Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold355
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: 482196
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.32
Warning! 38188 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:2178 original size:14 final size:13
Alignment explanation
Indices: 2149--2174 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2139 ATTGTACCAC
2149 AATATAAAATTTT
1 AATATAAAATTTT
2162 AATATAAAATTTT
1 AATATAAAATTTT
2175 TAATTTTTTT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATATAAAATTTT
Found at i:2284 original size:10 final size:10
Alignment explanation
Indices: 2267--2339 Score: 58
Period size: 10 Copynumber: 7.3 Consensus size: 10
2257 AATTATCGCC
2267 TTTT-ATAAT
1 TTTTAATAAT
*
2276 TTCTAATAAAT
1 TTTTAAT-AAT
*
2287 TTTTTATAAT
1 TTTTAATAAT
* *
2297 TTTTTACAAT
1 TTTTAATAAT
* *
2307 ATTTAACAAT
1 TTTTAATAAT
* *
2317 TTCTAACAAT
1 TTTTAATAAT
2327 TTTTAATAAT
1 TTTTAATAAT
2337 TTT
1 TTT
2340 ATTATTTATT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
9 3 0.06
10 41 0.79
11 8 0.15
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:21830 original size:20 final size:22
Alignment explanation
Indices: 21787--21830 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
21777 TATTTGTAAC
* *
21787 ATTTATTTTATATAGTGTTTAA
1 ATTTATTATATATAGTGTTAAA
21809 ATTTATTAT-TATAGT-TTAAA
1 ATTTATTATATATAGTGTTAAA
21829 AT
1 AT
21831 GTAATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 6 0.30
22 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (22 bp):
ATTTATTATATATAGTGTTAAA
Found at i:34264 original size:6 final size:7
Alignment explanation
Indices: 34245--34269 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34235 AATTTAATTA
34245 TATTTTT
1 TATTTTT
34252 TATTTTT
1 TATTTTT
34259 TATTTTT
1 TATTTTT
34266 TATT
1 TATT
34270 GTATACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TATTTTT
Found at i:36275 original size:597 final size:598
Alignment explanation
Indices: 34908--36891 Score: 3290
Period size: 598 Copynumber: 3.3 Consensus size: 598
34898 AAAAGCATAT
* * *** * * * * *
34908 TTTTTAAGGTTGTTGCATTTGCCCATGCCAAATGGAATCTTCCCAGATAATTCATTCCTACT-CA
1 TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTA-TGCA
* *
34972 GGTAAAGCACTTCAAGCTTGGGAAGATGTTGACAAATATCATTAGGCAAACTACCTGATAGGCTA
65 AGTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTA
* * *
35037 TTGCTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCAAAGTTGGAATTTGACCTAT
130 TTGCTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTTGGAATCTGACCTGT
* *
35102 AAGGCCTTTAATTGCTTGAATATTAAGCAGTTCCAAACCAAGAAGATTACCAATTTCCTCAGGAA
195 AAGGCCTTTAATTGCTTGAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCATCAGGAA
* * * * *
35167 TTTGACCTGTACACATGGTCGAAAAATCAAGGTGTCAAACTACTTATTTTGTAAGCATAACTCAA
260 TTTGACCTGCACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAGTCAA
*
35232 AGAGGTTTTCTTTTCTGTTCTACAGTAATTTGGAGATGTTAGATTTTAATATATTTTAGCATATG
325 AGAGGTTTTCTTTTCTGTTCTACAGTAATTTGGAGATGTTAGATTTTAATATATTTCAGCATATG
* *
35297 TTTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTATCTATTACAAATCAAGCTATTTTATA
390 TTTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTATA
* ** * *
35362 AAAAAAAATACTTTGAATTCAAGAAATCAAGAAAATTGATTACCTTCTAGATTATTAAATCCCAA
455 AAAAAAAGTACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAA
** *
35427 ATATAATTCTCCGAGTTGTGTCAGATTTCCGAA-ACTTCTTGGAATGATCCCCGTCAATTGATTC
520 ATATAATTCTTTGAGTTGTGTCAGATTGCC-AATACTTCTTGGAATGATCCCCGTCAATTGATTC
35491 AAGGACAAGGACAAA
584 AAGGACAAGGACAAA
* *
35506 TTTTTCAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCGATGCAA
1 TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTATGCAA
* *
35571 GTAAAGCACTTCAAGCTTGGGAAGATGTCGACATATATCATTAGGCAAACTACCTGATAGGCTAT
66 GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
*
35636 TGTTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTTGGAATCTGACCTGTA
131 TGCTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTTGGAATCTGACCTGTA
35701 AGGCCTTTAATTGCTTGAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCATCAGGAAT
196 AGGCCTTTAATTGCTTGAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCATCAGGAAT
35766 TTGACCTGCACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAGTCAAA
261 TTGACCTGCACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAGTCAAA
* * *
35831 GAGGTTTTCTTTTCTATTCTATAGTAATTTGGAGATGTTAGATTTTTATATATTTCAGCATATGT
326 GAGGTTTTCTTTTCTGTTCTACAGTAATTTGGAGATGTTAGATTTTAATATATTTCAGCATATGT
*
35896 TTTTCATCAAATGAAATAAAAACTTTTTCGTTTTGTTATCTATTACAAATCAAACTCTTTTAT-A
391 TTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTATAA
35960 AAAAAAGTACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAA
456 AAAAAAGTACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAA
*
36025 TATAATTCTTTGAGTTGTGTCAGATTGCTAATACTTCTTGGAATGATCCCCGTCAATTGATTCAA
521 TATAATTCTTTGAGTTGTGTCAGATTGCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAA
*
36090 AGACAAGGACAAA
586 GGACAAGGACAAA
* *
36103 TTTTTAAGGTTGCTGCATTTGCCCATACTTGATGGAATGTTACCAGATAACTCATTACTATGCAA
1 TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTATGCAA
*
36168 GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGTAAACTACCTGATAGGCTAT
66 GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
*
36233 TGTTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTTGGAATCTGACCTGTA
131 TGCTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTTGGAATCTGACCTGTA
*
36298 AGGCCTTTAATTGCTTGAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCATTAGGAAT
196 AGGCCTTTAATTGCTTGAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCATCAGGAAT
* *
36363 TTGACCTGCACATATAGTCGAAAAATCAAGGTGTCAAACTACCTAATTTGTTAGCATAAGTCAAA
261 TTGACCTGCACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAGTCAAA
* * * * * *
36428 AAGGTTTTCTATTCTGTTCTACAGTAATTTGGAGATGGTAGACTTTCATATATTTCAGCTTATGT
326 GAGGTTTTCTTTTCTGTTCTACAGTAATTTGGAGATGTTAGATTTTAATATATTTCAGCATATGT
36493 TTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTATAA
391 TTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTATAA
*
36558 AAAAAAGTACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTATAGATTATTAAACCCCAAA
456 AAAAAAGTACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAA
36623 TATAATTCTTTGAGTTGTGTCAGATTGCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAA
521 TATAATTCTTTGAGTTGTGTCAGATTGCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAA
36688 GGACAAGGACAAA
586 GGACAAGGACAAA
*
36701 TTTTTAAGGTTGCTACATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTATGCAA
1 TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTATGCAA
*
36766 GTAAAGAACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
66 GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
** ** * * * * * * *
36831 TGCTGGAGAGAATAATAATATTCAGAGAAGATATCTTGAAAATGGAAGATGGAACCTGACC
131 TGCTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTTGGAATCTGACC
36892 AGATAATTGA
Statistics
Matches: 1301, Mismatches: 82, Indels: 6
0.94 0.06 0.00
Matches are distributed among these distances:
596 2 0.00
597 566 0.44
598 733 0.56
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (598 bp):
TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTATGCAA
GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
TGCTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTTGGAATCTGACCTGTA
AGGCCTTTAATTGCTTGAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCATCAGGAAT
TTGACCTGCACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAGTCAAA
GAGGTTTTCTTTTCTGTTCTACAGTAATTTGGAGATGTTAGATTTTAATATATTTCAGCATATGT
TTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTATAA
AAAAAAGTACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAA
TATAATTCTTTGAGTTGTGTCAGATTGCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAA
GGACAAGGACAAA
Found at i:38036 original size:28 final size:29
Alignment explanation
Indices: 38003--38068 Score: 116
Period size: 28 Copynumber: 2.3 Consensus size: 29
37993 TGAATCTAAA
38003 ATTTTATAGAAATAAAAGAGACTAACAG-
1 ATTTTATAGAAATAAAAGAGACTAACAGC
38031 ATTTTATAGAAATAAAAGAGACTAACAGC
1 ATTTTATAGAAATAAAAGAGACTAACAGC
38060 ATATTTATA
1 AT-TTTATA
38069 ACTTTGAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 28 0.78
29 2 0.06
30 6 0.17
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.29
Consensus pattern (29 bp):
ATTTTATAGAAATAAAAGAGACTAACAGC
Found at i:40642 original size:29 final size:29
Alignment explanation
Indices: 40588--40643 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
40578 TTATTATAGG
*
40588 AAATGTATTAAATTAGTCTCTTTATTATT
1 AAATGTATTAAATTAATCTCTTTATTATT
**
40617 AAATGTATTATTTTAATCT-TTGTATTA
1 AAATGTATTAAATTAATCTCTT-TATTA
40644 GATATAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (29 bp):
AAATGTATTAAATTAATCTCTTTATTATT
Found at i:43019 original size:20 final size:20
Alignment explanation
Indices: 42982--43019 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42972 TAGGAAATAG
*
42982 ATTAAATGAGTTTATTTATT
1 ATTAAATGAGTATATTTATT
43002 ATTAAATGTAGTAT-TTTA
1 ATTAAATG-AGTATATTTA
43020 GTCTTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (20 bp):
ATTAAATGAGTATATTTATT
Found at i:45036 original size:13 final size:13
Alignment explanation
Indices: 45004--45036 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
44994 AATTATACGC
*
45004 CAAATTTTCAAGT
1 CAAATTTTCAAAT
45017 C-AATTTTCAAAT
1 CAAATTTTCAAAT
45029 CAAATTTT
1 CAAATTTT
45037 GTATGTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.42
Consensus pattern (13 bp):
CAAATTTTCAAAT
Found at i:45271 original size:4 final size:4
Alignment explanation
Indices: 45262--45286 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
45252 CATCCATTGG
45262 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
45287 GCATGTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:49901 original size:1 final size:1
Alignment explanation
Indices: 49895--49993 Score: 72
Period size: 1 Copynumber: 99.0 Consensus size: 1
49885 TATTATGCTT
* * * * * * * * * *
49895 AAAAAAAACAAAAAAAATAGAAAAAAAACAAAACAAAAAACAAAAAAAAACAGACAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
49960 ACAAAAAAACAAAAAAACAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
49994 TCAAGATGAA
Statistics
Matches: 70, Mismatches: 28, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:49909 original size:8 final size:8
Alignment explanation
Indices: 49896--49984 Score: 94
Period size: 8 Copynumber: 10.9 Consensus size: 8
49886 ATTATGCTTA
49896 AAAAAAAC
1 AAAAAAAC
49904 AAAAAAA-
1 AAAAAAAC
49911 ATAGAAAAA-
1 A-A-AAAAAC
49920 AAACAAAAC
1 AAA-AAAAC
*
49929 AAAAAACAA
1 AAAAAA-AC
49938 AAAAAAAC
1 AAAAAAAC
*
49946 AGACAAAAC
1 A-AAAAAAC
49955 -AAAAAAC
1 AAAAAAAC
49962 AAAAAAAC
1 AAAAAAAC
49970 AAAAAAAC
1 AAAAAAAC
49978 AAAAAAA
1 AAAAAAA
49985 AAGAAAAAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
7 8 0.11
8 40 0.57
9 22 0.31
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.01
Consensus pattern (8 bp):
AAAAAAAC
Found at i:49933 original size:33 final size:33
Alignment explanation
Indices: 49896--49993 Score: 112
Period size: 33 Copynumber: 3.0 Consensus size: 33
49886 ATTATGCTTA
*
49896 AAAAAAACAAAAAAAATAGA-AAAAAAACAAAAC
1 AAAAAAACAAAAAAAACAGACAAAAAAA-AAAAC
*
49929 -AAAAAACAAAAAAAAACAGACAAAACAAAAAAC
1 AAAAAAAC-AAAAAAAACAGACAAAAAAAAAAAC
* *
49962 AAAAAAAC-AAAAAAACAAAAAAAAAGAAAAAA
1 AAAAAAACAAAAAAAACAGACAAAAA-AAAAAA
49994 TCAAGATGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
32 21 0.38
33 22 0.39
34 13 0.23
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.01
Consensus pattern (33 bp):
AAAAAAACAAAAAAAACAGACAAAAAAAAAAAC
Found at i:49934 original size:26 final size:22
Alignment explanation
Indices: 49895--49993 Score: 108
Period size: 26 Copynumber: 4.1 Consensus size: 22
49885 TATTATGCTT
49895 AAAAAAAACAAAAAAAATAGAAAA
1 AAAAAAAACAAAAAAAA-A-AAAA
49919 AAAACAAAACAAAAAACAAAAAAA
1 AAAA-AAAACAAAAAA-AAAAAAA
49943 AACAGACAAAACAAAAAACAAAAAAA
1 AA-A-A-AAAACAAAAAA-AAAAAAA
* *
49969 CAAAAAAACAAAAAAAAAGAAA
1 AAAAAAAACAAAAAAAAAAAAA
49991 AAA
1 AAA
49994 TCAAGATGAA
Statistics
Matches: 68, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.12
23 11 0.16
24 11 0.16
25 14 0.21
26 24 0.35
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.01
Consensus pattern (22 bp):
AAAAAAAACAAAAAAAAAAAAA
Found at i:49975 original size:42 final size:42
Alignment explanation
Indices: 49895--49993 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
49885 TATTATGCTT
*
49895 AAAAAAAACAAAAAAAATAGAAAAAAAACAAAACAAAAAACA
1 AAAAAAAACAAAAAAAACAGAAAAAAAACAAAACAAAAAACA
* *
49937 AAAAAAAACAGACAAAACA-AAAAACAAA-AAAACAAAAAAACA
1 AAAAAAAACAAAAAAAACAGAAAAA-AAACAAAAC-AAAAAACA
*
49979 AAAAAAAAGAAAAAA
1 AAAAAAAACAAAAAA
49994 TCAAGATGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 10 0.20
42 39 0.80
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.01
Consensus pattern (42 bp):
AAAAAAAACAAAAAAAACAGAAAAAAAACAAAACAAAAAACA
Found at i:50970 original size:76 final size:76
Alignment explanation
Indices: 50846--51579 Score: 1090
Period size: 76 Copynumber: 9.5 Consensus size: 76
50836 CAAGAAATAT
50846 TTTTTAAAATTT-TGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGG
1 TTTTT-AAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC-GGG
50910 T-ACGCTGAGGTA
64 TCACGCTGAGGTA
*
50922 TTTTTAAATTTCTGCTTTTTTCAAAAAATCAAGTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
50987 ACGCTGAGGTA
66 ACGCTGAGGTA
* *
50998 TTTTTTTAAATTTCTGTTTTTTTCAAAAAATCAAGTCATAATACAGAGGTGAGTTGAGCCTCGGG
1 --TTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
51063 TCACGCTGAGGTA
64 TCACGCTGAGGTA
51076 TTTTTAAATTTCTGCTTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
1 TTTTTAAATTTCTGC--TTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
*
51141 TTACGCTGAGGTA
64 TCACGCTGAGGTA
51154 TTTTTTTAAATTTCTGCTTTTTT-AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
1 --TTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
51218 TCACGCTGAGGTA
64 TCACGCTGAGGTA
* *
51231 TTTTTAAATTTCT-ATGTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGGTGAGCCTCGGGT
1 TTTTTAAATTTCTGCT-TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGT
51295 CACGCTGAGGTA
65 CACGCTGAGGTA
* *
51307 TTTTT-AATTTATGTCTTTTTTTAAAAAA--AACTCATAATACAGAGGTGAGTTGAGCCTCGGGT
1 TTTTTAAATTTCTG-CTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGT
*
51369 CACGATGAGGTA
65 CACGCTGAGGTA
* *
51381 TTTTTAAATTTCTACTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGGTGAGCCTCGGGTC
1 TTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
51446 ACGCTGAGGTA
66 ACGCTGAGGTA
* * * *
51457 TTTTT-AATTTATGTCTTTTTTTAAAAAAAAATCAACTCATAATATAGAGATGAGTTGAGCCTCG
1 TTTTTAAATTTCTG-C-TTTTTT--CAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
51521 GGTCACGCTGAGGTA
62 GGTCACGCTGAGGTA
* *
51536 TTTTT-AATTTATGTCTTTTTTTAAAAAAAAATCAACTCATAATA
1 TTTTTAAATTTCTG-C-TTTTTT--CAAAAAATCAACTCATAATA
51580 NNNNNNNNNN
Statistics
Matches: 615, Mismatches: 24, Indels: 35
0.91 0.04 0.05
Matches are distributed among these distances:
74 63 0.10
75 46 0.07
76 196 0.32
77 60 0.10
78 140 0.23
79 95 0.15
80 15 0.02
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (76 bp):
TTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
ACGCTGAGGTA
Found at i:51222 original size:155 final size:155
Alignment explanation
Indices: 50843--51579 Score: 1099
Period size: 150 Copynumber: 4.8 Consensus size: 155
50833 TTTCAAGAAA
* *
50843 TATTTTTTAAAATTT-TGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTTTAAATTTATGCTTTTTTAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC-
*
50907 GGGT-ACGCTGAGGTATTTTTAAATTTCTGC-TTTTTTCAAAAAATCAAGTCATAATACAGAGGT
65 GGGTCACGCTGAGGTATTTTTAAATTTCTGCTTTTTTTCAAAAAATCAACTCATAATACAGAGGT
*
50970 GAGTTGAGCCTCGGGTCACGCTGAGG
130 GAGGTGAGCCTCGGGTCACGCTGAGG
* * * *
50996 TATTTTTTTAAATTTCTGTTTTTTTCAAAAAATCAAGTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTTTAAATTTATGCTTTTTTAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
51061 GGTCACGCTGAGGTATTTTTAAATTTCTGCTTTTTTTTCAAAAAATCAACTCATAATACAGAGGT
66 GGTCACGCTGAGGTATTTTTAAATTTCTGC-TTTTTTTCAAAAAATCAACTCATAATACAGAGGT
* *
51126 GAGTTGAGCCTCGGGTTACGCTGAGG
130 GAGGTGAGCCTCGGGTCACGCTGAGG
*
51152 TATTTTTTTAAATTTCTGCTTTTTT-AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTTTAAATTTATGCTTTTTTAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
* *
51216 GGTCACGCTGAGGTATTTTTAAATTTCT-ATGTTTTTCAAAAAATCAACTCATAATACAGAGGTG
66 GGTCACGCTGAGGTATTTTTAAATTTCTGCTTTTTTTCAAAAAATCAACTCATAATACAGAGGTG
51280 AGGTGAGCCTCGGGTCACGCTGAGG
131 AGGTGAGCCTCGGGTCACGCTGAGG
*
51305 TA--TTTTT-AATTTATGTCTTTTTTTAAAAAA--AACTCATAATACAGAGGTGAGTTGAGCCTC
1 TATTTTTTTAAATTTATG-CTTTTTTAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
* *
51365 GGGTCACGATGAGGTATTTTTAAATTTCTAC-TTTTTTCAAAAAATCAACTCATAATACAGAGGT
65 GGGTCACGCTGAGGTATTTTTAAATTTCTGCTTTTTTTCAAAAAATCAACTCATAATACAGAGGT
51429 GAGGTGAGCCTCGGGTCACGCTGAGG
130 GAGGTGAGCCTCGGGTCACGCTGAGG
* *
51455 TA--TTTTT-AATTTATGTCTTTTTTTAAAAAAAAATCAACTCATAATATAGAGATGAGTTGAGC
1 TATTTTTTTAAATTTATG-C-TTTTTT--AAAAAAATCAACTCATAATACAGAGGTGAGTTGAGC
* *
51517 CTCGGGTCACGCTGAGGTATTTTT-AATTTATGTCTTTTTTTAAAAAAAAATCAACTCATAATA
62 CTCGGGTCACGCTGAGGTATTTTTAAATTTCTG-CTTTTTTT--CAAAAAATCAACTCATAATA
51580 NNNNNNNNNN
Statistics
Matches: 546, Mismatches: 22, Indels: 27
0.92 0.04 0.05
Matches are distributed among these distances:
150 140 0.26
151 18 0.03
152 6 0.01
153 83 0.15
154 78 0.14
155 115 0.21
156 87 0.16
158 19 0.03
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (155 bp):
TATTTTTTTAAATTTATGCTTTTTTAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
GGTCACGCTGAGGTATTTTTAAATTTCTGCTTTTTTTCAAAAAATCAACTCATAATACAGAGGTG
AGGTGAGCCTCGGGTCACGCTGAGG
Found at i:52057 original size:30 final size:30
Alignment explanation
Indices: 52016--52160 Score: 161
Period size: 30 Copynumber: 4.9 Consensus size: 30
52006 AAAATTTTAA
* * **
52016 AAAATTGCATTTTGACCCCTGTACTTTCTC
1 AAAATTACATTTCGACCCCTAAACTTTCTC
*
52046 AAAATTACATTTCAACCCCTAAACTTT-T-
1 AAAATTACATTTCGACCCCTAAACTTTCTC
*
52074 ATAAATTAC-TTTTGACCCCTAAACTTTCTC
1 A-AAATTACATTTCGACCCCTAAACTTTCTC
52104 AAAATTACATTTCGACCCCTAAACTTTCTC
1 AAAATTACATTTCGACCCCTAAACTTTCTC
* ** * *
52134 TAAATTATGTTTCGGCCCCAAAACTTT
1 AAAATTACATTTCGACCCCTAAACTTT
52161 TGCTGTATTT
Statistics
Matches: 98, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
28 17 0.17
29 16 0.16
30 65 0.66
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTCGACCCCTAAACTTTCTC
Found at i:52115 original size:58 final size:59
Alignment explanation
Indices: 52025--52140 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 59
52015 AAAAATTGCA
**
52025 TTTTGACCCCTGTACTTTCTCAAAATTACATTTCAACCCCTAAACTTT-TATAAATTAC
1 TTTTGACCCCTAAACTTTCTCAAAATTACATTTCAACCCCTAAACTTTCTATAAATTAC
* *
52083 TTTTGACCCCTAAACTTTCTCAAAATTACATTTCGACCCCTAAACTTTCTCTAAATTA
1 TTTTGACCCCTAAACTTTCTCAAAATTACATTTCAACCCCTAAACTTTCTATAAATTA
52141 TGTTTCGGCC
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 45 0.85
59 8 0.15
ACGTcount: A:0.31, C:0.27, G:0.03, T:0.39
Consensus pattern (59 bp):
TTTTGACCCCTAAACTTTCTCAAAATTACATTTCAACCCCTAAACTTTCTATAAATTAC
Found at i:52689 original size:10 final size:10
Alignment explanation
Indices: 52663--52701 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
52653 GAGAAGAAAA
* *
52663 AAAGAAAAAA
1 AAAGAAGAAG
52673 AAAGAAGAAG
1 AAAGAAGAAG
52683 AAAGAAGAAG
1 AAAGAAGAAG
*
52693 GAAGAAGAA
1 AAAGAAGAA
52702 AGGGGGGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAG
Found at i:52725 original size:13 final size:13
Alignment explanation
Indices: 52709--52751 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
52699 GAAAGGGGGG
52709 AAAGAAAAAGAAA
1 AAAGAAAAAGAAA
52722 AAAGAAAAAAGAAA
1 AAAG-AAAAAGAAA
*
52736 AAAGAAAAATAAA
1 AAAGAAAAAGAAA
52749 AAA
1 AAA
52752 ATAATTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:52750 original size:14 final size:13
Alignment explanation
Indices: 52709--52752 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
52699 GAAAGGGGGG
*
52709 AAAGAAAAAGAAA
1 AAAGAAAAAAAAA
52722 AAAGAAAAAAGAAA
1 AAAGAAAAAA-AAA
52736 AAAGAAAAATAAAA
1 AAAGAAAAA-AAAA
52750 AAA
1 AAA
52753 TAATTAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 9 0.32
14 18 0.64
15 1 0.04
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.02
Consensus pattern (13 bp):
AAAGAAAAAAAAA
Found at i:52751 original size:7 final size:7
Alignment explanation
Indices: 52709--52744 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
52699 GAAAGGGGGG
52709 AAAG-AA
1 AAAGAAA
52715 AAAGAAA
1 AAAGAAA
52722 AAAGAAA
1 AAAGAAA
52729 AAAGAAA
1 AAAGAAA
52736 AAAGAAA
1 AAAGAAA
52743 AA
1 AA
52745 TAAAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:52821 original size:18 final size:18
Alignment explanation
Indices: 52807--52841 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52797 CCCGACCCGG
*
52807 AACAGCCAGCAGACCCAC
1 AACACCCAGCAGACCCAC
*
52825 AACACCCAGCAGGCCCA
1 AACACCCAGCAGACCCA
52842 GCAGATTAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.46, G:0.17, T:0.00
Consensus pattern (18 bp):
AACACCCAGCAGACCCAC
Found at i:53042 original size:7 final size:7
Alignment explanation
Indices: 53030--53081 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
53020 CAACCTGAAA
53030 AAAAAAG
1 AAAAAAG
53037 AAAAAAG
1 AAAAAAG
53044 --AAAAG
1 AAAAAAG
53049 -AAAAAG
1 AAAAAAG
53055 AAAAAAG
1 AAAAAAG
*
53062 AGAAAAG
1 AAAAAAG
*
53069 -AAAGAG
1 AAAAAAG
53075 AAAAAAG
1 AAAAAAG
53082 GGAAAAGGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
5 5 0.13
6 9 0.24
7 24 0.63
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:53052 original size:11 final size:11
Alignment explanation
Indices: 53026--53078 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
53016 GGCCCAACCT
53026 GAAAAA-AAAA
1 GAAAAAGAAAA
53036 GAAAAAAGAAAA
1 G-AAAAAGAAAA
53048 GAAAAAG-AAA
1 GAAAAAGAAAA
*
53058 -AAAGAGAAAA
1 GAAAAAGAAAA
*
53068 GAAAGAGAAAA
1 GAAAAAGAAAA
53079 AAGGGAAAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 21 0.55
12 5 0.13
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:53081 original size:20 final size:20
Alignment explanation
Indices: 53026--53088 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
53016 GGCCCAACCT
53026 GAAAA-AAAAAG-AAAAA-A
1 GAAAAGAAAAAGAAAAAAGA
53043 GAAAAGAAAAAGAAAAAAGA
1 GAAAAGAAAAAGAAAAAAGA
* *
53063 GAAAAGAAAGAGAAAAAAGG
1 GAAAAGAAAAAGAAAAAAGA
53083 GAAAAG
1 GAAAAG
53089 GCCCAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.12
18 6 0.15
19 5 0.12
20 25 0.61
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (20 bp):
GAAAAGAAAAAGAAAAAAGA
Found at i:53211 original size:18 final size:20
Alignment explanation
Indices: 53190--53228 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
53180 TATTATTGCA
53190 TATTTT-TAATTAT-TTTTT
1 TATTTTGTAATTATGTTTTT
*
53208 TATTTTGTATTTATGTTTTT
1 TATTTTGTAATTATGTTTTT
53228 T
1 T
53229 TAAATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 6 0.33
20 6 0.33
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (20 bp):
TATTTTGTAATTATGTTTTT
Found at i:53597 original size:17 final size:17
Alignment explanation
Indices: 53577--53715 Score: 75
Period size: 18 Copynumber: 7.8 Consensus size: 17
53567 AAACTAATCG
53577 TGTTTCAAAAATTTTCA
1 TGTTTCAAAAATTTTCA
** *
53594 TGTTTCCAAAAAATTCCCG
1 TGTTT-C-AAAAATTTTCA
* *
53613 TGTTTTAAAAATTTCCTTA
1 TGTTTCAAAAATTT--TCA
*
53632 T-TTTCAAAAATTTTCG
1 TGTTTCAAAAATTTTCA
**
53648 TGTTTCAAAAAAATCCTCA
1 TGTTTC--AAAAATTTTCA
*
53667 TGCTTTTAAAAATTTT-A
1 TG-TTTCAAAAATTTTCA
** *
53684 GTGTTTCAAAAATCCTCG
1 -TGTTTCAAAAATTTTCA
53702 TGTTTTCAAAAATT
1 TG-TTTCAAAAATT
53716 ATTATTGTGT
Statistics
Matches: 89, Mismatches: 22, Indels: 21
0.67 0.17 0.16
Matches are distributed among these distances:
16 2 0.02
17 29 0.33
18 31 0.35
19 24 0.27
20 3 0.03
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (17 bp):
TGTTTCAAAAATTTTCA
Found at i:53615 original size:36 final size:35
Alignment explanation
Indices: 53575--53658 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 35
53565 AAAAACTAAT
* *
53575 CGTGTTTCAAAAATTTTCATGTTTCCAAAAAATTCC
1 CGTGTTTCAAAAATTTCCATATTTCC-AAAAATTCC
* * * **
53611 CGTGTTTTAAAAATTTCCTTATTTTCAAAAATTTT
1 CGTGTTTCAAAAATTTCCATATTTCCAAAAATTCC
53646 CGTGTTTCAAAAA
1 CGTGTTTCAAAAA
53659 AATCCTCATG
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 19 0.47
36 21 0.52
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.43
Consensus pattern (35 bp):
CGTGTTTCAAAAATTTCCATATTTCCAAAAATTCC
Found at i:53678 original size:37 final size:35
Alignment explanation
Indices: 53632--53731 Score: 121
Period size: 35 Copynumber: 2.7 Consensus size: 35
53622 AATTTCCTTA
*
53632 TTTTCAAAAATTTTCGTGTTTCAAAAAAATCCTCATG
1 TTTTCAAAAATTTTAGTGTTTC--AAAAATCCTCATG
*
53669 CTTTT-AAAAATTTTAGTGTTTCAAAAATCCTCGTG
1 -TTTTCAAAAATTTTAGTGTTTCAAAAATCCTCATG
53704 TTTTCAAAAATTATTATTGTGTTTCAAA
1 TTTTCAAAAATT-TTA--GTGTTTCAAA
53732 GTTCTCGTGT
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
34 4 0.07
35 19 0.34
36 3 0.05
37 16 0.29
38 14 0.25
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (35 bp):
TTTTCAAAAATTTTAGTGTTTCAAAAATCCTCATG
Found at i:53691 original size:54 final size:54
Alignment explanation
Indices: 53576--53713 Score: 158
Period size: 54 Copynumber: 2.5 Consensus size: 54
53566 AAAACTAATC
* * *
53576 GTGTTTCAAAAATTTTCATGTTTCCAAAAAATTCCCGTGTTTTAAAAATTTCCTTA
1 GTGTTTCAAAAATTTTCGTGTTT-CAAAAAAATCCCATGTTTTAAAAATTT-CTTA
53632 -T-TTTCAAAAATTTTCGTGTTTCAAAAAAATCCTCATGCTTTTAAAAA-TT-TTA
1 GTGTTTCAAAAATTTTCGTGTTTCAAAAAAATCC-CATG-TTTTAAAAATTTCTTA
**
53684 GTGTTTCAAAAATCCTCGTGTTTTCAAAAA
1 GTGTTTCAAAAATTTTCGTG-TTTCAAAAA
53714 TTATTATTGT
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
52 3 0.04
53 11 0.15
54 39 0.54
55 19 0.26
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (54 bp):
GTGTTTCAAAAATTTTCGTGTTTCAAAAAAATCCCATGTTTTAAAAATTTCTTA
Found at i:59904 original size:8 final size:8
Alignment explanation
Indices: 59865--59903 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
59855 CTTACATTAG
59865 TATTTATC
1 TATTTATC
*
59873 TATCTATC
1 TATTTATC
*
59881 TATCTATC
1 TATTTATC
*
59889 TATTTATT
1 TATTTATC
59897 TATTTAT
1 TATTTAT
59904 TGGCTTGTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTTATC
Found at i:59904 original size:12 final size:12
Alignment explanation
Indices: 59865--59895 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
59855 CTTACATTAG
59865 TATTTATCTATC
1 TATTTATCTATC
*
59877 TATCTATCTATC
1 TATTTATCTATC
59889 TATTTAT
1 TATTTAT
59896 TTATTTATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTTATCTATC
Found at i:62954 original size:4 final size:4
Alignment explanation
Indices: 62945--62988 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
62935 CTTACATTAG
* * * *
62945 TATT TATT TATT TATC TATC TATC TGTT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
62989 GGCTTGTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (4 bp):
TATT
Found at i:63405 original size:4 final size:4
Alignment explanation
Indices: 63396--63439 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
63386 CTTACATTAG
* * * *
63396 TATT TATT TATT TATC TATC TATC TGTT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
63440 GGCTTGTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (4 bp):
TATT
Found at i:69621 original size:15 final size:15
Alignment explanation
Indices: 69601--69629 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
69591 ACCTAAGTCC
69601 CGTTACAACTTTCTT
1 CGTTACAACTTTCTT
69616 CGTTACAACTTTCT
1 CGTTACAACTTTCT
69630 AAAGACCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.45
Consensus pattern (15 bp):
CGTTACAACTTTCTT
Found at i:72304 original size:9 final size:9
Alignment explanation
Indices: 72292--72325 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
72282 ATTTAAGCCA
72292 TTTAAAATT
1 TTTAAAATT
*
72301 TTTAAGATT
1 TTTAAAATT
72310 TTTAAAA-T
1 TTTAAAATT
72318 TTTAAAAT
1 TTTAAAAT
72326 GAGAAAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (9 bp):
TTTAAAATT
Found at i:76075 original size:20 final size:19
Alignment explanation
Indices: 76046--76116 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
76036 ATTTATCGTC
*
76046 TTTT-ATAATTTCTAATAA
1 TTTTAATAATTTCTAACAA
* *
76064 TTTCTAATAATTTTTTACAA
1 TTT-TAATAATTTCTAACAA
*
76084 TATTTAACAATTTCTAACAA
1 T-TTTAATAATTTCTAACAA
76104 TTTTTAATAATTT
1 -TTTTAATAATTT
76117 TATTATTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 3 0.07
19 1 0.02
20 35 0.83
21 3 0.07
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTAATAATTTCTAACAA
Found at i:76080 original size:30 final size:29
Alignment explanation
Indices: 76046--76118 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
76036 ATTTATCGTC
* *
76046 TTTTATAATTTCTAATAATTTCTAATAATT
1 TTTTATAATTT-TAACAATTTCTAACAATT
*
76076 TTTTACAATATTTAACAATTTCTAACAATT
1 TTTTATAAT-TTTAACAATTTCTAACAATT
*
76106 TTTAATAATTTTA
1 TTTTATAATTTTA
76119 TTATTTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 4 0.11
30 31 0.84
31 2 0.05
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.53
Consensus pattern (29 bp):
TTTTATAATTTTAACAATTTCTAACAATT
Found at i:76117 original size:10 final size:10
Alignment explanation
Indices: 76046--76117 Score: 65
Period size: 10 Copynumber: 7.3 Consensus size: 10
76036 ATTTATCGTC
76046 TTTT-ATAAT
1 TTTTAATAAT
*
76055 TTCTAATAAT
1 TTTTAATAAT
*
76065 TTCTAATAAT
1 TTTTAATAAT
* *
76075 TTTTTACAAT
1 TTTTAATAAT
* *
76085 ATTTAACAAT
1 TTTTAATAAT
* *
76095 TTCTAACAAT
1 TTTTAATAAT
76105 TTTTAATAAT
1 TTTTAATAAT
76115 TTT
1 TTT
76118 ATTATTTATT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
9 3 0.06
10 49 0.94
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:76360 original size:143 final size:144
Alignment explanation
Indices: 76191--76460 Score: 515
Period size: 143 Copynumber: 1.9 Consensus size: 144
76181 ATGTAGTTAT
76191 TTTTTATAATTTTATTTGAAATTTTAAAGATTTTTTAGGTCTTTTTTTCTAGATGATGATGCCAT
1 TTTTTATAATTTTATTTGAAATTTTAAAGATTTTTTAGGTCTTTTTTTCTAGATGATGATGCCAT
*
76256 CATATGCCACATGGCAATTTATGATTAGTTGGATATCTCAATCTATTTTTTTAACGTCCAATAGA
66 CATATGCCACATGGCAATTTATGATTAGTTGGATATCTCAATCTATTCTTTTAACGTCCAATAGA
76321 CTAAACTAAGAGTA
131 CTAAACTAAGAGTA
76335 TTTTTATAA-TTTATTTGAAATTTTAAAGATTTTTTAGGTCTTTTTTTCTAGATGATGATGCCAT
1 TTTTTATAATTTTATTTGAAATTTTAAAGATTTTTTAGGTCTTTTTTTCTAGATGATGATGCCAT
*
76399 CATATGCCACATGGCAATTTATGATTAGTTGGATATCTCAATCTATTCTTTTAATGTCCAAT
66 CATATGCCACATGGCAATTTATGATTAGTTGGATATCTCAATCTATTCTTTTAACGTCCAAT
76461 GAACGAAACC
Statistics
Matches: 124, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
143 115 0.93
144 9 0.07
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (144 bp):
TTTTTATAATTTTATTTGAAATTTTAAAGATTTTTTAGGTCTTTTTTTCTAGATGATGATGCCAT
CATATGCCACATGGCAATTTATGATTAGTTGGATATCTCAATCTATTCTTTTAACGTCCAATAGA
CTAAACTAAGAGTA
Found at i:76504 original size:15 final size:15
Alignment explanation
Indices: 76484--76512 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
76474 AACACCCGAT
76484 AATGTTAGAGACTAA
1 AATGTTAGAGACTAA
76499 AATGTTAGAGACTA
1 AATGTTAGAGACTA
76513 CACTAGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (15 bp):
AATGTTAGAGACTAA
Found at i:77277 original size:28 final size:28
Alignment explanation
Indices: 77225--77278 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
77215 CTCACCATTC
* *
77225 TTTCTTTTGTTTTTCTTTATGCTTTCTT
1 TTTCTTTTCTTTTTCTTTATCCTTTCTT
77253 TTTCTTTTCTTTTTCTGTTA-CCTTTC
1 TTTCTTTTCTTTTTCT-TTATCCTTTC
77279 AAATCACGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.04, C:0.19, G:0.06, T:0.72
Consensus pattern (28 bp):
TTTCTTTTCTTTTTCTTTATCCTTTCTT
Found at i:79108 original size:13 final size:12
Alignment explanation
Indices: 79081--79136 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 12
79071 AAAATTAGTG
79081 ATATATTTTAATT
1 ATAT-TTTTAATT
*
79094 ATATTTATTATTT
1 ATATTT-TTAATT
*
79107 ATTATTTTTAATA
1 A-TATTTTTAATT
79120 ATATTTTTTAATT
1 ATA-TTTTTAATT
79133 ATAT
1 ATAT
79137 GAAGTAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 5 0.14
13 26 0.72
14 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTTTTAATT
Found at i:88214 original size:17 final size:19
Alignment explanation
Indices: 88182--88228 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
88172 AAGAATAAAT
88182 AATAAATATTAAAAATGATA-
1 AATAAATA--AAAAATGATAG
*
88202 AA-AAATAAAAAATTATAG
1 AATAAATAAAAAATGATAG
88220 AATAAATAA
1 AATAAATAA
88229 TGGAAGATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 9 0.38
18 2 0.08
19 11 0.46
20 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (19 bp):
AATAAATAAAAAATGATAG
Found at i:94729 original size:46 final size:45
Alignment explanation
Indices: 94627--94730 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
94617 CAATGAAACT
* * *
94627 CGAGCTTAAACTATTCATACGAAATAAATGATGACCTCCTAAGCA
1 CGAGCTTAAATTGTTCATACGAAATAAATGATGAACTCCTAAGCA
* **
94672 TGAATTTAAATTGTTCATAC-ATAATAAATGATGATACTCCTAAGCA
1 CGAGCTTAAATTGTTCATACGA-AATAAATGATGA-ACTCCTAAGCA
94718 CGAGCTTAAATTG
1 CGAGCTTAAATTG
94731 CAGTCCAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
44 1 0.02
45 27 0.56
46 20 0.42
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (45 bp):
CGAGCTTAAATTGTTCATACGAAATAAATGATGAACTCCTAAGCA
Found at i:96500 original size:15 final size:15
Alignment explanation
Indices: 96482--96517 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
96472 GTCAATAAAT
96482 ATTTTATAAATATAG
1 ATTTTATAAATATAG
96497 ATTTTATAAATATAG
1 ATTTTATAAATATAG
*
96512 AATTTA
1 ATTTTA
96518 ATCACAAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
ATTTTATAAATATAG
Found at i:107940 original size:9 final size:9
Alignment explanation
Indices: 107926--107952 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
107916 GTGCTTATCC
107926 ATGCTTATA
1 ATGCTTATA
107935 ATGCTTATA
1 ATGCTTATA
107944 ATGCTTATA
1 ATGCTTATA
107953 CTATATGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (9 bp):
ATGCTTATA
Found at i:110605 original size:30 final size:30
Alignment explanation
Indices: 110564--110671 Score: 119
Period size: 30 Copynumber: 3.5 Consensus size: 30
110554 TTATAATTTA
110564 ATGTTTTATTATTTATGTTATGTACATACT
1 ATGTTTTATTATTTATGTTATGTACATACT
* * * *
110594 ATGTCTTATTATTTTATTATTTATGTTA-TTATTT
1 ATGTTTTATTA-TTTA-T-GTTATG-TACATA-CT
*
110628 ATGTTTTATTATTTATGTTATGTACATTCT
1 ATGTTTTATTATTTATGTTATGTACATACT
110658 ATGTTTTATTATTT
1 ATGTTTTATTATTT
110672 TATTTAATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
30 27 0.43
31 10 0.16
32 2 0.03
33 11 0.17
34 13 0.21
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.63
Consensus pattern (30 bp):
ATGTTTTATTATTTATGTTATGTACATACT
Found at i:110622 original size:12 final size:12
Alignment explanation
Indices: 110602--110648 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
110592 CTATGTCTTA
*
110602 TTATTTTATTAT
1 TTATGTTATTAT
110614 TTATGTTATTAT
1 TTATGTTATTAT
110626 TTATGTTTTATTAT
1 TTATG--TTATTAT
110640 TTATGTTAT
1 TTATGTTAT
110649 GTACATTCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 20 0.62
14 12 0.38
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (12 bp):
TTATGTTATTAT
Found at i:110634 original size:26 final size:29
Alignment explanation
Indices: 110605--110671 Score: 104
Period size: 26 Copynumber: 2.4 Consensus size: 29
110595 TGTCTTATTA
110605 TTTTATTATTTATGTTAT-T-ATT-TATG
1 TTTTATTATTTATGTTATGTAATTCTATG
110631 TTTTATTATTTATGTTATGTACATTCTATG
1 TTTTATTATTTATGTTATGTA-ATTCTATG
110661 TTTTATTATTT
1 TTTTATTATTT
110672 TATTTAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 18 0.49
27 1 0.03
29 3 0.08
30 15 0.41
ACGTcount: A:0.22, C:0.03, G:0.07, T:0.67
Consensus pattern (29 bp):
TTTTATTATTTATGTTATGTAATTCTATG
Found at i:110660 original size:64 final size:65
Alignment explanation
Indices: 110553--110675 Score: 212
Period size: 64 Copynumber: 1.9 Consensus size: 65
110543 CCCCGGCATG
110553 GTTATAATTTAATGTTTTATTATTTATGTTATGTACATACTATGTCTTATTATTTTATTATTTAT
1 GTTATAATTTAATGTTTTATTATTTATGTTATGTACATACTATGTCTTATTATTTTATTATTTAT
* * *
110618 GTTATTATTT-ATGTTTTATTATTTATGTTATGTACATTCTATGTTTTATTATTTTATT
1 GTTATAATTTAATGTTTTATTATTTATGTTATGTACATACTATGTCTTATTATTTTATT
110676 TAATTTATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
64 46 0.84
65 9 0.16
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.63
Consensus pattern (65 bp):
GTTATAATTTAATGTTTTATTATTTATGTTATGTACATACTATGTCTTATTATTTTATTATTTAT
Found at i:113477 original size:40 final size:37
Alignment explanation
Indices: 113423--113516 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 37
113413 TAACTAACAC
* * **
113423 AATAATTAATAATAATAA-TAGTTTTTTCACTAAAAAT
1 AATAACTAACAATAATAATTAGGATTTT-ACTAAAAAT
113460 AATACTAACTAACAATAATAATTAGGATTTTACTAAAAAT
1 -A-A-TAACTAACAATAATAATTAGGATTTTACTAAAAAT
113500 AATAACTAACAATAATA
1 AATAACTAACAATAATA
113517 TAATGTAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
37 15 0.31
38 2 0.04
39 2 0.04
40 23 0.47
41 7 0.14
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (37 bp):
AATAACTAACAATAATAATTAGGATTTTACTAAAAAT
Found at i:113478 original size:37 final size:34
Alignment explanation
Indices: 113423--113516 Score: 84
Period size: 37 Copynumber: 2.6 Consensus size: 34
113413 TAACTAACAC
* *
113423 AATAATTAA-TAATAATAATAGTT-TTTTCACTAAA
1 AATAA-TAACTAACAATAATAATTATTTT-ACTAAA
113457 AATAATACTAACTAACAATAATAATTAGGATTTTACTAAA
1 AAT-A-A-TAACTAACAATAATAATT---ATTTTACTAAA
113497 AATAATAACTAACAATAATA
1 AATAATAACTAACAATAATA
113517 TAATGTAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
34 3 0.06
35 1 0.02
36 4 0.08
37 27 0.54
38 1 0.02
39 1 0.02
40 9 0.18
41 4 0.08
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (34 bp):
AATAATAACTAACAATAATAATTATTTTACTAAA
Found at i:113632 original size:16 final size:16
Alignment explanation
Indices: 113611--113646 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
113601 AGTTTTTTAC
113611 TAACAATAA-TATTAA
1 TAACAATAATTATTAA
113626 GTAACAATAATTATTAA
1 -TAACAATAATTATTAA
113643 TAAC
1 TAAC
113647 TAAACCCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (16 bp):
TAACAATAATTATTAA
Found at i:113839 original size:24 final size:24
Alignment explanation
Indices: 113812--113876 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 24
113802 ATACCTTTTT
113812 TTTCTTTTTTTTTTCTTCTCTTTC
1 TTTCTTTTTTTTTTCTTCTCTTTC
** * * *
113836 TTTCTCATTTCTCTATTCTCTTTC
1 TTTCTTTTTTTTTTCTTCTCTTTC
* * *
113860 TCTCGTTTTCTTTTCTT
1 TTTCTTTTTTTTTTCTT
113877 TTTCTGGCAC
Statistics
Matches: 28, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.03, C:0.25, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTCTTTTTTTTTTCTTCTCTTTC
Found at i:113921 original size:3 final size:3
Alignment explanation
Indices: 113902--113954 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
113892 TCTCTTTTTC
*
113902 CTT CTT C-T CATT C-T CTT CTT CTT CTT CTT CTT CTC CTT -TT CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
113945 -TT CTTT CTT C
1 CTT C-TT CTT C
113955 CCTTTCGTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
2 8 0.19
3 29 0.69
4 5 0.12
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:115571 original size:68 final size:69
Alignment explanation
Indices: 115487--115649 Score: 175
Period size: 68 Copynumber: 2.4 Consensus size: 69
115477 CTGCAATCTT
* * * * * * * * *
115487 AAGGCTTGCCGATTTAATATTGCGACCTCCAAAATAGCTCGTGGACCTAC-TTTCCAGCTGATAT
1 AAGGCTCGCCGATTTAATATCGCAACATCCAAAACAACTCGCGGACCTACGTTCCCAGCTCATAT
115551 TCTA
66 TCTA
* *
115555 AAGGCTCGCCGGTTTAATATCGCAACATCCAAAACAACTTGCGGACCTACGTTCCCAGCTCATAT
1 AAGGCTCGCCGATTTAATATCGCAACATCCAAAACAACTCGCGGACCTACGTTCCCAGCTCATAT
*
115620 TATA
66 TCTA
* * * *
115624 GAGGTTAGCCGATTTAAAATCGCAAC
1 AAGGCTCGCCGATTTAATATCGCAAC
115650 CTTCAATTAT
Statistics
Matches: 77, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
68 41 0.53
69 36 0.47
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (69 bp):
AAGGCTCGCCGATTTAATATCGCAACATCCAAAACAACTCGCGGACCTACGTTCCCAGCTCATAT
TCTA
Found at i:120109 original size:20 final size:20
Alignment explanation
Indices: 120059--120115 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
120049 CAATTTCAGT
*
120059 AAATTTTATAATTTTTTTGA
1 AAATTTTATAATATTTTTGA
**
120079 ATGTTTTATAATATTTTTGA
1 AAATTTTATAATATTTTTGA
*
120099 AAATTTAATAA-ATTTTT
1 AAATTTTATAATATTTTT
120116 ATTTATATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
AAATTTTATAATATTTTTGA
Found at i:120148 original size:21 final size:22
Alignment explanation
Indices: 120108--120148 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
120098 AAAATTTAAT
*
120108 AAATTTTTATTTATATATTTCA
1 AAATTTTCATTTATATATTTCA
120130 AAATTTTCATTTATA-ATTT
1 AAATTTTCATTTATATATTT
120149 TTTTTTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (22 bp):
AAATTTTCATTTATATATTTCA
Found at i:129228 original size:23 final size:23
Alignment explanation
Indices: 129185--129230 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
129175 ATTATTGAAA
129185 TTTTTATTTTAAATATATATATT
1 TTTTTATTTTAAATATATATATT
*
129208 TTTTTACTTTTAAGATTTATATA
1 TTTTTA-TTTTAA-ATATATATA
129231 AGAATTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTTTATTTTAAATATATATATT
Found at i:131636 original size:595 final size:597
Alignment explanation
Indices: 130285--131667 Score: 2232
Period size: 597 Copynumber: 2.3 Consensus size: 597
130275 TTAAGCATAT
* * *** * * *
130285 TTTTTAAGGTTGTTGCATTTGCCCATGCCAAATGGAATGTTACCAGATAATTCATT-CTGACTCA
1 TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCT-ACGCA
* *
130349 GGTAAAGCATTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTA
65 AGTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTA
* * *
130414 TTGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATGTTAAAGATCGAAGTTGGAATCCGACCTGT
130 TTGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATATTGAAGATCGAAGTTGGAATCTGACCTGT
* *
130479 AAGGCCTTTAATTGCTTGAATATTAAGCAATTCCAAACCAAGAAGATTACCGATTTCCTCAAGAA
195 AAGGCATTTAATTGCTTGAATATCAAGCAATTCCAAACCAAGAAGATTACCGATTTCCTCAAGAA
** *
130544 TTTGACCTGCACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAGTCAA
260 TTTGACCTGCACACATAGTAAAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCAAAAGTCAA
130609 AAAGGTTTTCTTTTCTGTTCTATAGTAATTTGGAGATGTTAGATTCTCATATATTTTAGCATATG
325 AAAGGTTTTCTTTTCTGTTCTATAGTAATTTGGAGATGTTAGATTCTCATATATTTTAGCATATG
* * **
130674 TTTTTCATCAATTTAAATAAAAGGTTTTTCCTTTTGTTATCTATTACAAATCAAACGCTTTTATA
390 TTTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTATCTATTACAAATCAAACGCTTTTATA
130739 AAAAAAAAACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAA
455 AAAAAAAAACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAA
130804 TATAATTCTTTGAGTTGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAA
520 TATAATTCTTTGAGTTGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAA
130869 GGACAAGGACAAA
585 GGACAAGGACAAA
* *
130882 TTTTTAAGGTTGCTGCATTTGCTCATACTTGACGGAATGTTACCAGATAACTCATTGCTATGCAA
1 TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTACGCAA
* * * * * *
130947 ATAAAGCAGTTCAAGCTTGGGAAGATATTGACACATATCAGTAGGCAAACTCCCTGAGAGGCTAT
66 GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
*
131012 TGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATATTGAAGATTGAAGTTGGAATCTGACCTGTA
131 TGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATATTGAAGATCGAAGTTGGAATCTGACCTGTA
* *
131077 AGGCATTTAATTGCTTGAATATCAAGCATTTCCAAACCAAGAAGATTACCGATTTCCTCAGGAAT
196 AGGCATTTAATTGCTTGAATATCAAGCAATTCCAAACCAAGAAGATTACCGATTTCCTCAAGAAT
* * * *
131142 TTGACCTGCACGCATAGTAAAAAAATCAATGTGTCAAACTATCTATTTTGTTAGTAAAAGTCAAA
261 TTGACCTGCACACATAGTAAAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCAAAAGTCAAA
* *
131207 GAGGTTTTCTTTTTTGTTCTATAGTAATTTGGAGATGTTAGATTCTCATATATTTTAGCATATGT
326 AAGGTTTTCTTTTCTGTTCTATAGTAATTTGGAGATGTTAGATTCTCATATATTTTAGCATATGT
*
131272 TTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTA-CTATTACAAATCAAACTCTTTTAT-A
391 TTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTATCTATTACAAATCAAACGCTTTTATAA
* *
131335 AAAAAATAGTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAAT
456 AAAAAAAACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAAT
131400 ATAATTCTTTGAGTTGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAAG
521 ATAATTCTTTGAGTTGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAAG
*
131465 TACAAGGACAAA
586 GACAAGGACAAA
* *
131477 TTTTTAAGGTTGCTACATTTGCCCATACTTGACGGAATGTTACCAGATAGCTCATTGCTACGCAA
1 TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTACGCAA
* *
131542 GTAAAACACTTCAAGCTTGGGAAGATGTTGACACATATCATTTGGCAAACTACCTGATAGGCTAT
66 GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
* * ** * * * * *
131607 TATTGGAGAGAATAATAATCTTCAGAGAAGATATCTTGAAGATGGAAGATGGAACCTGACC
131 TGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATATTGAAGATCGAAGTTGGAATCTGACC
131668 AGATAATTGA
Statistics
Matches: 722, Mismatches: 63, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
595 310 0.43
596 23 0.03
597 387 0.54
598 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (597 bp):
TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTACGCAA
GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
TGTTGGAGAGAACAATGGTCTTCAGAGAAGAAATATTGAAGATCGAAGTTGGAATCTGACCTGTA
AGGCATTTAATTGCTTGAATATCAAGCAATTCCAAACCAAGAAGATTACCGATTTCCTCAAGAAT
TTGACCTGCACACATAGTAAAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCAAAAGTCAAA
AAGGTTTTCTTTTCTGTTCTATAGTAATTTGGAGATGTTAGATTCTCATATATTTTAGCATATGT
TTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTATCTATTACAAATCAAACGCTTTTATAA
AAAAAAAACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAAT
ATAATTCTTTGAGTTGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAAG
GACAAGGACAAA
Found at i:138444 original size:68 final size:68
Alignment explanation
Indices: 138335--138783 Score: 889
Period size: 68 Copynumber: 6.6 Consensus size: 68
138325 TATTTTCTTA
138335 CTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAACGGAATCTATTGCATTCAAGAGCACCA
1 CTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAACGGAATCTATTGCATTCAAGAGCACCA
138400 CAT
66 CAT
138403 CTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAACGGAATCTATTGCATTCAAGAGCACCA
1 CTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAACGGAATCTATTGCATTCAAGAGCACCA
138468 CAT
66 CAT
138471 CTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAACGGAATCTATTGCATTCAAGAGCACCA
1 CTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAACGGAATCTATTGCATTCAAGAGCACCA
138536 CAT
66 CAT
138539 CTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAACGGAATCTATTGCATTCAAGAGCACCA
1 CTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAACGGAATCTATTGCATTCAAGAGCACCA
138604 CAT
66 CAT
138607 CTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAACGGAATCTATTGCATTCAAGAGCACCA
1 CTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAACGGAATCTATTGCATTCAAGAGCACCA
138672 CAT
66 CAT
138675 CTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAACGGAATCTATTGCATTCAAGAGCACCA
1 CTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAACGGAATCTATTGCATTCAAGAGCACCA
138740 CAT
66 CAT
*
138743 CTTTTTGGATGAAACAAAGCTCTCAATTTTAAGATAAACGG
1 CTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAACGG
138784 GTCTTTAGGG
Statistics
Matches: 380, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 380 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.30
Consensus pattern (68 bp):
CTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAACGGAATCTATTGCATTCAAGAGCACCA
CAT
Found at i:140838 original size:22 final size:23
Alignment explanation
Indices: 140790--140838 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
140780 TGTATCATCT
*
140790 CGATTTGTTTTTATAGTGGTGGA
1 CGATTTGTTTTTATAGTAGTGGA
140813 -GATTTGTTTTT-T-GTAGTGGCA
1 CGATTTGTTTTTATAGTAGTGG-A
140834 CGATT
1 CGATT
140839 GCCAGAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 6 0.26
21 2 0.09
22 15 0.65
ACGTcount: A:0.16, C:0.06, G:0.29, T:0.49
Consensus pattern (23 bp):
CGATTTGTTTTTATAGTAGTGGA
Found at i:140957 original size:19 final size:18
Alignment explanation
Indices: 140918--140957 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
140908 CAACTTTATT
140918 TCATTTTCATTTTCTTTG
1 TCATTTTCATTTTCTTTG
140936 TCATTTTCTATGTTTC-TTG
1 TCATTTTC-AT-TTTCTTTG
140955 TCA
1 TCA
140958 CATACAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 8 0.40
20 4 0.20
ACGTcount: A:0.12, C:0.17, G:0.07, T:0.62
Consensus pattern (18 bp):
TCATTTTCATTTTCTTTG
Found at i:150256 original size:51 final size:48
Alignment explanation
Indices: 150125--150257 Score: 158
Period size: 51 Copynumber: 2.7 Consensus size: 48
150115 AAGGAGAAGG
* * * *
150125 GACCAATGTGAAAAATCGCAAAGAGCGCTTTGAGTCCTAAAAAAAAGA
1 GACCAAGGTGAAAACTCGCAAAGGGCGCCTTGAGTCCTAAAAAAAAGA
* * **
150173 GACCAAGATGAAAACCCGCAAAGGGCATCTTGAGTCCTACAAAAAAAAAGA
1 GACCAAGGTGAAAACTCGCAAAGGGCGCCTTGAGTCCT---AAAAAAAAGA
*
150224 GGCCAAGGTGAAAACTCGCAAAGGGCGCCTTGAG
1 GACCAAGGTGAAAACTCGCAAAGGGCGCCTTGAG
150258 ACCAAAGGGG
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
48 30 0.43
51 39 0.57
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (48 bp):
GACCAAGGTGAAAACTCGCAAAGGGCGCCTTGAGTCCTAAAAAAAAGA
Found at i:155783 original size:51 final size:48
Alignment explanation
Indices: 155652--155784 Score: 158
Period size: 51 Copynumber: 2.7 Consensus size: 48
155642 AAGGAGAAGG
* * * *
155652 GACCAATGTGAAAAATCGCAAAGAGCGCTTTGAGTCCTAAAAAAAAGA
1 GACCAAGGTGAAAACTCGCAAAGGGCGCCTTGAGTCCTAAAAAAAAGA
* * **
155700 GACCAAGATGAAAACCCGCAAAGGGCATCTTGAGTCCTACAAAAAAAAAGA
1 GACCAAGGTGAAAACTCGCAAAGGGCGCCTTGAGTCCT---AAAAAAAAGA
*
155751 GGCCAAGGTGAAAACTCGCAAAGGGCGCCTTGAG
1 GACCAAGGTGAAAACTCGCAAAGGGCGCCTTGAG
155785 ACCAAAGGGG
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
48 30 0.43
51 39 0.57
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (48 bp):
GACCAAGGTGAAAACTCGCAAAGGGCGCCTTGAGTCCTAAAAAAAAGA
Found at i:157555 original size:181 final size:174
Alignment explanation
Indices: 157349--157798 Score: 524
Period size: 181 Copynumber: 2.5 Consensus size: 174
157339 CTACCATTAT
*
157349 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGTGAATCTTATTTCTCTAAAGT
1 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGTGAATCTTATTTCCCTAAAGT
** *
157414 TACGGTGGAATAGATTGAAGCTATAAATTACAGATCTTATCTCTCAGAAGTTGCAGTAGAGCAGA
66 TACACTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCAGAAGTTGCAGTAGAGCAGA
* *
157479 TCATAG-AAAACCTTATCTCCTTGAACTTCCATTGGAGCAGGTTGAAG
131 TCATAGCAAAA-CTTATCTCCCTGAACTTCCAGTGGAGCAGGTT---G
* ** * *
157526 TTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGATAGTGAATCTTATTTCCCTG
1 ----AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGTGAATCTTATTTCCCTA
* * * **
157591 AAGTTGCACTGGAACGGATTGAAGCTATAAATTATAGATCTTATCTCTTTGAAGTTGCAGTAGAG
62 AAGTTACACTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCAGAAGTTGCAGTAGAG
* * **
157656 TAGATCATAGCAAAACTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTG
127 CAGATCATAGCAAAACTTATCTCCCTGAACTTCCAGTGGAGCAGGTTG
* * * ** * ***
157704 AAGTCTTATCTCCCTGAAGTTGTAGCAGAGCAGACTGAAGACAGCAAATTTTATTTCCCTGGTGT
1 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGTGAATCTTATTTCCCTAAAGT
* * * *
157769 TGCAGTGGAACAGATTAAAGCTACAAATTA
66 TACACTGGAACAGATTGAAGCTATAAATTA
157799 TGGTGAATCT
Statistics
Matches: 232, Mismatches: 36, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
174 79 0.34
178 1 0.00
181 148 0.64
182 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (174 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGTGAATCTTATTTCCCTAAAGT
TACACTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCAGAAGTTGCAGTAGAGCAGA
TCATAGCAAAACTTATCTCCCTGAACTTCCAGTGGAGCAGGTTG
Found at i:157660 original size:96 final size:96
Alignment explanation
Indices: 156989--157660 Score: 296
Period size: 96 Copynumber: 7.3 Consensus size: 96
156979 TTACGGCAAG
* * * * *
156989 TCTTATCTCCCTGAAGTTACAATAAAGCAGATT-AA-ATCGAGT-AATCCTATCTCCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGAT--AGTGAATCTTATTTCCCTGAAGTT
* * * *
157051 GCAGTGGAGCGGATTGAAG-T-T--A-CA-AG-
64 ACACTGGAACGGATTGAAGCTATAAATTATAGA
* * * * *
157077 TCTTACCCCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGTGAATCTTATTTCCTTGAAGCTGC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTAC
* * * *
157142 AGTAGAACAGATTGAAGCTATAAATTACAGA
66 ACTGGAACGGATTGAAGCTATAAATTATAGA
* ** * * * *
157173 TCTTATCTCTCTGAAGTTGCAGTAGAG-A-A--GATCATA-TCAAACCTTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGT-GAATCTTATTTCCCTGAAGTTA
* * * **
157233 TAGTGGAGCAGG-TTGAAG--AT--A--CCA-A
65 CACTGGAAC-GGATTGAAGCTATAAATTATAGA
* * ** * * * * *
157258 TCTTATATCTCTGAAGTTATAGTGGAACAGATT-AA-A-ACGATGAATCCTA-TACCTCTAAAGT
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATA-G-TGAATCTTATTTCC-CTGAAGT
* * * * * **
157319 TATAGTAGG-TCGGATTAAATCTA-CCATTATA-A
63 TACACT-GGAACGGATTGAAGCTATAAATTATAGA
* * *
157351 GTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGTGAATCTTATTTCTCTAAAGTTA
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTA
** ** *
157416 CGGTGGAATAGATTGAAGCTATAAATTACAGA
65 CACTGGAACGGATTGAAGCTATAAATTATAGA
* * * * * * * *
157448 TCTTATCTCTCAGAAGTTGCAGTAGAGCAGA-TCATAGA-A---AACCTTATCTCCTTGAACTTC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGA-AGATAGTGAATCTTATTTCCCTGAAGTTA
* * *
157508 CATTGGAGCAGG-TTGAAG-T-T--A-CA-AG-
65 CACTGGAAC-GGATTGAAGCTATAAATTATAGA
* ** *
157533 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTAC
157598 ACTGGAACGGATTGAAGCTATAAATTATAGA
66 ACTGGAACGGATTGAAGCTATAAATTATAGA
** *
157629 TCTTATCTCTTTGAAGTTGCAGTAGAGTAGAT
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
157661 CATAGCAAAA
Statistics
Matches: 433, Mismatches: 100, Indels: 94
0.69 0.16 0.15
Matches are distributed among these distances:
85 52 0.12
86 9 0.02
87 7 0.02
88 57 0.13
89 66 0.15
90 8 0.02
91 5 0.01
92 59 0.14
93 6 0.01
94 31 0.07
95 38 0.09
96 93 0.21
97 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (96 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTAC
ACTGGAACGGATTGAAGCTATAAATTATAGA
Found at i:157743 original size:37 final size:37
Alignment explanation
Indices: 157671--157743 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
157661 CATAGCAAAA
** **
157671 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGT
1 CTTATCTCCCTGAAGTTGTAGCAGAGCAGACTGAAGT
157708 CTTATCTCCCTGAAGTTGTAGCAGAGCAGACTGAAG
1 CTTATCTCCCTGAAGTTGTAGCAGAGCAGACTGAAG
157744 ACAGCAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (37 bp):
CTTATCTCCCTGAAGTTGTAGCAGAGCAGACTGAAGT
Found at i:157922 original size:143 final size:143
Alignment explanation
Indices: 157708--158743 Score: 1478
Period size: 143 Copynumber: 7.2 Consensus size: 143
157698 AGGTTGAAGT
* * * *
157708 CTTATCTCCCTGAAGTTGTAGCAGAGCAGACTGAAGACAGCAAATTTTATTTCCCTGGTGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* * * *
157773 GTGGAACAGATTAAAGCTACAAATTATGGTGAATCTTATCTTCCTGAAGTTACACTGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
*
157838 TGAAGCCACCAGA
131 TGAAGCCACCAGC
* * *
157851 CTTATCTCCTTAAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* *
157916 GTGGAACAGATTAAAGCTACAAATTATGACGGATCTTATTTTCCTGAAGTTGCAGTGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
*
157981 TGAATCCACCAGC
131 TGAAGCCACCAGC
* * * *
157994 CTTATCTCCCTGAAGTTGCAGCGGAACAGACTAAAGACAGCGAATCTTATTTCTCTGGCGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* * *
158059 GTGGAACAGATTAAAGTTACAAATTATGGCGGATCATATATTCCTGAAGTTGCAGTGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
*
158124 TGAAGCCACTAGC
131 TGAAGCCACCAGC
** * * * * * * *
158137 CTTATCTCCCTGAAGTTATAGCAGAGTAGACTGAAGACAGTGAATTTTACTTCCATAGCGTTACA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* * *
158202 GTGGAACAGGTTAAAGCTACAAATTATAGCGGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
158267 TGAAGCCACCAGC
131 TGAAGCCACCAGC
* * * * *
158280 CTTATCTCCCAGAAGTTGCAGTAGAGCAGACTGAATACAGTGAATCTTATTTCCCTGGCATTGCA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* * *
158345 GTGGAACAAATTAAAGCTATAAATTATGGCGGATATTATCTTCCTGAAGTTGCAGTGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
158410 TGAAGCCACCAGC
131 TGAAGCCACCAGC
* * ** * * * *
158423 CTTATCTCCTTTAAGTTATAGCAGAGTAGACTAAAGACAGCAAATCTTGTTTCCCTGGCGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* *
158488 GTGGAATAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAAAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
* *
158553 TGAAGCTACCAAC
131 TGAAGCCACCAGC
* * *
158566 CTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAAGACAGTGAATCTTATTTCCCTGGCGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* * *
158631 GTGGAACAGATTAAAGCCACAAGTTATGGCGGATCTTATCTTCCTGAAGTTGCAATGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
158696 TGAAGCCACCAGC
131 TGAAGCCACCAGC
* * ** *
158709 CTTGTCTCCCTGAAGTTACAGTGGAGCAGATTGAA
1 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAA
158744 AGTAGTGAAT
Statistics
Matches: 788, Mismatches: 105, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
143 788 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (143 bp):
CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
TGAAGCCACCAGC
Found at i:163267 original size:32 final size:33
Alignment explanation
Indices: 163215--163279 Score: 123
Period size: 32 Copynumber: 2.0 Consensus size: 33
163205 CCATATATTG
163215 TATGTTTCATCCATAAAAATTTCATGGAAGGTC
1 TATGTTTCATCCATAAAAATTTCATGGAAGGTC
163248 TATGTTTCAT-CATAAAAATTTCATGGAAGGTC
1 TATGTTTCATCCATAAAAATTTCATGGAAGGTC
163280 CAAAGGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 22 0.69
33 10 0.31
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (33 bp):
TATGTTTCATCCATAAAAATTTCATGGAAGGTC
Found at i:169526 original size:12 final size:12
Alignment explanation
Indices: 169505--169539 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
169495 TTTTGTTTAA
*
169505 ATTGGATTGTAG
1 ATTGGTTTGTAG
169517 ATTGGTTTGTAG
1 ATTGGTTTGTAG
*
169529 ACTGGTTTGTA
1 ATTGGTTTGTA
169540 TACTCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.20, C:0.03, G:0.31, T:0.46
Consensus pattern (12 bp):
ATTGGTTTGTAG
Found at i:171713 original size:12 final size:12
Alignment explanation
Indices: 171696--171720 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
171686 CATGTGTCCT
171696 AAAAAAATTAAA
1 AAAAAAATTAAA
171708 AAAAAAATTAAA
1 AAAAAAATTAAA
171720 A
1 A
171721 CAAGCATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAATTAAA
Found at i:172622 original size:43 final size:43
Alignment explanation
Indices: 172568--172793 Score: 317
Period size: 43 Copynumber: 5.3 Consensus size: 43
172558 ATTTGTTCTA
* *
172568 TAGCGGCGTTTGTGGGAACAGCGCCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTT
* * * *
172611 TAGCAGCGTTTGTGGGAACAGCGTCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTT
* *
172654 TAACGGCGTTTCTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTT
* * * *
172697 TACCGGCGTTTGTGGAAAAAGCGCTGCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTT
* * *
172740 TAGCGGCATTTGTGGGAAAAGCGCGGCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTT
172783 TAGCGGCGTTT
1 TAGCGGCGTTT
172794 ATTTCCAAAA
Statistics
Matches: 165, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 165 1.00
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTT
Found at i:172919 original size:22 final size:22
Alignment explanation
Indices: 172887--172929 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
172877 TAGCGGCACT
* *
172887 AAAAAGTGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
172909 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
172930 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:172987 original size:43 final size:43
Alignment explanation
Indices: 172939--173048 Score: 175
Period size: 43 Copynumber: 2.6 Consensus size: 43
172929 TGTTTTGGTG
172939 TAGCGGCGCTTTATCCACAAACGCCACTAAAGAACATGACATT
1 TAGCGGCGCTTTATCCACAAACGCCACTAAAGAACATGACATT
* * *
172982 TAGCGGCTCTTTATCCACAAACGCCGCTAAAGAACATGACCTT
1 TAGCGGCGCTTTATCCACAAACGCCACTAAAGAACATGACATT
* *
173025 TAGCGACGCTTTACCCACAAACGC
1 TAGCGGCGCTTTATCCACAAACGC
173049 AGCTAAATGT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (43 bp):
TAGCGGCGCTTTATCCACAAACGCCACTAAAGAACATGACATT
Found at i:180666 original size:15 final size:15
Alignment explanation
Indices: 180646--180705 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 15
180636 ATCAATACGG
180646 CCCAATTAGCCTAAA
1 CCCAATTAGCCTAAA
*
180661 CCCAATTAGCCTAAG
1 CCCAATTAGCCTAAA
* *
180676 CCCAA-TACCCT-AG
1 CCCAATTAGCCTAAA
*
180689 CCCAACTAGCCTAAA
1 CCCAATTAGCCTAAA
180704 CC
1 CC
180706 AGAAGTCAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
13 7 0.18
14 10 0.26
15 22 0.56
ACGTcount: A:0.35, C:0.40, G:0.08, T:0.17
Consensus pattern (15 bp):
CCCAATTAGCCTAAA
Found at i:181643 original size:5 final size:5
Alignment explanation
Indices: 181628--181672 Score: 58
Period size: 5 Copynumber: 9.4 Consensus size: 5
181618 ATTTTAGTCA
* *
181628 TTTAT TCTAT TTTAT TTTAT TTTAT TTTA- TTAAT TTT-T TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
181673 CAATTTACTC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
4 7 0.21
5 27 0.79
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:181677 original size:15 final size:15
Alignment explanation
Indices: 181635--181678 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
181625 TCATTTATTC
*
181635 TATTTTATTTTATTT
1 TATTTTATTTAATTT
181650 TATTTTA-TTAATTT
1 TATTTTATTTAATTT
181664 T-TTTTATTTCAATTT
1 TATTTTATTT-AATTT
181679 ACTCCTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 5 0.19
14 9 0.35
15 12 0.46
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TATTTTATTTAATTT
Found at i:181996 original size:12 final size:12
Alignment explanation
Indices: 181961--181999 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
181951 GTTATTAAAC
181961 ATTTATATTATT
1 ATTTATATTATT
* *
181973 ATATATACTATT
1 ATTTATATTATT
*
181985 ATTTAAATTATT
1 ATTTATATTATT
181997 ATT
1 ATT
182000 AAACTTTTCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTATATTATT
Found at i:182012 original size:24 final size:25
Alignment explanation
Indices: 181960--182012 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
181950 TGTTATTAAA
* *
181960 CATTTATATTATTATATATACTATT
1 CATTTAAATTATTATATAAACTATT
*
181985 -ATTTAAATTATTAT-TAAACTTTT
1 CATTTAAATTATTATATAAACTATT
182008 CATTT
1 CATTT
182013 TATATATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (25 bp):
CATTTAAATTATTATATAAACTATT
Found at i:182682 original size:5 final size:5
Alignment explanation
Indices: 182667--182711 Score: 58
Period size: 5 Copynumber: 9.4 Consensus size: 5
182657 ATTTTAGTCA
* *
182667 TTTAT TCTAT TTTAT TTTAT TTTAT TTTA- TTAAT TTT-T TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
182712 CAATTTACTC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
4 7 0.21
5 27 0.79
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:182716 original size:15 final size:15
Alignment explanation
Indices: 182674--182717 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
182664 TCATTTATTC
*
182674 TATTTTATTTTATTT
1 TATTTTATTTAATTT
182689 TATTTTA-TTAATTT
1 TATTTTATTTAATTT
182703 T-TTTTATTTCAATTT
1 TATTTTATTT-AATTT
182718 ACTCCTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 5 0.19
14 9 0.35
15 12 0.46
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TATTTTATTTAATTT
Found at i:183035 original size:12 final size:12
Alignment explanation
Indices: 183000--183038 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
182990 GTTATTAAAC
183000 ATTTATATTATT
1 ATTTATATTATT
* *
183012 ATATATACTATT
1 ATTTATATTATT
*
183024 ATTTAAATTATT
1 ATTTATATTATT
183036 ATT
1 ATT
183039 AAACTTTTCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTATATTATT
Found at i:183051 original size:24 final size:25
Alignment explanation
Indices: 182999--183051 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
182989 TGTTATTAAA
* *
182999 CATTTATATTATTATATATACTATT
1 CATTTAAATTATTATATAAACTATT
*
183024 -ATTTAAATTATTAT-TAAACTTTT
1 CATTTAAATTATTATATAAACTATT
183047 CATTT
1 CATTT
183052 TATATATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (25 bp):
CATTTAAATTATTATATAAACTATT
Found at i:184403 original size:22 final size:22
Alignment explanation
Indices: 184360--184403 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
184350 AAGTAATTCA
* **
184360 ATATATATTTTAAATTTTTATT
1 ATATATATTTTAAAATAATATT
*
184382 ATATATTTTTTAAAATAATATT
1 ATATATATTTTAAAATAATATT
184404 TTAATAGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATATATATTTTAAAATAATATT
Found at i:187565 original size:18 final size:18
Alignment explanation
Indices: 187542--187576 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
187532 TTGTTCATCC
187542 ACGGTACTATTCACGTAG
1 ACGGTACTATTCACGTAG
*
187560 ACGGTACTGTTCACGTA
1 ACGGTACTATTCACGTA
187577 TACAGTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (18 bp):
ACGGTACTATTCACGTAG
Found at i:190368 original size:41 final size:41
Alignment explanation
Indices: 190310--190501 Score: 309
Period size: 41 Copynumber: 4.8 Consensus size: 41
190300 TAAATTGTTT
*
190310 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
1 TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCAGAGCA
190351 TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCAGAGCA
1 TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCAGAGCA
190392 TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCAGAGCA
1 TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCAGAGCA
*
190433 TTAGCGGCGCTTATTC---AACGCCACTAAAGACCAGAGCA
1 TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCAGAGCA
* * * *
190471 TTAGTGGCGCTTCTTAAAAAATGCCGCTAAA
1 TTAGCGGCGCTTATTCAAAAACGCCGCTAAA
190502 TCCCCAAAAA
Statistics
Matches: 141, Mismatches: 7, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
38 34 0.24
41 107 0.76
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (41 bp):
TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCAGAGCA
Found at i:196372 original size:15 final size:15
Alignment explanation
Indices: 196352--196397 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
196342 TGGCCTCTCC
196352 TTTTTCTTTTTTTAT
1 TTTTTCTTTTTTTAT
196367 TTTTTCTTTCTTTT-T
1 TTTTTCTTT-TTTTAT
**
196382 TTTGCCTTTTTTTAT
1 TTTTTCTTTTTTTAT
196397 T
1 T
196398 GAATCTGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 4 0.15
15 19 0.70
16 4 0.15
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTTTTTAT
Found at i:198988 original size:24 final size:24
Alignment explanation
Indices: 198960--199006 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
198950 ATCATTTTTT
* *
198960 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
198984 GCTGCTCCTGCATTTCCTTTTGA
1 GCTGCTCATGCATTTCCTTTTGA
199007 GATTGTTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:201982 original size:19 final size:19
Alignment explanation
Indices: 201958--202059 Score: 71
Period size: 19 Copynumber: 5.4 Consensus size: 19
201948 GATTAAAGGG
201958 TATCTACAAATTA-ATAACA
1 TATCTA-AAATTATATAACA
* *
201977 TATCTAAGATTATATATCA
1 TATCTAAAATTATATAACA
* ** *
201996 TATCTAAGATTGCATATCA
1 TATCTAAAATTATATAACA
* **
202015 TATCTAAGATTATATATTA
1 TATCTAAAATTATATAACA
* ** *
202034 TATCTAAGATTGCATATCA
1 TATCTAAAATTATATAACA
202053 TATCTAA
1 TATCTAA
202060 GATTGCATAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
18 5 0.07
19 67 0.93
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (19 bp):
TATCTAAAATTATATAACA
Found at i:202017 original size:38 final size:38
Alignment explanation
Indices: 201975--202063 Score: 169
Period size: 38 Copynumber: 2.3 Consensus size: 38
201965 AAATTAATAA
201975 CATATCTAAGATTATATATCATATCTAAGATTGCATAT
1 CATATCTAAGATTATATATCATATCTAAGATTGCATAT
*
202013 CATATCTAAGATTATATATTATATCTAAGATTGCATAT
1 CATATCTAAGATTATATATCATATCTAAGATTGCATAT
202051 CATATCTAAGATT
1 CATATCTAAGATT
202064 GCATATCCCT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (38 bp):
CATATCTAAGATTATATATCATATCTAAGATTGCATAT
Found at i:202060 original size:19 final size:19
Alignment explanation
Indices: 201975--202070 Score: 147
Period size: 19 Copynumber: 5.1 Consensus size: 19
201965 AAATTAATAA
**
201975 CATATCTAAGATTATATAT
1 CATATCTAAGATTGCATAT
201994 CATATCTAAGATTGCATAT
1 CATATCTAAGATTGCATAT
**
202013 CATATCTAAGATTATATAT
1 CATATCTAAGATTGCATAT
*
202032 TATATCTAAGATTGCATAT
1 CATATCTAAGATTGCATAT
202051 CATATCTAAGATTGCATAT
1 CATATCTAAGATTGCATAT
202070 C
1 C
202071 CCTGAAGATT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 69 1.00
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.40
Consensus pattern (19 bp):
CATATCTAAGATTGCATAT
Found at i:209111 original size:97 final size:97
Alignment explanation
Indices: 208945--209141 Score: 376
Period size: 97 Copynumber: 2.0 Consensus size: 97
208935 GCAGCTAATA
208945 ATGATATTCTATGCATTATAAAATTTTTTTAGTCTACTTGCTGAAACCAAGGTCAATATCCTGTT
1 ATGATATTCTATGCATTATAAAATTTTTTTAGTCTACTTGCTGAAACCAAGGTCAATATCCTGTT
*
209010 GGAATGGGGTTGTTCATTCCATGGATCTAAAT
66 GGAATGGAGTTGTTCATTCCATGGATCTAAAT
*
209042 ATGATATTCTATGCATTATGAAATTTTTTTAGTCTACTTGCTGAAACCAAGGTCAATATCCTGTT
1 ATGATATTCTATGCATTATAAAATTTTTTTAGTCTACTTGCTGAAACCAAGGTCAATATCCTGTT
209107 GGAATGGAGTTGTTCATTCCATGGATCTAAAT
66 GGAATGGAGTTGTTCATTCCATGGATCTAAAT
209139 ATG
1 ATG
209142 CCTTTCTCCA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 98 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (97 bp):
ATGATATTCTATGCATTATAAAATTTTTTTAGTCTACTTGCTGAAACCAAGGTCAATATCCTGTT
GGAATGGAGTTGTTCATTCCATGGATCTAAAT
Found at i:216043 original size:38 final size:40
Alignment explanation
Indices: 215981--216064 Score: 127
Period size: 38 Copynumber: 2.1 Consensus size: 40
215971 ATTTTATAGC
* * *
215981 AGATTTGTGGATTCTGATTTAGATGGATATGTTCAATTT-
1 AGATTTGTGGATTCCGATTCAGATGGATATATTCAATTTA
216020 AGATTTGT-GATTCCGATTCAGATGGATATATTCAATTTA
1 AGATTTGTGGATTCCGATTCAGATGGATATATTCAATTTA
216059 AGATTT
1 AGATTT
216065 TATAGCAGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 27 0.66
39 14 0.34
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (40 bp):
AGATTTGTGGATTCCGATTCAGATGGATATATTCAATTTA
Found at i:218314 original size:34 final size:34
Alignment explanation
Indices: 218263--218330 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
218253 AAAGTAGTTT
*
218263 TTAGGAAAGCAGTAATAAAAAAAAGTAAAAACTA
1 TTAGAAAAGCAGTAATAAAAAAAAGTAAAAACTA
*
218297 TTAGAAAAGTAGTAATAAAAAAAAGTAAAAACTA
1 TTAGAAAAGCAGTAATAAAAAAAAGTAAAAACTA
218331 ATGCAAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.63, C:0.04, G:0.13, T:0.19
Consensus pattern (34 bp):
TTAGAAAAGCAGTAATAAAAAAAAGTAAAAACTA
Found at i:218339 original size:34 final size:34
Alignment explanation
Indices: 218268--218340 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 34
218258 AGTTTTTAGG
* *
218268 AAAGCAGTAATAAAAAAAAGTAAAAACTATTAGA
1 AAAGTAGTAATAAAAAAAAGTAAAAACTAATAGA
218302 AAAGTAGTAATAAAAAAAAGTAAAAACTAAT-GCA
1 AAAGTAGTAATAAAAAAAAGTAAAAACTAATAG-A
218336 AAAGT
1 AAAGT
218341 TACCAATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 1 0.03
34 35 0.97
ACGTcount: A:0.64, C:0.05, G:0.12, T:0.18
Consensus pattern (34 bp):
AAAGTAGTAATAAAAAAAAGTAAAAACTAATAGA
Found at i:222610 original size:15 final size:15
Alignment explanation
Indices: 222592--222627 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
222582 AAAATAAAAT
*
222592 TCGAGTCAAGTCGAA
1 TCGAGTCAAATCGAA
*
222607 TCGAATCAAATCGAA
1 TCGAGTCAAATCGAA
222622 TCGAGT
1 TCGAGT
222628 TGAGTTGAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (15 bp):
TCGAGTCAAATCGAA
Found at i:222940 original size:19 final size:20
Alignment explanation
Indices: 222899--222942 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
222889 TTAGATATAA
*
222899 ATTTTGAAATTATTATTAAT
1 ATTTTGAAATTATTATAAAT
222919 ATTTTG-AATT-TTATAAATT
1 ATTTTGAAATTATTATAAA-T
222938 ATTTT
1 ATTTT
222943 AAAAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 10 0.45
20 6 0.27
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
ATTTTGAAATTATTATAAAT
Found at i:223063 original size:9 final size:9
Alignment explanation
Indices: 223031--223057 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
223021 ACACCAATCT
223031 ATTATTTGA
1 ATTATTTGA
223040 ATTATTTGA
1 ATTATTTGA
223049 ATTATTTGA
1 ATTATTTGA
223058 GATATTCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (9 bp):
ATTATTTGA
Found at i:223063 original size:18 final size:18
Alignment explanation
Indices: 223031--223069 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
223021 ACACCAATCT
*
223031 ATTATTTGAATTATTTGA
1 ATTATTTGAATTATTCGA
223049 ATTATTTGAGA-TATTCGA
1 ATTATTTGA-ATTATTCGA
223067 ATT
1 ATT
223070 GTGAAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (18 bp):
ATTATTTGAATTATTCGA
Found at i:227207 original size:2 final size:2
Alignment explanation
Indices: 227200--227224 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
227190 CTTCACTGAT
227200 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 T
227225 TCGAATGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:231425 original size:29 final size:29
Alignment explanation
Indices: 231393--231454 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
231383 AAAAAGCCGT
231393 TTTTTTTTA-AATTTACCGAAATGGGCCA
1 TTTTTTTTATAATTTACCGAAATGGGCCA
* * * *
231421 ATTTTTTTATTATTTACCGGAATGGTCCA
1 TTTTTTTTATAATTTACCGAAATGGGCCA
231450 TTTTT
1 TTTTT
231455 CGAGAAATCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (29 bp):
TTTTTTTTATAATTTACCGAAATGGGCCA
Found at i:236368 original size:29 final size:29
Alignment explanation
Indices: 236326--236551 Score: 209
Period size: 29 Copynumber: 7.2 Consensus size: 29
236316 NNNNNNNNNN
236326 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
236355 TTAGGTTAGGGTTAGGGTTAGGATTTTTAATTAAG
1 TTAGGTTAGGGTTA--G---GG-TTTTTAATTAAG
* *
236390 TTCGGTTAGGGTTAGGATTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
*
236419 TTAGTTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
** * *
236448 TTAGGGTTTTTAATTAAGTTAGGTTTTTAATCAAATTAGG
1 TTA-GG---TT-A--GGGTTAGGGTTTT--T--AATTAAG
*
236488 TTAGGGTTAGGGTTAGGGTTTTTAATTAAA
1 TTA-GGTTAGGGTTAGGGTTTTTAATTAAG
*
236518 TTAGGTTAAGGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
236547 TTAGG
1 TTAGG
236552 NNNNNNNNNN
Statistics
Matches: 163, Mismatches: 17, Indels: 34
0.76 0.08 0.16
Matches are distributed among these distances:
29 84 0.52
30 10 0.06
31 1 0.01
32 1 0.01
33 3 0.02
34 13 0.08
35 25 0.15
36 11 0.07
37 2 0.01
38 1 0.01
40 12 0.07
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.45
Consensus pattern (29 bp):
TTAGGTTAGGGTTAGGGTTTTTAATTAAG
Found at i:236371 original size:35 final size:35
Alignment explanation
Indices: 236329--236536 Score: 201
Period size: 35 Copynumber: 6.3 Consensus size: 35
236319 NNNNNNNTTA
236329 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAG
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAG
* *
236364 GGTTAGGGTTAGGATTTTTAATTAAGTTCGGTTAG
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAG
236399 GGTTA-GG--A---TTTTTAATTAAGTTA-G-T--
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAG
**
236424 --TTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTT
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTA-GG-TTAG
** * * *
236459 AATTA-AGTTA-GGTTTTTAATCAAATTAGGTTAG
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAG
* *
236492 GGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAG
236527 GGTTAGGGTT
1 GGTTAGGGTT
236537 TTTAATTAAG
Statistics
Matches: 144, Mismatches: 13, Indels: 32
0.76 0.07 0.17
Matches are distributed among these distances:
23 3 0.02
24 2 0.01
26 1 0.01
27 1 0.01
28 1 0.01
29 29 0.20
31 1 0.01
32 1 0.01
33 6 0.04
34 8 0.06
35 84 0.58
36 4 0.03
37 3 0.02
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.45
Consensus pattern (35 bp):
GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAG
Found at i:236472 original size:17 final size:18
Alignment explanation
Indices: 236429--236478 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
236419 TTAGTTTAGG
236429 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
236447 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
236465 GTTA-GGTTTTTAAT
1 GTTAGGGTTTTTAAT
236479 CAAATTAGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 10 0.31
18 22 0.69
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:236486 original size:17 final size:17
Alignment explanation
Indices: 236429--236489 Score: 86
Period size: 18 Copynumber: 3.5 Consensus size: 17
236419 TTAGTTTAGG
236429 GTTAGGGTTTTTAATTAA
1 GTTA-GGTTTTTAATTAA
236447 GTTAGGGTTTTTAATTAA
1 GTTA-GGTTTTTAATTAA
*
236465 GTTAGGTTTTTAATCAA
1 GTTAGGTTTTTAATTAA
*
236482 ATTAGGTT
1 GTTAGGTT
236490 AGGGTTAGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
17 19 0.46
18 22 0.54
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.49
Consensus pattern (17 bp):
GTTAGGTTTTTAATTAA
Found at i:236537 original size:64 final size:63
Alignment explanation
Indices: 236326--236551 Score: 230
Period size: 64 Copynumber: 3.5 Consensus size: 63
236316 NNNNNNNNNN
* * *
236326 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGATTTTTAATTAAG
1 TTAGGTTAAGGTTA-GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAG
* * *
236390 TTCGGTTAGGGTTAGGATTTTTAATT--A--A-GTTA-GTTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTAAGGTTAGG-TTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAG
* *
236448 TTAGGGTTTTTAATTAAGTTAGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAA
1 TTA-GG---TT-A--AGGTTAGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAA
*
236513 TTAAA
59 TTAAG
*
236518 TTAGGTTAAGGTTAGGGTTTTTAATTAAGTTAGG
1 TTAGGTTAAGGTTA-GGTTTTTAATTAAATTAGG
236552 NNNNNNNNNN
Statistics
Matches: 134, Mismatches: 13, Indels: 30
0.76 0.07 0.17
Matches are distributed among these distances:
58 26 0.19
59 6 0.04
60 1 0.01
62 2 0.01
63 8 0.06
64 47 0.35
65 7 0.05
66 3 0.02
68 1 0.01
69 6 0.04
70 27 0.20
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.45
Consensus pattern (63 bp):
TTAGGTTAAGGTTAGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAG
Found at i:236662 original size:29 final size:29
Alignment explanation
Indices: 236620--236816 Score: 250
Period size: 29 Copynumber: 6.4 Consensus size: 29
236610 NNNNNNNNNN
236620 TTAGGGTTAGGGTTTTTAATTAAGTTAGG
1 TTAGGGTTAGGGTTTTTAATTAAGTTAGG
*
236649 TTAGGGTTAGGGTTAGGATTTTTAATTAAGTTCGG
1 TTAGGGTTA--G---GG-TTTTTAATTAAGTTAGG
*
236684 TTAGGGTTAGGGTTTTTAATTAAGTTAGT
1 TTAGGGTTAGGGTTTTTAATTAAGTTAGG
* *
236713 TTAGGGTTAGGATTTTTAATTAATTTAGG
1 TTAGGGTTAGGGTTTTTAATTAAGTTAGG
236742 TTAGGGTTAGGATTAGGATTTTTAATTAAGTTAGG
1 TTAGGGTTA-G----GG-TTTTTAATTAAGTTAGG
236777 TTAGGGTTAGGGTTTTTAATTAAGTTAGG
1 TTAGGGTTAGGGTTTTTAATTAAGTTAGG
236806 TTAGGGTTAGG
1 TTAGGGTTAGG
236817 TTAGGGTTTT
Statistics
Matches: 148, Mismatches: 8, Indels: 24
0.82 0.04 0.13
Matches are distributed among these distances:
29 87 0.59
30 5 0.03
31 1 0.01
33 1 0.01
34 4 0.03
35 50 0.34
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.45
Consensus pattern (29 bp):
TTAGGGTTAGGGTTTTTAATTAAGTTAGG
Found at i:236721 original size:64 final size:62
Alignment explanation
Indices: 236620--236816 Score: 246
Period size: 64 Copynumber: 3.2 Consensus size: 62
236610 NNNNNNNNNN
*
236620 TTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGATTTTTAATTAAGTTCGG
1 TTAGGGTTAGGGTTTTTAATTAAGTTA-GTTA-GGTTAGGGTTAGGATTTTTAATTAAGTTAGG
*
236684 TTAGGGTTAGGGTTTTTAATTAAGTTAG-T---TTAGGGTTAGGATTTTTAATTAATTTAGG
1 TTAGGGTTAGGGTTTTTAATTAAGTTAGTTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGG
* *
236742 TTAGGGTTAGGATTAGGATTT--TTAA-TTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTA
1 TTAGGGTTAGGGTT----TTTAATTAAGTT-AGTTAGGTTAGGGTTAGGATTTTTAATTAAGTTA
236804 GG
61 GG
236806 TTAGGGTTAGG
1 TTAGGGTTAGG
236817 TTAGGGTTTT
Statistics
Matches: 119, Mismatches: 5, Indels: 18
0.84 0.04 0.13
Matches are distributed among these distances:
58 40 0.34
59 2 0.02
60 6 0.05
61 1 0.01
62 4 0.03
63 1 0.01
64 65 0.55
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.45
Consensus pattern (62 bp):
TTAGGGTTAGGGTTTTTAATTAAGTTAGTTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGG
Found at i:236779 original size:93 final size:93
Alignment explanation
Indices: 236620--236816 Score: 349
Period size: 93 Copynumber: 2.1 Consensus size: 93
236610 NNNNNNNNNN
* * *
236620 TTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGATTTTTAATTAAGTTCGGT
1 TTAGGGTTAGGATTTTTAATTAAGTTAGGTTAGGGTTAGGATTAGGATTTTTAATTAAGTTAGGT
*
236685 TAGGGTTAGGGTTTTTAATTAAGTTAGT
66 TAGGGTTAGGGTTTTTAATTAAGTTAGG
*
236713 TTAGGGTTAGGATTTTTAATTAATTTAGGTTAGGGTTAGGATTAGGATTTTTAATTAAGTTAGGT
1 TTAGGGTTAGGATTTTTAATTAAGTTAGGTTAGGGTTAGGATTAGGATTTTTAATTAAGTTAGGT
236778 TAGGGTTAGGGTTTTTAATTAAGTTAGG
66 TAGGGTTAGGGTTTTTAATTAAGTTAGG
236806 TTAGGGTTAGG
1 TTAGGGTTAGG
236817 TTAGGGTTTT
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 99 1.00
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.45
Consensus pattern (93 bp):
TTAGGGTTAGGATTTTTAATTAAGTTAGGTTAGGGTTAGGATTAGGATTTTTAATTAAGTTAGGT
TAGGGTTAGGGTTTTTAATTAAGTTAGG
Found at i:236805 original size:18 final size:18
Alignment explanation
Indices: 236782--236846 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
236772 TTAGGTTAGG
236782 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**** *
236800 GTTA-GG-TTAGGGTTAG
1 GTTAGGGTTTTTAATTAA
*
236816 GTTAGGGTTTTCAATTAA
1 GTTAGGGTTTTTAATTAA
*
236834 ATTAGGGTTTTTA
1 GTTAGGGTTTTTA
236847 TTTTATTATA
Statistics
Matches: 33, Mismatches: 12, Indels: 4
0.67 0.24 0.08
Matches are distributed among these distances:
16 9 0.27
17 4 0.12
18 20 0.61
ACGTcount: A:0.25, C:0.02, G:0.28, T:0.46
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:236816 original size:11 final size:11
Alignment explanation
Indices: 236800--236824 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
236790 TTTTAATTAA
236800 GTTAGGTTAGG
1 GTTAGGTTAGG
236811 GTTAGGTTAGG
1 GTTAGGTTAGG
236822 GTT
1 GTT
236825 TTCAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (11 bp):
GTTAGGTTAGG
Found at i:236930 original size:25 final size:25
Alignment explanation
Indices: 236896--237006 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 25
236886 TTTCTATGCC
* *
236896 TATTATATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTA
236921 TATTACATCAAAT-AA-TATC-A--A
1 TATTACATCAAATAAACT-TCTATTA
* * * *
236942 AATAAC-TCGAAA-AAATTTCTATGCA
1 TATTACATC-AAATAAACTTCTAT-TA
*
236967 TATTACATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTA
236992 TATTACATCAAATAA
1 TATTACATCAAATAA
237007 TAAATTTAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
20 2 0.03
21 11 0.16
22 2 0.03
23 2 0.03
24 4 0.06
25 35 0.52
26 11 0.16
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (25 bp):
TATTACATCAAATAAACTTCTATTA
Found at i:236961 original size:71 final size:71
Alignment explanation
Indices: 236845--237008 Score: 292
Period size: 71 Copynumber: 2.3 Consensus size: 71
236835 TTAGGGTTTT
* * *
236845 TATTTTATTATATCAAATAATATCAAAATAACTCAAAAAAATTTCTATGCCTATTATATCAAATA
1 TATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATGCATATTACATCAAATA
236910 AACTTC
66 AACTTC
*
236916 TATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTCTATGCATATTACATCAAATA
1 TATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATGCATATTACATCAAATA
236981 AACTTC
66 AACTTC
236987 TATTTTATTACATCAAATAATA
1 TATTTTATTACATCAAATAATA
237009 AATTTAAATA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 89 1.00
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (71 bp):
TATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATGCATATTACATCAAATA
AACTTC
Found at i:237144 original size:21 final size:21
Alignment explanation
Indices: 237115--237172 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
237105 TCGGCAGCAG
*
237115 TTGTTCTTCTTCCGGTGGTGA
1 TTGTGCTTCTTCCGGTGGTGA
237136 TTGTGCTTCTTCCGGTGGTGA
1 TTGTGCTTCTTCCGGTGGTGA
237157 TTGTGCTTCTTCCGGT
1 TTGTGCTTCTTCCGGT
237173 TCGACATCTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.03, C:0.21, G:0.29, T:0.47
Consensus pattern (21 bp):
TTGTGCTTCTTCCGGTGGTGA
Found at i:239188 original size:51 final size:51
Alignment explanation
Indices: 239073--239188 Score: 205
Period size: 51 Copynumber: 2.3 Consensus size: 51
239063 TATTTTAAAA
* *
239073 AAGGAAATTGAGAAGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTGG
*
239124 AAGGAAATTGAGAGGAAATTGAAATTAAATATGGGTTTCAGAGAATTTTGG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTGG
239175 AAGGAAATTGAGAG
1 AAGGAAATTGAGAG
239189 AATTTTGTGA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.44, C:0.01, G:0.28, T:0.28
Consensus pattern (51 bp):
AAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTGG
Found at i:239209 original size:22 final size:21
Alignment explanation
Indices: 239163--239210 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
239153 TATGGGTTTC
239163 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAA-TG
239185 AGAGAATTTTGTGAAAGGAAA-G
1 AGAGAATTTTG-G-AAGGAAATG
239207 AGAG
1 AGAG
239211 GATTAGAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 16 0.67
23 1 0.04
24 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (21 bp):
AGAGAATTTTGGAAGGAAATG
Done.