Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 8 of 253
Found at i:2301867 original size:450 final size:450
Alignment explanation
Indices: 2300644--2302886 Score: 3764
Period size: 450 Copynumber: 5.0 Consensus size: 450
2300634 ATGTAGCCGC
* * * * ** * *
2300644 GGAGGTGGATGTTGTAGCTGAGAAAGACAATGAAAAGAGATATCTTCTCAACAGCGCCAAAGTGA
1 GGAGGTGGATATTGTAGCTGAGAAAGAGAATGAAACGAGCTATCTTCTCAATGGCGCCAACGCGA
* ** * * * *
2300709 GTTGCGC-TAAGGTTGGCTCCGG-ATGCTCGGATGTTGATGTTAATGGAAACGACTCCGTTAATG
66 GTTGC-CTTAAGGTTGGCTTCGGCA-GCTTTGATGTTTATGTTAACGGAAGCGACTCTGTTAATG
* * * * * * * *
2300772 GAGTTGTAGTGGAACCGGATGGCAATTGCGTTGTCGAAGAAGAACACGAAGTGAAATCCGAATCA
129 GAGTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGACCACGAAGTGAAATCCGAATCT
*
2300837 GATTCGGTTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAGCTGAGAAAGAGAATGAAAC
194 GATTCGATTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAGCTGAGAAAGAGAATGAAAC
* *
2300902 GAGATATCTTG-TCAATGGCGCCAACACGAGTAGCGTTAAGGTTGGCTCCGGCAGCACGGATGTT
259 GAGTTATC-TGCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGCTCCGGCAGCACGGATGTT
*
2300966 TATGTTAACGTAAATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCAT
323 TATGTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCAT
* ** *
2301031 TGTCGAAAAAGACCACGAAGTGAAATTGGAATCTGATTCGGTTACTATGACTATGAATCAACA
388 TGTCGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACA
*
2301094 GGAGGTGGATATTGTAGCTGAGAAAGAGAATGAAACGAGATATCTTCTCAATGGCGCCAACGCGA
1 GGAGGTGGATATTGTAGCTGAGAAAGAGAATGAAACGAGCTATCTTCTCAATGGCGCCAACGCGA
* *
2301159 GTTGCGTTAAGGTCGGCTTCGGCAGC-TT--TG---A---T---GGAAGCGACTCTGTTAATGGA
66 GTTGCCTTAAGGTTGGCTTCGGCAGCTTTGATGTTTATGTTAACGGAAGCGACTCTGTTAATGGA
2301212 GTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGACCACGAAGTGAAATCCGAATCTGA
131 GTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGACCACGAAGTGAAATCCGAATCTGA
2301277 TTC-AGTTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAGCTGAGAAAGAGAATGAAACG
196 TTCGA-TTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAGCTGAGAAAGAGAATGAAACG
2301341 AGTTATCTGCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGCTCCGGCAGCACGGATGTTTA
260 AGTTATCTGCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGCTCCGGCAGCACGGATGTTTA
2301406 TGTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTG
325 TGTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTG
2301471 TCGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACA
390 TCGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACA
* *
2301532 GGAGGTGGATATTGTAGCTGAGAAAGAGAATGAAACGAGCTATCTTGTCAATGGCGCGAACGCGA
1 GGAGGTGGATATTGTAGCTGAGAAAGAGAATGAAACGAGCTATCTTCTCAATGGCGCCAACGCGA
*
2301597 GTTGCCTTAAGGTTGGCTTCGGCAGCTTTGATGTTTATGTTAACGTAAGCGACTCTGTTAATGGA
66 GTTGCCTTAAGGTTGGCTTCGGCAGCTTTGATGTTTATGTTAACGGAAGCGACTCTGTTAATGGA
*
2301662 GTTGTAGTGGAATCGGATGACAATTACATTGTCGAAGATGACCACGAAGTGAAATCCGAATCTGA
131 GTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGACCACGAAGTGAAATCCGAATCTGA
* *
2301727 TTCGATTACTATTACTAGGCGTCAGCAGGAGGTGGGTATTGAAGCTGAGAAAGAGAATGAAACGA
196 TTCGATTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAGCTGAGAAAGAGAATGAAACGA
2301792 GTTATCTGCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGCTCCGGCAGCACGGATGTTTAT
261 GTTATCTGCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGCTCCGGCAGCACGGATGTTTAT
2301857 GTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGT
326 GTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGT
2301922 CGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACA
391 CGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACA
* *
2301982 GGAGGTGGATATTGTAGCTGAGAAAGAGAATGAAACGAGCTATCTTGTCAATGGCGCGAACGCGA
1 GGAGGTGGATATTGTAGCTGAGAAAGAGAATGAAACGAGCTATCTTCTCAATGGCGCCAACGCGA
*
2302047 GTTGCCTTAAGGTTGGCTTCGGCAGCTTTGATGTTTATGTTAACGTAAGCGACTCTGTTAATGGA
66 GTTGCCTTAAGGTTGGCTTCGGCAGCTTTGATGTTTATGTTAACGGAAGCGACTCTGTTAATGGA
*
2302112 GTTGTAGTGGAATCGGGTGACAATTGCATTGTCGAAGATGACCACGAAGTGAAATCCGAATCTGA
131 GTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGACCACGAAGTGAAATCCGAATCTGA
* *
2302177 TTCGATTACTATTACTAGGCGTCAGCAGGAGGTGGGTATTGAAGCTGAGAAAGAGAATGAAACGA
196 TTCGATTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAGCTGAGAAAGAGAATGAAACGA
*
2302242 GTTATCTTCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGCTCCGGCAGCACGGATGTTTAT
261 GTTATCTGCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGCTCCGGCAGCACGGATGTTTAT
*
2302307 GTTAACGTAAATGGAAGCGACTCTGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGT
326 GTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGT
2302372 CGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACA
391 CGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACA
* * *
2302432 AGAGGTGGATATTGTAGCTGAGAAAGAGAAAGAAACGAGCTATCTTCTCAATGGCGCCAACGTGA
1 GGAGGTGGATATTGTAGCTGAGAAAGAGAATGAAACGAGCTATCTTCTCAATGGCGCCAACGCGA
*
2302497 GTTGCCTTAAGGTTGGCTTCGGCAGCTTTGATGTTTATGCTAACGGAAGCGACTCTGTTAATGGA
66 GTTGCCTTAAGGTTGGCTTCGGCAGCTTTGATGTTTATGTTAACGGAAGCGACTCTGTTAATGGA
*
2302562 GTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGACCACAAAGTGAAATCCGAATCTGA
131 GTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGACCACGAAGTGAAATCCGAATCTGA
*
2302627 TTC-AGTTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAGCTGAGAAAGAAAATGAAACG
196 TTCGA-TTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAGCTGAGAAAGAGAATGAAACG
* * *
2302691 AGTTATCTTCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGCTCCAGCAGCATGGATGTTTA
260 AGTTATCTGCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGCTCCGGCAGCACGGATGTTTA
*
2302756 TGTTAATGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTG
325 TGTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTG
* * * *
2302821 TCGAAGAAGACCACGAAGTGAAATCAGAATCTGATTCAGTTACTATTAGTATGAATCAGCA
390 TCGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACA
2302882 GGAGG
1 GGAGG
2302887 GGGAGAAACC
Statistics
Matches: 1711, Mismatches: 64, Indels: 36
0.94 0.04 0.02
Matches are distributed among these distances:
437 2 0.00
438 405 0.24
439 2 0.00
441 3 0.00
444 2 0.00
447 3 0.00
449 1 0.00
450 1291 0.75
451 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (450 bp):
GGAGGTGGATATTGTAGCTGAGAAAGAGAATGAAACGAGCTATCTTCTCAATGGCGCCAACGCGA
GTTGCCTTAAGGTTGGCTTCGGCAGCTTTGATGTTTATGTTAACGGAAGCGACTCTGTTAATGGA
GTTGTAGTGGAATCGGGTGACAATTACATTGTCGAAGATGACCACGAAGTGAAATCCGAATCTGA
TTCGATTACTATTACTATGCATCAGCAGGAGGTGGGTATTGAAGCTGAGAAAGAGAATGAAACGA
GTTATCTGCTCAATGGCGCCAACACTAGTAGCGTTAAGGTTGGCTCCGGCAGCACGGATGTTTAT
GTTAACGTAAATGGAAGCGACTCCGTTAATGGAGTTGTAGTGGAATCGGGTGACAATTGCATTGT
CGAAGAAGACCACGAAGTGAAATCCGAATCTGATTCGGTTACTATTACTATGAATCAACA
Found at i:2306502 original size:20 final size:19
Alignment explanation
Indices: 2306479--2306551 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 19
2306469 AATTACAAAA
2306479 AAAAATTCAAAATTATTTT
1 AAAAATTCAAAATTATTTT
* *
2306498 CAAAAATTTAAAATAAATTTT
1 -AAAAATTCAAAAT-TATTTT
2306519 -AAAATTCAAAA-TATTTAT
1 AAAAATTCAAAATTATTT-T
2306537 AAAAATTCCAAAATT
1 AAAAATT-CAAAATT
2306552 TATATTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
17 4 0.09
18 1 0.02
19 16 0.36
20 17 0.39
21 6 0.14
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATTATTTT
Found at i:2306541 original size:19 final size:18
Alignment explanation
Indices: 2306479--2306550 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 18
2306469 AATTACAAAA
2306479 AAAAATTCAAAATTATTTT
1 AAAAATTCAAAA-TATTTT
*
2306498 CAAAAATTTAAAATAAATTTT
1 -AAAAATTCAAAAT--ATTTT
2306519 -AAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTT-T
2306537 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
2306551 TTATATTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
17 4 0.09
18 1 0.02
19 18 0.40
20 17 0.38
21 5 0.11
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATTCAAAATATTTT
Found at i:2306549 original size:27 final size:27
Alignment explanation
Indices: 2306496--2306551 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
2306486 CAAAATTATT
**
2306496 TTCAAAAATTTAAAATAAATTTTAAAA
1 TTCAAAAATTTAAAATAAATTCCAAAA
*
2306523 TTCAAAATATTTATAA-AAATTCCAAAA
1 TTCAAAA-ATTTAAAATAAATTCCAAAA
2306550 TT
1 TT
2306552 TATATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (27 bp):
TTCAAAAATTTAAAATAAATTCCAAAA
Found at i:2306581 original size:26 final size:26
Alignment explanation
Indices: 2306532--2306582 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
2306522 ATTCAAAATA
* **
2306532 TTTATAAAAATTCCAAAATTTATATT
1 TTTAAAAAAATTCCAAAAAATATATT
*
2306558 TTTAAAAAAATTCTAAAAAATATAT
1 TTTAAAAAAATTCCAAAAAATATAT
2306583 AAAGAAAGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (26 bp):
TTTAAAAAAATTCCAAAAAATATATT
Found at i:2308639 original size:18 final size:18
Alignment explanation
Indices: 2308607--2308641 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2308597 GTTCTTATAA
*
2308607 AATAAGTAGTGCACATAT
1 AATAAGTAATGCACATAT
*
2308625 AATAAGTAATTCACATA
1 AATAAGTAATGCACATA
2308642 AACTAGGCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (18 bp):
AATAAGTAATGCACATAT
Found at i:2308707 original size:17 final size:17
Alignment explanation
Indices: 2308685--2308742 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
2308675 TCAAACATTT
2308685 GTTCATATAAAATAACA
1 GTTCATATAAAATAACA
* *
2308702 GTTCATATCAAATGACA
1 GTTCATATAAAATAACA
* ** *
2308719 GCTCATGCAAAATAATA
1 GTTCATATAAAATAACA
2308736 GTTCATA
1 GTTCATA
2308743 CTCTATCATA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (17 bp):
GTTCATATAAAATAACA
Found at i:2309610 original size:42 final size:43
Alignment explanation
Indices: 2309551--2309660 Score: 168
Period size: 43 Copynumber: 2.6 Consensus size: 43
2309541 TTTAGCGACG
* * *
2309551 CTTTTCACGCAAACGCCGCTAAAGA-CATGACTTTTAACGGCA
1 CTTTTCCCACAAACGCCGCTAAAAACCATGACTTTTAACGGCA
* *
2309593 CTTTTTCCACAAACGCCGCTAAAAACCATGACTTTTAACGGCG
1 CTTTTCCCACAAACGCCGCTAAAAACCATGACTTTTAACGGCA
2309636 CTTTTCCCACAAACGCCGCTAAAAA
1 CTTTTCCCACAAACGCCGCTAAAAA
2309661 ATATAAACTT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 21 0.34
43 40 0.66
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.24
Consensus pattern (43 bp):
CTTTTCCCACAAACGCCGCTAAAAACCATGACTTTTAACGGCA
Found at i:2315157 original size:7 final size:7
Alignment explanation
Indices: 2315147--2315181 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
2315137 ATATTTAAGT
2315147 TTTTTAA
1 TTTTTAA
2315154 TTTTTAA
1 TTTTTAA
2315161 TTTTTAA
1 TTTTTAA
2315168 TTTTTAA
1 TTTTTAA
2315175 TTTTTAA
1 TTTTTAA
2315182 AATTTTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:2315577 original size:21 final size:22
Alignment explanation
Indices: 2315551--2315596 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
2315541 TTATAGTGGA
2315551 TAAATATAAATATTT-ATGTATG
1 TAAATATAAATATTTAATG-ATG
2315573 TAATATATAAATATTTAATGATG
1 TAA-ATATAAATATTTAATGATG
2315596 T
1 T
2315597 TATATCAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 3 0.14
23 16 0.73
24 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (22 bp):
TAAATATAAATATTTAATGATG
Found at i:2316188 original size:52 final size:47
Alignment explanation
Indices: 2316105--2316222 Score: 119
Period size: 52 Copynumber: 2.4 Consensus size: 47
2316095 TTTTTTGGGA
* * **
2316105 TTTAGGGTTTTAGGGGTTATAGTTTAATGTTTAGGATTTATAGGGTTAGGGG
1 TTTAGGATTTTAGGGGTTACAAATTAATGTTTAGGATTT-T---GTTA-GGG
* * * *
2316157 TTTAGTATTTTAGGGGTTACAAATTAGTGTTTATGATTTTTTTAGGG
1 TTTAGGATTTTAGGGGTTACAAATTAATGTTTAGGATTTTGTTAGGG
2316204 TTTAGGATTTTAGGGGTTA
1 TTTAGGATTTTAGGGGTTA
2316223 TATGACTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
47 21 0.37
48 3 0.05
51 1 0.02
52 32 0.56
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (47 bp):
TTTAGGATTTTAGGGGTTACAAATTAATGTTTAGGATTTTGTTAGGG
Found at i:2316206 original size:18 final size:18
Alignment explanation
Indices: 2316180--2316214 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2316170 GGGTTACAAA
* *
2316180 TTAGTGTTTATGATTTTT
1 TTAGGGTTTAGGATTTTT
2316198 TTAGGGTTTAGGATTTT
1 TTAGGGTTTAGGATTTT
2316215 AGGGGTTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (18 bp):
TTAGGGTTTAGGATTTTT
Found at i:2316274 original size:41 final size:40
Alignment explanation
Indices: 2316229--2316365 Score: 213
Period size: 41 Copynumber: 3.4 Consensus size: 40
2316219 GTTATATGAC
2316229 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTA-CGAAAGCGCCGCTAATGCTCTGGT
*
2316270 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTTTGGAT
1 TTTTAGCGGCGTTTTAC-GAAAGCGCCGCTAATGCTCTGG-T
2316312 TTTT-GCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTA-CGAAAGCGCCGCTAATGCTCTGGT
*
2316352 TTTTAGCGGTGTTT
1 TTTTAGCGGCGTTT
2316366 CTATTGCTCT
Statistics
Matches: 89, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
40 6 0.07
41 77 0.87
42 6 0.07
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACGAAAGCGCCGCTAATGCTCTGGT
Found at i:2316408 original size:23 final size:24
Alignment explanation
Indices: 2316351--2316417 Score: 91
Period size: 23 Copynumber: 2.7 Consensus size: 24
2316341 AATGCTCTGG
*
2316351 TTTTTAGCGGTGTTTCTATTGCTCTAT
1 TTTTTAGCGGCG-TT-T-TTGCTCTAT
2316378 TTTTTAGCGGCGTTTTTGCTCTA-
1 TTTTTAGCGGCGTTTTTGCTCTAT
2316401 TTTTTAGCGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
2316418 TAGTAAAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 17 0.44
24 8 0.21
25 1 0.03
26 2 0.05
27 11 0.28
ACGTcount: A:0.09, C:0.15, G:0.21, T:0.55
Consensus pattern (24 bp):
TTTTTAGCGGCGTTTTTGCTCTAT
Found at i:2316418 original size:24 final size:25
Alignment explanation
Indices: 2316351--2316418 Score: 95
Period size: 24 Copynumber: 2.7 Consensus size: 25
2316341 AATGCTCTGG
*
2316351 TTTTTAGCGGTGTTTCTATTGCTCTAT
1 TTTTTAGCGGCGTTT-T-TTGCTCTAT
2316378 TTTTTAGCGGCG-TTTTTGCTCTA-
1 TTTTTAGCGGCGTTTTTTGCTCTAT
2316401 TTTTTAGCGGCGTTTTTT
1 TTTTTAGCGGCGTTTTTT
2316419 AGTAAAAACG
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
23 12 0.31
24 13 0.33
25 1 0.03
26 2 0.05
27 11 0.28
ACGTcount: A:0.09, C:0.15, G:0.21, T:0.56
Consensus pattern (25 bp):
TTTTTAGCGGCGTTTTTTGCTCTAT
Found at i:2316487 original size:42 final size:42
Alignment explanation
Indices: 2316401--2316489 Score: 128
Period size: 40 Copynumber: 2.1 Consensus size: 42
2316391 TTTTGCTCTA
*
2316401 TTTTTAGCGGCGTTTTTTAGTAAAAACGTTGCTATTGCCCTG
1 TTTTTAGCGGCGTTTTTTAGTAAAAACGTCGCTATTGCCCTG
* *
2316443 TTTTTAGCGGCG-TTTTTGGT-AAAACGTCGCTATTGCTCTG
1 TTTTTAGCGGCGTTTTTTAGTAAAAACGTCGCTATTGCCCTG
2316483 TGTTTTA
1 T-TTTTA
2316490 CAATTTTTGC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
40 19 0.44
41 12 0.28
42 12 0.28
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.45
Consensus pattern (42 bp):
TTTTTAGCGGCGTTTTTTAGTAAAAACGTCGCTATTGCCCTG
Found at i:2316841 original size:36 final size:36
Alignment explanation
Indices: 2316796--2316878 Score: 125
Period size: 36 Copynumber: 2.4 Consensus size: 36
2316786 CTCACGCATA
* *
2316796 TATATTATATAT-GAA-AAAACCATGCACCCATACT
1 TATATTATATATATAACAAAACCATGCACACATACT
*
2316830 TATATTATATATATAACAAAACCATGCACACATATT
1 TATATTATATATATAACAAAACCATGCACACATACT
2316866 TATATTATATATA
1 TATATTATATATA
2316879 CACCTACTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
34 12 0.27
35 2 0.05
36 30 0.68
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.35
Consensus pattern (36 bp):
TATATTATATATATAACAAAACCATGCACACATACT
Found at i:2317248 original size:19 final size:19
Alignment explanation
Indices: 2317224--2317264 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
2317214 ATATGTTACC
2317224 TTAGCTTGCGTACTAGAAT
1 TTAGCTTGCGTACTAGAAT
2317243 TTAGCTTGCGTACTAGAAT
1 TTAGCTTGCGTACTAGAAT
2317262 TTA
1 TTA
2317265 AATGCAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (19 bp):
TTAGCTTGCGTACTAGAAT
Found at i:2318518 original size:28 final size:29
Alignment explanation
Indices: 2318470--2318526 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
2318460 TTTAGAAGAT
**
2318470 AAGAAGAGAATAGGAAAAAGAA-TTGTAA
1 AAGAAGAGAATAACAAAAAGAATTTGTAA
2318498 AAGAAGAGAA-AACAAAGAAGAATTTGTAA
1 AAGAAGAGAATAACAAA-AAGAATTTGTAA
2318527 TGTTAATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 15 0.60
29 6 0.24
ACGTcount: A:0.61, C:0.02, G:0.23, T:0.14
Consensus pattern (29 bp):
AAGAAGAGAATAACAAAAAGAATTTGTAA
Found at i:2318930 original size:27 final size:27
Alignment explanation
Indices: 2318892--2318947 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
2318882 CGACGGTGAC
2318892 CAATGAAAGTATGCAGGTGAATGCAAG
1 CAATGAAAGTATGCAGGTGAATGCAAG
2318919 CAATGAAAGTATGCAGGTGAATGCAAG
1 CAATGAAAGTATGCAGGTGAATGCAAG
2318946 CA
1 CA
2318948 CTCACGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.18
Consensus pattern (27 bp):
CAATGAAAGTATGCAGGTGAATGCAAG
Found at i:2331568 original size:21 final size:21
Alignment explanation
Indices: 2331542--2331582 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2331532 AGACGAGCGA
* *
2331542 TACTCCACAATAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2331563 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2331583 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2335115 original size:20 final size:19
Alignment explanation
Indices: 2335086--2335125 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
2335076 ATATATCCTG
2335086 ATTTATTTGATTCTAATCA
1 ATTTATTTGATTCTAATCA
*
2335105 ATTTAATTTGATTTTAATCA
1 ATTT-ATTTGATTCTAATCA
2335125 A
1 A
2335126 ATTGATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTTATTTGATTCTAATCA
Found at i:2338432 original size:28 final size:28
Alignment explanation
Indices: 2338369--2338466 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
2338359 ATATTAAGTC
*
2338369 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
2338396 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
2338424 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
2338453 CGCACACTTAGTGC
1 CGCACACTTAGTGC
2338467 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:2346695 original size:28 final size:28
Alignment explanation
Indices: 2346632--2346729 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
2346622 ATATTAAGTC
*
2346632 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
2346659 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
2346687 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
2346716 CGCACACTTAGTGC
1 CGCACACTTAGTGC
2346730 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:2354874 original size:29 final size:27
Alignment explanation
Indices: 2354856--2354925 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
2354846 ATATTAAGTC
2354856 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
2354883 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
2354911 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
2354926 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:2354919 original size:28 final size:28
Alignment explanation
Indices: 2354856--2354953 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
2354846 ATATTAAGTC
*
2354856 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
2354883 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
2354911 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
2354940 CGCACACTTAGTGC
1 CGCACACTTAGTGC
2354954 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:2356873 original size:24 final size:24
Alignment explanation
Indices: 2356841--2356886 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2356831 TCGCTATAGA
*
2356841 TTGAGCATTAGCAGCGTTTTTCGC
1 TTGAGCATTAGCAGCGCTTTTCGC
*
2356865 TTGAGCATTAGCGGCGCTTTTC
1 TTGAGCATTAGCAGCGCTTTTC
2356887 AAAAAGAGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (24 bp):
TTGAGCATTAGCAGCGCTTTTCGC
Found at i:2359955 original size:20 final size:21
Alignment explanation
Indices: 2359930--2359968 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2359920 TCAAACCTTA
2359930 AACCTCAAA-CTTAAATTTTG
1 AACCTCAAATCTTAAATTTTG
*
2359950 AACCTCAAATCTTGAATTT
1 AACCTCAAATCTTAAATTT
2359969 AGGGTTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (21 bp):
AACCTCAAATCTTAAATTTTG
Found at i:2360008 original size:27 final size:27
Alignment explanation
Indices: 2359978--2360029 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
2359968 TAGGGTTCGA
2359978 AGTTCAAGATTCAAGG-TTAAAGTTTTG
1 AGTTCAA-ATTCAAGGTTTAAAGTTTTG
* *
2360005 AGTTCGAATTCGAGGTTTAAAGTTT
1 AGTTCAAATTCAAGGTTTAAAGTTT
2360030 GAGATTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (27 bp):
AGTTCAAATTCAAGGTTTAAAGTTTTG
Found at i:2360117 original size:14 final size:15
Alignment explanation
Indices: 2360087--2360120 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2360077 ATTATGTATC
2360087 AATTATATGAAAAAT
1 AATTATATGAAAAAT
*
2360102 AATTAT-TGAAATAT
1 AATTATATGAAAAAT
2360116 AATTA
1 AATTA
2360121 AATAATTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
AATTATATGAAAAAT
Found at i:2361231 original size:15 final size:15
Alignment explanation
Indices: 2361211--2361242 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2361201 ATAATACACC
2361211 AATTGACAACTAGCT
1 AATTGACAACTAGCT
2361226 AATTGACAACTAGCT
1 AATTGACAACTAGCT
2361241 AA
1 AA
2361243 CCATCACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (15 bp):
AATTGACAACTAGCT
Found at i:2361934 original size:43 final size:42
Alignment explanation
Indices: 2361855--2362064 Score: 208
Period size: 43 Copynumber: 4.9 Consensus size: 42
2361845 AGCTCGTACA
* ** *
2361855 ATGCCATAT-CCCAGATATGGTCTTACATGTTTTCACATACCG
1 ATGCCA-ATGCCCAGACATGGTCTTACATGTAATCACATAACG
* * *
2361897 ATGCCAATAGCCCAG-CTATGGTCTTACAGGAAATCACATAATG
1 ATGCCAAT-GCCCAGAC-ATGGTCTTACATGTAATCACATAACG
* * *
2361940 ATGTCAATGTCCTAGACATGGTCTTACATGTAATCACATAAAG
1 ATGCCAATG-CCCAGACATGGTCTTACATGTAATCACATAACG
* * **
2361983 ATGCCAGTGCCTTAGACATGGTCTTACACATAATCACATAACG
1 ATGCCAATGCC-CAGACATGGTCTTACATGTAATCACATAACG
* *
2362026 ATGCCAATGTCCAAGACATGGTCTTACACGTAATCACAT
1 ATGCCAATG-CCCAGACATGGTCTTACATGTAATCACAT
2362065 CTCGATAATC
Statistics
Matches: 141, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
41 2 0.01
42 9 0.06
43 127 0.90
44 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCAATGCCCAGACATGGTCTTACATGTAATCACATAACG
Found at i:2362018 original size:86 final size:86
Alignment explanation
Indices: 2361871--2362064 Score: 241
Period size: 86 Copynumber: 2.3 Consensus size: 86
2361861 TATCCCAGAT
** ** *
2361871 ATGGTCTTACATGTTTTCACATACCGATGCCAATAGCCCAGCTATGGTCTTACAGGAAATCACAT
1 ATGGTCTTACATGTAATCACATAAAGATGCCAATAGCCCAGCTATGGTCTTACAGCAAATCACAT
* * *
2361936 AATGATGTCAATGTCCTAGAC
66 AACGATGCCAATGTCCAAGAC
* *
2361957 ATGGTCTTACATGTAATCACATAAAGATGCCAGT-GCCTTAGAC-ATGGTCTTACA-CATAATCA
1 ATGGTCTTACATGTAATCACATAAAGATGCCAATAGCC-CAG-CTATGGTCTTACAGCA-AATCA
2362019 CATAACGATGCCAATGTCCAAGAC
63 CATAACGATGCCAATGTCCAAGAC
*
2362043 ATGGTCTTACACGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
2362065 CTCGATAATC
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
85 4 0.04
86 89 0.95
87 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (86 bp):
ATGGTCTTACATGTAATCACATAAAGATGCCAATAGCCCAGCTATGGTCTTACAGCAAATCACAT
AACGATGCCAATGTCCAAGAC
Found at i:2368084 original size:42 final size:43
Alignment explanation
Indices: 2367982--2368136 Score: 240
Period size: 43 Copynumber: 3.6 Consensus size: 43
2367972 GCTGGTATTA
* **
2367982 TATTTGGGCCTTCGTGCCTAGCAGGCTTTATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
2368025 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGT-ATATG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
2368067 TATTCGGGCCTTTGTGCCTAGCAGTCTGCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
2368110 TATTCGGGCCTTCGTGCCTAGCAGGCT
1 TATTCGGGCCTTCGTGCCTAGCAGGCT
2368137 ATGATGCTGG
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 38 0.38
43 63 0.62
ACGTcount: A:0.11, C:0.25, G:0.32, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:2368174 original size:45 final size:45
Alignment explanation
Indices: 2367990--2368206 Score: 130
Period size: 43 Copynumber: 5.0 Consensus size: 45
2367980 TATATTTGGG
* * * *
2367990 CCTTCGTGCCTAGCAGGCT-TTATGCCGGTGATG-T-GTATTCGGG
1 CCTTCGAGCCTAGCAGGCTATAATGCCGGTGA-GATACTATTCGGA
* ** * * *
2368033 CCTTCGTGCCTAGCAGGCT-TCGTGCCGGT-ATAT-GTATTCGGG
1 CCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGA
* * * *** * *
2368075 CCTTTGTGCCTAGCAGTCT-GCGTGCCGGTGATG-T-GTATTCGGG
1 CCTTCGAGCCTAGCAGGCTATAATGCCGGTGA-GATACTATTCGGA
* * *
2368118 CCTTCGTGCCTAGCAGGCTATGATGCTGGTG-GAATACTATTCGGA
1 CCTTCGAGCCTAGCAGGCTATAATGCCGGTGAG-ATACTATTCGGA
* *
2368163 CCTTTGAGCCTAGCATGCTATAATGCCGGTGAGATACTATTCGG
1 CCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGG
2368207 GCTTTCAATA
Statistics
Matches: 146, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
42 38 0.26
43 55 0.38
44 8 0.05
45 44 0.30
46 1 0.01
ACGTcount: A:0.15, C:0.24, G:0.30, T:0.31
Consensus pattern (45 bp):
CCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGA
Found at i:2373547 original size:56 final size:55
Alignment explanation
Indices: 2373424--2373568 Score: 166
Period size: 56 Copynumber: 2.6 Consensus size: 55
2373414 TGCGACATAG
* * **
2373424 CCGTGGGTGAGCCTGCCAAAATAACACGGGCGTGCGACATGCCCGTGCCTTGAAA
1 CCGTGGGTGAACCTGCCAAAATAACACGGGCGTGCGACACGCCCGTGCCAAGAAA
* * * * *
2373479 CCAT-GGTCGAACCTGTCAAATTAACAACGGGTGTGCGACACGCCCGTGCCAAGCAA
1 CCGTGGGT-GAACCTGCCAAAATAAC-ACGGGCGTGCGACACGCCCGTGCCAAGAAA
* *
2373535 CTGTGGGTGAACCTGCCAAAACAACACGGGCGTG
1 CCGTGGGTGAACCTGCCAAAATAACACGGGCGTG
2373569 GACCTTCACA
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
54 3 0.04
55 25 0.35
56 41 0.57
57 3 0.04
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (55 bp):
CCGTGGGTGAACCTGCCAAAATAACACGGGCGTGCGACACGCCCGTGCCAAGAAA
Found at i:2379916 original size:32 final size:32
Alignment explanation
Indices: 2379849--2380060 Score: 253
Period size: 32 Copynumber: 6.6 Consensus size: 32
2379839 CCCGAGGTGC
* * *
2379849 ACATTCCCTTTTCAAATGGTACACATAAAGTGT
1 ACATTTCCTTTTCAAGT-GTACACACAAAGTGT
* *
2379882 ACATTTCCTTTTCAAGTGTACACACAAGGGGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
2379914 ACATTTCCTTTTCAAGTGTACATACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** * * *
2379946 ACAAATCCTTTTCAAGTGTATATACAATGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
* *
2379978 ACGTTTCCTTTTCAAGTGTACACACAAAGTCT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*** *
2380010 ACAAACCCTTTTCAATTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
2380042 ACGTTTCCTTTTCAAGTGT
1 ACATTTCCTTTTCAAGTGT
2380061 CAAACATTCA
Statistics
Matches: 149, Mismatches: 30, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
32 134 0.90
33 15 0.10
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTGT
Found at i:2386968 original size:17 final size:18
Alignment explanation
Indices: 2386916--2387092 Score: 227
Period size: 17 Copynumber: 9.9 Consensus size: 18
2386906 AATCATATCT
*
2386916 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
2386935 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
2386953 TCTAAGATTG-AATCATA
1 TCTAAGATTGCAATCATA
* *
2386970 TCTAAGATTG-TATCACA
1 TCTAAGATTGCAATCATA
2386987 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
2387005 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
2387022 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
2387040 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
**
2387057 TCTAAGATTGCATATCGCA
1 TCTAAGATTGCA-ATCATA
*
2387076 TGTAAGATTGCATATCA
1 TCTAAGATTGCA-ATCA
2387093 ATGAAGATTA
Statistics
Matches: 141, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
17 64 0.45
18 47 0.33
19 30 0.21
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:2386973 original size:35 final size:35
Alignment explanation
Indices: 2386916--2387068 Score: 254
Period size: 35 Copynumber: 4.3 Consensus size: 35
2386906 AATCATATCT
* *
2386916 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATA
*
2386953 TCTAAGATTG-AATCATATCTAAGATTGTATCACA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
2386987 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
2387022 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
2387057 TCTAAGATTGCA
1 TCTAAGATTGCA
2387069 TATCGCATGT
Statistics
Matches: 112, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
34 15 0.13
35 86 0.77
36 1 0.01
37 10 0.09
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:2386995 original size:52 final size:53
Alignment explanation
Indices: 2386916--2387066 Score: 236
Period size: 52 Copynumber: 2.9 Consensus size: 53
2386906 AATCATATCT
2386916 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATATCTAAGATTGAATCATA
* *
2386970 TCTAAGATTG-TATCACATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATATCTAAGATTGAATCATA
*
2387022 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATATCTAAGATTG
2387067 CATATCGCAT
Statistics
Matches: 91, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
52 66 0.73
53 15 0.16
54 10 0.11
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (53 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATATCTAAGATTGAATCATA
Found at i:2387101 original size:17 final size:19
Alignment explanation
Indices: 2387059--2387101 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
2387049 GTATCATATC
*
2387059 TAAGATTGCATATCGCATG
1 TAAGATTGCATATCGAATG
2387078 TAAGATTGCATATC-AATG
1 TAAGATTGCATATCGAATG
2387096 -AAGATT
1 TAAGATT
2387102 ATATTTCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 3 0.13
19 14 0.61
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (19 bp):
TAAGATTGCATATCGAATG
Found at i:2387512 original size:26 final size:26
Alignment explanation
Indices: 2387483--2387590 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
2387473 TGGTACAAAT
2387483 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
2387509 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2387535 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2387561 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2387587 TGAT
1 TGAT
2387591 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:2389105 original size:26 final size:26
Alignment explanation
Indices: 2389076--2389128 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
2389066 TTTACAGTTT
2389076 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
2389102 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
2389128 T
1 T
2389129 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:2390932 original size:207 final size:207
Alignment explanation
Indices: 2390511--2391509 Score: 1655
Period size: 207 Copynumber: 4.8 Consensus size: 207
2390501 AAATCTACTT
* * * *
2390511 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * *
2390576 GCGAAAGCCAAATCAGC--TGTCTTCGATTTGCTCCTTGTAAGCACAATGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * ** * *
2390639 GGATC-CGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
2390703 GGAGATGCCAAA
196 GGAGATGCCAAA
2390715 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
2390780 GTGAAAGCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
2390845 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTACCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
2390910 GGAGATGCCAAA
196 GGAGATGCCAAA
*
2390922 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
2390987 GTGAAAGCCAAATAAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATATT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
2391052 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAA
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
2391117 GGAGATGCCAAA
196 GGAGATGCCAAA
2391129 C-TCTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACA
1 CTTC-GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACA
* * *
2391193 CGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCATAAGGATGCCAAACTATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
* *
2391258 TGGATCTTGCTTCAGTAGAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCTGTCGAATA
130 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATA
*
2391323 TAGAGATGCCAAA
195 TGGAGATGCCAAA
* * *
2391336 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
2391401 GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
2391466 GGATCTTACTTCAGTATAAACATCTGAAGGCTAGATCTGCTATG
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATG
2391510 CTTTAACCTG
Statistics
Matches: 746, Mismatches: 44, Indels: 7
0.94 0.06 0.01
Matches are distributed among these distances:
204 76 0.10
206 49 0.07
207 619 0.83
208 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGATGCCAAA
Found at i:2391613 original size:84 final size:83
Alignment explanation
Indices: 2391515--2391803 Score: 404
Period size: 84 Copynumber: 3.4 Consensus size: 83
2391505 CTATGCTTTA
* *
2391515 ACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTGCTCCACTACTTCTTAGGGA
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTAGGGA
*
2391580 GATAAGATCCGTAATTTT
66 GATAAGATCTGTAATTTT
*
2391598 GACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTT-GATCTGTTCCACTACTGCTT
1 -ACCTGTTACCCTACTGCTTAGGGGATTAAGGC--G-CATC-TTCGATCTGCTCCACTACTGCTT
2391662 AGGGAGATAAGATCTGTAATTTT
61 AGGGAGATAAGATCTGTAATTTT
*
2391685 AGCCTGTTACCCTACTGCTTAGAGGG-TTAAGGCG-AGTCTTCGATCTGCTCCATTACTGCTTAG
1 A-CCTGTTACCCTACTGCTTAG-GGGATTAAGGCGCA-TCTTCGATCTGCTCCACTACTGCTTAG
* * *
2391748 AGAGATAAGATCTGCAAATTTA
63 GGAGATAAGATCTG-TAATTTT
2391770 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
2391804 TGAATTTTGT
Statistics
Matches: 185, Mismatches: 9, Indels: 21
0.86 0.04 0.10
Matches are distributed among these distances:
83 6 0.03
84 94 0.51
85 7 0.04
86 2 0.01
87 71 0.38
88 5 0.03
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (83 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTAGGGA
GATAAGATCTGTAATTTT
Found at i:2391657 original size:44 final size:41
Alignment explanation
Indices: 2391517--2391802 Score: 130
Period size: 43 Copynumber: 6.8 Consensus size: 41
2391507 ATGCTTTAAC
*
2391517 CTGTTACCCTACTGCTTAGGGGGTTAAGGCG-CATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGATTAAGGCGTCATCTT-GAT
* * * * * *
2391558 CTGCT-CCACTACTTCTTAGGGAGA-TAAGATCCGTAATTTTGAC
1 CTGTTACC-CTACTGCTTAGGG-GATTAAG--GCGTCATCTTGAT
2391601 CTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTTGAT
1 CTGTTACCCTACTGCTTAGGGGATTAAGGC--GTCATC-TTGAT
* * * *
2391645 CTGTT-CCACTACTGCTTAGGGAGA-TAAGATCTGTAAT-TTTAGC
1 CTGTTACC-CTACTGCTTAGGG-GATTAAG-GC-GTCATCTTGA-T
2391688 CTGTTACCCTACTGCTTAGAGGG-TTAAGGCG--AGTCTTCGAT
1 CTGTTACCCTACTGCTTAG-GGGATTAAGGCGTCA-TCTT-GAT
* * * * * *
2391729 CTGCT-CCATTACTGCTTAGAGAGA-TAAGATC-TGCAAAT-TTAAC
1 CTGTTACC-CTACTGCTTAG-GGGATTAAG-GCGT-C--ATCTTGAT
2391772 CTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 CTGTTACCCTACTGCTTAGGGGATTAAGGCG
2391803 CTGAATTTTG
Statistics
Matches: 183, Mismatches: 31, Indels: 60
0.67 0.11 0.22
Matches are distributed among these distances:
39 1 0.01
40 5 0.03
41 45 0.25
42 13 0.07
43 70 0.38
44 44 0.24
45 4 0.02
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (41 bp):
CTGTTACCCTACTGCTTAGGGGATTAAGGCGTCATCTTGAT
Found at i:2391703 original size:43 final size:43
Alignment explanation
Indices: 2391566--2391792 Score: 157
Period size: 43 Copynumber: 5.3 Consensus size: 43
2391556 ATCTGCTCCA
* *
2391566 CTACTTCTTAGGGAGATAAGATCCGTAATTTTGACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTGTTACC
* * * * *
2391609 CTACTGCTTAGGG-GATTAAG-GCGAGTCATCGTTGATCTGTT-CC
1 CTACTGCTTAGGGAGA-TAAGATC-TGTAAT-TTTGACCTGTTACC
2391652 ACTACTGCTTAGGGAGATAAGATCTGTAATTTT-AGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTGA-CCTGTTACC
* * * * * *
2391696 CTACTGCTTAGAGG-GTTAAG-GC-G-AGTCTTCGATCTGCT-CC
1 CTACTGCTTAG-GGAGATAAGATCTGTAAT-TTTGACCTGTTACC
* * * * *
2391736 ATTACTGCTTAGAGAGATAAGATCTGCAAATTTAACCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTGTTACC
2391780 CTACTGCTTAGGG
1 CTACTGCTTAGGG
2391793 GATTAAGGCG
Statistics
Matches: 138, Mismatches: 29, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
40 5 0.04
41 22 0.16
42 7 0.05
43 64 0.46
44 37 0.27
45 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTGTTACC
Found at i:2392796 original size:20 final size:19
Alignment explanation
Indices: 2392753--2392800 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
2392743 CCTCTCCATT
*
2392753 TTTTCTTTTTATTTTTCTCT
1 TTTTC-TTTTATTTTTCTCC
*
2392773 TTTTCTTTTATTTTTTTACC
1 TTTTCTTTTATTTTTCT-CC
2392793 TTTT-TTTT
1 TTTTCTTTT
2392801 GAAATAGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTCTTTTATTTTTCTCC
Found at i:2398644 original size:26 final size:26
Alignment explanation
Indices: 2398615--2398670 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
2398605 TGATACAAAT
2398615 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2398641 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2398667 TGAT
1 TGAT
2398671 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:2400184 original size:26 final size:26
Alignment explanation
Indices: 2400155--2400207 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
2400145 TTTACAGTTT
2400155 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
2400181 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
2400207 T
1 T
2400208 GCATGTTGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:2415446 original size:32 final size:32
Alignment explanation
Indices: 2415379--2415589 Score: 246
Period size: 32 Copynumber: 6.6 Consensus size: 32
2415369 CCCGAGGTGC
* * *
2415379 ACATTCCCTTTTCAAATGGTACACATAAAGTGT
1 ACATTTCCTTTTCAAGT-GTACACACAAAGTGT
* *
2415412 ACATTTCCTTTTCAAGTGTACATA-AAAGGGGT
1 ACATTTCCTTTTCAAGTGTACACACAAA-GTGT
2415444 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** * * *
2415476 ACAAATCCTTTTCAAGTGTATATACAATGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
* * *
2415508 ACGTTTCCTTTTCAAGTTTACACACAAAGTCT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
**
2415540 ACAAATCCTTTTCAAGTGTACACACAAAGT-T
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
2415571 ACGTTTCCTTTTCAAGTGT
1 ACATTTCCTTTTCAAGTGT
2415590 CACCCTTTCG
Statistics
Matches: 150, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
31 20 0.13
32 112 0.75
33 18 0.12
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTGT
Found at i:2416739 original size:13 final size:13
Alignment explanation
Indices: 2416721--2416745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2416711 TACATAATCA
2416721 ATAAAAATTTTCC
1 ATAAAAATTTTCC
2416734 ATAAAAATTTTC
1 ATAAAAATTTTC
2416746 ATGCAATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAAAAATTTTCC
Found at i:2424296 original size:18 final size:18
Alignment explanation
Indices: 2424254--2424297 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2424244 CACATTTTGG
* *
2424254 CAAATTAATACAATTTGC
1 CAAATTAATACAAATTAC
* *
2424272 CATATTAATACAAATTAT
1 CAAATTAATACAAATTAC
2424290 CAAATTAA
1 CAAATTAA
2424298 CATAGTTCAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (18 bp):
CAAATTAATACAAATTAC
Found at i:2424664 original size:34 final size:36
Alignment explanation
Indices: 2424621--2424703 Score: 116
Period size: 36 Copynumber: 2.4 Consensus size: 36
2424611 CTCACGCATA
* *
2424621 TATATTATATAT-GAA-AAAACCGTGCACCCATATT
1 TATATTATATATAGAACAAAACCATGCACACATATT
*
2424655 TATATTATATATATAACAAAACCATGCACACATATT
1 TATATTATATATAGAACAAAACCATGCACACATATT
*
2424691 GATATTATATATA
1 TATATTATATATA
2424704 CACCTACTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 12 0.28
35 2 0.05
36 29 0.67
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (36 bp):
TATATTATATATAGAACAAAACCATGCACACATATT
Found at i:2426740 original size:27 final size:27
Alignment explanation
Indices: 2426702--2426757 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
2426692 CGACGGTGAC
2426702 CAATGAAAGTATGCAGGTGAATGCAAG
1 CAATGAAAGTATGCAGGTGAATGCAAG
2426729 CAATGAAAGTATGCAGGTGAATGCAAG
1 CAATGAAAGTATGCAGGTGAATGCAAG
2426756 CA
1 CA
2426758 CTCACGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.18
Consensus pattern (27 bp):
CAATGAAAGTATGCAGGTGAATGCAAG
Found at i:2430793 original size:20 final size:21
Alignment explanation
Indices: 2430768--2430809 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
2430758 ACTTCAAACC
2430768 TTAAACCTCAAA-CTTGAATT
1 TTAAACCTCAAATCTTGAATT
*
2430788 TTAAACCTCAAATCTTTAATT
1 TTAAACCTCAAATCTTGAATT
2430809 T
1 T
2430810 AGGGTTCGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.40
Consensus pattern (21 bp):
TTAAACCTCAAATCTTGAATT
Found at i:2432522 original size:43 final size:43
Alignment explanation
Indices: 2432435--2432644 Score: 221
Period size: 43 Copynumber: 4.9 Consensus size: 43
2432425 AGCTCGTACA
* * * * ** * *
2432435 ATGCC-ATATCCCAGATATGGACTTACATGTTTTCATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAACG
* *
2432477 ATGCCAATAG-CCCAG-CTATGGTCTTACAAGAAATCACATAACG
1 ATGCCAAT-GTCCCAGAC-ATGGTCTTACACGTAATCACATAACG
* * * *
2432520 ATGTCAATGTCCTAGACATGGTTTTACATGTAATCACATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAACG
*
2432563 ATGCCAGTG-CCTCAGACATGGTCTTACACGTAATCACATAACG
1 ATGCCAATGTCC-CAGACATGGTCTTACACGTAATCACATAACG
*
2432606 ATGCCAATGTCCAAGACATGGTCTTACACGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
2432645 CTCGATAATC
Statistics
Matches: 140, Mismatches: 21, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
42 8 0.06
43 129 0.92
44 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAACG
Found at i:2435641 original size:30 final size:30
Alignment explanation
Indices: 2435591--2435661 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
2435581 ATGCTAATGG
* *
2435591 GTGACTAGTTTGTCACTTTTCGATAACTT-A
1 GTGACTATTTTGTCACTTTTC-AAAACTTAA
* * *
2435621 GTGACTATTTTGTTATTTTTCAAAAGTTAA
1 GTGACTATTTTGTCACTTTTCAAAACTTAA
2435651 GTGACTATTTT
1 GTGACTATTTT
2435662 TTCAACTATC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 5 0.14
30 30 0.86
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.48
Consensus pattern (30 bp):
GTGACTATTTTGTCACTTTTCAAAACTTAA
Found at i:2436874 original size:14 final size:15
Alignment explanation
Indices: 2436855--2436884 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2436845 ATATTTGAAT
2436855 TGTTCTTAATT-ATG
1 TGTTCTTAATTCATG
2436869 TGTTCTTAATTCATG
1 TGTTCTTAATTCATG
2436884 T
1 T
2436885 TTTGATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (15 bp):
TGTTCTTAATTCATG
Found at i:2444513 original size:26 final size:26
Alignment explanation
Indices: 2444466--2444515 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
2444456 GGGTAGACAC
*
2444466 ACGGGCATGTGCCTAAGTCGTGTGTG
1 ACGGGCATGTGCCTAAGCCGTGTGTG
**
2444492 ACGGGCATGTGCCTTGGCCGTGTG
1 ACGGGCATGTGCCTAAGCCGTGTG
2444516 ACCCTATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.12, C:0.22, G:0.40, T:0.26
Consensus pattern (26 bp):
ACGGGCATGTGCCTAAGCCGTGTGTG
Found at i:2447008 original size:32 final size:32
Alignment explanation
Indices: 2446949--2447224 Score: 372
Period size: 32 Copynumber: 8.6 Consensus size: 32
2446939 CCCGAGGTGC
* *
2446949 ACATTCCCTTTTCAAATGGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGT-GTACACACAAAGTGT
* *
2446982 ACATTTCCTTTTCAAGTGTACACACAAGGGGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
* *
2447014 ACATTTCTTTTTCAAGTGTACATACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
**
2447046 ACAAATCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
**
2447078 ACAAATCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** * *
2447110 ACAAATCCTTTTCAAGTGAACATACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
2447142 ACATTTCCTTTCCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
**
2447174 ACAAATCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
* *
2447206 ACGTTTCCATTTCAAGTGT
1 ACATTTCCTTTTCAAGTGT
2447225 CACCCTTTCG
Statistics
Matches: 217, Mismatches: 26, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
32 202 0.93
33 15 0.07
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTGT
Found at i:2447064 original size:19 final size:19
Alignment explanation
Indices: 2447040--2447099 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
2447030 TGTACATACA
2447040 AAGTGTACAAATCCTTTTC
1 AAGTGTACAAATCCTTTTC
* *
2447059 AAGTGTACACA--C----A
1 AAGTGTACAAATCCTTTTC
2447072 AAGTGTACAAATCCTTTTC
1 AAGTGTACAAATCCTTTTC
2447091 AAGTGTACA
1 AAGTGTACA
2447100 CACAAAGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
13 10 0.32
15 1 0.03
17 1 0.03
19 19 0.61
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (19 bp):
AAGTGTACAAATCCTTTTC
Found at i:2454852 original size:34 final size:36
Alignment explanation
Indices: 2454778--2454891 Score: 127
Period size: 36 Copynumber: 3.4 Consensus size: 36
2454768 TATGAATATA
*
2454778 TATATTAAATATA-ACACAAAA-C-T-CACACATA--
1 TATATTATATATAGA-ACAAAACCATGCACACATACT
*
2454809 TATATTATATAT-GAA-AAAACCATGCACCCATACT
1 TATATTATATATAGAACAAAACCATGCACACATACT
* *
2454843 TATATTATATATATAACAAAACCATGCACACATATT
1 TATATTATATATAGAACAAAACCATGCACACATACT
2454879 TATATTATATATA
1 TATATTATATATA
2454892 CACCTACTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
29 4 0.06
30 2 0.03
31 13 0.19
32 7 0.10
34 12 0.17
35 2 0.03
36 30 0.43
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (36 bp):
TATATTATATATAGAACAAAACCATGCACACATACT
Found at i:2455033 original size:32 final size:32
Alignment explanation
Indices: 2454994--2455060 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
2454984 GTTAATACAT
2454994 AATCCACTCACACACGCAACAATTAAATTCAC
1 AATCCACTCACACACGCAACAATTAAATTCAC
*
2455026 AATCCACTCACACACGTAACAATTAAATTCAC
1 AATCCACTCACACACGCAACAATTAAATTCAC
2455058 AAT
1 AAT
2455061 TCACAAACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.45, C:0.31, G:0.03, T:0.21
Consensus pattern (32 bp):
AATCCACTCACACACGCAACAATTAAATTCAC
Found at i:2469204 original size:16 final size:15
Alignment explanation
Indices: 2469183--2469216 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
2469173 AAAACAGAAT
2469183 AAATATATATATAACA
1 AAATATATA-ATAACA
*
2469199 AAATATATAATAATA
1 AAATATATAATAACA
2469214 AAA
1 AAA
2469217 AATTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATATATAATAACA
Found at i:2469213 original size:26 final size:25
Alignment explanation
Indices: 2469151--2469239 Score: 74
Period size: 26 Copynumber: 3.5 Consensus size: 25
2469141 ACATAAATAG
2469151 TATATAAT-ATATAACATATAAAAAA
1 TATATAATAATATAA-ATATAAAAAA
* * *
2469176 -ACAGAATAAATATATATATAACAAAA
1 TATATAAT-AATATAAATATAA-AAAA
* *
2469202 TATATAATAATAAAAAATTTAAAAAA
1 TATATAATAAT-ATAAATATAAAAAA
*
2469228 TGTATAATAATA
1 TATATAATAATA
2469240 ATCTAATGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
24 5 0.10
25 7 0.14
26 26 0.52
27 12 0.24
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.30
Consensus pattern (25 bp):
TATATAATAATATAAATATAAAAAA
Found at i:2472136 original size:26 final size:26
Alignment explanation
Indices: 2472105--2472212 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
2472095 TGAAATTCCC
2472105 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
2472131 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
2472157 ATCATAGAATATTTACCTAATA-CATT
1 ATCATGGAACATTTACCTAA-ACCATT
*
2472183 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
2472209 ATCA
1 ATCA
2472213 ATTTGTACCA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:2472183 original size:52 final size:52
Alignment explanation
Indices: 2472105--2472212 Score: 173
Period size: 52 Copynumber: 2.1 Consensus size: 52
2472095 TGAAATTCCC
*
2472105 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
* *
2472157 ATCATAGAATATTTACCTAATA-CATTATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAA-ACCATTATCATGAAACATTTACCTAACCCATT
2472209 ATCA
1 ATCA
2472213 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 51 0.98
53 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (52 bp):
ATCATAGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
Found at i:2474187 original size:25 final size:26
Alignment explanation
Indices: 2474150--2474202 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
2474140 TCAAACATGC
2474150 ATTTAGGTCAATTTAATC-CTAGGGGT
1 ATTTAGGTCAATTT-ATCACTAGGGGT
*
2474176 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTATC-ACTAGGGGT
2474202 A
1 A
2474203 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTATCACTAGGGGT
Found at i:2475728 original size:25 final size:26
Alignment explanation
Indices: 2475680--2475762 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
2475670 CATGAAATTC
2475680 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
2475706 TTATCATGAAACA-TTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
2475731 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
2475757 TTATCA
1 TTATCA
2475763 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
25 24 0.44
26 30 0.56
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:2478301 original size:33 final size:31
Alignment explanation
Indices: 2478262--2478339 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 31
2478252 ACAAACATAC
*
2478262 AAAGTAATAATTAAATAATACATGATATACAAA
1 AAAGTAATAA-TAAATAATACATGACATAC-AA
*
2478295 AAAGTAAT-A-AAATAATGCATGACATACAA
1 AAAGTAATAATAAATAATACATGACATACAA
2478324 AAAG-AATAATACAATA
1 AAAGTAATAATA-AATA
2478340 TCAATGTACA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
28 3 0.08
29 7 0.17
30 17 0.43
31 4 0.10
32 1 0.03
33 8 0.20
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (31 bp):
AAAGTAATAATAAATAATACATGACATACAA
Found at i:2478387 original size:14 final size:15
Alignment explanation
Indices: 2478359--2478392 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2478349 ATGTTCATGA
*
2478359 AATATAATATTAAAT
1 AATATAATATAAAAT
2478374 AATA-AATATAAAAT
1 AATATAATATAAAAT
2478388 AATAT
1 AATAT
2478393 GTAACACACG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATATAATATAAAAT
Found at i:2478945 original size:13 final size:13
Alignment explanation
Indices: 2478929--2478996 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 13
2478919 ATATGTAAGG
2478929 ATAATATATATAA
1 ATAATATATATAA
2478942 ATAAT-TA-ATAA
1 ATAATATATATAA
2478953 AT-ATATA-ATACA
1 ATAATATATATA-A
*
2478965 AGTAAAATATA-ATA
1 A-TAATATATATA-A
*
2478979 ATAATATATAAAA
1 ATAATATATATAA
2478992 ATAAT
1 ATAAT
2478997 GATGGAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
10 2 0.04
11 11 0.24
12 4 0.09
13 20 0.43
14 8 0.17
15 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (13 bp):
ATAATATATATAA
Found at i:2479031 original size:26 final size:29
Alignment explanation
Indices: 2478975--2479036 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 29
2478965 AGTAAAATAT
*
2478975 AATAATAATATATAAAAATAATGATGGAA
1 AATAATAATATATAAAAATAATGATGAAA
* *
2479004 AATAATAATA-ATAATAAT-TTG-TGAAA
1 AATAATAATATATAAAAATAATGATGAAA
2479030 AATAATA
1 AATAATA
2479037 TAAGATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 11 0.37
27 2 0.07
28 7 0.23
29 10 0.33
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (29 bp):
AATAATAATATATAAAAATAATGATGAAA
Found at i:2479056 original size:15 final size:14
Alignment explanation
Indices: 2479029--2479058 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
2479019 AATTTGTGAA
2479029 AAATAATATAAGAT
1 AAATAATATAAGAT
2479043 AAATAATAATAAGAT
1 AAATAAT-ATAAGAT
2479058 A
1 A
2479059 TATATGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (14 bp):
AAATAATATAAGAT
Found at i:2480576 original size:26 final size:25
Alignment explanation
Indices: 2480544--2480614 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
2480534 CCTCTTTAAT
**
2480544 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATA
*
2480569 AACTTGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCAATA
2480594 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
2480615 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 31 0.76
26 10 0.24
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAATA
Found at i:2480689 original size:20 final size:20
Alignment explanation
Indices: 2480664--2480720 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
2480654 TTATGAATTC
*
2480664 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
2480684 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
2480704 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
2480721 TCCCACGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:2480695 original size:11 final size:11
Alignment explanation
Indices: 2480664--2480719 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
2480654 TTATGAATTC
2480664 ATCATGTGCAT
1 ATCATGTGCAT
* *
2480675 TTCA--TACAT
1 ATCATGTGCAT
2480684 ATCATGTGCAT
1 ATCATGTGCAT
*
2480695 ATCA--TACAT
1 ATCATGTGCAT
2480704 ATCATGTGCAT
1 ATCATGTGCAT
2480715 ATCAT
1 ATCAT
2480720 ATCCCACGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:2484867 original size:7 final size:7
Alignment explanation
Indices: 2484851--2484926 Score: 57
Period size: 7 Copynumber: 10.4 Consensus size: 7
2484841 ATCAAATCCT
2484851 AACCTCTA
1 AACCT-TA
2484859 AACCTTA
1 AACCTTA
*
2484866 AACCTCA
1 AACCTTA
* *
2484873 AATCTCA
1 AACCTTA
2484880 AACC-TA
1 AACCTTA
2484886 AACCTTTA
1 AACC-TTA
2484894 AACCCTTCA
1 AA-CCTT-A
2484903 AA-CTTCA
1 AACCTT-A
2484910 AACCTTA
1 AACCTTA
*
2484917 AACCTCA
1 AACCTTA
2484924 AAC
1 AAC
2484927 TTGAATTTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
6 5 0.09
7 34 0.59
8 14 0.24
9 5 0.09
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (7 bp):
AACCTTA
Found at i:2484881 original size:35 final size:36
Alignment explanation
Indices: 2484829--2484911 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 36
2484819 CATCGAATTC
2484829 TAAACCAT-AAATATCAAATCCT-AACCTCTAAA-CCT
1 TAAACC-TCAAATATCAAA-CCTAAACCTCTAAACCCT
* *
2484864 TAAACCTCAAATCTCAAACCTAAACCTTTAAACCCT
1 TAAACCTCAAATATCAAACCTAAACCTCTAAACCCT
*
2484900 TCAAACTTCAAA
1 T-AAACCTCAAA
2484912 CCTTAAACCT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 4 0.10
35 24 0.59
36 4 0.10
37 9 0.22
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (36 bp):
TAAACCTCAAATATCAAACCTAAACCTCTAAACCCT
Found at i:2484917 original size:23 final size:21
Alignment explanation
Indices: 2484851--2484945 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 21
2484841 ATCAAATCCT
*
2484851 AACCTCTAAACCTTAAACC-TCA
1 AACCTC-AAA-CTTAAACCTTTA
* *
2484873 AATCTCAAACCTAAACCTTTA
1 AACCTCAAACTTAAACCTTTA
2484894 AACCCTTCAAACTTCAAACC-TTA
1 AA-CC-TCAAACTT-AAACCTTTA
* * *
2484917 AACCTCAAACTTGAA-TTTTG
1 AACCTCAAACTTAAACCTTTA
2484937 AACCTCAAA
1 AACCTCAAA
2484946 TATCTTGAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
20 20 0.33
21 15 0.25
22 8 0.13
23 12 0.20
24 5 0.08
ACGTcount: A:0.41, C:0.31, G:0.02, T:0.26
Consensus pattern (21 bp):
AACCTCAAACTTAAACCTTTA
Found at i:2484924 original size:14 final size:14
Alignment explanation
Indices: 2484851--2484926 Score: 64
Period size: 14 Copynumber: 5.2 Consensus size: 14
2484841 ATCAAATCCT
*
2484851 AACCTCTAAACCTTA
1 AACCT-TAAACCTCA
* *
2484866 AACCTCAAATCTCA
1 AACCTTAAACCTCA
*
2484880 AACC-TAAACCTTTA
1 AACCTTAAACC-TCA
*
2484894 AACCCTTCAAACTTCA
1 AA-CCTT-AAACCTCA
2484910 AACCTTAAACCTCA
1 AACCTTAAACCTCA
2484924 AAC
1 AAC
2484927 TTGAATTTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
13 4 0.08
14 24 0.50
15 11 0.23
16 5 0.10
17 4 0.08
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCTTAAACCTCA
Found at i:2486969 original size:43 final size:43
Alignment explanation
Indices: 2486922--2487072 Score: 214
Period size: 43 Copynumber: 3.5 Consensus size: 43
2486912 TAGCCCAGCT
* * *
2486922 ATGGTCTTACAAGAAATCACATAACGATGTCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCTAGAC
* * *
2486965 ATGGTTTTACATGTAATCACATAACGATGCCAGTG-CCTCAGAC
1 ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCT-AGAC
* *
2487008 ATGGTCTAACACGTAATCACATAACGATGCCAATGTCCAAGAC
1 ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCTAGAC
2487051 ATGGTCTTACACGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
2487073 CTCGATAATC
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
42 3 0.03
43 90 0.95
44 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCTAGAC
Found at i:2489775 original size:29 final size:30
Alignment explanation
Indices: 2489709--2489775 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
2489699 GGGATAGAGA
*
2489709 AGAATAAGTATAAACATATTGGGTCATTTAT
1 AGAA-AAGTATAAACATATTGGGCCATTTAT
*
2489740 ATAAAAAGTA-AAA-ATATTGGGCCATTTAT
1 A-GAAAAGTATAAACATATTGGGCCATTTAT
2489769 GAGAAAA
1 -AGAAAA
2489776 CAAAAAAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
29 19 0.61
30 4 0.13
31 6 0.19
32 2 0.06
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.30
Consensus pattern (30 bp):
AGAAAAGTATAAACATATTGGGCCATTTAT
Found at i:2491162 original size:21 final size:20
Alignment explanation
Indices: 2491125--2491166 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
2491115 TGCCCAAGGA
*
2491125 AAGCCGATTGATCCATCTAAG
1 AAGCCGATTCATCCATC-AAG
2491146 AAGCCGGATTCAT-CATCAAG
1 AAGCC-GATTCATCCATCAAG
2491166 A
1 A
2491167 CTGAAGATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
AAGCCGATTCATCCATCAAG
Found at i:2501473 original size:32 final size:32
Alignment explanation
Indices: 2501402--2501613 Score: 226
Period size: 32 Copynumber: 6.6 Consensus size: 32
2501392 CCTGAGGTGC
* * * *
2501402 ACATTCCCTTTTCAAATGATGCACATAAAGTGT
1 ACATTTCCTTTTCAAGTG-TACACACAAAGTGT
* * *
2501435 ACATTTCCTTTTCAAGTGCACACACAAGGGGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
2501467 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** * * * *
2501499 ACAAATCCTTTTCAAATGTATATACAATGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** **
2501531 ATGTTTCCTTTTCAAGTGTACACACAAAGACT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** *
2501563 ACAAATCCTTTTCAAGTGTACACAAAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
2501595 ACGTTTCCTTTTCAAGTGT
1 ACATTTCCTTTTCAAGTGT
2501614 CACCCTTTCA
Statistics
Matches: 143, Mismatches: 36, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
32 127 0.89
33 16 0.11
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTGT
Found at i:2520869 original size:21 final size:21
Alignment explanation
Indices: 2520832--2520871 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2520822 AAAACACAAA
*
2520832 TCAGATCATAATGTCATATTT
1 TCAGATCATAATATCATATTT
2520853 TCAGAATCAT-ATATCATAT
1 TCAG-ATCATAATATCATAT
2520872 CATATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (21 bp):
TCAGATCATAATATCATATTT
Found at i:2529286 original size:13 final size:13
Alignment explanation
Indices: 2529268--2529294 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2529258 TAGGGAGAAA
2529268 ACCTCAACAGAGG
1 ACCTCAACAGAGG
2529281 ACCTCAACAGAGG
1 ACCTCAACAGAGG
2529294 A
1 A
2529295 GACCAAGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.30, G:0.22, T:0.07
Consensus pattern (13 bp):
ACCTCAACAGAGG
Found at i:2537359 original size:21 final size:21
Alignment explanation
Indices: 2537333--2537373 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2537323 AGACGAGCGA
* *
2537333 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2537354 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2537374 TTGAGAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2545798 original size:9 final size:9
Alignment explanation
Indices: 2545780--2545830 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
2545770 TAAATTATTA
2545780 TTTTAATTT
1 TTTTAATTT
*
2545789 TTTT-ACTT
1 TTTTAATTT
2545797 TTTTAATTTT
1 TTTTAA-TTT
2545807 TTTATAATTT
1 TTT-TAATTT
*
2545817 TTTAGAATTT
1 TTT-TAATTT
2545827 TTTT
1 TTTT
2545831 GAAAATTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 7 0.20
9 5 0.14
10 20 0.57
11 3 0.09
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTTAATTT
Found at i:2545817 original size:17 final size:16
Alignment explanation
Indices: 2545778--2545817 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
2545768 TTTAAATTAT
2545778 TATTTTAATTTTTTTA
1 TATTTTAATTTTTTTA
*
2545794 CTTTTTTAATTTTTTTA
1 -TATTTTAATTTTTTTA
2545811 TAATTTT
1 T-ATTTT
2545818 TTAGAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
TATTTTAATTTTTTTA
Found at i:2545885 original size:20 final size:20
Alignment explanation
Indices: 2545860--2545925 Score: 73
Period size: 19 Copynumber: 3.3 Consensus size: 20
2545850 AAAAATATTA
2545860 ATTTTGGAATTTTTATAAA-T
1 ATTTTGGAATTTTTA-AAATT
* *
2545880 ATTTT-GAGTTTTAAAAATT
1 ATTTTGGAATTTTTAAAATT
*
2545899 ATTTTTGAATTTTTGAAAATT
1 ATTTTGGAATTTTT-AAAATT
2545920 ATTTTG
1 ATTTTG
2545926 ATTTTTTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
18 3 0.08
19 13 0.34
20 11 0.29
21 11 0.29
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (20 bp):
ATTTTGGAATTTTTAAAATT
Found at i:2545923 original size:40 final size:42
Alignment explanation
Indices: 2545846--2545931 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 42
2545836 TTTTATAAAT
2545846 TTTTAAAAATATTAATTTTGGAATTTTTATAAATATTTTGAG
1 TTTTAAAAATATTAATTTTGGAATTTTTATAAATATTTTGAG
* *
2545888 TTTT-AAAA-ATT-ATTTTTGAATTTTTGA-AAATTATTTTGAT
1 TTTTAAAAATATTAATTTTGGAATTTTT-ATAAA-TATTTTGAG
2545928 TTTT
1 TTTT
2545932 TTGTAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
39 16 0.40
40 16 0.40
41 4 0.10
42 4 0.10
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (42 bp):
TTTTAAAAATATTAATTTTGGAATTTTTATAAATATTTTGAG
Found at i:2545926 original size:20 final size:20
Alignment explanation
Indices: 2545843--2545931 Score: 85
Period size: 20 Copynumber: 4.3 Consensus size: 20
2545833 AAATTTTATA
2545843 AATTTTTAAAAATATTAATTTTGG
1 AATTTTT-AAAA-ATT-ATTTT-G
*
2545867 AATTTTTATAAA-TATTTTG
1 AATTTTTAAAAATTATTTTG
*
2545886 -AGTTTTAAAAATTATTTTTG
1 AATTTTTAAAAATTA-TTTTG
*
2545906 AATTTTTGAAAATTATTTTG
1 AATTTTTAAAAATTATTTTG
2545926 -ATTTTT
1 AATTTTT
2545932 TTGTAATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
18 9 0.16
19 9 0.16
20 15 0.26
21 13 0.23
22 1 0.02
23 3 0.05
24 7 0.12
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTG
Found at i:2545934 original size:21 final size:21
Alignment explanation
Indices: 2545826--2545932 Score: 66
Period size: 20 Copynumber: 5.2 Consensus size: 21
2545816 TTTTAGAATT
* *
2545826 TTTTTGAAAA-T-TTTATAAA
1 TTTTTGAAAATTATTTTTGAA
* *
2545845 TTTTTAAAAATATTAATTTTGGAA
1 TTTTT-GAAA-ATT-ATTTTTGAA
2545869 TTTTT-ATAAA-TA-TTTTG-A
1 TTTTTGA-AAATTATTTTTGAA
* *
2545887 GTTTTAAAAATTATTTTTGAA
1 TTTTTGAAAATTATTTTTGAA
*
2545908 TTTTTGAAAATTA-TTTTGAT
1 TTTTTGAAAATTATTTTTGAA
2545928 TTTTT
1 TTTTT
2545933 TGTAATTTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
18 8 0.12
19 12 0.17
20 20 0.29
21 14 0.20
22 3 0.04
23 2 0.03
24 10 0.14
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTTTGAAAATTATTTTTGAA
Found at i:2551508 original size:20 final size:20
Alignment explanation
Indices: 2551483--2551522 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2551473 GGAAAGAATA
2551483 AAAAAAGGGAAAAT-GAAAAT
1 AAAAAA-GGAAAATAGAAAAT
*
2551503 AAAAAAGTAAAATAGAAAAT
1 AAAAAAGGAAAATAGAAAAT
2551523 TAGATGGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.12
Consensus pattern (20 bp):
AAAAAAGGAAAATAGAAAAT
Found at i:2566690 original size:107 final size:108
Alignment explanation
Indices: 2566564--2566779 Score: 398
Period size: 107 Copynumber: 2.0 Consensus size: 108
2566554 TAAACAAAAA
* *
2566564 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAGTAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATATTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
2566629 AATTGTATTAAAATTTTTGTTAATTACTCT-ATAAAATTTTTG
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
*
2566671 ATTAGTTTAACAAAACAATGATATATTAAGTTGGAATAAGTTTTAAATAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATATTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
2566736 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
2566779 A
1 A
2566780 CGTGTTTTTT
Statistics
Matches: 105, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 92 0.88
108 13 0.12
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.42
Consensus pattern (108 bp):
ATTAGTTTAACAAAACAATGATATATTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
Found at i:2568064 original size:22 final size:20
Alignment explanation
Indices: 2568027--2568068 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
2568017 AGTTATATAC
2568027 ATTATTTAATATTTTAAATT
1 ATTATTTAATATTTTAAATT
2568047 ATTATTTTAATTATTTTAAATT
1 ATTA-TTTAA-TATTTTAAATT
2568069 TTTTAACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
22 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTATTTAATATTTTAAATT
Found at i:2568814 original size:6 final size:6
Alignment explanation
Indices: 2568803--2568831 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2568793 TCTAAAAAAT
2568803 CACACG CACACG CACACG CACACG CACAC
1 CACACG CACACG CACACG CACACG CACAC
2568832 ACAAAACGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.52, G:0.14, T:0.00
Consensus pattern (6 bp):
CACACG
Found at i:2572760 original size:8 final size:8
Alignment explanation
Indices: 2572734--2572783 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
2572724 TTTTTATTCC
2572734 TTTTATTCA
1 TTTTATT-A
*
2572743 TTCT-TTA
1 TTTTATTA
2572750 TTTTATTA
1 TTTTATTA
2572758 TTTTATTA
1 TTTTATTA
*
2572766 TATTATTA
1 TTTTATTA
*
2572774 TATTA-TA
1 TTTTATTA
2572781 TTT
1 TTT
2572784 AGTAATAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
7 8 0.22
8 25 0.69
9 3 0.08
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTTATTA
Found at i:2572762 original size:13 final size:13
Alignment explanation
Indices: 2572746--2572782 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2572736 TTATTCATTC
*
2572746 TTTATTTTATTAT
1 TTTATTATATTAT
2572759 TTTATTATATTAT
1 TTTATTATATTAT
*
2572772 TATATTATATT
1 TTTATTATATT
2572783 TAGTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTATTATATTAT
Found at i:2581511 original size:6 final size:6
Alignment explanation
Indices: 2581496--2581525 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
2581486 TAATATTTTT
2581496 AATTTCA AATTTA AATTTA AATTTA AATTT
1 AATTT-A AATTTA AATTTA AATTTA AATTT
2581526 TTTATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:2582135 original size:19 final size:19
Alignment explanation
Indices: 2582098--2582147 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
2582088 TTTTATATTT
***
2582098 TTTATAATTTTTTTGAAAA
1 TTTATAATTTTTAAAAAAA
2582117 TTTATAATTTTTAAAAAAA
1 TTTATAATTTTTAAAAAAA
*
2582136 TATATAAATTTT
1 TTTAT-AATTTT
2582148 GGAATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTATAATTTTTAAAAAAA
Found at i:2590605 original size:68 final size:64
Alignment explanation
Indices: 2590494--2590623 Score: 181
Period size: 68 Copynumber: 2.0 Consensus size: 64
2590484 AGAAAATAAA
* * *
2590494 TTTTAATACATTATATTTTGTGATTCAGTAATTATGACTATCTAATTGT-ATTTATTTACGCGT
1 TTTTAATACATTATATTTTGTAATTCAGTAATTATGACAATCTAATTGTAAATTATTTACGCGT
2590557 TTTTAATACATTATATTTTGTAAATTAATTCAGTAATTATGACAATCTAATTGTAAATTATTTAC
1 TTTTAATACATTATATTTTG-----TAATTCAGTAATTATGACAATCTAATTGTAAATTATTTAC
2590622 GC
61 GC
2590624 CATGCAAGTA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
63 20 0.34
68 27 0.47
69 11 0.19
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.48
Consensus pattern (64 bp):
TTTTAATACATTATATTTTGTAATTCAGTAATTATGACAATCTAATTGTAAATTATTTACGCGT
Found at i:2591261 original size:16 final size:17
Alignment explanation
Indices: 2591240--2591273 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2591230 TTTCAAAGCA
2591240 AAATTA-TAATAAACTT
1 AAATTATTAATAAACTT
*
2591256 AAATTATTAATTAACTT
1 AAATTATTAATAAACTT
2591273 A
1 A
2591274 TTTAGGTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTATTAATAAACTT
Found at i:2593644 original size:10 final size:10
Alignment explanation
Indices: 2593605--2593654 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
2593595 TTTTAAAATA
*
2593605 TTTATATTAT
1 TTTATATAAT
*
2593615 TTTAATTTAAT
1 TTT-ATATAAT
*
2593626 ATT-TATAAT
1 TTTATATAAT
2593635 TTTATATAAT
1 TTTATATAAT
2593645 TTTAT-TAAT
1 TTTATATAAT
2593654 T
1 T
2593655 AATTTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
9 12 0.36
10 14 0.42
11 7 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATATAAT
Found at i:2594057 original size:19 final size:19
Alignment explanation
Indices: 2594014--2594058 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
2594004 GGACTAAATG
* *
2594014 TTGGTAGATATTTTATCTG
1 TTGGTGGATATTTTATCTC
2594033 TTGGTGGATATTTTATCTC
1 TTGGTGGATATTTTATCTC
2594052 TTGGTGG
1 TTGGTGG
2594059 TTGATTTGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.16, C:0.07, G:0.27, T:0.51
Consensus pattern (19 bp):
TTGGTGGATATTTTATCTC
Found at i:2598453 original size:40 final size:40
Alignment explanation
Indices: 2598369--2598453 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
2598359 CAAATACATT
*
2598369 TAAAACAAATATTAAAACAAGAAACAAATAAAAATGATAT
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAATGATAA
* * * * *
2598409 TAAAACAATTCTTAAAACAATACACAAATTGAAAAT-ATAA
1 TAAAACAAATATTAAAACAAGAAACAAA-TAAAAATGATAA
2598449 TAAAA
1 TAAAA
2598454 AGTGATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 32 0.84
41 6 0.16
ACGTcount: A:0.65, C:0.09, G:0.04, T:0.22
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAAGAAACAAATAAAAATGATAA
Found at i:2607042 original size:11 final size:10
Alignment explanation
Indices: 2607006--2607070 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
2606996 TTTTAGAAAA
2607006 TTTTA-AATT
1 TTTTATAATT
*
2607015 TTTGA-AATT
1 TTTTATAATT
2607024 TCTTTATATATT
1 T-TTTATA-ATT
2607036 TTTTATAATT
1 TTTTATAATT
**
2607046 TTTT-TGAAAA
1 TTTTAT-AATT
2607056 TTTTATAATT
1 TTTTATAATT
2607066 TTTTA
1 TTTTA
2607071 AAAGATATGA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
9 10 0.22
10 23 0.51
11 8 0.18
12 4 0.09
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:2607290 original size:14 final size:14
Alignment explanation
Indices: 2607271--2607300 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2607261 TGACTCAAAT
2607271 AATTCAAATAACTC
1 AATTCAAATAACTC
*
2607285 AATTCAATTAACTC
1 AATTCAAATAACTC
2607299 AA
1 AA
2607301 AATTTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (14 bp):
AATTCAAATAACTC
Found at i:2610267 original size:12 final size:12
Alignment explanation
Indices: 2610234--2610267 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2610224 TTCCCTGTAA
*
2610234 AATAGTAAAAAT
1 AATAGTAAAGAT
*
2610246 AATAATAAAGAT
1 AATAGTAAAGAT
2610258 AATAGTAAAG
1 AATAGTAAAG
2610268 GGGAAGTAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (12 bp):
AATAGTAAAGAT
Found at i:2611229 original size:27 final size:26
Alignment explanation
Indices: 2611199--2611261 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
2611189 GGATAATTAA
2611199 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
2611226 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
2611253 AATATAAAT
1 AATA-AAAT
2611262 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:2611248 original size:15 final size:15
Alignment explanation
Indices: 2611228--2611257 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2611218 ATAATCCTAA
*
2611228 TAATTATCTTAATAT
1 TAATTATCCTAATAT
2611243 TAATTATCCTAATAT
1 TAATTATCCTAATAT
2611258 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:2611772 original size:1 final size:1
Alignment explanation
Indices: 2611766--2611818 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
2611756 TTAATATAAC
* * * * * *
2611766 TTTTTTTCTTTTTTCTTTTTTTCTTTTTTTTCTTTTTTTTTTCTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2611819 ATAGAATTTT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:2611783 original size:15 final size:15
Alignment explanation
Indices: 2611765--2611818 Score: 74
Period size: 17 Copynumber: 3.5 Consensus size: 15
2611755 ATTAATATAA
2611765 CTTTTTTTCTTTTTT
1 CTTTTTTTCTTTTTT
2611780 CTTTTTTTCTTTTTTTT
1 CTTTTTTTC--TTTTTT
*
2611797 CTTTTTTT-TTTCTT
1 CTTTTTTTCTTTTTT
2611811 CTTTTTTT
1 CTTTTTTT
2611819 ATAGAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
14 13 0.36
15 9 0.25
17 14 0.39
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
CTTTTTTTCTTTTTT
Found at i:2611786 original size:9 final size:8
Alignment explanation
Indices: 2611765--2611818 Score: 69
Period size: 8 Copynumber: 7.0 Consensus size: 8
2611755 ATTAATATAA
2611765 CTTTTTTT
1 CTTTTTTT
2611773 C-TTTTTT
1 CTTTTTTT
2611780 CTTTTTTT
1 CTTTTTTT
2611788 CTTTTTTT
1 CTTTTTTT
2611796 -TCTTTTTT
1 CT-TTTTTT
*
2611804 -TTTTCTT
1 CTTTTTTT
2611811 CTTTTTTT
1 CTTTTTTT
2611819 ATAGAATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 13 0.32
8 28 0.68
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
CTTTTTTT
Found at i:2611793 original size:24 final size:23
Alignment explanation
Indices: 2611775--2611818 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
2611765 CTTTTTTTCT
2611775 TTTTTCTTTTT-TTCTTTTTTTTC
1 TTTTT-TTTTTCTTCTTTTTTTTC
2611798 TTTTTTTTTTCTTCTTTTTTT
1 TTTTTTTTTTCTTCTTTTTTT
2611819 ATAGAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (23 bp):
TTTTTTTTTTCTTCTTTTTTTTC
Found at i:2611818 original size:14 final size:14
Alignment explanation
Indices: 2611769--2611818 Score: 66
Period size: 14 Copynumber: 3.5 Consensus size: 14
2611759 ATATAACTTT
2611769 TTTTCTTTTTTCTT-
1 TTTT-TTTTTTCTTC
*
2611783 TTTTTCTTTTTTTTC
1 TTTTT-TTTTTCTTC
2611798 TTTTTTTTTTCTTC
1 TTTTTTTTTTCTTC
2611812 TTTTTTT
1 TTTTTTT
2611819 ATAGAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 1 0.03
14 26 0.81
15 5 0.16
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTTCTTC
Found at i:2612788 original size:18 final size:18
Alignment explanation
Indices: 2612746--2612789 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
2612736 ATCTGAAAAT
* *
2612746 AATAAATAATAAAATAAT
1 AATAAAAAATAAAATAAA
*
2612764 AAGAAAAAATAAAATAAA
1 AATAAAAAATAAAATAAA
2612782 AATAAAAA
1 AATAAAAA
2612790 TTGGGTTGCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (18 bp):
AATAAAAAATAAAATAAA
Found at i:2618239 original size:12 final size:12
Alignment explanation
Indices: 2618206--2618239 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2618196 TTCCCTGTAA
*
2618206 AATAGTAAAAAT
1 AATAGTAAAGAT
*
2618218 AATAATAAAGAT
1 AATAGTAAAGAT
2618230 AATAGTAAAG
1 AATAGTAAAG
2618240 GGGAAGTAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (12 bp):
AATAGTAAAGAT
Done.