 AAAAAAAGAAAA-G
*
26848 AAAAGAA-AAAAG
1 AAAAAAAGAAAAG
26860 AAAAAAA
1 AAAAAAA
26867 TTTATTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 7 0.23
13 5 0.17
14 18 0.60
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:26842 original size:25 final size:26
Alignment explanation
Indices: 26813--26866 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
26803 TGCCGAAAGG
*
26813 AAAGAAAAAAAAAAG-AAAGAGAAAA
1 AAAGAAAAAAAAAAGAAAAAAGAAAA
**
26838 AAAGAAAACGAAAAGAAAAAAGAAAA
1 AAAGAAAAAAAAAAGAAAAAAGAAAA
26864 AAA
1 AAA
26867 TTTATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (26 bp):
AAAGAAAAAAAAAAGAAAAAAGAAAA
Found at i:26845 original size:19 final size:18
Alignment explanation
Indices: 26813--26863 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
26803 TGCCGAAAGG
26813 AAAGAAAAAA-AAAA-GA
1 AAAGAAAAAAGAAAACGA
26829 AAGAGAAAAAAAGAAAACGA
1 AA-AG-AAAAAAGAAAACGA
26849 AAAGAAAAAAGAAAA
1 AAAGAAAAAAGAAAA
26864 AAATTTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
16 2 0.06
17 2 0.06
18 17 0.55
19 6 0.19
20 4 0.13
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAGAAAACGA
Found at i:27448 original size:19 final size:19
Alignment explanation
Indices: 27410--27446 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
27400 TATCCTATTC
27410 TAAATATAATTTAAATAAA
1 TAAATATAATTTAAATAAA
27429 TAAATATAATTT-AATAAA
1 TAAATATAATTTAAATAAA
27447 ATTTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATATAATTTAAATAAA
Found at i:38339 original size:17 final size:18
Alignment explanation
Indices: 38303--38341 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
38293 GTTACTTTGT
*
38303 TAAAATATAAATAGTATA
1 TAAAATATAAAAAGTATA
*
38321 TAAAAT-TAAAAAGTGTA
1 TAAAATATAAAAAGTATA
38338 TAAA
1 TAAA
38342 CATAATGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
TAAAATATAAAAAGTATA
Found at i:39844 original size:27 final size:26
Alignment explanation
Indices: 39780--39836 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
39770 GTTTATTTAA
* * *
39780 AATATAATAATAATAATATTTTTATT
1 AATAAAATAATAATAATAATATTATT
39806 AATAAAATAATAATATATAATATTATT
1 AATAAAATAATAATA-ATAATATTATT
39833 AATA
1 AATA
39837 CATTAATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATAAAATAATAATAATAATATTATT
Found at i:40767 original size:3 final size:3
Alignment explanation
Indices: 40759--40792 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
40749 ATATTAGTCC
40759 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
40793 GACGAATGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:41418 original size:2 final size:2
Alignment explanation
Indices: 41405--41437 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
41395 AATTATTGTG
*
41405 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
41438 GAAATTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42489 original size:107 final size:107
Alignment explanation
Indices: 41749--42476 Score: 993
Period size: 107 Copynumber: 6.9 Consensus size: 107
41739 GTTGACTCTG
* *
41749 CTATTGTTTTTAAAGCTTCTTTATACTGGTTATAATCAAGGAATTGAAACCTTGTTCTTGAATTT
1 CTATTGTTTTTAAAGCTCCTTTATACTGGTTATAATCATGGAATTGAAACCTTGTTCTTGAATTT
* * *
41814 GTATTATCATAATGGGGATCTTTAATTACGTATGTATCGATA
66 GCATTATCATAATGGGGATCTGTAATTACGTATGTATTGATA
* * *
41856 CTTTTGTTTTTAAAGCTCCTTTATACTAGTTATAATCATGGAATTGAAACCCTGTTCTTGAATTT
1 CTATTGTTTTTAAAGCTCCTTTATACTGGTTATAATCATGGAATTGAAACCTTGTTCTTGAATTT
* *
41921 ACATTATCATAATGCGGATCTG----T--GTATGTATTGATA
66 GCATTATCATAATGGGGATCTGTAATTACGTATGTATTGATA
* * *
41957 CTATTGTTTTTAAAGATCCTTTGTACTGGTTATAATCATGCAATTGAAACCTTGTTCTTGAATTT
1 CTATTGTTTTTAAAGCTCCTTTATACTGGTTATAATCATGGAATTGAAACCTTGTTCTTGAATTT
* * * * * *
42022 GCATTATCAAAATGGAGATCTTTAATTACGTACGTA-TCAAA
66 GCATTATCATAATGGGGATCTGTAATTACGTATGTATTGATA
* * * * *
42063 CTTTTGTTTTTAAAGCTCCTTTTTGCTAGTTATAATCATGGAATTGAAAACTTGTTCTTGAATTT
1 CTATTGTTTTTAAAGCTCCTTTATACTGGTTATAATCATGGAATTGAAACCTTGTTCTTGAATTT
* * * *
42128 GCATTATCATGATGGGGATCTGTAATTATGAATGTATCGATA
66 GCATTATCATAATGGGGATCTGTAATTACGTATGTATTGATA
*
42170 CTATTTTTTTTAAAGCTCCTTTATACTGGTTATAATCATGGAATTGAAACCTTGTTCTTGAATTT
1 CTATTGTTTTTAAAGCTCCTTTATACTGGTTATAATCATGGAATTGAAACCTTGTTCTTGAATTT
* * * * * *
42235 GCATTGTCACAATGAGGATCTATAATTTCGTGTGTATTGATA
66 GCATTATCATAATGGGGATCTGTAATTACGTATGTATTGATA
* *
42277 CTATTGTTTTTAAAGCTCCTTTATACTAGTTATAATCATGGAATTGAAACCCTGTTCTTGAATTT
1 CTATTGTTTTTAAAGCTCCTTTATACTGGTTATAATCATGGAATTGAAACCTTGTTCTTGAATTT
* * *
42342 ACACTATCATAATGGGGATCTGCAATTACGTATGTATTGATA
66 GCATTATCATAATGGGGATCTGTAATTACGTATGTATTGATA
* * * * *
42384 CTATTGTTTTTAAAGCTCTTTTATACTGGTTTTTATCATGCAATTGAAACCTTGTTTTTGAATTT
1 CTATTGTTTTTAAAGCTCCTTTATACTGGTTATAATCATGGAATTGAAACCTTGTTCTTGAATTT
*
42449 GCATTATCATAATGGGAATCTGTAATTA
66 GCATTATCATAATGGGGATCTGTAATTA
42477 TGTGCGTATT
Statistics
Matches: 534, Mismatches: 80, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
101 88 0.16
103 1 0.00
105 1 0.00
106 90 0.17
107 354 0.66
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (107 bp):
CTATTGTTTTTAAAGCTCCTTTATACTGGTTATAATCATGGAATTGAAACCTTGTTCTTGAATTT
GCATTATCATAATGGGGATCTGTAATTACGTATGTATTGATA
Found at i:48917 original size:16 final size:16
Alignment explanation
Indices: 48896--48928 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
48886 TTGTATCCGA
48896 CATTCATACATGAGTT
1 CATTCATACATGAGTT
48912 CATTCATACATGAGTT
1 CATTCATACATGAGTT
48928 C
1 C
48929 GAGTAACATA
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:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (16 bp):
CATTCATACATGAGTT
Found at i:50238 original size:27 final size:27
Alignment explanation
Indices: 50174--50243 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
50164 TATTTTAATT
* * *
50174 AATTATGATAATATTTATCACATTTAA
1 AATTATAATAATATTCATCACATCTAA
* *
50201 AATCA-AGATAATATTCATTACATCTAA
1 AATTATA-ATAATATTCATCACATCTAA
50228 AATTATAATAAATATT
1 AATTATAAT-AATATT
50244 ATACGATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
27 27 0.79
28 7 0.21
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (27 bp):
AATTATAATAATATTCATCACATCTAA
Found at i:71147 original size:28 final size:28
Alignment explanation
Indices: 71116--71209 Score: 80
Period size: 25 Copynumber: 3.7 Consensus size: 28
71106 AATTTGTTGA
71116 AAATTAAATAAAATATATAATTTAATTT
1 AAATTAAATAAAATATATAATTTAATTT
71144 AAATTAAAT--AAT-TATAATTT--TTT
1 AAATTAAATAAAATATATAATTTAATTT
* * *
71167 -AATT-TATAAAATA-A-AAATTAAATT
1 AAATTAAATAAAATATATAATTTAATTT
* *
71191 AAACTAAATTAAATATATA
1 AAATTAAATAAAATATATA
71210 TTAATAATCA
Statistics
Matches: 51, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
21 2 0.04
22 8 0.16
23 7 0.14
24 2 0.04
25 11 0.22
26 10 0.20
27 1 0.02
28 10 0.20
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (28 bp):
AAATTAAATAAAATATATAATTTAATTT
Found at i:71167 original size:23 final size:26
Alignment explanation
Indices: 71116--71209 Score: 72
Period size: 23 Copynumber: 3.7 Consensus size: 26
71106 AATTTGTTGA
71116 AAATTAAATAAAATATATAATTTAATTT
1 AAATTAAAT-AAATATATAATTT-ATTT
71144 AAATTAAAT-AAT-TATAATTT-TTT
1 AAATTAAATAAATATATAATTTATTT
* * * * *
71167 AATTTATA-AAATA-AAAATTAAATT
1 AAATTAAATAAATATATAATTTATTT
*
71191 AAACTAAATTAAATATATA
1 AAATTAAA-TAAATATATA
71210 TTAATAATCA
Statistics
Matches: 51, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
23 17 0.33
24 7 0.14
25 8 0.16
26 8 0.16
27 2 0.04
28 9 0.18
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (26 bp):
AAATTAAATAAATATATAATTTATTT
Found at i:71238 original size:14 final size:13
Alignment explanation
Indices: 71219--71252 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
71209 ATTAATAATC
71219 ATTAAAAATTAAAA
1 ATTAAAAATT-AAA
71233 ATTAAAAATTAAA
1 ATTAAAAATTAAA
71246 ATTAAAA
1 ATTAAAA
71253 TTGGAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
ATTAAAAATTAAA
Found at i:71254 original size:6 final size:7
Alignment explanation
Indices: 71219--71252 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
71209 ATTAATAATC
71219 ATTAAAA
1 ATTAAAA
71226 ATTAAAA
1 ATTAAAA
71233 ATTAAAA
1 ATTAAAA
71240 ATT-AAA
1 ATTAAAA
71246 ATTAAAA
1 ATTAAAA
71253 TTGGAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATTAAAA
Found at i:71443 original size:24 final size:25
Alignment explanation
Indices: 71395--71446 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
71385 ACATGTTATT
*
71395 TCATGTTTAATAATTTATTTTTTTA
1 TCATGTTTAATAATTTATTTGTTTA
71420 TCATGTTTAA-AA-TTATTTAGTTTA
1 TCATGTTTAATAATTTATTT-GTTTA
71444 TCA
1 TCA
71447 AATTTTCATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 6 0.24
24 9 0.36
25 10 0.40
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (25 bp):
TCATGTTTAATAATTTATTTGTTTA
Found at i:72636 original size:2 final size:2
Alignment explanation
Indices: 72629--72661 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
72619 TACTGCTAGT
72629 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
72662 CATCGATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:74545 original size:19 final size:18
Alignment explanation
Indices: 74518--74567 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
74508 TATTTTTATA
74518 ATTAAATTTAAATAAAAAT
1 ATTAAATTT-AATAAAAAT
*
74537 ATTATATTTAATAAAAAAT
1 ATTAAATTTAAT-AAAAAT
*
74556 AATTAAAATTAA
1 -ATTAAATTTAA
74568 ATCAAACACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 3 0.12
19 14 0.54
20 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTAAATTTAATAAAAAT
Found at i:74558 original size:39 final size:38
Alignment explanation
Indices: 74515--74605 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 38
74505 TTATATTTTT
74515 ATAATTAAATTTAAAT-AAA-AATATTATATTTAATAAAAA
1 ATAATTAAATTTAAATCAAACAAT-TT-TATTT-ATAAAAA
* * *
74554 ATAATTAAAATTAAATCAAACACTTTTATTTTTAAAAA
1 ATAATTAAATTTAAATCAAACAATTTTATTTATAAAAA
74592 AT-A-TAAATTTAAAT
1 ATAATTAAATTTAAAT
74606 TAGATGCAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
36 10 0.22
37 1 0.02
38 8 0.17
39 20 0.43
40 5 0.11
41 2 0.04
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (38 bp):
ATAATTAAATTTAAATCAAACAATTTTATTTATAAAAA
Found at i:86195 original size:19 final size:20
Alignment explanation
Indices: 86159--86197 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
86149 TATTAATTTA
86159 ATCATATTTAAATATATTAT
1 ATCATATTTAAATATATTAT
*
86179 ATCATATTT-ATTATATTAT
1 ATCATATTTAAATATATTAT
86198 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
ATCATATTTAAATATATTAT
Found at i:88935 original size:16 final size:15
Alignment explanation
Indices: 88902--88944 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
88892 ACGGAATTAG
88902 AATAAAAAATAAAAAAT
1 AATAAAAAAT--AAAAT
88919 AATAACAAAATAAAAT
1 AATAA-AAAATAAAAT
88935 AATAAAAAAT
1 AATAAAAAAT
88945 TCTTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.20
16 10 0.40
17 5 0.20
18 5 0.20
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (15 bp):
AATAAAAAATAAAAT
Found at i:101096 original size:28 final size:28
Alignment explanation
Indices: 101052--101123 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
101042 AAAAAAAAAT
* * *
101052 CGGGATTGGAGTGTCCCCTCA-GAAGTAA
1 CGGGGTTGGAGTATCCCC-CATGAAATAA
*
101080 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCCATGAAATAA
*
101108 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
101124 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCATGAAATAA
Found at i:101172 original size:52 final size:53
Alignment explanation
Indices: 101112--101448 Score: 173
Period size: 52 Copynumber: 6.4 Consensus size: 53
101102 AAATAACGAG
*
101112 GTTGGAGTATCCTCGATTGTGAAAAATTGGTA-TTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTACTTTTTGGAAATAAAATCGGA
* ** * * * *
101164 GTTGGAGTATCCCTGATTAAAGGAAAATT-G-ACGTTTTGAAAATAAAACCGG-
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTACTTTTTGGAAATAAAATCGGA
* * * * *
101215 GATTGGAGTATCCCCGATTGTGAAAAAATTAGT-GTTTTAGCG--ATAAAACCGGG
1 G-TTGGAGTATCCCCGATTGTG-AAAAATTGGTACTTTTTG-GAAATAAAATCGGA
* ** * **** * * *
101268 GTTGGAGTATCCCC--TCGAAAATAACAGGGTTGG-AGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAA-AA-A---TTGGTACT-TTTTGGA-AATAAAATCGGA
*
101323 GTTGGAGTATCCCCGATTGTGAAAAAATTGGTATTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AAAAATTGGTACTTTTTGGAAATAAAATCGGA
* * * * *
101377 GTTAGAGTATCCCCGATTAT-AGAAAATTAGT--GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTACTTTTTGGAAATAAAATCGGA
*
101428 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
101449 GAGAATTGAG
Statistics
Matches: 215, Mismatches: 44, Indels: 52
0.69 0.14 0.17
Matches are distributed among these distances:
49 2 0.01
50 4 0.02
51 39 0.18
52 81 0.38
53 30 0.14
54 29 0.13
55 19 0.09
56 3 0.01
57 6 0.03
58 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTACTTTTTGGAAATAAAATCGGA
Found at i:101236 original size:104 final size:102
Alignment explanation
Indices: 101113--101448 Score: 299
Period size: 104 Copynumber: 3.2 Consensus size: 102
101103 AATAACGAGG
*
101113 TTGGAGTATCCTCGATTGTG-AAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCC
1 TTGGAGTATCCCCGATTGTGAAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCC
101177 TGATTAAAGGAAAATTGACGTTTTGAAAATAAAACCGGGA
66 TGATTAAA-GAAAATTGA-GTTTTGAAAATAAAA-CGGGA
* * * * *
101217 TTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCG--ATAAAACCGGGGTTGGAGTATCC
1 TTGGAGTATCCCCGATTGTGAAAAAATTGGTATTTTTG-GAAATAAAATCGGAGTTGGAGTAT-C
* * ** ** * *
101280 CCTCGA--AAATAACAGGGTTGGAGTATCCCCGATGAT-TAACGGGG
64 CCT-GATTAAAGAA-A--ATT-GAGT-T--TTGAAAATAAAACGGGA
*
101324 TTGGAGTATCCCCGATTGTGAAAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAGAGTATCC
1 TTGGAGTATCCCCGATTGTGAAAAAATTGGTA-TTTTTGGAAATAAAATCGGAGTTGGAGTATCC
* * *
101389 CCGATTATAGAAAATTAGTGTTTTGAAAATAAAATC-GGA
65 CTGATTAAAGAAAATT-GAGTTTTGAAAATAAAA-CGGGA
*
101428 GTTGGAATATCCCCGATTGTG
1 -TTGGAGTATCCCCGATTGTG
101449 GAGAATTGAG
Statistics
Matches: 180, Mismatches: 33, Indels: 37
0.72 0.13 0.15
Matches are distributed among these distances:
103 6 0.03
104 46 0.26
105 39 0.22
106 12 0.07
107 40 0.22
108 11 0.06
109 26 0.14
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (102 bp):
TTGGAGTATCCCCGATTGTGAAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCC
TGATTAAAGAAAATTGAGTTTTGAAAATAAAACGGGA
Found at i:101327 original size:27 final size:27
Alignment explanation
Indices: 101255--101339 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
101245 AGTGTTTTAG
*
101255 CGATAAA-ACCGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTAT-CCC
*
101282 TCGA-AAATAACAGGGTTGGAGTATCCC
1 -CGATAAATAACGGGGTTGGAGTATCCC
* *
101309 CGATGATTAACGGGGTTGGAGTATCCC
1 CGATAAATAACGGGGTTGGAGTATCCC
101336 CGAT
1 CGAT
101340 TGTGAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
26 3 0.06
27 30 0.60
28 17 0.34
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (27 bp):
CGATAAATAACGGGGTTGGAGTATCCC
Found at i:101353 original size:212 final size:212
Alignment explanation
Indices: 101047--101448 Score: 598
Period size: 212 Copynumber: 1.9 Consensus size: 212
101037 AGAAGAAAAA
* * * *
101047 AAAATCGGGATTGGAGTGTCCCCTCAGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
1 AAAACCGGGATTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGAG
* *
101112 GTTGGAGTATCCTCGATTGTGAAAAATTGGTA-TTTTTGGAAATAAAATCGGAGTTGGAGTATCC
66 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAGAGTATCC
* *
101176 CTGATTAAAGGAAAATT-GACGTTTTGAAAATAAAACCGG-GATTGGAGTATCCCCGATTGTGAA
131 CCGATTAAA-GAAAATTAG-CGTTTTGAAAATAAAACCGGAG-TTGGAATATCCCCGATTGTGAA
101239 AAAATTAGTGTTTTAGCGAT
193 AAAATTAGTGTTTTAGCGAT
* * *
101259 AAAACCGGGGTTGGAGTATCCCCTC-GAAAATAACAGGGTTGGAGTATCCCCGATG-ATTAACGG
1 AAAACCGGGATTGGAGTATCCCCTCAG-AAATAACAGGGTTGGAGTATCCCCGATGAAATAACGA
101322 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAGAGTAT
65 GGTTGGAGTATCCCCGATTGTG-AAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAGAGTAT
* * *
101387 CCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTG
129 CCCCGATTAAAGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTG
101449 GAGAATTGAG
Statistics
Matches: 171, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
211 28 0.16
212 103 0.60
213 40 0.23
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (212 bp):
AAAACCGGGATTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGAG
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAGAGTATCC
CCGATTAAAGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGAAAAA
ATTAGTGTTTTAGCGAT
Found at i:101391 original size:54 final size:52
Alignment explanation
Indices: 101327--101448 Score: 156
Period size: 51 Copynumber: 2.3 Consensus size: 52
101317 AACGGGGTTG
* * *
101327 GAGTATCCCCGATTGTGAAAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTGTGAAAAAATTAG--TGTTTTGAAAATAAAATCGGAGTTA
* * *
101381 GAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTGTGAAAAAATTAGTGTTTTGAAAATAAAATCGGAGTTA
*
101432 GAATATCCCCGATTGTG
1 GAGTATCCCCGATTGTG
101449 GAGAATTGAG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 36 0.61
53 8 0.14
54 15 0.25
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.32
Consensus pattern (52 bp):
GAGTATCCCCGATTGTGAAAAAATTAGTGTTTTGAAAATAAAATCGGAGTTA
Found at i:103828 original size:13 final size:13
Alignment explanation
Indices: 103810--103835 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
103800 ACAAAGATCC
103810 ATGTATCGATACA
1 ATGTATCGATACA
103823 ATGTATCGATACA
1 ATGTATCGATACA
103836 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:103831 original size:33 final size:33
Alignment explanation
Indices: 103789--103855 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
103779 AAAATTTCCA
***
103789 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
103822 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
103855 A
1 A
103856 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:104936 original size:59 final size:59
Alignment explanation
Indices: 104590--105611 Score: 1411
Period size: 59 Copynumber: 17.5 Consensus size: 59
104580 TGAGGAGTAA
* ** *
104590 AAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGTATCCTGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
* *
104644 AAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTGTCCTGCTCTTTGAGGACTGG
1 AAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-G
* * * *
104700 AAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTTGGGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
* * * * * *
104754 AAAAATGACACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCTGCTCTTTGGGGACTG
1 -AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
* * *
104809 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACT-
1 AAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
* *
104869 AAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
1 AAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
104929 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
* *
104988 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCACTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
* * *
105047 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCATCCCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
*
105106 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
*
105165 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
* * * *
105224 AAGGTGCCACCAACTTGTGTGGGTTTTAAAAGAAAAAGCGTCTCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
*
105283 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
*
105342 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
* *
105401 AAGGTGCCACCAACTTGTGTGGGTTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
* * *
105460 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCACTCTTTGAGGAGTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-G
* ** *
105520 AAAATGCCACCAACTTGTGTGGGCTTTAAAAGGGGAAGGCGTCCTGCTCTTTGAGGACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCCCGCTCTTTGAGGACT-G
* *
105581 GAAGTGCCACCATCTTGTGTGGGCTTTAAAA
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAA
105612 AGTGTCCTGC
Statistics
Matches: 903, Mismatches: 47, Indels: 29
0.92 0.05 0.03
Matches are distributed among these distances:
53 1 0.00
54 9 0.01
55 158 0.17
56 6 0.01
57 1 0.00
59 595 0.66
60 60 0.07
61 73 0.08
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (59 bp):
AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
Found at i:106617 original size:11 final size:11
Alignment explanation
Indices: 106601--106645 Score: 72
Period size: 11 Copynumber: 4.0 Consensus size: 11
106591 TTAAGCAGAT
106601 TTTTTTTTTTG
1 TTTTTTTTTTG
106612 TTTTTTTTTTG
1 TTTTTTTTTTG
106623 TTGTTTTTTTTG
1 TT-TTTTTTTTG
*
106635 TGTTTTTTTTG
1 TTTTTTTTTTG
106646 AAAAAGAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 22 0.69
12 10 0.31
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:106619 original size:14 final size:14
Alignment explanation
Indices: 106600--106644 Score: 67
Period size: 13 Copynumber: 3.4 Consensus size: 14
106590 CTTAAGCAGA
106600 TTTTTTTTT-TTGT
1 TTTTTTTTTGTTGT
106613 TTTTTTTTTGTTGT
1 TTTTTTTTTGTTGT
*
106627 TTTTTTTGTGTT-T
1 TTTTTTTTTGTTGT
106640 TTTTT
1 TTTTT
106645 GAAAAAGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 15 0.50
14 15 0.50
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTGTTGT
Found at i:119175 original size:28 final size:28
Alignment explanation
Indices: 119131--119202 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
119121 AAAAAAAAAT
* * ** *
119131 CGGGATTGGAGTGTCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
119159 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
119187 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
119203 TCGATTGTGA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:119249 original size:52 final size:52
Alignment explanation
Indices: 119191--119527 Score: 183
Period size: 52 Copynumber: 6.4 Consensus size: 52
119181 AAATAACGAG
*
119191 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
** * ** *
119243 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAATCGG-
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
* * *
119294 GATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAATC-GA
1 G-TTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAATCGGA
*** *** **** * * *
119346 GGTTGGAGTATCCTCTCGAAAAT-AACGGGGTTGG-AGTATCCCCGATGAT-TAA-CGGG
1 -GTTGGAGTATCC-C-CGATTGTGAA--AAATTGGTA-T-TTTTGGA-AATAAAATCGGA
119402 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTATTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGTA-TTTTTGGAAATAAAATCGGA
** * * * * *
119456 GTTAAAGTATCCCCAATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
*
119507 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
119528 GAGAATTGAG
Statistics
Matches: 207, Mismatches: 55, Indels: 46
0.67 0.18 0.15
Matches are distributed among these distances:
51 35 0.17
52 82 0.40
53 37 0.18
54 34 0.16
55 14 0.07
56 3 0.01
57 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:119406 original size:27 final size:27
Alignment explanation
Indices: 119346--119418 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
119336 ATAAAATCGA
119346 GGTTGGAGTATCCTCTCGA-AAATAACGG
1 GGTTGGAGTATCC-C-CGATAAATAACGG
* *
119374 GGTTGGAGTATCCCCGATGATTAACGG
1 GGTTGGAGTATCCCCGATAAATAACGG
119401 GGTTGGAGTATCCCCGAT
1 GGTTGGAGTATCCCCGAT
119419 TGTGAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
26 3 0.07
27 26 0.62
28 13 0.31
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (27 bp):
GGTTGGAGTATCCCCGATAAATAACGG
Found at i:119432 original size:212 final size:212
Alignment explanation
Indices: 119126--119529 Score: 618
Period size: 212 Copynumber: 1.9 Consensus size: 212
119116 AGAAGAAAAA
* * *
119126 AAAATCGGGATTGGAGTGTCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
1 AAAATCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
* **
119191 GTTGGAGTATCCTCGATTGTGAAAAATTGGTA-TTTTTGGAAATAAAATCGGAGTTGGAGTATCC
66 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAAAGTATCC
* * *
119255 CCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAATCGG-GATTGGAGTATCCCCGATTGTGGAA
131 CCAATTAAA-GAAAATTAGCGTTTTGAAAATAAAATCGGAG-TTGGAATATCCCCGATTGTGGAA
119319 AAATTAGTGTTTTAGCGAT
194 AAATTAGTGTTTTAGCGAT
* * *
119338 AAAATCGAGG-TTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGG
1 AAAATCG-GGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGA
119401 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAAAGTAT
65 GGTTGGAGTATCCCCGATTGTGAA-AAATTGGTATTTTTTGGAAATAAAATCGGAGTTAAAGTAT
* *
119466 CCCCAATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
129 CCCCAATTAAAGAAAATTAGCGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
119530 GAATTGAGAA
Statistics
Matches: 174, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
211 29 0.17
212 105 0.60
213 40 0.23
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (212 bp):
AAAATCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAAAGTATCC
CCAATTAAAGAAAATTAGCGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGAAAA
ATTAGTGTTTTAGCGAT
Found at i:121901 original size:13 final size:13
Alignment explanation
Indices: 121883--121908 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
121873 ACAAAGATCC
121883 ATGTATCGATACA
1 ATGTATCGATACA
121896 ATGTATCGATACA
1 ATGTATCGATACA
121909 CAAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:121975 original size:13 final size:13
Alignment explanation
Indices: 121957--122013 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
121947 ATTATAATTA
121957 TGTATCGATACAT
1 TGTATCGATACAT
121970 TGTATCGATACAATACTT
1 TGTATCGATAC---A--T
121988 ATGTATCGATACAT
1 -TGTATCGATACAT
122002 TGTATCGATACA
1 TGTATCGATACA
122014 AAACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:121994 original size:19 final size:18
Alignment explanation
Indices: 121970--122038 Score: 78
Period size: 19 Copynumber: 4.1 Consensus size: 18
121960 ATCGATACAT
121970 TGTATCGATACAATACTTA
1 TGTATCGATACAA-ACTTA
121989 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
122002 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
122021 TGTATCGATACAAA-TTA
1 TGTATCGATACAAACTTA
122038 T
1 T
122039 TGAATTTCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.25
14 1 0.02
16 2 0.05
17 4 0.09
18 4 0.09
19 22 0.50
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:121995 original size:32 final size:32
Alignment explanation
Indices: 121954--122032 Score: 149
Period size: 32 Copynumber: 2.5 Consensus size: 32
121944 CTAATTATAA
*
121954 TTATGTATCGATACATTGTATCGATACAATAC
1 TTATGTATCGATACATTGTATCGATACAAAAC
121986 TTATGTATCGATACATTGTATCGATACAAAAC
1 TTATGTATCGATACATTGTATCGATACAAAAC
122018 TTATGTATCGATACA
1 TTATGTATCGATACA
122033 AATTATTGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (32 bp):
TTATGTATCGATACATTGTATCGATACAAAAC
Found at i:122096 original size:21 final size:21
Alignment explanation
Indices: 122070--122146 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
122060 GTTGGGACCC
* *
122070 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
122091 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
122112 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
122133 TGTATCGATACATT
1 TGTATCGATACATT
122147 TGGATAATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:123819 original size:42 final size:42
Alignment explanation
Indices: 123767--124555 Score: 806
Period size: 42 Copynumber: 18.8 Consensus size: 42
123757 TTTCTTTTTC
* *
123767 CCCTTAGTCTG-CTAGTCGGCTTTGACCTTGGAGACTTTCTTT
1 CCCTCAGTCTGCCT-GTCGGCTTTGACCCTGGAGACTTTCTTT
* * *
123809 CCCTTAGTCTGTCTGTCGGCTTTGTCCCTGGAGACTTTCTTT
1 CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTT
* * * *
123851 CCCTTAGTTTGCCTGTCGGCTTCGTCCCTGGAGACTTTCTTT
1 CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTT
* * * *
123893 CCCTCAGTCTGCCTTTCAGC-TTCATCCCTAGAGACTTTCTTT
1 CCCTCAGTCTGCCTGTCGGCTTTGA-CCCTGGAGACTTTCTTT
*
123935 CCCTCAGTCTGCCTGTCGGC-TTCATCCCTGGAGACTTTCTTT
1 CCCTCAGTCTGCCTGTCGGCTTTGA-CCCTGGAGACTTTCTTT
* * * *
123977 CCCTAAGTCTGCTTGTCGGCTTCGTCCCTGGAGACTTTCTTGT
1 CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTT-T
* * * * *
124020 -CCTCAGTCTACTTGTCGGCTTCGTCCCTAGAGACTTTCTTT
1 CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTT
* *
124061 CCCTCAGTCTGCCTGTTGGC-TTCATCCCTGGAGACTTTCTTT
1 CCCTCAGTCTGCCTGTCGGCTTTGA-CCCTGGAGACTTTCTTT
* * * *
124103 CCCTCAGTCTGCCTGTCGGCTTCGTCTCTGGAGACTTTCCTT
1 CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTT
* * * *
124145 CCCTCAGTCTGCCTGTCGGCTTCGTCCTTGGAGACTTT-TCAT
1 CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCT-TT
* *
124187 CCCTCAGTCTG-CTGTCGGCCTTGACCTTGGAGACTTTCCTTT
1 CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT-CTTT
* * * *
124229 -CCTCAGTCTGCCTGTCAGCTTTGACCTTAGAGACTTTTTTT
1 CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTT
* * * * *
124270 ATCCTTAGTCTGCCTATCGACTTTGTCCCTGGAGACTTTCTTT
1 -CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTT
* * * * *
124313 CCCTTAGTCTGTCTGTCGG-TTTCGTCCCTGGAAACTTTCCTT
1 CCCTCAGTCTGCCTGTCGGCTTT-GACCCTGGAGACTTTCTTT
* * * *
124355 CCTTCAGTCTGCCTGTCGGCTTAGTCCCTGAAGACTTTCTTT
1 CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTT
* * * * * *
124397 CCCTTAGTCTGCCTGTCGGCTTCGTCCCTAGAAACTTTCCTT
1 CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTT
* * *
124439 CCCTCAGTCTGCCTGTCGGCTTTGACCCCGAAGACTTTTTTT
1 CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTT
* *
124481 CCCTCAGTATGCCTGTCGGCTTTGACCCTAGA-ACTTTCTTT
1 CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTT
* * * * *
124522 ACCTAAGTCTTCCTGTTGGCTTTGACCCGGGAGA
1 CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGA
124556 ATATTTTCTT
Statistics
Matches: 633, Mismatches: 98, Indels: 32
0.83 0.13 0.04
Matches are distributed among these distances:
41 75 0.12
42 517 0.82
43 41 0.06
ACGTcount: A:0.11, C:0.32, G:0.19, T:0.38
Consensus pattern (42 bp):
CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTT
Found at i:126793 original size:16 final size:16
Alignment explanation
Indices: 126751--126794 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
126741 ACGAAATTAG
126751 AATAAAAAATAAAAAAT
1 AATAAAAAA-AAAAAAT
* *
126768 AATAACAAAATAAAAT
1 AATAAAAAAAAAAAAT
126784 AATAAAAAAAA
1 AATAAAAAAAA
126795 TTTATCTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (16 bp):
AATAAAAAAAAAAAAT
Found at i:128573 original size:29 final size:30
Alignment explanation
Indices: 128523--128580 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
128513 AAAAATCATC
*
128523 AAAATTAATAATATCATGACAAAATTCAAT
1 AAAATTAATAATATCATAACAAAATTCAAT
128553 AAAATTAA-AATAT-AGTAACAAAATTCAA
1 AAAATTAATAATATCA-TAACAAAATTCAA
128581 CACTCATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 1 0.04
29 17 0.65
30 8 0.31
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.28
Consensus pattern (30 bp):
AAAATTAATAATATCATAACAAAATTCAAT
Found at i:130674 original size:10 final size:10
Alignment explanation
Indices: 130659--130736 Score: 50
Period size: 10 Copynumber: 7.5 Consensus size: 10
130649 TAAAAAATTA
130659 AATTTAAAAT
1 AATTTAAAAT
130669 AATTTAAAAAT
1 AATTT-AAAAT
* **
130680 AAATTAATTT
1 AATTTAAAAT
*
130690 AA-ATACAAAT
1 AATTTA-AAAT
*
130700 AATTAAAAAT
1 AATTTAAAAT
*
130710 AATTTAAATT
1 AATTTAAAAT
*
130720 CAAATTAAATAT
1 -AATTTAAA-AT
130732 AATTT
1 AATTT
130737 TATTTAAAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 9
0.69 0.18 0.12
Matches are distributed among these distances:
9 2 0.04
10 26 0.52
11 21 0.42
12 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (10 bp):
AATTTAAAAT
Found at i:130682 original size:16 final size:16
Alignment explanation
Indices: 130663--130711 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
130653 AAATTAAATT
130663 TAAAATAATTTAAAAA
1 TAAAATAATTTAAAAA
*
130679 TAAATTAATTT--AAA
1 TAAAATAATTTAAAAA
130693 TACAAATAA-TTAAAAA
1 TA-AAATAATTTAAAAA
130709 TAA
1 TAA
130712 TTTAAATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 7 0.25
15 6 0.21
16 15 0.54
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAATAATTTAAAAA
Found at i:130786 original size:7 final size:7
Alignment explanation
Indices: 130774--130803 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
130764 TAGTATCGAT
130774 ACAATGA
1 ACAATGA
130781 ACAATGA
1 ACAATGA
130788 ACAATGA
1 ACAATGA
*
130795 ATAATGA
1 ACAATGA
130802 AC
1 AC
130804 CTAGAATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.13, G:0.13, T:0.17
Consensus pattern (7 bp):
ACAATGA
Found at i:134840 original size:10 final size:9
Alignment explanation
Indices: 134825--134897 Score: 54
Period size: 8 Copynumber: 8.8 Consensus size: 9
134815 ATATAAATTT
134825 TTTCTTGTCC
1 TTTCTT-TCC
134835 TTTCTTTCC
1 TTTCTTTCC
*
134844 -TT-TTCCC
1 TTTCTTTCC
*
134851 TTT-TTTTC
1 TTTCTTTCC
134859 TCTT-TTT-C
1 T-TTCTTTCC
134867 TTTCTTT-C
1 TTTCTTTCC
134875 TTTCTTT-C
1 TTTCTTTCC
134883 TTTCTTT-C
1 TTTCTTTCC
134891 TTTCTTT
1 TTTCTTT
134898 TTTGACTTAT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
7 6 0.11
8 37 0.65
9 8 0.14
10 6 0.11
ACGTcount: A:0.00, C:0.26, G:0.01, T:0.73
Consensus pattern (9 bp):
TTTCTTTCC
Found at i:134872 original size:4 final size:4
Alignment explanation
Indices: 134850--134897 Score: 71
Period size: 4 Copynumber: 12.0 Consensus size: 4
134840 TTCCTTTTCC
*
134850 CTTT TTTT CTCTT -TTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CT-TT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
134898 TTTGACTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 2 0.05
4 36 0.90
5 2 0.05
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
CTTT
Found at i:135268 original size:14 final size:14
Alignment explanation
Indices: 135249--135278 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
135239 ATATGTAAAA
135249 AATATTTTAAATAT
1 AATATTTTAAATAT
*
135263 AATATTTTTAATAT
1 AATATTTTAAATAT
135277 AA
1 AA
135279 AAATATATAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATTTTAAATAT
Found at i:135317 original size:8 final size:8
Alignment explanation
Indices: 135304--135354 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
135294 AATACATAAT
135304 TTTTTTTC
1 TTTTTTTC
135312 TTTTTTTC
1 TTTTTTTC
***
135320 -TCCATTC
1 TTTTTTTC
*
135327 TTTCTTTC
1 TTTTTTTC
135335 TTTTTTTC
1 TTTTTTTC
*
135343 TTTCTTTC
1 TTTTTTTC
135351 TTTT
1 TTTT
135355 ATGAGGTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
7 4 0.12
8 30 0.88
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTTC
Found at i:135333 original size:4 final size:4
Alignment explanation
Indices: 135324--135353 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
135314 TTTTTCTCCA
*
135324 TTCT TTCT TTCT TTTT TTCT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT
135354 TATGAGGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (4 bp):
TTCT
Found at i:135345 original size:16 final size:16
Alignment explanation
Indices: 135324--135354 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
135314 TTTTTCTCCA
135324 TTCTTTCTTTCTTTTT
1 TTCTTTCTTTCTTTTT
135340 TTCTTTCTTTCTTTT
1 TTCTTTCTTTCTTTT
135355 ATGAGGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTCTTTCTTTCTTTTT
Found at i:135756 original size:14 final size:13
Alignment explanation
Indices: 135733--135781 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
135723 ATATTAATAA
135733 TTAA-TAATATTT
1 TTAATTAATATTT
135745 TTATATTAATATTT
1 TTA-ATTAATATTT
* *
135759 ATAATTTA-ATTT
1 TTAATTAATATTT
135771 TTAATTAATAT
1 TTAATTAATAT
135782 ATAATAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
12 13 0.43
13 7 0.23
14 10 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTAATTAATATTT
Found at i:135777 original size:25 final size:27
Alignment explanation
Indices: 135741--135796 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
135731 AATTAATAAT
*
135741 ATTTTTATATTAATAT-TTATAATTTA
1 ATTTTTATATTAATATATAATAATTTA
135767 ATTTTTA-ATTAATATATAATAATTTA
1 ATTTTTATATTAATATATAATAATTTA
135793 ATTT
1 ATTT
135797 AATTTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
ATTTTTATATTAATATATAATAATTTA
Found at i:135789 original size:21 final size:23
Alignment explanation
Indices: 135723--135791 Score: 72
Period size: 23 Copynumber: 2.9 Consensus size: 23
135713 ATTTAAAATA
135723 ATATTAATAATTAATAAT-ATTTTT
1 ATATTAAT-ATT-ATAATAATTTTT
135747 ATATTAATATTTATAATTTAATTTTT
1 ATATTAATA-TTATAA--TAATTTTT
135773 A-ATTAATA-TATAATAATTT
1 ATATTAATATTATAATAATTT
135792 AATTTAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
21 6 0.15
23 10 0.24
24 10 0.24
25 8 0.20
26 7 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATATTAATATTATAATAATTTTT
Found at i:135803 original size:25 final size:24
Alignment explanation
Indices: 135725--135809 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 24
135715 TTAAAATAAT
*
135725 ATTAATAATTAATAA--TATTTTTA
1 ATTAAT-ATTAATAATTTAATTTTA
*
135748 TATTAATATTTATAATTTAATTTTTA
1 -ATTAATATTAATAATTTAA-TTTTA
135774 ATTAATATATAATAATTTAA-TTTA
1 ATTAATAT-TAATAATTTAATTTTA
*
135798 ATTTAATTTTAA
1 A-TTAATATTAA
135810 AAAAAATCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
23 7 0.13
24 14 0.27
25 16 0.31
26 15 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTAATATTAATAATTTAATTTTA
Found at i:136074 original size:23 final size:23
Alignment explanation
Indices: 136036--136090 Score: 92
Period size: 23 Copynumber: 2.3 Consensus size: 23
136026 AAAACAGAAC
136036 AAGAAGAACTTCAAGAAGAATTAA
1 AAGAAG-ACTTCAAGAAGAATTAA
*
136060 AAGAAGACTTGAAGAAGAATTAA
1 AAGAAGACTTCAAGAAGAATTAA
136083 AAGAAGAC
1 AAGAAGAC
136091 ATGGTAACGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 24 0.80
24 6 0.20
ACGTcount: A:0.58, C:0.07, G:0.20, T:0.15
Consensus pattern (23 bp):
AAGAAGACTTCAAGAAGAATTAA
Found at i:136088 original size:12 final size:12
Alignment explanation
Indices: 136048--136089 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
136038 GAAGAACTTC
136048 AAGAAGAATTAA
1 AAGAAGAATTAA
* *
136060 AAGAAGACTT-G
1 AAGAAGAATTAA
136071 AAGAAGAATTAA
1 AAGAAGAATTAA
136083 AAGAAGA
1 AAGAAGA
136090 CATGGTAACG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.62, C:0.02, G:0.21, T:0.14
Consensus pattern (12 bp):
AAGAAGAATTAA
Found at i:136838 original size:34 final size:34
Alignment explanation
Indices: 136800--136865 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
136790 CTAATTTTAT
*
136800 TTATTAATTGATGGGAGTTTTGTTTTTTAAACCC
1 TTATTAATTGATGGGAATTTTGTTTTTTAAACCC
*
136834 TTATTTATTGATGGGAATTTTGTTTTTTAAAC
1 TTATTAATTGATGGGAATTTTGTTTTTTAAAC
136866 AGTGTAGACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.24, C:0.06, G:0.17, T:0.53
Consensus pattern (34 bp):
TTATTAATTGATGGGAATTTTGTTTTTTAAACCC
Found at i:138369 original size:27 final size:27
Alignment explanation
Indices: 138290--138369 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
138280 TAAAAATTAG
138290 CCACCATTTTTGACAAACAAAAAAGGAA
1 CCACCATTTTTGACAAAC-AAAAAGGAA
* **
138318 CCACCATTTTTGACAAATATGAAGGAA
1 CCACCATTTTTGACAAACAAAAAGGAA
*
138345 CCACCATTTTTGACAAACACAAAGG
1 CCACCATTTTTGACAAACAAAAAGG
138370 GTGGCTTTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 29 0.63
28 17 0.37
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (27 bp):
CCACCATTTTTGACAAACAAAAAGGAA
Found at i:142831 original size:28 final size:26
Alignment explanation
Indices: 142794--142889 Score: 115
Period size: 27 Copynumber: 3.7 Consensus size: 26
142784 AAAAGAACAA
* *
142794 TTTTGACAAACAACAAG--CCACCAT
1 TTTTTACAAACAAAAAGAACCACCAT
142818 TTTTTACAAACAAAAAAGAACCACCAT
1 TTTTTACAAAC-AAAAAGAACCACCAT
*
142845 TTTTTACAAACACAAAGGAACCACCATT
1 TTTTTACAAACA-AAAAGAACCACCA-T
*
142873 TTTTTACAAACACAAAG
1 TTTTTACAAACAAAAAG
142890 GGTGACGTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
24 10 0.16
25 5 0.08
26 1 0.02
27 33 0.53
28 13 0.21
ACGTcount: A:0.46, C:0.24, G:0.06, T:0.24
Consensus pattern (26 bp):
TTTTTACAAACAAAAAGAACCACCAT
Found at i:142890 original size:28 final size:27
Alignment explanation
Indices: 142811--142890 Score: 133
Period size: 27 Copynumber: 2.9 Consensus size: 27
142801 AAACAACAAG
* *
142811 CCACCATTTTTTACAAACAAAAAAGAA
1 CCACCATTTTTTACAAACACAAAGGAA
142838 CCACCATTTTTTACAAACACAAAGGAA
1 CCACCATTTTTTACAAACACAAAGGAA
142865 CCACCATTTTTTTACAAACACAAAGG
1 CCACCA-TTTTTTACAAACACAAAGG
142891 GTGACGTTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
27 31 0.62
28 19 0.38
ACGTcount: A:0.45, C:0.25, G:0.06, T:0.24
Consensus pattern (27 bp):
CCACCATTTTTTACAAACACAAAGGAA
Found at i:146088 original size:24 final size:23
Alignment explanation
Indices: 146033--146094 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
146023 TTTATCCTTC
146033 TCATTTTGTAATAAAAATTAGCCA
1 TCATTTT-TAATAAAAATTAGCCA
* * *
146057 TCAATTTTGATAAACATTAAGCCA
1 TCATTTTTAATAAAAATT-AGCCA
*
146081 TCATTTTTTATAAA
1 TCATTTTTAATAAA
146095 TAAAAAAGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 9 0.28
24 23 0.72
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (23 bp):
TCATTTTTAATAAAAATTAGCCA
Found at i:147128 original size:27 final size:27
Alignment explanation
Indices: 147090--147143 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
147080 GGTTTGCTAA
147090 TATTCTTCTCATTACCACATATTCTTT
1 TATTCTTCTCATTACCACATATTCTTT
147117 TATTCTTCTCATTACCACATATTCTTT
1 TATTCTTCTCATTACCACATATTCTTT
147144 CTTACCCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.00, T:0.52
Consensus pattern (27 bp):
TATTCTTCTCATTACCACATATTCTTT
Found at i:147445 original size:192 final size:194
Alignment explanation
Indices: 147117--147479 Score: 543
Period size: 192 Copynumber: 1.9 Consensus size: 194
147107 CATATTCTTT
* * * * *
147117 TATTCTTCTCATTACCACATATTCTTTCTTACCCTTTCCTAATACCTCTTCCTACGAGTATATGC
1 TATTCTTCTCATTACCACATATTCTTTCTTACCCCTTCCCAACACCTCTTCCGAAGAGTATATGC
* ** *
147182 TAGTATAGTTGCAACTTATATAGTGTTTGGTAAACCATTGAAAATCAAAATTTTCAGTGATTTAT
66 TAGTATAGTGGCAACTTATATAGTGTTTGAAAAACCATTGAAAATCAAAACTTTCAGTGATTTAT
147247 C-TTTTTTTAATGCAT-ATGATAACTCACTTTTGAAAGTCATGTATTAAGTGATCGGTTTGCTAA
131 CTTTTTTTTAATGC-TGATGATAACTCACTTTTGAAAGTCATGTATTAAGTGATCGGTTTGCTAA
* * *
147310 TATTCTTCTCATTACCACATATTCTTTC-TCCCCCTTCCCAACACCTCTTCCGAAGTGTATTTGC
1 TATTCTTCTCATTACCACATATTCTTTCTTACCCCTTCCCAACACCTCTTCCGAAGAGTATATGC
* *
147374 TAGTATAGTGGCAACTTATATAGTGTTTGAAAAATCATTGAAAATTAAAACTTTCAGTGATTTAT
66 TAGTATAGTGGCAACTTATATAGTGTTTGAAAAACCATTGAAAATCAAAACTTTCAGTGATTTAT
* *
147439 CTTTTTTTTTAATGCTGGTGATAACTCATTTTTGAAAGTCA
131 C-TTTTTTTTAATGCTGATGATAACTCACTTTTGAAAGTCA
147480 CTTAAATGGA
Statistics
Matches: 151, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
192 88 0.58
193 29 0.19
194 34 0.23
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (194 bp):
TATTCTTCTCATTACCACATATTCTTTCTTACCCCTTCCCAACACCTCTTCCGAAGAGTATATGC
TAGTATAGTGGCAACTTATATAGTGTTTGAAAAACCATTGAAAATCAAAACTTTCAGTGATTTAT
CTTTTTTTTAATGCTGATGATAACTCACTTTTGAAAGTCATGTATTAAGTGATCGGTTTGCTAA
Found at i:148529 original size:13 final size:14
Alignment explanation
Indices: 148511--148540 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
148501 CAATAAATTG
148511 CTGAAAA-CACTTT
1 CTGAAAAGCACTTT
148524 CTGAAAAGCACTTT
1 CTGAAAAGCACTTT
148538 CTG
1 CTG
148541 CCTCAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (14 bp):
CTGAAAAGCACTTT
Found at i:150142 original size:15 final size:16
Alignment explanation
Indices: 150109--150143 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
150099 GTCAACCTTA
*
150109 TTTTTCTTTATTTGTC
1 TTTTTCCTTATTTGTC
150125 TTTTTCCTTATTTG-C
1 TTTTTCCTTATTTGTC
150140 TTTT
1 TTTT
150144 ATGCGATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTTTCCTTATTTGTC
Found at i:150492 original size:155 final size:154
Alignment explanation
Indices: 150274--150707 Score: 610
Period size: 152 Copynumber: 2.8 Consensus size: 154
150264 GTATTTACAG
* * *
150274 TATATATATACACTAATAAAAAATAACTTTAAAAATCTTATTATAATTTTGAATATTAATAATAA
1 TATATATATACACCAATAGAAAATAAC-TTAAAAATCTTATTATAATTTTGAACATTAATAATAA
*
150339 TAATTATTATTATTATTATTATTATAATATAAAAAACCAACAGCAAACAAATCACATGTGAACAG
65 TAATTATTATTATTATTATTATTATAATATAAAAAACCAACAGCAAACAAATCACATGTCAACAG
*
150404 TAAACATTAATAATAATTTACAACA
130 CAAACATTAATAATAATTTACAACA
* *
150429 TATATATATACACCAATAGAAAATAACTTAAACAATCTTATTAGAACTTTGAACATTAATAATAA
1 TATATATATACACCAATAGAAAATAACTTAAA-AATCTTATTATAATTTTGAACATTAATAATAA
* *
150494 TAATTATTATTATTATTA-TA--A-ACTA-AAAAACCTCCAACAGCAAACAAATCACATGTCAAC
65 TAATTATTATTATTATTATTATTATAATATAAAAA--ACCAACAGCAAACAAATCACATGTCAAC
*
150554 AGCAAACATTAATAATAATTTACAATA
128 AGCAAACATTAATAATAATTTACAACA
* *
150581 TATATATATACATCAATAGAAAATAACTTAAAAAATCTTATTATAATTTTAAACATTAATAATAA
1 TATATATATACACCAATAGAAAATAACTT-AAAAATCTTATTATAATTTTGAACATTAATAATAA
*
150646 TAATAATATTATTATTATTATTATTATAA-ACTAAAAAAACTACAATAGCAAACAAATCACAT
65 TAAT--TATTATTATTATTATTATTATAATA-T-AAAAAAC--CAACAGCAAACAAATCACAT
150708 AACAACAATT
Statistics
Matches: 247, Mismatches: 17, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
150 5 0.02
151 3 0.01
152 113 0.46
153 3 0.01
154 21 0.09
155 74 0.30
157 2 0.01
158 2 0.01
160 24 0.10
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.34
Consensus pattern (154 bp):
TATATATATACACCAATAGAAAATAACTTAAAAATCTTATTATAATTTTGAACATTAATAATAAT
AATTATTATTATTATTATTATTATAATATAAAAAACCAACAGCAAACAAATCACATGTCAACAGC
AAACATTAATAATAATTTACAACA
Found at i:150751 original size:18 final size:18
Alignment explanation
Indices: 150728--150766 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
150718 TCACATCTCC
150728 AATTTAGCAATATATAAT
1 AATTTAGCAATATATAAT
150746 AATTTAGCAATATATAAT
1 AATTTAGCAATATATAAT
150764 AAT
1 AAT
150767 CTCACACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTTAGCAATATATAAT
Found at i:151484 original size:18 final size:18
Alignment explanation
Indices: 151461--151518 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 18
151451 AAGATCTGAA
151461 TATTTATTATTTTTATTT
1 TATTTATTATTTTTATTT
*
151479 TATTTATGTTATATATTTATGT
1 TATTTA--TTAT-T-TTTATTT
151501 TATATTATT-TTTTTATTT
1 TAT-TTATTATTTTTATTT
151519 ACACTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
18 12 0.36
19 1 0.03
20 5 0.15
21 3 0.09
22 9 0.27
23 3 0.09
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TATTTATTATTTTTATTT
Found at i:151516 original size:13 final size:14
Alignment explanation
Indices: 151473--151510 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
151463 TTTATTATTT
*
151473 TTATTTTATTTATG
1 TTATATTATTTATG
151487 TTATA-TATTTATG
1 TTATATTATTTATG
151500 TTATATTATTT
1 TTATATTATTT
151511 TTTTATTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (14 bp):
TTATATTATTTATG
Found at i:421138 original size:11 final size:11
Alignment explanation
Indices: 421095--421150 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
421085 ATATAATAAT
*
421095 AATTTATATAA
1 AATTTATATTA
421106 AATTTAACTATT-
1 AATTT-A-TATTA
*
421118 TATTTATATTA
1 AATTTATATTA
421129 AATTTATATTA
1 AATTTATATTA
**
421140 TTTTTATATTA
1 AATTTATATTA
421151 TTTTATTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
10 4 0.11
11 25 0.68
12 5 0.14
13 3 0.08
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
AATTTATATTA
Found at i:421151 original size:11 final size:11
Alignment explanation
Indices: 421120--421191 Score: 64
Period size: 11 Copynumber: 6.9 Consensus size: 11
421110 TAACTATTTA
**
421120 TTTATATTAAA
1 TTTATATTATT
421131 TTTATATTATT
1 TTTATATTATT
421142 TTTATATTA--
1 TTTATATTATT
421151 TTT-TATTA-T
1 TTTATATTATT
421160 TTTA-ATTATT
1 TTTATATTATT
*
421170 TTTATATCATAT
1 TTTATATTAT-T
*
421182 TTAATATTAT
1 TTTATATTAT
421192 CGAATCGGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
8 5 0.10
9 10 0.20
10 5 0.10
11 22 0.43
12 9 0.18
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTATATTATT
Found at i:421777 original size:17 final size:18
Alignment explanation
Indices: 421743--421791 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
421733 TATTATTAAA
421743 ATATTAAATATTATTTTT
1 ATATTAAATATTATTTTT
421761 ATATT-AATATATATTTTT
1 ATATTAAATAT-TATTTTT
421779 ATAATTAAA-ATTA
1 AT-ATTAAATATTA
421792 ATAAAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.18
18 16 0.57
19 5 0.18
20 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATTAAATATTATTTTT
Found at i:421807 original size:45 final size:46
Alignment explanation
Indices: 421728--421829 Score: 111
Period size: 45 Copynumber: 2.2 Consensus size: 46
421718 TTGACTTGTA
* * * *
421728 AATTTTATTATTAAAATATTAAATATTATTTTTA-TATTAATAT-AT
1 AATTTTATAATTAAAATAATAAATAATATATTTATTATTAA-ATGAT
*
421773 ATTTTTATAATTAAAATTAATAAA-AATATATTTATTTATTAAATGAT
1 AATTTTATAATTAAAA-TAATAAATAATATATTTA-TTATTAAATGAT
421820 AATTTTATAA
1 AATTTTATAA
421830 AAATTAATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
45 22 0.47
46 8 0.17
47 17 0.36
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (46 bp):
AATTTTATAATTAAAATAATAAATAATATATTTATTATTAAATGAT
Found at i:421826 original size:47 final size:45
Alignment explanation
Indices: 421728--421829 Score: 118
Period size: 47 Copynumber: 2.2 Consensus size: 45
421718 TTGACTTGTA
* * *
421728 AATTTTATTATTAAAATATTAAATATTATTTTTATATTAATATAT
1 AATTTTATAATTAAAATAATAAAAATTATTTTTATATTAATATAT
*
421773 ATTTTTATAATTAAAATTAATAAAAATATATTTATT-TATTAA-ATGAT
1 AATTTTATAATTAAAA-TAATAAAAAT-TATTT-TTATATTAATAT-AT
421820 AATTTTATAA
1 AATTTTATAA
421830 AAATTAATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
45 14 0.29
46 10 0.21
47 22 0.46
48 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (45 bp):
AATTTTATAATTAAAATAATAAAAATTATTTTTATATTAATATAT
Found at i:422182 original size:16 final size:17
Alignment explanation
Indices: 422161--422194 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
422151 TATTTTTTAT
422161 TATTTTT-ATT-TAAAA
1 TATTTTTAATTATAAAA
422176 TATTTTTAATTATAAAA
1 TATTTTTAATTATAAAA
422193 TA
1 TA
422195 ATTGAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 3 0.18
17 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTTTTAATTATAAAA
Found at i:423093 original size:22 final size:22
Alignment explanation
Indices: 423059--423100 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
423049 GTATATTAAA
* *
423059 TATAACGTGTTTAAATTTATTT
1 TATAACGTATTTAAAATTATTT
*
423081 TATATCGTATTTAAAATTAT
1 TATAACGTATTTAAAATTAT
423101 CAAATTTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (22 bp):
TATAACGTATTTAAAATTATTT
Found at i:431084 original size:2 final size:2
Alignment explanation
Indices: 431073--431101 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
431063 ATATTTTGTA
431073 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
431102 TGCCAATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:432513 original size:30 final size:28
Alignment explanation
Indices: 432443--432514 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 28
432433 ATCAAAAAAT
* *
432443 ATTAATATTTTATATTTTAATTAAATTTAA
1 ATTAAT-TTTT-TATTTTAAATAAAATTAA
*
432473 ATAAAATTTTTTATTATTAAATAATAATTAA
1 AT-TAATTTTTTATT-TTAAATAA-AATTAA
432504 ATTAATTTTTT
1 ATTAATTTTTT
432515 TAAAATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 4 0.11
30 21 0.60
31 10 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
ATTAATTTTTTATTTTAAATAAAATTAA
Found at i:433124 original size:21 final size:21
Alignment explanation
Indices: 433098--433137 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
433088 ATTAAAATAT
433098 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
433119 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
433138 AATAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:437835 original size:2 final size:2
Alignment explanation
Indices: 437817--437855 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
437807 GATCTTTGAA
* * *
437817 AG AG AC AG AG GG AG AG AG AA AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
437856 AGCCTTTTGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:437965 original size:22 final size:22
Alignment explanation
Indices: 437904--437966 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
437894 ACTAAAATTA
437904 AATTTAAATAAAAATATT-TTATT
1 AATTT-AATAAAAA-ATTATTATT
**
437927 AATTTAAT-TTAAATTATTATT
1 AATTTAATAAAAAATTATTATT
*
437948 TATTTAATAAAAAATTATT
1 AATTTAATAAAAAATTATT
437967 TAAAAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 3 0.09
21 14 0.42
22 11 0.33
23 5 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATTTAATAAAAAATTATTATT
Found at i:439276 original size:16 final size:17
Alignment explanation
Indices: 439255--439314 Score: 61
Period size: 16 Copynumber: 3.5 Consensus size: 17
439245 AAAAATATTA
439255 ATTAA-TATATAATTTT
1 ATTAATTATATAATTTT
439271 ATTAATTAATATAATATTT
1 ATTAATT-ATATAAT-TTT
**
439290 AAAAATTATATAA-TTT
1 ATTAATTATATAATTTT
*
439306 ATTTATTAT
1 ATTAATTAT
439315 TTTTTTAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
16 14 0.39
17 1 0.03
18 13 0.36
19 8 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAATTATATAATTTT
Found at i:439633 original size:5 final size:5
Alignment explanation
Indices: 439623--439669 Score: 66
Period size: 5 Copynumber: 10.2 Consensus size: 5
439613 AATCATGTTA
439623 AATAT AATAT AA-A- AATA- AATAT AATAT AATAT AA-AT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
439669 A
1 A
439670 TAATAAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
3 2 0.05
4 10 0.26
5 27 0.69
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (5 bp):
AATAT
Found at i:439643 original size:17 final size:19
Alignment explanation
Indices: 439621--439669 Score: 68
Period size: 17 Copynumber: 2.7 Consensus size: 19
439611 AGAATCATGT
439621 TAAATATAATATAA-A-AA
1 TAAATATAATATAATATAA
439638 TAAATATAATATAATATAA
1 TAAATATAATATAATATAA
439657 -ATAATATAATATA
1 TA-AATATAATATA
439670 TAATAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.48
18 2 0.07
19 13 0.45
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAATATAATATAATATAA
Found at i:439675 original size:19 final size:20
Alignment explanation
Indices: 439621--439676 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 20
439611 AGAATCATGT
439621 TAAATAT-A-ATATAA-AAA
1 TAAATATAATATATAATAAA
439638 TAAATATAATATA-ATATAAA
1 TAAATATAATATATA-ATAAA
439658 T-AATATAATATATAATAAA
1 TAAATATAATATATAATAAA
439677 ATTATTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
17 7 0.21
18 2 0.06
19 20 0.59
20 5 0.15
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAATATAATATATAATAAA
Found at i:439739 original size:15 final size:16
Alignment explanation
Indices: 439711--439743 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
439701 ATACACTCAA
*
439711 TTAATATTTAATAAAT
1 TTAAAATTTAATAAAT
439727 TTAAAATTT-ATAAAT
1 TTAAAATTTAATAAAT
439742 TT
1 TT
439744 TTTTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAAATTTAATAAAT
Found at i:439811 original size:11 final size:11
Alignment explanation
Indices: 439775--439908 Score: 52
Period size: 11 Copynumber: 12.6 Consensus size: 11
439765 ATCAAAATTT
*
439775 ATATAAATATA
1 ATATAATTATA
* * *
439786 AAATATTTTTA
1 ATATAATTATA
439797 ATATAATTATA
1 ATATAATTATA
439808 ATAT-A--ATA
1 ATATAATTATA
439816 A-ATAATTATAA
1 ATATAATTAT-A
*
439827 ATATTATTA-A
1 ATATAATTATA
**
439837 ATTATAAGGCATA
1 A-TATAA-TTATA
*
439850 TTAATAA-TATA
1 AT-ATAATTATA
* *
439861 TTAAAATT-T-
1 ATATAATTATA
439870 ATATAA-TATA
1 ATATAATTATA
* * *
439880 AAATATTTTTA
1 ATATAATTATA
439891 ATATAATTATA
1 ATATAATTATA
439902 ATATAAT
1 ATATAAT
439909 AAATATTTAA
Statistics
Matches: 88, Mismatches: 22, Indels: 26
0.65 0.16 0.19
Matches are distributed among these distances:
7 2 0.02
8 6 0.07
9 5 0.06
10 13 0.15
11 49 0.56
12 8 0.09
13 5 0.06
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (11 bp):
ATATAATTATA
Found at i:439813 original size:27 final size:27
Alignment explanation
Indices: 439780--439916 Score: 69
Period size: 30 Copynumber: 4.5 Consensus size: 27
439770 AATTTATATA
439780 AATATAAAATATTTTTAATATAATTAT
1 AATATAAAATATTTTTAATATAATTAT
* * *
439807 AATATAATAAATAATTATAAATATTATTA-
1 AATAT-A-AAAT-ATTTTTAATATAATTAT
* * *
439836 AATTATAAGGCATATTAATAATATATTAAAATTTAT
1 AA-TATAA--AATATT--T--T-TAATATAA-TTAT
439872 ATAATATAAAATATTTTTAATATAATTAT
1 --AATATAAAATATTTTTAATATAATTAT
439901 AATATAATAAATATTT
1 AATAT-A-AAATATTT
439917 AAATATATTA
Statistics
Matches: 81, Mismatches: 12, Indels: 32
0.65 0.10 0.26
Matches are distributed among these distances:
27 10 0.12
28 3 0.04
29 22 0.27
30 24 0.30
31 1 0.01
33 2 0.02
34 4 0.05
35 8 0.10
37 5 0.06
38 2 0.02
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (27 bp):
AATATAAAATATTTTTAATATAATTAT
Found at i:439817 original size:30 final size:29
Alignment explanation
Indices: 439776--439926 Score: 91
Period size: 29 Copynumber: 5.1 Consensus size: 29
439766 TCAAAATTTA
*
439776 TATAA-AT-ATAAAATATTTTTAATATAAT
1 TATAATATAATAAAATATTTATAATAT-AT
*
439804 TATAATATAAT-AAATAATTATAA-ATAT
1 TATAATATAATAAAATATTTATAATATAT
* * *
439831 TATTAA-ATTATAAGGCATATTAATAATATAT
1 TA-TAATATAATAA--AATATTTATAATATAT
* *
439862 TAAAATTTATATAATATAAAATATTTTTAATATAAT
1 T---A-TAATAT-A-ATAAAATATTTATAATAT-AT
439898 TATAATATAAT-AAATATTTA-AATATAT
1 TATAATATAATAAAATATTTATAATATAT
439925 TA
1 TA
439927 CTAGGATTGT
Statistics
Matches: 96, Mismatches: 13, Indels: 29
0.70 0.09 0.21
Matches are distributed among these distances:
27 12 0.12
28 16 0.17
29 20 0.21
30 12 0.12
31 6 0.06
32 5 0.05
33 1 0.01
34 4 0.04
35 13 0.14
36 3 0.03
37 4 0.04
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (29 bp):
TATAATATAATAAAATATTTATAATATAT
Found at i:439828 original size:10 final size:9
Alignment explanation
Indices: 439776--439922 Score: 62
Period size: 9 Copynumber: 16.0 Consensus size: 9
439766 TCAAAATTTA
439776 TATAAATA-
1 TATAAATAT
439784 TA-AAATATT
1 TATAAATA-T
*
439793 TTTAATATAAT
1 TATAA-AT-AT
439804 TAT-AATAT
1 TATAAATAT
*
439812 AATAAATAAT
1 TATAAAT-AT
439822 TATAAATAT
1 TATAAATAT
*
439831 TATTAA-AT
1 TATAAATAT
439839 TATAAGGCATAT
1 TATAA---ATAT
439851 TAATAATATAT
1 T-ATAA-ATAT
439862 TA-AAAT-T
1 TATAAATAT
439869 TATATAATA-
1 TATA-AATAT
439878 TA-AAATATT
1 TATAAATA-T
*
439887 TTTAATATAAT
1 TATAA-AT-AT
439898 TAT-AATAT
1 TATAAATAT
*
439906 AATAAATAT
1 TATAAATAT
439915 T-TAAATAT
1 TATAAATAT
439923 ATTACTAGGA
Statistics
Matches: 107, Mismatches: 11, Indels: 42
0.67 0.07 0.26
Matches are distributed among these distances:
7 12 0.11
8 27 0.25
9 28 0.26
10 15 0.14
11 16 0.15
12 5 0.05
13 4 0.04
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (9 bp):
TATAAATAT
Found at i:439837 original size:20 final size:20
Alignment explanation
Indices: 439786--439838 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
439776 TATAAATATA
*
439786 AAATATTTTTAATATAATTAT
1 AAATATTATTAA-ATAATTAT
*
439807 -AATA-TAATAAATAATTAT
1 AAATATTATTAAATAATTAT
439825 AAATATTATTAAAT
1 AAATATTATTAAAT
439839 TATAAGGCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 8 0.30
19 8 0.30
20 11 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATATTATTAAATAATTAT
Found at i:439926 original size:27 final size:27
Alignment explanation
Indices: 439851--439926 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
439841 TAAGGCATAT
* *
439851 TAATAATATATTAAAATTTA-TATAATA
1 TAATAA-ATATTTAAATATATTATAATA
*
439878 T-A-AAATATTTTTAATATAATTATAATA
1 TAATAAATA-TTTAAATAT-ATTATAATA
439905 TAATAAATATTTAAATATATTA
1 TAATAAATATTTAAATATATTA
439927 CTAGGATTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
24 3 0.08
25 8 0.20
26 2 0.05
27 13 0.32
28 9 0.22
29 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
TAATAAATATTTAAATATATTATAATA
Found at i:440243 original size:16 final size:15
Alignment explanation
Indices: 440220--440262 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
440210 TTTATAATAA
440220 TATTTTATATTTTTT
1 TATTTTATATTTTTT
*
440235 TACTTTTATTAATTTTT
1 TA-TTTTA-TATTTTTT
440252 TATTTTATATT
1 TATTTTATATT
440263 CTTAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 5 0.21
16 10 0.42
17 9 0.38
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTTATATTTTTT
Found at i:440669 original size:3 final size:3
Alignment explanation
Indices: 440663--440692 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
440653 GATGATCATG
440663 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
440693 GCTCAAAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:442123 original size:16 final size:16
Alignment explanation
Indices: 442102--442156 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
442092 ATAGCTTAAG
442102 TTTTAAATTTAGATAC
1 TTTTAAATTTAGATAC
* *
442118 TTTTAAA-TTA-TTAG
1 TTTTAAATTTAGATAC
442132 TTTTAAATTTAGATAC
1 TTTTAAATTTAGATAC
442148 TTTTAAATT
1 TTTTAAATT
442157 ATTAGGCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.27
15 6 0.18
16 18 0.55
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (16 bp):
TTTTAAATTTAGATAC
Found at i:442134 original size:30 final size:30
Alignment explanation
Indices: 442100--442161 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
442090 CGATAGCTTA
442100 AGTTTTAAATTTAGATACTTTTAAATTATT
1 AGTTTTAAATTTAGATACTTTTAAATTATT
442130 AGTTTTAAATTTAGATACTTTTAAATTATT
1 AGTTTTAAATTTAGATACTTTTAAATTATT
442160 AG
1 AG
442162 GCTTTGAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (30 bp):
AGTTTTAAATTTAGATACTTTTAAATTATT
Found at i:442930 original size:2 final size:2
Alignment explanation
Indices: 442923--442953 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
442913 TAATTTTGAA
*
442923 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
442954 GATGTGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:445159 original size:21 final size:22
Alignment explanation
Indices: 445135--445192 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
445125 ATTTTTATTT
445135 TATATTAATATTAAATAAA-AA
1 TATATTAATATTAAATAAATAA
** **
445156 TATATTTTTATTATTTAAATAA
1 TATATTAATATTAAATAAATAA
*
445178 TAAATTAA-ATTAAAT
1 TATATTAATATTAAAT
445193 CAATTTGAAT
Statistics
Matches: 27, Mismatches: 9, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TATATTAATATTAAATAAATAA
Found at i:445161 original size:28 final size:27
Alignment explanation
Indices: 445112--445182 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
445102 ATACTATTAA
** *
445112 AATATTAAAATAAATTTTTATTTTATATT
1 AATATT-AAATAAAAATATATTTT-TATT
445141 AATATTAAATAAAAATATATTTTTATT
1 AATATTAAATAAAAATATATTTTTATT
445168 -AT-TTAAATAATAAAT
1 AATATTAAATAA-AAAT
445183 TAAATTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 8 0.21
26 6 0.16
27 4 0.11
28 14 0.37
29 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
AATATTAAATAAAAATATATTTTTATT
Done.