Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007838.1 Hibiscus syriacus cultivar Beakdansim tig00110187_pilon, whole genome shotgun sequence
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: 3429202
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 13
Found at i:854812 original size:23 final size:23
Alignment explanation
Indices: 854778--854840 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
854768 ATTATTATAT
854778 GGCACTAC-GGTGCAATTCTACGC
1 GGCACT-CTGGTGCAATTCTACGC
*
854801 GGCACTCTGGTGCAATTCTACGT
1 GGCACTCTGGTGCAATTCTACGC
854824 GGCACT-TCGGTGCAATT
1 GGCACTCT-GGTGCAATT
854841 ATATGAGCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
22 2 0.05
23 35 0.95
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTCTGGTGCAATTCTACGC
Found at i:861377 original size:20 final size:20
Alignment explanation
Indices: 861354--861405 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
861344 AACGCGATCC
861354 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
861374 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
861394 CCAAAATCGCAA
1 CCAGAATCGCAA
861406 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:861422 original size:21 final size:20
Alignment explanation
Indices: 861395--861493 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
861385 AATCAGTTTC
861395 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
861416 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
861437 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
861457 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
861478 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
861494 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:861522 original size:20 final size:20
Alignment explanation
Indices: 861460--861653 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
861450 CGATTTTCCA
* ** *
861460 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
861480 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
861500 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
861520 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
861540 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
861560 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
861580 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
861600 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
861620 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
861641 AAATCGCAACGCG
1 AAATCGCAACGCG
861654 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:861544 original size:60 final size:60
Alignment explanation
Indices: 861460--861653 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
861450 CGATTTTCCA
* ** * *
861460 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
861520 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
861580 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
861641 AAATCGCAACGCG
1 AAATCGCAACGCG
861654 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:862074 original size:33 final size:33
Alignment explanation
Indices: 862035--862105 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
862025 TTCACTTAGA
862035 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
862068 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
862101 TTTCA
1 TTTCA
862106 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:862245 original size:14 final size:14
Alignment explanation
Indices: 862226--862280 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
862216 AGAATGACTG
862226 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
862240 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
862259 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
862273 TCGCAACG
1 TCGCAACG
862281 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:862318 original size:19 final size:18
Alignment explanation
Indices: 862291--862408 Score: 80
Period size: 14 Copynumber: 7.1 Consensus size: 18
862281 CGAAACCAAA
*
862291 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
862310 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
*
862324 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
862343 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
* *
862357 TCTCGTTGCGATTGTCAT
1 TCGCGTTGCGATTTTCAT
862375 CTCGCGTTGCGA--TTC--
1 -TCGCGTTGCGATTTTCAT
*
862390 TCTCGTTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
862408 T
1 T
862409 TCAACCAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
14 30 0.39
16 8 0.10
17 8 0.10
18 1 0.01
19 30 0.39
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCAT
Found at i:862332 original size:14 final size:14
Alignment explanation
Indices: 862313--862402 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
862303 TTTCATTTCG
862313 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
862327 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
862346 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
862360 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
862377 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
862393 CGTTGCGATT
1 CGTTGCGATT
862403 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:862338 original size:33 final size:33
Alignment explanation
Indices: 862296--862410 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
862286 CCAAATCGCA
862296 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
862329 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
862362 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
862395 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
862411 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:864335 original size:185 final size:186
Alignment explanation
Indices: 864106--864485 Score: 753
Period size: 185 Copynumber: 2.0 Consensus size: 186
864096 TAGATTGCTT
864106 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
864171 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
864236 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
864291 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
864356 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
864421 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
864477 AGTAAATTT
1 AGTAAATTT
864486 ATCCATTCAA
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 155 0.80
186 39 0.20
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:864420 original size:93 final size:93
Alignment explanation
Indices: 864106--864485 Score: 753
Period size: 93 Copynumber: 4.1 Consensus size: 93
864096 TAGATTGCTT
864106 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
864171 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
864199 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
864263 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
864291 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
864356 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
864384 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
864449 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
864477 AGTAAATTT
1 AGTAAATTT
864486 ATCCATTCAA
Statistics
Matches: 286, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 194 0.68
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:864569 original size:19 final size:19
Alignment explanation
Indices: 864529--864657 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
864519 TAGTTTACTT
* *
864529 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
864549 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
864568 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
864587 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
864601 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
864620 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
864634 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
864653 TCGCA
1 TCGCA
864658 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:864608 original size:33 final size:32
Alignment explanation
Indices: 864565--864657 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
864555 CGCGAAACCA
**
864565 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
864597 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
864630 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
864658 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:864655 original size:52 final size:52
Alignment explanation
Indices: 864529--864657 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
864519 TAGTTTACTT
**
864529 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
864581 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
864634 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
864658 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:864675 original size:19 final size:19
Alignment explanation
Indices: 864653--864787 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
864643 GAAACCAAAA
*
864653 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
864672 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
864688 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
864705 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
864721 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
864738 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
864757 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
864777 TCGTGTTGCGA
1 TCGCGTTGCGA
864788 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:864694 original size:14 final size:14
Alignment explanation
Indices: 864675--864731 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
864665 TTTCATTTCG
864675 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
864689 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
864706 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
864722 CGTTGCGATT
1 CGTTGCGATT
864732 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:864700 original size:33 final size:33
Alignment explanation
Indices: 864658--864750 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
864648 CAAAATCGCA
*
864658 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
864691 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
864724 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
864751 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:866644 original size:38 final size:38
Alignment explanation
Indices: 866601--866673 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
866591 AATTGATTGT
*
866601 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
866639 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
866674 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:866660 original size:19 final size:19
Alignment explanation
Indices: 866596--866660 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
866586 AGTTTAATTG
*
866596 ATTGTTTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
866615 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
866633 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
866653 ATTGATTT
1 ATTGATTT
866661 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
18 5 0.16
19 21 0.68
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:866674 original size:14 final size:14
Alignment explanation
Indices: 866655--866690 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
866645 ATTGTTTAAT
866655 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
866669 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
866683 TGATTTGT
1 TGATTTGT
866691 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:866883 original size:20 final size:19
Alignment explanation
Indices: 866797--866897 Score: 133
Period size: 19 Copynumber: 5.6 Consensus size: 19
866787 AAAAATGACT
*
866797 ATCGCAATACGAAATG-AA
1 ATCGCAATGCGAAATGAAA
866815 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
866834 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
866848 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
866867 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
866887 ATCGCAATGCG
1 ATCGCAATGCG
866898 TTTATAATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 16 0.22
19 23 0.32
20 19 0.26
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:866950 original size:19 final size:19
Alignment explanation
Indices: 866926--867251 Score: 396
Period size: 19 Copynumber: 18.4 Consensus size: 19
866916 GATTATCTCG
866926 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
866945 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
866964 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
866978 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
866997 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
867016 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
867035 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
867054 TTGCGA--TT-ATGTCG-G
1 TTGCGATTTTCATTTCGCA
867069 TT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
867087 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
867106 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
867120 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
867139 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
867158 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
867177 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
867191 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
867211 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
867225 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
867244 TTGCGATT
1 TTGCGATT
867252 GTATTTTCCG
Statistics
Matches: 268, Mismatches: 13, Indels: 52
0.80 0.04 0.16
Matches are distributed among these distances:
14 32 0.12
15 2 0.01
16 31 0.12
17 28 0.10
18 5 0.02
19 158 0.59
20 12 0.04
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:866966 original size:52 final size:51
Alignment explanation
Indices: 866904--867223 Score: 360
Period size: 52 Copynumber: 6.0 Consensus size: 51
866894 TGCGTTTATA
866904 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
866956 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
867008 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATTATGTC
1 ATTTCGCATTGCGA-TTTC---TCG--TTGCGATTTTCATTTCGCATTGCGATT-T-TC
** * * *
867067 GGTTCG-ATTTTC-ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATT-T-TC
* * * * *
867119 GTTGCG-ATTTTC-ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
867169 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATT-TCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
867222 AT
1 AT
867224 GTTGGGATTT
Statistics
Matches: 236, Mismatches: 19, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
50 9 0.04
51 5 0.02
52 157 0.67
53 19 0.08
54 1 0.00
55 3 0.01
57 30 0.13
58 3 0.01
59 9 0.04
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (51 bp):
ATTTCGCATTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:867001 original size:71 final size:71
Alignment explanation
Indices: 866926--867251 Score: 456
Period size: 71 Copynumber: 4.6 Consensus size: 71
866916 GATTATCTCG
*
866926 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
866991 TTCGCA
66 TTCGCA
* * *
866997 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTCTCG--TTGCGATT
* *
867060 TT-ATGTCG-G
61 TTCATTTCGCA
867069 TT-CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
867133 TTCGCA
66 TTCGCA
867139 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
867204 TTCCGCA
66 TT-CGCA
* *
867211 TTGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
867252 GTATTTTCCG
Statistics
Matches: 233, Mismatches: 11, Indels: 26
0.86 0.04 0.10
Matches are distributed among these distances:
66 6 0.03
67 25 0.11
68 6 0.03
69 8 0.03
70 3 0.01
71 147 0.63
72 18 0.08
73 7 0.03
74 7 0.03
76 6 0.03
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
TTCGCA
Found at i:867080 original size:142 final size:143
Alignment explanation
Indices: 866888--867184 Score: 528
Period size: 142 Copynumber: 2.1 Consensus size: 143
866878 GAAATGAAAA
*
866888 TCGCAATGCG-TTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
*
866952 TTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
66 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
867017 TGCGATTTTCATT
131 TGCGATTTTCATT
* *
867030 TCGTATTGCGATTT-TAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCATTGCGA
1 TCGCATTGCGATTTATAATTTCGCATTGCGATTATCTC-GTTGCGATTTTCATTTCGCATTGCGA
867093 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
65 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
867158 TTGCGATTTTCATT
130 TTGCGATTTTCATT
867172 TCGCATTGCGATT
1 TCGCATTGCGATT
867185 CTCTCGTTGC
Statistics
Matches: 148, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
142 142 0.96
143 6 0.04
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (143 bp):
TCGCATTGCGATTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
TGCGATTTTCATT
Found at i:869571 original size:12 final size:12
Alignment explanation
Indices: 869554--869578 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
869544 TCTTCGGGGA
869554 CTTTTTCTTCTT
1 CTTTTTCTTCTT
869566 CTTTTTCTTCTT
1 CTTTTTCTTCTT
869578 C
1 C
869579 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:869787 original size:24 final size:24
Alignment explanation
Indices: 869753--869799 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
869743 CTGAAACATC
869753 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
869777 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
869800 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:870495 original size:20 final size:20
Alignment explanation
Indices: 870467--870835 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
870457 AAATTTCAGT
* * * *
870467 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
870487 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
870507 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
870527 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
870547 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
870567 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
870587 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
870607 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
870627 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
870647 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
870667 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
870687 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
870707 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
870727 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
870747 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
870767 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
870787 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
870807 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
870827 GTTGCGATT
1 GTTGCGATT
870836 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:871931 original size:185 final size:190
Alignment explanation
Indices: 871619--871994 Score: 708
Period size: 185 Copynumber: 2.0 Consensus size: 190
871609 CTTTTAACAG
871619 CATGGTGGACACCGACCTAAGTAAGTATATCAACCATACACCAATGATACATCCCATCAACAAAA
1 CATGGTGGACACCGACCTAAGTAAGTATATCAACCATACACCAATGATACATCCCATCAACAAAA
871684 GAATGTGTGAGTTTAATTATGGGTAAACTATAAGATTAGTCACTTATGTTTTAATTTTGTTCATT
66 GAATGTGTGAGTTTAATTATGGGTAAACTATAAGATTAGTCACTTATGTTTTAATTTTGTTCATT
871749 TTTT-TTATC-AG-ATA-TATTCGCATCTGTCTTTTTCATT-CCACACGGTTAATAATTA
131 TTTTATTATCAAGAATATTATTCGCATCTGTCTTTTTCATTCCCACACGGTTAATAATTA
871804 CATGGTGGACACCGACCTAAGTAAGTATATCAACCATACACCAATGATACATCCCATCAACAAAA
1 CATGGTGGACACCGACCTAAGTAAGTATATCAACCATACACCAATGATACATCCCATCAACAAAA
871869 GAATGTGTGAGTTTAATTATGGGTAAACTATAAGATTAGTCACTTATGTTTTAATTTTGTTCATT
66 GAATGTGTGAGTTTAATTATGGGTAAACTATAAGATTAGTCACTTATGTTTTAATTTTGTTCATT
871934 TTTTATTATCAAGATATATTATTCGCATCTGTCTTTTTCATTCCCACACGGTTAATAATTA
131 TTTTATTATCAAGA-ATATTATTCGCATCTGTCTTTTTCATTCCCACACGGTTAATAATTA
871995 AAAAATGCTC
Statistics
Matches: 185, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
185 134 0.72
186 5 0.03
187 2 0.01
189 3 0.02
190 23 0.12
191 18 0.10
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (190 bp):
CATGGTGGACACCGACCTAAGTAAGTATATCAACCATACACCAATGATACATCCCATCAACAAAA
GAATGTGTGAGTTTAATTATGGGTAAACTATAAGATTAGTCACTTATGTTTTAATTTTGTTCATT
TTTTATTATCAAGAATATTATTCGCATCTGTCTTTTTCATTCCCACACGGTTAATAATTA
Found at i:873324 original size:26 final size:26
Alignment explanation
Indices: 873295--873355 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
873285 GTATATTTAA
873295 AATTTAAATTAATTAA-TAAATAATTT
1 AATTTAAATTAATTAATTAAA-AATTT
* *
873321 AATTTAATTTAATTAATTTAAAATTT
1 AATTTAAATTAATTAATTAAAAATTT
873347 -ATTTAAATT
1 AATTTAAATT
873356 CTTGAATCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.26
26 20 0.65
27 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
AATTTAAATTAATTAATTAAAAATTT
Found at i:878082 original size:2 final size:2
Alignment explanation
Indices: 878075--878099 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
878065 AATCAACCAC
878075 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
878100 TTGGTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:880542 original size:21 final size:21
Alignment explanation
Indices: 880516--880561 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
880506 TTAAAAATAT
*
880516 TAAAAATATTAATATTTTAAA
1 TAAAAATAATAATATTTTAAA
880537 TAAAAATAATAATATTTTAAA
1 TAAAAATAATAATATTTTAAA
880558 TAAA
1 TAAA
880562 TTTTTACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAAAATAATAATATTTTAAA
Found at i:881004 original size:22 final size:20
Alignment explanation
Indices: 880973--881036 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 20
880963 ACTTTATTAA
880973 AAATATTAAATATTTTAAAT
1 AAATATTAAATATTTTAAAT
* *
880993 AACACTATTAAAAATATTAAA-
1 AA-A-TATTAAATATTTTAAAT
*
881014 AAATATT-AATATTTCAAAT
1 AAATATTAAATATTTTAAAT
881033 AAAT
1 AAAT
881037 CTTTATTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
18 8 0.22
19 8 0.22
20 3 0.08
21 3 0.08
22 14 0.39
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATTAAATATTTTAAAT
Found at i:881005 original size:31 final size:32
Alignment explanation
Indices: 880951--881013 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 32
880941 CAATAAAAAA
*
880951 ATTTTAAATAATACTTTATTAAAAATATTAAAT
1 ATTTTAAATAACAC-TTATTAAAAATATTAAAT
880984 ATTTTAAATAACAC-TATTAAAAATATTAAA
1 ATTTTAAATAACACTTATTAAAAATATTAAA
881014 AAATATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 16 0.55
33 13 0.45
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (32 bp):
ATTTTAAATAACACTTATTAAAAATATTAAAT
Found at i:882255 original size:96 final size:97
Alignment explanation
Indices: 882091--882283 Score: 379
Period size: 96 Copynumber: 2.0 Consensus size: 97
882081 AAGCGAAGAG
882091 GTAATGGAAGCTTTGGAGAGGGAGTACACAACTCTCAACTATGGAGTTAGAGCCATGACAATCAA
1 GTAATGGAAGCTTTGGAGAGGGAGTACACAACTCTCAACTATGGAGTTAGAGCCATGACAATCAA
882156 TATCCCAGGGTTTGCTTACCAT-AAGCCCTCA
66 TATCCCAGGGTTTGCTTACCATAAAGCCCTCA
882187 GTAATGGAAGCTTTGGAGAGGGAGTACACAACTCTCAACTATGGAGTTAGAGCCATGACAATCAA
1 GTAATGGAAGCTTTGGAGAGGGAGTACACAACTCTCAACTATGGAGTTAGAGCCATGACAATCAA
882252 TATCCCAGGGTTTGCTTACCATAAAGCCCTCA
66 TATCCCAGGGTTTGCTTACCATAAAGCCCTCA
882284 AGGTGGAAAT
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
96 87 0.91
97 9 0.09
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (97 bp):
GTAATGGAAGCTTTGGAGAGGGAGTACACAACTCTCAACTATGGAGTTAGAGCCATGACAATCAA
TATCCCAGGGTTTGCTTACCATAAAGCCCTCA
Found at i:883840 original size:161 final size:161
Alignment explanation
Indices: 883575--883896 Score: 626
Period size: 161 Copynumber: 2.0 Consensus size: 161
883565 ATCTTTGGTG
883575 GGGGTTTTGGAGTTCAGGATAACTCGCTTAGAATGTACGAGAATGGACTGTAGTATGAACAGAAA
1 GGGGTTTTGGAGTTCAGGATAACTCGCTTAGAATGTACGAGAATGGACTGTAGTATGAACAGAAA
883640 AGATTGTCTGAAACTGATGCTATGAGATCAATATGTAGTAGGGGTGTTCGCAATCGGTTTGAATC
66 AGATTGTCTGAAACTGATGCTATGAGATCAATATGTAGTAGGGGTGTTCGCAATCGGTTTGAATC
883705 GGTTTTTGGTTAAAAATTTATCCGATCCGAA
131 GGTTTTTGGTTAAAAATTTATCCGATCCGAA
883736 GGGGTTTTGGAGTTCAGGATAACTCGCTTAGAATGTACGAGAATGGACTGTAGTATGAACAGAAA
1 GGGGTTTTGGAGTTCAGGATAACTCGCTTAGAATGTACGAGAATGGACTGTAGTATGAACAGAAA
* *
883801 AGATTGTCTGAAACTGATGCTATGAGATCAATATGTAGTAGGGGTGTTCGCAATCGGTTTGGATT
66 AGATTGTCTGAAACTGATGCTATGAGATCAATATGTAGTAGGGGTGTTCGCAATCGGTTTGAATC
883866 GGTTTTTGGTTAAAAATTTATCCGATCCGAA
131 GGTTTTTGGTTAAAAATTTATCCGATCCGAA
883897 AGTATAAATG
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 159 1.00
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (161 bp):
GGGGTTTTGGAGTTCAGGATAACTCGCTTAGAATGTACGAGAATGGACTGTAGTATGAACAGAAA
AGATTGTCTGAAACTGATGCTATGAGATCAATATGTAGTAGGGGTGTTCGCAATCGGTTTGAATC
GGTTTTTGGTTAAAAATTTATCCGATCCGAA
Found at i:885380 original size:16 final size:17
Alignment explanation
Indices: 885359--885391 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
885349 ACACACTAAA
885359 TCGGTT-TCGATTTTTT
1 TCGGTTATCGATTTTTT
*
885375 TCGGTTATCGGTTTTTT
1 TCGGTTATCGATTTTTT
885392 GAATCACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.06, C:0.12, G:0.21, T:0.61
Consensus pattern (17 bp):
TCGGTTATCGATTTTTT
Found at i:890806 original size:9 final size:9
Alignment explanation
Indices: 890792--890822 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
890782 ATTTTATTAG
890792 TTTAATTTT
1 TTTAATTTT
890801 TTTAATTTTT
1 TTTAA-TTTT
890811 TTTAATTTT
1 TTTAATTTT
890820 TTT
1 TTT
890823 TAAAATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTAATTTT
Found at i:890830 original size:12 final size:10
Alignment explanation
Indices: 890792--890825 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
890782 ATTTTATTAG
890792 TTTAA-TTTT
1 TTTAATTTTT
890801 TTTAATTTTT
1 TTTAATTTTT
890811 TTTAATTTTT
1 TTTAATTTTT
890821 TTTAA
1 TTTAA
890826 AATTTCACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.21
10 19 0.79
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTAATTTTT
Found at i:892424 original size:31 final size:31
Alignment explanation
Indices: 892386--892445 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
892376 TATATTATAT
* *
892386 TTATATTTTTATACTATTTATATAAACTAGC
1 TTATATTTATATACTATATATATAAACTAGC
*
892417 TTATATTTATATACTATATATATGAACTA
1 TTATATTTATATACTATATATATAAACTA
892446 TATATATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.50
Consensus pattern (31 bp):
TTATATTTATATACTATATATATAAACTAGC
Found at i:892445 original size:13 final size:12
Alignment explanation
Indices: 892418--892465 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
892408 TAAACTAGCT
*
892418 TATATTTATATAC
1 TATATATATA-AC
892431 TATATATATGAAC
1 TATATATAT-AAC
*
892444 TATATATATAAA
1 TATATATATAAC
892456 TATATATATA
1 TATATATATA
892466 CCAAGGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
12 12 0.38
13 19 0.59
14 1 0.03
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (12 bp):
TATATATATAAC
Found at i:892499 original size:18 final size:18
Alignment explanation
Indices: 892478--892512 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
892468 AAGGTTGATA
*
892478 TTTATATATGAACTATAG
1 TTTACATATGAACTATAG
892496 TTTACATATGAACTATA
1 TTTACATATGAACTATA
892513 TATATAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.43
Consensus pattern (18 bp):
TTTACATATGAACTATAG
Found at i:892523 original size:31 final size:31
Alignment explanation
Indices: 892480--892561 Score: 119
Period size: 33 Copynumber: 2.6 Consensus size: 31
892470 GGTTGATATT
*
892480 TATATATGAACTATAGTTTACATATGAACTA
1 TATATATAAACTATAGTTTACATATGAACTA
*
892511 TATATATAAACTATATAGTTTACATATGACCTA
1 TATATATAAAC--TATAGTTTACATATGAACTA
*
892544 TATATATATACTATAGTT
1 TATATATAAACTATAGTT
892562 GATATTTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
31 17 0.37
33 29 0.63
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
TATATATAAACTATAGTTTACATATGAACTA
Found at i:892549 original size:24 final size:24
Alignment explanation
Indices: 892522--892601 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 24
892512 ATATATAAAC
*
892522 TATATAGTTTACATATGACCTATA
1 TATATAGTTTACATATGACATATA
*
892546 TATATA---TACTATAGTTGATATTTATA
1 TATATAGTTTAC-ATA--TGACA--TATA
892572 TATATAGTTTACATATGACATATA
1 TATATAGTTTACATATGACATATA
892596 TATATA
1 TATATA
892602 ATAGTTTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
21 3 0.07
22 3 0.07
24 19 0.42
26 14 0.31
28 3 0.07
29 3 0.07
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (24 bp):
TATATAGTTTACATATGACATATA
Found at i:892597 original size:26 final size:26
Alignment explanation
Indices: 892522--892630 Score: 100
Period size: 26 Copynumber: 4.2 Consensus size: 26
892512 ATATATAAAC
*
892522 TATATAGTTTACATATGACCTATATA
1 TATATAGTTTACATATGACATATATA
* * * * *
892548 TATATACTATA-GT-TGATATTTATA
1 TATATAGTTTACATATGACATATATA
892572 TATATAGTTTACATATGACATATATA
1 TATATAGTTTACATATGACATATATA
*
892598 TATAATAGTTT-TATAT-ACTATATTATA
1 TAT-ATAGTTTACATATGAC-ATA-TATA
892625 TATATA
1 TATATA
892631 TACTATATAG
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
24 17 0.26
25 4 0.06
26 31 0.47
27 14 0.21
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (26 bp):
TATATAGTTTACATATGACATATATA
Found at i:892620 original size:24 final size:27
Alignment explanation
Indices: 892492--892608 Score: 98
Period size: 26 Copynumber: 4.3 Consensus size: 27
892482 TATATGAACT
892492 ATAGTTTACATATGAACTATATATATAAACTA
1 ATAGTTTACATATG-AC-ATATATAT--A-TA
*
892524 TATAGTTTACATATGACCTATATATAT-
1 -ATAGTTTACATATGACATATATATATA
* * * * *
892551 ATACTATA-GT-TGATATTTATATAT-
1 ATAGTTTACATATGACATATATATATA
892575 ATAGTTTACATATGACATATATATATA
1 ATAGTTTACATATGACATATATATATA
892602 ATAGTTT
1 ATAGTTT
892609 TATATACTAT
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
24 17 0.25
25 2 0.03
26 18 0.26
27 7 0.10
28 1 0.01
29 1 0.01
31 7 0.10
32 2 0.03
33 14 0.20
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (27 bp):
ATAGTTTACATATGACATATATATATA
Found at i:892695 original size:2 final size:2
Alignment explanation
Indices: 892542--892676 Score: 57
Period size: 2 Copynumber: 65.0 Consensus size: 2
892532 ACATATGACC
* * *
892542 TA TA TA TA TA TA CTA TA GT- TGA TA TT TA TA TA TA TA GTT TA CA
1 TA TA TA TA TA TA -TA TA -TA T-A TA TA TA TA TA TA TA -TA TA TA
* *
892585 TA TGA CA TA TA TA TA TA -A TA GT- TT TA TA TA CTA TA T- TA TA
1 TA T-A TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA
* *
892625 TA TA TA TA CTA TA TA GTA TA -A TT TA CA TA TGA -A CTA TA TA TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA T-A TA -TA TA TA TA
*
892667 AA TA TA TA TA
1 TA TA TA TA TA
892677 CTAAGGTTGA
Statistics
Matches: 101, Mismatches: 15, Indels: 34
0.67 0.10 0.23
Matches are distributed among these distances:
1 6 0.06
2 80 0.79
3 15 0.15
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:892717 original size:17 final size:17
Alignment explanation
Indices: 892691--892723 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
892681 GGTTGATATA
*
892691 TATATGAACTATAGTTT
1 TATATAAACTATAGTTT
892708 TATATAAACTATAGTT
1 TATATAAACTATAGTT
892724 AATATTTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (17 bp):
TATATAAACTATAGTTT
Found at i:892765 original size:33 final size:35
Alignment explanation
Indices: 892563--892921 Score: 130
Period size: 33 Copynumber: 10.1 Consensus size: 35
892553 ACTATAGTTG
*
892563 ATATTTATA-TATATAGTTTACATATG-AC-ATAT
1 ATATATATACTATATAGTTTACATATGAACTATAT
* * * *
892595 ATATATAATAGT-TTTA-TATACTATAT-TA-TATAT
1 ATATAT-ATACTATATAGTTTAC-ATATGAACTATAT
*
892628 ATATACTATA-TAGTATAATTTACATATGAACTATAT
1 ATATA-TATACTA-TATAGTTTACATATGAACTATAT
* *
892664 ATAAATATA-TATACTAAGGTTGATATATATATGAACTATAGTT
1 ATATATATACTATA-T-A-G-T--T-TACATATGAACTATA--T
* * *
892707 TTATATAAACTATAGTTAATATTTACATATGAACTATAT
1 ATATATATACTATA--T-A-GTTTACATATGAACTATAT
*
892746 ATATA-A-ACTATATAGTTTACATATGACCTATAT
1 ATATATATACTATATAGTTTACATATGAACTATAT
**
892779 ATATATATAC--TATAGTTGATATTTAT-ATACTATAT
1 ATATATATACTATATAGTT--TACATATGA-ACTATAT
* * * *
892814 AGTTTACATATGACATATATA-TATAC-TAT--AGTTTAT
1 A---TATATAT-AC-TATATAGTTTACATATGAACTATAT
* * *
892850 ATTTATATACTATATA-TTATATATATAAACTATAT
1 ATATATATACTATATAGTT-TACATATGAACTATAT
*
892885 ATACTATATAGTATA-A-TTTACATATGAACTATAT
1 ATA-TATATACTATATAGTTTACATATGAACTATAT
892919 ATA
1 ATA
892922 AAAATCCTAA
Statistics
Matches: 251, Mismatches: 37, Indels: 76
0.69 0.10 0.21
Matches are distributed among these distances:
31 7 0.03
32 14 0.06
33 60 0.24
34 31 0.12
35 37 0.15
36 26 0.10
37 6 0.02
38 11 0.04
39 9 0.04
40 1 0.00
41 29 0.12
42 5 0.02
43 7 0.03
44 5 0.02
45 3 0.01
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (35 bp):
ATATATATACTATATAGTTTACATATGAACTATAT
Found at i:892781 original size:2 final size:2
Alignment explanation
Indices: 892774--892899 Score: 67
Period size: 2 Copynumber: 58.0 Consensus size: 2
892764 ACATATGACC
* *
892774 TA TA TA TA TA TA TA CTA TA GT- TGA TA TT TA TA TA CTA TA TA GTT
1 TA TA TA TA TA TA TA -TA TA -TA T-A TA TA TA TA TA -TA TA TA -TA
* * * *
892818 TA CA TA TGA CA TA TA TA TA TA CTA TA GTT TA TA TT TA TA TA CTA
1 TA TA TA T-A TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA -TA
*
892862 TA TA T- TA TA TA TA TA AA CTA TA TA TA CTA TA TA GTA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA
892900 ATTTACATAT
Statistics
Matches: 96, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
1 2 0.02
2 76 0.79
3 18 0.19
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:892814 original size:7 final size:7
Alignment explanation
Indices: 892802--892899 Score: 50
Period size: 7 Copynumber: 14.6 Consensus size: 7
892792 AGTTGATATT
892802 TATATAC
1 TATATAC
*
892809 TATATAG
1 TATATAC
892816 T-T-TAC
1 TATATAC
892821 -ATATGAC
1 TATAT-AC
892828 -ATATA-
1 TATATAC
892833 TATATAC
1 TATATAC
*
892840 TATAGT-T
1 TATA-TAC
*
892847 TATAT-T
1 TATATAC
892853 TATATAC
1 TATATAC
*
892860 TATATAT
1 TATATAC
892867 TATATA-
1 TATATAC
*
892873 TATAAAC
1 TATATAC
892880 TATATATAC
1 --TATATAC
*
892889 TATATAG
1 TATATAC
892896 TATA
1 TATA
892900 ATTTACATAT
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
5 3 0.04
6 20 0.27
7 43 0.59
8 1 0.01
9 6 0.08
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (7 bp):
TATATAC
Found at i:892851 original size:20 final size:20
Alignment explanation
Indices: 892828--892899 Score: 85
Period size: 20 Copynumber: 3.5 Consensus size: 20
892818 TACATATGAC
892828 ATATATATATACTATAGT-TT
1 ATATATATATACTATA-TATT
*
892848 ATATTTATATACTATATATT
1 ATATATATATACTATATATT
*
892868 ATATATATAAACTATATA-T
1 ATATATATATACTATATATT
892887 ACTATATAGTATA
1 A-TATATA-TATA
892900 ATTTACATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
19 3 0.07
20 39 0.87
21 3 0.07
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (20 bp):
ATATATATATACTATATATT
Found at i:892853 original size:51 final size:53
Alignment explanation
Indices: 892741--892892 Score: 193
Period size: 51 Copynumber: 2.8 Consensus size: 53
892731 ACATATGAAC
* *
892741 TATATATATAAACTATATAGTTTACATATGACCTATATATATATATACTATAGTT
1 TATATTTATATACTATATAGTTTACATATGACC--TATATATATATACTATAGTT
*
892796 GATATTTATATACTATATAGTTTACATATGA-C-ATATATATATACTATAGTT
1 TATATTTATATACTATATAGTTTACATATGACCTATATATATATACTATAGTT
* * *
892847 TATATTTATATACTATATA-TTATATATATAAACTATATATACTATA
1 TATATTTATATACTATATAGTT-TACATATGACCTATATATA-TATA
892893 TAGTATAATT
Statistics
Matches: 87, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
50 2 0.02
51 44 0.51
52 1 0.01
53 7 0.08
54 5 0.06
55 28 0.32
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (53 bp):
TATATTTATATACTATATAGTTTACATATGACCTATATATATATACTATAGTT
Found at i:892872 original size:29 final size:28
Alignment explanation
Indices: 892802--892899 Score: 74
Period size: 29 Copynumber: 3.4 Consensus size: 28
892792 AGTTGATATT
* * *
892802 TATATACTATATAGTTTACATATGACATA-
1 TATATA-TATATAGTTTAAAT-TTATATAC
*
892831 TATATATACTATAGTTTATATTTATATAC
1 TATATATA-TATAGTTTAAATTTATATAC
* *
892860 TATATATTATATA-TATAAACTATATATAC
1 TATATA-TATATAGTTTAAA-TTTATATAC
892889 TATATAGTATA
1 TATATA-TATA
892900 ATTTACATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
28 11 0.19
29 45 0.78
30 2 0.03
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (28 bp):
TATATATATATAGTTTAAATTTATATAC
Found at i:892916 original size:34 final size:36
Alignment explanation
Indices: 892853--892921 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
892843 AGTTTATATT
*
892853 TATATACTATATATTATATATATAAACTATATATAC
1 TATATACTATATATTATACATATAAACTATATATAC
* *
892889 TATATAGTATA-ATT-TACATATGAACTATATATA
1 TATATACTATATATTATACATATAAACTATATATA
892922 AAAATCCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (36 bp):
TATATACTATATATTATACATATAAACTATATATAC
Found at i:893060 original size:58 final size:60
Alignment explanation
Indices: 892979--893194 Score: 210
Period size: 58 Copynumber: 3.5 Consensus size: 60
892969 ACTATATAAC
* ** *
892979 ATATATAGACTATATGGTATATATAAACTATAAACTATACATTATATATAATTCATTAGT
1 ATATATAAACTATATAATATATATAAACTATAAACTATACATTATATATAGTTCATTAGT
*
893039 ATATATAAACTATATATTATATAGTTCATTAGTATA-TATAAACTATATA-T-TATATAGTTCAT
1 ATATATAAACTATATA--ATATA--T-A-TA--A-ACTATAAACTATACATTATATATAGTTCAT
893101 TAGT
57 TAGT
* * * * *
893105 ATATATAACCTATATAGTATATGATATA-TACAAACTATATA-T-TATATAGTTCATTAGT
1 ATATATAAACTATATAATATAT-ATAAACTATAAACTATACATTATATATAGTTCATTAGT
893163 ATATATAAACTATATAATATATATAAACTATA
1 ATATATAAACTATATAATATATATAAACTATA
893195 TATTAATTTA
Statistics
Matches: 132, Mismatches: 14, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
57 4 0.03
58 53 0.40
60 14 0.11
61 2 0.02
62 6 0.05
64 5 0.04
65 1 0.01
66 32 0.24
67 1 0.01
68 13 0.10
69 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (60 bp):
ATATATAAACTATATAATATATATAAACTATAAACTATACATTATATATAGTTCATTAGT
Found at i:893067 original size:33 final size:33
Alignment explanation
Indices: 893007--893185 Score: 230
Period size: 33 Copynumber: 5.6 Consensus size: 33
892997 ATATATAAAC
* *
893007 TATAAACTATACATTATATATAATTCATTAGTATA
1 TATAAACTATATA-T-TATATAGTTCATTAGTATA
893042 TATAAACTATATATTATATAGTTCATTAGTATA
1 TATAAACTATATATTATATAGTTCATTAGTATA
893075 TATAAACTATATATTATATAGTTCATTAGTATA
1 TATAAACTATATATTATATAGTTCATTAGTATA
* *
893108 TATAACCTATATAGTATAT-G------A-TATA
1 TATAAACTATATATTATATAGTTCATTAGTATA
*
893133 TACAAACTATATATTATATAGTTCATTAGTATA
1 TATAAACTATATATTATATAGTTCATTAGTATA
*
893166 TATAAACTATATAATATATA
1 TATAAACTATATATTATATA
893186 TAAACTATAT
Statistics
Matches: 127, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
25 20 0.16
26 2 0.02
32 2 0.02
33 90 0.71
34 1 0.01
35 12 0.09
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (33 bp):
TATAAACTATATATTATATAGTTCATTAGTATA
Found at i:893094 original size:18 final size:18
Alignment explanation
Indices: 892956--893199 Score: 98
Period size: 18 Copynumber: 13.3 Consensus size: 18
892946 TTCTATAGTT
892956 TATTAGTATATAAACTATA
1 TATTA-TATATAAACTATA
** *
892975 TAACATATATAGACTATA
1 TATTATATATAAACTATA
892993 TGGTATATATAAACTATAAACTATA
1 ---TAT-TAT--A-TATAAACTATA
* *
893018 CATTATATAT-AATTCAT-
1 TATTATATATAAACT-ATA
*
893035 TAGTATATATAAACTATA
1 TATTATATATAAACTATA
*
893053 TATTATATAGT--TC-AT-
1 TATTATATA-TAAACTATA
*
893068 TAGTATATATAAACTATA
1 TATTATATATAAACTATA
** *
893086 TATTATATAGTTCATTAGTA
1 TATTATATA-TAAACTA-TA
* *
893106 TA-TATAACCTATATAGTATA
1 TATTAT-A--TATAAACTATA
*
893126 TGA-TATATACAAACTATA
1 T-ATTATATATAAACTATA
*
893144 TATTATATAGT--TC-AT-
1 TATTATATA-TAAACTATA
*
893159 TAGTATATATAAACTATA
1 TATTATATATAAACTATA
*
893177 TAATATATATAAACTATA
1 TATTATATATAAACTATA
893195 TATTA
1 TATTA
893200 ATTTATTAAT
Statistics
Matches: 167, Mismatches: 31, Indels: 55
0.66 0.12 0.22
Matches are distributed among these distances:
14 2 0.01
15 16 0.10
16 6 0.04
17 20 0.12
18 72 0.43
19 12 0.07
20 9 0.05
21 13 0.08
22 6 0.04
24 1 0.01
25 10 0.06
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATATAAACTATA
Found at i:893142 original size:25 final size:25
Alignment explanation
Indices: 893104--893151 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
893094 AGTTCATTAG
* *
893104 TATATATAACCTATATAGTATATGA
1 TATATACAAACTATATAGTATATGA
*
893129 TATATACAAACTATATATTATAT
1 TATATACAAACTATATAGTATAT
893152 AGTTCATTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (25 bp):
TATATACAAACTATATAGTATATGA
Found at i:893178 original size:9 final size:9
Alignment explanation
Indices: 893164--893196 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
893154 TTCATTAGTA
893164 TATATAAAC
1 TATATAAAC
893173 TATATAATA-
1 TATATAA-AC
893182 TATATAAAC
1 TATATAAAC
893191 TATATA
1 TATATA
893197 TTAATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.05
9 20 0.91
10 1 0.05
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (9 bp):
TATATAAAC
Found at i:893220 original size:51 final size:51
Alignment explanation
Indices: 893122--893220 Score: 112
Period size: 51 Copynumber: 1.9 Consensus size: 51
893112 ACCTATATAG
* * * *
893122 TATATGATATATACAAACTATATATTATATAGTTCATTAGTATATATAAAC
1 TATATAATATATACAAACTATATATTATATAGTTAATTAGAACATATAAAC
* *
893173 TATATAATATATATAAACTATATATTAATTTA-TTAATATA-AACATATA
1 TATATAATATATACAAACTATATATT-ATATAGTTAAT-TAGAACATATA
893221 TATTAATTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
51 34 0.85
52 6 0.15
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (51 bp):
TATATAATATATACAAACTATATATTATATAGTTAATTAGAACATATAAAC
Found at i:896354 original size:13 final size:13
Alignment explanation
Indices: 896335--896372 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
896325 TAATTTAGTG
896335 ATTATAAATAA-A
1 ATTATAAATAAGA
896347 ACTTATAATATAAGA
1 A-TTATAA-ATAAGA
896362 ATTATAAATAA
1 ATTATAAATAA
896373 TATAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (13 bp):
ATTATAAATAAGA
Found at i:896372 original size:18 final size:18
Alignment explanation
Indices: 896351--896396 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
896341 AATAAAACTT
896351 ATAATATAAGAATT-ATAA
1 ATAATATAAGAATTGA-AA
896369 ATAATATAAAGAATTGAAA
1 ATAATAT-AAGAATTGAAA
*
896388 TTAATATAA
1 ATAATATAA
896397 AAATCAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 9 0.36
19 15 0.60
20 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (18 bp):
ATAATATAAGAATTGAAA
Found at i:896431 original size:38 final size:39
Alignment explanation
Indices: 896369--896445 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 39
896359 AGAATTATAA
896369 ATAATATAAAGAATTGAAATTAATATAAAAA-TCAAATTT
1 ATAATATAAAGAATTGAAATTAATATAAAAACT-AAATTT
*
896408 ATAATATACA-AATT-ATAATTAATATAAAAACTAAATTT
1 ATAATATAAAGAATTGA-AATTAATATAAAAACTAAATTT
896446 CAAAAAGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
37 1 0.03
38 24 0.69
39 10 0.29
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (39 bp):
ATAATATAAAGAATTGAAATTAATATAAAAACTAAATTT
Found at i:896432 original size:18 final size:18
Alignment explanation
Indices: 896352--896444 Score: 68
Period size: 18 Copynumber: 5.1 Consensus size: 18
896342 ATAAAACTTA
*
896352 TAATAT-AAGAATTATAAA
1 TAATATAAAGAATTA-AAT
896370 TAATATAAAGAATTGAAAT
1 TAATATAAAGAATT-AAAT
*
896389 TAATATAAA-AATCAAATTT
1 TAATATAAAGAATTAAA--T
*
896408 ATAATATACA-AATTATAAT
1 -TAATATAAAGAATTA-AAT
*
896427 TAATATAAA-AACTAAAT
1 TAATATAAAGAATTAAAT
896444 T
1 T
896445 TCAAAAAGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
17 7 0.11
18 21 0.33
19 20 0.32
20 13 0.21
21 2 0.03
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
TAATATAAAGAATTAAAT
Found at i:899742 original size:95 final size:96
Alignment explanation
Indices: 899622--899814 Score: 379
Period size: 95 Copynumber: 2.0 Consensus size: 96
899612 TTATTCCCGG
899622 TGTTTTCTTTCTCTGTTTCCTAATTTCATAGAGTTAAATCAATTTTATTTTTGGGAATTGGATTT
1 TGTTTTCTTTCTCTGTTTCCTAATTTCATAGAGTTAAATCAATTTTATTTTTGGGAATTGGATTT
899687 ATTTTATATCATATGAAGGGACTGCGATAAA
66 ATTTTATATCATATGAAGGGACTGCGATAAA
899718 TGTTTTC-TTCTCTGTTTCCTAATTTCATAGAGTTAAATCAATTTTATTTTTGGGAATTGGATTT
1 TGTTTTCTTTCTCTGTTTCCTAATTTCATAGAGTTAAATCAATTTTATTTTTGGGAATTGGATTT
899782 ATTTTATATCATATGAAGGGACTGCGATAAA
66 ATTTTATATCATATGAAGGGACTGCGATAAA
899813 TG
1 TG
899815 AATAAAGTTC
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 90 0.93
96 7 0.07
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (96 bp):
TGTTTTCTTTCTCTGTTTCCTAATTTCATAGAGTTAAATCAATTTTATTTTTGGGAATTGGATTT
ATTTTATATCATATGAAGGGACTGCGATAAA
Found at i:905577 original size:30 final size:30
Alignment explanation
Indices: 905519--905577 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
905509 CCCCAATCAT
* * *
905519 TTTTTTATGGTTAATTATATTTCCCCCTTA
1 TTTTATATGATTAATTATATTTCACCCTTA
*
905549 TTTTATATGATTAATTATATTTTACCCTT
1 TTTTATATGATTAATTATATTTCACCCTT
905578 TTGAATTAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.14, G:0.05, T:0.58
Consensus pattern (30 bp):
TTTTATATGATTAATTATATTTCACCCTTA
Found at i:906017 original size:2 final size:2
Alignment explanation
Indices: 906010--906043 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
906000 TTAACTTTTA
*
906010 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
906044 CTTAACTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:906067 original size:17 final size:18
Alignment explanation
Indices: 906040--906075 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
906030 ATATATATAA
906040 ATATCTTAACTTAAAAAT
1 ATATCTTAACTTAAAAAT
*
906058 ATAT-TTAACTTAAGAAT
1 ATATCTTAACTTAAAAAT
906075 A
1 A
906076 AAATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (18 bp):
ATATCTTAACTTAAAAAT
Found at i:906078 original size:22 final size:23
Alignment explanation
Indices: 906053--906095 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
906043 TCTTAACTTA
906053 AAAATATA-TTTAACTTAAGAAT
1 AAAATATATTTTAACTTAAGAAT
*
906075 AAAATATATTTTAAGTTAAGA
1 AAAATATATTTTAACTTAAGA
906096 TGTTCTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (23 bp):
AAAATATATTTTAACTTAAGAAT
Found at i:906226 original size:25 final size:27
Alignment explanation
Indices: 906172--906223 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
906162 ATATATATAT
*
906172 ATATATTTATATTAATATAAGAATAAA
1 ATATATTTATATAAATATAAGAATAAA
906199 ATATATTTA-ATAAAT-TAAG-ATAAA
1 ATATATTTATATAAATATAAGAATAAA
906223 A
1 A
906224 ATAAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 6 0.25
25 4 0.17
26 5 0.21
27 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (27 bp):
ATATATTTATATAAATATAAGAATAAA
Found at i:906227 original size:30 final size:30
Alignment explanation
Indices: 906111--906236 Score: 105
Period size: 30 Copynumber: 4.1 Consensus size: 30
906101 TAAAAACATT
906111 TTTAA-AAAGTTAAGATAAAAATAAAATATA
1 TTTAATAAA-TTAAGATAAAAATAAAATATA
* * *
906141 CTTT--TAAATGAATATAAATGAATATATATATA
1 -TTTAATAAATTAAGATAAA--AATA-AAATATA
* * * * *
906173 TATATTTATATTAATATAAGAATAAAATATA
1 TTTA-ATAAATTAAGATAAAAATAAAATATA
906204 TTTAATAAATTAAGATAAAAATAAAATATA
1 TTTAATAAATTAAGATAAAAATAAAATATA
906234 TTT
1 TTT
906237 TTAAAAGTTA
Statistics
Matches: 75, Mismatches: 13, Indels: 15
0.73 0.13 0.15
Matches are distributed among these distances:
29 8 0.11
30 28 0.37
31 18 0.24
32 10 0.13
34 11 0.15
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (30 bp):
TTTAATAAATTAAGATAAAAATAAAATATA
Found at i:906252 original size:26 final size:28
Alignment explanation
Indices: 906172--906261 Score: 80
Period size: 30 Copynumber: 3.2 Consensus size: 28
906162 ATATATATAT
* *
906172 ATATATTTAT-ATTAATATAAGAATAAA
1 ATATATTTATAAATAAGATAAGAATAAA
*
906199 ATATATTTAATAAATTAAGATAAAAATAAA
1 ATATATTT-ATAAA-TAAGATAAGAATAAA
* *
906229 ATATATTT-TTAA-AAGTTAAGAATATAA
1 ATATATTTATAAATAAGATAAGAATA-AA
906256 A-ATATT
1 ATATATT
906262 ACGAATTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
26 15 0.28
27 11 0.21
28 5 0.09
29 1 0.02
30 21 0.40
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (28 bp):
ATATATTTATAAATAAGATAAGAATAAA
Found at i:906857 original size:138 final size:137
Alignment explanation
Indices: 906579--906858 Score: 533
Period size: 138 Copynumber: 2.0 Consensus size: 137
906569 CTAATTGATT
906579 AAATCAATGGTCAAAATAAAATCTGACAATAGTTAAGTGGTCATCAGTGTACTTTACCTATAATA
1 AAATCAATGGTCAAAATAAAATCTGACAATAGTTAAGTGGTCATCAGTGTACTTTACCTATAATA
906644 TAATTTGACCACTAGTTTATGACCAATCTCAATAGAAAAAAATTGAATATGTGCGATCACTAGTA
66 TAATTTGACCACTAGTTTATGACCAATCTCAATAGAAAAAAATTGAATATGTGCGATCACTAGTA
906709 GATTAAAA
131 GATT-AAA
906717 AAATCAATGGTCAAAATAAAATCTGACAATAGTTAAGTGGTCATCAGTGTACTTTACCTATAATA
1 AAATCAATGGTCAAAATAAAATCTGACAATAGTTAAGTGGTCATCAGTGTACTTTACCTATAATA
906782 TAATTTGACCACTAGTTTATGACCAATCTCAATAGAAAAAATATTGAATATGTGCGATCAACTAG
66 TAATTTGACCACTAGTTTATGACCAATCTCAATAGAAAAAA-ATTGAATATGTGCGATC-ACTAG
906847 TAGATTAAA
129 TAGATTAAA
906856 AAA
1 AAA
906859 AAAGAAAGAG
Statistics
Matches: 140, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
138 106 0.76
139 23 0.16
140 11 0.08
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (137 bp):
AAATCAATGGTCAAAATAAAATCTGACAATAGTTAAGTGGTCATCAGTGTACTTTACCTATAATA
TAATTTGACCACTAGTTTATGACCAATCTCAATAGAAAAAAATTGAATATGTGCGATCACTAGTA
GATTAAA
Found at i:907880 original size:37 final size:37
Alignment explanation
Indices: 907810--907882 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
907800 TTTTTTAATT
* ** *
907810 AGGTCCTTATTTTATGTCAGATTGAGTCGGATTTATC
1 AGGTCCTTATTTTATGCCAGATCAAGTCAGATTTATC
*
907847 AGGTCCTTATTTTATGCCGGATCAAGTCAGATTTAT
1 AGGTCCTTATTTTATGCCAGATCAAGTCAGATTTAT
907883 ACTCCAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (37 bp):
AGGTCCTTATTTTATGCCAGATCAAGTCAGATTTATC
Found at i:913222 original size:84 final size:84
Alignment explanation
Indices: 913040--913254 Score: 195
Period size: 84 Copynumber: 2.6 Consensus size: 84
913030 TACGTCACGG
* * **
913040 GTAAACTATAGATAAGCGTGTGTAAATCATGTGCTGCATGTGTGGATTATTTCCATATTTATTTT
1 GTAAACTATAGATAAACGTATGTAAATCATGTGCTGCATGTGTAAATTATTTCCATATTTATTTT
* **
913105 GATTTGAATTTTATTATAT
66 GACTTGAATTTTACCATAT
* ** * * *
913124 GTAAATTAGGGATAAACGTATGTAAATTATGTG-TGTCGTGTGTAAATTATTTCTATATTTATTT
1 GTAAACTATAGATAAACGTATGTAAATCATGTGCTG-CATGTGTAAATTATTTCCATATTTATTT
* *
913188 T-AGCTT-AAGTTTTACCGTGT
65 TGA-CTTGAA-TTTTACCATAT
** * *
913208 GTAAACTATAGATAAATATATGTAAATCACGTG-TAGTATGTGTAAAT
1 GTAAACTATAGATAAACGTATGTAAATCATGTGCT-GCATGTGTAAAT
913255 CATACGTGGA
Statistics
Matches: 103, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
83 5 0.05
84 97 0.94
85 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (84 bp):
GTAAACTATAGATAAACGTATGTAAATCATGTGCTGCATGTGTAAATTATTTCCATATTTATTTT
GACTTGAATTTTACCATAT
Found at i:915872 original size:42 final size:42
Alignment explanation
Indices: 915809--915974 Score: 178
Period size: 42 Copynumber: 4.0 Consensus size: 42
915799 CGCCACTTTT
* *
915809 TCATCGAGTCGATTCTTCACTTCGACAACGAGATCCATCACC
1 TCATCGAGTCGATTCTACACCTCGACAACGAGATCCATCACC
* *
915851 TCATCGAGTCGATTCTCCACTTCGAC-ACTGAGATCCATCACC
1 TCATCGAGTCGATTCTACACCTCGACAAC-GAGATCCATCACC
* * * * *
915893 TTATCAAGCCGATTCTACACCTCGACACCGAGAGCCATCACC
1 TCATCGAGTCGATTCTACACCTCGACAACGAGATCCATCACC
* * * *
915935 TC-T--AGTTGACTCTATACCTCGACACCGAGATCCATCACC
1 TCATCGAGTCGATTCTACACCTCGACAACGAGATCCATCACC
915974 T
1 T
915975 ATTCCATCAC
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.30
41 3 0.03
42 72 0.67
43 1 0.01
ACGTcount: A:0.26, C:0.36, G:0.14, T:0.25
Consensus pattern (42 bp):
TCATCGAGTCGATTCTACACCTCGACAACGAGATCCATCACC
Found at i:916100 original size:21 final size:21
Alignment explanation
Indices: 916074--916235 Score: 150
Period size: 21 Copynumber: 7.7 Consensus size: 21
916064 ACCTCCATGG
*
916074 GATGAGTTAGGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
*
916095 GATGAGGTCA-GTTCTTTACGT
1 GATGAGGT-AGGTGCTTTACGT
*
916116 GATGAGGTCGGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
** * **
916137 GATGA-CAATGGTGCATGGCGT
1 GATGAGGTA-GGTGCTTTACGT
* *
916158 GATGAGGTAGCTGTTTTACGT
1 GATGAGGTAGGTGCTTTACGT
**
916179 GATGA-CAATGGTGCTTTACGT
1 GATGAGGTA-GGTGCTTTACGT
* *
916200 GGTGAGGTAGCTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
916221 GATGAGGTAGGTGCT
1 GATGAGGTAGGTGCT
916236 ATCGTTGTAG
Statistics
Matches: 108, Mismatches: 27, Indels: 12
0.73 0.18 0.08
Matches are distributed among these distances:
20 1 0.01
21 104 0.96
22 3 0.03
ACGTcount: A:0.19, C:0.12, G:0.35, T:0.33
Consensus pattern (21 bp):
GATGAGGTAGGTGCTTTACGT
Found at i:916235 original size:42 final size:42
Alignment explanation
Indices: 916108--916225 Score: 173
Period size: 42 Copynumber: 2.8 Consensus size: 42
916098 GAGGTCAGTT
* *
916108 CTTTACGTGATGAGGTCGGTGCTTTACGTGATGACAATGGTG
1 CTTTACGTGATGAGGTAGCTGCTTTACGTGATGACAATGGTG
* ** *
916150 CATGGCGTGATGAGGTAGCTGTTTTACGTGATGACAATGGTG
1 CTTTACGTGATGAGGTAGCTGCTTTACGTGATGACAATGGTG
*
916192 CTTTACGTGGTGAGGTAGCTGCTTTACGTGATGA
1 CTTTACGTGATGAGGTAGCTGCTTTACGTGATGA
916226 GGTAGGTGCT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.19, C:0.14, G:0.34, T:0.33
Consensus pattern (42 bp):
CTTTACGTGATGAGGTAGCTGCTTTACGTGATGACAATGGTG
Found at i:916536 original size:21 final size:21
Alignment explanation
Indices: 916510--916613 Score: 118
Period size: 21 Copynumber: 5.0 Consensus size: 21
916500 GAATAAGCTT
* *
916510 GATCCACCTACCATTGTTCAG
1 GATCCACCTCCCATCGTTCAG
*
916531 GATCCACCTCCCATTGTTCAG
1 GATCCACCTCCCATCGTTCAG
* * * *
916552 TATTCACCTCTCATCGTTCAA
1 GATCCACCTCCCATCGTTCAG
** *
916573 GAGGCTCCTCCCATCGTTCAG
1 GATCCACCTCCCATCGTTCAG
916594 GATCCACCTCCCATCGTTCA
1 GATCCACCTCCCATCGTTCA
916614 ATGTGGGTAT
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 68 1.00
ACGTcount: A:0.20, C:0.38, G:0.13, T:0.29
Consensus pattern (21 bp):
GATCCACCTCCCATCGTTCAG
Found at i:916875 original size:12 final size:12
Alignment explanation
Indices: 916854--916887 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
916844 AGTTGTGGAT
*
916854 TTTGAGATTGTG
1 TTTGATATTGTG
916866 TTTGATATTGTG
1 TTTGATATTGTG
*
916878 TTTGGTATTG
1 TTTGATATTG
916888 AAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:917404 original size:16 final size:15
Alignment explanation
Indices: 917382--917420 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
917372 GAAATCATTG
917382 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
917398 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
917413 AAAAATTA
1 AAAAATTA
917421 GAGATGGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:917610 original size:21 final size:20
Alignment explanation
Indices: 917586--917807 Score: 112
Period size: 21 Copynumber: 10.9 Consensus size: 20
917576 TGTGAAATTA
917586 AAATTCGTGTTGCGAATTTAG
1 AAATTCGTGTTGCGAATTT-G
***
917607 AAA-TCGTGTTGCGAAAAAG
1 AAATTCGTGTTGCGAATTTG
*
917626 AAATTCGTGTTGCGAAATTGTC
1 AAATTCGTGTTGCG-AATT-TG
* *
917648 AAAATCGAGTTGCGAATTTG
1 AAATTCGTGTTGCGAATTTG
* * **
917668 -ACTTATGTGTTGCGAATTCC
1 AAATT-CGTGTTGCGAATTTG
* *
917688 AAATTCTGTGTTACGAATTTC
1 AAATTC-GTGTTGCGAATTTG
* * *
917709 AAATTCTGTATTACGAATTTC
1 AAATTC-GTGTTGCGAATTTG
* *
917730 AAATTATGTGTTACGAATTTGG
1 AAATT-CGTGTTGCGAATTT-G
*
917752 AAACT-GTGTTGCGGAA-TTG
1 AAATTCGTGTTGC-GAATTTG
* * * *
917771 GAGTTTGTGTTACGAATTTG
1 AAATTCGTGTTGCGAATTTG
* *
917791 AAA-TCGCGTTGTGAATT
1 AAATTCGTGTTGCGAATT
917808 CGTTGGTTAT
Statistics
Matches: 154, Mismatches: 36, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
19 22 0.14
20 52 0.34
21 64 0.42
22 16 0.10
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (20 bp):
AAATTCGTGTTGCGAATTTG
Found at i:917615 original size:20 final size:20
Alignment explanation
Indices: 917590--917666 Score: 77
Period size: 20 Copynumber: 3.8 Consensus size: 20
917580 AAATTAAAAT
917590 TCGTGTTGCGAATTTAGAAA
1 TCGTGTTGCGAATTTAGAAA
**
917610 TCGTGTTGCGAA-AAAGAAA
1 TCGTGTTGCGAATTTAGAAA
917629 TTCGTGTTGCGAAATTGTCA-AAA
1 -TCGTGTTGCG-AATT-T-AGAAA
*
917652 TCGAGTTGCGAATTT
1 TCGTGTTGCGAATTT
917667 GACTTATGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
19 5 0.11
20 23 0.49
21 6 0.13
22 9 0.19
23 3 0.06
24 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (20 bp):
TCGTGTTGCGAATTTAGAAA
Found at i:917629 original size:19 final size:20
Alignment explanation
Indices: 917586--917642 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
917576 TGTGAAATTA
**
917586 AAATTCGTGTTGCGAATTTAG
1 AAATTCGTGTTGCGAA-AAAG
917607 AAA-TCGTGTTGCGAAAAAG
1 AAATTCGTGTTGCGAAAAAG
917626 AAATTCGTGTTGCGAAA
1 AAATTCGTGTTGCGAAA
917643 TTGTCAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (20 bp):
AAATTCGTGTTGCGAAAAAG
Found at i:917761 original size:20 final size:20
Alignment explanation
Indices: 917736--917790 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
917726 TTTCAAATTA
917736 TGTGTTACGAATTTGGAAAC
1 TGTGTTACGAATTTGGAAAC
* ***
917756 TGTGTTGCGGAA-TTGGAGTT
1 TGTGTTAC-GAATTTGGAAAC
917776 TGTGTTACGAATTTG
1 TGTGTTACGAATTTG
917791 AAATCGCGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 3 0.11
20 22 0.79
21 3 0.11
ACGTcount: A:0.22, C:0.07, G:0.31, T:0.40
Consensus pattern (20 bp):
TGTGTTACGAATTTGGAAAC
Found at i:919850 original size:2 final size:2
Alignment explanation
Indices: 919843--919878 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
919833 TTTAAAAATA
919843 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
919879 GTATGTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:921552 original size:23 final size:23
Alignment explanation
Indices: 921526--921573 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
921516 ATAAAGTACA
*
921526 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
921549 ATAATGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
921572 AT
1 AT
921574 TTACCTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:921968 original size:20 final size:20
Alignment explanation
Indices: 921943--921981 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
921933 TCAACAGTGA
* *
921943 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
921963 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
921982 CAATAAACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:922010 original size:23 final size:23
Alignment explanation
Indices: 921984--922049 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
921974 ACACTTTACA
921984 ATAAACCACTACCTA-TACATTAT
1 ATAAACCA-TACCTATTACATTAT
*
922007 ATAAACGATACCTATTACATTAT
1 ATAAACCATACCTATTACATTAT
*
922030 ATAAGCGC-TACCTATTACAT
1 ATAAAC-CATACCTATTACAT
922050 ATTTTACCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 6 0.16
23 32 0.84
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.32
Consensus pattern (23 bp):
ATAAACCATACCTATTACATTAT
Found at i:922249 original size:28 final size:29
Alignment explanation
Indices: 922191--922249 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
922181 TCATTTGCAC
* *
922191 AAAAAATTATTTGATTTTTGATATTTTAT
1 AAAAAATTATTAGATTTTTGATATTTAAT
*
922220 AAAATATTATTAGAATTTTT-A-ATTTAAT
1 AAAAAATTATTAG-ATTTTTGATATTTAAT
922248 AA
1 AA
922250 TTAAATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 8 0.31
29 12 0.46
30 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (29 bp):
AAAAAATTATTAGATTTTTGATATTTAAT
Found at i:922249 original size:414 final size:422
Alignment explanation
Indices: 921647--922672 Score: 1830
Period size: 417 Copynumber: 2.4 Consensus size: 422
921637 TTATAATATG
921647 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
921712 TCAATTTTTTGAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTT-AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
921777 -AAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAA-TTAATAA-T-A
130 AAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATTAA
921838 -ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTAAAAC
195 TATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTAAAAC
921902 TCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACAC-TTTATAAA
259 TCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTTTTAT-AA
921966 AAGGATAGACACTTTACAATAAACCACTACCTA-TACATTATATAAACGATACCTATTACATTAT
323 AAGGATAGACACTTTACAAT-AACCACTACCTATTACATTATATAAACGATACCTATTACA-T-T
922030 ATAAGCGCTACCTATT-A-CATA-TTTTACCTA-T-TA
385 ATAAGCGCTACCTATTAATCATATTTTTACCTATTATA
*
922063 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTC-TTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
922127 TCAATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
66 TCAATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
922192 AAAAATTATTTGATT-TTTGATATTTTATAAAATATTA-TTAGAATTTTTAATTTAATAATTAAA
131 AAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATT-AA
922255 TATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTAAAACT
195 TATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTAAAACT
*
922320 CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
260 CACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTTTTATAAAA
922385 GGATAGACACTTTACAATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATAAG
325 GGATAGACACTTTACAATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATAAG
922450 CGCTACCTATTACATCATATTTTTACCTATTATA
390 CGCTACCTATTA-ATCATATTTTTACCTATTATA
*
922484 TTGAAAGTGTCCATACCTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
922549 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAA--TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
922614 CAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
129 CAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
922673 CAACATTAAC
Statistics
Matches: 587, Mismatches: 4, Indels: 28
0.95 0.01 0.05
Matches are distributed among these distances:
413 13 0.02
414 83 0.14
415 66 0.11
416 53 0.09
417 155 0.26
418 23 0.04
419 9 0.02
420 1 0.00
421 41 0.07
422 27 0.05
424 76 0.13
425 22 0.04
426 18 0.03
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (422 bp):
TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
AAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATTAAT
ATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTAAAACTC
ACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTTTTATAAAAG
GATAGACACTTTACAATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATAAGC
GCTACCTATTAATCATATTTTTACCTATTATA
Found at i:922435 original size:23 final size:23
Alignment explanation
Indices: 922409--922469 Score: 81
Period size: 21 Copynumber: 2.7 Consensus size: 23
922399 CAATAACCAC
922409 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
922432 TACCTATTACA-T-TATAAGCGC
1 TACCTATTACATTATATAAACGA
*
922453 TACCTATTACATCATAT
1 TACCTATTACATTATAT
922470 TTTTACCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 18 0.55
22 1 0.03
23 14 0.42
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:922891 original size:46 final size:44
Alignment explanation
Indices: 922841--922927 Score: 147
Period size: 44 Copynumber: 1.9 Consensus size: 44
922831 AGAAAATCCC
922841 AACATGATAACAACTGAACATATCATATCAATGTTCATATCAACTG
1 AACATGATAACAACTGAAC--ATCATATCAATGTTCATATCAACTG
*
922887 AACATGATAACAACTGAACATGATATCAATGTTCATATCAA
1 AACATGATAACAACTGAACATCATATCAATGTTCATATCAA
922928 TGATAAATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 21 0.52
46 19 0.47
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (44 bp):
AACATGATAACAACTGAACATCATATCAATGTTCATATCAACTG
Found at i:922902 original size:16 final size:16
Alignment explanation
Indices: 922881--922911 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
922871 ATGTTCATAT
922881 CAACTGAACATGATAA
1 CAACTGAACATGATAA
922897 CAACTGAACATGATA
1 CAACTGAACATGATA
922912 TCAATGTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (16 bp):
CAACTGAACATGATAA
Found at i:923085 original size:28 final size:26
Alignment explanation
Indices: 923053--923114 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 26
923043 GATAGATACT
*
923053 TTACAATATATTATATAAGCGCTACCTA
1 TTACAATATATTATA-AA-CGATACCTA
923081 TTAC-AT-TA-TATAAACGATACCTA
1 TTACAATATATTATAAACGATACCTA
*
923104 TTACATTATAT
1 TTACAATATAT
923115 ACTTGTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 12 0.41
24 3 0.10
25 6 0.21
26 2 0.07
27 2 0.07
28 4 0.14
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (26 bp):
TTACAATATATTATAAACGATACCTA
Found at i:923092 original size:23 final size:23
Alignment explanation
Indices: 923062--923115 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
923052 TTTACAATAT
* *
923062 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGATACCTATTAC
923085 ATTATATAAACGATACCTATTAC
1 ATTATATAAACGATACCTATTAC
923108 ATTATATA
1 ATTATATA
923116 CTTGTAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.37
Consensus pattern (23 bp):
ATTATATAAACGATACCTATTAC
Found at i:925860 original size:182 final size:182
Alignment explanation
Indices: 925553--926173 Score: 1031
Period size: 182 Copynumber: 3.4 Consensus size: 182
925543 CGACACATTT
*
925553 TAGGTTGTAGACATATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
925618 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
925683 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAGTGTCGATA
* * *
925735 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
925800 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
925865 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAATAGTGTCG-TA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAA-AGTGTCGATA
* * **
925917 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACATGTTATATTAC-AAATTATCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
925981 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTT-AATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
*
926045 TTTCCTTCC-A-A-GGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATA
* * *
926095 TAGGTTGTGTAGACCTATTCGCGCATAAAACC-GTATATTTATACCGGTTATATTGCAAATTTAC
1 TAGG-T-TGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTAT
**
926159 CTATTTTATTATAAT
64 CTATTACATTATAAT
926174 ATGTTGAAAG
Statistics
Matches: 418, Mismatches: 15, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
177 32 0.08
178 10 0.02
179 23 0.06
180 65 0.16
181 57 0.14
182 224 0.54
183 7 0.02
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (182 bp):
TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAGTGTCGATA
Found at i:927085 original size:55 final size:55
Alignment explanation
Indices: 926963--927073 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
926953 CAGTCTCCAC
926963 AACCTATTCAATTGTCAGAACGTTAAGTATTGTCAACTACAGCATTCAATATACG
1 AACCTATTCAATTGTCAGAACGTTAAGTATTGTCAACTACAGCATTCAATATACG
927018 AACCTATTCAATTGTCAGAACGTTAAGTATTGTCAACTACAGCATTCAATATACG
1 AACCTATTCAATTGTCAGAACGTTAAGTATTGTCAACTACAGCATTCAATATACG
927073 A
1 A
927074 CTTTTAACAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.31
Consensus pattern (55 bp):
AACCTATTCAATTGTCAGAACGTTAAGTATTGTCAACTACAGCATTCAATATACG
Found at i:928759 original size:21 final size:21
Alignment explanation
Indices: 928719--928783 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
928709 CCCCTTATGC
* *
928719 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
928740 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
928761 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
928782 CT
1 CT
928784 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:931196 original size:20 final size:19
Alignment explanation
Indices: 931170--931214 Score: 81
Period size: 20 Copynumber: 2.3 Consensus size: 19
931160 CACTTTTAAA
931170 TTTACCGGTTTTATCATTT
1 TTTACCGGTTTTATCATTT
931189 TGTTACCGGTTTTATCATTT
1 T-TTACCGGTTTTATCATTT
931209 TTTACC
1 TTTACC
931215 TGGTATCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.16, C:0.18, G:0.11, T:0.56
Consensus pattern (19 bp):
TTTACCGGTTTTATCATTT
Found at i:932809 original size:3 final size:3
Alignment explanation
Indices: 932801--932830 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
932791 TAGTAACATG
932801 TAT TAT TAT TAT TAT TAT TAT TAT TGAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TA
932831 ATCTAAGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:934528 original size:20 final size:20
Alignment explanation
Indices: 934505--934542 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
934495 CCAACTAGAG
*
934505 ATATTTTAGCCCAAAGTTAA
1 ATATTTTAGACCAAAGTTAA
934525 ATATTTTAGACCAAAGTT
1 ATATTTTAGACCAAAGTT
934543 TCTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (20 bp):
ATATTTTAGACCAAAGTTAA
Found at i:936471 original size:35 final size:35
Alignment explanation
Indices: 936401--936471 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
936391 TACTATAATT
* **
936401 AATTTATATATTTTCTTTAAAAATTTAATTCATAA
1 AATTTATATATTTTCTTTAAAAATTAAAAACATAA
* * *
936436 AATTTATATATTTTTTTTACAAATTAAAAAGATAA
1 AATTTATATATTTTCTTTAAAAATTAAAAACATAA
936471 A
1 A
936472 TAGGTTTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (35 bp):
AATTTATATATTTTCTTTAAAAATTAAAAACATAA
Found at i:938008 original size:2 final size:2
Alignment explanation
Indices: 937997--938026 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
937987 TTTGATGGAA
937997 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
938027 AAAATTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:938917 original size:63 final size:63
Alignment explanation
Indices: 938809--938983 Score: 217
Period size: 63 Copynumber: 2.8 Consensus size: 63
938799 GGCTCAATGT
* * * ** *
938809 AAAGGGTGCGGTAGCTCTTCTCGTGGAGGATGCAGT-GGCGACAACTGGTCTCGGTTATTGTGA
1 AAAGGGTGCGGCAGCTCTTCTTGTGGAGGATGCA-TCGGCGGCAACTGGTCTCGGCCATCGTGA
* * * * *
938872 AAAGTGTGCGGCAGCTCTTCTTGTGGTGGATGCATCGCCGGCAACTGGTCTTGGCCATCGTGC
1 AAAGGGTGCGGCAGCTCTTCTTGTGGAGGATGCATCGGCGGCAACTGGTCTCGGCCATCGTGA
* *
938935 AAAGGGTGCGGCAGCTCTTCTTGTGGAGGATGCAGCGGCGGGAACTGGT
1 AAAGGGTGCGGCAGCTCTTCTTGTGGAGGATGCATCGGCGGCAACTGGT
938984 GAGCAAAGAA
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
62 1 0.01
63 94 0.99
ACGTcount: A:0.17, C:0.21, G:0.37, T:0.25
Consensus pattern (63 bp):
AAAGGGTGCGGCAGCTCTTCTTGTGGAGGATGCATCGGCGGCAACTGGTCTCGGCCATCGTGA
Found at i:941280 original size:18 final size:18
Alignment explanation
Indices: 941257--941537 Score: 301
Period size: 18 Copynumber: 15.6 Consensus size: 18
941247 ACCGGAGAAA
941257 CCGAAAGAACCCGAAAAG
1 CCGAAAGAACCCGAAAAG
* *
941275 CCGAAAGAGCCCGAAAAA
1 CCGAAAGAACCCGAAAAG
* **
941293 CCCAAAGCTCCCGAAAAG
1 CCGAAAGAACCCGAAAAG
* *
941311 CCGAAAGAGCCCGAGAAG
1 CCGAAAGAACCCGAAAAG
* * *
941329 CCCAAAGCACCGGAAAAG
1 CCGAAAGAACCCGAAAAG
*
941347 CCGAAAGAACCCGAGAAG
1 CCGAAAGAACCCGAAAAG
* * *
941365 CCCAAAGCACCGGAAAAG
1 CCGAAAGAACCCGAAAAG
*
941383 CCGAAAGAACCCGAGAAG
1 CCGAAAGAACCCGAAAAG
* * *
941401 CCCAAAGCACCGGAAAAG
1 CCGAAAGAACCCGAAAAG
*
941419 CCGAAAGAACCCGAGAAG
1 CCGAAAGAACCCGAAAAG
* * *
941437 CCCAAAGCACCGGAAAAG
1 CCGAAAGAACCCGAAAAG
*
941455 CCGAAAGAACCCGAGAAG
1 CCGAAAGAACCCGAAAAG
* * *
941473 CCTAAAGAGCCCGAGAAG
1 CCGAAAGAACCCGAAAAG
*
941491 CCGAAAGAACCCGAGAAG
1 CCGAAAGAACCCGAAAAG
*
941509 CCTAAAGAACCCGAAAAG
1 CCGAAAGAACCCGAAAAG
*
941527 CCAAAAGAACC
1 CCGAAAGAACC
941538 AGAGAAACCG
Statistics
Matches: 213, Mismatches: 50, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 213 1.00
ACGTcount: A:0.45, C:0.30, G:0.24, T:0.01
Consensus pattern (18 bp):
CCGAAAGAACCCGAAAAG
Found at i:941306 original size:36 final size:36
Alignment explanation
Indices: 941251--941543 Score: 408
Period size: 36 Copynumber: 8.1 Consensus size: 36
941241 ACCGGCACCG
* * * *
941251 GAGAAACCGAAAGAACCCGAAAAGCCGAAAGAGCCC
1 GAGAAGCCCAAAGCACCCGAAAAGCCGAAAGAACCC
* * * *
941287 GAAAAACCCAAAGCTCCCGAAAAGCCGAAAGAGCCC
1 GAGAAGCCCAAAGCACCCGAAAAGCCGAAAGAACCC
*
941323 GAGAAGCCCAAAGCACCGGAAAAGCCGAAAGAACCC
1 GAGAAGCCCAAAGCACCCGAAAAGCCGAAAGAACCC
*
941359 GAGAAGCCCAAAGCACCGGAAAAGCCGAAAGAACCC
1 GAGAAGCCCAAAGCACCCGAAAAGCCGAAAGAACCC
*
941395 GAGAAGCCCAAAGCACCGGAAAAGCCGAAAGAACCC
1 GAGAAGCCCAAAGCACCCGAAAAGCCGAAAGAACCC
*
941431 GAGAAGCCCAAAGCACCGGAAAAGCCGAAAGAACCC
1 GAGAAGCCCAAAGCACCCGAAAAGCCGAAAGAACCC
* *
941467 GAGAAGCCTAAAG-AGCCCGAGAAGCCGAAAGAACCC
1 GAGAAGCCCAAAGCA-CCCGAAAAGCCGAAAGAACCC
* * * *
941503 GAGAAGCCTAAAGAACCCGAAAAGCCAAAAGAACCA
1 GAGAAGCCCAAAGCACCCGAAAAGCCGAAAGAACCC
941539 GAGAA
1 GAGAA
941544 ACCGGCACCA
Statistics
Matches: 240, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
35 1 0.00
36 238 0.99
37 1 0.00
ACGTcount: A:0.46, C:0.29, G:0.24, T:0.01
Consensus pattern (36 bp):
GAGAAGCCCAAAGCACCCGAAAAGCCGAAAGAACCC
Found at i:942008 original size:40 final size:40
Alignment explanation
Indices: 941953--942033 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
941943 AATAAAGATA
941953 TAAAATAATAAATGAATGGTTTCCACCCACAATTATTTGC
1 TAAAATAATAAATGAATGGTTTCCACCCACAATTATTTGC
941993 TAAAATAATAAATGAATGGTTTCCACCCACAATTATTTGC
1 TAAAATAATAAATGAATGGTTTCCACCCACAATTATTTGC
942033 T
1 T
942034 TTTTCCTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (40 bp):
TAAAATAATAAATGAATGGTTTCCACCCACAATTATTTGC
Found at i:942245 original size:2 final size:2
Alignment explanation
Indices: 942238--942271 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
942228 AATTAATTAA
942238 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
942272 ATTGCTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:945389 original size:18 final size:19
Alignment explanation
Indices: 945354--945390 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
945344 CACGGAATGT
945354 AAGATTACCATTGGGAATAA
1 AAGATTACCA-TGGGAATAA
945374 AAGATTACCA-GGGAATA
1 AAGATTACCATGGGAATA
945391 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.22
Consensus pattern (19 bp):
AAGATTACCATGGGAATAA
Found at i:946085 original size:164 final size:164
Alignment explanation
Indices: 945814--946141 Score: 656
Period size: 164 Copynumber: 2.0 Consensus size: 164
945804 ATCCAAAAAG
945814 CCGGTAATGTTACAATACCTAAGGGAAGGGAGGTAATGACATTCCCGATAATATATCCCAAAAAA
1 CCGGTAATGTTACAATACCTAAGGGAAGGGAGGTAATGACATTCCCGATAATATATCCCAAAAAA
945879 TCTACTATTGACAATAAAATATTACCGGGAATGAGATTCCCGGCTAACCAAACATGGGAATGTGA
66 TCTACTATTGACAATAAAATATTACCGGGAATGAGATTCCCGGCTAACCAAACATGGGAATGTGA
945944 GATTCCCATCCCATGGGAATCACATAATCCTTGA
131 GATTCCCATCCCATGGGAATCACATAATCCTTGA
945978 CCGGTAATGTTACAATACCTAAGGGAAGGGAGGTAATGACATTCCCGATAATATATCCCAAAAAA
1 CCGGTAATGTTACAATACCTAAGGGAAGGGAGGTAATGACATTCCCGATAATATATCCCAAAAAA
946043 TCTACTATTGACAATAAAATATTACCGGGAATGAGATTCCCGGCTAACCAAACATGGGAATGTGA
66 TCTACTATTGACAATAAAATATTACCGGGAATGAGATTCCCGGCTAACCAAACATGGGAATGTGA
946108 GATTCCCATCCCATGGGAATCACATAATCCTTGA
131 GATTCCCATCCCATGGGAATCACATAATCCTTGA
946142 ACCAAACACC
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 164 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (164 bp):
CCGGTAATGTTACAATACCTAAGGGAAGGGAGGTAATGACATTCCCGATAATATATCCCAAAAAA
TCTACTATTGACAATAAAATATTACCGGGAATGAGATTCCCGGCTAACCAAACATGGGAATGTGA
GATTCCCATCCCATGGGAATCACATAATCCTTGA
Found at i:946717 original size:30 final size:29
Alignment explanation
Indices: 946656--946730 Score: 80
Period size: 31 Copynumber: 2.6 Consensus size: 29
946646 TTGAAAAGTA
* * * *
946656 AAATTTG-AAAGTTTGGTGATCAAAGTGT
1 AAATTTGAAAAGTTTAGAGATAAAAATGT
946684 AAATTTGAAAAGTTTAGAGACTAAAAATGT
1 AAATTTGAAAAGTTTAGAGA-TAAAAATGT
*
946714 AAATTTTCAAAAGTTTA
1 AAA-TTTGAAAAGTTTA
946731 TTTTGGGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 7 0.18
29 10 0.26
30 10 0.26
31 12 0.31
ACGTcount: A:0.44, C:0.04, G:0.17, T:0.35
Consensus pattern (29 bp):
AAATTTGAAAAGTTTAGAGATAAAAATGT
Found at i:949279 original size:2 final size:2
Alignment explanation
Indices: 949272--949311 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
949262 GCGTTATGTG
949272 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
949312 GGAACTTGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:950006 original size:31 final size:31
Alignment explanation
Indices: 949905--950012 Score: 99
Period size: 31 Copynumber: 3.5 Consensus size: 31
949895 GATCTACGGA
* * * *
949905 ACATATGGACATAATTACTTATGTCTTTCGGG
1 ACATATGGACA-ATTTACATAGGTTTTTCGGG
* * * ** *
949937 ACATATGGACAATATACATATGTTCTAAGGA
1 ACATATGGACAATTTACATAGGTTTTTCGGG
*
949968 ACATATGGACAATTTACCTAGGTTTTTCGGG
1 ACATATGGACAATTTACATAGGTTTTTCGGG
*
949999 ACCTATGGACAATT
1 ACATATGGACAATT
950013 GTCGAGGTTC
Statistics
Matches: 60, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
31 49 0.82
32 11 0.18
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (31 bp):
ACATATGGACAATTTACATAGGTTTTTCGGG
Found at i:953901 original size:32 final size:32
Alignment explanation
Indices: 953864--953926 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
953854 GGAGCTGAAT
* *
953864 ATTAAGTACATTAATCCAATATAATAACATTA
1 ATTAAGCACATCAATCCAATATAATAACATTA
953896 ATTAAGCACATCAATCCAATATAATAACATT
1 ATTAAGCACATCAATCCAATATAATAACATT
953927 GAAAATTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.32
Consensus pattern (32 bp):
ATTAAGCACATCAATCCAATATAATAACATTA
Found at i:965381 original size:16 final size:16
Alignment explanation
Indices: 965360--965390 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
965350 TCTCTCTCTC
965360 ACACACACACATATAT
1 ACACACACACATATAT
*
965376 ACACACATACATATA
1 ACACACACACATATA
965391 AGATTATTTT
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:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (16 bp):
ACACACACACATATAT
Found at i:969049 original size:41 final size:42
Alignment explanation
Indices: 968955--969069 Score: 214
Period size: 41 Copynumber: 2.8 Consensus size: 42
968945 CTCGAATTTT
*
968955 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTTCC
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCC
968997 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACG-TTTCC
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCC
969038 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
969070 TGTAATTCAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
41 37 0.51
42 35 0.49
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (42 bp):
CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCC
Found at i:969303 original size:22 final size:22
Alignment explanation
Indices: 969278--969358 Score: 65
Period size: 22 Copynumber: 3.5 Consensus size: 22
969268 ATATATTTAT
969278 TAATATTTATAATAATATAATA
1 TAATATTTATAATAATATAATA
* *
969300 TAATATTTTTAATATTATATAAAA
1 TAATATTTATAATA--ATATAATA
* *
969324 TAATCAATTAT-ATTATAATAATA
1 TAAT-ATTTATAATAAT-ATAATA
*
969347 TAAGATATTATA
1 TAATAT-TTATA
969359 TTTTTATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
22 16 0.36
23 12 0.27
24 13 0.29
25 4 0.09
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (22 bp):
TAATATTTATAATAATATAATA
Done.