Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 14 of 310
Found at i:3597554 original size:290 final size:290
Alignment explanation
Indices: 3597034--3597906 Score: 1719
Period size: 290 Copynumber: 3.0 Consensus size: 290
3597024 TTTCTTATAG
*
3597034 TTTATGACTAGAAGAAACCTGTCAGGACCATTACTTTTTGATGAAGAAATCGATCGTATAGTTTA
1 TTTATGACTAGAAGAAACCTGTCAGGACCATTACTTTTTGACGAAGAAATCGATCGTATAGTTTA
3597099 CAGAAATCAAAGAGAAATAAGGCGAAGCTTACGATACACAGAGAACGAGCAAGAAGACAATATTC
66 CAGAAATCAAAGAGAAATAAGGCGAAGCTTACGATACACAGAGAACGAGCAAGAAGACAATATTC
3597164 AACCTCCAATCGAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTCCTGCAATTGTGGCTAAT
131 AACCTCCAATCGAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTCCTGCAATTGTGGCTAAT
3597229 CAAAATCCTGCTCCACGCACTATGTATTATTATGCTAAACCTTCTTTAACTGGAACTGAATCTAG
196 CAAAATCCTGCTCCACGCACTATGTATTATTATGCTAAACCTTCTTTAACTGGAACTGAATCTAG
3597294 CATAGTTAGACCTGCTGTAGCTGCAAATAC
261 CATAGTTAGACCTGCTGTAGCTGCAAATAC
3597324 TTTATGACTAGAAGAAACCTGTCAGGACCATTACTTTTTGACGAAGAAATCGATCGTATAGTTTA
1 TTTATGACTAGAAGAAACCTGTCAGGACCATTACTTTTTGACGAAGAAATCGATCGTATAGTTTA
3597389 CAGAAATCAAAGAGAAATAAGGCGAAGCTTACGATACACAGAGAACGAGCAAGAAGACAATATTC
66 CAGAAATCAAAGAGAAATAAGGCGAAGCTTACGATACACAGAGAACGAGCAAGAAGACAATATTC
**
3597454 AACCTCCAATCGAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTTTTGCAATTGTGGCTAAT
131 AACCTCCAATCGAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTCCTGCAATTGTGGCTAAT
3597519 CAAAATCCTGCTCCACGCACTATGTATTATTATGCTAAACCTTCTTTAACTGGAACTGAATCTAG
196 CAAAATCCTGCTCCACGCACTATGTATTATTATGCTAAACCTTCTTTAACTGGAACTGAATCTAG
3597584 CATAGTTAGACCTGCTGTAGCTGCAAATAC
261 CATAGTTAGACCTGCTGTAGCTGCAAATAC
3597614 TTTATGACTAGAAGAAACCTGTCAGGACCATTACTTTTTGACGAAGAAATCGATCGTATAGTTTA
1 TTTATGACTAGAAGAAACCTGTCAGGACCATTACTTTTTGACGAAGAAATCGATCGTATAGTTTA
3597679 CAGAAATCAAAGAGAAATAAGGCGAAGCTTACGATACACAGAGAACGAGCAAGAAGACAATATTC
66 CAGAAATCAAAGAGAAATAAGGCGAAGCTTACGATACACAGAGAACGAGCAAGAAGACAATATTC
3597744 AACCTCCAATCGAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTCCTGCAATTGTGGCTAAT
131 AACCTCCAATCGAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTCCTGCAATTGTGGCTAAT
3597809 CAAAATCCTGCTCCACGCACTATGTATTATTATGCTAAACCTTCTTTAACTGGAACTGAATCTAG
196 CAAAATCCTGCTCCACGCACTATGTATTATTATGCTAAACCTTCTTTAACTGGAACTGAATCTAG
3597874 CATAGTTAGACCTGCTGTAGCTGCAAATAC
261 CATAGTTAGACCTGCTGTAGCTGCAAATAC
3597904 TTT
1 TTT
3597907 TGAATTAAAA
Statistics
Matches: 578, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
290 578 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (290 bp):
TTTATGACTAGAAGAAACCTGTCAGGACCATTACTTTTTGACGAAGAAATCGATCGTATAGTTTA
CAGAAATCAAAGAGAAATAAGGCGAAGCTTACGATACACAGAGAACGAGCAAGAAGACAATATTC
AACCTCCAATCGAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTCCTGCAATTGTGGCTAAT
CAAAATCCTGCTCCACGCACTATGTATTATTATGCTAAACCTTCTTTAACTGGAACTGAATCTAG
CATAGTTAGACCTGCTGTAGCTGCAAATAC
Found at i:3607883 original size:17 final size:18
Alignment explanation
Indices: 3607856--3607889 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
3607846 TCTATTTTAT
3607856 ATTTTTAAAATTATATAC
1 ATTTTTAAAATTATATAC
3607874 ATTTTT-AAATTATATA
1 ATTTTTAAAATTATATA
3607890 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTTAAAATTATATAC
Found at i:3607897 original size:17 final size:16
Alignment explanation
Indices: 3607853--3607897 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
3607843 CTTTCTATTT
*
3607853 TATATTTTTAAAATTA
1 TATATTTTTTAAATTA
*
3607869 TATACATTTTTAAATTA
1 TATA-TTTTTTAAATTA
3607886 TATATTTCTTTA
1 TATATTT-TTTA
3607898 TTTTATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (16 bp):
TATATTTTTTAAATTA
Found at i:3607978 original size:22 final size:21
Alignment explanation
Indices: 3607930--3607979 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
3607920 AACAAATTTT
*
3607930 AAAATTTTATATTTTTGAAAA
1 AAAAATTTATATTTTTGAAAA
*
3607951 ATAAAATTTATATGTTTTACAAAA
1 A-AAAATTTATAT-TTTT-GAAAA
3607975 AAAAA
1 AAAAA
3607980 GGTCACGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 1 0.04
22 10 0.42
23 8 0.33
24 5 0.21
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (21 bp):
AAAAATTTATATTTTTGAAAA
Found at i:3607979 original size:23 final size:22
Alignment explanation
Indices: 3607930--3607979 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
3607920 AACAAATTTT
*
3607930 AAAATTTTATATTTTTGAAAAA
1 AAAAATTTATATTTTTGAAAAA
*
3607952 TAAAATTTATATGTTTT-ACAAAA
1 AAAAATTTATAT-TTTTGA-AAAA
3607975 AAAAA
1 AAAAA
3607980 GGTCACGTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (22 bp):
AAAAATTTATATTTTTGAAAAA
Found at i:3609805 original size:45 final size:45
Alignment explanation
Indices: 3609754--3609860 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 45
3609744 GCAGCAGTAG
* *
3609754 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAA
* * * *
3609799 TAGTAACGGTAATAGTATTCGACACACAAAGTGTTGAATCGGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAA
3609844 CAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
3609861 ACAGTAGTCG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAA
Found at i:3609855 original size:12 final size:12
Alignment explanation
Indices: 3609838--3609862 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3609828 AGTGTTGAAT
3609838 CGGTAACAGTAA
1 CGGTAACAGTAA
3609850 CGGTAACAGTAA
1 CGGTAACAGTAA
3609862 C
1 C
3609863 AGTAGTCGGC
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:3610511 original size:18 final size:18
Alignment explanation
Indices: 3610488--3610529 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
3610478 CTTTTGTTTC
* *
3610488 TTCTTTACTTTGTTTTAT
1 TTCTTTACTTTATTTCAT
*
3610506 TTCTTTATTTTATTTCAT
1 TTCTTTACTTTATTTCAT
3610524 TTCTTT
1 TTCTTT
3610530 TATTCTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (18 bp):
TTCTTTACTTTATTTCAT
Found at i:3610516 original size:13 final size:14
Alignment explanation
Indices: 3610500--3610546 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 14
3610490 CTTTACTTTG
3610500 TTTTATTTC-TTTA
1 TTTTATTTCATTTA
*
3610513 TTTTATTTCATTTC
1 TTTTATTTCATTTA
*
3610527 TTTTA-TTCTTTTA
1 TTTTATTTCATTTA
3610540 TTTTATT
1 TTTTATT
3610547 AACTTTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 20 0.69
14 9 0.31
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTCATTTA
Found at i:3612890 original size:16 final size:16
Alignment explanation
Indices: 3612869--3612900 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3612859 TATCCATAGG
3612869 CGCTGCCTCAAATTCA
1 CGCTGCCTCAAATTCA
3612885 CGCTGCCTCAAATTCA
1 CGCTGCCTCAAATTCA
3612901 ACTCTTTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.38, G:0.12, T:0.25
Consensus pattern (16 bp):
CGCTGCCTCAAATTCA
Found at i:3620597 original size:23 final size:22
Alignment explanation
Indices: 3620547--3620597 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
3620537 TAGTTCATTA
*
3620547 ATTTGATAAATTTTTTTAATTT
1 ATTTTATAAATTTTTTTAATTT
* * *
3620569 AATTTATATATTTTTTTTATATT
1 ATTTTATAAATTTTTTTAAT-TT
3620592 ATTTTA
1 ATTTTA
3620598 CATTAATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTTATAAATTTTTTTAATTT
Found at i:3626909 original size:38 final size:38
Alignment explanation
Indices: 3626795--3627189 Score: 475
Period size: 38 Copynumber: 10.2 Consensus size: 38
3626785 ATATTCGATG
3626795 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
3626833 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* * *
3626873 AATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
3626911 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* * *
3626951 AATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
3626989 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* * *
3627029 AATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
3627067 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* *
3627107 AATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
** * * *
3627145 TATATCTAGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
3627183 TATATCC
1 TATATCC
3627190 AGGCCTTCGT
Statistics
Matches: 299, Mismatches: 50, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
38 148 0.49
39 40 0.13
40 111 0.37
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:3626925 original size:78 final size:78
Alignment explanation
Indices: 3626796--3627150 Score: 656
Period size: 78 Copynumber: 4.6 Consensus size: 78
3626786 TATTCGATGT
* *
3626796 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCT
1 ATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCT
3626861 TCGTGTTGGTAAA
66 TCGTGTTGGTAAA
3626874 ATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCT
1 ATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCT
3626939 TCGTGTTGGTAAA
66 TCGTGTTGGTAAA
3626952 ATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCT
1 ATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCT
3627017 TCGTGTTGGTAAA
66 TCGTGTTGGTAAA
3627030 ATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCT
1 ATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCT
*
3627095 TCGTGCTGGTAAA
66 TCGTGTTGGTAAA
* * *
3627108 ATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTATTATATC
1 ATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTATTATATC
3627151 TAGGATAAAT
Statistics
Matches: 271, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 271 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (78 bp):
ATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCT
TCGTGTTGGTAAA
Found at i:3634478 original size:42 final size:43
Alignment explanation
Indices: 3634394--3634481 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 43
3634384 ACATTGGATT
* *
3634394 TCATATCGATGCCAATAGCATAGCTATAGTCTTACACAAAAAC
1 TCATATCGATGCCAATAGCACAGATATAGTCTTACACAAAAAC
* * * *
3634437 TCATATCGATGCC-ATATCCCAGATATGGTCTTACACGAAAAC
1 TCATATCGATGCCAATAGCACAGATATAGTCTTACACAAAAAC
3634479 TCA
1 TCA
3634482 AATAACCCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 26 0.67
43 13 0.33
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.26
Consensus pattern (43 bp):
TCATATCGATGCCAATAGCACAGATATAGTCTTACACAAAAAC
Found at i:3639383 original size:50 final size:49
Alignment explanation
Indices: 3639322--3639418 Score: 167
Period size: 50 Copynumber: 2.0 Consensus size: 49
3639312 TTCTTTCCCA
3639322 AACAAAATTGATTAAACTTTAAGCGCCAATGAATAAGGGATTTCATNCCT
1 AACAAAATTGATTAAACTTTAAGCGCCAATGAATAAGGGATTTCAT-CCT
* *
3639372 AACAAATTTGATTAAGCTTTAAGCGCCAATGAATAAGGGATTTCATC
1 AACAAAATTGATTAAACTTTAAGCGCCAATGAATAAGGGATTTCATC
3639419 TTTTGGTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 1 0.02
50 44 0.98
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.29
Consensus pattern (49 bp):
AACAAAATTGATTAAACTTTAAGCGCCAATGAATAAGGGATTTCATCCT
Found at i:3641336 original size:11 final size:11
Alignment explanation
Indices: 3641322--3641373 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
3641312 TCTTTCAATA
3641322 TTCTCTCAAAT
1 TTCTCTCAAAT
*
3641333 TTCTCTTAAA-
1 TTCTCTCAAAT
3641343 -TCTCTCAAAT
1 TTCTCTCAAAT
*
3641353 TTCTCTTAAAT
1 TTCTCTCAAAT
*
3641364 TCCTCTCAAA
1 TTCTCTCAAA
3641374 ACTCTCGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.24
11 26 0.76
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:3641345 original size:31 final size:31
Alignment explanation
Indices: 3641305--3641379 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
3641295 ATCCTTTCAA
* * *
3641305 TCTTCAATCTTTC-AATATTCTCTCAAATTTC
1 TCTTAAATCTCTCAAAT-TTCTCTCAAATTCC
*
3641336 TCTTAAATCTCTCAAATTTCTCTTAAATTCC
1 TCTTAAATCTCTCAAATTTCTCTCAAATTCC
* *
3641367 TCTCAAAACTCTC
1 TCTTAAATCTCTC
3641380 GTTAATTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
31 34 0.92
32 3 0.08
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (31 bp):
TCTTAAATCTCTCAAATTTCTCTCAAATTCC
Found at i:3641348 original size:20 final size:21
Alignment explanation
Indices: 3641321--3641373 Score: 90
Period size: 20 Copynumber: 2.5 Consensus size: 21
3641311 ATCTTTCAAT
3641321 ATTCTCTCAAATTTCTCTTAA
1 ATTCTCTCAAATTTCTCTTAA
3641342 A-TCTCTCAAATTTCTCTTAA
1 ATTCTCTCAAATTTCTCTTAA
3641362 ATTCCTCTCAAA
1 ATT-CTCTCAAA
3641374 ACTCTCGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 20 0.67
21 2 0.07
22 8 0.27
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTCTCTCAAATTTCTCTTAA
Found at i:3641386 original size:22 final size:22
Alignment explanation
Indices: 3641324--3641384 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 22
3641314 TTTCAATATT
**
3641324 CTCTCAAATTTCTCTTAAA-T-
1 CTCTCAAAACTCTCTTAAATTC
**
3641344 CTCTCAAATTTCTCTTAAATTC
1 CTCTCAAAACTCTCTTAAATTC
3641366 CTCTCAAAACTCTCGTTAA
1 CTCTCAAAACTCTC-TTAA
3641385 TTTTTTCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 19 0.53
21 1 0.03
22 12 0.33
23 4 0.11
ACGTcount: A:0.30, C:0.28, G:0.02, T:0.41
Consensus pattern (22 bp):
CTCTCAAAACTCTCTTAAATTC
Found at i:3641430 original size:17 final size:16
Alignment explanation
Indices: 3641400--3641431 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3641390 TCAAAAAAGC
*
3641400 TCTAATTTTATTTTTT
1 TCTAAATTTATTTTTT
3641416 TCTAAATTTATTTTTT
1 TCTAAATTTATTTTTT
3641432 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (16 bp):
TCTAAATTTATTTTTT
Found at i:3643193 original size:18 final size:18
Alignment explanation
Indices: 3643170--3643212 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
3643160 TGCCAGGTAC
*
3643170 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
3643188 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
3643206 GTTTCCT
1 GTATCCT
3643213 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:3643801 original size:116 final size:116
Alignment explanation
Indices: 3643597--3643865 Score: 475
Period size: 116 Copynumber: 2.3 Consensus size: 116
3643587 TATTTGTACA
*
3643597 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
* * *
3643662 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
* *
3643713 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
3643778 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
*
3643829 AATATTTTGAATATTTTTATATTATTTCATGTAATAA
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAA
3643866 AATATAAATA
Statistics
Matches: 145, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 145 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
Found at i:3643826 original size:54 final size:54
Alignment explanation
Indices: 3643646--3643827 Score: 172
Period size: 54 Copynumber: 3.2 Consensus size: 54
3643636 TAAAAGGTTG
* *
3643646 TTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
* * * * * *
3643700 TTTTAAATAAGGCAACATTTTGAATATT--TTTATATTATTTCATGTGATAATAT-AAAAGGTTG
1 TTTTAAATAAAG-TA-ATTAT-AAT-TTACTTT-TA-TATTT--T-TAATAAAATGAAAA--TTA
3643762 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
3643816 TTTTAAATAAAG
1 TTTTAAATAAAG
3643828 CAATATTTTG
Statistics
Matches: 101, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
54 25 0.25
55 8 0.08
56 12 0.12
57 5 0.05
58 14 0.14
59 5 0.05
60 11 0.11
61 8 0.08
62 13 0.13
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (54 bp):
TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
Found at i:3643868 original size:55 final size:54
Alignment explanation
Indices: 3643600--3643868 Score: 154
Period size: 55 Copynumber: 4.7 Consensus size: 54
3643590 TTGTACAAAC
* *
3643600 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAG-TA
1 ATTTTGAATATTTTTATATTATTTCATG----TA-ATAAAA--TTATTTTAAATAAAGCAA
* * * ** * *
3643660 ATTGT-AATTTACTTTTATATT-TTTAATAAAATGGAAATTATTTTAAATAAGGCAA
1 ATTTTGAA--TATTTTTATATTATTTCATGTAAT-AAAATTATTTTAAATAAAGCAA
* *
3643715 CATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAG-TA
1 -ATTTTGAATATTTTTATATTATTTCA--TG-T-A-ATAAAA--TTATTTTAAATAAAGCAA
* * * **
3643776 ATTAT-AATTTACTTTTATATT-TTTAATAAAATGAAAATTATTTTAAATAAAGCAA
1 ATTTTGAA--TATTTTTATATTATTTCATGTAAT-AAAATTATTTTAAATAAAGCAA
3643831 TATTTTGAATATTTTTATATTATTTCATGTAATAAAAT
1 -ATTTTGAATATTTTTATATTATTTCATGTAATAAAAT
3643869 ATAAATAATA
Statistics
Matches: 158, Mismatches: 30, Indels: 47
0.67 0.13 0.20
Matches are distributed among these distances:
54 27 0.17
55 33 0.21
56 29 0.18
57 4 0.03
58 2 0.01
59 4 0.03
60 21 0.13
61 25 0.16
62 13 0.08
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.48
Consensus pattern (54 bp):
ATTTTGAATATTTTTATATTATTTCATGTAATAAAATTATTTTAAATAAAGCAA
Found at i:3647320 original size:245 final size:248
Alignment explanation
Indices: 3646890--3647537 Score: 982
Period size: 245 Copynumber: 2.6 Consensus size: 248
3646880 TTTCAGAAAC
* *
3646890 CACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGC
1 CACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGC
* ** * * *
3646955 TTGAAGCGTTTTTGACACTATTTATGCAGACATGTCTTCTCAAAATTATTTTTTCAGAGACCATT
66 TTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTACT
* *
3647020 GTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCTAGTAATTTTGCTGAAAATGCATCCTGCTTGA
131 GTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTCTAGTAATTTTGCTGAAAATGCATCCTACTTGA
*
3647085 AGCG-TTTTGACCACTATTTGCGCAGACACGTCTTCTCAAAATTA-TTTTT-T-
196 AGCGTTTTTGA-CACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTATA
*
3647135 CACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGC
1 CACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGC
* * * *
3647200 TTGAAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTTAAAATTATTTTTTTAGATACTACT
66 TTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTACT
* * *
3647265 GTAGCGAAAGAGCGTCCACGTGGGAGCTTCTT-TCAGTACTTTTGCTGACAATGCATCCTACTTG
131 GTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTCT-AGTAATTTTGCTGAAAATGCATCCTACTTG
* *
3647329 AAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTTAAAATTATTTTTTTAGATA
195 AAGCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTA-TTTTTT--ATA
* *
3647386 CTACTGTAGCGAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTA
1 C-ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTG
*
3647451 CTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAAAGACTAC
65 CTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTAC
*
3647516 TGCAGCAAAAGAGCGTCCACGT
130 TGTAGCAAAAGAGCGTCCACGT
3647538 AGAAGCTTTT
Statistics
Matches: 363, Mismatches: 31, Indels: 11
0.90 0.08 0.03
Matches are distributed among these distances:
244 1 0.00
245 210 0.58
246 5 0.01
247 5 0.01
250 1 0.00
251 1 0.00
252 140 0.39
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (248 bp):
CACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGC
TTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTACT
GTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTCTAGTAATTTTGCTGAAAATGCATCCTACTTGA
AGCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTATA
Found at i:3647545 original size:126 final size:126
Alignment explanation
Indices: 3646880--3647537 Score: 974
Period size: 126 Copynumber: 5.3 Consensus size: 126
3646870 GCCCAAGTTA
* * * *
3646880 TTTCAGAAACCACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
* ** *
3646945 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACATGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * * *
3647006 TTTCAGAGACCATTGTAGCAAAAGAGCATCCACGTGGGAGCTTC-TTCTAGTAATTTTGCTGAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTC-AGTACTTTTGCTGACA
*
3647070 ATGCATCCTGCTTGAAGCG-TTTTGACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
65 ATGCATCCTGCTTGAAGCGTTTTTTA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
3647132 TTT------C-ACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
* *
3647190 TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTTAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
3647251 TTTTAGATACTACTGTAGCGAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
* * *
3647316 TGCATCCTACTTGAAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTTAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
3647377 TTTTAGATACTACTGTAGCGAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
*
3647442 TGCATCCTACTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
3647503 TTTCAAAGACTACTGCAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
3647538 AGAAGCTTTT
Statistics
Matches: 495, Mismatches: 26, Indels: 22
0.91 0.05 0.04
Matches are distributed among these distances:
119 100 0.20
120 9 0.02
125 10 0.02
126 376 0.76
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:3648301 original size:6 final size:6
Alignment explanation
Indices: 3648292--3648321 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
3648282 TTTTATGTTC
*
3648292 TAAATT TAAATT TAAATT TAAATT TGAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT
3648322 GAATTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
TAAATT
Found at i:3649061 original size:31 final size:31
Alignment explanation
Indices: 3648987--3649061 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
3648977 TCAAAAAATA
* *
3648987 ACAAATCAGTCAATAATGTTATTGAAAAGTG
1 ACAAATCAGTCACTAATATTATTGAAAAGTG
3649018 ACAAATCAGTCACTAATATTATTGAAAAGTG
1 ACAAATCAGTCACTAATATTATTGAAAAGTG
*
3649049 ACAAACCAGTCAC
1 ACAAATCAGTCAC
3649062 CCATTAACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (31 bp):
ACAAATCAGTCACTAATATTATTGAAAAGTG
Found at i:3650233 original size:5 final size:5
Alignment explanation
Indices: 3650225--3650272 Score: 89
Period size: 5 Copynumber: 9.8 Consensus size: 5
3650215 TTTTATTTTA
3650225 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT-TT TTCT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCT
3650273 AAAAATTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 38 0.90
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:3650335 original size:18 final size:18
Alignment explanation
Indices: 3650321--3650356 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3650311 TTCTTTTCTT
3650321 CTTTCTTTCCTTTTTCTGA
1 CTTT-TTTCCTTTTTCTGA
*
3650340 CTTTTTTCCTTTCTCTG
1 CTTTTTTCCTTTTTCTG
3650357 TAAAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.03, C:0.28, G:0.06, T:0.64
Consensus pattern (18 bp):
CTTTTTTCCTTTTTCTGA
Found at i:3655434 original size:29 final size:27
Alignment explanation
Indices: 3655408--3655518 Score: 82
Period size: 29 Copynumber: 3.9 Consensus size: 27
3655398 ATATTATTGC
*
3655408 TATTATTATTATGTTTCTATTTATATT
1 TATTATTATTATATTTCTATTTATATT
* * * *
3655435 TAGTTTTTTATTCTAATACTA-TTATTATT
1 TA--TTATTATTATATTTCTATTTA-TATT
3655464 TATCTAATTATTAT-TTATCTATTTATATTT
1 TAT-T-ATTATTATATT-TCTATTTATA-TT
*
3655494 CTACTATTATTATATTTCTATTTAT
1 -TATTATTATTATATTTCTATTTAT
3655519 TATATTTTTG
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
27 3 0.05
28 5 0.08
29 46 0.72
30 8 0.12
31 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (27 bp):
TATTATTATTATATTTCTATTTATATT
Found at i:3655475 original size:15 final size:15
Alignment explanation
Indices: 3655455--3655521 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
3655445 TTCTAATACT
3655455 ATTATTATTTATCTA
1 ATTATTATTTATCTA
3655470 ATTATTATTTATCTA
1 ATTATTATTTATCTA
* *
3655485 TTTA-TATTTCTACT-
1 ATTATTATTTAT-CTA
3655499 ATTATTATATT-TCTA
1 ATTATTAT-TTATCTA
*
3655514 TTTATTAT
1 ATTATTAT
3655522 ATTTTTGTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.25
15 31 0.70
16 2 0.05
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTATCTA
Found at i:3655489 original size:44 final size:44
Alignment explanation
Indices: 3655411--3655521 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 44
3655401 TTATTGCTAT
* *
3655411 TATTATTATGTTTCTATTTA-TATTTAGTTTTTTAT-TCTAATAC
1 TATTATTATATTTCTATTTATTATTTAGTTATTTATAT-TAATAC
* **
3655454 TATTATTAT-TTATCTAATTATTATTTA-TCTATTTATATTTCTAC
1 TATTATTATATT-TCTATTTATTATTTAGT-TATTTATATTAATAC
3655498 TATTATTATATTTCTATTTATTAT
1 TATTATTATATTTCTATTTATTAT
3655522 ATTTTTGTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.03
43 17 0.29
44 36 0.62
45 3 0.05
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (44 bp):
TATTATTATATTTCTATTTATTATTTAGTTATTTATATTAATAC
Found at i:3655706 original size:25 final size:26
Alignment explanation
Indices: 3655678--3655771 Score: 75
Period size: 25 Copynumber: 3.7 Consensus size: 26
3655668 CTCATTTCAA
*
3655678 ATTTTTATACATTATTTACTTT-AAT
1 ATTTTTATACATTATTTATTTTAAAT
* * *
3655703 ATTTTCATATATTATGTATTTTAAACT
1 ATTTTTATACATTATTTATTTTAAA-T
* * * *
3655730 TTTTTTACACATTATATATTTTGAAT
1 ATTTTTATACATTATTTATTTTAAAT
* *
3655756 -TGTTTATATATTATTT
1 ATTTTTATACATTATTT
3655772 TTAAGGAGTT
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
25 30 0.57
26 3 0.06
27 20 0.38
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (26 bp):
ATTTTTATACATTATTTATTTTAAAT
Found at i:3660441 original size:21 final size:21
Alignment explanation
Indices: 3660415--3660456 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
3660405 AGTTTCCCCC
3660415 GTTTGCAGTGGCTATACAATT
1 GTTTGCAGTGGCTATACAATT
*
3660436 GTTTGCAGTGGCTATATAATT
1 GTTTGCAGTGGCTATACAATT
3660457 AATTTACAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (21 bp):
GTTTGCAGTGGCTATACAATT
Found at i:3664017 original size:3 final size:3
Alignment explanation
Indices: 3664009--3664052 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
3663999 AGATATTTAC
3664009 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TTA TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
3664053 ATTGAGATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3664202 original size:16 final size:16
Alignment explanation
Indices: 3664178--3664208 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3664168 TAAGTAAATA
*
3664178 AAATGAAATAAAGAAT
1 AAATAAAATAAAGAAT
3664194 AAATAAAATAAAGAA
1 AAATAAAATAAAGAA
3664209 ACAAAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (16 bp):
AAATAAAATAAAGAAT
Found at i:3664277 original size:17 final size:17
Alignment explanation
Indices: 3664248--3664280 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3664238 AATCAAACGA
3664248 AATAGAAAGAAAGAAAG
1 AATAGAAAGAAAGAAAG
3664265 AATA-AAAGAAAAGAAA
1 AATAGAAAG-AAAGAAA
3664281 AAGGAGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (17 bp):
AATAGAAAGAAAGAAAG
Found at i:3665692 original size:13 final size:13
Alignment explanation
Indices: 3665656--3665692 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
3665646 TGATAGTTTG
*
3665656 GTATGAATTTATAT
1 GTATG-ATTTGTAT
3665670 GTATGATTTGTAT
1 GTATGATTTGTAT
3665683 GTATGATTTG
1 GTATGATTTG
3665693 CTAATTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (13 bp):
GTATGATTTGTAT
Found at i:3666242 original size:20 final size:20
Alignment explanation
Indices: 3666217--3666270 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
3666207 TGCCTACGGG
3666217 CAGGCCACACGGGCATGTCC
1 CAGGCCACACGGGCATGTCC
3666237 CAGGCCACACGGGCATGTCC
1 CAGGCCACACGGGCATGTCC
3666257 CAGGCCACACGGGC
1 CAGGCCACACGGGC
3666271 GTGTGCTGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.20, C:0.41, G:0.31, T:0.07
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCC
Found at i:3667586 original size:5 final size:5
Alignment explanation
Indices: 3667576--3667605 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
3667566 TATATATATG
3667576 TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA
3667606 CAAAAAATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:3670187 original size:28 final size:28
Alignment explanation
Indices: 3670116--3670184 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
3670106 TTATAGTAAT
3670116 AAAAGAAAAAAAAAGAAAGACAAAAGCA
1 AAAAGAAAAAAAAAGAAAGACAAAAGCA
* * *
3670144 AAACGAAACAGAAAGAAAGA-AAAA-CA
1 AAAAGAAAAAAAAAGAAAGACAAAAGCA
3670170 AAAAGAGAAAAAAAA
1 AAAAGA-AAAAAAAA
3670185 AGATTGGTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 7 0.21
27 10 0.29
28 17 0.50
ACGTcount: A:0.78, C:0.07, G:0.14, T:0.00
Consensus pattern (28 bp):
AAAAGAAAAAAAAAGAAAGACAAAAGCA
Found at i:3670579 original size:19 final size:20
Alignment explanation
Indices: 3670555--3670595 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
3670545 GAATTTAGGC
*
3670555 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
3670574 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
3670594 AA
1 AA
3670596 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:3678580 original size:8 final size:8
Alignment explanation
Indices: 3678567--3678593 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
3678557 AGCATAAAAT
3678567 AAATAAAG
1 AAATAAAG
3678575 AAATAAAG
1 AAATAAAG
3678583 AAATAAAG
1 AAATAAAG
3678591 AAA
1 AAA
3678594 CAAAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAATAAAG
Found at i:3679720 original size:44 final size:44
Alignment explanation
Indices: 3679645--3679730 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
3679635 GTAGGATATA
* *
3679645 GTTGCCATACCATAGGATTGGAAGTGCTCAGGGATGCTTCGATC
1 GTTGCCATACCATAGGATTGGAAGAGCTCAGGGATACTTCGATC
* * *
3679689 GTTGGCATGCCATAGGATTGGAAGAGTTCAGGGATACTTCGA
1 GTTGCCATACCATAGGATTGGAAGAGCTCAGGGATACTTCGA
3679731 CCTCGAGTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.27
Consensus pattern (44 bp):
GTTGCCATACCATAGGATTGGAAGAGCTCAGGGATACTTCGATC
Found at i:3679841 original size:38 final size:38
Alignment explanation
Indices: 3679739--3679871 Score: 108
Period size: 38 Copynumber: 3.4 Consensus size: 38
3679729 GACCTCGAGT
* * * *
3679739 CGATGAAACACTGGGTGTCACTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA--ACTTTACTTCGGCTAG-TC
** * * *
3679780 CGATGAGGTACTGGGT-ACCACTTTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGGCTAGTC
* *
3679817 CGATGAGACACTGGGTGTCAACTTTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTTTACTTCG-GCTAGTC
*
3679855 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
3679872 CCAAATTGGT
Statistics
Matches: 73, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
37 14 0.19
38 42 0.58
39 3 0.04
40 1 0.01
41 13 0.18
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGCTAGTC
Found at i:3685221 original size:14 final size:12
Alignment explanation
Indices: 3685189--3685268 Score: 52
Period size: 14 Copynumber: 6.1 Consensus size: 12
3685179 TTATAGTAAT
*
3685189 AAAAGAAAAAAAA
1 AAAAG-AAAAAGA
3685202 AGAAAGACAAAAGCA
1 A-AAAGA-AAAAG-A
*
3685217 AAAAGAAACAGAA
1 AAAAGAAAAAG-A
3685230 AGAAAGAAAAAGA
1 A-AAAGAAAAAGA
* *
3685243 AAAAGAGAATGA
1 AAAAGAAAAAGA
*
3685255 GAAAGAAAGAAGA
1 AAAAGAAA-AAGA
3685268 A
1 A
3685269 CCCACGGCTT
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
12 15 0.29
13 13 0.25
14 22 0.42
15 2 0.04
ACGTcount: A:0.75, C:0.04, G:0.20, T:0.01
Consensus pattern (12 bp):
AAAAGAAAAAGA
Found at i:3685231 original size:28 final size:26
Alignment explanation
Indices: 3685189--3685265 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 26
3685179 TTATAGTAAT
*
3685189 AAAAGAAAAAAAAAGAAAGACAAAAGCA
1 AAAAGAAAAAGAAAGAAAGA-AAAAG-A
*
3685217 AAAAGAAACAGAAAGAAAGAAAAAGA
1 AAAAGAAAAAGAAAGAAAGAAAAAGA
*
3685243 AAAAGAGAATGAGAAAGAAAGAA
1 AAAAGA-AA-AAGAAAGAAAGAA
3685266 GAACCCACGG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 7 0.16
27 7 0.16
28 30 0.68
ACGTcount: A:0.75, C:0.04, G:0.19, T:0.01
Consensus pattern (26 bp):
AAAAGAAAAAGAAAGAAAGAAAAAGA
Found at i:3685241 original size:6 final size:6
Alignment explanation
Indices: 3685189--3685268 Score: 52
Period size: 6 Copynumber: 12.2 Consensus size: 6
3685179 TTATAGTAAT
* *
3685189 AAAAGAA AAAAAA AGAAAGA CAAAAGCA AAAAGA AACAGAA AGAAAGA
1 AAAAG-A AAAAGA A-AAAGA -AAAAG-A AAAAGA AAAAG-A A-AAAGA
* * *
3685237 AAAAGA AAAAGA GAATGA GAAAGA AAGAAGA A
1 AAAAGA AAAAGA AAAAGA AAAAGA AA-AAGA A
3685269 CCCACGGCTT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
6 28 0.47
7 26 0.44
8 5 0.08
ACGTcount: A:0.75, C:0.04, G:0.20, T:0.01
Consensus pattern (6 bp):
AAAAGA
Found at i:3685251 original size:8 final size:7
Alignment explanation
Indices: 3685189--3685251 Score: 51
Period size: 7 Copynumber: 9.0 Consensus size: 7
3685179 TTATAGTAAT
3685189 AAAAGAA
1 AAAAGAA
3685196 AAAA-AA
1 AAAAGAA
*
3685202 AGAAAGAC
1 A-AAAGAA
*
3685210 AAAAGCA
1 AAAAGAA
3685217 AAAAG-A
1 AAAAGAA
*
3685223 AACAGAA
1 AAAAGAA
3685230 AGAAAG-A
1 A-AAAGAA
3685237 AAAAGAA
1 AAAAGAA
3685244 AAAGAGAA
1 AAA-AGAA
3685252 TGAGAAAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
6 12 0.27
7 24 0.53
8 9 0.20
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:3685692 original size:19 final size:20
Alignment explanation
Indices: 3685668--3685708 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
3685658 GAATTTAGGC
*
3685668 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
3685687 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
3685707 AA
1 AA
3685709 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:3687836 original size:17 final size:17
Alignment explanation
Indices: 3687797--3687840 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
3687787 TTTATTGCTC
*
3687797 TATTAACTAT-TAAAAT
1 TATTAAATATATAAAAT
3687813 T-TTAAATATATAAAAT
1 TATTAAATATATAAAAT
3687829 TATTAAATATAT
1 TATTAAATATAT
3687841 TTAAAATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 7 0.28
16 8 0.32
17 10 0.40
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTAAATATATAAAAT
Found at i:3687845 original size:19 final size:17
Alignment explanation
Indices: 3687804--3687847 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
3687794 CTCTATTAAC
3687804 TATTAAAATTTTAAATA
1 TATTAAAATTTTAAATA
3687821 TA-TAAAATTATTAAATA
1 TATTAAAATT-TTAAATA
3687838 TATTTAAAAT
1 TA-TTAAAAT
3687848 GAAAGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.29
17 11 0.46
19 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTAAAATTTTAAATA
Found at i:3689441 original size:142 final size:142
Alignment explanation
Indices: 3689185--3689471 Score: 565
Period size: 142 Copynumber: 2.0 Consensus size: 142
3689175 ACTCCCAACA
3689185 CATATTCTCTCTAATGTTCGCCCAAACCTTCGAGAAGGAACACTATACATAGGAGCAATTACATC
1 CATATTCTCTCTAATGTTCGCCCAAACCTTCGAGAAGGAACACTATACATAGGAGCAATTACATC
3689250 TCATCAAGTTGCTAGGGAAATTTTTATATATATACATATATTATATTTAGACCTTAAGACTTGTA
66 TCATCAAGTTGCTAGGGAAATTTTTATATATATACATATATTATATTTAGACCTTAAGACTTGTA
3689315 CCCAATAAGCAT
131 CCCAATAAGCAT
3689327 CATATTCTCTCTAATGTTCGCCCAAACCTTCGAGAAGGAACACTATACATAGGAGCAATTACATC
1 CATATTCTCTCTAATGTTCGCCCAAACCTTCGAGAAGGAACACTATACATAGGAGCAATTACATC
*
3689392 TCATCAAGTTGCTAGGGAAATTTTTATATATATGCATATATTATATTTAGACCTTAAGACTTGTA
66 TCATCAAGTTGCTAGGGAAATTTTTATATATATACATATATTATATTTAGACCTTAAGACTTGTA
3689457 CCCAATAAGCAT
131 CCCAATAAGCAT
3689469 CAT
1 CAT
3689472 GGTTGGCCAT
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 144 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (142 bp):
CATATTCTCTCTAATGTTCGCCCAAACCTTCGAGAAGGAACACTATACATAGGAGCAATTACATC
TCATCAAGTTGCTAGGGAAATTTTTATATATATACATATATTATATTTAGACCTTAAGACTTGTA
CCCAATAAGCAT
Found at i:3690259 original size:33 final size:33
Alignment explanation
Indices: 3690222--3691015 Score: 1563
Period size: 33 Copynumber: 24.1 Consensus size: 33
3690212 TCCTTTGTGT
3690222 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690255 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
*
3690288 TAATA-GAAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACG-AATAACATATAAGTTGTTCAAAGTAG
3690321 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690354 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690387 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690420 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690453 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690486 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690519 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690552 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690585 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690618 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690651 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690684 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690717 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690750 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690783 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690816 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690849 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690882 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690915 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690948 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3690981 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
3691014 TA
1 TA
3691016 ATAGAAAGAA
Statistics
Matches: 757, Mismatches: 2, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
32 1 0.00
33 755 1.00
34 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (33 bp):
TAGTACGAATAACATATAAGTTGTTCAAAGTAG
Found at i:3697724 original size:17 final size:18
Alignment explanation
Indices: 3697704--3697744 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
3697694 TATGAAAGTG
3697704 TATATATGTAAA-AATAA
1 TATATATGTAAATAATAA
*
3697721 TATATA-ATAAATAATAA
1 TATATATGTAAATAATAA
3697738 TA-ATATG
1 TATATATG
3697745 GAATAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
TATATATGTAAATAATAA
Found at i:3700026 original size:205 final size:205
Alignment explanation
Indices: 3699543--3700292 Score: 1098
Period size: 206 Copynumber: 3.7 Consensus size: 205
3699533 AAATATGCTT
*
3699543 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * * * *
3699608 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGAATGTCAAATCATTTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* ** *
3699673 GGATCTTGCTTCAGTGA-AATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTAAAGT
131 GGAT-ATGCTTCAGT-ATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGT
3699737 GGAGATGCCAGA
194 GGAGATGCCAGA
* *
3699749 CTTCGATTCGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATC-TAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * **
3699813 GTGAAAGCCAAATCAGCTATGTCTTTGATTCGCTCCTTATAAGCACAAGGATGCCAAATTATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
3699878 GGATATGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTGG
131 GGATATGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGG
3699943 AGATGCCAGA
196 AGATGCCAGA
* *
3699953 CTTCGATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
3700018 GTGAAAGCCAAATCAGCTATGTCTTCGATTTACTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * *
3700083 AGATCTGCTTCAGTATAAACATCTGAAGGCTG-GATCTGCTATGTGTCTGC-CCTCCGTTGAATA
131 GGATATGCTTCAGTATAAACATCTGAAGG-TGAGATCTGCTATGTATCTGCTCC-CCGTTGAA-G
* *
3700146 TGGAGAAGCCAAA
193 TGGAGATGCCAGA
* * *
3700159 ATTCGATTTGTTCTCTGACAATACAGAGATGCCAAATTATCTTAGATTTGCTTCAGCGTAAGTAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAA--AC
*
3700224 AC--GAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATC
64 ACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATC
3700287 TTGGAT
129 TTGGAT
3700293 CTTCTTTCAG
Statistics
Matches: 497, Mismatches: 40, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
203 1 0.00
204 120 0.24
205 184 0.37
206 188 0.38
208 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATATGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGG
AGATGCCAGA
Found at i:3715003 original size:15 final size:15
Alignment explanation
Indices: 3714985--3715043 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
3714975 ATATTTAATG
3714985 ATATAATATATAAAA
1 ATATAATATATAAAA
* *
3715000 ATAT-ATTTATAAGA
1 ATATAATATATAAAA
3715014 ATAATAATTATATAAAA
1 AT-ATAA-TATATAAAA
* *
3715031 ACATAAAATATAA
1 ATATAATATATAA
3715044 TGGTTTAGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 10 0.29
15 12 0.34
16 5 0.14
17 8 0.23
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
ATATAATATATAAAA
Found at i:3715005 original size:17 final size:17
Alignment explanation
Indices: 3714985--3715042 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
3714975 ATATTTAATG
3714985 ATATAATATATAAAAAT
1 ATATAATATATAAAAAT
*
3715002 ATAT--T-TATAAGAAT
1 ATATAATATATAAAAAT
*
3715016 A-ATAATTATATAAAAAC
1 ATATAA-TATATAAAAAT
*
3715033 ATAAAATATA
1 ATATAATATA
3715043 ATGGTTTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
13 2 0.06
14 9 0.28
15 1 0.03
16 1 0.03
17 16 0.50
18 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (17 bp):
ATATAATATATAAAAAT
Found at i:3729094 original size:24 final size:25
Alignment explanation
Indices: 3729062--3729122 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 25
3729052 CGTAATGGAT
*
3729062 TAATTATTATATTGTTTTAATT-AA
1 TAATTATTATATTCTTTTAATTAAA
*
3729086 TAATTATTATATTCTTTTGATTAAA
1 TAATTATTATATTCTTTTAATTAAA
*
3729111 TAATTGTTATAT
1 TAATTATTATAT
3729123 ATAACATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 20 0.61
25 13 0.39
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (25 bp):
TAATTATTATATTCTTTTAATTAAA
Found at i:3731577 original size:14 final size:15
Alignment explanation
Indices: 3731536--3731577 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
3731526 ATTTCATCCA
3731536 ATAAAAACTAAAATATT
1 ATAAAAA-T-AAATATT
3731553 ATAAAAATAAATATT
1 ATAAAAATAAATATT
*
3731568 -TAATAATAAA
1 ATAAAAATAAA
3731578 ATGCGCCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 9 0.38
15 7 0.29
16 1 0.04
17 7 0.29
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAAAATAAATATT
Found at i:3731579 original size:15 final size:16
Alignment explanation
Indices: 3731536--3731579 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
3731526 ATTTCATCCA
3731536 ATAAAAACTAAAATATT
1 ATAAAAA-TAAAATATT
3731553 ATAAAAAT-AAATATT
1 ATAAAAATAAAATATT
*
3731568 -TAATAATAAAAT
1 ATAAAAATAAAAT
3731580 GCGCCATACG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 6 0.24
15 11 0.44
16 1 0.04
17 7 0.28
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAAAATAAAATATT
Found at i:3732675 original size:17 final size:18
Alignment explanation
Indices: 3732648--3732685 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
3732638 ATATTCAATT
*
3732648 TATGAAAAATTATTAAAA
1 TATGAAAAATTACTAAAA
3732666 TATG-AAAATTACTAAAA
1 TATGAAAAATTACTAAAA
3732683 TAT
1 TAT
3732686 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (18 bp):
TATGAAAAATTACTAAAA
Found at i:3732692 original size:19 final size:18
Alignment explanation
Indices: 3732571--3732693 Score: 72
Period size: 19 Copynumber: 6.4 Consensus size: 18
3732561 GAAAAAAAAG
3732571 ATAAAAATTATTAAA-AT
1 ATAAAAATTATTAAATAT
*
3732588 CAATAAAAA-TATTAAAAATT
1 --ATAAAAATTATTAAATA-T
* *
3732608 ATAGCAATATATATAGAAATAT
1 ATA--AAAAT-TAT-TAAATAT
* *
3732630 ATAAAAATATATTCAATTT
1 ATAAAAAT-TATTAAATAT
3732649 ATGAAAAATTATTAAA-AT
1 AT-AAAAATTATTAAATAT
* *
3732667 ATGAAAATTACTAAAATAT
1 ATAAAAATTA-TTAAATAT
3732686 ATAAAAAT
1 ATAAAAAT
3732694 ATATAAATTT
Statistics
Matches: 82, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
17 7 0.09
18 17 0.21
19 29 0.35
20 18 0.22
22 7 0.09
23 4 0.05
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATAAAAATTATTAAATAT
Found at i:3732694 original size:10 final size:10
Alignment explanation
Indices: 3732571--3732700 Score: 73
Period size: 10 Copynumber: 13.5 Consensus size: 10
3732561 GAAAAAAAAG
3732571 ATAAAAAT-T
1 ATAAAAATAT
*
3732580 ATTAAAATCA-
1 ATAAAAAT-AT
3732590 ATAAAAATAT
1 ATAAAAATAT
3732600 -TAAAAAT-T
1 ATAAAAATAT
*
3732608 ATAGCAATATAT
1 ATA--AAAATAT
*
3732620 ATAGAAATAT
1 ATAAAAATAT
3732630 ATAAAAATAT
1 ATAAAAATAT
** *
3732640 AT-TCAATTT
1 ATAAAAATAT
3732649 ATGAAAAAT-T
1 AT-AAAAATAT
*
3732659 AT-TAAA-AT
1 ATAAAAATAT
*
3732667 ATGAAAAT-T
1 ATAAAAATAT
3732676 ACT-AAAATAT
1 A-TAAAAATAT
3732686 ATAAAAATAT
1 ATAAAAATAT
3732696 ATAAA
1 ATAAA
3732701 TTTTTTTAAT
Statistics
Matches: 93, Mismatches: 13, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
8 7 0.08
9 34 0.37
10 41 0.44
11 7 0.08
12 4 0.04
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:3732701 original size:27 final size:27
Alignment explanation
Indices: 3732624--3732702 Score: 74
Period size: 27 Copynumber: 2.9 Consensus size: 27
3732614 ATATATATAG
*
3732624 AAATATATAAAAATATATTCAATTTATGA
1 AAATATATAAAAATATA-T-AAATTATGA
*
3732653 AAA-ATTATTAAAATATGA-AAATTACT-A
1 AAATA-TATAAAAATAT-ATAAATTA-TGA
3732680 AAATATATAAAAATATATAAATT
1 AAATATATAAAAATATATAAATT
3732703 TTTTTAATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
26 1 0.02
27 24 0.57
28 3 0.07
29 13 0.31
30 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (27 bp):
AAATATATAAAAATATATAAATTATGA
Found at i:3732715 original size:18 final size:20
Alignment explanation
Indices: 3732687--3732738 Score: 72
Period size: 18 Copynumber: 2.7 Consensus size: 20
3732677 CTAAAATATA
*
3732687 TAAAAATATATAAATTTTTT
1 TAAATATATATAAATTTTTT
*
3732707 T-AATA-ATATAATTTTTTT
1 TAAATATATATAAATTTTTT
3732725 TAAATATATATAAA
1 TAAATATATATAAA
3732739 ATTTATAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 13 0.48
19 7 0.26
20 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAATATATATAAATTTTTT
Found at i:3735493 original size:16 final size:17
Alignment explanation
Indices: 3735467--3735499 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
3735457 ATTATTTCCC
3735467 TAATCTATTTTTATAAT
1 TAATCTATTTTTATAAT
3735484 TAAT-TATTTTTATAAT
1 TAATCTATTTTTATAAT
3735500 ATTTTTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATCTATTTTTATAAT
Found at i:3736382 original size:24 final size:22
Alignment explanation
Indices: 3736347--3736408 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 22
3736337 GGCGCGACCC
3736347 ATTTTTTTAATAATATAATTTT
1 ATTTTTTTAATAATATAATTTT
* *
3736369 ATTTTTTGTAAATATTATTATTTT
1 ATTTTTT-T-AATAATATAATTTT
3736393 ATTATATTTTAATAAT
1 ATT-T-TTTTAATAAT
3736409 TTTTAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 7 0.21
23 1 0.03
24 20 0.61
25 2 0.06
26 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTTTTTAATAATATAATTTT
Found at i:3744026 original size:72 final size:72
Alignment explanation
Indices: 3743896--3744065 Score: 159
Period size: 72 Copynumber: 2.4 Consensus size: 72
3743886 CTTTGGGGGC
* * * *
3743896 AACATAAATTATCATATTTTTAGATGTTTAAAGTGGAGGTTAAAACAAAATTTGAAAATATT-TA
1 AACAAAAATTATCATATTTTTAGATATTTAAAGTGGAGGTTAAAACAAAACTTGAAAAT-TTAGA
*
3743960 AGGGGCTA
65 AGGGGCAA
* * ** **
3743968 AATAAAAATTATCATGTTTTTAGATATTTATTGT-GA-GTTAAAATGAAACTTGACAAAATTTAG
1 AACAAAAATTATCATATTTTTAGATATTTAAAGTGGAGGTTAAAACAAAACTTG--AAAATTTAG
3744031 AAGGGGCAA
64 AAGGGGCAA
** *
3744040 AACATGAATTATCA-CTTTTTAGATAT
1 AACAAAAATTATCATATTTTTAGATAT
3744066 ATAATATAGA
Statistics
Matches: 80, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
70 13 0.16
71 15 0.19
72 52 0.65
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.36
Consensus pattern (72 bp):
AACAAAAATTATCATATTTTTAGATATTTAAAGTGGAGGTTAAAACAAAACTTGAAAATTTAGAA
GGGGCAA
Found at i:3745533 original size:19 final size:20
Alignment explanation
Indices: 3745471--3745545 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
3745461 TTGAATTTTA
*
3745471 ATAAAAGAA-TATTAAAAAT-
1 ATAAAA-AATTATAAAAAATC
* *
3745490 ATTAAAAAAATATAAAAAATT
1 A-TAAAAAATTATAAAAAATC
**
3745511 ATAAAATTTTATAAAAAA-C
1 ATAAAAAATTATAAAAAATC
3745530 ATAAAAAATTATAAAA
1 ATAAAAAATTATAAAA
3745546 TGCATAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 17 0.37
20 28 0.61
21 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (20 bp):
ATAAAAAATTATAAAAAATC
Found at i:3745551 original size:19 final size:19
Alignment explanation
Indices: 3745492--3745555 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
3745482 TTAAAAATAT
* *
3745492 TAAAAAAATATAAAAAATTA
1 TAAAAAATTATAAAAAA-CA
**
3745512 TAAAATTTTATAAAAAACA
1 TAAAAAATTATAAAAAACA
**
3745531 TAAAAAATTATAAAATGCA
1 TAAAAAATTATAAAAAACA
3745550 TAAAAA
1 TAAAAA
3745556 GACCCTTTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 22 0.61
20 14 0.39
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.27
Consensus pattern (19 bp):
TAAAAAATTATAAAAAACA
Found at i:3745555 original size:29 final size:28
Alignment explanation
Indices: 3745492--3745555 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
3745482 TTAAAAATAT
* **
3745492 TAAAAAAATATAAAAAATTATAAAATTT
1 TAAAAAAACATAAAAAATTATAAAATCA
3745520 TATAAAAAACATAAAAAATTATAAAATGCA
1 TA-AAAAAACATAAAAAATTATAAAAT-CA
3745550 TAAAAA
1 TAAAAA
3745556 GACCCTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 27 0.87
30 2 0.06
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.27
Consensus pattern (28 bp):
TAAAAAAACATAAAAAATTATAAAATCA
Found at i:3745835 original size:12 final size:12
Alignment explanation
Indices: 3745818--3745842 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3745808 TTTCTATATA
3745818 TTTTATAATTTT
1 TTTTATAATTTT
3745830 TTTTATAATTTT
1 TTTTATAATTTT
3745842 T
1 T
3745843 AATAAATTTT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATAATTTT
Found at i:3745852 original size:19 final size:19
Alignment explanation
Indices: 3745817--3745901 Score: 50
Period size: 20 Copynumber: 4.4 Consensus size: 19
3745807 ATTTCTATAT
*
3745817 ATTTTATAATTTTTTTTATAA
1 ATTTTATAA--TTTTTAATAA
* *
3745838 TTTTTAATAAATTTTAAGT-A
1 ATTTT-ATAATTTTTAA-TAA
* *
3745858 TTTTTAT-ATTTTTATTAAA
1 ATTTTATAATTTTTAAT-AA
*
3745877 ATTTAATAATTTTT-ATAA
1 ATTTTATAATTTTTAATAA
3745895 ATTTTAT
1 ATTTTAT
3745902 TAGTTTTTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 13
0.69 0.12 0.18
Matches are distributed among these distances:
17 1 0.02
18 14 0.28
19 9 0.18
20 17 0.34
21 5 0.10
22 4 0.08
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (19 bp):
ATTTTATAATTTTTAATAA
Found at i:3745901 original size:29 final size:29
Alignment explanation
Indices: 3745829--3745903 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
3745819 TTTATAATTT
* *
3745829 TTTTTATAATTTTTAATAAATTTTAAGTA
1 TTTTTATAATTTTTATTAAAATTTAAGTA
3745858 TTTTTAT-ATTTTTATTAAAATTTAA-TAA
1 TTTTTATAATTTTTATTAAAATTTAAGT-A
*
3745886 TTTTTATAAATTTTATTA
1 TTTTTATAATTTTTATTA
3745904 GTTTTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
27 1 0.02
28 24 0.59
29 16 0.39
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (29 bp):
TTTTTATAATTTTTATTAAAATTTAAGTA
Found at i:3751547 original size:43 final size:43
Alignment explanation
Indices: 3751499--3751623 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 43
3751489 ATCAAGATGA
*
3751499 GATTACATGTAAAACCATGTCTGGGATATTGGCATTGTATTGT
1 GATTACATGTAAGACCATGTCTGGGATATTGGCATTGTATTGT
* * ** * *
3751542 GATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATACATGT
1 GATTACATGTAAGACCATGTCTGGGATATTGGCATTG-TA-TTGT
* *
3751587 --TAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 GATTACATGTAAGACCATGTCTGGGATATTGGCATTGTAT
3751624 GAGCTCTATC
Statistics
Matches: 65, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
41 2 0.03
42 7 0.11
43 51 0.78
44 2 0.03
45 3 0.05
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGATATTGGCATTGTATTGT
Found at i:3753330 original size:16 final size:16
Alignment explanation
Indices: 3753309--3753340 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3753299 GCCCAATAAC
*
3753309 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
3753325 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
3753341 TTACACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:3766950 original size:143 final size:146
Alignment explanation
Indices: 3766562--3767054 Score: 601
Period size: 143 Copynumber: 3.4 Consensus size: 146
3766552 CTTTCCAAGG
3766562 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATG
1 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATG
* * **
3766627 -T-TTTCAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
66 TTGTTTC-AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
3766690 TTTTAGTTTATGTTTCA
130 TTTTAGTTTATGTTTCA
* * *
3766707 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCATGCTGAGGTATTTTAATTCTTT
1 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATG
* **
3766772 TTGTTTCAAAAATCAGCTCATATTGCGAGGGGTGAGTTGAGCCTC-GG-GGCACGCTGAGGTATT
66 TTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATT
3766835 TTTAGTTTATGTTT-A
131 TTTAGTTTATGTTTCA
* * * * *
3766850 GAAAA-T-ACTCATATTGCGAAAAGTGAGCCAAGCCTTAGGTCACGCTGAGGTATTTTTAATTCC
1 -AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTA-TTTTAATTCA
* * *
3766913 TGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ATACGTTGAGGTA
64 TGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTA
* * * *
3766976 ATTTCAATTTATG-TTCC
129 TTTTTAGTTTATGTTTCA
** * ** * * * *
3766993 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAAGTATTTTCAATT
1 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTT-AATT
3767055 TCTGCTTTTA
Statistics
Matches: 301, Mismatches: 38, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
142 47 0.16
143 80 0.27
144 72 0.24
145 64 0.21
146 34 0.11
147 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (146 bp):
AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATG
TTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATT
TTTAGTTTATGTTTCA
Found at i:3766958 original size:74 final size:71
Alignment explanation
Indices: 3766570--3767055 Score: 475
Period size: 73 Copynumber: 6.8 Consensus size: 71
3766560 GGAAAATTGA
** *
3766570 CTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTA-TTTTAATTCATGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTTATG-TTTC-A
*
3766634 AAAATCAA
64 AAAATCAG
* ** *
3766642 CTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTAGTTTATGTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCTGAGGTATTTTTAATTTATGTTTCA
*
3766707 AAAAT-TG
64 AAAATCAG
** * *
3766714 ACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCATGCTGAGGTA-TTTTAATTCTTTTTGTTT
1 -CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAA---TTTATGTTT
3766778 CAAAAATCAG
62 CAAAAATCAG
* * * *
3766788 CTCATATTGCGAGGGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTATGTTT-AGA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTTATGTTTCA-A
3766852 AAAT-A-
65 AAATCAG
* * *** * *
3766857 CTCATATTGCGAAAAGTGAGCCAAGCCTTAGGTCACGCTGAGGTATTTTTAATTCCTGTTGTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATT--T-ATGTTTC
3766922 AAAAATCAG
63 AAAAATCAG
* * * * *
3766931 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAT-ACGTTGAGGTAATTTCAATTTATG-TTCCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGTCACGCTGAGGTATTTTTAATTTATGTTTCAA
*
3766994 AAATCAA
65 AAATCAG
* * * * * *
3767001 CTCACATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAAGTATTTTCAATTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTT
3767056 CTGCTTTTAA
Statistics
Matches: 338, Mismatches: 58, Indels: 38
0.78 0.13 0.09
Matches are distributed among these distances:
69 45 0.13
70 62 0.18
71 27 0.08
72 39 0.12
73 90 0.27
74 62 0.18
75 13 0.04
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (71 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTTATGTTTCAAA
AATCAG
Found at i:3767028 original size:213 final size:215
Alignment explanation
Indices: 3766569--3767054 Score: 542
Period size: 213 Copynumber: 2.3 Consensus size: 215
3766559 AGGAAAATTG
** * *
3766569 ACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTA-TTTTAATTCATGTTTTCA
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTCATGTTTTCA
* *** *
3766633 AAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTAGTT
66 AAAAAT-AACTCATATTGCGAGAAATGAGCCAAGCCTCAGGT-ACACGCTGAGGTATTTTTAATT
* * *
3766698 TATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCATGCTGAGGTATTT
129 TATGTTTCAAAAATAGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGATCACGCTGAGGTATTT
* *
3766763 TAATTCTTTTTGTTTCAAAAATCA
194 CAA-T-TTTATGTTTCAAAAATCA
* * * *
3766787 GCTCATATTGCGAGGGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTATG-TTT-A
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTCATGTTTTCA
* *
3766850 GAAAAT-ACTCATATTGCGA-AAAGTGAGCCAAGCCTTAGGT-CACGCTGAGGTATTTTTAATTC
66 AAAAATAACTCATATTGCGAGAAA-TGAGCCAAGCCTCAGGTACACGCTGAGGTATTTTTAATT-
* ** *
3766912 CTGTTGTTTCAAAAATCAG-CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAT-ACGTTGAGGT
129 -T-ATGTTTCAAAAAT-AGACTCATATTGCGAGAGGTGAGTCAAGCCTC-AGATCACGCTGAGGT
*
3766975 AATTTCAA-TTTATG-TTCCAAAATCA
190 -ATTTCAATTTTATGTTTCAAAAATCA
* * * *
3767000 ACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAAGTATTTTCAATT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATT
3767055 TCTGCTTTTA
Statistics
Matches: 228, Mismatches: 32, Indels: 21
0.81 0.11 0.07
Matches are distributed among these distances:
213 78 0.34
214 8 0.04
215 26 0.11
216 47 0.21
217 16 0.07
218 43 0.19
219 10 0.04
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (215 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTCATGTTTTCA
AAAAATAACTCATATTGCGAGAAATGAGCCAAGCCTCAGGTACACGCTGAGGTATTTTTAATTTA
TGTTTCAAAAATAGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGATCACGCTGAGGTATTTCA
ATTTTATGTTTCAAAAATCA
Found at i:3767402 original size:73 final size:72
Alignment explanation
Indices: 3767222--3767405 Score: 217
Period size: 72 Copynumber: 2.5 Consensus size: 72
3767212 CTACTTTTTC
* * * * *
3767222 AAAATCAGCTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTT
***
3767287 GTGTTTT
66 GTGTCAA
** *
3767294 AACTTCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT-T
3767359 AT-TGTCAA
65 -TGTGTCAA
* * *
3767367 AAAATCAACTCATATTGCGAAAAGTAAGTTGAGCCTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
3767406 TTCACATGCT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
72 55 0.59
73 37 0.40
74 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTT
GTGTCAA
Found at i:3768201 original size:16 final size:16
Alignment explanation
Indices: 3768180--3768211 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3768170 GCCCAATAAC
*
3768180 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
3768196 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
3768212 TTACACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:3769026 original size:80 final size:79
Alignment explanation
Indices: 3768887--3769047 Score: 261
Period size: 80 Copynumber: 2.0 Consensus size: 79
3768877 TCCCCGCTCC
* *
3768887 CTCTTTTCTCTCCCTCTTCTTCTGTTTTTTTCTTTCTTCTGTTTTAAATGAAAAAAAC-AAAAAA
1 CTCTTTTCTCTCCCTCCTCTTCTGTTTTTTTCTTTCTCCTGTTTTAAATGAAAAAAACAAAAAAA
3768951 ACTTGGTTTATATA
66 ACTTGGTTTATATA
3768965 CTCTTTTCTCTCCCTCCTCTTCTGTTTTTTTTTCTTTCTCCTGTTTTAAATGAAAAAAACAAAAA
1 CTCTTTTCTCTCCCTCCTCTTCTG--TTTTTTTCTTTCTCCTGTTTTAAATGAAAAAAAC--AAA
3769030 AAAAACTTGGTTTATATA
62 AAAAACTTGGTTTATATA
3769048 GGGGTCCAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
78 23 0.30
80 33 0.43
83 20 0.26
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.47
Consensus pattern (79 bp):
CTCTTTTCTCTCCCTCCTCTTCTGTTTTTTTCTTTCTCCTGTTTTAAATGAAAAAAACAAAAAAA
ACTTGGTTTATATA
Found at i:3769157 original size:60 final size:60
Alignment explanation
Indices: 3769089--3769208 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
3769079 TTTGAAGCTA
* *
3769089 AACGACGCCGTTTAGGGCTTCGGGTCGGGTCGACCTGACCCGTCCGGCCAGGGTCCGCGT
1 AACGACGCCGTTTAGGGCTTCAGGTCGGGTCGACCCGACCCGTCCGGCCAGGGTCCGCGT
*
3769149 AACGACGCCGTTTAGGGCTTCAGGTCGGGTTGACCCGACCCGTCCGGCCAGGGTCCGCGT
1 AACGACGCCGTTTAGGGCTTCAGGTCGGGTCGACCCGACCCGTCCGGCCAGGGTCCGCGT
3769209 GTTTTTGAAG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.12, C:0.33, G:0.36, T:0.18
Consensus pattern (60 bp):
AACGACGCCGTTTAGGGCTTCAGGTCGGGTCGACCCGACCCGTCCGGCCAGGGTCCGCGT
Found at i:3769548 original size:20 final size:20
Alignment explanation
Indices: 3769514--3769560 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
3769504 ATATTGTTAC
3769514 TATTATTTTTATTAATA-TAT
1 TATTATTTTTATTAA-AGTAT
3769534 TAATTATTTTT-TTAAAGTAT
1 T-ATTATTTTTATTAAAGTAT
3769554 TATTATT
1 TATTATT
3769561 ACTAATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.28
20 9 0.36
21 9 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTATTTTTATTAAAGTAT
Found at i:3769557 original size:23 final size:21
Alignment explanation
Indices: 3769515--3769560 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
3769505 TATTGTTACT
3769515 ATTATTTTTATTAATATATTA
1 ATTATTTTTATTAATATATTA
3769536 ATTATTTTT-TTAA-AGTATT-
1 ATTATTTTTATTAATA-TATTA
3769555 ATTATT
1 ATTATT
3769561 ACTAATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 8 0.33
21 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTATTTTTATTAATATATTA
Found at i:3769623 original size:13 final size:14
Alignment explanation
Indices: 3769599--3769629 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
3769589 ATTATTATCA
3769599 ATATTAATATATGT
1 ATATTAATATATGT
3769613 ATATT-ATATATGT
1 ATATTAATATATGT
3769626 ATAT
1 ATAT
3769630 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:3769726 original size:12 final size:12
Alignment explanation
Indices: 3769711--3769742 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3769701 TATATTTCAT
*
3769711 TATTATTTTTAA
1 TATTATTATTAA
3769723 TATTATTATTAA
1 TATTATTATTAA
3769735 TATTATTA
1 TATTATTA
3769743 GATGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:3769814 original size:26 final size:24
Alignment explanation
Indices: 3769758--3769877 Score: 89
Period size: 26 Copynumber: 4.7 Consensus size: 24
3769748 TATTTATTCC
* * * *
3769758 TAATATGTATATTATGTAAATGTCT
1 TAATAT-TATATTATATAATTTTTT
*
3769783 TAATATTATATTATATGTATTTTTT
1 TAATATTATATTATAT-AATTTTTT
*
3769808 TATATATGT-TATGTATATAAGTTTTT
1 TA-ATAT-TATAT-TATATAATTTTTT
*
3769834 TAATATTATATTTTATACATATTTTT
1 TAATATTATATTATATA-AT-TTTTT
3769860 TAATATTATTAGTTATAT
1 TAATATTA-TA-TTATAT
3769878 TTTTTATATA
Statistics
Matches: 76, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
24 15 0.20
25 20 0.26
26 28 0.37
27 8 0.11
28 5 0.07
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (24 bp):
TAATATTATATTATATAATTTTTT
Found at i:3769922 original size:21 final size:20
Alignment explanation
Indices: 3769889--3769931 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
3769879 TTTTATATAC
3769889 TATTACATGTATACTTCTAA
1 TATTACATGTATACTTCTAA
* *
3769909 TATTATATCGTATATTTCTAA
1 TATTACAT-GTATACTTCTAA
3769930 TA
1 TA
3769932 CCATCATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (20 bp):
TATTACATGTATACTTCTAA
Found at i:3784962 original size:79 final size:78
Alignment explanation
Indices: 3784846--3784990 Score: 211
Period size: 79 Copynumber: 1.8 Consensus size: 78
3784836 TATGTTTTTC
* *
3784846 AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
3784911 TATGCTTTTCAAA
66 TATGCTTTTCAAA
** * *
3784924 AAAAAAAGTCAACTCAT-ATGGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
1 AAAAAAA-TCAACTCATAAT-GCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
3784988 TTT
64 TTT
3784991 TTGTGTTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
78 9 0.15
79 50 0.85
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (78 bp):
AAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
TATGCTTTTCAAA
Found at i:3785456 original size:72 final size:73
Alignment explanation
Indices: 3785335--3785486 Score: 211
Period size: 72 Copynumber: 2.1 Consensus size: 73
3785325 GAGTTAAGCC
*
3785335 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATCGCTAGAGGTGAGTTGAGCCTCGGGGCAC-G
1 TTTTCAATTTTTGTTTTTCAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGGGCACAG
*
3785398 CTGAGGTA
66 CCGAGGTA
** * *
3785406 TTTTCAATTTTTGTGTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTCAATTTTTGT-TTTTCAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGGGCACA
3785470 TGCCGAGGTA
65 -GCCGAGGTA
3785480 TTTTCAA
1 TTTTCAA
3785487 AATCTGTTTG
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
71 4 0.06
72 48 0.68
73 4 0.06
74 15 0.21
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (73 bp):
TTTTCAATTTTTGTTTTTCAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGGGCACAG
CCGAGGTA
Found at i:3785583 original size:88 final size:88
Alignment explanation
Indices: 3785429--3785631 Score: 221
Period size: 88 Copynumber: 2.3 Consensus size: 88
3785419 TGTTTTAATT
* *
3785429 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAAAATCTGT
1 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACATGCCGAGATATTTTCAAAATCTGT
3785494 TTGGCAAAT-TCTGTTTTCAAA-AA
66 TT--CAAATATCTGTTTTCAAAGAA
** * * *** *
3785517 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGTTCACATGCTGAGATATTTTCAGTTTTTGT
1 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACATGCCGAGATATTTTCAAAATCTGT
** * *
3785582 TTTTAATATCTGTTTTTAAAGAG
66 TTCAAATATCTGTTTTCAAAGAA
* * *
3785605 TCAATTCATATTACGAGAAATGAGTTG
1 TCAACTCATATTGCGAGAAGTGAGTTG
3785632 GGCTCAAGAT
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
86 3 0.03
87 11 0.11
88 82 0.85
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (88 bp):
TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACATGCCGAGATATTTTCAAAATCTGT
TTCAAATATCTGTTTTCAAAGAA
Found at i:3787224 original size:21 final size:20
Alignment explanation
Indices: 3787191--3787233 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
3787181 TTTTATATAC
3787191 TATTACATGTATACTTCTAA
1 TATTACATGTATACTTCTAA
* *
3787211 TATTATATCGTATATTTCTAA
1 TATTACAT-GTATACTTCTAA
3787232 TA
1 TA
3787234 CCATCATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (20 bp):
TATTACATGTATACTTCTAA
Found at i:3803402 original size:44 final size:44
Alignment explanation
Indices: 3803330--3803448 Score: 107
Period size: 44 Copynumber: 2.7 Consensus size: 44
3803320 CATGATGAAT
* * * *
3803330 CTTATCT-TCCTGAAGTTGCAGCAAAGTAGATCGAAGTCGCAAAC
1 CTTATCTCT-CTGAAGATGCAGTAGAGTAGATCGAAGTCACAAAC
* * * * *
3803374 CTTATCTC-CTTGAAGATGCAGTGGAGTAGGTTGAAGTTACAAAT
1 CTTATCTCTC-TGAAGATGCAGTAGAGTAGATCGAAGTCACAAAC
* *
3803418 CTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 CTTATCTCTCTGAAGATGCAGTAGAGTAGAT
3803449 AAAACAAGTA
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
43 1 0.02
44 57 0.97
45 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
CTTATCTCTCTGAAGATGCAGTAGAGTAGATCGAAGTCACAAAC
Found at i:3804893 original size:27 final size:27
Alignment explanation
Indices: 3804863--3805019 Score: 224
Period size: 27 Copynumber: 5.8 Consensus size: 27
3804853 ATTACCAAAG
* * * *
3804863 TACCCTTGATTTACATAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
3804890 TACCCTCGAATTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
3804917 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
3804944 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
3804971 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
3804998 TACCCTCGATTTAAAAAATTAC
1 TACCCTCGATTTATAGAATTAC
3805020 TAAAATAACC
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:3805018 original size:81 final size:81
Alignment explanation
Indices: 3804863--3805018 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 81
3804853 ATTACCAAAG
* * *
3804863 TACCCTTGATTTACATAATTATCGTTTTACCCTCGAATTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGAATTATAGAATTACCATTTTACCCTCGATT
* *
3804928 TATAGAATTATCGTTT
66 TAAAAAATTATCGTTT
* *
3804944 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGAATTATAGAATTACCATTTTACCCTCGATT
3805009 TAAAAAATTA
66 TAAAAAATTA
3805019 CTAAAATAAC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGAATTATAGAATTACCATTTTACCCTCGATT
TAAAAAATTATCGTTT
Found at i:3805038 original size:81 final size:81
Alignment explanation
Indices: 3804850--3805047 Score: 238
Period size: 81 Copynumber: 2.4 Consensus size: 81
3804840 CTTAATTTGT
* * * *
3804850 AAAATTACCAAAGTACCCTTGATTTACATAATTATCGTTTTACCCTCGAATTATAGAATTACCAT
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGAATTATAGAATTACCAT
*
3804915 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAA
* ** * * *
3804931 AGAATTATCGT--TTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACC
1 AAAATTA-C-TAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGAATTATAGAATTACC
*
3804994 GTTTTACCCTCGATTTAA
64 ATTTTACCCTCGATTTAA
* *
3805012 AAAATTACTAAAATAACCTTGGTTTACAAAATTACC
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACC
3805048 AAAATACCCT
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 93 0.97
82 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGAATTATAGAATTACCAT
TTTACCCTCGATTTAA
Found at i:3805069 original size:27 final size:27
Alignment explanation
Indices: 3804971--3805136 Score: 120
Period size: 27 Copynumber: 6.2 Consensus size: 27
3804961 ATTACCGTTT
* * ****
3804971 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTGTAAAATTACCAAAA
** *
3804998 TACCCTCGATTTAAAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * **
3805025 TAACCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
3805052 TACCCTCGATCAGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * *
3805079 TACCC-CTGATTTGTGAAATTATCGAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
* *
3805106 TACTCTCGATTTGTAAAA-TATCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
3805132 TACCC
1 TACCC
3805137 CTGTAGGGTA
Statistics
Matches: 109, Mismatches: 28, Indels: 5
0.77 0.20 0.04
Matches are distributed among these distances:
26 12 0.11
27 96 0.88
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:3805463 original size:25 final size:25
Alignment explanation
Indices: 3805429--3805523 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
3805419 AGGAAGTGCT
* *
3805429 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
3805454 AAAAGGGCTTTGCCCCAGTTTACCT
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
3805479 AAAAGAGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
3805504 AAAAGGACTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
3805524 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:3805535 original size:25 final size:25
Alignment explanation
Indices: 3805428--3805534 Score: 107
Period size: 25 Copynumber: 4.4 Consensus size: 25
3805418 GAGGAAGTGC
* *
3805428 TAAAAG-GGCTTTGCCCTAGTTTACC
1 TAAAAGAGGCTTTGCCCCAGTTTA-T
* *
3805453 GAAAAG-GGCTTTGCCCCAGTTTACC
1 TAAAAGAGGCTTTGCCCCAGTTTA-T
3805478 TAAAAGA-GCTTTGCCCCAGTTTAT
1 TAAAAGAGGCTTTGCCCCAGTTTAT
*
3805502 CAAAA-AGGACTTTGCCCCAG-TTAT
1 TAAAAGAGG-CTTTGCCCCAGTTTAT
3805526 TAAAAGAGG
1 TAAAAGAGG
3805535 ATAGGCCTCC
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
23 1 0.01
24 13 0.18
25 58 0.81
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (25 bp):
TAAAAGAGGCTTTGCCCCAGTTTAT
Found at i:3805547 original size:50 final size:50
Alignment explanation
Indices: 3805440--3805548 Score: 114
Period size: 50 Copynumber: 2.2 Consensus size: 50
3805430 AAAGGGCTTT
* * * * **
3805440 GCCCTAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCTAAAAGAGCTTT
1 GCCCCAGTTTACCAAAAAGGACTTTGCCCCAGTTTACCTAAAAGAGATAG
* *
3805490 GCCCCAGTTTATCAAAAAGGACTTTGCCCCAG-TTA-TTAAAAGAGGATAG
1 GCCCCAGTTTACCAAAAAGGACTTTGCCCCAGTTTACCTAAAAGA-GATAG
3805539 GCCTCCAGTT
1 GCC-CCAGTT
3805549 ATATGATAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
48 7 0.14
49 8 0.16
50 34 0.69
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (50 bp):
GCCCCAGTTTACCAAAAAGGACTTTGCCCCAGTTTACCTAAAAGAGATAG
Found at i:3817536 original size:76 final size:76
Alignment explanation
Indices: 3817367--3817636 Score: 345
Period size: 76 Copynumber: 3.5 Consensus size: 76
3817357 AGAAATTAAA
* * *
3817367 AGGCTTAACTCACCTCTCGCAATATGAGTCGATTTTTGAAACATTCAAAAAAAATTGACAATACC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACA-TC-CAAAAAATTGACAATACC
3817432 TCAGCGTGTCCCG
64 TCAGCGTGTCCCG
*
3817445 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATCCAAAAAATTGACAATACGTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATCCAAAAAATTGACAATACCTC
*
3817510 AGCGTGCCCCG
66 AGCGTGTCCCG
* * * *
3817521 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGATGA-A-CC--TAAATT-AAAACTA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA-AACATCCAAAAAATTGACAA-TA
*
3817581 CCTCAGCGTGTTCCTG
62 CCTCAGCGTG-TCCCG
3817597 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
3817637 AGCATAAATT
Statistics
Matches: 173, Mismatches: 14, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
72 1 0.01
73 6 0.03
74 3 0.02
75 16 0.09
76 93 0.54
77 4 0.02
78 49 0.28
79 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (76 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATCCAAAAAATTGACAATACCTC
AGCGTGTCCCG
Found at i:3817798 original size:239 final size:239
Alignment explanation
Indices: 3817367--3818184 Score: 656
Period size: 239 Copynumber: 3.5 Consensus size: 239
3817357 AGAAATTAAA
* * *
3817367 AGGCTTAACTCACCTCTCGCAATATGAGTCGATTTTTG--AAAC----ATT-CAAAAA-A--AAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAAACATTAAT
* *
3817422 TGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAC
66 TGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAC
* * * * *
3817487 ATCCAAAAAATTGACAATACGTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTG
131 ATCCAAAAAATTGAAAATACCTCAGCGTGACCCAAGGCTCAACTCACCTCTCACAATATGAGTTA
* * *
3817552 ATTTTTTTGATGAACCTA-AA-TT-AAAACTACCTCAGCGTGTTCCTG
196 ATTTTTTT--TGAAACTAGAATTTGAAAA-TACCTCAGCGTG-CCCCG
* *
3817597 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAGCATAAATTGAAAAAACATTAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAAACATTAAT
* *
3817661 TGAAAATACCTCAACGT-TCCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAGA
66 TGAAAATACCTCAACGTGTCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* ** * * * *
3817725 -A-GC-GGAACTTGAAAATACCTCAGTGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
130 CATCCAAAAAATTGAAAATACCTCAGCGTG--ACCCAAGGCTCAACTCACCTCTCACAATATGAG
* *
3817787 TTAATTTTTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGCCCCG
193 TTAA-TTTTTTTTGAAACTAGAATTTGAAAATACCTCAGCGTGCCCCG
3817835 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-------A--AA-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAAACATTAAT
* * *
3817890 T-----TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
66 TGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAC
** * ** * *** * *
3817950 AAGC-AGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCGACTCACCTCTCACAATATGAGTTG
131 ATCCAAAAAATTGAAAATACCTCAGCGTGACCCAAGGCTCAACTCACCTCTCACAATATGAGTTA
* **** * ** *
3818014 GTTTTGACAAACAGAAAC-AGAAATTGAAAATACCTCAGCACGTGAGCTG
196 ATTTT----TTTTGAAACTAGAATTTGAAAATACCTCAG--CGTGCCCCG
* * * * **
3818063 AGGGTCAACTCACCTCTCGCACTATGAGTTGA--TTTAAAAAACAGACA-T--AAAAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAAACATTAAT
* *** *
3818123 TGAAAGTGA-CTCAACACGTGAGGCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
66 TGAAAAT-ACCTC-A-ACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
3818185 TTTGAAAACA
Statistics
Matches: 481, Mismatches: 63, Indels: 78
0.77 0.10 0.13
Matches are distributed among these distances:
223 4 0.01
224 78 0.16
225 5 0.01
226 54 0.11
227 4 0.01
228 36 0.07
229 6 0.01
230 33 0.07
231 3 0.01
232 3 0.01
233 1 0.00
235 3 0.01
236 23 0.05
237 8 0.02
238 78 0.16
239 97 0.20
240 45 0.09
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (239 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAAACATTAAT
TGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAC
ATCCAAAAAATTGAAAATACCTCAGCGTGACCCAAGGCTCAACTCACCTCTCACAATATGAGTTA
ATTTTTTTTGAAACTAGAATTTGAAAATACCTCAGCGTGCCCCG
Found at i:3817913 original size:73 final size:73
Alignment explanation
Indices: 3817649--3818097 Score: 456
Period size: 75 Copynumber: 6.0 Consensus size: 73
3817639 CATAAATTGA
** * *
3817649 AAAAACATTAATTGAAAATACCTCAACGT-TCCCTGAGGCTCAACTCACCTCTCGTAATATGAGT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
3817713 TGATTTTTG
65 TGATTTTTG
* * * * * *
3817722 AGAAGCGGAACTTGAAAATACCTCAGTGTGTAAGCC-AAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCGTGT---CCTGAGGCTCAACTCACCTCTCGCAATATGA
*
3817786 GTTAATTTTTTTTTG
63 GTTGA----TTTTTG
** * * * *
3817801 -AAAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
3817865 GATTTTTG
66 GATTTTTG
*
3817873 AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
3817938 GATTTTTG
66 GATTTTTG
** * * *
3817946 AAAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCGACTCACCTCTCACAATATGAG
1 -AAAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
3818011 TTG-GTTTTG
64 TTGATTTTTG
** * *
3818020 ACAAACAGAAACAGAAATTGAAAATACCTCAGCACGTGAGCTGAGGGTCAACTCACCTCTCGCAC
1 ----A-A-AAACAGAAATTGAAAATACCTCAG--CGTGTCCTGAGGCTCAACTCACCTCTCGCAA
3818085 TATGAGTTGATTT
58 TATGAGTTGATTT
3818098 AAAAAACAGA
Statistics
Matches: 312, Mismatches: 45, Indels: 30
0.81 0.12 0.08
Matches are distributed among these distances:
72 6 0.02
73 86 0.28
74 11 0.04
75 87 0.28
76 33 0.11
77 2 0.01
78 44 0.14
79 9 0.03
80 32 0.10
81 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (73 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTG
Found at i:3824700 original size:46 final size:46
Alignment explanation
Indices: 3824643--3824736 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
3824633 ATTCATATTC
3824643 TTTCCCCACTGTGCTCACATTCCCTTCAGTATGGTTAGGGAACGGG
1 TTTCCCCACTGTGCTCACATTCCCTTCAGTATGGTTAGGGAACGGG
*
3824689 TTTCCCTACTGTGCTCACATTCCCTTCAGTATGGTTAGGGAACGGG
1 TTTCCCCACTGTGCTCACATTCCCTTCAGTATGGTTAGGGAACGGG
3824735 TT
1 TT
3824737 CCCAGTTGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (46 bp):
TTTCCCCACTGTGCTCACATTCCCTTCAGTATGGTTAGGGAACGGG
Found at i:3828656 original size:47 final size:46
Alignment explanation
Indices: 3828587--3828679 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 46
3828577 ACTATCCCCT
* *
3828587 CTTTCTTTTTGAGTCTTTAGAGACCAGTCTCGTA-CCGCGGCATTCC
1 CTTTCTTTCTGAGTCTTTAGAGACCAGTCTCG-AGCCACGGCATTCC
3828633 NCTTTCTTTCTGAGTCTTTAGAGACCAGTCTCGAGCCACGGCATTCC
1 -CTTTCTTTCTGAGTCTTTAGAGACCAGTCTCGAGCCACGGCATTCC
3828680 TCTCAGTTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
46 1 0.02
47 42 0.98
ACGTcount: A:0.16, C:0.29, G:0.19, T:0.34
Consensus pattern (46 bp):
CTTTCTTTCTGAGTCTTTAGAGACCAGTCTCGAGCCACGGCATTCC
Found at i:3829192 original size:43 final size:43
Alignment explanation
Indices: 3829144--3829228 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
3829134 ACATTTACTT
* *
3829144 ATGCCTATGCGGAGGGACGAGTTAACTCACGAAAGCATAAGTC
1 ATGCCTAGGCGGAGGGACGAGTTAACTCACGAAAACATAAGTC
3829187 ATGCCTAGGCGGAGGGACGAGTTAACTCACGAAAACATAAGT
1 ATGCCTAGGCGGAGGGACGAGTTAACTCACGAAAACATAAGT
3829229 AATATGTAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (43 bp):
ATGCCTAGGCGGAGGGACGAGTTAACTCACGAAAACATAAGTC
Found at i:3830500 original size:11 final size:11
Alignment explanation
Indices: 3830484--3830583 Score: 52
Period size: 11 Copynumber: 9.6 Consensus size: 11
3830474 AAAAATAAAT
3830484 ATATATACATA
1 ATATATACATA
*
3830495 ATATATACGTA
1 ATATATACATA
3830506 ATATAGTAC-TA
1 ATATA-TACATA
* *
3830517 AGA-ATATAT-
1 ATATATACATA
3830526 ATATATACAT-
1 ATATATACATA
* *
3830536 ATACA-ATATA
1 ATATATACATA
* * *
3830546 GTATTTA-AAA
1 ATATATACATA
*
3830556 ATATTTACATA
1 ATATATACATA
*
3830567 ATATTTACAT-
1 ATATATACATA
3830577 ATATATA
1 ATATATA
3830584 AAATAAATAT
Statistics
Matches: 69, Mismatches: 14, Indels: 13
0.72 0.15 0.14
Matches are distributed among these distances:
9 7 0.10
10 27 0.39
11 32 0.46
12 3 0.04
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (11 bp):
ATATATACATA
Found at i:3831511 original size:95 final size:95
Alignment explanation
Indices: 3831394--3831582 Score: 360
Period size: 95 Copynumber: 2.0 Consensus size: 95
3831384 GTGGGCCAAA
*
3831394 ATTAAAAAAAGAAAATGCAAAAAGGACTAAATTAAATGGCGCAGGAAAAGAGGAAGGATCATGAC
1 ATTAAAAAAAGAAAATGCAAAAAGGACAAAATTAAATGGCGCAGGAAAAGAGGAAGGATCATGAC
3831459 CGAAAATATCCCATTTTAGCCTAAAAAAAT
66 CGAAAATATCCCATTTTAGCCTAAAAAAAT
*
3831489 ATTAAAAAAAGAAAATGCAAAAAGGACAAAATTAAATGGCGTAGGAAAAGAGGAAGGATCATGAC
1 ATTAAAAAAAGAAAATGCAAAAAGGACAAAATTAAATGGCGCAGGAAAAGAGGAAGGATCATGAC
3831554 CGAAAATATCCCATTTTAGCCTAAAAAAA
66 CGAAAATATCCCATTTTAGCCTAAAAAAA
3831583 GATGCTGCCG
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.17
Consensus pattern (95 bp):
ATTAAAAAAAGAAAATGCAAAAAGGACAAAATTAAATGGCGCAGGAAAAGAGGAAGGATCATGAC
CGAAAATATCCCATTTTAGCCTAAAAAAAT
Found at i:3833165 original size:31 final size:31
Alignment explanation
Indices: 3833115--3833185 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
3833105 AAAAGATACA
*
3833115 ATTT-AGTCATTGAATTATTTGAAA-GTTTTT
1 ATTTAAGTCATTGAACTATTT-AAATGTTTTT
*
3833145 ATTTAAGTTATTGAACTATTTAAATGTTTTT
1 ATTTAAGTCATTGAACTATTTAAATGTTTTT
3833176 ATTTAAGTCA
1 ATTTAAGTCA
3833186 CTAAGCTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 7 0.19
31 29 0.81
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.52
Consensus pattern (31 bp):
ATTTAAGTCATTGAACTATTTAAATGTTTTT
Found at i:3833195 original size:31 final size:31
Alignment explanation
Indices: 3833115--3833195 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
3833105 AAAAGATACA
* *
3833115 ATTT-AGTCATTGAATTATTTGAAAGTTTTT
1 ATTTAAGTCACTGAACTATTTGAAAGTTTTT
* *
3833145 ATTTAAGTTATTGAACTATTT-AAATGTTTTT
1 ATTTAAGTCACTGAACTATTTGAAA-GTTTTT
3833176 ATTTAAGTCACT-AAGCTATT
1 ATTTAAGTCACTGAA-CTATT
3833196 AAGATTTTCT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
30 9 0.20
31 35 0.80
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (31 bp):
ATTTAAGTCACTGAACTATTTGAAAGTTTTT
Found at i:3833549 original size:23 final size:23
Alignment explanation
Indices: 3833523--3833572 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
3833513 TTTTTAGTCA
3833523 AATAAACAAAACAAAAATTTACC
1 AATAAACAAAACAAAAATTTACC
*
3833546 AAT-AATAAAACAAAAATTTACC
1 AATAAACAAAACAAAAATTTACC
3833568 AATAA
1 AATAA
3833573 TTTAATACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (23 bp):
AATAAACAAAACAAAAATTTACC
Found at i:3833556 original size:22 final size:22
Alignment explanation
Indices: 3833530--3833573 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
3833520 TCAAATAAAC
3833530 AAAACAAAAATTTACCAATAAT
1 AAAACAAAAATTTACCAATAAT
3833552 AAAACAAAAATTTACCAATAAT
1 AAAACAAAAATTTACCAATAAT
3833574 TTAATACCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAACAAAAATTTACCAATAAT
Found at i:3841481 original size:56 final size:55
Alignment explanation
Indices: 3841409--3841593 Score: 194
Period size: 56 Copynumber: 3.3 Consensus size: 55
3841399 CTTTCCATTC
** ** * *
3841409 AGAGTTTCACCACAAAGGCATCCTTTAATAGGTTCGA-CATGAAGCCTTACCTTTCA
1 AGAGTTTTTCCACAAAGGTGTCCTTTAACAGGTTC-ACCA-AAAGCCTTACCTTTCA
*
3841465 AGAGTTTTTCCACAAAGGTTGTCCTTTAACAGGTTCACCACAAA-CGCTTACCTTTCC
1 AGAGTTTTTCCACAAAGG-TGTCCTTTAACAGGTTCACCA-AAAGC-CTTACCTTTCA
* * * *
3841522 AGAGTTTTGCCACAAAGGTGTCCTTTACCAGGTTCACCACAAAGGCTTACCTTTCT
1 AGAGTTTTTCCACAAAGGTGTCCTTTAACAGGTTCACCA-AAAGCCTTACCTTTCA
*
3841578 GGAGTTTTTCCACAAA
1 AGAGTTTTTCCACAAA
3841594 TGTTGTACTT
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
56 66 0.59
57 45 0.41
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (55 bp):
AGAGTTTTTCCACAAAGGTGTCCTTTAACAGGTTCACCAAAAGCCTTACCTTTCA
Found at i:3841506 original size:28 final size:28
Alignment explanation
Indices: 3841474--3841566 Score: 93
Period size: 28 Copynumber: 3.3 Consensus size: 28
3841464 AAGAGTTTTT
*
3841474 CCACAAAGGTTGTCCTTTAACAGGTTCA
1 CCACAAAGGTTGTCCTTTACCAGGTTCA
* * **
3841502 CCACAAACGCTT-ACCTTT-CCAGAGTTTTG
1 CCACAAA-GGTTGTCCTTTACCAG-G-TTCA
3841531 CCACAAAGG-TGTCCTTTACCAGGTTCA
1 CCACAAAGGTTGTCCTTTACCAGGTTCA
3841558 CCACAAAGG
1 CCACAAAGG
3841567 CTTACCTTTC
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
27 15 0.29
28 20 0.39
29 16 0.31
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (28 bp):
CCACAAAGGTTGTCCTTTACCAGGTTCA
Found at i:3841515 original size:57 final size:57
Alignment explanation
Indices: 3841454--3841604 Score: 223
Period size: 56 Copynumber: 2.7 Consensus size: 57
3841444 GACATGAAGC
3841454 CTTACCTTTCAAGAGTTTTTCCACAAAGGTTGTCCTTTAACAGGTTCACCACAAACG
1 CTTACCTTTCAAGAGTTTTTCCACAAAGGTTGTCCTTTAACAGGTTCACCACAAACG
* * * *
3841511 CTTACCTTTCCAGAGTTTTGCCACAAAGG-TGTCCTTTACCAGGTTCACCACAAAGG
1 CTTACCTTTCAAGAGTTTTTCCACAAAGGTTGTCCTTTAACAGGTTCACCACAAACG
** * *
3841567 CTTACCTTTCTGGAGTTTTTCCACAAATGTTGTACTTT
1 CTTACCTTTCAAGAGTTTTTCCACAAAGGTTGTCCTTT
3841605 TACCGGTGTT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
56 50 0.60
57 34 0.40
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (57 bp):
CTTACCTTTCAAGAGTTTTTCCACAAAGGTTGTCCTTTAACAGGTTCACCACAAACG
Found at i:3841525 original size:113 final size:112
Alignment explanation
Indices: 3841390--3841604 Score: 261
Period size: 113 Copynumber: 1.9 Consensus size: 112
3841380 TAAGTACTCG
* * * **
3841390 CCACAAAGGCTTTCCATTCAGAGTTTCACCACAAAGGCATCCTTTAATAGGTTCGA-CATGAAGC
1 CCACAAACGCTTACCATTCAGAGTTTCACCACAAAGGCATCCTTTAACAGGTTC-ACCACAAAGC
*
3841454 CTTACCTTTCAAGAGTTTTTCCACAAAGGTTGTCCTTTAACAGGTTCA
65 CTTACCTTTCAAGAGTTTTTCCACAAAGGTTGTACTTTAACAGGTTCA
* ** ** * *
3841502 CCACAAACGCTTACCTTTCCAGAGTTTTGCCACAAAGGTGTCCTTTACCAGGTTCACCACAAAGG
1 CCACAAACGCTTACCATT-CAGAGTTTCACCACAAAGGCATCCTTTAACAGGTTCACCACAAAGC
** *
3841567 CTTACCTTTCTGGAGTTTTTCCACAAATGTTGTACTTT
65 CTTACCTTTCAAGAGTTTTTCCACAAAGGTTGTACTTT
3841605 TACCGGTGTT
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
112 16 0.19
113 69 0.81
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (112 bp):
CCACAAACGCTTACCATTCAGAGTTTCACCACAAAGGCATCCTTTAACAGGTTCACCACAAAGCC
TTACCTTTCAAGAGTTTTTCCACAAAGGTTGTACTTTAACAGGTTCA
Found at i:3841536 original size:29 final size:28
Alignment explanation
Indices: 3841454--3841593 Score: 83
Period size: 28 Copynumber: 5.0 Consensus size: 28
3841444 GACATGAAGC
* *
3841454 CTTACCTTTCAAGAGTTTTTCCACAAAG
1 CTTACCTTTCCAGAGTTTTACCACAAAG
* * * *
3841482 GTTGTCCTTTAACAG-G-TTCACCACAAACG
1 CTT-ACCTTT-CCAGAGTTTTACCACAAA-G
*
3841511 CTTACCTTTCCAGAGTTTTGCCACAAAG
1 CTTACCTTTCCAGAGTTTTACCACAAAG
* *
3841539 GTGT-CCTTTACCAG-G-TTCACCACAAAGG
1 CT-TACCTTT-CCAGAGTTTTACCACAAA-G
** *
3841567 CTTACCTTTCTGGAGTTTTTCCACAAA
1 CTTACCTTTCCAGAGTTTTACCACAAA
3841594 TGTTGTACTT
Statistics
Matches: 82, Mismatches: 19, Indels: 21
0.67 0.16 0.17
Matches are distributed among these distances:
27 15 0.18
28 33 0.40
29 32 0.39
30 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (28 bp):
CTTACCTTTCCAGAGTTTTACCACAAAG
Done.