Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold307
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: 546686
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.31
Warning! 20572 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:5101 original size:114 final size:113
Alignment explanation
Indices: 4899--5245 Score: 523
Period size: 113 Copynumber: 3.1 Consensus size: 113
4889 GCTTAACGCC
* ** * * *
4899 AAACGCCGTTGAAGAACAAATTATTAGCGGCGTTTGGGCAAAAACCGCCACTAGTGTTCCCAAAT
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGC-AAAACCGCCACTAATGTTCCCAAAT
*
4964 ATATGAAAACGGCGTCGTTCTGTGTTACTCTATTTGCGACGCTTTTTGTA
65 ATATGAAAACGGCGTCGTTCTGTGTTACTCTA-TTGCGGCGCTTTTTGTA
*
5014 AAACGCCGCTGAAGAATGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
* * * *
5079 TATGAAAACGGCATCATTCTGTGTTACTCCATTGCGGCGCTTTTTATA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
* * *
5127 AAACGCCGCTGAAGAACGGAGTTTTAGCGGCGCTTGGGAAAAACCGCCACTTATGTTCCCAAATA
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
* *
5192 TATGAAAACGACGTCGTTCTGTGTGACTCTATTGCGGCGCTTTTTGTA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
5240 AAACGC
1 AAACGC
5246 TGCTAATGCT
Statistics
Matches: 210, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
113 124 0.59
114 53 0.25
115 33 0.16
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (113 bp):
AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
Found at i:5369 original size:41 final size:40
Alignment explanation
Indices: 5225--5372 Score: 124
Period size: 40 Copynumber: 3.7 Consensus size: 40
5215 TGACTCTATT
* * *
5225 GCGGCGCTTTTT-GTAAAACGCTGCTAATGCTTGGT-TTTA
1 GCGGCG-TTTTTCGTAAAACGCCGCTAATGCTCGATATTTA
* * * *
5264 GCGGCGTTTTT-TTATGTAGCGCCGCTAATGCTCGATATTTT
1 GCGGCGTTTTTCGTA--AAACGCCGCTAATGCTCGATATTTA
*
5305 GCGGCGTTTTTCGTAAAATGCCGCTAATGCTCGAT-TATTA
1 GCGGCGTTTTTCGTAAAACGCCGCTAATGCTCGATAT-TTA
* * *
5345 GTGGCGTTTTTTGTCCAAACGCCGCTAA
1 GCGGCGTTTTTCGT-AAAACGCCGCTAA
5373 AAGTGCCGCT
Statistics
Matches: 87, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
38 7 0.08
39 7 0.08
40 46 0.53
41 25 0.29
42 2 0.02
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.37
Consensus pattern (40 bp):
GCGGCGTTTTTCGTAAAACGCCGCTAATGCTCGATATTTA
Found at i:5401 original size:26 final size:26
Alignment explanation
Indices: 5365--5416 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
5355 TTGTCCAAAC
*
5365 GCCGCTAAAAGTGCCGCTATATCCCT
1 GCCGCTAAAAGCGCCGCTATATCCCT
5391 GCCGCTAAAAGCGCCGCTATATCCCT
1 GCCGCTAAAAGCGCCGCTATATCCCT
5417 ATTTTGGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.21
Consensus pattern (26 bp):
GCCGCTAAAAGCGCCGCTATATCCCT
Found at i:6313 original size:16 final size:17
Alignment explanation
Indices: 6292--6324 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6282 AACAGAAACC
6292 TAAAAT-ATAAATTAGA
1 TAAAATAATAAATTAGA
*
6308 TAAAATAATAATTTAGA
1 TAAAATAATAAATTAGA
6325 ACAATTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
TAAAATAATAAATTAGA
Found at i:7213 original size:16 final size:16
Alignment explanation
Indices: 7189--7236 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
7179 AATACCAATA
*
7189 TTTAGTTTTATATT-TT
1 TTTAATTTTA-ATTATT
7205 TTTAATTTTAATTATT
1 TTTAATTTTAATTATT
7221 TTTAAAATTTTAATTA
1 TTT--AATTTTAATTA
7237 CAATTCTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 3 0.11
16 14 0.50
18 11 0.39
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTAATTTTAATTATT
Found at i:8312 original size:37 final size:37
Alignment explanation
Indices: 8262--8334 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
8252 ATAAATCAAG
8262 ATGGTCATATAATGGAGGCAATGCTCCTAAAGAGAGA
1 ATGGTCATATAATGGAGGCAATGCTCCTAAAGAGAGA
*
8299 ATGGTCATATAATGGAGGCAATGCTCTTAAAGAGAG
1 ATGGTCATATAATGGAGGCAATGCTCCTAAAGAGAG
8335 CTAAGACATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.23
Consensus pattern (37 bp):
ATGGTCATATAATGGAGGCAATGCTCCTAAAGAGAGA
Found at i:18364 original size:43 final size:44
Alignment explanation
Indices: 18305--18392 Score: 169
Period size: 43 Copynumber: 2.0 Consensus size: 44
18295 ATTCAAATAA
18305 ATATGTAAAACAATATTTTTAATTAAATATAAATGTTAAATGTT
1 ATATGTAAAACAATATTTTTAATTAAATATAAATGTTAAATGTT
18349 ATATGTAAAAC-ATATTTTTAATTAAATATAAATGTTAAATGTT
1 ATATGTAAAACAATATTTTTAATTAAATATAAATGTTAAATGTT
18392 A
1 A
18393 CTAAAAAGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 33 0.75
44 11 0.25
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (44 bp):
ATATGTAAAACAATATTTTTAATTAAATATAAATGTTAAATGTT
Found at i:31682 original size:29 final size:27
Alignment explanation
Indices: 31633--31691 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
31623 AATCTATCCT
*
31633 TTTTATTTATTTATTTATTATTTAACTAA
1 TTTTATTTATTTAGTTATTATTT--CTAA
*
31662 TTTTATTTATTCTCGTT-TTATTTCTAA
1 TTTTATTTATT-TAGTTATTATTTCTAA
31689 TTT
1 TTT
31692 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTATTTATTTAGTTATTATTTCTAA
Found at i:31998 original size:125 final size:126
Alignment explanation
Indices: 31741--32062 Score: 366
Period size: 125 Copynumber: 2.6 Consensus size: 126
31731 TGGTATCAGT
* * * * * *
31741 TTCAGGCAAGATGCACTGTTAGCAAAAATACTGAAAAAAGCTCCCACGTAGACGCTCTTTTTCTA
1 TTCAAGCAAGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCTCACCTGGACGCTCTTTTTCT-
* * * * * *
31806 ACAATAGGTTTTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAACAGGGTCAAAAACGT
65 ATAGTAGGTTCTGAAAAAATAATTTAGAGAAGATGGTTCTGAAAAAACAGGGTAAAAAACGC
* * *
31868 TTCAAGCAAGATGCATTGTCAGCAAAAGTA-TAGAAAAAAGCTCTCACTTGGATGCTCTTTTTCT
1 TTCAAGCAAGATGCACTGTCAGCAAAAGTACT-GAAAAAAGCTCTCACCTGGACGCTCTTTTTCT
* * *
31932 ATAGTA-GTATCT-AAAAAATGATTTAGAGAAGATGG-TCTTGAAAAAATAGGGTAAAAAATGC
65 ATAGTAGGT-TCTGAAAAAATAATTTAGAGAAGATGGTTC-TGAAAAAACAGGGTAAAAAACGC
* * * *
31993 TTCAAGCAGGATGCACTGACAGTAAAAGTACTGAAAAAAGCT-TCCACCTGGACACTCTTTTTCT
1 TTCAAGCAAGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCT-CACCTGGACGCTCTTTTTCT
32057 ATAGTA
65 ATAGTA
32063 CATCCTGCTT
Statistics
Matches: 166, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
124 3 0.02
125 101 0.61
126 8 0.05
127 54 0.33
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (126 bp):
TTCAAGCAAGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCTCACCTGGACGCTCTTTTTCTA
TAGTAGGTTCTGAAAAAATAATTTAGAGAAGATGGTTCTGAAAAAACAGGGTAAAAAACGC
Found at i:32175 original size:25 final size:25
Alignment explanation
Indices: 32139--32200 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
32129 GAGAAACTAG
32139 AGAAGTTCAGAAGAATAAAAATTGA
1 AGAAGTTCAGAAGAATAAAAATTGA
* * *
32164 AGAAGTTTAGAAGAATATAAATTTA
1 AGAAGTTCAGAAGAATAAAAATTGA
*
32189 AGAAGTTGAGAA
1 AGAAGTTCAGAA
32201 TGTATAAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.53, C:0.02, G:0.21, T:0.24
Consensus pattern (25 bp):
AGAAGTTCAGAAGAATAAAAATTGA
Found at i:35295 original size:62 final size:61
Alignment explanation
Indices: 35219--35399 Score: 217
Period size: 62 Copynumber: 3.0 Consensus size: 61
35209 TCTATTACCT
* * * *
35219 TATTCAAAAGAACTTTTATTTTATTAAGTAGGACAAAATATAAAAATAATTTATTATTAAA-A
1 TATTCAAAACAACTTTTATTTTATTAAATAGGACAAAATATAAAAATAATTT-GTA-CAAATA
* * *
35281 TATTAAAAATAACTTCTATTTTATTAAATAGGACAAAATATAAAAATAATTTGTACAAATA
1 TATTCAAAACAACTTTTATTTTATTAAATAGGACAAAATATAAAAATAATTTGTACAAATA
* *
35342 TATTCAAAACAACTTTTATTTTATTAAAT--GA-AACAATAAAAAAAATAGTTTGTACAAA
1 TATTCAAAACAACTTTTATTTTATTAAATAGGACAA-AAT-ATAAAAATAATTTGTACAAA
35400 AAAATTAAAA
Statistics
Matches: 105, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
58 2 0.02
59 5 0.05
60 21 0.20
61 29 0.28
62 48 0.46
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.36
Consensus pattern (61 bp):
TATTCAAAACAACTTTTATTTTATTAAATAGGACAAAATATAAAAATAATTTGTACAAATA
Found at i:35300 original size:24 final size:24
Alignment explanation
Indices: 35253--35300 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
35243 TAAGTAGGAC
* *
35253 AAAATATAAAAATAATTTATTATT
1 AAAATATAAAAATAACTTACTATT
35277 AAAATATTAAAAATAACTT-CTATT
1 AAAATA-TAAAAATAACTTACTATT
35301 TTATTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAATATAAAAATAACTTACTATT
Found at i:37384 original size:26 final size:24
Alignment explanation
Indices: 37338--37385 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
37328 ACTGCTATAA
* *
37338 AAAATTATAAAATAAATATTAATT
1 AAAATTACAAAATAAAAATTAATT
37362 AAAATTACATAAATAAAAAATTAA
1 AAAATTACA-AAAT-AAAAATTAA
37386 ATAATATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 4 0.20
26 8 0.40
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAATTACAAAATAAAAATTAATT
Found at i:38240 original size:12 final size:12
Alignment explanation
Indices: 38223--38255 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
38213 CGGCCCGCCC
38223 ATATTAATTTTT
1 ATATTAATTTTT
38235 ATATT-ATTTTT
1 ATATTAATTTTT
38246 ATA-TAATTTT
1 ATATTAATTTT
38256 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:40191 original size:16 final size:16
Alignment explanation
Indices: 40150--40196 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
40140 TATTGAGATA
40150 GAATAGAGTTGTAATG
1 GAATAGAGTTGTAATG
* *
40166 TAAT-GAAGTTTTAATG
1 GAATAG-AGTTGTAATG
40182 GAATAGAGTTGTAAT
1 GAATAGAGTTGTAAT
40197 TAATAATTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (16 bp):
GAATAGAGTTGTAATG
Found at i:40403 original size:26 final size:28
Alignment explanation
Indices: 40366--40417 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
40356 TATATTAAAC
*
40366 TTTAATAGTATTGTT-AT-TAAATATAA
1 TTTAATAATATTGTTAATATAAATATAA
*
40392 TTTAATAATATTTTTAATATAAATAT
1 TTTAATAATATTGTTAATATAAATAT
40418 TTTTATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 2 0.09
28 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (28 bp):
TTTAATAATATTGTTAATATAAATATAA
Found at i:40418 original size:15 final size:15
Alignment explanation
Indices: 40398--40462 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
40388 ATAATTTAAT
40398 AATATTTTTA-ATATA
1 AATATTTTTATAT-TA
40413 AATATTTTTATATTA
1 AATATTTTTATATTA
*
40428 AAT-TATTT-TA--A
1 AATATTTTTATATTA
40439 AATATTTTTTATATTAA
1 AATA-TTTTTATATT-A
40456 AATATTT
1 AATATTT
40463 AACATATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
11 4 0.10
13 6 0.15
14 6 0.15
15 15 0.37
16 5 0.12
17 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AATATTTTTATATTA
Found at i:40444 original size:26 final size:26
Alignment explanation
Indices: 40412--40503 Score: 116
Period size: 26 Copynumber: 3.6 Consensus size: 26
40402 TTTTTAATAT
40412 AAATATTTTTATATTAAATTATTTTA
1 AAATATTTTTATATTAAATTATTTTA
*
40438 AAATATTTTTTATATTAAAATA-TTTA
1 AAATA-TTTTTATATTAAATTATTTTA
* *
40464 ACATA-TTTTATATTAAATTATATTA
1 AAATATTTTTATATTAAATTATTTTA
* *
40489 AAAGATTTTTTTATT
1 AAATATTTTTATATT
40504 TCCCTCATCT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 14 0.25
25 6 0.11
26 21 0.38
27 15 0.27
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (26 bp):
AAATATTTTTATATTAAATTATTTTA
Found at i:40446 original size:41 final size:45
Alignment explanation
Indices: 40380--40462 Score: 120
Period size: 43 Copynumber: 1.9 Consensus size: 45
40370 ATAGTATTGT
40380 TATTAAATATAATTTAATAATATTTTTAATA-T-AAATATTTTTA
1 TATTAAATATAATTTAATAATATTTTTAATATTAAAATATTTTTA
* *
40423 TATTAAAT-TATTTTAA-AATATTTTTTATATTAAAATATTT
1 TATTAAATATAATTTAATAATATTTTTAATATTAAAATATTT
40463 AACATATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
41 12 0.33
42 8 0.22
43 16 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (45 bp):
TATTAAATATAATTTAATAATATTTTTAATATTAAAATATTTTTA
Found at i:40455 original size:17 final size:17
Alignment explanation
Indices: 40430--40462 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
40420 TTATATTAAA
*
40430 TTATTTTAAAATATTTT
1 TTATATTAAAATATTTT
40447 TTATATTAAAATATTT
1 TTATATTAAAATATTT
40463 AACATATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATATTAAAATATTTT
Found at i:42449 original size:12 final size:12
Alignment explanation
Indices: 42432--42461 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
42422 ATAGGCATAG
42432 CCTTTGCGCTTA
1 CCTTTGCGCTTA
42444 CCTTTGCGCTTA
1 CCTTTGCGCTTA
42456 CACTTT
1 C-CTTT
42462 AAGCTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.10, C:0.33, G:0.13, T:0.43
Consensus pattern (12 bp):
CCTTTGCGCTTA
Found at i:42891 original size:21 final size:21
Alignment explanation
Indices: 42867--42909 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
42857 TTAATTACTG
* *
42867 AAAACAAAAAAACCCAAAAATA
1 AAAATAAAAAAA-CAAAAAATA
42889 AAAATAAAAAAACAAAAAATA
1 AAAATAAAAAAACAAAAAATA
42910 GATGATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.81, C:0.12, G:0.00, T:0.07
Consensus pattern (21 bp):
AAAATAAAAAAACAAAAAATA
Found at i:43022 original size:60 final size:60
Alignment explanation
Indices: 42929--43050 Score: 219
Period size: 60 Copynumber: 2.0 Consensus size: 60
42919 TTATAACACC
42929 TCAAAACCCAGCCTAGAAGTTTAAACTGAATCTCGGAG-TTCACATTGATCATCGAAGTGA
1 TCAAAACCCAGCCTAGAAGTTTAAACTGAATCTCGGAGATT-ACATTGATCATCGAAGTGA
*
42989 TCAAAACCCAGCCTAGAAGTTTAGACTGAATCTCGGAGATTACATTGATCATCGAAGTGA
1 TCAAAACCCAGCCTAGAAGTTTAAACTGAATCTCGGAGATTACATTGATCATCGAAGTGA
43049 TC
1 TC
43051 GTAGGAAAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
60 58 0.97
61 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (60 bp):
TCAAAACCCAGCCTAGAAGTTTAAACTGAATCTCGGAGATTACATTGATCATCGAAGTGA
Found at i:48025 original size:53 final size:53
Alignment explanation
Indices: 47960--48065 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
47950 TGTTGTGCAC
* *
47960 ACATCCAAAAATCTGTTTTGCAGTAGGATTGGTGAGTCAATATTAGAAAATCT
1 ACATCCAAAAATCTATTTTGCAGTAGGATTGGTGAGTCAATATCAGAAAATCT
*
48013 ACATCCATAAATCTATTTTGCAGTAGGATTGGTGAGTCAATATCAGAAAATCT
1 ACATCCAAAAATCTATTTTGCAGTAGGATTGGTGAGTCAATATCAGAAAATCT
48066 TGGTTTAAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (53 bp):
ACATCCAAAAATCTATTTTGCAGTAGGATTGGTGAGTCAATATCAGAAAATCT
Found at i:54428 original size:18 final size:18
Alignment explanation
Indices: 54388--54425 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
54378 GTTAACGAAC
54388 AAATATATAAATATAAAT
1 AAATATATAAATATAAAT
* *
54406 AAATATCTATATA-AAAT
1 AAATATATAAATATAAAT
54423 AAA
1 AAA
54426 ATAAATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATATATAAATATAAAT
Found at i:67482 original size:23 final size:21
Alignment explanation
Indices: 67461--67501 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67451 AGCTTTTCTA
67461 TAAAACTCTGTTTTAAAGTTC
1 TAAAACTCTGTTTTAAAGTTC
* *
67482 TAAGACTCTGTTTTTAAGTT
1 TAAAACTCTGTTTTAAAGTT
67502 ATTTTTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (21 bp):
TAAAACTCTGTTTTAAAGTTC
Found at i:76741 original size:35 final size:35
Alignment explanation
Indices: 76687--76756 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
76677 TAATTTGCAA
*
76687 AACTGTTAAAGGTTAAGGGACTTGCCAAGAATGTT
1 AACTGTTAAAAGTTAAGGGACTTGCCAAGAATGTT
* *
76722 AACTGTTAAAAGTTGAGGGACTTGCCATGAATGTT
1 AACTGTTAAAAGTTAAGGGACTTGCCAAGAATGTT
76757 CTTGAATGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (35 bp):
AACTGTTAAAAGTTAAGGGACTTGCCAAGAATGTT
Found at i:78643 original size:12 final size:12
Alignment explanation
Indices: 78626--78655 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
78616 CGGTAAGGAT
78626 ACGGGCTGGGAC
1 ACGGGCTGGGAC
78638 ACGGGCTGGGAC
1 ACGGGCTGGGAC
*
78650 ATGGGC
1 ACGGGC
78656 GTGTGTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.50, T:0.10
Consensus pattern (12 bp):
ACGGGCTGGGAC
Found at i:88720 original size:20 final size:18
Alignment explanation
Indices: 88695--88731 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
88685 ACCTAACACA
88695 AATTAAATTTAAATCATATT
1 AATTAAA-TTAAAT-ATATT
88715 AATTAAATTAAATATAT
1 AATTAAATTAAATATAT
88732 CAACATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTAAATTAAATATATT
Found at i:102928 original size:31 final size:31
Alignment explanation
Indices: 102890--102959 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
102880 AGAGTCAAGT
*
102890 CTAAAATT-TCAAAATTCAAAAAGTACAGAGA
1 CTAAAATTGACAAAATT-AAAAAGTACAGAGA
* * * *
102921 CTAAAATTGACCAACTTTAAAAGTACAGTGA
1 CTAAAATTGACAAAATTAAAAAGTACAGAGA
102952 CTAAAATT
1 CTAAAATT
102960 AATCAAATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 28 0.85
32 5 0.15
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (31 bp):
CTAAAATTGACAAAATTAAAAAGTACAGAGA
Found at i:102981 original size:29 final size:31
Alignment explanation
Indices: 102908--102985 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
102898 TCAAAATTCA
* *
102908 AAAAGTACAGA-GACTAAAATTGACCAACTTT
1 AAAAGTACA-ATGACTAAAATTAACCAACATT
* *
102939 AAAAGTACAGTGACTAAAATTAATCAA-ATT
1 AAAAGTACAATGACTAAAATTAACCAACATT
102969 -AAAGTACAATGACTAAA
1 AAAAGTACAATGACTAAA
102986 CCCACAACTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 16 0.39
30 2 0.05
31 23 0.56
ACGTcount: A:0.53, C:0.13, G:0.12, T:0.23
Consensus pattern (31 bp):
AAAAGTACAATGACTAAAATTAACCAACATT
Found at i:104121 original size:8 final size:8
Alignment explanation
Indices: 104096--104127 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
104086 TTACCTGCAC
104096 TTTTAGGG
1 TTTTAGGG
104104 -TTTA-GG
1 TTTTAGGG
104110 TTTTAGGG
1 TTTTAGGG
104118 TTTTAGGG
1 TTTTAGGG
104126 TT
1 TT
104128 AAGAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 2 0.09
7 8 0.36
8 12 0.55
ACGTcount: A:0.12, C:0.00, G:0.34, T:0.53
Consensus pattern (8 bp):
TTTTAGGG
Found at i:104657 original size:22 final size:22
Alignment explanation
Indices: 104629--104677 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
104619 TTTTCGTGTT
104629 AATTATTTTTTAAGAAAAAATA
1 AATTATTTTTTAAGAAAAAATA
104651 AATTATTTTTTAAGAAAAAATA
1 AATTATTTTTTAAGAAAAAATA
104673 AATTA
1 AATTA
104678 AAGTAGGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
AATTATTTTTTAAGAAAAAATA
Found at i:104987 original size:35 final size:35
Alignment explanation
Indices: 104947--105112 Score: 100
Period size: 35 Copynumber: 4.5 Consensus size: 35
104937 TAACATTTTT
* *
104947 TTAGTAAAATTATTAATTGTTAATTGTATTAATTG
1 TTAGTAAAATTATAAATTGTTAAATGTATTAATTG
*
104982 TTAGTAAAATTATCAAATTATATCAAATG-ATTAATTG
1 TTAGTAAAATTAT-AAATTGT-T-AAATGTATTAATTG
* * * * * * ** * *
105019 TTAGTACCAGTCAAAACATTTTGTAAAATCTAACATTTTT
1 TTAGTA-AAATTATAA-A--TTGTTAAATGTATTA-ATTG
* * *
105059 TTAGTAAAATTATTAATTGTTAATTGTATTAAATG
1 TTAGTAAAATTATAAATTGTTAAATGTATTAATTG
105094 TTAGTAAAATTATCAAATT
1 TTAGTAAAATTAT-AAATT
105113 ATATCAGATT
Statistics
Matches: 93, Mismatches: 28, Indels: 19
0.66 0.20 0.14
Matches are distributed among these distances:
35 27 0.29
36 19 0.20
37 17 0.18
38 13 0.14
39 6 0.06
40 11 0.12
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (35 bp):
TTAGTAAAATTATAAATTGTTAAATGTATTAATTG
Found at i:105006 original size:112 final size:112
Alignment explanation
Indices: 104884--105123 Score: 392
Period size: 112 Copynumber: 2.1 Consensus size: 112
104874 CTTGTTATTA
* * * *
104884 AAATTATATCAGATTA-TATTTTTTTTGTACCAATCAAAATATTTTGTAAAATCTAACATTTTTT
1 AAATTATATCAGATTATTA-ATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTTT
*
104948 TAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATC
65 TAGTAAAATTATTAATTGTTAATTGTATTAAATGTTAGTAAAATTATC
* * *
104996 AAATTATATCAAATGATTAATTGTTAGTACCAGTCAAAACATTTTGTAAAATCTAACATTTTTTT
1 AAATTATATCAGATTATTAATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTTTT
105061 AGTAAAATTATTAATTGTTAATTGTATTAAATGTTAGTAAAATTATC
66 AGTAAAATTATTAATTGTTAATTGTATTAAATGTTAGTAAAATTATC
105108 AAATTATATCAGATTA
1 AAATTATATCAGATTA
105124 GGGTTAGGGT
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
112 115 0.98
113 2 0.02
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (112 bp):
AAATTATATCAGATTATTAATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTTTT
AGTAAAATTATTAATTGTTAATTGTATTAAATGTTAGTAAAATTATC
Found at i:105101 original size:56 final size:56
Alignment explanation
Indices: 104929--105103 Score: 171
Period size: 56 Copynumber: 3.1 Consensus size: 56
104919 AAAATATTTT
*
104929 GTAAAATCTAACATTTTTTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTA
1 GTAAAATCTAACATTTTTTTAGTAAAATTATTAATTGTTAATTGTATTAAATGTTA
* ** * * * ** * *
104985 GTAAAAT-TATCA-AATTATA-TCAAATGATTAATTGTTAGTACCAGTCA-AAACAT-TTT
1 GTAAAATCTAACATTTTTTTAGTAAAATTATTAATTGTTA--A-TTGT-ATTAA-ATGTTA
105041 GTAAAATCTAACATTTTTTTAGTAAAATTATTAATTGTTAATTGTATTAAATGTTA
1 GTAAAATCTAACATTTTTTTAGTAAAATTATTAATTGTTAATTGTATTAAATGTTA
105097 GTAAAAT
1 GTAAAAT
105104 TATCAAATTA
Statistics
Matches: 88, Mismatches: 21, Indels: 20
0.68 0.16 0.16
Matches are distributed among these distances:
53 16 0.18
54 4 0.05
55 8 0.09
56 33 0.38
57 7 0.08
58 4 0.05
59 16 0.18
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.45
Consensus pattern (56 bp):
GTAAAATCTAACATTTTTTTAGTAAAATTATTAATTGTTAATTGTATTAAATGTTA
Found at i:105199 original size:6 final size:6
Alignment explanation
Indices: 105188--105231 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
105178 GGTTTTTAAG
*
105188 GGGTTA GGGTTA GGGTTTTAA GGGTTA GGGTTA TGGTTA GGGTT
1 GGGTTA GGGTTA GGG--TT-A GGGTTA GGGTTA GGGTTA GGGTT
105232 TTTAAGTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 25 0.76
7 2 0.06
8 2 0.06
9 4 0.12
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (6 bp):
GGGTTA
Found at i:105214 original size:21 final size:22
Alignment explanation
Indices: 105176--105225 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
105166 TTTTAAGTTA
105176 AGGGTTTTTAAGGGGTTAGGGTT
1 AGGG-TTTTAAGGGGTTAGGGTT
105199 AGGGTTTTAA-GGGTTAGGGTT
1 AGGGTTTTAAGGGGTTAGGGTT
*
105220 ATGGTT
1 AGGGTT
105226 AGGGTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 16 0.62
22 6 0.23
23 4 0.15
ACGTcount: A:0.18, C:0.00, G:0.42, T:0.40
Consensus pattern (22 bp):
AGGGTTTTAAGGGGTTAGGGTT
Found at i:105218 original size:27 final size:27
Alignment explanation
Indices: 105183--105940 Score: 169
Period size: 27 Copynumber: 28.8 Consensus size: 27
105173 TTAAGGGTTT
105183 TTAAGGGGTTAGGGTTAGGG-TTTTAAGGG
1 TTAA-GGGTTAGGGTTAGGGTTTTTAA--G
*
105212 TT-AGGGTTATGGTTAGGGTTTTTAAG
1 TTAAGGGTTAGGGTTAGGGTTTTTAAG
* * * *
105238 TTAAGGTTTAGGGTTAGGG-CTAT-GG
1 TTAAGGGTTAGGGTTAGGGTTTTTAAG
*** * *
105263 TT-TTTGTTAGCGTTTTGGTGTTTTTAAG
1 TTAAGGGTTAG-GGTTAGG-GTTTTTAAG
105291 TT-A-----AGGGTTAGGGTTTTTAAG
1 TTAAGGGTTAGGGTTAGGGTTTTTAAG
*
105312 TTAAGGGTTAGGGTTAGAGTTTTTAAG
1 TTAAGGGTTAGGGTTAGGGTTTTTAAG
*
105339 TTAAGTGTTAAGGCTATGGTTAGGGTTTTTAAG
1 TTAAGGGTT-A-G----GGTTAGGGTTTTTAAG
* * *
105372 TTAAGGGTTAGGGCTAGGG---CTAGGG
1 TTAAGGGTTAGGGTTAGGGTTTTTA-AG
*** *
105397 TT-TTTGTTAGGGTTTTGGTGTTTTTAAG
1 TTAAGGGTTAGGG-TTAGG-GTTTTTAAG
105425 TTAAGGGTTAGGGTTAGGGTTTTTAAG
1 TTAAGGGTTAGGGTTAGGGTTTTTAAG
**
105452 TTAGAGGTAAGGGTTTTGGTTAGGGTTTTTAAG
1 -T-----TAAGGGTTAGGGTTAGGGTTTTTAAG
** *
105485 TTAACAGTTAGGGTTAGGG---TTAGGG
1 TTAAGGGTTAGGGTTAGGGTTTTTA-AG
* *
105510 TT-AGGGTTAGGGCTAGTGTTTTT--G
1 TTAAGGGTTAGGGTTAGGGTTTTTAAG
105534 TT-AGGGTT----TT--GGTGTTTTAAG
1 TTAAGGGTTAGGGTTAGGGT-TTTTAAG
* *
105555 TTAAGGGTT---TTTA-AG---TTAAGGG
1 TTAAGGGTTAGGGTTAGGGTTTTTAA--G
105577 TT-AGGGTTAGGGTTAGGGTTTTTAAG
1 TTAAGGGTTAGGGTTAGGGTTTTTAAG
**
105603 TTAGAGGTAAGGGTTTTGGTTAGGGTTTTTAAG
1 -T-----TAAGGGTTAGGGTTAGGGTTTTTAAG
** *
105636 TTAACAGTTAGGGTTAGGG---TTAGGG
1 TTAAGGGTTAGGGTTAGGGTTTTTA-AG
* *
105661 TT-AGGGTTAGGGCTAGTGTTTTT--G
1 TTAAGGGTTAGGGTTAGGGTTTTTAAG
105685 TT-AGGGTT----TT--GGTGTTTTAAG
1 TTAAGGGTTAGGGTTAGGGT-TTTTAAG
* *
105706 TTAAGGGTT---TTTA-AG---TTAAGGG
1 TTAAGGGTTAGGGTTAGGGTTTTTAA--G
105728 TT-AGGGTTAGGGTT-----TTTTAAG
1 TTAAGGGTTAGGGTTAGGGTTTTTAAG
105749 TTAAGGGTTAGGGTTAGGG-TTTTAAG
1 TTAAGGGTTAGGGTTAGGGTTTTTAAG
*
105775 TTAAGGGTTAGGGTTATGGTTAGGGTTTCAAG
1 TTAAGGGTTAGGGTTAGGGTT----TTT-AAG
* *
105807 TTAATGGTTAGGGTTAGGGCTAGGGTTTT-TG
1 TTAAGGGTTAGGGTTAGGG-T----TTTTAAG
**
105838 TT-AGGGTTTTGG-TA---TTTTTAAG
1 TTAAGGGTTAGGGTTAGGGTTTTTAAG
105860 TTAAGGGTTAGGGTTAGGGTTTTTAAG
1 TTAAGGGTTAGGGTTAGGGTTTTTAAG
**
105887 TTAGAGGTAAGGGTTTTGGTTAGGGTTTTTAAG
1 -T-----TAAGGGTTAGGGTTAGGGTTTTTAAG
**
105920 TTAACAGTTAGGGTTAGGGTT
1 TTAAGGGTTAGGGTTAGGGTT
105941 AAATTCAGTG
Statistics
Matches: 544, Mismatches: 83, Indels: 206
0.65 0.10 0.25
Matches are distributed among these distances:
18 4 0.01
19 8 0.01
20 10 0.02
21 36 0.07
22 39 0.07
23 18 0.03
24 70 0.13
25 22 0.04
26 33 0.06
27 129 0.24
28 24 0.04
29 14 0.03
30 7 0.01
31 7 0.01
32 25 0.05
33 97 0.18
37 1 0.00
ACGTcount: A:0.20, C:0.02, G:0.36, T:0.43
Consensus pattern (27 bp):
TTAAGGGTTAGGGTTAGGGTTTTTAAG
Found at i:105242 original size:33 final size:33
Alignment explanation
Indices: 105205--105511 Score: 164
Period size: 33 Copynumber: 9.8 Consensus size: 33
105195 GGTTAGGGTT
*
105205 TTAAGGGTTAGGGTTATGGTTAGGGTTTTTAAG
1 TTAAGGGTTAGGGTTAGGGTTAGGGTTTTTAAG
* * * *
105238 TTAAGGTTTAGGGTTAGGGCTATGGTTTTTGTTAGCG
1 TTAAGGGTTAGGGTTAGGGTTA-GG-GTTT-TTA-AG
** *
105275 TTTTGGTGTTTTTA-AGTTAAGGGTTAGGGTTTTTAAG
1 TTAAGG-G---TTAGGGTT-AGGGTTAGGGTTTTTAAG
105312 TTAAGGGTTAGGGTTA--G--A--GTTTTTAAG
1 TTAAGGGTTAGGGTTAGGGTTAGGGTTTTTAAG
* * * *
105339 TTAAGTGTTAAGGCTATGGTTAGGGTTTTTAAG
1 TTAAGGGTTAGGGTTAGGGTTAGGGTTTTTAAG
* *
105372 TTAAGGGTTAGGGCTAGGGCTAGGGTTTTT--G
1 TTAAGGGTTAGGGTTAGGGTTAGGGTTTTTAAG
105403 TT-AGGGTT----TT--GG-T---GTTTTTAAG
1 TTAAGGGTTAGGGTTAGGGTTAGGGTTTTTAAG
105425 TTAAGGG-T-----TAGGGTTAGGGTTTTTAAG
1 TTAAGGGTTAGGGTTAGGGTTAGGGTTTTTAAG
* **
105452 TT-AGAGGTAAGGGTTTTGGTTAGGGTTTTTAAG
1 TTAAG-GGTTAGGGTTAGGGTTAGGGTTTTTAAG
**
105485 TTAACAGTTAGGGTTAGGGTTAGGGTT
1 TTAAGGGTTAGGGTTAGGGTTAGGGTT
105512 AGGGTTAGGG
Statistics
Matches: 210, Mismatches: 31, Indels: 66
0.68 0.10 0.21
Matches are distributed among these distances:
20 6 0.03
21 1 0.00
22 4 0.02
23 7 0.03
24 3 0.01
26 3 0.01
27 35 0.17
29 2 0.01
30 6 0.03
31 5 0.02
33 95 0.45
34 6 0.03
35 3 0.01
36 4 0.02
37 10 0.05
38 3 0.01
39 3 0.01
40 5 0.02
41 9 0.04
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.43
Consensus pattern (33 bp):
TTAAGGGTTAGGGTTAGGGTTAGGGTTTTTAAG
Found at i:105306 original size:21 final size:21
Alignment explanation
Indices: 105282--105326 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
105272 GCGTTTTGGT
105282 GTTTTTAAGTTAAGGGTTAGG
1 GTTTTTAAGTTAAGGGTTAGG
105303 GTTTTTAAGTTAAGGGTTAGG
1 GTTTTTAAGTTAAGGGTTAGG
105324 GTT
1 GTT
105327 AGAGTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (21 bp):
GTTTTTAAGTTAAGGGTTAGG
Found at i:105420 original size:113 final size:113
Alignment explanation
Indices: 105303--105511 Score: 323
Period size: 113 Copynumber: 1.8 Consensus size: 113
105293 AAGGGTTAGG
105303 GTTTTTAAGTTAAGGGTTAGGGTTAGAGTTTTTAAGTTA-AGTGTTAA-GGCTATGGTTAGGGTT
1 GTTTTTAAGTTAAGGGTTAGGGTTAGAGTTTTTAAGTTAGAG-G-TAAGGGCTATGGTTAGGGTT
**
105366 TTTAAGTTAAGGGTTAGGGCTAGGGCTAGGGTTTTTGTTAGGGTTTTGGT
64 TTTAAGTTAACAGTTAGGGCTAGGGCTAGGGTTTTTGTTAGGGTTTTGGT
* * *
105416 GTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAGAGGTAAGGGTTTTGGTTAGGGTTTT
1 GTTTTTAAGTTAAGGGTTAGGGTTAGAGTTTTTAAGTTAGAGGTAAGGGCTATGGTTAGGGTTTT
* *
105481 TAAGTTAACAGTTAGGGTTAGGGTTAGGGTT
66 TAAGTTAACAGTTAGGGCTAGGGCTAGGGTT
105512 AGGGTTAGGG
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
112 3 0.03
113 82 0.94
114 2 0.02
ACGTcount: A:0.21, C:0.02, G:0.35, T:0.42
Consensus pattern (113 bp):
GTTTTTAAGTTAAGGGTTAGGGTTAGAGTTTTTAAGTTAGAGGTAAGGGCTATGGTTAGGGTTTT
TAAGTTAACAGTTAGGGCTAGGGCTAGGGTTTTTGTTAGGGTTTTGGT
Found at i:105502 original size:6 final size:6
Alignment explanation
Indices: 105491--105521 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
105481 TAAGTTAACA
105491 GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG G
1 GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG G
105522 CTAGTGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (6 bp):
GTTAGG
Found at i:105568 original size:15 final size:15
Alignment explanation
Indices: 105548--105578 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
105538 GGTTTTGGTG
105548 TTTTAAGTTAAGGGT
1 TTTTAAGTTAAGGGT
105563 TTTTAAGTTAAGGGT
1 TTTTAAGTTAAGGGT
105578 T
1 T
105579 AGGGTTAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (15 bp):
TTTTAAGTTAAGGGT
Found at i:105596 original size:33 final size:33
Alignment explanation
Indices: 105558--105941 Score: 198
Period size: 33 Copynumber: 12.0 Consensus size: 33
105548 TTTTAAGTTA
105558 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTT
* **
105591 AGGGTTTTTAAGTT-AGAGGTAAGGGTTTTGGTT
1 AGGGTTTTTAAGTTAAG-GGTTAGGGTTAGGGTT
**
105624 AGGGTTTTTAAGTTAACAGTTAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTT
* * * * ***
105657 AGGGTTAGGGTTAGGGCT-AGTGTTTTTGTTAGGGTT
1 AGGGTT---TTTA-AGTTAAGGGTTAGGGTTAGGGTT
**
105693 TTGGTGTTTTAAGTTAAGGGTTTTTAAGTTAAGGGTTAGGGTT
1 AGGGT-TTTTAAGTTAA-GG-------GTT-AGGGTTAGGGTT
105736 AGGG-TTTT---TTAA--GTTAAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTT-AGGGTTAGGGTT
*
105764 AGGG-TTTTAAGTTAAGGGTTAGGGTTATGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTT
* * *
105796 AGGG-TTTCAAGTTAATGGTTAGGGTTAGGGCT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTT
105828 AGGGTTTTT--GTT-AGGGTT----TT--GG-T
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTT
105851 A---TTTTTAAGTTAAGGG------TTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTT
* **
105875 AGGGTTTTTAAGTT-AGAGGTAAGGGTTTTGGTT
1 AGGGTTTTTAAGTTAAG-GGTTAGGGTTAGGGTT
**
105908 AGGGTTTTTAAGTTAACAGTTAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTT
105941 A
1 A
105942 AATTCAGTGC
Statistics
Matches: 270, Mismatches: 41, Indels: 80
0.69 0.10 0.20
Matches are distributed among these distances:
20 5 0.02
21 2 0.01
22 3 0.01
23 8 0.03
24 4 0.01
26 4 0.01
27 12 0.04
28 24 0.09
30 5 0.02
31 7 0.03
32 45 0.17
33 100 0.37
34 6 0.02
35 1 0.00
36 19 0.07
37 3 0.01
38 4 0.01
41 4 0.01
42 3 0.01
43 11 0.04
ACGTcount: A:0.21, C:0.01, G:0.36, T:0.42
Consensus pattern (33 bp):
AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTT
Found at i:105653 original size:6 final size:6
Alignment explanation
Indices: 105642--105672 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
105632 TAAGTTAACA
105642 GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG G
1 GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG G
105673 CTAGTGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (6 bp):
GTTAGG
Found at i:105719 original size:15 final size:15
Alignment explanation
Indices: 105699--105757 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
105689 GGTTTTGGTG
105699 TTTTAAGTTAAGGGT
1 TTTTAAGTTAAGGGT
105714 TTTTAAGTTAAGGG-
1 TTTTAAGTTAAGGGT
*
105728 --TTAGGGTT-AGGGTT
1 TTTTA-AGTTAAGGG-T
105742 TTTTAAGTTAAGGGT
1 TTTTAAGTTAAGGGT
105757 T
1 T
105758 AGGGTTAGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
12 7 0.19
13 3 0.08
15 19 0.53
16 7 0.19
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.46
Consensus pattern (15 bp):
TTTTAAGTTAAGGGT
Found at i:105729 original size:145 final size:145
Alignment explanation
Indices: 105416--105941 Score: 714
Period size: 151 Copynumber: 3.6 Consensus size: 145
105406 GGGTTTTGGT
105416 GTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAGAGGTAAGGGTTTTGGTTAGGGTTTT
1 GTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAGAGGTAAGGGTTTTGGTTAGGGTTTT
105481 TAAGTTAACAGTTAGGGTTAGGGTTAGGGTTAGGGTTAGGGCTAGTGTTTTTGTTAGGGTTTTGG
66 TAAGTTAACAGTTAGGGTTAGGGTTAGGGTTAGGGTTAGGGCTAGTGTTTTTGTTAGGGTTTTGG
105546 TGTTTTAAGTTAAGG
131 TGTTTTAAGTTAAGG
105561 GTTTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGGTTTTTAAGTTAGAGGTAAGGGTTTTGGTTAG
1 GTTTTTAAGTT-A-----AGGGTTAGGGTTAGGGTTTTTAAGTTAGAGGTAAGGGTTTTGGTTAG
105626 GGTTTTTAAGTTAACAGTTAGGGTTAGGGTTAGGGTTAGGGTTAGGGCTAGTGTTTTTGTTAGGG
60 GGTTTTTAAGTTAACAGTTAGGGTTAGGGTTAGGGTTAGGGTTAGGGCTAGTGTTTTTGTTAGGG
105691 TTTTGGTGTTTTAAGTTAAGG
125 TTTTGGTGTTTTAAGTTAAGG
* **
105712 GTTTTTAAGTTAAGGGTTAGGGTTAGGG-TTTT---TTA-AGTTAAGGGTTAGGGTTAGGG-TTT
1 GTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAGAGGTAAGGGTTTTGGTTAGGGTTTT
** * * * * * *** *
105771 TAAGTTAAGGGTTAGGGTTATGGTTAGGGTTTCA-AGTTAATGGTTAGGGTTAGGGCTAGGGTTT
66 TAAGTTAACAGTTAGGGTTAGGGTTAGGG-TT-AGGGTT-AGGGCTAGTGTTTTTGTTAGGGTTT
* **
105835 T--TG--TTAGGGTTTTGG
128 TGGTGTTTTA-AGTTAAGG
*
105850 TATTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAGAGGTAAGGGTTTTGGTTAGGGTTT
1 -GTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAGAGGTAAGGGTTTTGGTTAGGGTTT
105915 TTAAGTTAACAGTTAGGGTTAGGGTTA
65 TTAAGTTAACAGTTAGGGTTAGGGTTA
105942 AATTCAGTGC
Statistics
Matches: 340, Mismatches: 24, Indels: 34
0.85 0.06 0.09
Matches are distributed among these distances:
137 3 0.01
138 5 0.01
139 58 0.17
140 27 0.08
141 23 0.07
143 3 0.01
144 22 0.06
145 53 0.16
146 1 0.00
150 1 0.00
151 144 0.42
ACGTcount: A:0.21, C:0.01, G:0.36, T:0.42
Consensus pattern (145 bp):
GTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAGAGGTAAGGGTTTTGGTTAGGGTTTT
TAAGTTAACAGTTAGGGTTAGGGTTAGGGTTAGGGTTAGGGCTAGTGTTTTTGTTAGGGTTTTGG
TGTTTTAAGTTAAGG
Found at i:105735 original size:6 final size:6
Alignment explanation
Indices: 105724--105833 Score: 50
Period size: 6 Copynumber: 18.0 Consensus size: 6
105714 TTTTAAGTTA
** *
105724 AGGGTT AGGGTT AGGGTT --TTTT AAG-TT AAGGGTT AGGGTT AGGGTTTT
1 AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT A-GGGTT AGGGTT AGGG--TT
* * * *
105772 A-AGTT AAGGGTT AGGGTT ATGGTT AGGGTTT CA-AGTT AATGGTT AGGGTT
1 AGGGTT -AGGGTT AGGGTT AGGGTT AGGG-TT -AGGGTT -AGGGTT AGGGTT
*
105822 AGGGCT AGGGTT
1 AGGGTT AGGGTT
105834 TTTGTTAGGG
Statistics
Matches: 79, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
4 2 0.03
5 5 0.06
6 55 0.70
7 13 0.16
8 4 0.05
ACGTcount: A:0.21, C:0.02, G:0.39, T:0.38
Consensus pattern (6 bp):
AGGGTT
Found at i:106041 original size:21 final size:20
Alignment explanation
Indices: 106008--106062 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
105998 AGCTTTCGGT
* *
106008 CGGGGTTGTGGTTGCTCCGG
1 CGGGGTTCTGGTTCCTCCGG
106028 CGGGGATTCTGGTTCCTCCGG
1 CGGGG-TTCTGGTTCCTCCGG
**
106049 TAGGGTATCTGGTT
1 CGGGGT-TCTGGTT
106063 GTTGGTGTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 6 0.21
21 23 0.79
ACGTcount: A:0.05, C:0.20, G:0.42, T:0.33
Consensus pattern (20 bp):
CGGGGTTCTGGTTCCTCCGG
Found at i:106345 original size:18 final size:18
Alignment explanation
Indices: 106304--106346 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
106294 GACTGGGAAA
* * *
106304 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
*
106322 AAGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
106340 AGGATAC
1 AGGATAC
106347 GCACCTGGCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:109630 original size:11 final size:11
Alignment explanation
Indices: 109616--109702 Score: 51
Period size: 11 Copynumber: 8.3 Consensus size: 11
109606 GAGAAATTAA
109616 AGAGGAAATTG
1 AGAGGAAATTG
*
109627 AGAGCAAATTG
1 AGAGGAAATTG
**
109638 AGATTAAA-T-
1 AGAGGAAATTG
* *
109647 A-TGG-ATTTG
1 AGAGGAAATTG
109656 AGA-GAAATTTG
1 AGAGGAAA-TTG
109667 -GAAGGAAATTG
1 AG-AGGAAATTG
* *
109678 AGAGCAATTTG
1 AGAGGAAATTG
109689 AGAGGAAATTG
1 AGAGGAAATTG
109700 AGA
1 AGA
109703 AAATAATTGA
Statistics
Matches: 55, Mismatches: 13, Indels: 16
0.65 0.15 0.19
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 3 0.05
11 42 0.76
12 5 0.09
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:109660 original size:51 final size:51
Alignment explanation
Indices: 109592--109691 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
109582 AATTAATTAA
109592 AAATAGGGATTTAAGAGAAATTAA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTAAGA-AGGAAATTGAGAGCAAATTGAGATT
* * ** *
109643 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAATTTGAGA
1 AAATAGGGATTTAAGAGAAATTAAGAAGGAAATTGAGAGCAAATTGAGA
109692 GGAAATTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.27, T:0.25
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTAAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:109678 original size:22 final size:22
Alignment explanation
Indices: 109653--109706 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
109643 AAATATGGAT
109653 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
*
109675 TTGAGAGCAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAGAGGAAA
109697 TTGAGA-AAAT
1 TTGAGAGAAAT
109707 AATTGAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 3 0.10
22 25 0.86
23 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:110872 original size:9 final size:9
Alignment explanation
Indices: 110847--110929 Score: 69
Period size: 9 Copynumber: 8.7 Consensus size: 9
110837 ATTAGCAATT
110847 AATTTTTTA
1 AATTTTTTA
*
110856 AATATTTTA
1 AATTTTTTA
*
110865 TATTTTTTTA
1 -AATTTTTTA
*
110875 AGAATTTTTA
1 A-ATTTTTTA
110885 AATTTTTTA
1 AATTTTTTA
110894 AATAAATTTTTGA
1 AAT---TTTTT-A
*
110907 ATTTTTTTA
1 AATTTTTTA
110916 AA-TTTTTA
1 AATTTTTTA
110924 AATTTT
1 AATTTT
110930 AAACATTAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
8 8 0.14
9 24 0.41
10 19 0.32
12 5 0.08
13 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
AATTTTTTA
Found at i:112315 original size:29 final size:30
Alignment explanation
Indices: 112283--112349 Score: 118
Period size: 29 Copynumber: 2.2 Consensus size: 30
112273 ACTTATTTTA
112283 TTGTTAATTTTGTTATTATTTTAG-GGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
112312 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
112342 TTGCTTAA
1 TTG-TTAA
112350 GTTGCATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 24 0.67
30 8 0.22
31 4 0.11
ACGTcount: A:0.22, C:0.04, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCAT
Found at i:112417 original size:24 final size:24
Alignment explanation
Indices: 112390--112435 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
112380 ACATATTTTT
112390 TAAA-ATTTATTTTCAATTTTTTGG
1 TAAATATTTATTTT-AATTTTTTGG
112414 TAAATATTTATTTTAATTTTTT
1 TAAATATTTATTTTAATTTTTT
112436 AGTATTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (24 bp):
TAAATATTTATTTTAATTTTTTGG
Found at i:118767 original size:17 final size:18
Alignment explanation
Indices: 118747--118781 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
118737 CAAATGTTTC
118747 CCATTTC-TCCATTTATA
1 CCATTTCATCCATTTATA
118764 CCATTTCTATCCATTTAT
1 CCATTTC-ATCCATTTAT
118782 GTTCATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.49
Consensus pattern (18 bp):
CCATTTCATCCATTTATA
Found at i:120115 original size:21 final size:21
Alignment explanation
Indices: 120078--120123 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
120068 GGTAGTGTTA
*
120078 AGTTTCAAAAACGAAGT-ATTG
1 AGTTTAAAAAACGAAGTGA-TG
120099 AGTTTAAAAATAC-AAGTGATG
1 AGTTTAAAAA-ACGAAGTGATG
120120 AGTT
1 AGTT
120124 GACTTTGGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (21 bp):
AGTTTAAAAAACGAAGTGATG
Found at i:120573 original size:21 final size:22
Alignment explanation
Indices: 120531--120577 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
120521 ATGACGATGT
120531 CAATGCAATACTTTTTCAAAAA
1 CAATGCAATACTTTTTCAAAAA
120553 CAATGC-ATA-TTTTTCAGAAAA
1 CAATGCAATACTTTTTCA-AAAA
120574 CAAT
1 CAAT
120578 TCCTACCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 11 0.46
22 6 0.25
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (22 bp):
CAATGCAATACTTTTTCAAAAA
Found at i:125343 original size:7 final size:7
Alignment explanation
Indices: 125331--125407 Score: 66
Period size: 7 Copynumber: 11.0 Consensus size: 7
125321 TTAAAGAAAT
125331 AATTGAG
1 AATTGAG
125338 AATTGAG
1 AATTGAG
*
125345 GATTGAG
1 AATTGAG
*
125352 GATTGAG
1 AATTGAG
*
125359 GATTGATG
1 AATTGA-G
125367 -ATTGAG
1 AATTGAG
*
125373 ATTTGAG
1 AATTGAG
*
125380 ATTTGAG
1 AATTGAG
* *
125387 ATTTGAA
1 AATTGAG
*
125394 AATTGAA
1 AATTGAG
125401 AATTGAG
1 AATTGAG
125408 GAATCAGTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
6 1 0.02
7 61 0.97
8 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.34
Consensus pattern (7 bp):
AATTGAG
Found at i:125351 original size:14 final size:14
Alignment explanation
Indices: 125331--125428 Score: 63
Period size: 14 Copynumber: 7.0 Consensus size: 14
125321 TTAAAGAAAT
*
125331 AATTGAGAATTGAG
1 AATTGAGGATTGAG
*
125345 GATTGAGGATTGAG
1 AATTGAGGATTGAG
* *
125359 GATTGATGATTGAG
1 AATTGAGGATTGAG
*
125373 ATTTGA-GATTTGAG
1 AATTGAGGA-TTGAG
* ** *
125387 ATTTGAAAATTGAA
1 AATTGAGGATTGAG
* *
125401 AATTGAGGAATCAG
1 AATTGAGGATTGAG
* *
125415 TATTGAGTATTGAG
1 AATTGAGGATTGAG
125429 TTGAAAAGAA
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
13 2 0.03
14 62 0.95
15 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.30, T:0.34
Consensus pattern (14 bp):
AATTGAGGATTGAG
Found at i:125358 original size:21 final size:21
Alignment explanation
Indices: 125332--125428 Score: 72
Period size: 21 Copynumber: 4.6 Consensus size: 21
125322 TAAAGAAATA
125332 ATTGAGAATTGAGGATTGAGG
1 ATTGAGAATTGAGGATTGAGG
* *
125353 ATTGAGGATTGATGATTGA-G
1 ATTGAGAATTGAGGATTGAGG
* **
125373 ATTTGAGATTTGA-GATTTGAAA
1 A-TTGAGAATTGAGGA-TTGAGG
* * * *
125395 ATTGAAAATTGAGGAATCAGT
1 ATTGAGAATTGAGGATTGAGG
*
125416 ATTGAGTATTGAG
1 ATTGAGAATTGAG
125429 TTGAAAAGAA
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
20 4 0.07
21 52 0.88
22 3 0.05
ACGTcount: A:0.35, C:0.01, G:0.30, T:0.34
Consensus pattern (21 bp):
ATTGAGAATTGAGGATTGAGG
Found at i:126299 original size:17 final size:17
Alignment explanation
Indices: 126273--126307 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
126263 GATTATTTTT
126273 AGTTATATTTTAA-TTA
1 AGTTATATTTTAAGTTA
126289 AGTTGATATTTTAAGTTA
1 AGTT-ATATTTTAAGTTA
126307 A
1 A
126308 TTCATGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 9 0.53
18 4 0.24
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (17 bp):
AGTTATATTTTAAGTTA
Found at i:131917 original size:56 final size:56
Alignment explanation
Indices: 131831--131942 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
131821 ACTAATAGTC
131831 ATTCTTGCAGTATCATGATTGTAGTGGTATGTGAATGCACAATGAACAAAAACATT
1 ATTCTTGCAGTATCATGATTGTAGTGGTATGTGAATGCACAATGAACAAAAACATT
*
131887 ATTCTTGTAGTATCATGATTGTAGTGGTATGTGAATGCACAATGAACAAAAACATT
1 ATTCTTGCAGTATCATGATTGTAGTGGTATGTGAATGCACAATGAACAAAAACATT
131943 TTTTAATTTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (56 bp):
ATTCTTGCAGTATCATGATTGTAGTGGTATGTGAATGCACAATGAACAAAAACATT
Found at i:143581 original size:17 final size:17
Alignment explanation
Indices: 143559--143593 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
143549 ACTTGTTGTG
143559 GGCACTATGAGTTCTTA
1 GGCACTATGAGTTCTTA
143576 GGCACTATGAGTTCTTA
1 GGCACTATGAGTTCTTA
143593 G
1 G
143594 TCATGGATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (17 bp):
GGCACTATGAGTTCTTA
Found at i:146265 original size:60 final size:63
Alignment explanation
Indices: 146172--146290 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 63
146162 TCTTAAATGA
146172 GTTTGTTTTAAAATAATAATAATAAAATCAAGTAATAAATATATA-AGGTTTTATCTTTAGGG
1 GTTTGTTTTAAAATAATAATAATAAAATCAAGTAATAAATATATATAGGTTTTATCTTTAGGG
* * * *
146234 GTTT-TTTTAAAAATAA-AA-AATAAAA-CAAAGTATTTAATATATATTGTTTTTATCTTT
1 GTTTGTTTT-AAAATAATAATAATAAAATC-AAGTAATAAATATATATAGGTTTTATCTTT
146291 TCCTTTTTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
59 1 0.02
60 21 0.42
61 17 0.34
62 11 0.22
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (63 bp):
GTTTGTTTTAAAATAATAATAATAAAATCAAGTAATAAATATATATAGGTTTTATCTTTAGGG
Found at i:148692 original size:12 final size:12
Alignment explanation
Indices: 148677--148702 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
148667 ATAAGTAAAT
148677 AATATTAAATAA
1 AATATTAAATAA
148689 AATATTAAATAA
1 AATATTAAATAA
148701 AA
1 AA
148703 CTGATTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATATTAAATAA
Found at i:150196 original size:44 final size:44
Alignment explanation
Indices: 150078--150198 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 44
150068 GATTTGTGGG
*
150078 TTTAGTCCGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATC
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATC
* * * * * *
150122 TTCAA-CCTGCCCCATTGCAATTTCAAGGAGATAAG-GTCTGTAGT-
1 TTTAATCC-GCTCCACTGCAACTTCAGGGAGATAAGACT-TGTA-TC
*
150166 TTTAATCCGCTCCACTACAACTTCAGGGAGATA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATA
150199 GGATTGGTTT
Statistics
Matches: 60, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
43 3 0.05
44 54 0.90
45 3 0.05
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATC
Found at i:150357 original size:50 final size:50
Alignment explanation
Indices: 150298--150457 Score: 187
Period size: 50 Copynumber: 3.2 Consensus size: 50
150288 CGCTGTTGCG
* *
150298 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTA
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCACCGTTGTA
** ** * * * * **
150348 GCTTCAATCTAATCCACTGC-ATCGCCAGGGAAGTAAAATTCACCGTTGCG
1 GCTTCAATCTTTTTAATTGCAAT-GTCAGGGAAGCAAGATTCACCGTTGTA
*
150398 GATTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCACCGTTGTA
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCACCGTTGTA
150448 GCTTCAATCT
1 GCTTCAATCT
150458 GTTCCACTGC
Statistics
Matches: 84, Mismatches: 24, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
49 2 0.02
50 80 0.95
51 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (50 bp):
GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCACCGTTGTA
Found at i:150383 original size:100 final size:100
Alignment explanation
Indices: 150278--150475 Score: 324
Period size: 100 Copynumber: 2.0 Consensus size: 100
150268 ACTGCTAGAA
* * * * *
150278 AAGTAAGATTCGCTGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCG
1 AAGTAAAATTCACCGTTGCGGATTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCACCG
150343 TCGTAGCTTCAATCTAATCCACTGCATCGCCAGGG
66 TCGTAGCTTCAATCTAATCCACTGCATCGCCAGGG
150378 AAGTAAAATTCACCGTTGCGGATTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCACCG
1 AAGTAAAATTCACCGTTGCGGATTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCACCG
* **
150443 TTGTAGCTTCAATCTGTTCCACTGCATCGCCAG
66 TCGTAGCTTCAATCTAATCCACTGCATCGCCAG
150476 AGAGATAAGG
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 90 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (100 bp):
AAGTAAAATTCACCGTTGCGGATTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCACCG
TCGTAGCTTCAATCTAATCCACTGCATCGCCAGGG
Found at i:150612 original size:43 final size:43
Alignment explanation
Indices: 150552--150878 Score: 309
Period size: 43 Copynumber: 7.5 Consensus size: 43
150542 CTACTTCGCC
* * *
150552 ACCAGTATGGGAAGACAAGATCTGCATCTTTGATCCACTTCCT
1 ACCAATATAGGAAGACAAGATCTGCATCTTCGATCCACTTCCT
* * * *
150595 ACCAATATAAGAAGACAAAACCTGCTATCTTCGATCTACTTCACT
1 ACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CT
* * * * * * * *
150640 GCCAACACACGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCC
1 ACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CT
* *
150685 ACCAATATGGGAA-AGCAAGATCTGTATCTTCGATCCACTTCCT
1 ACCAATATAGGAAGA-CAAGATCTGCATCTTCGATCCACTTCCT
* *
150728 ACCAATATAGGAAGACGATATCTGCATCTTCGATCCACTTCCT
1 ACCAATATAGGAAGACAAGATCTGCATCTTCGATCCACTTCCT
* * *
150771 ACTAATATAGGAAGACATGA-CTTGCTTCTTCGATCCACTTCCT
1 ACCAATATAGGAAGACAAGATC-TGCATCTTCGATCCACTTCCT
* * *
150814 ACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCAC-
1 ACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CT
* * *
150858 GCCAATACATGAAGACAAGAT
1 ACCAATATAGGAAGACAAGAT
150879 ATGTTTTAAT
Statistics
Matches: 231, Mismatches: 45, Indels: 15
0.79 0.15 0.05
Matches are distributed among these distances:
42 1 0.00
43 115 0.50
44 60 0.26
45 55 0.24
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (43 bp):
ACCAATATAGGAAGACAAGATCTGCATCTTCGATCCACTTCCT
Found at i:150742 original size:133 final size:132
Alignment explanation
Indices: 150518--150768 Score: 362
Period size: 133 Copynumber: 1.9 Consensus size: 132
150508 CAACTTCAGA
* * * * *
150518 AAGATAAGATCTGTTTTCTTCATTCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTT
1 AAGACAAGATCTGCTTTCTTCATTCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
*
150583 GATCCACTTCCTACCAATATAAGAAGACAAAACCTGCTATCTTCGATCTACTTCACTGCCAACAC
66 GATCCACTTCCTACCAATATAAGAAGACAAAACCTGC-ATCTTCGATCCACTTCACTGCCAACAC
150648 ACG
130 ACG
*
150651 AAGACAAGATCTGCTTTCTTCGA-TCTACTCCGCCACCAATATGGGAA-AGCAAGATCTGTATCT
1 AAGACAAGATCTGCTTTCTTC-ATTCTACTCCGCCACCAATATGGGAAGA-CAAGATCTGCATCT
* * * *
150714 TCGATCCACTTCCTACCAATATAGGAAGACGATATCTGCATCTTCGATCCACTTC
64 TCGATCCACTTCCTACCAATATAAGAAGACAAAACCTGCATCTTCGATCCACTTC
150769 CTACTAATAT
Statistics
Matches: 105, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
132 16 0.15
133 88 0.84
134 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.28
Consensus pattern (132 bp):
AAGACAAGATCTGCTTTCTTCATTCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
GATCCACTTCCTACCAATATAAGAAGACAAAACCTGCATCTTCGATCCACTTCACTGCCAACACA
CG
Found at i:151579 original size:108 final size:108
Alignment explanation
Indices: 151386--151586 Score: 251
Period size: 108 Copynumber: 1.9 Consensus size: 108
151376 AAAGATTCTT
* * * * * *
151386 GAAAAAGATTATCAACATGGACAAGATGAAATTTTGTTGAGAGTAAAGCTTTAAACAAAGAAATC
1 GAAAAAGATTATCAACATGGACAAGATGAAATTTTATAGAAAGCAAAACTTTAAACAAACAAATC
* * *
151451 AATCGAGGTAGCAAATTTTGCTAAGATATGAGATGAATAAGAC
66 AATCAAGATAGCAAAATTTGCTAAGATATGAGATGAATAAGAC
* * **
151494 GAAAAAGATTATC-ACAATGGATAAGATGGAATTTTATAGAAAGCAAAACTTTAAATGAACAAAT
1 GAAAAAGATTATCAAC-ATGGACAAGATGAAATTTTATAGAAAGCAAAACTTTAAACAAACAAAT
* *
151558 TAGTCAAGATAGCAAAATTTGCTAAGATA
65 CAATCAAGATAGCAAAATTTGCTAAGATA
151587 CAGAAATGAC
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
107 2 0.03
108 75 0.97
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.25
Consensus pattern (108 bp):
GAAAAAGATTATCAACATGGACAAGATGAAATTTTATAGAAAGCAAAACTTTAAACAAACAAATC
AATCAAGATAGCAAAATTTGCTAAGATATGAGATGAATAAGAC
Found at i:157634 original size:219 final size:219
Alignment explanation
Indices: 157255--157695 Score: 812
Period size: 219 Copynumber: 2.0 Consensus size: 219
157245 ATTTTTGGAT
157255 GTCATGGCTCTCTTCGGCATGAAACTCACACTACGTCCTCATTCCTTCGGGCCTTTCCTTTAAAT
1 GTCATGGCTCTCTTCGGCATGAAACTCACACTACGTCCTCATTCCTTCGGGCCTTTCCTTTAAAT
*
157320 CTTGTTTGATGAGACCTCCCTCTATCATTTGTCTCCAAACCCAACTCAGTGGGGTTTTTATCTCT
66 CTTGTTTGATGAGACCTCCCTCTATCATTTGTCTCCAAACCCAACTCAGGGGGGTTTTTATCTCT
*
157385 GAAATGTAGACCCTGATTCTTTTTCTCCCACTCTCGATTATCACATTTACCCCTTTATC-AGAAT
131 GAAATGTAGACCCTGATTCTCTTTCTCCCACTCTCGATTATCACATTTACCCCTTTATCAAG-AT
157449 GATTGGGTAACGGATTCCCTGCCAC
195 GATTGGGTAACGGATTCCCTGCCAC
157474 GTCATGGCTCTCTTCGGCATGAAACTCACACTACGTCCTCATTCCTTCGGGCCTTTCCTTTAAAT
1 GTCATGGCTCTCTTCGGCATGAAACTCACACTACGTCCTCATTCCTTCGGGCCTTTCCTTTAAAT
*
157539 CTTGTTTGATGAGACCTCCCTCTATCATTTGTTTCCAAACCCAACTCAGGGGGGTTTTTATCTCT
66 CTTGTTTGATGAGACCTCCCTCTATCATTTGTCTCCAAACCCAACTCAGGGGGGTTTTTATCTCT
* *
157604 GAAATGTAGACCTTGATTCTCTTTCTCCCACTCTCGATTATCGCATTTACCCCTTTATCAAGATG
131 GAAATGTAGACCCTGATTCTCTTTCTCCCACTCTCGATTATCACATTTACCCCTTTATCAAGATG
*
157669 ATTGGGTAACGGATTCCCTGTCAC
196 ATTGGGTAACGGATTCCCTGCCAC
157693 GTC
1 GTC
157696 TGGTCCTGAT
Statistics
Matches: 215, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
219 213 0.99
220 2 0.01
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (219 bp):
GTCATGGCTCTCTTCGGCATGAAACTCACACTACGTCCTCATTCCTTCGGGCCTTTCCTTTAAAT
CTTGTTTGATGAGACCTCCCTCTATCATTTGTCTCCAAACCCAACTCAGGGGGGTTTTTATCTCT
GAAATGTAGACCCTGATTCTCTTTCTCCCACTCTCGATTATCACATTTACCCCTTTATCAAGATG
ATTGGGTAACGGATTCCCTGCCAC
Found at i:161591 original size:24 final size:24
Alignment explanation
Indices: 161546--161595 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
161536 AAAGCAAGTC
*
161546 AGTATAACAATAAACTAAAATTCAA
1 AGTATAACAAGAAACTAAAATT-AA
161571 AGTAT-ACAAGAAA-TAATAATTAA
1 AGTATAACAAGAAACTAA-AATTAA
161594 AG
1 AG
161596 CTACTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 7 0.30
24 11 0.48
25 5 0.22
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (24 bp):
AGTATAACAAGAAACTAAAATTAA
Found at i:163289 original size:12 final size:12
Alignment explanation
Indices: 163274--163299 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
163264 ATAAGTAAAT
163274 AATATTAAATAA
1 AATATTAAATAA
163286 AATATTAAATAA
1 AATATTAAATAA
163298 AA
1 AA
163300 CTGATTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATATTAAATAA
Found at i:167008 original size:43 final size:43
Alignment explanation
Indices: 166942--167227 Score: 310
Period size: 43 Copynumber: 6.7 Consensus size: 43
166932 TTTTAGAAAT
*
166942 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCCTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCCTTTCCCAC
166985 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCC-TTCTCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCCTTTC-CCAC
* **
167028 AAATGCCGCTATAGATCAGGACCTTTAGCGGCG-CTTTTGCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCCTTTCCCAC
* * * *
167070 AAGCGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCCTTTCCCAC
* * * * * * *
167113 AAACGCCGCTATAGATCAAGACATTTAACGGCTCTTTTTCTAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCCTTTCCCAC
* * * ** *
167156 AAACACCGCTATAGCT-GGAGACCTTTAGCAACGCTTTTCCCAC
1 AAACGCCGCTATAGATCAG-GACCTTTAGCGGCGCCTTTCCCAC
* * *
167199 AAACGCCGCTGTAGAACA-AACCTTTAGCG
1 AAACGCCGCTATAGATCAGGACCTTTAGCG
167228 ACGCTTCTCG
Statistics
Matches: 206, Mismatches: 32, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
42 46 0.22
43 160 0.78
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCCTTTCCCAC
Found at i:167179 original size:128 final size:129
Alignment explanation
Indices: 166942--167233 Score: 365
Period size: 128 Copynumber: 2.3 Consensus size: 129
166932 TTTTAGAAAT
* * *
166942 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCCTTTCCCACAAACGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGAC
* * ** ** *
167007 CTTTAGCGGCGCCTTCTCCACAAATGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTT-GCAC
66 ATTTAACGGCGCCTTCTCCACAAACACCGCTATAGATCAGGACCTTTAGCAACGCTTTTCCCAC
* *
167070 AAGCGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAAGAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGAC
* * * * * *
167135 ATTTAACGGCTCTTTTTCTACAAACACCGCTATAGCT-GGAGACCTTTAGCAACGCTTTTCCCAC
66 ATTTAACGGCGCCTTCTCCACAAACACCGCTATAGATCAG-GACCTTTAGCAACGCTTTTCCCAC
* * *
167199 AAACGCCGCTGTAGAACAA-ACCTTTAGCGACGCTT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTT
167234 CTCGCAAAAA
Statistics
Matches: 140, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
127 1 0.01
128 120 0.86
129 19 0.14
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.24
Consensus pattern (129 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGAC
ATTTAACGGCGCCTTCTCCACAAACACCGCTATAGATCAGGACCTTTAGCAACGCTTTTCCCAC
Found at i:171938 original size:7 final size:7
Alignment explanation
Indices: 171926--171979 Score: 72
Period size: 7 Copynumber: 7.7 Consensus size: 7
171916 ATAAAACATA
171926 AACCCCT
1 AACCCCT
*
171933 AGCCCCT
1 AACCCCT
171940 AACCCCT
1 AACCCCT
171947 AACCCCT
1 AACCCCT
**
171954 AACCTTT
1 AACCCCT
*
171961 AACCTCT
1 AACCCCT
171968 AACCCCT
1 AACCCCT
171975 AACCC
1 AACCC
171980 TTAAACCCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.28, C:0.52, G:0.02, T:0.19
Consensus pattern (7 bp):
AACCCCT
Found at i:171950 original size:21 final size:21
Alignment explanation
Indices: 171926--171988 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
171916 ATAAAACATA
*
171926 AACCCCTAGCCCCTAACCCCT
1 AACCCCTAACCCCTAACCCCT
** *
171947 AACCCCTAACCTTTAACCTCT
1 AACCCCTAACCCCTAACCCCT
*
171968 AACCCCTAACCCTTAAACCCC
1 AACCCCTAACCCCT-AACCCC
171989 AGCCTTTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 30 0.86
22 5 0.14
ACGTcount: A:0.29, C:0.51, G:0.02, T:0.19
Consensus pattern (21 bp):
AACCCCTAACCCCTAACCCCT
Found at i:172994 original size:41 final size:41
Alignment explanation
Indices: 172898--173109 Score: 243
Period size: 41 Copynumber: 5.2 Consensus size: 41
172888 TAAATTATTT
* * *
172898 TAAATCCCTAAGCATTAGCGGCGCTTTT-TAGAAAATGCCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTTCCA-AAAACGCCGC
* * * *
172939 TAAA-CCCCGAGCATTAACGGTGC-TTTCTCAAAAACGCTGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTTC-CAAAAACGCCGC
* * *
172979 TATAGCCCTGAGCATTAGCGGCACTTTTCCAAAAACGCCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGC
* *
173020 TAAATCCCTGAGCATTAGCGGTGCTTTTCCAAAAATGCCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGC
* *
173061 TAAATCCCTGAGCATTAGCGGCGCTTTAT-TAAAAACGCCGT
1 TAAATCCCTGAGCATTAGCGGCGCTTT-TCCAAAAACGCCGC
173102 TAAATCCC
1 TAAATCCC
173110 CGAAAGCTCA
Statistics
Matches: 144, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.02
40 26 0.18
41 110 0.76
42 5 0.03
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (41 bp):
TAAATCCCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGC
Found at i:173070 original size:82 final size:81
Alignment explanation
Indices: 172898--173112 Score: 281
Period size: 82 Copynumber: 2.6 Consensus size: 81
172888 TAAATTATTT
* *
172898 TAAATCCCTAAGCATTAGCGGCGCTTTTTAGAAAATGCCGCTAAA-CCCCGAGCATTAACGGTGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTTTA-AAAACGCCGCTAAATCCCCGAGCATTAACGGTGC
*
172962 TTTCTCAAAAACGCTGC
65 TTTCTCAAAAACGCCGC
* * * * * *
172979 TATAGCCCTGAGCATTAGCGGCACTTTTCCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGTGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTT-TAAAAACGCCGCTAAATCCCCGAGCATTAACGGTGC
*
173044 TTT-TCCAAAAATGCCGC
65 TTTCT-CAAAAACGCCGC
*
173061 TAAATCCCTGAGCATTAGCGGCGCTTTATTAAAAACGCCGTTAAATCCCCGA
1 TAAATCCCTGAGCATTAGCGGCGCTTT-TTAAAAACGCCGCTAAATCCCCGA
173113 AAGCTCAGAA
Statistics
Matches: 114, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
81 38 0.33
82 75 0.66
83 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (81 bp):
TAAATCCCTGAGCATTAGCGGCGCTTTTTAAAAACGCCGCTAAATCCCCGAGCATTAACGGTGCT
TTCTCAAAAACGCCGC
Found at i:173211 original size:39 final size:40
Alignment explanation
Indices: 173164--173270 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 40
173154 GGCTTTCTAG
* * **
173164 AAAA-CGCCGCTAATGCT-TATTTTTAGTGGCGTTTTCCA
1 AAAAGCGCCGCTAATGCTAGATCTTTAGCAGCGTTTTCCA
* * *
173202 TAATGCGCCGCTAATGCTAGATCTTTAGCAGTGTTTTCCA
1 AAAAGCGCCGCTAATGCTAGATCTTTAGCAGCGTTTTCCA
*
173242 AAAAGCGCCGCTAATGCTCGATCTTTAGC
1 AAAAGCGCCGCTAATGCTAGATCTTTAGC
173271 GTTGTTTTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 2 0.04
39 13 0.23
40 42 0.74
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTAGATCTTTAGCAGCGTTTTCCA
Found at i:175383 original size:30 final size:30
Alignment explanation
Indices: 175311--175395 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 30
175301 AAAGGTATGT
* *
175311 GTATATATATAATATATATGTATAGGGGTTTTG
1 GTAT-TATAT-ATATA-ATATATATGGGTTTTG
*
175344 TTATT-TATATATAATATATATGGGTTTTG
1 GTATTATATATATAATATATATGGGTTTTG
*
175373 GTGTTATATATATAATAATATAT
1 GTATTATATATATAAT-ATATAT
175396 ATATGTGTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
29 17 0.38
30 15 0.33
31 9 0.20
32 1 0.02
33 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.49
Consensus pattern (30 bp):
GTATTATATATATAATATATATGGGTTTTG
Found at i:175396 original size:35 final size:32
Alignment explanation
Indices: 175312--175400 Score: 101
Period size: 32 Copynumber: 2.7 Consensus size: 32
175302 AAGGTATGTG
*
175312 TATATATATAATATATATGTATAGGGGTTTTGT
1 TATATATATAATATATATATAT-GGGGTTTTGT
* *
175345 TATTTATAT-ATA-ATATATATGGGTTTTGGTGT
1 TATATATATAATATATATATATGGGGTTT--TGT
175377 TATATATATAATAATATATATATG
1 TATATATATAAT-ATATATATATG
175401 TGTGCATGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
30 6 0.13
31 7 0.15
32 14 0.30
33 10 0.21
34 1 0.02
35 9 0.19
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (32 bp):
TATATATATAATATATATATATGGGGTTTTGT
Found at i:175398 original size:37 final size:38
Alignment explanation
Indices: 175352--175426 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 38
175342 TGTTATTTAT
** *
175352 ATATAATATATATGGGTTTTGGTGTTATATATATAATA
1 ATATAATATATATGGGCATGGGTGTTATATATATAATA
* * *
175390 ATAT-ATATATGTGTGCATGGGTGTTATATGTATAATA
1 ATATAATATATATGGGCATGGGTGTTATATATATAATA
175427 TATTTGTGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
37 27 0.87
38 4 0.13
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (38 bp):
ATATAATATATATGGGCATGGGTGTTATATATATAATA
Found at i:186735 original size:3 final size:3
Alignment explanation
Indices: 186727--186755 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
186717 TCATGCTTAA
186727 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
186756 AGACAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:196114 original size:79 final size:79
Alignment explanation
Indices: 196014--196172 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
196004 GCATTGTTTA
*
196014 AAACACATCCAAGAGCTAAAAAACTATCCTATTTATACTTCACCTTTAGTACCAATTTTGAGGCT
1 AAACACATCCAAGAGCTAAAAAACTATCCTATTTATACTTCACCTTTAGTACCAATTTTGAGCCT
196079 TTTGACACTTCTTG
66 TTTGACACTTCTTG
*
196093 AAACACATCCCAGAGCTAAAAAACTATCCTATTTATACTTCACCTTTAGTACCAATTTTGAGCCT
1 AAACACATCCAAGAGCTAAAAAACTATCCTATTTATACTTCACCTTTAGTACCAATTTTGAGCCT
196158 TTTGACACTTCTTG
66 TTTGACACTTCTTG
196172 A
1 A
196173 TGAACCGCAG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (79 bp):
AAACACATCCAAGAGCTAAAAAACTATCCTATTTATACTTCACCTTTAGTACCAATTTTGAGCCT
TTTGACACTTCTTG
Found at i:209983 original size:29 final size:29
Alignment explanation
Indices: 209922--210015 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
209912 GTGCTAAATG
* * *
209922 ATGGTC-ATAACCGTCCCTTTTCATGTTCA
1 ATGGTCGA-AACCATCCCTTTTCATATTTA
* *
209951 ATGGTTGAAACCATCCCTTTTCATATTTG
1 ATGGTCGAAACCATCCCTTTTCATATTTA
** * * *
209980 ATGGTCGTCACCATCTCTTTTCATAGTTC
1 ATGGTCGAAACCATCCCTTTTCATATTTA
210009 ATGGTCG
1 ATGGTCG
210016 TCACCGTCAA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 52 0.98
30 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.39
Consensus pattern (29 bp):
ATGGTCGAAACCATCCCTTTTCATATTTA
Found at i:210016 original size:29 final size:29
Alignment explanation
Indices: 209935--210116 Score: 111
Period size: 29 Copynumber: 6.3 Consensus size: 29
209925 GTCATAACCG
* **
209935 TCCCTTTTCAT-GTTCAATGGTTGAAACCA
1 TCCCTTTTCATAGTTC-ATGGTCGTCACCA
* *
209964 TCCCTTTTCATATTTGATGGTCGTCACCA
1 TCCCTTTTCATAGTTCATGGTCGTCACCA
* *
209993 TCTCTTTTCATAGTTCATGGTCGTCACCG
1 TCCCTTTTCATAGTTCATGGTCGTCACCA
** * * *** *
210022 TCAATTTTCATA-ATCAATAG-CCAAAGCTA
1 TCCCTTTTCATAGTTC-ATGGTCGTCA-CCA
*
210051 TCCCTTTTCATA-TTCGATGGTCGTCCCCA
1 TCCCTTTTCATAGTTC-ATGGTCGTCACCA
* * * * *
210080 TCCCTTTTAATAGTTGACGGTCATCACTA
1 TCCCTTTTCATAGTTCATGGTCGTCACCA
210109 TCCCTTTT
1 TCCCTTTT
210117 TATAATCGAT
Statistics
Matches: 114, Mismatches: 34, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
28 4 0.04
29 105 0.92
30 5 0.04
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (29 bp):
TCCCTTTTCATAGTTCATGGTCGTCACCA
Found at i:210070 original size:87 final size:87
Alignment explanation
Indices: 209963--210148 Score: 237
Period size: 87 Copynumber: 2.1 Consensus size: 87
209953 GGTTGAAACC
* * * * * *
209963 ATCCCTTTTCATATTTGATGGTCGTCACCATCTCTTTTCATAGTTCATGGTCGTCACCGTCAATT
1 ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTAATAGTTCACGGTCATCACCATCAATT
210028 TTCATAATCAATAGCCAAAGCT
66 TTCATAATCAATAGCCAAAGCT
* * * **
210050 ATCCCTTTTCATATTCGATGGTCGTCCCCATCCCTTTTAATAGTTGACGGTCATCACTATCCCTT
1 ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTAATAGTTCACGGTCATCACCATCAATT
* * *
210115 TTTATAATCGATAGCCGAAGCT
66 TTCATAATCAATAGCCAAAGCT
*
210137 ACCCCTTTTCAT
1 ATCCCTTTTCAT
210149 TGGTCGATGA
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (87 bp):
ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTAATAGTTCACGGTCATCACCATCAATT
TTCATAATCAATAGCCAAAGCT
Found at i:210227 original size:12 final size:12
Alignment explanation
Indices: 210210--210238 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
210200 ATATTATAAA
210210 AAAATATAATTT
1 AAAATATAATTT
210222 AAAATATAATTT
1 AAAATATAATTT
210234 AAAAT
1 AAAAT
210239 TCTATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATATAATTT
Found at i:215894 original size:339 final size:340
Alignment explanation
Indices: 215263--215942 Score: 1353
Period size: 339 Copynumber: 2.0 Consensus size: 340
215253 AATTTTAAAT
215263 TTTAAATTAATTTAATTAATTTCCCAATTAAATATTTTTTTAACTCAGTTCTTATTCTGTTAAAC
1 TTTAAATTAATTTAATTAATTTCCCAATTAAATATTTTTTTAACTCAGTTCTTATTCTGTTAAAC
215328 TCATGATAATTTTACGATAATAAAATCTATGAGAAAACATATTTAATATTTCTATATTCAATGAG
66 TCATGATAATTTTACGATAATAAAATCTATGAGAAAACATATTTAATATTTCTATATTCAATGAG
215393 ATCACAATGACCAATTAATTTAATTCCATTTTTGAGCTTTAATTAATTAATTAATTTAAAAAACC
131 ATCACAATGACCAATTAATTTAATTCCATTTTTGAGCTTTAATTAATTAATTAATTTAAAAAACC
215458 ATAAATTAAATTTCCAGGTCATTTCAATTTAGATAGAAAACCACATTCATTTTTGAATGTTCCCT
196 ATAAATTAAATTTCCAGGTCATTTCAATTTAGATAGAAAACCACATTCATTTTTGAATGTTCCCT
215523 GTTTCTCTAACTTTACCATTTCTATCCATTTTTGTTCATTTGATTCAACGTGTAATTCATTTCTG
261 GTTTCTCTAACTTTACCATTTCTATCCATTTTTGTTCATTTGATTCAACGTGTAATTCATTTCTG
215588 GTTTCAATGAGCTAG
326 GTTTCAATGAGCTAG
215603 TTTAAATTAA-TTAATTAATTTCCCAATTAAATATTTTTTTAACTCAGTTCTTATTCTGTTAAAC
1 TTTAAATTAATTTAATTAATTTCCCAATTAAATATTTTTTTAACTCAGTTCTTATTCTGTTAAAC
215667 TCATGATAATTTTACGATAATAAAATCTATGAGAAAACATATTTAATATTTCTATATTCAATGAG
66 TCATGATAATTTTACGATAATAAAATCTATGAGAAAACATATTTAATATTTCTATATTCAATGAG
215732 ATCACAATGACCAATTAATTTAATTCCATTTTTGAGCTTTAATTAATTAATTAATTTAAAAAACC
131 ATCACAATGACCAATTAATTTAATTCCATTTTTGAGCTTTAATTAATTAATTAATTTAAAAAACC
215797 ATAAATTAAATTTCCAGGTCATTTCAATTTAGATAGAAAACCACATTCATTTTTGAATGTTCCCT
196 ATAAATTAAATTTCCAGGTCATTTCAATTTAGATAGAAAACCACATTCATTTTTGAATGTTCCCT
215862 GTTTCTCTAACTTTACCATTTCTATCCATTTTTGTTCATTTGATTCAACGTGTAATTCATTTCTG
261 GTTTCTCTAACTTTACCATTTCTATCCATTTTTGTTCATTTGATTCAACGTGTAATTCATTTCTG
215927 GTTTCAATGAGCTAG
326 GTTTCAATGAGCTAG
215942 T
1 T
215943 GGAGGGACCG
Statistics
Matches: 340, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
339 330 0.97
340 10 0.03
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.43
Consensus pattern (340 bp):
TTTAAATTAATTTAATTAATTTCCCAATTAAATATTTTTTTAACTCAGTTCTTATTCTGTTAAAC
TCATGATAATTTTACGATAATAAAATCTATGAGAAAACATATTTAATATTTCTATATTCAATGAG
ATCACAATGACCAATTAATTTAATTCCATTTTTGAGCTTTAATTAATTAATTAATTTAAAAAACC
ATAAATTAAATTTCCAGGTCATTTCAATTTAGATAGAAAACCACATTCATTTTTGAATGTTCCCT
GTTTCTCTAACTTTACCATTTCTATCCATTTTTGTTCATTTGATTCAACGTGTAATTCATTTCTG
GTTTCAATGAGCTAG
Found at i:224412 original size:19 final size:19
Alignment explanation
Indices: 224390--224427 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
224380 TCAATCATCC
224390 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
224409 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
224428 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:229144 original size:27 final size:27
Alignment explanation
Indices: 229106--229384 Score: 301
Period size: 27 Copynumber: 10.3 Consensus size: 27
229096 GCAACTAACT
**
229106 GAAATACCCTCGAAGGACGAAATGACC
1 GAAATACCCTCGAAGGATAAAATGACC
*
229133 GAAATACTCTCGAAGGATAAAATGACC
1 GAAATACCCTCGAAGGATAAAATGACC
*
229160 GAAATACCCTCGAAGGGTAAAATGACC
1 GAAATACCCTCGAAGGATAAAATGACC
* * *
229187 AAAATATCCTTGAAGGATAAAATGACC
1 GAAATACCCTCGAAGGATAAAATGACC
* * *
229214 GAAATA-CCTCCAAAGGGTAAAATGATC
1 GAAATACCCT-CGAAGGATAAAATGACC
* *
229241 GAAATACCCCCGAAGGGTAAAATGACC
1 GAAATACCCTCGAAGGATAAAATGACC
* * *
229268 -AAATTACCCTCGATGGGTACAATGACC
1 GAAA-TACCCTCGAAGGATAAAATGACC
* *
229295 GAAATACCTTCGAAGGGTAAAATGACC
1 GAAATACCCTCGAAGGATAAAATGACC
* * * * *
229322 AAAATACCTTTGAAGGGTAAAATAACC
1 GAAATACCCTCGAAGGATAAAATGACC
* **
229349 GAAATACCCTCGAAGGGTAAAAAAACC
1 GAAATACCCTCGAAGGATAAAATGACC
229376 GAAATACCC
1 GAAATACCC
229385 CCATAGGGTA
Statistics
Matches: 218, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 6 0.03
27 207 0.95
28 5 0.02
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (27 bp):
GAAATACCCTCGAAGGATAAAATGACC
Found at i:229192 original size:54 final size:54
Alignment explanation
Indices: 229106--229400 Score: 344
Period size: 54 Copynumber: 5.5 Consensus size: 54
229096 GCAACTAACT
*** * *
229106 GAAATACCCTCGAAGGACGAAATGACCGAAATACTCTCGAAGGATAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACC
* * * *
229160 GAAATACCCTCGAAGGGTAAAATGACCAAAATATCCTTGAAGGATAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACC
* * *
229214 GAAATA-CCTCCAAAGGGTAAAATGATCGAAATACCCCCGAAGGGTAAAATGACC
1 GAAATACCCT-CGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACC
* * *
229268 -AAATTACCCTCGATGGGTACAATGACCGAAATACCTTCGAAGGGTAAAATGACC
1 GAAA-TACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACC
* * * * **
229322 AAAATACCTTTGAAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAAAAACC
1 GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACC
*
229376 GAAATACCC-CCATAGGGTAAAATGA
1 GAAATACCCTCGA-AGGGTAAAATGA
229401 ATATTATACC
Statistics
Matches: 203, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
53 7 0.03
54 190 0.94
55 6 0.03
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (54 bp):
GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACC
Found at i:229244 original size:81 final size:81
Alignment explanation
Indices: 229107--229400 Score: 356
Period size: 81 Copynumber: 3.6 Consensus size: 81
229097 CAACTAACTG
** * *
229107 AAATACCCTCGAAGGACGAAATGACCGAAATA-CTCTCGAAGGATAAAATGACCGAAATACCCTC
1 AAATACCCTCGAAGGATAAAATGACCGAAATACCTC-CAAAGGGTAAAATGACCGAAATACCCTC
229171 GAAGGGTAAAATGACCA
65 GAAGGGTAAAATGACCA
* * * *
229188 AAATATCCTTGAAGGATAAAATGACCGAAATACCTCCAAAGGGTAAAATGATCGAAATACCCCCG
1 AAATACCCTCGAAGGATAAAATGACCGAAATACCTCCAAAGGGTAAAATGACCGAAATACCCTCG
229253 AAGGGTAAAATGACCA
66 AAGGGTAAAATGACCA
* * * * * * * * *
229269 AATTACCCTCGATGGGTACAATGACCGAAATACCTTCGAAGGGTAAAATGACCAAAATACCTTTG
1 AAATACCCTCGAAGGATAAAATGACCGAAATACCTCCAAAGGGTAAAATGACCGAAATACCCTCG
* *
229334 AAGGGTAAAATAACCG
66 AAGGGTAAAATGACCA
* ** * *
229350 AAATACCCTCGAAGGGTAAAAAAACCGAAATACCCCCATAGGGTAAAATGA
1 AAATACCCTCGAAGGATAAAATGACCGAAATACCTCCAAAGGGTAAAATGA
229401 ATATTATACC
Statistics
Matches: 180, Mismatches: 32, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
81 177 0.98
82 3 0.02
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (81 bp):
AAATACCCTCGAAGGATAAAATGACCGAAATACCTCCAAAGGGTAAAATGACCGAAATACCCTCG
AAGGGTAAAATGACCA
Found at i:229599 original size:27 final size:26
Alignment explanation
Indices: 229563--229646 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
229553 TGTGCTGGTG
* * *
229563 GCTTTGCTACATATACTGTTATTGGCA
1 GCTTTACTACAT-CACTGTTACTGGCA
*
229590 GCTTTACTACGTCACTGTTACTGGCA
1 GCTTTACTACATCACTGTTACTGGCA
* * * * *
229616 GCTTTACTGCGTTACTGTTACTAGTA
1 GCTTTACTACATCACTGTTACTGGCA
229642 GCTTT
1 GCTTT
229647 GCTATGTCAC
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 39 0.80
27 10 0.20
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (26 bp):
GCTTTACTACATCACTGTTACTGGCA
Found at i:229606 original size:26 final size:26
Alignment explanation
Indices: 229577--229672 Score: 102
Period size: 26 Copynumber: 3.7 Consensus size: 26
229567 TGCTACATAT
*
229577 ACTGTTATTGGCAGCTTTACTACGTC
1 ACTGTTACTGGCAGCTTTACTACGTC
* *
229603 ACTGTTACTGGCAGCTTTACTGCGTT
1 ACTGTTACTGGCAGCTTTACTACGTC
* * * *
229629 ACTGTTACTAGTAGCTTTGCTATGTC
1 ACTGTTACTGGCAGCTTTACTACGTC
** *
229655 ACTACTATTGGCAGCTTT
1 ACTGTTACTGGCAGCTTT
229673 GCTGCGATAT
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.40
Consensus pattern (26 bp):
ACTGTTACTGGCAGCTTTACTACGTC
Found at i:229633 original size:52 final size:52
Alignment explanation
Indices: 229576--229678 Score: 125
Period size: 52 Copynumber: 2.0 Consensus size: 52
229566 TTGCTACATA
* * **
229576 TACTGTTATTGGCAGCTTTACTACGTCACTGTTACTGGCAGCTTTACTGCGT
1 TACTGTTACTAGCAGCTTTACTACGTCACTACTACTGGCAGCTTTACTGCGT
* * * * *
229628 TACTGTTACTAGTAGCTTTGCTATGTCACTACTATTGGCAGCTTTGCTGCG
1 TACTGTTACTAGCAGCTTTACTACGTCACTACTACTGGCAGCTTTACTGCG
229679 ATATTGGTGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.39
Consensus pattern (52 bp):
TACTGTTACTAGCAGCTTTACTACGTCACTACTACTGGCAGCTTTACTGCGT
Found at i:229825 original size:28 final size:30
Alignment explanation
Indices: 229783--229855 Score: 105
Period size: 28 Copynumber: 2.5 Consensus size: 30
229773 TAATGCATTG
*
229783 CACTAATTATTGTATTGGGCTAAGGCCC-C-
1 CACT-ATTACTGTATTGGGCTAAGGCCCACA
*
229812 TACTATTACTGTATTGGGCTAAGGCCCACA
1 CACTATTACTGTATTGGGCTAAGGCCCACA
229842 CACTATTACTGTAT
1 CACTATTACTGTAT
229856 AGAGCTCTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 22 0.56
29 4 0.10
30 13 0.33
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (30 bp):
CACTATTACTGTATTGGGCTAAGGCCCACA
Found at i:232424 original size:15 final size:14
Alignment explanation
Indices: 232406--232441 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
232396 CACTTTTTCA
232406 ATCATCTCTCATCTC
1 ATCATCTCTCA-CTC
232421 ATCATCTCTCACTC
1 ATCATCTCTCACTC
232435 ATTCATC
1 A-TCATC
232442 ATTCTCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.22, C:0.39, G:0.00, T:0.39
Consensus pattern (14 bp):
ATCATCTCTCACTC
Found at i:232435 original size:19 final size:19
Alignment explanation
Indices: 232413--232450 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
232403 TCAATCATCT
232413 CTCATCTCATCA-TCTCTCA
1 CTCAT-TCATCATTCTCTCA
232432 CTCATTCATCATTCTCTCA
1 CTCATTCATCATTCTCTCA
232451 ACTCTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATTCATCATTCTCTCA
Found at i:234189 original size:249 final size:249
Alignment explanation
Indices: 233751--234238 Score: 976
Period size: 249 Copynumber: 2.0 Consensus size: 249
233741 AAGAGATGGT
233751 AAAACCCTTATTGAATTGTAGAAGTTTATTTCAACTAGAAAAACGAACTCCTAGTCTAACTAGAA
1 AAAACCCTTATTGAATTGTAGAAGTTTATTTCAACTAGAAAAACGAACTCCTAGTCTAACTAGAA
233816 GTATAGGTGGCGGCAACCCTAGTTAATATTAACTCGGGTTAGTCATCCACCCTATTAACATGAAG
66 GTATAGGTGGCGGCAACCCTAGTTAATATTAACTCGGGTTAGTCATCCACCCTATTAACATGAAG
233881 GGCTTTTGGGCCTCTTCCATATTGGATCCAATTACTAGTACTTTCTGGGATTTTAACCTAACACT
131 GGCTTTTGGGCCTCTTCCATATTGGATCCAATTACTAGTACTTTCTGGGATTTTAACCTAACACT
233946 TGATAATTTGATCAAACCAATATTTGTTTTTCCATTTCCCAAAAATAGAAAGAG
196 TGATAATTTGATCAAACCAATATTTGTTTTTCCATTTCCCAAAAATAGAAAGAG
234000 AAAACCCTTATTGAATTGTAGAAGTTTATTTCAACTAGAAAAACGAACTCCTAGTCTAACTAGAA
1 AAAACCCTTATTGAATTGTAGAAGTTTATTTCAACTAGAAAAACGAACTCCTAGTCTAACTAGAA
234065 GTATAGGTGGCGGCAACCCTAGTTAATATTAACTCGGGTTAGTCATCCACCCTATTAACATGAAG
66 GTATAGGTGGCGGCAACCCTAGTTAATATTAACTCGGGTTAGTCATCCACCCTATTAACATGAAG
234130 GGCTTTTGGGCCTCTTCCATATTGGATCCAATTACTAGTACTTTCTGGGATTTTAACCTAACACT
131 GGCTTTTGGGCCTCTTCCATATTGGATCCAATTACTAGTACTTTCTGGGATTTTAACCTAACACT
234195 TGATAATTTGATCAAACCAATATTTGTTTTTCCATTTCCCAAAA
196 TGATAATTTGATCAAACCAATATTTGTTTTTCCATTTCCCAAAA
234239 TAAACTCTAA
Statistics
Matches: 239, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
249 239 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (249 bp):
AAAACCCTTATTGAATTGTAGAAGTTTATTTCAACTAGAAAAACGAACTCCTAGTCTAACTAGAA
GTATAGGTGGCGGCAACCCTAGTTAATATTAACTCGGGTTAGTCATCCACCCTATTAACATGAAG
GGCTTTTGGGCCTCTTCCATATTGGATCCAATTACTAGTACTTTCTGGGATTTTAACCTAACACT
TGATAATTTGATCAAACCAATATTTGTTTTTCCATTTCCCAAAAATAGAAAGAG
Found at i:234542 original size:16 final size:17
Alignment explanation
Indices: 234523--234555 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
234513 ATTCATTCCC
234523 AAATGGTTT-CATTTCT
1 AAATGGTTTCCATTTCT
*
234539 AAATGTTTTCCATTTCT
1 AAATGGTTTCCATTTCT
234556 CCCTTTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (17 bp):
AAATGGTTTCCATTTCT
Found at i:235426 original size:34 final size:34
Alignment explanation
Indices: 235383--235497 Score: 122
Period size: 34 Copynumber: 3.4 Consensus size: 34
235373 ACTACGTGTA
* * *
235383 TTGGTGTGGTGTAGTTATCGTTCTCTCAAGCCAT
1 TTGGTGTGGTGTAATTATCGCTCTATCAAGCCAT
* *
235417 TTGGTGTGGTGTAATTATCGCTCTATCGAGTCAT
1 TTGGTGTGGTGTAATTATCGCTCTATCAAGCCAT
* * * ** *
235451 TTGGTGTGGTGTACTTCTTGCTCTATTGAGCTAT
1 TTGGTGTGGTGTAATTATCGCTCTATCAAGCCAT
*
235485 CTGGTGTGGTGTA
1 TTGGTGTGGTGTA
235498 GTAACCCGTG
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 69 1.00
ACGTcount: A:0.14, C:0.15, G:0.29, T:0.43
Consensus pattern (34 bp):
TTGGTGTGGTGTAATTATCGCTCTATCAAGCCAT
Found at i:236616 original size:21 final size:20
Alignment explanation
Indices: 236581--236641 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
236571 ATAAGTGATG
*
236581 AGATAAAAATAAATAAATAA
1 AGATAAAAATGAATAAATAA
*
236601 CGATAACAAATGAATAAATAA
1 AGATAA-AAATGAATAAATAA
*
236622 AAATAAAAAATGAACTAAAT
1 AGAT-AAAAATGAA-TAAAT
236642 CAATAAACCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 5 0.15
21 22 0.65
22 7 0.21
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.20
Consensus pattern (20 bp):
AGATAAAAATGAATAAATAA
Found at i:241572 original size:22 final size:21
Alignment explanation
Indices: 241509--241582 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 21
241499 CAGCAAAGTT
*
241509 GCCAGTAATCAGAATGGCTAATA
1 GCCA-TAAACAGAATGGCTAA-A
* *
241532 GCCATAAACAGGATAGCTATAA
1 GCCATAAACAGAATGGCTA-AA
* *
241554 GCTATAAATAGAATGGCTACAA
1 GCCATAAACAGAATGGCTA-AA
241576 GCCATAA
1 GCCATAA
241583 GTACAGTAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 36 0.88
23 5 0.12
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (21 bp):
GCCATAAACAGAATGGCTAAA
Found at i:241635 original size:32 final size:31
Alignment explanation
Indices: 241574--241636 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
241564 GAATGGCTAC
**
241574 AAGCCATAAGTACAGTAATATGATTGGCACA
1 AAGCCATAAGTACAGTAATATGACCGGCACA
*
241605 AAGCCATAAGTAGTAGTAATATGACCGGCACA
1 AAGCCATAAGTA-CAGTAATATGACCGGCACA
241637 CAGGCATCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (31 bp):
AAGCCATAAGTACAGTAATATGACCGGCACA
Found at i:241733 original size:27 final size:27
Alignment explanation
Indices: 241703--241757 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
241693 AGCTGCCAAC
*
241703 AATAGT-ATATGTGGCCA-AGCCACTAGT
1 AATAGTGAT-TGTGG-CAGAGCCACCAGT
241730 AATAGTGATTGTGGCAGAGCCACCAGT
1 AATAGTGATTGTGGCAGAGCCACCAGT
241757 A
1 A
241758 CAGTACTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 2 0.08
27 21 0.84
28 2 0.08
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (27 bp):
AATAGTGATTGTGGCAGAGCCACCAGT
Found at i:241908 original size:24 final size:24
Alignment explanation
Indices: 241826--241959 Score: 108
Period size: 24 Copynumber: 5.6 Consensus size: 24
241816 CCATGCACAG
** *
241826 AATCAGTCATACAAATCACAGGCA
1 AATCAGTCATTTAAATCACAGACA
* * * *
241850 AATCATTCATATCAATCATAGACA
1 AATCAGTCATTTAAATCACAGACA
* *
241874 AATTAGTCATTTAAATCACAGAAA
1 AATCAGTCATTTAAATCACAGACA
* * *
241898 AATCAGTCATTTACACCTC-GAACA
1 AATCAGTCATTTAAATCACAG-ACA
* *
241922 AATCAATCATTTACATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
* *
241946 TATCAATCATTTAA
1 AATCAGTCATTTAA
241960 CCCCGATCGG
Statistics
Matches: 87, Mismatches: 21, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
23 1 0.01
24 85 0.98
25 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.27
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGACA
Found at i:242007 original size:27 final size:27
Alignment explanation
Indices: 241977--242033 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
241967 CGGTAAAATA
*
241977 GTCATTTTACCCTACAGGGTCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
242004 GTCATTTTACCTTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
242031 GTC
1 GTC
242034 CTTATTACGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:244583 original size:197 final size:198
Alignment explanation
Indices: 244362--244756 Score: 783
Period size: 197 Copynumber: 2.0 Consensus size: 198
244352 ATTTGGGTCG
244362 AAAAAAATTTTAGAATATTTTTTATTGGGGGTTAATTTGAGTTAAATTTAAATATTAATTAAATT
1 AAAAAAATTTTAGAATATTTTTTATTGGGGGTTAATTTGAGTTAAATTTAAATATTAATTAAATT
244427 GGATTTAATTGTAAAATAAAAGAAATTTTATTGTATTTATTTGGCAAAGAAACCTTTAAATTCAA
66 GGATTTAATTGTAAAATAAAAGAAATTTTATTGTATTTATTTGGCAAAGAAACCTTTAAATTCAA
244492 AATTTTGGAGGGAAAGGATTAATTGGTAAAGTAAGGGAAATGTGGGAGTGGCTATTGGGAAAATT
131 AATTTTGGAGGGAAAGGATTAATTGGTAAAGTAAGGGAAATGTGGGAGTGGCTATTGGGAAAATT
244557 TCC
196 TCC
244560 AAAAAAA-TTTAGAATATTTTTTATTGGGGGTTAATTTGAGTTAAATTTAAATATTAATTAAATT
1 AAAAAAATTTTAGAATATTTTTTATTGGGGGTTAATTTGAGTTAAATTTAAATATTAATTAAATT
244624 GGATTTAATTGTAAAATAAAAGAAATTTTATTGTATTTATTTGGCAAAGAAACCTTTAAATTCAA
66 GGATTTAATTGTAAAATAAAAGAAATTTTATTGTATTTATTTGGCAAAGAAACCTTTAAATTCAA
244689 AATTTTGGAGGGAAAGGATTAATTGGTAAAGTAAGGGAAATGTGGGAGTGGCTATTGGGAAAATT
131 AATTTTGGAGGGAAAGGATTAATTGGTAAAGTAAGGGAAATGTGGGAGTGGCTATTGGGAAAATT
244754 TCC
196 TCC
244757 CAATTTTTAA
Statistics
Matches: 197, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
197 190 0.96
198 7 0.04
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (198 bp):
AAAAAAATTTTAGAATATTTTTTATTGGGGGTTAATTTGAGTTAAATTTAAATATTAATTAAATT
GGATTTAATTGTAAAATAAAAGAAATTTTATTGTATTTATTTGGCAAAGAAACCTTTAAATTCAA
AATTTTGGAGGGAAAGGATTAATTGGTAAAGTAAGGGAAATGTGGGAGTGGCTATTGGGAAAATT
TCC
Found at i:263260 original size:7 final size:7
Alignment explanation
Indices: 263248--263274 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
263238 GGACGTACGA
263248 CAGACTT
1 CAGACTT
263255 CAGACTT
1 CAGACTT
263262 CAGACTT
1 CAGACTT
263269 CAGACT
1 CAGACT
263275 CAATTTTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (7 bp):
CAGACTT
Found at i:266740 original size:17 final size:16
Alignment explanation
Indices: 266720--266767 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 16
266710 TTTTACTATC
266720 TAAATTAATAAATTAAA
1 TAAATT-ATAAATTAAA
266737 TAAAATTATAAATTAAA
1 T-AAATTATAAATTAAA
*
266754 TAAAATTATTAATT
1 T-AAATTATAAATT
266768 TAGATCAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 24 0.83
18 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAATTATAAATTAAA
Found at i:267156 original size:26 final size:27
Alignment explanation
Indices: 267127--267191 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 27
267117 TACTCCATAG
267127 CTCGTGTGAGCAAG-CCCATTTCACAA
1 CTCGTGTGAGCAAGACCCATTTCACAA
* *
267153 CTCGAGTGAGC-AGACCCATTTCACAG
1 CTCGTGTGAGCAAGACCCATTTCACAA
267179 CTCGTGTGAGCAA
1 CTCGTGTGAGCAA
267192 TGATATAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.06
26 31 0.91
27 1 0.03
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (27 bp):
CTCGTGTGAGCAAGACCCATTTCACAA
Found at i:283151 original size:20 final size:20
Alignment explanation
Indices: 283126--283165 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
283116 TCAAGCAACG
283126 TAAACATAGAATTAAAATAA
1 TAAACATAGAATTAAAATAA
283146 TAAACATAGAATTAAAATAA
1 TAAACATAGAATTAAAATAA
283166 ACGATAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (20 bp):
TAAACATAGAATTAAAATAA
Found at i:284595 original size:21 final size:21
Alignment explanation
Indices: 284570--284614 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
284560 AATTAGTGTC
* * *
284570 TTTATTCATGACATAGGTAAA
1 TTTATCCATAACATAAGTAAA
284591 TTTATCCATAACATAAGTAAA
1 TTTATCCATAACATAAGTAAA
284612 TTT
1 TTT
284615 CTCACATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (21 bp):
TTTATCCATAACATAAGTAAA
Found at i:290731 original size:12 final size:11
Alignment explanation
Indices: 290678--290751 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
290668 TTACAAAACT
*
290678 TAAAATCAAAA
1 TAAAATAAAAA
290689 TAAAA-ACAAAA
1 TAAAATA-AAAA
*
290700 -AAGATAAAAAA
1 TAAAAT-AAAAA
290711 TAAAATAAAAA
1 TAAAATAAAAA
* *
290722 TAAACTTAAACA
1 TAAA-ATAAAAA
*
290734 TAAAGATAAAGA
1 TAAA-ATAAAAA
290746 TAAAAT
1 TAAAAT
290752 TTATTTATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
10 3 0.06
11 24 0.48
12 23 0.46
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.18
Consensus pattern (11 bp):
TAAAATAAAAA
Done.