Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold276
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: 761718
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
File 1 of 6
Found at i:1888 original size:15 final size:15
Alignment explanation
Indices: 1849--1891 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
1839 ATTATCTTTT
* *
1849 TTTTAATTTGTTTGA
1 TTTTATTTTATTTGA
1864 TTTATATTTTATTTGA
1 TTT-TATTTTATTTGA
1880 TTTTATTTTATT
1 TTTTATTTTATT
1892 CTCATTAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTTATTTTATTTGA
Found at i:6516 original size:36 final size:36
Alignment explanation
Indices: 6463--6536 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
6453 TAAGAAGAAA
*
6463 GTCCGTGGAGCAGTATGCGATACTCTATATGTCCAC
1 GTCCGTGGAACAGTATGCGATACTCTATATGTCCAC
*
6499 GTCCGTGGAACATTATGCGATACTCTATATGTCCAC
1 GTCCGTGGAACAGTATGCGATACTCTATATGTCCAC
6535 GT
1 GT
6537 TTCTAGAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (36 bp):
GTCCGTGGAACAGTATGCGATACTCTATATGTCCAC
Found at i:7803 original size:2 final size:2
Alignment explanation
Indices: 7796--7824 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7786 TGTTCCAATT
7796 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 T
7825 CAAAATACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14843 original size:24 final size:23
Alignment explanation
Indices: 14812--14862 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
14802 TTTTTTTTGT
14812 TTAA-ATTT-AAATTTAATTTTAA
1 TTAATATTTCAAATTTAA-TTTAA
*
14834 TATAATATTTCAAATTTGATTTAA
1 T-TAATATTTCAAATTTAATTTAA
14858 TTAAT
1 TTAAT
14863 TTTTTACAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 1 0.04
23 7 0.28
24 10 0.40
25 7 0.28
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TTAATATTTCAAATTTAATTTAA
Found at i:15944 original size:34 final size:34
Alignment explanation
Indices: 15880--15944 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
15870 GTAAAAAATT
* *
15880 AATTTAATTTAAATTATTATTTAAATAATAAAAA
1 AATTTAATTTAAAATATTATATAAATAATAAAAA
15914 AATTT-ATTTATAAATATTAATATAAA-AATAA
1 AATTTAATTTA-AAATATT-ATATAAATAATAA
15945 TTTTTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 5 0.19
34 16 0.59
35 6 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (34 bp):
AATTTAATTTAAAATATTATATAAATAATAAAAA
Found at i:16514 original size:15 final size:16
Alignment explanation
Indices: 16494--16526 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
16484 ATTTTTTTTA
16494 TTAAAATAAAAAA-TT
1 TTAAAATAAAAAAGTT
16509 TTAAAATAAAAAAGTT
1 TTAAAATAAAAAAGTT
16525 TT
1 TT
16527 TTATTATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
TTAAAATAAAAAAGTT
Found at i:16528 original size:18 final size:17
Alignment explanation
Indices: 16489--16529 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 17
16479 AGGAGATTTT
16489 TTTTATTAAAATAAAAAA
1 TTTT-TTAAAATAAAAAA
16507 --TTTTAAAATAAAAAA
1 TTTTTTAAAATAAAAAA
16522 GTTTTTTA
1 -TTTTTTA
16530 TTATAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 13 0.65
16 2 0.10
18 5 0.25
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TTTTTTAAAATAAAAAA
Found at i:16663 original size:132 final size:126
Alignment explanation
Indices: 16511--16771 Score: 384
Period size: 132 Copynumber: 2.0 Consensus size: 126
16501 AAAAAATTTT
16511 AAAATAAAAAAGTTTTTTATTATAATTTTTAATAAAATAAAAGATAATATTTAA-TAAAGTTTAA
1 AAAATAAAAAAGTTTTTTATTATAATTTTTAATAAAATAAAAG---ATATTTAACT-AA-TTTAA
* * *
16575 AAAATTTACATTAACAAATT-AAA-ATTAATTATTATATTTTTATAAAATTAAAAAATTTTAAAA
61 AAAATTTACATAAAAAAATTAAAATATTAATTATTAT-GTTTT-TAAAA-TAAAAAATTTTAAAA
16638 TAAA
123 TAAA
*
16642 AAAATAAAAAAAGTTTTTTATTATAATTTTTAATAAAATAAAAGATATTTAACTAATTTTAAAAA
1 AAAAT-AAAAAAGTTTTTTATTATAATTTTTAATAAAATAAAAGATATTTAACTAATTTAAAAAA
16707 TTTACATAAAAAAATTAAAATATTAATTATTATGTTTTTAAAATAAAAAATTTTAAAATAAA
65 TTTACATAAAAAAATTAAAATATTAATTATTATGTTTTTAAAATAAAAAATTTTAAAATAAA
16769 AAA
1 AAA
16772 TATTTTTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
127 22 0.18
128 27 0.22
129 17 0.14
130 13 0.11
131 5 0.04
132 38 0.31
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (126 bp):
AAAATAAAAAAGTTTTTTATTATAATTTTTAATAAAATAAAAGATATTTAACTAATTTAAAAAAT
TTACATAAAAAAATTAAAATATTAATTATTATGTTTTTAAAATAAAAAATTTTAAAATAAA
Found at i:16760 original size:15 final size:15
Alignment explanation
Indices: 16742--16772 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16732 ATTATTATGT
16742 TTTTAAAATAAAAAA
1 TTTTAAAATAAAAAA
16757 TTTTAAAATAAAAAA
1 TTTTAAAATAAAAAA
16772 T
1 T
16773 ATTTTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TTTTAAAATAAAAAA
Found at i:16770 original size:16 final size:16
Alignment explanation
Indices: 16742--16777 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 16
16732 ATTATTATGT
16742 TTTTAAAATAAAAA-A
1 TTTTAAAATAAAAATA
16757 TTTTAAAATAAAAAATA
1 TTTTAAAAT-AAAAATA
16774 TTTT
1 TTTT
16778 TTATTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
16 5 0.26
17 5 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTTAAAATAAAAATA
Found at i:16809 original size:18 final size:18
Alignment explanation
Indices: 16768--16818 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
16758 TTTAAAATAA
16768 AAAATATTTTTT-ATTAT
1 AAAATATTTTTTAATTAT
*
16785 AATAATATTTTTTAATTTT
1 AA-AATATTTTTTAATTAT
*
16804 CAAATATATTTTTAA
1 AAAATAT-TTTTTAA
16819 GAAAACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 2 0.07
18 15 0.52
19 12 0.41
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
AAAATATTTTTTAATTAT
Found at i:17645 original size:92 final size:91
Alignment explanation
Indices: 17503--17960 Score: 507
Period size: 92 Copynumber: 5.0 Consensus size: 91
17493 TAATGTATGA
* * *
17503 ATTGTAAATATCAGATTATAAGGATTAGACTAATGCATGAATTATATTTGAGAAACAGATTCTTT
1 ATTGTAAATATCAGACTGTAAGGATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTT
*
17568 TTTATAGAAAAAAAGAAAATTTGATTG
66 TTTATA-AAAAAAAGAAAAGTTGATTG
* *
17595 ATTGTAAATATCAGACTGTAAGAATTAGATTAATGCATGAATTATATTTGAGAATCAGATTCTTT
1 ATTGTAAATATCAGACTGTAAGGATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTT
17660 TTTATAAAAAAAAGAAGAAAAGTTGATTG
66 TTTAT--AAAAAA-AAGAAAAGTTGATTG
* * * * * **
17689 AATGTAAATATTAAACTGCAAGGATTAGACTAATGCATGAGTTATATCAGAGAATCAGATTC-TT
1 ATTGTAAATATCAGACTGTAAGGATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTT
* *
17753 TTT-TAAAGAAAA-AAAAGTTGATTA
66 TTTATAAAAAAAAGAAAAGTTGATTG
* * * * * * **
17777 AGTATAAATGTCAGA-TGCAAGGATTAAACTAATACATGAATTATATAAGAGAATC-GCATTCTT
1 ATTGTAAATATCAGACTGTAAGGATTAGACTAATGCATGAATTATATTTGAGAATCAG-ATTCTT
* * *
17840 TTTTATAGAAAATA-AAAAGTTAATTG
65 TTTTATAAAAAAAAGAAAAGTTGATTG
* ** * *
17866 ATTGTAAATGTCAGACTGTAAATATTAAACTAATGCATGAATTATATTTGAGAATCAAATT-TCT
1 ATTGTAAATATCAGACTGTAAGGATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCT-T
* *
17930 TTTTATAAAAAAGCAGAAAAGTTAATTG
65 TTTTATAAAAAA-AAGAAAAGTTGATTG
17958 ATT
1 ATT
17961 TTACATGTTA
Statistics
Matches: 313, Mismatches: 42, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
86 1 0.00
87 40 0.13
88 26 0.08
89 32 0.10
90 54 0.17
91 1 0.00
92 81 0.26
93 10 0.03
94 68 0.22
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (91 bp):
ATTGTAAATATCAGACTGTAAGGATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTT
TTTATAAAAAAAAGAAAAGTTGATTG
Found at i:19866 original size:47 final size:47
Alignment explanation
Indices: 19815--19906 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
19805 TTTTATAAAG
* *
19815 GGGAGATTTTGTGGAAGTTTTGTTAAATTTGGGAGATAACAAAAAAA
1 GGGAGATTTTGTGGAAGTGTTGTAAAATTTGGGAGATAACAAAAAAA
*
19862 GGGAGATTTTGTGGAAGTGTTGTAAAATTTGGGAGGTAACAAAAA
1 GGGAGATTTTGTGGAAGTGTTGTAAAATTTGGGAGATAACAAAAA
19907 GGAGGAGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.37, C:0.02, G:0.30, T:0.30
Consensus pattern (47 bp):
GGGAGATTTTGTGGAAGTGTTGTAAAATTTGGGAGATAACAAAAAAA
Found at i:19914 original size:47 final size:47
Alignment explanation
Indices: 19811--19914 Score: 149
Period size: 47 Copynumber: 2.2 Consensus size: 47
19801 TTTGTTTTAT
* *
19811 AAAGG-GGAGATTTTGTGGAAGTTTTGTTAAATTTGGGAGATAACAA
1 AAAGGAGGAGATTTTGTGGAAGTGTTGTAAAATTTGGGAGATAACAA
* *
19857 AAA-AAGGGAGATTTTGTGGAAGTGTTGTAAAATTTGGGAGGTAACAA
1 AAAGGA-GGAGATTTTGTGGAAGTGTTGTAAAATTTGGGAGATAACAA
19904 AAAGGAGGAGA
1 AAAGGAGGAGA
19915 AATTTTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
46 3 0.06
47 46 0.92
48 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.33, T:0.27
Consensus pattern (47 bp):
AAAGGAGGAGATTTTGTGGAAGTGTTGTAAAATTTGGGAGATAACAA
Found at i:19945 original size:71 final size:71
Alignment explanation
Indices: 19862--19996 Score: 243
Period size: 71 Copynumber: 1.9 Consensus size: 71
19852 AACAAAAAAA
* * *
19862 GGGAGATTTTGTGGAAGTGTTGTAAAATTTGGGAGGTAACAAAAAGGAGGAGAAATTTTTATTTA
1 GGGAGATTTTGTGGAAGTATTGTAAAATTTGGGAGATAACAAAAAAGAGGAGAAATTTTTATTTA
19927 TAAAGG
66 TAAAGG
19933 GGGAGATTTTGTGGAAGTATTGTAAAATTTGGGAGATAACAAAAAAGAGGAGAAATTTTTATTT
1 GGGAGATTTTGTGGAAGTATTGTAAAATTTGGGAGATAACAAAAAAGAGGAGAAATTTTTATTT
19997 TGTGGAAGTG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.38, C:0.01, G:0.29, T:0.32
Consensus pattern (71 bp):
GGGAGATTTTGTGGAAGTATTGTAAAATTTGGGAGATAACAAAAAAGAGGAGAAATTTTTATTTA
TAAAGG
Found at i:19985 original size:118 final size:117
Alignment explanation
Indices: 19798--20051 Score: 357
Period size: 126 Copynumber: 2.1 Consensus size: 117
19788 TGAAATAAAT
* * *
19798 AAATTTGTTTTATAAAGGGGAGATTTTGTGGAAGTTTTGTTAAATTTGGGAGATAACAAAAAAAG
1 AAATTTTTTTTATAAAGGGGAGATTTTGTGGAAGTATTGTAAAATTTGGGAGATAACAAAAAAAG
* *
19863 GGAG-ATTTTGTGGAAGTGTTGTAAAATTTGGGAGGTAACAAAAAGGAGGAG
66 GGAGTATTTTGTGGAAGTGTTGTAAAATTTGGGAGATAACAAAAAGGAAGAG
19914 AAATTTTTATTTATAAAGGGGGAGATTTTGTGGAAGTATTGTAAAATTTGGGAGATAACAAAAAA
1 AAATTTTT-TTTATAAA-GGGGAGATTTTGTGGAAGTATTGTAAAATTTGGGAGATAACAAAAAA
* *
19979 GAGGAGAAATTTTTATTTTGTGGAAGTGTTGTAAAATTTTGGAGATAACAAAAAGGAAGAG
64 -AGG-G--A---GTATTTTGTGGAAGTGTTGTAAAATTTGGGAGATAACAAAAAGGAAGAG
20040 AAATTTTTTTTA
1 AAATTTTTTTTA
20052 AAGCATTAAA
Statistics
Matches: 121, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
116 7 0.06
117 8 0.07
118 45 0.37
119 3 0.02
120 1 0.01
122 1 0.01
125 4 0.03
126 52 0.43
ACGTcount: A:0.39, C:0.02, G:0.26, T:0.33
Consensus pattern (117 bp):
AAATTTTTTTTATAAAGGGGAGATTTTGTGGAAGTATTGTAAAATTTGGGAGATAACAAAAAAAG
GGAGTATTTTGTGGAAGTGTTGTAAAATTTGGGAGATAACAAAAAGGAAGAG
Found at i:20004 original size:55 final size:55
Alignment explanation
Indices: 19938--20047 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 55
19928 AAAGGGGGAG
*
19938 ATTTTGTGGAAGTATTGTAAAATTTGGGAGATAACAAAAAAGAGGAGAAATTTTT
1 ATTTTGTGGAAGTATTGTAAAATTTGGGAGATAACAAAAAAGAAGAGAAATTTTT
* * *
19993 ATTTTGTGGAAGTGTTGTAAAATTTTGGAGATAACAAAAAGGAAGAGAAATTTTT
1 ATTTTGTGGAAGTATTGTAAAATTTGGGAGATAACAAAAAAGAAGAGAAATTTTT
20048 TTTAAAGCAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.41, C:0.02, G:0.24, T:0.34
Consensus pattern (55 bp):
ATTTTGTGGAAGTATTGTAAAATTTGGGAGATAACAAAAAAGAAGAGAAATTTTT
Found at i:23155 original size:173 final size:172
Alignment explanation
Indices: 22882--23366 Score: 475
Period size: 173 Copynumber: 2.8 Consensus size: 172
22872 TTAAAATCTT
* * * * * * * *
22882 AAATTATAG-AAAATAAA-ATTTTATGCTTAAAAAATTATTGTATTTTAATGCACAAATGTCAAT
1 AAATTAT-GTAAAATAAATTTTTTA-GCTTAAGAAACTATCGTATTTAAATACAAAAATTTCAAT
* * * *
22945 ATATA-TTTTTCTTTGAAACTTATTATTTTAAAATTTTTTAACTAGATAAATACATTTTATTAAT
64 -T-TAGTGTTTCTTTTAAACTTATTATTTT-TAA-TTTTTAACTAGATAAATATATTTTATT-AT
* *
23009 TAAAATATTTAAAACTATCC-TATAAATGTTTAAAA-ATTTTAAAAAATA
124 TAAAATATCTAAAACTATCCAT-TAAATATTTAAAATATTTTAAAAAATA
23057 AAATTATGTAAAATAAATTTTTTACGCTTAAGAAACTATCGTATTTAAATACAAAAATATT-AAT
1 AAATTATGTAAAATAAATTTTTTA-GCTTAAGAAACTATCGTATTTAAATACAAAAAT-TTCAAT
* * * *
23121 TTA-TGTTT-TTTTAGATTTATTATTTTGTAATTTTTAATTCAG-TAAATGTATTTTATTATTAA
64 TTAGTGTTTCTTTTAAACTTATTATTTT-TAATTTTTAACT-AGATAAATATATTTTATTATTAA
* * * * **
23183 AATATCTAATATTATGCATTAAATATTTAAAATTTTTTAAAATTTA
127 AATATCTAAAACTATCCATTAAATATTTAAAATATTTTAAAAAATA
** * * * * *
23229 AAATTATGTAAAATAAATTTTTTAGCTTGCGAAACTATCGTATTTTAGTACGAAAGTTTCTATTT
1 AAATTATGTAAAATAAATTTTTTAGCTTAAGAAACTATCGTATTTAAATACAAAAATTTCAATTT
* * * *
23294 AGTTTTTCTTTTAAACTTAATATTTCTTAATTTTTAACTTGAAAAATATATTTTATTATTAAAAT
66 AGTGTTTCTTTTAAACTTATTATTT-TTAATTTTTAACTAGATAAATATATTTTATTATTAAAAT
23359 ATCTAAAA
130 ATCTAAAA
23367 TTATATGGTA
Statistics
Matches: 257, Mismatches: 42, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
170 2 0.01
171 62 0.24
172 61 0.24
173 72 0.28
174 8 0.03
175 16 0.06
176 35 0.14
177 1 0.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (172 bp):
AAATTATGTAAAATAAATTTTTTAGCTTAAGAAACTATCGTATTTAAATACAAAAATTTCAATTT
AGTGTTTCTTTTAAACTTATTATTTTTAATTTTTAACTAGATAAATATATTTTATTATTAAAATA
TCTAAAACTATCCATTAAATATTTAAAATATTTTAAAAAATA
Found at i:23240 original size:17 final size:17
Alignment explanation
Indices: 23202--23242 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
23192 TATTATGCAT
* *
23202 TAAATATTTAAAATTTTT
1 TAAA-ATTTAAAATTATG
23220 TAAAATTTAAAATTATG
1 TAAAATTTAAAATTATG
23237 TAAAAT
1 TAAAAT
23243 AAATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
TAAAATTTAAAATTATG
Found at i:23708 original size:176 final size:173
Alignment explanation
Indices: 23414--23809 Score: 485
Period size: 176 Copynumber: 2.3 Consensus size: 173
23404 ATTCTTAAGG
* * * * * *** *
23414 AAAAATATAAACTGACACTTTCGTATTAAAATACAATGGTATCTTAAGTGTAAAAATTCATTTTA
1 AAAAATATAAATTGATATTTTCGTGTTAAAATACGACAATTTCTTAAGTGTAAAAATTCATTTTA
* * *
23479 CATAATTTTAAATTTTAAAAAATTTTAAATATTTAACGTATAATATTAGATATTTTAATAATAAA
66 CATAATTTTAAATTTTAAAAAATTTTAAATATTTAACGAAAAATATTAGATATTTTAACAATAAA
*
23544 ATAAATTTATCTGA-TTAAAAAATTATGAAATAATAAGTCTCAAGAA
131 ATAAATTTAT-TGAGTT-AAAAATTACGAAATAATAAGTCTC-A-AA
* *
23590 AAAAATATAAATTGTTACTTTT-GTGTTAAAATACGACAATTTCTTAAGTGTAAAAAATTCGTTT
1 AAAAATATAAATTGATA-TTTTCGTGTTAAAATACGACAATTTCTTAAGTGT-AAAAATTCATTT
* *
23654 TACATAATTTTATATTTTAAAAATTTTTAAATATTTATA-GAAAAAT-TTAGATATTTTAACAAT
64 TACATAATTTTAAATTTTAAAAAATTTTAAATATTTA-ACGAAAAATATTAGATATTTTAACAAT
*
23717 AAAATACATTTATTGAGTTAAAAATTACGAAATAATAAGTCTCAAA
128 AAAATAAATTTATTGAGTTAAAAATTACGAAATAATAAGTCTCAAA
* * * * * *
23763 GAAATTGTATATTGATATTTTCGTGTTAAAATATGATAATTTCTTAA
1 AAAAATATAAATTGATATTTTCGTGTTAAAATACGACAATTTCTTAA
23810 TTATAATTTT
Statistics
Matches: 190, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
172 4 0.02
173 37 0.19
174 1 0.01
175 26 0.14
176 67 0.35
177 54 0.28
178 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (173 bp):
AAAAATATAAATTGATATTTTCGTGTTAAAATACGACAATTTCTTAAGTGTAAAAATTCATTTTA
CATAATTTTAAATTTTAAAAAATTTTAAATATTTAACGAAAAATATTAGATATTTTAACAATAAA
ATAAATTTATTGAGTTAAAAATTACGAAATAATAAGTCTCAAA
Found at i:23876 original size:164 final size:172
Alignment explanation
Indices: 23414--23918 Score: 455
Period size: 176 Copynumber: 2.9 Consensus size: 172
23404 ATTCTTAAGG
* * * * * *** *
23414 AAAAATATAAACTGACACTTTCGTATTAAAATACAATGGTATCTTAAGTGTAAAAATTCATTTTA
1 AAAAATATAAATTGATACTTTTGTGTTAAAATACGACAATTTCTTAAGTGTAAAAATTC-TTTT-
* * *
23479 CATAATTTTAAATTTTAAAAAATTTTAAATAT-TTAAC-GTATAATATTAGATATTTTAATAATA
64 -ATAATTTTAAATTTT-AAAAATTTTAAAAATATTATCAG-ATAATTTTAGATATTTTAATAATA
*
23542 AAATAAATTTATCTGA-TTAAAAAATTATGAAATAATAAGTCTCAAGAA
126 AAATAAATTTAT-TGAGTT-AAAAATTAAGAAATAATAAGTCTCAAGAA
*
23590 AAAAATATAAATTGTTACTTTTGTGTTAAAATACGACAATTTCTTAAGTGTAAAAAATTCGTTTT
1 AAAAATATAAATTGATACTTTTGTGTTAAAATACGACAATTTCTTAAGTGT-AAAAATTC-TTTT
* * * * *
23655 ACATAATTTTATATTTTAAAAATTTT-TAAATATTTAT-AGAAAAATTTAGATATTTTAACAATA
64 --ATAATTTTAAATTTTAAAAATTTTAAAAATA-TTATCAGATAATTTTAGATATTTTAATAATA
* *
23718 AAATACATTTATTGAGTTAAAAATTACGAAATAATAAGTCTC-A-AA
126 AAATAAATTTATTGAGTTAAAAATTAAGAAATAATAAGTCTCAAGAA
* * * * * * *
23763 GAAATTGTATATTGATA-TTTTCGTGTTAAAATATGATAATTTCTTAA-T-T-ATAATT-TTTT-
1 AAAAATATAAATTGATACTTTT-GTGTTAAAATACGACAATTTCTTAAGTGTAAAAATTCTTTTA
* * *
23822 TTATTTTAAATTTT-AATATTTTAAAAATATTATCAGATAATTTTAAATATTTTAATAA-AAAAT
65 TAATTTTAAATTTTAAAAATTTTAAAAATATTATCAGATAATTTTAGATATTTTAATAATAAAAT
* * * * *
23885 ATATTTACTAAGTAAAATAATTAAAAAATAATAA
130 AAATTTATTGAGTTAAA-AATTAAGAAATAATAA
23919 ATTAAAAAAA
Statistics
Matches: 277, Mismatches: 43, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
163 29 0.10
164 51 0.18
167 4 0.01
169 5 0.02
171 1 0.00
172 5 0.02
173 37 0.13
174 1 0.00
175 29 0.10
176 83 0.30
177 32 0.12
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (172 bp):
AAAAATATAAATTGATACTTTTGTGTTAAAATACGACAATTTCTTAAGTGTAAAAATTCTTTTAT
AATTTTAAATTTTAAAAATTTTAAAAATATTATCAGATAATTTTAGATATTTTAATAATAAAATA
AATTTATTGAGTTAAAAATTAAGAAATAATAAGTCTCAAGAA
Found at i:26465 original size:19 final size:19
Alignment explanation
Indices: 26428--26465 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
26418 AAAATATTAA
*
26428 AAAAAATTATATTTCTATT
1 AAAAAATTATATTTATATT
26447 AAAAAATT-TATTTAATATT
1 AAAAAATTATATTT-ATATT
26466 TCTCTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAAAATTATATTTATATT
Found at i:29576 original size:25 final size:24
Alignment explanation
Indices: 29527--29590 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
29517 CTTATGTGCT
*
29527 TATTTTA-TTAATTTATTTGTACA
1 TATTTTATTTAATTTATTTGAACA
29550 TATTTTATTTAA-TTATATTGAATCA
1 TATTTTATTTAATTTAT-TTGAA-CA
**
29575 TAAATTATTTAATTTA
1 TATTTTATTTAATTTA
29591 AGATCAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 11 0.32
24 8 0.24
25 12 0.35
26 3 0.09
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (24 bp):
TATTTTATTTAATTTATTTGAACA
Found at i:29605 original size:114 final size:113
Alignment explanation
Indices: 29461--29855 Score: 410
Period size: 112 Copynumber: 3.5 Consensus size: 113
29451 AATAAGATCG
* * *
29461 TAAAATATTTAATTTAAGATTAAATTTTAT-AAAAATATATATTAGATAAAATAAATCTTATGTG
1 TAAAATATTTAATTTAAGATCAAATCTTATAAAAAATATATATTAAATAAAATAAATCTTATGTG
* * *
29525 CTTATTTTATTAATTTATTTGTACATATTTTATTTAATTATATTGAATCA
66 ATTATTTAATTAATTTATTTGTA-TTATTTTATTTAATTATATT-AATCA
* * * * **
29575 TAAATTATTTAATTTAAGATCAAATCTTAT--AAAA-ATATATTAGATAAAATCAATCTAACATG
1 TAAAATATTTAATTTAAGATCAAATCTTATAAAAAATATATATTAAATAAAATAAATCTTATGTG
* * * *
29637 TTTATTTAATTAATTTATTTAGGT-TTATTTTATTAAATTTTATATAAACA
66 ATTATTTAATTAATTTATTT--GTATTATTTTATTTAATTATAT-TAATCA
* **
29687 TATAAATTATATAATTTAAGA-CAAACTCTTATAAAAAATATATATTAAATAAAATAGGTC-TAT
1 TA-AAA-TATTTAATTTAAGATCAAA-TCTTATAAAAAATATATATTAAATAAAATAAATCTTAT
* * * *
29750 GTGATTATTTAATTCATTAATTTATATTATTTAATTTAATTATATTTAATCA
63 GTGATTATTTAATTAATTTATTTGTATTATTTTATTTAATTATA-TTAATCA
* * *
29802 TAAAATATTTAATTTAAGGTCAAACCATT-TCAAAAATATATATTAAATAAAATA
1 TAAAATATTTAATTTAAGATCAAATC-TTATAAAAAATATATATTAAATAAAATA
29856 TGACTCATAT
Statistics
Matches: 234, Mismatches: 34, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
112 64 0.27
113 48 0.21
114 58 0.25
115 22 0.09
116 25 0.11
117 17 0.07
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (113 bp):
TAAAATATTTAATTTAAGATCAAATCTTATAAAAAATATATATTAAATAAAATAAATCTTATGTG
ATTATTTAATTAATTTATTTGTATTATTTTATTTAATTATATTAATCA
Found at i:29797 original size:15 final size:14
Alignment explanation
Indices: 29766--29818 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
29756 ATTTAATTCA
* *
29766 TTAATTTATATTAT
1 TTAATTTAAAATAT
*
29780 TTAATTTAATTATAT
1 TTAATTTAA-AATAT
*
29795 TTAATCATAAAATAT
1 TTAAT-TTAAAATAT
29810 TTAATTTAA
1 TTAATTTAA
29819 GGTCAAACCA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 11 0.35
15 17 0.55
16 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAATTTAAAATAT
Found at i:36269 original size:29 final size:29
Alignment explanation
Indices: 36235--36378 Score: 143
Period size: 29 Copynumber: 5.0 Consensus size: 29
36225 CAAAACTGTG
36235 CATTGACCCTTAAACTTTTCAAAATTACA
1 CATTGACCCTTAAACTTTTCAAAATTACA
* * *
36264 CTTTGATCCTTAAACTCTTCAAAATTACA
1 CATTGACCCTTAAACTTTTCAAAATTACA
** *
36293 CATT-AATCTCTAAACATTTCAAAATTACA
1 CATTGACCCT-TAAACTTTTCAAAATTACA
*
36322 CATT-AGCCCTTAAACTTCTT-AAAAATACA
1 CATTGA-CCCTTAAACTT-TTCAAAATTACA
* *
36351 CTTTGACTCC-TAAACTTTTCACAATTAC
1 CATTGAC-CCTTAAACTTTTCAAAATTAC
36379 GTATTAACCT
Statistics
Matches: 94, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
28 5 0.05
29 82 0.87
30 7 0.07
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (29 bp):
CATTGACCCTTAAACTTTTCAAAATTACA
Found at i:36377 original size:87 final size:87
Alignment explanation
Indices: 36241--36406 Score: 219
Period size: 87 Copynumber: 1.9 Consensus size: 87
36231 TGTGCATTGA
* * *
36241 CCCTTAAACTTTTCAAAATTACACTTTGATCCTTAAACTCTTCAAAATTACACATTAATCTCTAA
1 CCCTTAAACTTTTCAAAAATACACTTTGATCCTTAAACTCTTCAAAATTACACATTAACCTCGAA
36306 ACATTTCAAAATTACACATTAG
66 ACATTTCAAAATTACACATTAG
* * **
36328 CCCTTAAACTTCTT-AAAAATACACTTTGACTCC-TAAACTTTTCACAATTACGTATTAACCTCG
1 CCCTTAAACTT-TTCAAAAATACACTTTGA-TCCTTAAACTCTTCAAAATTACACATTAACCTCG
* *
36391 AGACTTTTCAAAATTA
64 AAACATTTCAAAATTA
36407 TGTATTGACA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 63 0.93
88 5 0.07
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (87 bp):
CCCTTAAACTTTTCAAAAATACACTTTGATCCTTAAACTCTTCAAAATTACACATTAACCTCGAA
ACATTTCAAAATTACACATTAG
Found at i:36427 original size:29 final size:29
Alignment explanation
Indices: 36395--36451 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
36385 ACCTCGAGAC
* *
36395 TTTTCAAAATTATGTATTGACACCAAAAG
1 TTTTCAAAATTACGAATTGACACCAAAAG
*
36424 TTTTCAAAATTACGAATTGACCCCAAAA
1 TTTTCAAAATTACGAATTGACACCAAAA
36452 CTTTAAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.32
Consensus pattern (29 bp):
TTTTCAAAATTACGAATTGACACCAAAAG
Found at i:38193 original size:20 final size:21
Alignment explanation
Indices: 38156--38204 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
38146 TAGTTTTTTG
*
38156 AAAAATAAAGGAATTTCAAGAA
1 AAAAATAAA-GAAATTCAAGAA
*
38178 AAAAATAAA-AAATTCATGAA
1 AAAAATAAAGAAATTCAAGAA
38198 AATAAAT
1 AA-AAAT
38205 GAAATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 11 0.46
21 4 0.17
22 9 0.38
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.20
Consensus pattern (21 bp):
AAAAATAAAGAAATTCAAGAA
Found at i:47342 original size:115 final size:115
Alignment explanation
Indices: 47168--47509 Score: 379
Period size: 115 Copynumber: 3.0 Consensus size: 115
47158 TTGACCCGAC
* * ** * ** *
47168 ATAATTAAATAAAATAGGCCCCAAATAAATTAATTAAATATGCATGTGGGTTTTATTTTATCAAA
1 ATAATTAAATAAAATAGG-CTCAAATAAATTAATTAAATAAGCACATGAGACTTATTTTATCTAA
* * * ** *
47233 TGTATATTTTTTGTAAGGCTTAACCTTAAAATAAATAATTTATAACTTAAT
65 TATATATTTTTTATAAGACTTGGCCTTAAATTAAATAATTTATAACTTAAT
*
47284 ATAATTAAATAAAATAGGCTCAAATAAATTAATTAAATAAGCACATGAGACTTATTTTATTTAAT
1 ATAATTAAATAAAATAGGCTCAAATAAATTAATTAAATAAGCACATGAGACTTATTTTATCTAAT
* ** * * **
47349 ATATATTTTTTATAAGCCTTGGTGTTAAATTAACTAATTTATGACCCAAT
66 ATATATTTTTTATAAGACTTGGCCTTAAATTAAATAATTTATAACTTAAT
* **
47399 ATAATTAAATAAAATAAGCTCAAA-AAA-TAATTAAATAAG--CATGTAGGACCCATTTTATCTA
1 ATAATTAAATAAAATAGGCTCAAATAAATTAATTAAATAAGCACATG-A-GACTTATTTTATCTA
*
47460 ATATATA-TTTCTATAAGACTTGGCCTTAAATTAAATAATTTATGAACTTA
64 ATATATATTTTTTATAAGACTTGGCCTTAAATTAAATAATTTAT-AACTTA
47510 CCTCAGCTAG
Statistics
Matches: 190, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
111 4 0.02
112 32 0.17
113 34 0.18
114 3 0.02
115 99 0.52
116 18 0.09
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.38
Consensus pattern (115 bp):
ATAATTAAATAAAATAGGCTCAAATAAATTAATTAAATAAGCACATGAGACTTATTTTATCTAAT
ATATATTTTTTATAAGACTTGGCCTTAAATTAAATAATTTATAACTTAAT
Found at i:47790 original size:159 final size:158
Alignment explanation
Indices: 47488--47800 Score: 387
Period size: 159 Copynumber: 2.0 Consensus size: 158
47478 CTTGGCCTTA
* ** *
47488 AATTAAATAATTTATGAACTTACCTCAGCTAGGAGTGATTGAGGATTGGATCCGAGCTTGTACAT
1 AATTAAATAATTCATGAACTTACCTCAGCTAGGAGTGATCAAAGATTGGATCCGAGCTTGTACAT
* * * *
47553 TCAGCTTTGATGATGCCTTGAAATGCTTACATAAAGGCCTAAACAAAATTATATGTTTATAAGTT
66 TCAGCTTTGATGATGCCTTGAAATACTTACATAAAGGCCTAAACAAAATTATATATCTACAAGTT
*
47618 TAATCAACATTACTTTTTGACATACATG
131 TAAACAACATTACTTTTTGACATACATG
* * *
47646 AATTAAACTAATTCAT-AAGCTTACCTTATCTAGGAGTGATCAAAGATTGGAT-TGAAGCTTGTA
1 AATTAAA-TAATTCATGAA-CTTACCTCAGCTAGGAGTGATCAAAGATTGGATCCG-AGCTTGTA
* * * * ** * *
47709 CATTCGGTTTTGGTGATGCCTTGAAATACTTGCATGGAGGTCTAGACAAAATTATATATCTACAA
63 CATTCAGCTTTGATGATGCCTTGAAATACTTACATAAAGGCCTAAACAAAATTATATATCTACAA
**
47774 GTTTAAACAATTTTACTTTTTGACATA
128 GTTTAAACAACATTACTTTTTGACATA
47801 TACGAATCAA
Statistics
Matches: 130, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
158 10 0.08
159 120 0.92
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (158 bp):
AATTAAATAATTCATGAACTTACCTCAGCTAGGAGTGATCAAAGATTGGATCCGAGCTTGTACAT
TCAGCTTTGATGATGCCTTGAAATACTTACATAAAGGCCTAAACAAAATTATATATCTACAAGTT
TAAACAACATTACTTTTTGACATACATG
Found at i:50530 original size:19 final size:21
Alignment explanation
Indices: 50492--50533 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
50482 ATAATATATT
*
50492 TATTACTAATATTAAAAAATA
1 TATTACTAATAATAAAAAATA
50513 TATTACTAA-AAT-AAAAATA
1 TATTACTAATAATAAAAAATA
50532 TA
1 TA
50534 AAATTTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 9 0.45
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
TATTACTAATAATAAAAAATA
Found at i:51594 original size:72 final size:72
Alignment explanation
Indices: 51512--51705 Score: 219
Period size: 72 Copynumber: 2.7 Consensus size: 72
51502 TATTAAACAT
* * *
51512 TTTTAGGATATTATTTATCTTTATTTGTAGAAGTTTAAATTTATTTTTAAGTATGA-TTATACGA
1 TTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTAAGTAT-ACTTATACGA
51576 GTTAAAAA
65 GTTAAAAA
* * * ** *
51584 TTTTAAGATATAATTTATTTTTATTTATAAAAGTTTAAATTTGTTTTTTGTGTATACTTATATGA
1 TTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTT-ATTTTTAAGTATACTTATACGA
* *
51649 GTTTAAAT
65 GTTAAAAA
** * *
51657 TTATTATTATATAATTTATTTTTATTTGTAGAAATTTAAATATATTTTT
1 TT-TTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTT
51706 TTGGTATAAT
Statistics
Matches: 101, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
72 38 0.38
73 29 0.29
74 34 0.34
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (72 bp):
TTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTAAGTATACTTATACGAG
TTAAAAA
Found at i:51682 original size:74 final size:72
Alignment explanation
Indices: 51510--51843 Score: 281
Period size: 74 Copynumber: 4.6 Consensus size: 72
51500 TGTATTAAAC
* * * * * ** *
51510 ATTTTTAGGATATTATTTATCTTTATTTGTAGAAGTTTAAATTTATTTTTAAGTATGA-TTATAC
1 ATTTTTAAGATATAATTTATTTTTATTTGTAAAAGTTTAAATTTTTTTTTGTGTAT-ACTTATAT
*
51574 GAGTTAAA
65 GAGTTTAA
* *
51582 AATTTTAAGATATAATTTATTTTTATTTATAAAAGTTTAAATTTGTTTTTTGTGTATACTTATAT
1 ATTTTTAAGATATAATTTATTTTTATTTGTAAAAGTTTAAATTT-TTTTTTGTGTATACTTATAT
51647 GAGTTTAA
65 GAGTTTAA
** *
51655 ATTTATTATTATATAATTTATTTTTATTTGTAGAAA-TTTAAATATATTTTTTTG-GTATAATTA
1 ATTT-TTAAGATATAATTTATTTTTATTTGTA-AAAGTTTAAAT-T-TTTTTTTGTGTATACTTA
*
51718 TATGAGTTTAT
62 TATGAGTTTAA
* * * * * * * *
51729 CTTTTCGATCG-TATAATTAATTTTTATTTTTAGAAA-TTTAAATTTGTTTTTGTGT-TGC-CAT
1 ATTTT-TA-AGATATAATTTATTTTTATTTGTA-AAAGTTTAAATTTTTTTTTGTGTATACTTAT
51790 -T-AGTTTAA
63 ATGAGTTTAA
* * * *
51798 ATTTTTAAGGTATTATTTATCTTTATTTGTAGAAGTTTAAATTTTT
1 ATTTTTAAGATATAATTTATTTTTATTTGTAAAAGTTTAAATTTTT
51844 ATTTAAAGGT
Statistics
Matches: 214, Mismatches: 37, Indels: 26
0.77 0.13 0.09
Matches are distributed among these distances:
67 3 0.01
68 28 0.13
69 10 0.05
70 1 0.00
71 2 0.01
72 47 0.22
73 28 0.13
74 83 0.39
75 11 0.05
76 1 0.00
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.55
Consensus pattern (72 bp):
ATTTTTAAGATATAATTTATTTTTATTTGTAAAAGTTTAAATTTTTTTTTGTGTATACTTATATG
AGTTTAA
Found at i:53249 original size:73 final size:72
Alignment explanation
Indices: 53092--53423 Score: 345
Period size: 73 Copynumber: 4.6 Consensus size: 72
53082 TTTAAATAAA
* * * *
53092 AATTTAAACTTCTACAAATAAAGATAAATAATACCCTAAAAATTTAAACT--TAT-GTCA-ACCC
1 AATTTAAACTTCTACAAATAAAAATAAATTATACCATAAAAATTTAAACTCGTATAATCATACCC
53153 -AAAAAT
66 AAAAAAT
* * * * * *
53159 AAAATTAAAATTCTACAAATAAAAATGAATTTTACGATAAAAATATAAACTCGTATAATCATACC
1 -AATTTAAACTTCTACAAATAAAAATAAATTATACCATAAAAATTTAAACTCGTATAATCATACC
53224 CAAAAAAT
65 CAAAAAAT
*
53232 ATATTTAAACTTCTACAAATAAAAATAAATTATACCATCAAAAATTTAAACTCATATAAGT-ATA
1 A-ATTTAAACTTCTACAAATAAAAATAAATTATACCAT-AAAAATTTAAACTCGTATAA-TCATA
* *
53296 CGCAAAAAAC
63 CCCAAAAAAT
* * * * * * *
53306 ACATTTAAACTTTTATAAATAAAGATAAATTATACCTTAAAATTTTTAACTCGTATAATCATACT
1 A-ATTTAAACTTCTACAAATAAAAATAAATTATACCATAAAAATTTAAACTCGTATAATCATACC
53371 CAAAAACA-
65 CAAAAA-AT
** * *
53379 AATTTAAACTTCTACAAATAATGATAAATAATACCTTAAAAATTT
1 AATTTAAACTTCTACAAATAAAAATAAATTATACCATAAAAATTT
53424 TTAATATAAA
Statistics
Matches: 221, Mismatches: 33, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
68 41 0.19
70 3 0.01
71 3 0.01
72 45 0.20
73 65 0.29
74 63 0.29
75 1 0.00
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.31
Consensus pattern (72 bp):
AATTTAAACTTCTACAAATAAAAATAAATTATACCATAAAAATTTAAACTCGTATAATCATACCC
AAAAAAT
Found at i:53312 original size:74 final size:71
Alignment explanation
Indices: 53092--53423 Score: 336
Period size: 74 Copynumber: 4.6 Consensus size: 71
53082 TTTAAATAAA
* *
53092 AATTTAAACTTCTACAAATAAAGATAAATAATACCCTAAAAATTTAAACT--TAT-GTCA-ACCC
1 AATTTAAACTTCTACAAATAAAGATAAATTATA-CCTAAAAATTTAAACTCGTATAATCATACCC
53153 AAAAATA-
65 AAAAA-AC
* * * * * * *
53160 AAATTAAAATTCTACAAATAAAAATGAATTTTACGATAAAAATATAAACTCGTATAATCATACCC
1 AATTTAAACTTCTACAAATAAAGATAAATTATAC-CTAAAAATTTAAACTCGTATAATCATACCC
*
53225 AAAAAAT
65 AAAAAAC
* *
53232 ATATTTAAACTTCTACAAATAAAAATAAATTATACCATCAAAAATTTAAACTCATATAAGT-ATA
1 A-ATTTAAACTTCTACAAATAAAGATAAATTATACC-T-AAAAATTTAAACTCGTATAA-TCATA
*
53296 CGCAAAAAAC
62 CCCAAAAAAC
* * * * *
53306 ACATTTAAACTTTTATAAATAAAGATAAATTATACCTTAAAATTTTTAACTCGTATAATCATACT
1 A-ATTTAAACTTCTACAAATAAAGATAAATTATACC-TAAAAATTTAAACTCGTATAATCATACC
53371 C-AAAAAC
64 CAAAAAAC
* *
53378 AAATTTAAACTTCTACAAATAATGATAAATAATACCTTAAAAATTT
1 -AATTTAAACTTCTACAAATAAAGATAAATTATACC-TAAAAATTT
53424 TTAATATAAA
Statistics
Matches: 220, Mismatches: 32, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
67 1 0.00
68 40 0.18
70 3 0.01
71 4 0.02
72 56 0.25
73 53 0.24
74 62 0.28
75 1 0.00
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.31
Consensus pattern (71 bp):
AATTTAAACTTCTACAAATAAAGATAAATTATACCTAAAAATTTAAACTCGTATAATCATACCCA
AAAAAC
Found at i:53427 original size:73 final size:72
Alignment explanation
Indices: 53091--53423 Score: 363
Period size: 72 Copynumber: 4.6 Consensus size: 72
53081 ATTTAAATAA
* * *
53091 AAATTTAAACTTCTACAAATAAAGATAAATAATACCCTAAAAATTTAAACT--TAT-GTCA-ACC
1 AAATTTAAACTTCTACAAATAAAGATAAATTATACCTTAAAAATTTAAACTCGTATAATCATACC
*
53152 CAAAAAT
66 CAAAAAC
* * * * * ** *
53159 AAAATTAAAATTCTACAAATAAAAATGAATTTTACGATAAAAATATAAACTCGTATAATCATACC
1 AAATTTAAACTTCTACAAATAAAGATAAATTATACCTTAAAAATTTAAACTCGTATAATCATACC
53224 CAAAAA-
66 CAAAAAC
* * *
53230 ATATATTTAAACTTCTACAAATAAAAATAAATTATACCATCAAAAATTTAAACTCATATAAGT-A
1 A-A-ATTTAAACTTCTACAAATAAAGATAAATTATACC-TTAAAAATTTAAACTCGTATAA-TCA
*
53294 TACGCAAAAAAC
62 TAC-CCAAAAAC
* * * * * *
53306 ACATTTAAACTTTTATAAATAAAGATAAATTATACCTTAAAATTTTTAACTCGTATAATCATACT
1 AAATTTAAACTTCTACAAATAAAGATAAATTATACCTTAAAAATTTAAACTCGTATAATCATACC
53371 CAAAAAC
66 CAAAAAC
* *
53378 AAATTTAAACTTCTACAAATAATGATAAATAATACCTTAAAAATTT
1 AAATTTAAACTTCTACAAATAAAGATAAATTATACCTTAAAAATTT
53424 TTAATATAAA
Statistics
Matches: 218, Mismatches: 36, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
68 42 0.19
70 3 0.01
71 4 0.02
72 57 0.26
73 51 0.23
74 53 0.24
75 7 0.03
76 1 0.00
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.31
Consensus pattern (72 bp):
AAATTTAAACTTCTACAAATAAAGATAAATTATACCTTAAAAATTTAAACTCGTATAATCATACC
CAAAAAC
Found at i:53427 original size:147 final size:139
Alignment explanation
Indices: 53089--53423 Score: 386
Period size: 147 Copynumber: 2.3 Consensus size: 139
53079 ATATTTAAAT
*
53089 AAAAATTTAAACTTCTACAAATAAAGATAAATAATACCCTAAAAATTTAAACTTATGTCAACCCA
1 AAAAATTTAAACTTCTACAAATAAAGATAAATAATACCTTAAAAATTTAAACTTATGTCAACCCA
* * *
53154 AAAATAAAATTAAAATTCTACAAATAAAAATGAATTTTACGATAAAAATATAAACTCGTATAATC
66 AAAATAAAATTAAAATTCTACAAATAAAAATAAATTATACCATAAAAATATAAACTCGTATAATC
53219 ATACCCAAA
131 ATACCCAAA
* * *
53228 AAATATATTTAAACTTCTACAAATAAAAATAAATTATACCATCAAAAATTTAAACTCATATAAGT
1 AAA-A-ATTTAAACTTCTACAAATAAAGATAAATAATACC-TTAAAAATTTAAACT--TAT--GT
* * * * * * * * * *
53293 -ATACGCAAAAA-ACACATTTAAACTTTTATAAATAAAGATAAATTATACCTTAAAATTTTTAAC
59 CA-ACCCAAAAATA-A-AATTAAAATTCTACAAATAAAAATAAATTATACCATAAAAATATAAAC
*
53356 TCGTATAATCATACTCAAA
121 TCGTATAATCATACCCAAA
*
53375 AACAAATTTAAACTTCTACAAATAATGATAAATAATACCTTAAAAATTT
1 AA-AAATTTAAACTTCTACAAATAAAGATAAATAATACCTTAAAAATTT
53424 TTAATATAAA
Statistics
Matches: 163, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
139 3 0.02
140 1 0.01
141 32 0.20
142 13 0.08
144 3 0.02
145 11 0.07
146 42 0.26
147 57 0.35
148 1 0.01
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.30
Consensus pattern (139 bp):
AAAAATTTAAACTTCTACAAATAAAGATAAATAATACCTTAAAAATTTAAACTTATGTCAACCCA
AAAATAAAATTAAAATTCTACAAATAAAAATAAATTATACCATAAAAATATAAACTCGTATAATC
ATACCCAAA
Found at i:53648 original size:18 final size:17
Alignment explanation
Indices: 53622--53655 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
53612 ACGATTTCTC
53622 AACAAATTTATAAAAAAA
1 AACAAATTT-TAAAAAAA
*
53640 AACATATTTTAAAAAA
1 AACAAATTTTAAAAAA
53656 TAATTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AACAAATTTTAAAAAAA
Found at i:55544 original size:19 final size:18
Alignment explanation
Indices: 55513--55550 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
55503 ACAATTATAG
*
55513 TATAATAAAATATATAAA
1 TATAATAAAATATACAAA
55531 TATAATATAAATATACAAA
1 TATAATA-AAATATACAAA
55550 T
1 T
55551 TACAAGACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
TATAATAAAATATACAAA
Found at i:56439 original size:12 final size:12
Alignment explanation
Indices: 56418--56455 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
56408 TATTAATTAT
*
56418 TATCTTTATTTA
1 TATCTATATTTA
56430 TATCTATATTTA
1 TATCTATATTTA
*
56442 TATTTAT-TTTA
1 TATCTATATTTA
56453 TAT
1 TAT
56456 TTTACATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 7 0.29
12 17 0.71
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (12 bp):
TATCTATATTTA
Found at i:56445 original size:6 final size:6
Alignment explanation
Indices: 56424--56457 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
56414 TTATTATCTT
*
56424 TATTTA TATCTA TATTTA TATTTA T-TTTA TATTT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTT
56458 TACATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:56459 original size:18 final size:18
Alignment explanation
Indices: 56424--56457 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56414 TTATTATCTT
56424 TATTTATATCTATATTTA
1 TATTTATATCTATATTTA
*
56442 TATTTAT-TTTATATTT
1 TATTTATATCTATATTT
56458 TACATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTATATCTATATTTA
Found at i:59577 original size:2 final size:2
Alignment explanation
Indices: 59570--59618 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
59560 TATTTAGAAA
59570 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
59612 AG AG AG A
1 AG AG AG A
59619 AATCTAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:61771 original size:58 final size:58
Alignment explanation
Indices: 61681--61796 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
61671 CAAACATAAG
61681 CTACATGAATTTAGTTAATGTTGTAAAGCATTTACTATTTTGTTCTATGTGAAACAGC
1 CTACATGAATTTAGTTAATGTTGTAAAGCATTTACTATTTTGTTCTATGTGAAACAGC
61739 CTACATGAATTTAGTTAATGTTGTAAAGCATTTACTATTTTGTTCTATGTGAAACAGC
1 CTACATGAATTTAGTTAATGTTGTAAAGCATTTACTATTTTGTTCTATGTGAAACAGC
61797 ATGGTAGTTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (58 bp):
CTACATGAATTTAGTTAATGTTGTAAAGCATTTACTATTTTGTTCTATGTGAAACAGC
Found at i:61797 original size:29 final size:29
Alignment explanation
Indices: 61707--61798 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
61697 AATGTTGTAA
61707 AGCATTTACTATTTTGTTCTATGTGAAAC
1 AGCATTTACTATTTTGTTCTATGTGAAAC
* * * *
61736 AGC--CTACATGAATTTAGTT-AATGTTGTAA-
1 AGCATTTAC-T--ATTTTGTTCTATG-TGAAAC
61765 AGCATTTACTATTTTGTTCTATGTGAAAC
1 AGCATTTACTATTTTGTTCTATGTGAAAC
61794 AGCAT
1 AGCAT
61799 GGTAGTTCAT
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 3 0.06
28 12 0.26
29 17 0.36
30 12 0.26
31 3 0.06
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (29 bp):
AGCATTTACTATTTTGTTCTATGTGAAAC
Found at i:66649 original size:7 final size:7
Alignment explanation
Indices: 66637--66685 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
66627 TTAAGCCAAA
66637 AAAAAAG
1 AAAAAAG
66644 AAAAAA-
1 AAAAAAG
66650 AAAAAGAG
1 AAAAA-AG
*
66658 AGAAAAG
1 AAAAAAG
*
66665 AAAAAACA
1 AAAAAA-G
66673 AAAAAAG
1 AAAAAAG
66680 AAAAAA
1 AAAAAA
66686 AATTTATATG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 5 0.14
7 20 0.57
8 10 0.29
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:66661 original size:16 final size:15
Alignment explanation
Indices: 66634--66687 Score: 67
Period size: 15 Copynumber: 3.5 Consensus size: 15
66624 AGGTTAAGCC
66634 AAAAAAAAAGAAAA-
1 AAAAAAAAAGAAAAG
66648 AAAAAAAGAGAGAAAAG
1 AAAAAAA-A-AGAAAAG
66665 AAAAAACAAA-AAAAG
1 AAAAAA-AAAGAAAAG
66680 AAAAAAAA
1 AAAAAAAA
66688 TTTATATGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 9 0.25
15 12 0.33
16 7 0.19
17 7 0.19
18 1 0.03
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAG
Found at i:67081 original size:21 final size:22
Alignment explanation
Indices: 67044--67085 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
67034 TCATATTCAT
67044 TTTTTATATTATGTTTTAATTA
1 TTTTTATATTATGTTTTAATTA
67066 TTTTTATCA-TAT-TTTTAATT
1 TTTTTAT-ATTATGTTTTAATT
67086 TTCATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 10 0.53
23 1 0.05
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTATATTATGTTTTAATTA
Found at i:67430 original size:14 final size:14
Alignment explanation
Indices: 67420--67446 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
67410 TATATAATTA
67420 TTATTTAATAAAAT
1 TTATTTAATAAAAT
67434 TTATTTAATAAAA
1 TTATTTAATAAAA
67447 AAATTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTATTTAATAAAAT
Found at i:67947 original size:18 final size:18
Alignment explanation
Indices: 67924--67959 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
67914 TTATTATACA
*
67924 TAATTTATTAAAAAATTT
1 TAATTTAATAAAAAATTT
67942 TAATTTAATAAAAAATTT
1 TAATTTAATAAAAAATTT
67960 ATGTGTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATTTAATAAAAAATTT
Found at i:68032 original size:17 final size:17
Alignment explanation
Indices: 68010--68047 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
68000 TACTAATTAT
*
68010 AATTTTATTTAAT-TAAA
1 AATTTTA-TAAATATAAA
68027 AATTTTATAAATATAAA
1 AATTTTATAAATATAAA
68044 AATT
1 AATT
68048 CACTAGCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTTATAAATATAAA
Found at i:83367 original size:19 final size:18
Alignment explanation
Indices: 83340--83382 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
83330 GTGTAGATAT
83340 ATAT-AAAAATTAATACGTA
1 ATATGAAAAA-TAATA-GTA
*
83359 ATATGAAAAATAATATTA
1 ATATGAAAAATAATAGTA
83377 ATATGA
1 ATATGA
83383 CATGAATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 9 0.41
20 5 0.23
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (18 bp):
ATATGAAAAATAATAGTA
Found at i:83651 original size:25 final size:25
Alignment explanation
Indices: 83623--83671 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
83613 AATATTTTAA
83623 ATACGAAACAAATAACACAAAGACT
1 ATACGAAACAAATAACACAAAGACT
83648 ATACGAAACAAATAACACAAAGAC
1 ATACGAAACAAATAACACAAAGAC
83672 AAAGACATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.61, C:0.20, G:0.08, T:0.10
Consensus pattern (25 bp):
ATACGAAACAAATAACACAAAGACT
Found at i:83708 original size:21 final size:22
Alignment explanation
Indices: 83682--83738 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
83672 AAAGACATAA
*
83682 TTTTTTTTTCTTTTTCTTTC-T
1 TTTTTTTTTCTTTTTCATTCAT
**
83703 TTTTTTTTTCTCATTCATTCAT
1 TTTTTTTTTCTTTTTCATTCAT
*
83725 TCTTTTTTTCTTTT
1 TTTTTTTTTCTTTT
83739 CCCTCTTGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTTTTTCTTTTTCATTCAT
Found at i:84292 original size:3 final size:3
Alignment explanation
Indices: 84284--84328 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
84274 ATTAAAAATG
* *
84284 AAT AAT AAT AAT AA- AA- AAT AAT AAA AAT AAA AAT AA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
84329 TTATAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 6 0.17
3 30 0.83
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:84305 original size:16 final size:16
Alignment explanation
Indices: 84284--84327 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
84274 ATTAAAAATG
84284 AATAATAATAATAAAA
1 AATAATAATAATAAAA
*
84300 AATAATAAAAAT-AAA
1 AATAATAATAATAAAA
84315 AATAA-AATAATAA
1 AATAATAATAATAA
84328 TTTATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.20
15 9 0.36
16 11 0.44
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAATAATAATAAAA
Found at i:84401 original size:18 final size:18
Alignment explanation
Indices: 84365--84402 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
84355 TTTCATTGTA
*
84365 TTTTTTTATATTTTTTAT
1 TTTTTTTATATTTTATAT
84383 TTTTTTTA-ATATTTATAT
1 TTTTTTTATAT-TTTATAT
84401 TT
1 TT
84403 AAAATTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTTATATTTTATAT
Found at i:91565 original size:38 final size:38
Alignment explanation
Indices: 91517--91589 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
91507 GGAAGGGGTT
91517 GTTGTTGGTGGAAGCATTAGGTCTTTAAATTTGGTGGG
1 GTTGTTGGTGGAAGCATTAGGTCTTTAAATTTGGTGGG
91555 GTTGTTGGTGGAAGCATTAGGTCTTTAAATTTGGT
1 GTTGTTGGTGGAAGCATTAGGTCTTTAAATTTGGT
91590 AATTTGGTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.19, C:0.05, G:0.34, T:0.41
Consensus pattern (38 bp):
GTTGTTGGTGGAAGCATTAGGTCTTTAAATTTGGTGGG
Found at i:92029 original size:22 final size:22
Alignment explanation
Indices: 91998--92049 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
91988 TATAGGTTGG
*
91998 AAAATAAATATT-TAATATATTT
1 AAAATTAATATTAT-ATATATTT
*
92020 AAAATTAATATTATATATGTTT
1 AAAATTAATATTATATATATTT
92042 AAATATTA
1 AAA-ATTA
92050 TAAATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
AAAATTAATATTATATATATTT
Found at i:92114 original size:12 final size:12
Alignment explanation
Indices: 92090--92237 Score: 79
Period size: 12 Copynumber: 12.2 Consensus size: 12
92080 GTTAATCGTA
*
92090 TTTT-ATATTAT
1 TTTTAATATAAT
92101 TTTTAATATAAT
1 TTTTAATATAAT
* *
92113 TTTAAATATTAT
1 TTTTAATATAAT
92125 TTTTAAATATAAT
1 TTTT-AATATAAT
*
92138 TTATTGAA-ATATT
1 TT-TT-AATATAAT
* *
92151 TTTTATTTTAATTT
1 TTTTAATATAA--T
*
92165 TTTTAAAATAAT
1 TTTTAATATAAT
**
92177 TAATAAT-TAAT
1 TTTTAATATAAT
*
92188 TTTT-ATATTAT
1 TTTTAATATAAT
* *
92199 TTTGATTATAAT
1 TTTTAATATAAT
* * *
92211 TCTAAATATTAT
1 TTTTAATATAAT
92223 TTTTAAATATAAT
1 TTTT-AATATAAT
92236 TT
1 TT
92238 ATTGAAATAT
Statistics
Matches: 99, Mismatches: 29, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
10 2 0.02
11 17 0.17
12 43 0.43
13 24 0.24
14 13 0.13
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (12 bp):
TTTTAATATAAT
Found at i:92134 original size:25 final size:24
Alignment explanation
Indices: 92094--92237 Score: 100
Period size: 24 Copynumber: 5.9 Consensus size: 24
92084 ATCGTATTTT
92094 ATATTATTTTTAATATAATTTTAA
1 ATATTATTTTTAATATAATTTTAA
92118 ATATTATTTTTAAATATAATTTATTGAA
1 ATATTATTTTT-AATATAA-TT-TT-AA
* *
92146 ATATTTTTTATTTTAAT-T-TTTTTAA
1 ATA--TTAT-TTTTAATATAATTTTAA
* ** *
92171 A-ATAATTAATAAT-TAATTTT-T
1 ATATTATTTTTAATATAATTTTAA
* * *
92192 ATATTATTTTGATTATAATTCTAA
1 ATATTATTTTTAATATAATTTTAA
92216 ATATTATTTTTAAATATAATTT
1 ATATTATTTTT-AATATAATTT
92238 ATTGAAATAT
Statistics
Matches: 90, Mismatches: 18, Indels: 23
0.69 0.14 0.18
Matches are distributed among these distances:
21 7 0.08
22 13 0.14
23 6 0.07
24 22 0.24
25 18 0.20
26 4 0.04
27 4 0.04
28 5 0.06
29 1 0.01
30 6 0.07
31 4 0.04
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (24 bp):
ATATTATTTTTAATATAATTTTAA
Found at i:92199 original size:98 final size:101
Alignment explanation
Indices: 92090--92325 Score: 322
Period size: 98 Copynumber: 2.4 Consensus size: 101
92080 GTTAATCGTA
*
92090 TTTTATATTATTTTTAATATAATTTTAAATATTATTTTTAAATATAATTTATTGAAATATTTTTT
1 TTTTATATTATTTTTAATATAATTATAAATATTATTTTTAAATATAATTTATTGAAATATTTTTT
* * *
92155 ATTTTA-ATTTTTTTAAAATA-AT-TAATAATTAAT
66 ATTTTATAATTTATTAAAATATATAAAATAATTAAT
* * *
92188 TTTTATATTATTTTGATTATAATTCTAAATATTATTTTTAAATATAATTTATTGAAATATTTTTT
1 TTTTATATTATTTTTAATATAATTATAAATATTATTTTTAAATATAATTTATTGAAATATTTTTT
*
92253 ATTTTATAATTTATTAAAATATTATAAAAATAATTTAT
66 ATTTTATAATTTATTAAAATA-TAT-AAAATAATTAAT
*
92291 TTTTATA--ATTTTTAAT-TTATTAATAAATATTATTT
1 TTTTATATTATTTTTAATATAATT-ATAAATATTATTT
92326 ATTTAATTAA
Statistics
Matches: 121, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
98 68 0.56
99 12 0.10
100 4 0.03
101 21 0.17
103 16 0.13
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (101 bp):
TTTTATATTATTTTTAATATAATTATAAATATTATTTTTAAATATAATTTATTGAAATATTTTTT
ATTTTATAATTTATTAAAATATATAAAATAATTAAT
Found at i:92247 original size:15 final size:13
Alignment explanation
Indices: 92094--92247 Score: 71
Period size: 13 Copynumber: 12.3 Consensus size: 13
92084 ATCGTATTTT
*
92094 ATATTATTTTT-A
1 ATATAATTTTTAA
92106 ATATAA-TTTTAA
1 ATATAATTTTTAA
*
92118 ATATTATTTTTAA
1 ATATAATTTTTAA
92131 ATATAATTTATTGAA
1 ATATAATTT-TT-AA
92146 ATAT--TTTTT-A
1 ATATAATTTTTAA
* *
92156 TTTTAATTTTTTTAA
1 ATATAA--TTTTTAA
**
92171 A-ATAATTAAT-A
1 ATATAATTTTTAA
92182 AT-TAATTTTT--
1 ATATAATTTTTAA
* *
92192 ATATTA-TTTTGA
1 ATATAATTTTTAA
* *
92204 TTATAA-TTCTAA
1 ATATAATTTTTAA
*
92216 ATATTATTTTTAA
1 ATATAATTTTTAA
92229 ATATAATTTATTGAA
1 ATATAATTT-TT-AA
92244 ATAT
1 ATAT
92248 TTTTTATTTT
Statistics
Matches: 106, Mismatches: 20, Indels: 29
0.68 0.13 0.19
Matches are distributed among these distances:
10 9 0.08
11 14 0.13
12 28 0.26
13 30 0.28
14 12 0.11
15 13 0.12
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (13 bp):
ATATAATTTTTAA
Found at i:92253 original size:15 final size:14
Alignment explanation
Indices: 92213--92277 Score: 55
Period size: 15 Copynumber: 4.7 Consensus size: 14
92203 ATTATAATTC
92213 TAAATATTATTT-T
1 TAAATATTATTTAT
*
92226 TAAATATAATTTAT
1 TAAATATTATTTAT
*
92240 TGAAATATTTTTTAT
1 T-AAATATTATTTAT
* *
92255 T--TTATAATTTAT
1 TAAATATTATTTAT
92267 TAAAATATTAT
1 T-AAATATTAT
92278 AAAAATAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
12 9 0.23
13 11 0.28
14 2 0.05
15 17 0.44
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TAAATATTATTTAT
Found at i:92298 original size:37 final size:37
Alignment explanation
Indices: 92250--92329 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
92240 TGAAATATTT
92250 TTTA-TTTTATAATTTATTAAAATATT-ATAAAAATAA
1 TTTATTTTTATAATTT-TTAAAATATTAATAAAAATAA
** * *
92286 TTTATTTTTATAATTTTTAATTTATTAATAAATATTA
1 TTTATTTTTATAATTTTTAAAATATTAATAAAAATAA
92323 TTTATTT
1 TTTATTT
92330 AATTAAGGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 12 0.32
37 26 0.68
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (37 bp):
TTTATTTTTATAATTTTTAAAATATTAATAAAAATAA
Found at i:92588 original size:18 final size:18
Alignment explanation
Indices: 92567--92601 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
92557 TTATATATTT
92567 TTAT-TTTTATATAAAATA
1 TTATATTTT-TATAAAATA
92585 TTATATTTTTATAAAAT
1 TTATATTTTTATAAAAT
92602 TTTTTTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATATTTTTATAAAATA
Found at i:92945 original size:16 final size:17
Alignment explanation
Indices: 92914--92956 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
92904 TTTAATATTT
*
92914 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
92931 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
*
92946 ATAGAATTTAT
1 ATAAAATTTAT
92957 TTACAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 11 0.48
17 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:95589 original size:2 final size:2
Alignment explanation
Indices: 95584--95612 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
95574 TATGTGTGCG
95584 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 T
95613 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:95617 original size:2 final size:2
Alignment explanation
Indices: 95612--95637 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
95602 TCTCTCTCTC
95612 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
95638 GAAGTGTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:98865 original size:2 final size:2
Alignment explanation
Indices: 98858--98883 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
98848 GAAGCCTTAA
98858 AT 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
98884 TTTGATGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99949 original size:2 final size:2
Alignment explanation
Indices: 99942--99971 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
99932 ATATAGGTGG
99942 AT AT AT 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
99972 CTCTCTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108692 original size:52 final size:52
Alignment explanation
Indices: 108607--108731 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
108597 ATATGAAAAG
* *
108607 TTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
*
108659 TTGCCTGCATGTATTGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
108711 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
108732 AAGATCAATA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
Found at i:108746 original size:52 final size:52
Alignment explanation
Indices: 108607--108751 Score: 175
Period size: 52 Copynumber: 2.8 Consensus size: 52
108597 ATATGAAAAG
* *** * *
108607 TTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAATATATCGATACATCTGGGCAAAT
* *** *
108659 TTGCCTGCATGTATTGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAATATATCGATACATCTGGGCAAAT
108711 TTGCCTGCATGTATCGATACA-AAGATCAATATATCGATACA
1 TTGCCTGCATGTATCGATACATAAGAT-AATATATCGATACA
108752 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAATATATCGATACATCTGGGCAAAT
Found at i:108842 original size:33 final size:33
Alignment explanation
Indices: 108805--108871 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
108795 AGTAGCTTAA
108805 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
108838 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
108871 A
1 A
108872 AATCGTTGAA
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:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:108845 original size:13 final size:13
Alignment explanation
Indices: 108827--108851 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108817 CAAAAAAATA
108827 TGTATCGATACAT
1 TGTATCGATACAT
108840 TGTATCGATACA
1 TGTATCGATACA
108852 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:110521 original size:23 final size:23
Alignment explanation
Indices: 110492--110539 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
110482 GTTGAACTCA
*
110492 TTTTCTCTAAAATAGGTTAAGCT
1 TTTTCTCAAAAATAGGTTAAGCT
* *
110515 TTTTCTCAAAAATGGGTTGAGCT
1 TTTTCTCAAAAATAGGTTAAGCT
110538 TT
1 TT
110540 AGGATTGCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (23 bp):
TTTTCTCAAAAATAGGTTAAGCT
Found at i:112392 original size:9 final size:9
Alignment explanation
Indices: 112376--112409 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
112366 AAAATAGAGG
112376 GAAAAAAATA
1 GAAAAAAA-A
112386 GAAAAAAAA
1 GAAAAAAAA
112395 GAAAAAGAAA
1 GAAAAA-AAA
112405 GAAAA
1 GAAAA
112410 GAAGAAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:112409 original size:15 final size:15
Alignment explanation
Indices: 112376--112417 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
112366 AAAATAGAGG
*
112376 GAAAA-AAATAGAAA
1 GAAAAGAAAAAGAAA
*
112390 AAAAAGAAAAAGAAA
1 GAAAAGAAAAAGAAA
112405 GAAAAGAAGAAAG
1 GAAAAGAA-AAAG
112418 TTTTTATCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 4 0.17
15 15 0.65
16 4 0.17
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (15 bp):
GAAAAGAAAAAGAAA
Found at i:112691 original size:19 final size:18
Alignment explanation
Indices: 112645--112691 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
112635 GAAGTCATTG
112645 ATAA-TATTTTCATTAGA
1 ATAATTATTTTCATTAGA
*
112662 AT-ATCATTTTCATTAGAA
1 ATAATTATTTTCATTAG-A
112680 ATAATTATTTTC
1 ATAATTATTTTC
112692 GATGTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 1 0.04
17 13 0.52
18 3 0.12
19 8 0.32
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (18 bp):
ATAATTATTTTCATTAGA
Found at i:112981 original size:20 final size:20
Alignment explanation
Indices: 112956--112996 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
112946 TTTTATTAAA
* *
112956 TTTAATTATTTTATTAGTTT
1 TTTAATTATTGTATTAATTT
112976 TTTAATTATTGTATTAATTT
1 TTTAATTATTGTATTAATTT
112996 T
1 T
112997 ATTTGGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTAATTATTGTATTAATTT
Found at i:113226 original size:9 final size:9
Alignment explanation
Indices: 113212--113237 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
113202 AATCCACTTA
113212 TTTTCTTCT
1 TTTTCTTCT
113221 TTTTCTTCT
1 TTTTCTTCT
113230 TTTTCTTC
1 TTTTCTTC
113238 CATACAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTCTTCT
Found at i:115017 original size:25 final size:26
Alignment explanation
Indices: 114968--115019 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
114958 TGAGAAGTTT
*
114968 AAAAGTAGGGTTAGAGTATCCCCTCAA
1 AAAAATAGGGTTAGAGTAT-CCCTCAA
*
114995 AAAAATAGGGTTGGAGTAT-CCTCAA
1 AAAAATAGGGTTAGAGTATCCCTCAA
115020 TGAATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 6 0.26
27 17 0.74
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (26 bp):
AAAAATAGGGTTAGAGTATCCCTCAA
Found at i:117502 original size:20 final size:20
Alignment explanation
Indices: 117464--117502 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
117454 CATTTCAAGC
* * *
117464 ATGTATCGATACATTCACTT
1 ATGTATCAATAAATGCACTT
117484 ATGTATCAATAAATGCACT
1 ATGTATCAATAAATGCACT
117503 ATCATATCGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (20 bp):
ATGTATCAATAAATGCACTT
Found at i:118024 original size:34 final size:37
Alignment explanation
Indices: 117986--118098 Score: 99
Period size: 37 Copynumber: 3.2 Consensus size: 37
117976 TATTATGGTT
* * *
117986 AAAAATTTAAGATTAC-AG-AAATCT-ATGATTTTTC
1 AAAAATCTAAGATTACTAGAAAATCTAATGATTCTTA
* *
118020 AAAAATCTATGATTCCTAGAAAATCTAATGATTCTTA
1 AAAAATCTAAGATTACTAGAAAATCTAATGATTCTTA
** * * * *
118057 AAAAATCTGTGATTCCTAGAAAATTTAA-AATTCCTA
1 AAAAATCTAAGATTACTAGAAAATCTAATGATTCTTA
118093 AAAAAT
1 AAAAAT
118099 ATGGGATTCC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
34 13 0.19
35 2 0.03
36 18 0.27
37 34 0.51
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.35
Consensus pattern (37 bp):
AAAAATCTAAGATTACTAGAAAATCTAATGATTCTTA
Found at i:118050 original size:19 final size:18
Alignment explanation
Indices: 118004--118113 Score: 94
Period size: 18 Copynumber: 6.1 Consensus size: 18
117994 AAGATTACAG
** *
118004 AAATCTATGATTTTTCAA
1 AAATCTATGATTCCTAAA
*
118022 AAATCTATGATTCCTAGA
1 AAATCTATGATTCCTAAA
*
118040 AAATCTAATGATTCTTAAA
1 AAATCT-ATGATTCCTAAA
* *
118059 AAATCTGTGATTCCTAGA
1 AAATCTATGATTCCTAAA
* **
118077 AAATTTAAAATTCCTAAA
1 AAATCTATGATTCCTAAA
* **
118095 AAATATGGGATTCCTAAA
1 AAATCTATGATTCCTAAA
118113 A
1 A
118114 TCGATGATTT
Statistics
Matches: 73, Mismatches: 18, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
18 57 0.78
19 16 0.22
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.35
Consensus pattern (18 bp):
AAATCTATGATTCCTAAA
Found at i:118061 original size:37 final size:37
Alignment explanation
Indices: 118004--118098 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
117994 AAGATTACAG
* *
118004 AAATCT-ATGATTTTTCAAAAATCTATGATTCCTAGA
1 AAATCTAATGATTCTTAAAAAATCTATGATTCCTAGA
*
118040 AAATCTAATGATTCTTAAAAAATCTGTGATTCCTAGA
1 AAATCTAATGATTCTTAAAAAATCTATGATTCCTAGA
* * *
118077 AAATTTAA-AATTCCTAAAAAAT
1 AAATCTAATGATTCTTAAAAAAT
118099 ATGGGATTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 18 0.35
37 34 0.65
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (37 bp):
AAATCTAATGATTCTTAAAAAATCTATGATTCCTAGA
Found at i:118095 original size:36 final size:37
Alignment explanation
Indices: 118020--118110 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 37
118010 ATGATTTTTC
* * *
118020 AAAAATCTATGATTCCTAGAAAATCTAATGATTCTTA
1 AAAAATCTGTGATTCCTAGAAAATCTAATAATTCCTA
*
118057 AAAAATCTGTGATTCCTAGAAAATTTAA-AATTCCTA
1 AAAAATCTGTGATTCCTAGAAAATCTAATAATTCCTA
* *
118093 AAAAATATGGGATTCCTA
1 AAAAATCTGTGATTCCTA
118111 AAATCGATGA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 22 0.46
37 26 0.54
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (37 bp):
AAAAATCTGTGATTCCTAGAAAATCTAATAATTCCTA
Found at i:120856 original size:19 final size:18
Alignment explanation
Indices: 120810--120880 Score: 97
Period size: 18 Copynumber: 3.9 Consensus size: 18
120800 AAGATTATAG
120810 AAATCTATGATTTTTAAA
1 AAATCTATGATTTTTAAA
**
120828 AAATCTATGATTCCTAAA
1 AAATCTATGATTTTTAAA
120846 AAATCTAATGATTTTTAAA
1 AAATCT-ATGATTTTTAAA
* *
120865 AAATTTGTGATTTTTA
1 AAATCTATGATTTTTA
120881 GAATCTGTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
18 31 0.67
19 15 0.33
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (18 bp):
AAATCTATGATTTTTAAA
Found at i:134087 original size:26 final size:27
Alignment explanation
Indices: 134053--134110 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
134043 TTACGTCATA
* *
134053 ATTATATTTAAA-ATATTTTATATTTAT
1 ATTATATTTAAATATA-TTAATAATTAT
*
134080 ATTA-ATTTTAATATATTAATAATTAT
1 ATTATATTTAAATATATTAATAATTAT
134106 ATTAT
1 ATTAT
134111 GTAGATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATATTTAAATATATTAATAATTAT
Found at i:137092 original size:22 final size:20
Alignment explanation
Indices: 137044--137103 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
137034 TCTAAATACC
*
137044 AAAATAAAAATTATATAAAATT
1 AAAAT-AAAATTATA-AAAAAT
*
137066 CAAATATAAATTATAAAATAAT
1 AAAATA-AAATTATAAAA-AAT
137088 AAAATAAAATGTATAA
1 AAAATAAAAT-TATAA
137104 TACTTAACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAATAAAATTATAAAAAAT
Found at i:141802 original size:3 final size:3
Alignment explanation
Indices: 141790--141822 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
141780 CTCTGCCAAC
141790 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
141823 AACTCAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:142317 original size:16 final size:16
Alignment explanation
Indices: 142296--142339 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
142286 ACTTATAAAG
142296 CTTAAACCCGAAAGAA
1 CTTAAACCCGAAAGAA
142312 CTTAAACCCGAAAGAA
1 CTTAAACCCGAAAGAA
*
142328 CTTAAACTCGAA
1 CTTAAACCCGAA
142340 CCCGAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.48, C:0.25, G:0.11, T:0.16
Consensus pattern (16 bp):
CTTAAACCCGAAAGAA
Found at i:142341 original size:22 final size:22
Alignment explanation
Indices: 142316--142371 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
142306 AAAGAACTTA
142316 AACCCGAAAGAACTTAAACTCG
1 AACCCGAAAGAACTTAAACTCG
*
142338 AACCCGAAAGAACTTGAACTCG
1 AACCCGAAAGAACTTAAACTCG
*
142360 AACCTGAAAGAA
1 AACCCGAAAGAA
142372 TCTAAAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.46, C:0.25, G:0.16, T:0.12
Consensus pattern (22 bp):
AACCCGAAAGAACTTAAACTCG
Found at i:142606 original size:22 final size:22
Alignment explanation
Indices: 142581--142628 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
142571 ATATATAATG
142581 AAATAATAATTT-ATCAAAAAGT
1 AAAT-ATAATTTAATCAAAAAGT
* *
142603 AAATTTTATTTAATCAAAAAGT
1 AAATATAATTTAATCAAAAAGT
142625 AAAT
1 AAAT
142629 TTTATCATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (22 bp):
AAATATAATTTAATCAAAAAGT
Found at i:142629 original size:22 final size:21
Alignment explanation
Indices: 142589--142633 Score: 81
Period size: 22 Copynumber: 2.1 Consensus size: 21
142579 TGAAATAATA
142589 ATTTATCAAAAAGTAAATTTT
1 ATTTATCAAAAAGTAAATTTT
142610 ATTTAATCAAAAAGTAAATTTT
1 ATTT-ATCAAAAAGTAAATTTT
142632 AT
1 AT
142634 CATGAGCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (21 bp):
ATTTATCAAAAAGTAAATTTT
Found at i:143906 original size:15 final size:16
Alignment explanation
Indices: 143888--143920 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
143878 AAAATTATGA
143888 TTAAAAAATAAA-AAT
1 TTAAAAAATAAATAAT
143903 TTAAAAAATAAATAAT
1 TTAAAAAATAAATAAT
143919 TT
1 TT
143921 TATAATTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAAAAAATAAATAAT
Found at i:147617 original size:22 final size:23
Alignment explanation
Indices: 147587--147649 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
147577 ATATTTAATA
* * *
147587 AAATATAAACTTAAA-CCCATTT
1 AAATCTAAACTAAAAGCCCATCT
147609 AAATCTAAACTAAAAGCCCATCT
1 AAATCTAAACTAAAAGCCCATCT
*
147632 AAACCTAAACTAAAAGCC
1 AAATCTAAACTAAAAGCC
147650 TAATTAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 13 0.36
23 23 0.64
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.22
Consensus pattern (23 bp):
AAATCTAAACTAAAAGCCCATCT
Found at i:147657 original size:23 final size:22
Alignment explanation
Indices: 147592--147657 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
147582 TAATAAAATA
* * * *
147592 TAAACTTAAACCCATTTAAATC
1 TAAACTAAAAGCCAATTAAACC
*
147614 TAAACTAAAAGCCCATCTAAACC
1 TAAACTAAAAGCCAAT-TAAACC
147637 TAAACTAAAAGCCTAATTAAA
1 TAAACTAAAAGCC-AATTAAA
147658 AAAAAAGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
22 12 0.33
23 22 0.61
24 2 0.06
ACGTcount: A:0.50, C:0.23, G:0.03, T:0.24
Consensus pattern (22 bp):
TAAACTAAAAGCCAATTAAACC
Found at i:150600 original size:16 final size:16
Alignment explanation
Indices: 150570--150599 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
150560 GAATTTTGCA
150570 TTTTTGTTTGTTTTTG
1 TTTTTGTTTGTTTTTG
150586 TTTTTGTTT-TTTTT
1 TTTTTGTTTGTTTTT
150600 TCTTTAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (16 bp):
TTTTTGTTTGTTTTTG
Found at i:151387 original size:22 final size:23
Alignment explanation
Indices: 151346--151388 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
151336 CTGGTCCTGT
151346 TGCTTTCTCTTTTACATTGCTCG
1 TGCTTTCTCTTTTACATTGCTCG
*
151369 TGCTTTCT-TTTTACGTTGCT
1 TGCTTTCTCTTTTACATTGCT
151389 GCTGTTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.07, C:0.23, G:0.14, T:0.56
Consensus pattern (23 bp):
TGCTTTCTCTTTTACATTGCTCG
Found at i:152100 original size:19 final size:19
Alignment explanation
Indices: 152071--152113 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
152061 TTTCCATATG
152071 AATGC-ATGAAATGAAAGC
1 AATGCAATGAAATGAAAGC
*
152089 AATGCAATGAAATGAATGC
1 AATGCAATGAAATGAAAGC
152108 AATGCA
1 AATGCA
152114 TCAAATGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.49, C:0.12, G:0.21, T:0.19
Consensus pattern (19 bp):
AATGCAATGAAATGAAAGC
Found at i:152287 original size:43 final size:41
Alignment explanation
Indices: 152209--152290 Score: 110
Period size: 43 Copynumber: 2.0 Consensus size: 41
152199 CCAATTTCAT
* * * *
152209 GCATGAATGCATGCATTGCCACCTAATTGATTTAGGTGGTA
1 GCATGAATGCATGCAATGCCACCTAAGTCAATTAGGTGGTA
152250 GCATGCAATGCAATGCAATGCCACCTAAGTCAATTAGGTGG
1 GCATG-AATGC-ATGCAATGCCACCTAAGTCAATTAGGTGG
152291 CTACAAATCC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 5 0.14
42 5 0.14
43 25 0.71
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (41 bp):
GCATGAATGCATGCAATGCCACCTAAGTCAATTAGGTGGTA
Found at i:152362 original size:11 final size:10
Alignment explanation
Indices: 152335--152368 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
152325 TTAATTTGAT
152335 TTTTTTATTA
1 TTTTTTATTA
152345 TTTTTTATATA
1 TTTTTTAT-TA
152356 TTTTTTATT-
1 TTTTTTATTA
152365 TTTT
1 TTTT
152369 GATTTTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.17
10 9 0.39
11 10 0.43
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:153080 original size:42 final size:42
Alignment explanation
Indices: 152903--153767 Score: 624
Period size: 42 Copynumber: 20.5 Consensus size: 42
152893 AGTCTTCAAA
* *
152903 GTCAAAGCCGACAGGCAGGCTGAGGGTAGAAAAAGTCTCTAGG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAG-AAAAGTCTCCAGG
* * *
152946 GTCAAAGCCGACAAGCAGAATGAGGGAAG-AAAGTCTCCAGG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGG
* *
152987 GTCAAAACCGACAGGCAGACTTTAGATGAGGCT-GAAAAGTCTCTAGG
1 GTCAAAGCCGACAGGCAGAC--T-GA-G-GG-TAGAAAAGTCTCCAGG
* * *
153034 GTCAAAACCGACAAGCAGAC-GAGGGTGAGAAAAGTCTCCAGA
1 GTCAAAGCCGACAGGCAGACTGAGGGT-AGAAAAGTCTCCAGG
* * *** *
153076 GTCAAAGCCGATAGGCAGACTTAAAAT-GAGGAAGTCTCCAGG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGA-AAAGTCTCCAGG
* *
153118 GTCAAAGCCGACAGGCAGATTGAGGGT-GAAAAGTCTTCAGG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGG
*
153159 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCTAGG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGG
* * **
153201 GTCAAAGTCGACAGGCAGATTGAGGGTGAGAAAAGTCTCCAAA
1 GTCAAAGCCGACAGGCAGACTGAGGGT-AGAAAAGTCTCCAGG
* * *** **
153244 GTCAAAGCCGATAGGCAGACTTAAAAT-GAGGCAGTCTCCAGG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGA-AAAGTCTCCAGG
* * *
153286 GTCAAAGCTGACAGGCAGACTGAGGGTAGGAAAGCCTCCAGG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGG
** * *** ** *
153328 GTCAAAGCCGACAGGCAGGTTTAAAAT-GAGGTAGTCTCCAAG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGA-AAAGTCTCCAGG
* * ** * *
153370 GTCAAAGCCGACAGGCAAACTTAAAGT-GAAGTAGTCTCCAAG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAA-AAGTCTCCAGG
* * *
153412 GTCAAAGTCGACAGGCAGATTGAGGGTAAAAAAGTCTCCAGG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGG
* *
153454 GTCAAAGCCGACAGGCAAACTGAGGGTGAGAAAAGTCTCCAAG
1 GTCAAAGCCGACAGGCAGACTGAGGGT-AGAAAAGTCTCCAGG
* * * * * *** ** *
153497 GTGAAAACTGACAAGCAGACTTAAAATGAGGCAA-TCTCCAAG
1 GTCAAAGCCGACAGGCAGACTGAGGGT-AGAAAAGTCTCCAGG
* * *
153539 GTCAAAGCTGACAGGCAGACTGAGGGTAGGAAAGTCTCCAAG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGG
* * * *** ** *
153581 GTCAAAGTCGATAGGCAGACTTAAAAT-GAGGCAGTCTCTAGG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGA-AAAGTCTCCAGG
* * * ** *
153623 GTCAAAGCCGACAGACAAACT-AAGGTA-AAAAGTCTTTAAG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGG
* * * ** ** *
153663 GTCAAAGCCGACAAGCAAACTTAAAATGT-G-GCAGTCTCTAGG
1 GTCAAAGCCGACAGGCAGAC-T-GAGGGTAGAAAAGTCTCCAGG
* * *
153705 GTCAAAGCCGATAGGCAAACTAAGGGTAGAAAAGTCTCCAGG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGG
*
153747 GTCAAAGCCGATAGGCAGACT
1 GTCAAAGCCGACAGGCAGACT
153768 TTAGATGAAG
Statistics
Matches: 648, Mismatches: 146, Indels: 57
0.76 0.17 0.07
Matches are distributed among these distances:
40 31 0.05
41 84 0.13
42 392 0.60
43 105 0.16
44 2 0.00
45 1 0.00
46 3 0.00
47 30 0.05
ACGTcount: A:0.36, C:0.19, G:0.29, T:0.16
Consensus pattern (42 bp):
GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGG
Found at i:153480 original size:253 final size:253
Alignment explanation
Indices: 152883--153814 Score: 1063
Period size: 253 Copynumber: 3.7 Consensus size: 253
152873 GCATACCAAA
* *
152883 AAAGTGAAAAAGTCTTCAAAGTCAAAGCCGACAGGCAGGCTGAGGGTAGAAAAAGTCTCTAGGGT
1 AAAGTGAAAAAGTCTTCAAGGTCAAAGCCGACAGGCAGACTGAGGGTA-AAAAAGTCTCTAGGGT
* * * *
152948 CAAAGCCGACAAGCAGAA-TGAGGG-AAG-AAAGTCTCCAGGGTCAAAACCGACAGGCAGACTTT
65 CAAAGCCGACAGGCA-AACTGAGGGTGAGAAAAGTCTCCAAGGTCAAAACCGACAGGCAGACTTA
* * * * *
153010 AGATGAGGCTGAAAAGTCTCTAGGGTCAAAACCGACAAGCAGAC-GAGGGTGAGAAAAGTCTCCA
129 AAATGAGGC-----AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGT-AGGAAAGTCTCCA
* *
153074 GAGTCAAAGCCGATAGGCAGACTTAAAATGAGGAAGTCTCCAGGGTCAAAGCCGACAGGCAGA-T
188 GGGTCAAAGCCGATAGGCAGACTTAAAATGAGGAAGTCTCCAGGGTCAAAGCCGACAGGCAAACT
153138 T
253 T
** * *
153139 GAGGGTG-AAAAGTCTTCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCTAGGGT
1 -AAAGTGAAAAAGTCTTCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAAAAAAGTCTCTAGGGT
* * * * * *
153203 CAAAGTCGACAGGCAGATTGAGGGTGAGAAAAGTCTCCAAAGTCAAAGCCGATAGGCAGACTTAA
65 CAAAGCCGACAGGCAAACTGAGGGTGAGAAAAGTCTCCAAGGTCAAAACCGACAGGCAGACTTAA
* *
153268 AATGAGGCAGTCTCCAGGGTCAAAGCTGACAGGCAGACTGAGGGTAGGAAAGCCTCCAGGGTCAA
130 AATGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAAAGTCTCCAGGGTCAA
* ** * *
153333 AGCCGACAGGCAGGTTTAAAATGAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAAACTT
195 AGCCGATAGGCAGACTTAAAATGAGGAAGTCTCCAGGGTCAAAGCCGACAGGCAAACTT
** * * * *
153392 AAAGTGAAGTAGTCTCCAAGGTCAAAGTCGACAGGCAGATTGAGGGTAAAAAAGTCTCCAGGGTC
1 AAAGTGAAAAAGTCTTCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAAAAAAGTCTCTAGGGTC
* * *
153457 AAAGCCGACAGGCAAACTGAGGGTGAGAAAAGTCTCCAAGGTGAAAACTGACAAGCAGACTTAAA
66 AAAGCCGACAGGCAAACTGAGGGTGAGAAAAGTCTCCAAGGTCAAAACCGACAGGCAGACTTAAA
* * * *
153522 ATGAGGCAATCTCCAAGGTCAAAGCTGACAGGCAGACTGAGGGTAGGAAAGTCTCCAAGGTCAAA
131 ATGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAAAGTCTCCAGGGTCAAA
* * * *
153587 GTCGATAGGCAGACTTAAAATGAGGCAGTCTCTAGGGTCAAAGCCGACAGACAAAC-T
196 GCCGATAGGCAGACTTAAAATGAGGAAGTCTCCAGGGTCAAAGCCGACAGGCAAACTT
* * * * * *** *****
153644 AAGGT-AAAAAGTCTTTAAGGTCAAAGCCGACAAGCAAACTTAAAATGTGGCAGTCTCTAGGGTC
1 AAAGTGAAAAAGTCTTCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAAAAAAGTCTCTAGGGTC
* * * * * * *
153708 AAAGCCGATAGGCAAACTAAGGGT-AGAAAAGTCTCCAGGGTCAAAGCCGATAGGCAGACTTTAG
66 AAAGCCGACAGGCAAACTGAGGGTGAGAAAAGTCTCCAAGGTCAAAACCGACAGGCAGACTTAAA
* ** * * *
153772 ATGAAGCAGTCTGTAGGGTCAAAGCCGATAGGTAGAATGAGGG
131 ATGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGG
153815 CAAACAAAAA
Statistics
Matches: 571, Mismatches: 98, Indels: 19
0.83 0.14 0.03
Matches are distributed among these distances:
250 66 0.12
251 63 0.11
252 102 0.18
253 223 0.39
254 1 0.00
255 34 0.06
256 40 0.07
257 42 0.07
ACGTcount: A:0.36, C:0.19, G:0.29, T:0.16
Consensus pattern (253 bp):
AAAGTGAAAAAGTCTTCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAAAAAAGTCTCTAGGGTC
AAAGCCGACAGGCAAACTGAGGGTGAGAAAAGTCTCCAAGGTCAAAACCGACAGGCAGACTTAAA
ATGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAAAGTCTCCAGGGTCAAA
GCCGATAGGCAGACTTAAAATGAGGAAGTCTCCAGGGTCAAAGCCGACAGGCAAACTT
Found at i:153688 original size:36 final size:37
Alignment explanation
Indices: 153613--153688 Score: 84
Period size: 40 Copynumber: 2.0 Consensus size: 37
153603 AAAATGAGGC
*
153613 AGTCTCTAGGGTCAAAGCCGACAGACAAACTAAGGTAAAA
1 AGTCTCTAAGGTCAAAGCCGACAGACAAACT-A--TAAAA
*
153653 AGTCTTTAAGGTCAAAGCCGACA-AGCAAACT-TAAAA
1 AGTCTCTAAGGTCAAAGCCGACAGA-CAAACTATAAAA
153689 TGTGGCAGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
36 5 0.15
39 1 0.03
40 27 0.82
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (37 bp):
AGTCTCTAAGGTCAAAGCCGACAGACAAACTATAAAA
Found at i:154102 original size:22 final size:22
Alignment explanation
Indices: 154053--154102 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 22
154043 TGTTCATGAT
*
154053 TTGATTTGATTCTTTCTATGTC
1 TTGATTTGATTCTTTCTATGGC
154075 TT-ATTTG-TTCATTT-TCATGGC
1 TTGATTTGATTC-TTTCT-ATGGC
154096 TTGATTT
1 TTGATTT
154103 ACTCCACCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 4 0.17
21 14 0.58
22 6 0.25
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.60
Consensus pattern (22 bp):
TTGATTTGATTCTTTCTATGGC
Found at i:167410 original size:49 final size:49
Alignment explanation
Indices: 167354--167457 Score: 199
Period size: 49 Copynumber: 2.1 Consensus size: 49
167344 GGTTGCTGAG
*
167354 CTGCTGTTAGCTGCTGTGGAAGCTGTGGGAGCTGCTGGAAGTTACCAAA
1 CTGCTGTTAGCTGCTATGGAAGCTGTGGGAGCTGCTGGAAGTTACCAAA
167403 CTGCTGTTAGCTGCTATGGAAGCTGTGGGAGCTGCTGGAAGTTACCAAA
1 CTGCTGTTAGCTGCTATGGAAGCTGTGGGAGCTGCTGGAAGTTACCAAA
167452 CTGCTG
1 CTGCTG
167458 GAGGTTACGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 54 1.00
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.27
Consensus pattern (49 bp):
CTGCTGTTAGCTGCTATGGAAGCTGTGGGAGCTGCTGGAAGTTACCAAA
Found at i:167693 original size:22 final size:23
Alignment explanation
Indices: 167652--167694 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
167642 TTAGTCCCGT
167652 TGCTTTCTCTTTTACATTGCTCG
1 TGCTTTCTCTTTTACATTGCTCG
*
167675 TGCTTTCT-TTTTACGTTGCT
1 TGCTTTCTCTTTTACATTGCT
167695 GTTGTTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.07, C:0.23, G:0.14, T:0.56
Consensus pattern (23 bp):
TGCTTTCTCTTTTACATTGCTCG
Found at i:168400 original size:19 final size:19
Alignment explanation
Indices: 168371--168413 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
168361 TTTCCATATG
168371 AATGC-ATGAAATGAAAGC
1 AATGCAATGAAATGAAAGC
*
168389 AATGCAATGAAATGAATGC
1 AATGCAATGAAATGAAAGC
168408 AATGCA
1 AATGCA
168414 TCAAATGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.49, C:0.12, G:0.21, T:0.19
Consensus pattern (19 bp):
AATGCAATGAAATGAAAGC
Found at i:168686 original size:19 final size:21
Alignment explanation
Indices: 168638--168698 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 21
168628 CTCTTTTTAA
168638 TTTGATTTTTTATTATTATTTT
1 TTTGA-TTTTTATTATTATTTT
168660 TTAT-ATTTTT-TT-TTATTTT
1 TT-TGATTTTTATTATTATTTT
168679 TTTGATTTTTACTTATTATT
1 TTTGATTTTTA-TTATTATT
168699 ATATTTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
18 1 0.03
19 15 0.44
20 2 0.06
21 7 0.21
22 8 0.24
23 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (21 bp):
TTTGATTTTTATTATTATTTT
Found at i:170132 original size:37 final size:37
Alignment explanation
Indices: 170091--170167 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
170081 GTTTAAAATG
170091 AAAGCTTTT-AGTGTTACA-AATACCAAACTAAGAGTCA
1 AAAGCTTTTGA-TGTTA-AGAATACCAAACTAAGAGTCA
***
170128 AAAGCTTTTGATGTTAAGAATGTTAAACTAAGAGTCA
1 AAAGCTTTTGATGTTAAGAATACCAAACTAAGAGTCA
170165 AAA
1 AAA
170168 TTTTTAGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 1 0.03
37 33 0.94
38 1 0.03
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (37 bp):
AAAGCTTTTGATGTTAAGAATACCAAACTAAGAGTCA
Found at i:171616 original size:21 final size:21
Alignment explanation
Indices: 171590--171645 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
171580 AGCACCATTA
* *
171590 AGATGAAATGATGTATTTGTT
1 AGATGAAATGATGCAATTGTT
171611 AGATGAAAT-AGTGCAATTGTT
1 AGATGAAATGA-TGCAATTGTT
*
171632 AGATGAAAAGATGC
1 AGATGAAATGATGC
171646 TTCATTTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (21 bp):
AGATGAAATGATGCAATTGTT
Found at i:173583 original size:13 final size:13
Alignment explanation
Indices: 173565--173590 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
173555 GATAAGGATG
173565 ATTTTTAGAGATA
1 ATTTTTAGAGATA
173578 ATTTTTAGAGATA
1 ATTTTTAGAGATA
173591 TGGTTTTAAA
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:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
ATTTTTAGAGATA
Found at i:181689 original size:52 final size:52
Alignment explanation
Indices: 181607--181732 Score: 216
Period size: 52 Copynumber: 2.4 Consensus size: 52
181597 AATATGAAAT
*
181607 TTTGCCTGCATGTATCGATATATTAAATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTAAATAGTGTATCGATACATCTGGGCAAA
* **
181659 TTTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTAAATAGTGTATCGATACATCTGGGCAAA
181711 TTTGCCTGCATGTATCGATACA
1 TTTGCCTGCATGTATCGATACA
181733 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACATTAAATAGTGTATCGATACATCTGGGCAAA
Found at i:181743 original size:52 final size:51
Alignment explanation
Indices: 181607--181752 Score: 204
Period size: 52 Copynumber: 2.8 Consensus size: 51
181597 AATATGAAAT
*
181607 TTTGCCTGCATGTATCGATATATTAAATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACA-TAAATAGTGTATCGATACATCTGGGCAAA
* **
181659 TTTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACA-TAAATAGTGTATCGATACATCTGGGCAAA
*
181711 TTTGCCTGCATGTATCGATACA-AAGATCAGTGTATTGATACA
1 TTTGCCTGCATGTATCGATACATAA-AT-AGTGTATCGATACA
181753 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (51 bp):
TTTGCCTGCATGTATCGATACATAAATAGTGTATCGATACATCTGGGCAAA
Found at i:181832 original size:19 final size:18
Alignment explanation
Indices: 181808--181904 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 18
181798 TAGCTTAAAT
181808 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
181827 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
181840 TGTAT-GATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
181858 TATATCGATAC--A---A
1 TGTATCGATACAAACTTA
181871 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
181891 TGTATCGATACAAA
1 TGTATCGATACAAA
181905 TCGTTGAAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 28
0.67 0.02 0.30
Matches are distributed among these distances:
12 5 0.08
13 16 0.26
14 1 0.02
15 1 0.02
16 3 0.05
17 1 0.02
18 4 0.06
19 17 0.27
20 14 0.23
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:181857 original size:31 final size:32
Alignment explanation
Indices: 181806--181902 Score: 151
Period size: 31 Copynumber: 3.0 Consensus size: 32
181796 AGTAGCTTAA
*
181806 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
181838 ATTGTAT-GATACAACACTTATATATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
181869 AATGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
181902 A
1 A
181903 AATCGTTGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
31 28 0.47
32 17 0.29
33 14 0.24
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:186612 original size:16 final size:16
Alignment explanation
Indices: 186562--186638 Score: 64
Period size: 16 Copynumber: 4.8 Consensus size: 16
186552 TTTCAAAATT
*
186562 TTCGAGTCATTTTCGGG
1 TTCGGGTCA-TTTCGGG
** **
186579 TTTAGGTCATTTTTGG
1 TTCGGGTCATTTCGGG
186595 TTCGGGTCATTTCGGG
1 TTCGGGTCATTTCGGG
* **
186611 TTCGGATTGTTTCGGG
1 TTCGGGTCATTTCGGG
*
186627 TTCAGGTCATTT
1 TTCGGGTCATTT
186639 TGAATTTAGG
Statistics
Matches: 44, Mismatches: 16, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
16 38 0.86
17 6 0.14
ACGTcount: A:0.10, C:0.14, G:0.30, T:0.45
Consensus pattern (16 bp):
TTCGGGTCATTTCGGG
Done.