Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 57 of 189
Found at i:16122582 original size:35 final size:34
Alignment explanation
Indices: 16122515--16122582 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 34
16122505 CTATTGAATT
*
16122515 AAATTTTAAATTATATTCTAATTCAATGCATATG
1 AAATTTTAAATTATATTCCAATTCAATGCATATG
* *
16122549 AAATATTTAAATTTTATTTCCAATTTAAT-CATAT
1 AAAT-TTTAAATTATA-TTCCAATTCAATGCATAT
16122583 ATTATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 4 0.14
35 15 0.52
36 10 0.34
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (34 bp):
AAATTTTAAATTATATTCCAATTCAATGCATATG
Found at i:16125721 original size:22 final size:24
Alignment explanation
Indices: 16125693--16125736 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
16125683 TATTGTTTTC
16125693 AAAAAAA-CCAAAAGTT-TGTTAA
1 AAAAAAAGCCAAAAGTTGTGTTAA
*
16125715 AAAAAAAGTCAAAAGTTGTGTT
1 AAAAAAAGCCAAAAGTTGTGTT
16125737 TTGAAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.25
Consensus pattern (24 bp):
AAAAAAAGCCAAAAGTTGTGTTAA
Found at i:16141639 original size:43 final size:43
Alignment explanation
Indices: 16141506--16141675 Score: 191
Period size: 43 Copynumber: 4.0 Consensus size: 43
16141496 TGATTATTTC
* * * * *
16141506 GGTTTATCTAATGATGCACTAT-GTGTGCCAGTATAATTACTTC
1 GGTTCATCCAATGATGCACT-TCGTGTGCCAATATAATTGCTTT
* * *
16141549 GGTTTATCTAATGATG-AATTACGTGTGCCAATATAATTGCTTT
1 GGTTCATCCAATGATGCACTT-CGTGTGCCAATATAATTGCTTT
16141592 GGTTCATCCAATGATGCACTTCGTGTGCCAATATAATTGCTTT
1 GGTTCATCCAATGATGCACTTCGTGTGCCAATATAATTGCTTT
* * * * *
16141635 GGTTCATTCGATGATACACCTCGTGTGCCAATACAATTGCT
1 GGTTCATCCAATGATGCACTTCGTGTGCCAATATAATTGCT
16141676 CCGACTTGCT
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 106 0.95
44 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (43 bp):
GGTTCATCCAATGATGCACTTCGTGTGCCAATATAATTGCTTT
Found at i:16143217 original size:9 final size:9
Alignment explanation
Indices: 16143203--16143245 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 9
16143193 TTGTTTTAAT
16143203 ATTATTTTA
1 ATTATTTTA
16143212 ATTATTTTTA
1 ATTA-TTTTA
16143222 ATTATTTTA
1 ATTATTTTA
16143231 ACGTTTATTTTA
1 A---TTATTTTA
16143243 ATT
1 ATT
16143246 CTTTAATTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 12 0.40
10 9 0.30
12 9 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
ATTATTTTA
Found at i:16144503 original size:18 final size:18
Alignment explanation
Indices: 16144470--16144522 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
16144460 ATTCACCTAA
*
16144470 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
16144489 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
16144507 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
16144523 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:16144640 original size:9 final size:9
Alignment explanation
Indices: 16144626--16144701 Score: 82
Period size: 9 Copynumber: 8.4 Consensus size: 9
16144616 GTAGTGATTC
16144626 AATTCGGTT
1 AATTCGGTT
*
16144635 AATTCGGGT
1 AATTCGGTT
*
16144644 AATTCGATT
1 AATTCGGTT
*
16144653 AATTCGGGT
1 AATTCGGTT
* *
16144662 AATCCAGTT
1 AATTCGGTT
*
16144671 AATTCAAG-T
1 AATTC-GGTT
16144680 AATTCGGTT
1 AATTCGGTT
16144689 AATTCGGTT
1 AATTCGGTT
16144698 AATT
1 AATT
16144702 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
8 1 0.02
9 52 0.95
10 2 0.04
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:16144649 original size:18 final size:18
Alignment explanation
Indices: 16144626--16144701 Score: 98
Period size: 18 Copynumber: 4.2 Consensus size: 18
16144616 GTAGTGATTC
16144626 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
*
16144644 AATTCGATTAATTCGGGT
1 AATTCGGTTAATTCGGGT
* * **
16144662 AATCCAGTTAATTCAAGT
1 AATTCGGTTAATTCGGGT
*
16144680 AATTCGGTTAATTCGGTT
1 AATTCGGTTAATTCGGGT
16144698 AATT
1 AATT
16144702 TTTAACCAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:16144658 original size:27 final size:27
Alignment explanation
Indices: 16144621--16144701 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
16144611 ATTATGTAGT
*
16144621 GATTCAATTCGGTTAATTCGGGTAATTC
1 GATT-AATTCGGTTAATTCGGTTAATTC
* * *
16144649 GATTAATTCGGGTAATCCAGTTAATTC
1 GATTAATTCGGTTAATTCGGTTAATTC
* *
16144676 AAGTAATTCGGTTAATTCGGTTAATT
1 GATTAATTCGGTTAATTCGGTTAATT
16144702 TTTAACCAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
27 40 0.91
28 4 0.09
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (27 bp):
GATTAATTCGGTTAATTCGGTTAATTC
Found at i:16150653 original size:7 final size:7
Alignment explanation
Indices: 16150641--16150670 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
16150631 TAATTACTAT
16150641 AATTTAA
1 AATTTAA
16150648 AATTTAA
1 AATTTAA
16150655 AATTTAA
1 AATTTAA
16150662 AATTTAA
1 AATTTAA
16150669 AA
1 AA
16150671 AATTAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AATTTAA
Found at i:16176585 original size:16 final size:14
Alignment explanation
Indices: 16176520--16176584 Score: 58
Period size: 17 Copynumber: 4.1 Consensus size: 14
16176510 CTTCGTCTCC
16176520 TTCTTTCTTTCCCTTT
1 TTCTTTCTTT--CTTT
16176536 TTCTTTTCTTTCTTT
1 TTC-TTTCTTTCTTT
*
16176551 TCCTTTCTGTTTCGTTT
1 TTCTTTC--TTTC-TTT
16176568 TTCTTGTCTTTCTTT
1 TTCTT-TCTTTCTTT
16176583 TT
1 TT
16176585 TTCCTTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
14 4 0.10
15 11 0.26
16 11 0.26
17 14 0.33
18 2 0.05
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.72
Consensus pattern (14 bp):
TTCTTTCTTTCTTT
Found at i:16178536 original size:9 final size:9
Alignment explanation
Indices: 16178522--16178550 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
16178512 TAAACAATTC
16178522 AATAATATA
1 AATAATATA
16178531 AATAATATA
1 AATAATATA
16178540 AATAATATA
1 AATAATATA
16178549 AA
1 AA
16178551 ATGTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:16178844 original size:30 final size:31
Alignment explanation
Indices: 16178805--16178864 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
16178795 GGAGGTGGGA
*
16178805 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
16178836 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
16178865 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:16179090 original size:9 final size:9
Alignment explanation
Indices: 16179076--16179103 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
16179066 TATAGTTTGA
16179076 TATTCGAAT
1 TATTCGAAT
16179085 TATTCGAAT
1 TATTCGAAT
16179094 TATTCGAAT
1 TATTCGAAT
16179103 T
1 T
16179104 CGAATTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:16183032 original size:30 final size:31
Alignment explanation
Indices: 16182987--16183045 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
16182977 GTTTAAGTAC
16182987 CAAATGTAAAAAAAGTGTCAAGTTCAGATGT
1 CAAATGTAAAAAAAGTGTCAAGTTCAGATGT
* * *
16183018 CAAAT-TAGAAAAAGTTTCAAGTTTAGAT
1 CAAATGTAAAAAAAGTGTCAAGTTCAGAT
16183046 ATTAAATACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (31 bp):
CAAATGTAAAAAAAGTGTCAAGTTCAGATGT
Found at i:16183380 original size:19 final size:19
Alignment explanation
Indices: 16183353--16183395 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
16183343 CATAAAAATC
*
16183353 ATATATAAGA-AATTGGTAT
1 ATATATAAGATAA-TGATAT
*
16183372 ATATGTAAGATAATGATAT
1 ATATATAAGATAATGATAT
16183391 ATATA
1 ATATA
16183396 AAATATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (19 bp):
ATATATAAGATAATGATAT
Found at i:16185012 original size:3 final size:3
Alignment explanation
Indices: 16185004--16185045 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
16184994 ACTGTCTTTG
16185004 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
16185046 TTCAATTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:16198198 original size:34 final size:35
Alignment explanation
Indices: 16198153--16198220 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
16198143 CCAGTAAAAT
* *
16198153 ATTTTCCGTAAAATGA-TTTCGGGAAAATGTTTTA
1 ATTTTCCGTAAAATGACTTACGGGAAAATATTTTA
* *
16198187 ATTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 ATTTTCCGTAAAATGACTTACGGGAAAATATTTT
16198221 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.52
35 14 0.48
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (35 bp):
ATTTTCCGTAAAATGACTTACGGGAAAATATTTTA
Found at i:16199780 original size:2 final size:2
Alignment explanation
Indices: 16199773--16199800 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16199763 AAGGGTGCTC
16199773 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
16199801 TTGTTATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16200283 original size:22 final size:24
Alignment explanation
Indices: 16200240--16200292 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 24
16200230 TTTAAAATTC
* * *
16200240 AAAATATATGTTATAATTTTTTTA
1 AAAATATATGATATAATATTTTAA
16200264 AAAATATAT-ATAT-ATATTTTAA
1 AAAATATATGATATAATATTTTAA
16200286 AAAATAT
1 AAAATAT
16200293 GTGCTTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 14 0.54
23 3 0.12
24 9 0.35
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
AAAATATATGATATAATATTTTAA
Found at i:16207434 original size:22 final size:23
Alignment explanation
Indices: 16207383--16207435 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
16207373 GAATCATATA
*
16207383 TGTTCTGTATATGAAACTGAAAT
1 TGTTTTGTATATGAAACTGAAAT
* *
16207406 TGCTTTTGTATATGTAACT-AATT
1 TG-TTTTGTATATGAAACTGAAAT
16207429 TGTTTTG
1 TGTTTTG
16207436 AATCTGAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 5 0.19
23 7 0.27
24 14 0.54
ACGTcount: A:0.26, C:0.08, G:0.17, T:0.49
Consensus pattern (23 bp):
TGTTTTGTATATGAAACTGAAAT
Found at i:16209306 original size:28 final size:28
Alignment explanation
Indices: 16209248--16209309 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
16209238 ATTATTCTGG
* *
16209248 GAAAAATAATTTTGACAAGATGGGTTCT
1 GAAAAATAAATTTGACAAGATGGATTCT
* * * *
16209276 GAAAAATAAATTTGAGATGATGTATTTT
1 GAAAAATAAATTTGACAAGATGGATTCT
16209304 GAAAAA
1 GAAAAA
16209310 ATTATTTTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.32
Consensus pattern (28 bp):
GAAAAATAAATTTGACAAGATGGATTCT
Found at i:16209469 original size:59 final size:59
Alignment explanation
Indices: 16209372--16209575 Score: 327
Period size: 59 Copynumber: 3.4 Consensus size: 59
16209362 CACAGCCAGT
16209372 AATATATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
1 AATA-ATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
* *
16209432 AATAATTTGTACAAAATTATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATTAA
1 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
* * *
16209491 AATAATTTTTACAAAAATATTGAAAAGAACTTCTATTTTATTAAATAAAACAATATAAA
1 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
* * *
16209550 AACAATTTGTATAAAAAAATTCAAAA
1 AATAATTTGTACAAAAATATTCAAAA
16209576 ATAAATCAAT
Statistics
Matches: 132, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 128 0.97
60 4 0.03
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (59 bp):
AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
Found at i:16211542 original size:19 final size:18
Alignment explanation
Indices: 16211506--16211554 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
16211496 AAAATTATAA
* *
16211506 AAAATATTAATTAAATTAT
1 AAAA-ATTAAATAAATTAG
16211525 AAAAATTAAATAATATTAG
1 AAAAATTAAATAA-ATTAG
*
16211544 AAAAATAAAAT
1 AAAAATTAAAT
16211555 TAACCCTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAAATTAAATAAATTAG
Found at i:16213749 original size:27 final size:28
Alignment explanation
Indices: 16213695--16213759 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 28
16213685 ATAAAAAATA
16213695 ATCAAAATATTATAACTTTTTTTTATTT
1 ATCAAAATATTATAACTTTTTTTTATTT
16213723 ATCAAAATATTATAA-TTTTTTTTATTT
1 ATCAAAATATTATAACTTTTTTTTATTT
16213750 A-CTAAAATAT
1 ATC-AAAATAT
16213760 ATCAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 1 0.03
27 20 0.56
28 15 0.42
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (28 bp):
ATCAAAATATTATAACTTTTTTTTATTT
Found at i:16214206 original size:19 final size:19
Alignment explanation
Indices: 16214182--16214247 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
16214172 ATTAAAATAG
16214182 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
16214201 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* *
16214219 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
16214238 TTTAATTTAA
1 TTTAATTTAA
16214248 AAAAATTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:16214512 original size:18 final size:19
Alignment explanation
Indices: 16214473--16214531 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
16214463 ATTTTATATT
16214473 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
16214492 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
16214510 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
16214529 TTA
1 TTA
16214532 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:16242471 original size:58 final size:62
Alignment explanation
Indices: 16242409--16242558 Score: 170
Period size: 58 Copynumber: 2.5 Consensus size: 62
16242399 GGATACGACA
* * * *
16242409 TAATAATTCTTGAAAGCAAGCAAGATTGAAA-TGTTCATCCCTTCGTA-AA-GTTA-T-TAAG
1 TAATAATTCTTGAAAGTAAGCAAGATTCAAAGCGCTCATCCCTT-GTATAAGGTTATTATAAG
* * *
16242467 TAATAACTCTTGAAAGTAAGCATGA-TCAAAGCGCTCATCCCTTTTATAAGGTTATTATAAG
1 TAATAATTCTTGAAAGTAAGCAAGATTCAAAGCGCTCATCCCTTGTATAAGGTTATTATAAG
*
16242528 TAATAATTCTAGAAAGTAAGCAAGA-TCAAAG
1 TAATAATTCTTGAAAGTAAGCAAGATTCAAAG
16242559 TGTTAGAGGT
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
57 6 0.08
58 34 0.44
59 4 0.05
60 1 0.01
61 32 0.42
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (62 bp):
TAATAATTCTTGAAAGTAAGCAAGATTCAAAGCGCTCATCCCTTGTATAAGGTTATTATAAG
Found at i:16253042 original size:126 final size:126
Alignment explanation
Indices: 16252817--16253066 Score: 464
Period size: 126 Copynumber: 2.0 Consensus size: 126
16252807 TGACAAACGA
16252817 GTTTGGATTCAAGTCCTAACTGTAACATCCCAAATACCCACTGAGTCGAGAACAATGATAAATCG
1 GTTTGGATTCAAGTCCTAACTGTAACATCCCAAATACCCACTGAGTCGAGAACAATGATAAATCG
*
16252882 AGAGTAGATATGTTAGAAACTGAGATGGTAATAACATAAAAATTATTACTATTAGTAGTGG
66 AGAGTAGATATGTTAGAAACTGAGATGGTAATAACACAAAAATTATTACTATTAGTAGTGG
*
16252943 GTTTGGATTCAAGTCCTAACTGTAACATCCCCAATACCCACTGAGTCGAGAACAATGATAAATCG
1 GTTTGGATTCAAGTCCTAACTGTAACATCCCAAATACCCACTGAGTCGAGAACAATGATAAATCG
* *
16253008 ATAGTAGATATGTTAGAAACTGATATGGTAATAACACAAAAATTATTACTATTAGTAGT
66 AGAGTAGATATGTTAGAAACTGAGATGGTAATAACACAAAAATTATTACTATTAGTAGT
16253067 AGGTAAAGAT
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 120 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (126 bp):
GTTTGGATTCAAGTCCTAACTGTAACATCCCAAATACCCACTGAGTCGAGAACAATGATAAATCG
AGAGTAGATATGTTAGAAACTGAGATGGTAATAACACAAAAATTATTACTATTAGTAGTGG
Found at i:16254015 original size:25 final size:25
Alignment explanation
Indices: 16253985--16254033 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
16253975 ATTAGATGTA
16253985 TTAATATTTACATGTTTTTAATTAT
1 TTAATATTTACATGTTTTTAATTAT
16254010 TTAATATTTACATGTTTTTAATTA
1 TTAATATTTACATGTTTTTAATTA
16254034 CTAACTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (25 bp):
TTAATATTTACATGTTTTTAATTAT
Found at i:16254042 original size:25 final size:25
Alignment explanation
Indices: 16253986--16254042 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
16253976 TTAGATGTAT
*
16253986 TAATATTTACATGTTTTTAATTATT
1 TAATATTTACATGTTTTTAATTATC
16254011 TAATATTTACATGTTTTTAATTA-C
1 TAATATTTACATGTTTTTAATTATC
16254035 TAACTATT
1 TAA-TATT
16254043 GTGTTATGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 3 0.10
25 27 0.90
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (25 bp):
TAATATTTACATGTTTTTAATTATC
Found at i:16259790 original size:18 final size:18
Alignment explanation
Indices: 16259767--16259808 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
16259757 TAATAAGTTT
*
16259767 TTAATTTAATAAATTT-AA
1 TTAATTGAA-AAATTTAAA
*
16259785 TTAATTGAAAATTTTAAA
1 TTAATTGAAAAATTTAAA
16259803 TTAATT
1 TTAATT
16259809 ACACCTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TTAATTGAAAAATTTAAA
Found at i:16260181 original size:18 final size:20
Alignment explanation
Indices: 16260140--16260181 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
16260130 TTATACTAAC
*
16260140 TATTTAAAATGTATTTACAA
1 TATTTAAAATGTATGTACAA
16260160 -ATTT-AAATGTATGTA-AA
1 TATTTAAAATGTATGTACAA
16260177 TATTT
1 TATTT
16260182 CATCTATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 2 0.10
18 14 0.70
19 4 0.20
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (20 bp):
TATTTAAAATGTATGTACAA
Found at i:16260403 original size:28 final size:27
Alignment explanation
Indices: 16260371--16260461 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 27
16260361 ATAATTATAT
16260371 TTAAAATTCTAAAATATTTCATGTATCA
1 TTAAAATTCTAAAATATTT-ATGTATCA
*
16260399 TTAAAATTCTAAAGTATCATTTAT-TATTATA
1 TTAAAATTCTAAA--AT-ATTTATGTA-T-CA
16260430 TTTAAAATTCTAAAATATTTTATGTATCA
1 -TTAAAATTCTAAAATA-TTTATGTATCA
16260459 TTA
1 TTA
16260462 GATTTATAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
28 16 0.30
29 4 0.08
30 13 0.25
31 7 0.13
32 13 0.25
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (27 bp):
TTAAAATTCTAAAATATTTATGTATCA
Found at i:16260428 original size:60 final size:60
Alignment explanation
Indices: 16260331--16260461 Score: 208
Period size: 60 Copynumber: 2.2 Consensus size: 60
16260321 TGCCAACACT
16260331 ATGTATCATTAAAACTCAAAAACATCATTTATAATTATATTTAAAATTCTAAAATATTTC
1 ATGTATCATTAAAACTCAAAAACATCATTTATAATTATATTTAAAATTCTAAAATATTTC
* * ** * *
16260391 ATGTATCATTAAAATTCTAAAGTATCATTTATTATTATATTTAAAATTCTAAAATATTTT
1 ATGTATCATTAAAACTCAAAAACATCATTTATAATTATATTTAAAATTCTAAAATATTTC
16260451 ATGTATCATTA
1 ATGTATCATTA
16260462 GATTTATAGC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (60 bp):
ATGTATCATTAAAACTCAAAAACATCATTTATAATTATATTTAAAATTCTAAAATATTTC
Found at i:16260440 original size:32 final size:30
Alignment explanation
Indices: 16260354--16260449 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 30
16260344 ACTCAAAAAC
*
16260354 ATCATTTATAATTATATTTAAAATTCTAAA
1 ATCATTTATTATTATATTTAAAATTCTAAA
*
16260384 AT-ATTTCATGTA-T-CA-TTAAAATTCTAAA
1 ATCATTT-AT-TATTATATTTAAAATTCTAAA
16260412 GTATCATTTATTATTATATTTAAAATTCTAAA
1 --ATCATTTATTATTATATTTAAAATTCTAAA
16260444 AT-ATTT
1 ATCATTT
16260450 TATGTATCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
28 13 0.24
29 11 0.20
30 12 0.22
31 6 0.11
32 13 0.24
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (30 bp):
ATCATTTATTATTATATTTAAAATTCTAAA
Found at i:16264883 original size:11 final size:10
Alignment explanation
Indices: 16264867--16264902 Score: 56
Period size: 9 Copynumber: 3.6 Consensus size: 10
16264857 CGCAAATACG
16264867 TATAAATATTA
1 TATAAATA-TA
16264878 TATAAATATA
1 TATAAATATA
16264888 TAT-AATATA
1 TATAAATATA
16264897 TATAAA
1 TATAAA
16264903 AATGTGCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.38
10 7 0.29
11 8 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TATAAATATA
Found at i:16265050 original size:16 final size:16
Alignment explanation
Indices: 16265029--16265064 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
16265019 AAATGGAAAG
16265029 TATATAGATATACATA
1 TATATAGATATACATA
16265045 TATATAGATATACATA
1 TATATAGATATACATA
16265061 TATA
1 TATA
16265065 AAAAGGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATAGATATACATA
Found at i:16265122 original size:8 final size:8
Alignment explanation
Indices: 16265109--16265137 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
16265099 AAAAGAATAG
16265109 ATATACAT
1 ATATACAT
16265117 ATATACAT
1 ATATACAT
16265125 ATATACAT
1 ATATACAT
16265133 ATATA
1 ATATA
16265138 AGCAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATACAT
Found at i:16265225 original size:3 final size:3
Alignment explanation
Indices: 16265217--16265242 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16265207 TGAGAATGAG
16265217 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
16265243 ATTTATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16266707 original size:46 final size:46
Alignment explanation
Indices: 16266677--16268181 Score: 1829
Period size: 46 Copynumber: 32.7 Consensus size: 46
16266667 TTCAATCTAA
*
16266677 TTCGCTGCTAAATACAGGAAGACAAGATCTGCTATCTTCGATC-CAC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTC-C
*
16266723 TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATC-CAC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTC-C
* * *
16266769 TCCGCTACCAAATACAGGAAGACAAGATCTGCTATCTTCGATC-CA
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
* *
16266814 TTCCGCTGCCAAATACAGGAAGATAAGATCTGCTATCTTCGA-CCCAC
1 TT-CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTC-C
* * * *
16266861 TCCACTGCAAAATACAGGAAGACAAAATCTGCTATCTTCGATC-CAC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTC-C
*
16266907 -TCTGCTGCCAAATACAGGAAGACAAGATATGCTATCTTCGATC-CAC
1 TTC-GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTC-C
*
16266953 -TCTGCTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATC-CAC
1 TTC-GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTC-C
*
16266999 -TCTGCTGCCAAATACAGGAAGACAAGATCTACTATCTTCGATCT-C
1 TTC-GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
* *
16267044 TTCCACTGCCAAATACAGGAAGACATGATCTGCTATCTTCGATC-CAC
1 TT-CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTC-C
* * * *
16267091 -TCTGCTGCCAAATACAGAAAGACAAGATCTACTATTTTCGATC-CAA
1 TTC-GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTC-C
* *
16267137 TCCGTTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
* * * * *
16267183 TCCGCTGCCAAATATAGGAAGACAAGATTTACTATCTTCGATATCC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
* *
16267229 -TCTGCTGCCAAATACAGGAAGATAAGATCCGCTATCTTCGATCTCC
1 TTC-GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
* * * * *
16267275 TCCGCTGCCAAATACAGAAAGATAAGATCCGCTATCTTTGATCTCC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
* *
16267321 -TCTGCTGCCAAATACAGGAAGATAAGATCTGCTATCTTTGATC-CAC
1 TTC-GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTC-C
* * *
16267367 TCCGCTGCCAAATACAGGAAGATAAGATCTGCTATCTTCGATC-CA
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
16267412 TTCCGCTGCCAAATACAGGAAGACAAGAT-TCGCTATCTTCGATCTCC
1 TT-CGCTGCCAAATACAGGAAGACAAGATCT-GCTATCTTCGATCTCC
* * * * *
16267459 TTCGCTGCCAAATACAGGAAGAGAAGACCCGCTATCTTTGATCTCT
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
*
16267505 TTTGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
* * *
16267551 TCCGTTGCTAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
* * * * *
16267597 TCCGCTGCCAAATATAGTAAGACAAGATTTGTTATCTTCGATCTCC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
16267643 -TCTGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
1 TTC-GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
* * *
16267689 TCCGCTGCCAAATACAAGAAGACAAGATCTGCTATCTTTGATCTCC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
* *
16267735 TCCGCTGCTAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
* * *
16267781 -TCTACTGCCAAATACAAGAAGATAAGATCTGCTATCTTCGATCTCC
1 TTC-GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
* * * * *
16267827 TCCGCTGTCAAATACAAGAAGATAAGAT-TCGCTATATTCGATCTCC
1 TTCGCTGCCAAATACAGGAAGACAAGATCT-GCTATCTTCGATCTCC
* * * *
16267873 TCCGCTGCCAAATACAGGAAGATAAGATCCGCTATCTTTGATCTCC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
* * *
16267919 TTCGCTGCCAAATACAGGAAGATAAGATCCT-TTATCTTTGATC-CAC
1 TTCGCTGCCAAATACAGGAAGACAAGAT-CTGCTATCTTCGATCTC-C
* *
16267965 TCCGCTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATC-CAC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTC-C
* * *
16268011 TCCGCTGCCAAATATAGGAAGACAAGATCTGCTATATTCGATC-CAC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTC-C
*
16268057 TTCGCTGCCAAATACAGGAAGACAAGATCTACTATCTTCGATCTCC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
* * * *
16268103 TCCACTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATTTAC
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
* *
16268149 TTTGCTGCCAAATACAGGAAGACGAGATCTGCT
1 TTCGCTGCCAAATACAGGAAGACAAGATCTGCT
16268182 GCTTCTAGTC
Statistics
Matches: 1296, Mismatches: 131, Indels: 64
0.87 0.09 0.04
Matches are distributed among these distances:
45 16 0.01
46 1265 0.98
47 15 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (46 bp):
TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCC
Found at i:16269612 original size:20 final size:18
Alignment explanation
Indices: 16269584--16269648 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 18
16269574 TGGCCTCTCC
16269584 TTTTTCTTTTTATTTTCTT
1 TTTTTCTTTTT-TTTTCTT
*
16269603 TTTCTTCTTTTCTTTTCCTT
1 TTT-TTCTTTT-TTTTTCTT
16269623 TTTTTCTGTTCTTTTTTTCTT
1 TTTTTC--TT-TTTTTTTCTT
16269644 TTTTT
1 TTTTT
16269649 TTTCTGTTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 6 0.15
20 16 0.41
21 15 0.38
22 2 0.05
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTTTTTTCTT
Found at i:16269615 original size:14 final size:14
Alignment explanation
Indices: 16269596--16269667 Score: 76
Period size: 14 Copynumber: 5.1 Consensus size: 14
16269586 TTTCTTTTTA
*
16269596 TTTTCTTTTTCTTC
1 TTTTCTTTTTCTTT
*
16269610 TTTTCTTTTCCTTT
1 TTTTCTTTTTCTTT
*
16269624 TTTTC-TGTTCTTT
1 TTTTCTTTTTCTTT
*
16269637 TTTTCTTTTTTTTT
1 TTTTCTTTTTCTTT
16269651 TCTGTTCTTTTT-TTT
1 T-T-TTCTTTTTCTTT
16269666 TT
1 TT
16269668 GGACATTCCT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
13 11 0.22
14 25 0.51
15 5 0.10
16 8 0.16
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (14 bp):
TTTTCTTTTTCTTT
Found at i:16269634 original size:27 final size:24
Alignment explanation
Indices: 16269584--16269667 Score: 86
Period size: 24 Copynumber: 3.4 Consensus size: 24
16269574 TGGCCTCTCC
16269584 TTTTTCTTTTTATTTTCTT-T-TTCT
1 TTTTTCTTTTT-TTTT-TTCTGTTCT
16269608 TCTTTTCTTTTCCTTTTTTTCTGTTCT
1 T-TTTTCTTTT--TTTTTTTCTGTTCT
16269635 TTTTT-TCTTTTTTTTTTCTGTTCT
1 TTTTTCT-TTTTTTTTTTCTGTTCT
16269659 TTTTT-TTTT
1 TTTTTCTTTT
16269668 GGACATTCCT
Statistics
Matches: 54, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
23 3 0.06
24 21 0.39
25 12 0.22
26 12 0.22
27 6 0.11
ACGTcount: A:0.01, C:0.14, G:0.02, T:0.82
Consensus pattern (24 bp):
TTTTTCTTTTTTTTTTTCTGTTCT
Found at i:16269664 original size:19 final size:19
Alignment explanation
Indices: 16269584--16269667 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 19
16269574 TGGCCTCTCC
* *
16269584 TTTTTCTTTTTATTTTCTT
1 TTTTTTTTTTTCTTTTCTT
* * *
16269603 TTTCTTCTTTTCTTTTCCT
1 TTTTTTTTTTTCTTTTCTT
* *
16269622 TTTTTTCTGTTCTTTT-TT
1 TTTTTTTTTTTCTTTTCTT
*
16269640 TCTTTTTTTTTTCTGTTCTT
1 T-TTTTTTTTTTCTTTTCTT
16269660 TTTTTTTT
1 TTTTTTTT
16269668 GGACATTCCT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
18 2 0.04
19 47 0.90
20 3 0.06
ACGTcount: A:0.01, C:0.14, G:0.02, T:0.82
Consensus pattern (19 bp):
TTTTTTTTTTTCTTTTCTT
Found at i:16274238 original size:11 final size:10
Alignment explanation
Indices: 16274222--16274259 Score: 58
Period size: 11 Copynumber: 3.6 Consensus size: 10
16274212 CGCAAATACG
16274222 TATAAATATTA
1 TATAAATA-TA
16274233 TATAAATATA
1 TATAAATATA
16274243 TATATAATATA
1 TATA-AATATA
16274254 TATAAA
1 TATAAA
16274260 AATGTGCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TATAAATATA
Found at i:16274409 original size:16 final size:16
Alignment explanation
Indices: 16274388--16274423 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
16274378 AAATGGAAAG
16274388 TATATAGATATACATA
1 TATATAGATATACATA
16274404 TATATAGATATACATA
1 TATATAGATATACATA
16274420 TATA
1 TATA
16274424 AAAAAGGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATAGATATACATA
Found at i:16274482 original size:8 final size:8
Alignment explanation
Indices: 16274469--16274497 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
16274459 AAAAGAATAG
16274469 ATATACAT
1 ATATACAT
16274477 ATATACAT
1 ATATACAT
16274485 ATATACAT
1 ATATACAT
16274493 ATATA
1 ATATA
16274498 AGCAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATACAT
Found at i:16274585 original size:3 final size:3
Alignment explanation
Indices: 16274577--16274602 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16274567 TGAGAATGAG
16274577 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
16274603 ATTTATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16280491 original size:52 final size:52
Alignment explanation
Indices: 16280429--16280537 Score: 209
Period size: 52 Copynumber: 2.1 Consensus size: 52
16280419 TTAACTTTAA
16280429 AAACTAAAAATCAATAAGAAGTATTAAAAAGGCTCATAAATTGCTAGAGAAT
1 AAACTAAAAATCAATAAGAAGTATTAAAAAGGCTCATAAATTGCTAGAGAAT
*
16280481 AAACTAAAAATCAATAAGAAGTATTAAAAAGGCTCGTAAATTGCTAGAGAAT
1 AAACTAAAAATCAATAAGAAGTATTAAAAAGGCTCATAAATTGCTAGAGAAT
16280533 AAACT
1 AAACT
16280538 CGTCAAGTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.23
Consensus pattern (52 bp):
AAACTAAAAATCAATAAGAAGTATTAAAAAGGCTCATAAATTGCTAGAGAAT
Found at i:16280971 original size:24 final size:24
Alignment explanation
Indices: 16280922--16280971 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
16280912 AAAATGCATC
* *
16280922 AAAATAAAATATTATATACACAAT
1 AAAATAAAATATAAAATACACAAT
*
16280946 AAAATAAAAT-TAAAATTCACATAT
1 AAAATAAAATATAAAATACACA-AT
16280970 AA
1 AA
16280972 CATTACATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAATAAAATATAAAATACACAAT
Found at i:16285423 original size:17 final size:18
Alignment explanation
Indices: 16285380--16285433 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
16285370 AAAATACATA
*
16285380 TATATGTATAATTAT-TAAT
1 TATAT-TAT-ATTATATATT
16285399 TATATTATATTATATATT
1 TATATTATATTATATATT
*
16285417 TAT-TTATATTATTTATT
1 TATATTATATTATATATT
16285434 AAAAATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 18 0.56
18 9 0.28
19 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TATATTATATTATATATT
Found at i:16285441 original size:24 final size:22
Alignment explanation
Indices: 16285398--16285441 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
16285388 TAATTATTAA
* *
16285398 TTATATTATATTATATATTTAT
1 TTATATTATATTAAAAATTTAT
16285420 TTATATTATTTATTAAAAATTT
1 TTATATTA--TATTAAAAATTT
16285442 TAGCTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
24 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTATATTATATTAAAAATTTAT
Found at i:16285540 original size:5 final size:5
Alignment explanation
Indices: 16285524--16285555 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
16285514 TATAAAGTTT
*
16285524 ATATA ATGTA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT
16285556 TATGCAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:16289044 original size:24 final size:25
Alignment explanation
Indices: 16289017--16289070 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
16289007 ATTTTTCATT
16289017 ATATTAT-TAA-ATTTATATTTAAAA
1 ATATTATATAATATTTA-ATTTAAAA
*
16289041 ATATT-TATAATATTTAATTTAGAA
1 ATATTATATAATATTTAATTTAAAA
*
16289065 TTATTA
1 ATATTA
16289071 ATTTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 1 0.04
24 19 0.76
25 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
ATATTATATAATATTTAATTTAAAA
Found at i:16289190 original size:22 final size:21
Alignment explanation
Indices: 16289140--16289191 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 21
16289130 TCATTTGCTG
16289140 AATATGTTAAAATCGTTTTATTT
1 AATAT-TTAAAATC-TTTTATTT
*
16289163 ATTATTTAAAAT-TTTCTATTAT
1 AATATTTAAAATCTTT-TATT-T
16289185 AATATTT
1 AATATTT
16289192 GAATGGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 3 0.12
21 4 0.16
22 14 0.56
23 4 0.16
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
AATATTTAAAATCTTTTATTT
Found at i:16294452 original size:21 final size:21
Alignment explanation
Indices: 16294428--16294467 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
16294418 CGTGTCAATA
16294428 TTTA-ATTACAAATATTTAATT
1 TTTATATT-CAAATATTTAATT
*
16294449 TTTATATTTAAATATTTAA
1 TTTATATTCAAATATTTAA
16294468 ATATAGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATATTCAAATATTTAATT
Found at i:16294746 original size:13 final size:13
Alignment explanation
Indices: 16294725--16294775 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
16294715 ACACTCAAAA
16294725 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
* *
16294738 TTCTGAAAAACAC
1 TTCTCAAAAGCAC
16294751 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
16294764 TTCTCAAAAGCA
1 TTCTCAAAAGCA
16294776 ATGAAGAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:16295446 original size:6 final size:6
Alignment explanation
Indices: 16295437--16295496 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
16295427 ATAATGTTAG
* * * *
16295437 AGATGA AGATGA AGATGA AAATTGA TG-TGG AGATGG AGATGA AGATGA
1 AGATGA AGATGA AGATGA AGA-TGA AGATGA AGATGA AGATGA AGATGA
* *
16295485 AAATGA CGATGA
1 AGATGA AGATGA
16295497 TAAGCTAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
5 3 0.07
6 37 0.86
7 3 0.07
ACGTcount: A:0.45, C:0.02, G:0.33, T:0.20
Consensus pattern (6 bp):
AGATGA
Found at i:16307172 original size:29 final size:30
Alignment explanation
Indices: 16307113--16307170 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16307103 TCCGAGCCTT
*
16307113 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
16307143 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
16307171 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:16307400 original size:13 final size:13
Alignment explanation
Indices: 16307382--16307413 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16307372 TTTCCAGCAA
16307382 TTATGAATTTATT
1 TTATGAATTTATT
16307395 TTATGAATTTATT
1 TTATGAATTTATT
*
16307408 TGATGA
1 TTATGA
16307414 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:16307620 original size:50 final size:50
Alignment explanation
Indices: 16307507--16307748 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
16307497 ATTTGGGTAA
* * *
16307507 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
16307563 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
16307613 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
16307663 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
16307713 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
16307749 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:16307696 original size:100 final size:103
Alignment explanation
Indices: 16307507--16307756 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
16307497 ATTTGGGTAA
16307507 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
16307572 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
16307613 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
16307675 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
16307713 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
16307757 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:16314764 original size:29 final size:30
Alignment explanation
Indices: 16314705--16314762 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16314695 TCCGAGCCTT
*
16314705 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
16314735 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
16314763 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:16314993 original size:14 final size:13
Alignment explanation
Indices: 16314974--16315007 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
16314964 TTTCCAGCAA
16314974 TTATGAATTTATAT
1 TTATGAATTT-TAT
16314988 TTATGAATTTTAT
1 TTATGAATTTTAT
16315001 TTGATGA
1 TT-ATGA
16315008 TGATCCAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTTAT
Found at i:16315217 original size:50 final size:50
Alignment explanation
Indices: 16315104--16315345 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
16315094 ATTTGGGTAA
* * *
16315104 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
16315160 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
16315210 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
16315260 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
16315310 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
16315346 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:16315293 original size:100 final size:103
Alignment explanation
Indices: 16315104--16315353 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
16315094 ATTTGGGTAA
16315104 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
16315169 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
16315210 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
16315272 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
16315310 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
16315354 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:16316560 original size:29 final size:29
Alignment explanation
Indices: 16316520--16316579 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
16316510 TTATAAGTAA
16316520 TTTAGTAACTGCTGCGCGATTGGACAGAT
1 TTTAGTAACTGCTGCGCGATTGGACAGAT
16316549 TTTAGTAACTGCTGCGCGATTGGACAGAT
1 TTTAGTAACTGCTGCGCGATTGGACAGAT
16316578 TT
1 TT
16316580 GCTGCGAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (29 bp):
TTTAGTAACTGCTGCGCGATTGGACAGAT
Found at i:16316896 original size:24 final size:25
Alignment explanation
Indices: 16316869--16316916 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
16316859 AAAAGGAAGT
*
16316869 TTAAAGAACTTAAAA-GAAAAAAAA
1 TTAAAGAACTCAAAACGAAAAAAAA
**
16316893 TTAAAGTGCTCAAAACGAAAAAAA
1 TTAAAGAACTCAAAACGAAAAAAA
16316917 TATGGGGACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.65, C:0.08, G:0.10, T:0.17
Consensus pattern (25 bp):
TTAAAGAACTCAAAACGAAAAAAAA
Found at i:16317059 original size:31 final size:29
Alignment explanation
Indices: 16317024--16317097 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
16317014 ACGGCTCAAA
*
16317024 GACTAAAATGTTACAATACGATAACATAAGT
1 GACTAAAATGTAACAATAC-A-AACATAAGT
* * *
16317055 GACTAAAACGTAACATTTCAAACATAAGT
1 GACTAAAATGTAACAATACAAACATAAGT
16317084 GACTAAAATGTAAC
1 GACTAAAATGTAAC
16317098 CTGAGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 22 0.58
30 1 0.03
31 15 0.39
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (29 bp):
GACTAAAATGTAACAATACAAACATAAGT
Found at i:16318089 original size:22 final size:24
Alignment explanation
Indices: 16318063--16318106 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
16318053 GAAAAATATT
16318063 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
16318085 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
16318107 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:16318217 original size:9 final size:9
Alignment explanation
Indices: 16318203--16318230 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
16318193 TTTTGTTACA
16318203 ACAATTAAT
1 ACAATTAAT
16318212 ACAATTAAT
1 ACAATTAAT
16318221 ACAATTAAT
1 ACAATTAAT
16318230 A
1 A
16318231 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:16318252 original size:68 final size:68
Alignment explanation
Indices: 16318173--16318373 Score: 307
Period size: 59 Copynumber: 3.1 Consensus size: 68
16318163 TCAAGTTTGT
*
16318173 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
16318238 AAA
66 AAA
16318241 TTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
16318297 AAA
66 AAA
16318300 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
16318363 AAT
66 AAA
16318366 TTTACTAA
1 TTTACTAA
16318374 CAATTAATTT
Statistics
Matches: 122, Mismatches: 2, Indels: 20
0.85 0.01 0.14
Matches are distributed among these distances:
59 56 0.46
60 1 0.01
62 2 0.02
65 2 0.02
66 27 0.22
67 2 0.02
68 32 0.26
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:16318383 original size:16 final size:16
Alignment explanation
Indices: 16318362--16318403 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
16318352 AATAATTTGA
*
16318362 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
16318378 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
16318394 TAGTTTTAAT
1 TAATTTTAAT
16318404 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:16318402 original size:22 final size:22
Alignment explanation
Indices: 16318377--16318436 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
16318367 TTACTAACAA
16318377 TTAATTTTAATAACAA-TTAGTT
1 TTAATTTTAATAA-AATTTAGTT
* **
16318399 TTAATTTTATTAAAATTTTTTT
1 TTAATTTTAATAAAATTTAGTT
16318421 TTAATTTTAATTAAAA
1 TTAATTTTAA-TAAAA
16318437 ATGGGCCGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 2 0.06
22 25 0.78
23 5 0.16
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTAATTTTAATAAAATTTAGTT
Found at i:16319396 original size:23 final size:23
Alignment explanation
Indices: 16319370--16319426 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
16319360 TTGTGACGAT
*
16319370 AGGGGGTTCCTCGTCACTATGTC
1 AGGGGGTTCCTCGTCACGATGTC
*
16319393 AGGGGGTTCTTCGTCACGATGTC
1 AGGGGGTTCCTCGTCACGATGTC
16319416 AGGGGGTTCCT
1 AGGGGGTTCCT
16319427 TATCTTACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.12, C:0.23, G:0.35, T:0.30
Consensus pattern (23 bp):
AGGGGGTTCCTCGTCACGATGTC
Found at i:16320587 original size:21 final size:21
Alignment explanation
Indices: 16320563--16320605 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
16320553 ACCTTTTCTA
**
16320563 AAGTTAAAAGTTAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
16320584 AAGTTAAAAGGCAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
16320605 A
1 A
16320606 TGTTGTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACCATT
Found at i:16321338 original size:20 final size:20
Alignment explanation
Indices: 16321276--16321338 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
16321266 AAGATTACAA
*
16321276 AAAATTCAAAATAAAT-TTT
1 AAAATTCAAAATATATATTT
* **
16321295 AAAATTCAAAATATTTATAA
1 AAAATTCAAAATATATATTT
*
16321315 AAAATCCAAAATATATATTT
1 AAAATTCAAAATATATATTT
16321335 AAAA
1 AAAA
16321339 ATTTATAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 14 0.40
20 21 0.60
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTCAAAATATATATTT
Found at i:16321358 original size:41 final size:39
Alignment explanation
Indices: 16321270--16321359 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
16321260 TCAACAAAGA
* * *
16321270 TTACAAAAAATTCAAAATAAATTTTAAAATTCAAAATAT
1 TTACAAAAAATCCAAAATAAATTTAAAAATTCAAAAAAT
* *
16321309 TTATAAAAAATCCAAAATATATATTTAAAAATTTATAAAAAT
1 TTACAAAAAATCCAAAATA-A-ATTTAAAAATTCA-AAAAAT
16321351 TT-CAAAAAA
1 TTACAAAAAA
16321360 AATCTAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
39 17 0.40
40 1 0.02
41 17 0.40
42 7 0.17
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (39 bp):
TTACAAAAAATCCAAAATAAATTTAAAAATTCAAAAAAT
Found at i:16324441 original size:34 final size:34
Alignment explanation
Indices: 16324398--16324596 Score: 218
Period size: 34 Copynumber: 5.8 Consensus size: 34
16324388 AATTGATGTA
* * *
16324398 TGAATATGAGAGATTCCCTGCAAGAAATGATGTG
1 TGAACATGAAAGATTCCCTGCAAGAAATGATGCG
* * *
16324432 TGAACATGAGAGATTCCCTGCAACAAAATAATGCG
1 TGAACATGAAAGATTCCCTGCAA-GAAATGATGCG
*
16324467 TGAACATGAAATATTCCCTGCAAGAAATGATGCG
1 TGAACATGAAAGATTCCCTGCAAGAAATGATGCG
* * *
16324501 TGAAGAGGAAAGATTCCCTGCAAGAAATGATGTG
1 TGAACATGAAAGATTCCCTGCAAGAAATGATGCG
* * * * * *
16324535 TGAACATGAGAGATTCTCTGTAACAAAATAATACG
1 TGAACATGAAAGATTCCCTGCAA-GAAATGATGCG
* *
16324570 TGAACAGGAAATATTCCCTGCAAGAAA
1 TGAACATGAAAGATTCCCTGCAAGAAA
16324597 AGACAAGAGA
Statistics
Matches: 136, Mismatches: 27, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
34 82 0.60
35 54 0.40
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.23
Consensus pattern (34 bp):
TGAACATGAAAGATTCCCTGCAAGAAATGATGCG
Found at i:16324497 original size:69 final size:68
Alignment explanation
Indices: 16324410--16324597 Score: 214
Period size: 69 Copynumber: 2.7 Consensus size: 68
16324400 AATATGAGAG
* * *
16324410 ATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCCCTGCAACAAAATAATGCGTGAACATG
1 ATTCCCTGCAAGAAATGATGCGTGAACAGGAAAGATTCCCTGCAA-AAAATAATGCGTGAACATG
16324475 AAAT
65 AAAT
* * * *
16324479 ATTCCCTGCAAGAAATGATGCGTGAAGAGGAAAGATTCCCTGCAAGAAATGATGTGTGAACATGA
1 ATTCCCTGCAAGAAATGATGCGTGAACAGGAAAGATTCCCTGCAAAAAATAATGCGTGAACATGA
* *
16324544 GAG
66 AAT
* * * * * *
16324547 ATTCTCTGTAACAAAATAATACGTGAACAGGAAATATTCCCTGCAAGAAAA
1 ATTCCCTGCAA-GAAATGATGCGTGAACAGGAAAGATTCCCTGCAA-AAAA
16324598 GACAAGAGAA
Statistics
Matches: 100, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
68 27 0.27
69 70 0.70
70 3 0.03
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.22
Consensus pattern (68 bp):
ATTCCCTGCAAGAAATGATGCGTGAACAGGAAAGATTCCCTGCAAAAAATAATGCGTGAACATGA
AAT
Found at i:16324572 original size:103 final size:103
Alignment explanation
Indices: 16324408--16324596 Score: 342
Period size: 103 Copynumber: 1.8 Consensus size: 103
16324398 TGAATATGAG
*
16324408 AGATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCCCTGCAACAAAATAATGCGTGAACA
1 AGATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCCCTGCAACAAAATAATACGTGAACA
*
16324473 TGAAATATTCCCTGCAAGAAATGATGCGTGAAGAGGAA
66 GGAAATATTCCCTGCAAGAAATGATGCGTGAAGAGGAA
* *
16324511 AGATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCTCTGTAACAAAATAATACGTGAACA
1 AGATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCCCTGCAACAAAATAATACGTGAACA
16324576 GGAAATATTCCCTGCAAGAAA
66 GGAAATATTCCCTGCAAGAAA
16324597 AGACAAGAGA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 82 1.00
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (103 bp):
AGATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCCCTGCAACAAAATAATACGTGAACA
GGAAATATTCCCTGCAAGAAATGATGCGTGAAGAGGAA
Found at i:16324864 original size:14 final size:13
Alignment explanation
Indices: 16324834--16324871 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
16324824 AGTTTCCAAA
*
16324834 TTTTCAAATTAAG
1 TTTTCAAATTAAC
16324847 TTTTCAAACTTAAC
1 TTTTCAAA-TTAAC
16324861 TTTTCAAATTA
1 TTTTCAAATTA
16324872 CAAATATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAC
Found at i:16327525 original size:3 final size:3
Alignment explanation
Indices: 16327517--16327543 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16327507 AATAAACATT
16327517 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
16327544 TTATTGCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16330377 original size:17 final size:18
Alignment explanation
Indices: 16330345--16330378 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16330335 GCTGAGGATG
*
16330345 GTCATGTTTTTGTTTCAC
1 GTCATGTTTATGTTTCAC
16330363 GTCATG-TTATGTTTCA
1 GTCATGTTTATGTTTCA
16330379 TGAAACACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.53
Consensus pattern (18 bp):
GTCATGTTTATGTTTCAC
Found at i:16337962 original size:33 final size:33
Alignment explanation
Indices: 16337885--16337966 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
16337875 TTTCCCCCAA
* * * * *
16337885 TACTTAACCTGATTATTGAGGCATCATCGCTGC
1 TACTTAACCTGCTTATAGGGGCACCATCACTGC
16337918 TACTTAACCTGCTTATAGGGGCACCATCACTGC
1 TACTTAACCTGCTTATAGGGGCACCATCACTGC
**
16337951 TACTTGGCCTGCTTAT
1 TACTTAACCTGCTTAT
16337967 TTGAACATCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (33 bp):
TACTTAACCTGCTTATAGGGGCACCATCACTGC
Found at i:16343901 original size:15 final size:15
Alignment explanation
Indices: 16343881--16343936 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
16343871 ATTTACTAAA
*
16343881 ATTATAATATATAAT
1 ATTATAAAATATAAT
16343896 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
16343909 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
16343922 ATTATTAAATATAAT
1 ATTATAAAATATAAT
16343937 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:16343962 original size:59 final size:59
Alignment explanation
Indices: 16343886--16344084 Score: 205
Period size: 59 Copynumber: 3.3 Consensus size: 59
16343876 CTAAAATTAT
16343886 AATATATAATATT-ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
* * * * * *
16343945 AATATATAATTTAATAAAAT-T--CTTAGTATTAAATATTCTT--ATATGAATTT-ACTAA
1 AATATATAATTTAATAAAATATAATTTA-AAATAATTATTATTAAATAT-AATTTAACAAA
*
16344000 AATCATAATATATTATACTATAAAATATAATTTAAAATAATTATGATTAAATATAATTTAACAAA
1 AAT-AT-ATA-ATT-TA--ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
16344065 AATATATAATTTAATAAAAT
1 AATATATAATTTAATAAAAT
16344085 TCTTAGTATT
Statistics
Matches: 112, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
55 11 0.10
56 10 0.09
57 13 0.12
58 6 0.05
59 26 0.23
61 9 0.08
62 4 0.04
63 12 0.11
64 10 0.09
65 11 0.10
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (59 bp):
AATATATAATTTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
Found at i:16343997 original size:120 final size:120
Alignment explanation
Indices: 16343864--16344103 Score: 444
Period size: 120 Copynumber: 2.0 Consensus size: 120
16343854 TTTAATAGAA
* * *
16343864 TATATGAATTTACTAAAATTATAATATATAATATTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
16343929 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
*
16343984 TATATGAATTTACTAAAATCATAATATATTATACTATAAAATATAATTTAAAATAATTATGATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
16344049 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
16344104 AATGATTGTA
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
Found at i:16351025 original size:13 final size:13
Alignment explanation
Indices: 16351007--16351034 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16350997 AATATAATGG
16351007 TTGTCAATTATTA
1 TTGTCAATTATTA
16351020 TTGTCAATTATTA
1 TTGTCAATTATTA
16351033 TT
1 TT
16351035 TTGTGATGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTGTCAATTATTA
Found at i:16354961 original size:37 final size:37
Alignment explanation
Indices: 16354907--16355021 Score: 117
Period size: 37 Copynumber: 3.1 Consensus size: 37
16354897 AATTTTAAAT
*
16354907 ATAATGATAAATAATATTTAAATAATTTAATATAATG
1 ATAATAATAAATAATATTTAAATAATTTAATATAATG
* ** * * * *
16354944 ATATTTGTAAATGATATTTAAACATTTTTAGGA-AAAAT-
1 ATAATAATAAATAATATTTAAATA-ATTTA--ATATAATG
16354982 ATAATAATAAATAATATTTAAATAATTTAATATAATG
1 ATAATAATAAATAATATTTAAATAATTTAATATAATG
16355019 ATA
1 ATA
16355022 CATTAAATAA
Statistics
Matches: 59, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
35 1 0.02
36 4 0.07
37 26 0.44
38 23 0.39
39 4 0.07
40 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (37 bp):
ATAATAATAAATAATATTTAAATAATTTAATATAATG
Found at i:16355059 original size:75 final size:75
Alignment explanation
Indices: 16354900--16355059 Score: 178
Period size: 75 Copynumber: 2.1 Consensus size: 75
16354890 ATTTTAAAAT
* ** * * *
16354900 TTTAAATATAATGATAAATAATATTTAAATAATTTAATATAATGATATTTGTAAATGATATTTAA
1 TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
** *
16354965 ACATTTTTAG
66 ACAAATTGAG
***
16354975 GAAAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACAT-TAAATAAAAATTAA
1 TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
*
16355039 TATAAATTGAG
66 -ACAAATTGAG
*
16355050 TTTAGATATA
1 TTTAAATATA
16355060 CAAATACTTT
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
74 11 0.16
75 56 0.84
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (75 bp):
TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
ACAAATTGAG
Found at i:16355600 original size:21 final size:21
Alignment explanation
Indices: 16355559--16355602 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
16355549 TAAAAAATTC
* *
16355559 AAATCAAATATTAATATTTTA
1 AAATCAAAAATTAATAATTTA
16355580 AAAT-AAAAATTAATAAATTTA
1 AAATCAAAAATTAAT-AATTTA
16355601 AA
1 AA
16355603 TTAATGCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATCAAAAATTAATAATTTA
Found at i:16355603 original size:20 final size:21
Alignment explanation
Indices: 16355553--16355603 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
16355543 CTTTAATAAA
* *
16355553 AAATTCAAATCAAATATTAAT
1 AAATTTAAATCAAAAATTAAT
*
16355574 -ATTTTAAAAT-AAAAATTAAT
1 AAATTT-AAATCAAAAATTAAT
16355594 AAATTTAAAT
1 AAATTTAAAT
16355604 TAATGCAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTTAAATCAAAAATTAAT
Found at i:16358923 original size:22 final size:22
Alignment explanation
Indices: 16358898--16358939 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16358888 ACATAATTAA
*
16358898 AAAAAATCAGATA-AATAAATAT
1 AAAAAA-CAAATAGAATAAATAT
16358920 AAAAAACAAATAGAATAAAT
1 AAAAAACAAATAGAATAAAT
16358940 GTCCCATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.19
Consensus pattern (22 bp):
AAAAAACAAATAGAATAAATAT
Found at i:16369187 original size:6 final size:6
Alignment explanation
Indices: 16369178--16369204 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16369168 TCTTCCATTT
16369178 CCCTTC CCCTTC CCCTTC CCCTTC CCC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCC
16369205 CATCCTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (6 bp):
CCCTTC
Found at i:16375604 original size:280 final size:281
Alignment explanation
Indices: 16375089--16375648 Score: 917
Period size: 280 Copynumber: 2.0 Consensus size: 281
16375079 TAAAAAAATA
* * ** * *
16375089 GAAAATGGGGAGGTTTTCGAAATAGTCTATTAGAATTATCGGAGTTTTCGAAATAGTCATATTAA
1 GAAAATAGGGAGGTTTTCGAAATAGCCTACCAAAATTATCGGAGTTTTCGAAACAGTCATATTAA
* * *
16375154 ATATTTGTTTATTATAGTAGAAAACTTAGTCAATTTTTAGAAAAGATAACAAGTTATAAAAAATC
66 ATATTTGTTTATTATAGTAGAAAACTTAGTCAATTTTCAGAAAAGACAACAAGTTATAAAAAACC
* *
16375219 GTTTTAGATTAACCTTCATATGTAACGGTGTCCATTTTTAAGAAAAACTTAGTTAACTTTCTATT
131 GTTTTAAATTAACCTTCATATGTAACGGTGTCCATTTTTAAGAAAAACTTAGTTAACTTTCCATT
16375284 TATTTATTACCCTCAATTTTAACTAAAAACTAGCAGCGGAAAAGTGACATTCAACTTAGTTTTAA
196 TATTTATTACCCTCAATTTTAACTAAAAACTAGCAGCGGAAAAGTGACATTCAACTTAGTTTTAA
16375349 TTTAA-AAAAATAAAATTTTC
261 TTTAATAAAAATAAAATTTTC
* *
16375369 GAAAATAGGGAGGTTTTCGAAATGGCCTACCAAAATTATCTGAGTTTTCGAAACAGTCATATTAA
1 GAAAATAGGGAGGTTTTCGAAATAGCCTACCAAAATTATCGGAGTTTTCGAAACAGTCATATTAA
*
16375434 ATATTTGTTTATTATAGTAGAAAACTTAGTCAATTTTCAGAAAAGACAACAAGTTATCAAAAACC
66 ATATTTGTTTATTATAGTAGAAAACTTAGTCAATTTTCAGAAAAGACAACAAGTTATAAAAAACC
*
16375499 GTTTTAAATTAACCTTCATATGTAACGGTGAT-CGTTTTTAAGAAAAACTTAGTTAACTTTCCAT
131 GTTTTAAATTAACCTTCATATGTAACGGTG-TCCATTTTTAAGAAAAACTTAGTTAACTTTCCAT
* * *
16375563 TTATTTATTACCCTTAATTTTAACTAAAAACTAGTAGCGGAAAAGTGACATTCAACTTGGTTTTA
195 TTATTTATTACCCTCAATTTTAACTAAAAACTAGCAGCGGAAAAGTGACATTCAACTTAGTTTTA
* *
16375628 ATTTAATAAAAGTAAGATTTT
260 ATTTAATAAAAATAAAATTTT
16375649 ATGCATAATT
Statistics
Matches: 258, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
280 245 0.95
281 13 0.05
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (281 bp):
GAAAATAGGGAGGTTTTCGAAATAGCCTACCAAAATTATCGGAGTTTTCGAAACAGTCATATTAA
ATATTTGTTTATTATAGTAGAAAACTTAGTCAATTTTCAGAAAAGACAACAAGTTATAAAAAACC
GTTTTAAATTAACCTTCATATGTAACGGTGTCCATTTTTAAGAAAAACTTAGTTAACTTTCCATT
TATTTATTACCCTCAATTTTAACTAAAAACTAGCAGCGGAAAAGTGACATTCAACTTAGTTTTAA
TTTAATAAAAATAAAATTTTC
Found at i:16381406 original size:12 final size:13
Alignment explanation
Indices: 16381389--16381419 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16381379 AACATTATTT
16381389 ATTTTTT-TTTCA
1 ATTTTTTCTTTCA
16381401 ATTTTTTCTTTCA
1 ATTTTTTCTTTCA
16381414 ATTTTT
1 ATTTTT
16381420 CAACCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTTTCTTTCA
Found at i:16387669 original size:23 final size:23
Alignment explanation
Indices: 16387637--16387713 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
16387627 TAAACACATA
*
16387637 GGTTCACATGTAACAACATGTAG
1 GGTTCACATGTAACAACATTTAG
* * ** *
16387660 CGTTCGCATGTAGTAATATTTAG
1 GGTTCACATGTAACAACATTTAG
16387683 GGTTCACATGTAACAACATTTAG
1 GGTTCACATGTAACAACATTTAG
16387706 GGTTCACA
1 GGTTCACA
16387714 AGCAATATAA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (23 bp):
GGTTCACATGTAACAACATTTAG
Found at i:16387881 original size:28 final size:29
Alignment explanation
Indices: 16387850--16387906 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
16387840 TGGCATATAG
* *
16387850 GGGTTTGCTTGCA-GGGGTTCACACATAT
1 GGGTTTGCATGCATAGGGTTCACACATAT
16387878 GGGTTTGCATGCATTAGGGTTCACACATA
1 GGGTTTGCATGCA-TAGGGTTCACACATA
16387907 ACATGGTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.48
30 13 0.52
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (29 bp):
GGGTTTGCATGCATAGGGTTCACACATAT
Found at i:16388040 original size:30 final size:30
Alignment explanation
Indices: 16387991--16388093 Score: 118
Period size: 30 Copynumber: 3.4 Consensus size: 30
16387981 TTACATATGA
*
16387991 GTTCACCTATAAGGG-TTCACATACAAGGGG
1 GTTCGCCTAT-AGGGTTTCACATACAAGGGG
* *
16388021 GTTCGTCTATAGGGTTTCACATGCAAGGGG
1 GTTCGCCTATAGGGTTTCACATACAAGGGG
* * *
16388051 GTTCGCCTATAGGGTTTCATATGCAAGAGG
1 GTTCGCCTATAGGGTTTCACATACAAGGGG
* *
16388081 ATTCACCTATAGG
1 GTTCGCCTATAGG
16388094 TATTCGCATG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 4 0.06
30 60 0.94
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (30 bp):
GTTCGCCTATAGGGTTTCACATACAAGGGG
Found at i:16403285 original size:4 final size:4
Alignment explanation
Indices: 16403278--16403310 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
16403268 TAAATAAATA
16403278 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
16403311 TTAATTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:16404317 original size:3 final size:3
Alignment explanation
Indices: 16404309--16404335 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16404299 ATCAAGAACA
16404309 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
16404336 GAAAAGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16404548 original size:23 final size:22
Alignment explanation
Indices: 16404514--16404557 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
16404504 AAATTATAAA
16404514 ATATAAAAATATATATATGTAC
1 ATATAAAAATATATATATGTAC
16404536 ATATAAGAAATATATATATGTA
1 ATATAA-AAATATATATATGTA
16404558 TGTGAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (22 bp):
ATATAAAAATATATATATGTAC
Found at i:16405341 original size:19 final size:20
Alignment explanation
Indices: 16405306--16405382 Score: 122
Period size: 21 Copynumber: 3.9 Consensus size: 20
16405296 AATCATATCT
16405306 TCTAAGATTGCTTATATCATA
1 TCTAAGATTGC-TATATCATA
16405327 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC-TATATCATA
16405348 TCTAAGATTGC-ATATCATA
1 TCTAAGATTGCTATATCATA
16405367 TCTAAGATTGC-ATATC
1 TCTAAGATTGCTATATC
16405383 CTTGAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
19 24 0.44
21 31 0.56
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (20 bp):
TCTAAGATTGCTATATCATA
Found at i:16413157 original size:42 final size:43
Alignment explanation
Indices: 16413052--16413202 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 43
16413042 AGATGTGTTA
** * * * *
16413052 TCGTGTAAGACCACGTCTGGAAC-GTTGGCATCGATTTTTGATT
1 TCGTGTAAGACCATATCTGGGACAG-TAGCATCGATATATGATT
* *
16413095 TACGTGTAAGACAATGTCTGGGACA-TCAGCATCG-TATATGATT
1 T-CGTGTAAGACCATATCTGGGACAGT-AGCATCGATATATGATT
* * *
16413138 TCGTGTAAGACCCTATCTGGGACAGTAGCATCGATATGTGATA
1 TCGTGTAAGACCATATCTGGGACAGTAGCATCGATATATGATT
* *
16413181 ACATGTAAGACCATATCTGGGA
1 TCGTGTAAGACCATATCTGGGA
16413203 TATGACATTG
Statistics
Matches: 89, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
42 27 0.30
43 37 0.42
44 25 0.28
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
TCGTGTAAGACCATATCTGGGACAGTAGCATCGATATATGATT
Found at i:16413638 original size:23 final size:23
Alignment explanation
Indices: 16413602--16413652 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
16413592 TAGTAAAGCA
* *
16413602 TGTAATATCTCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
16413625 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
16413648 AGTAA
1 TGTAA
16413653 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:16419379 original size:23 final size:23
Alignment explanation
Indices: 16419347--16419473 Score: 73
Period size: 23 Copynumber: 5.4 Consensus size: 23
16419337 TCCAAAGACA
*
16419347 GCTCACACATGCATGGTAAAACT
1 GCTCGCACATGCATGGTAAAACT
* * *
16419370 GCTTGCACATACAT-TTCAAATA-T
1 GCTCGCACATGCATGGT-AAA-ACT
* * *
16419393 AGCTAGCACATGCGTGATAAAA-T
1 -GCTCGCACATGCATGGTAAAACT
* * *
16419416 AGCTCGCACATACAT-TTCAAAGACA
1 -GCTCGCACATGCATGGT-AAA-ACT
16419441 GCTCGCACATGCATGGTAAAACT
1 GCTCGCACATGCATGGTAAAACT
*
16419464 GCTTGCACAT
1 GCTCGCACAT
16419474 ACATTTCAAA
Statistics
Matches: 79, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
22 2 0.03
23 43 0.54
24 32 0.41
25 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (23 bp):
GCTCGCACATGCATGGTAAAACT
Found at i:16419402 original size:24 final size:23
Alignment explanation
Indices: 16419374--16419497 Score: 74
Period size: 24 Copynumber: 5.3 Consensus size: 23
16419364 AAAACTGCTT
16419374 GCACATACATTTCAAATATAGCTA
1 GCACATACATTTCAAA-ATAGCTA
* * * *
16419398 GCACATGCGTGAT-AAAATAGCTC
1 GCACATACAT-TTCAAAATAGCTA
* *
16419421 GCACATACATTTCAAAGACAGCTC
1 GCACATACATTTCAAA-ATAGCTA
* * *
16419445 GCACATGCATGGT-AAAACT-GCTT
1 GCACATACAT-TTCAAAA-TAGCTA
* *
16419468 GCACATACATTTCAAAGACAACTA
1 GCACATACATTTCAAA-ATAGCTA
16419492 GCACAT
1 GCACAT
16419498 GCGTGGTAAA
Statistics
Matches: 75, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
22 2 0.03
23 33 0.44
24 38 0.51
25 2 0.03
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (23 bp):
GCACATACATTTCAAAATAGCTA
Found at i:16419483 original size:94 final size:94
Alignment explanation
Indices: 16419320--16419544 Score: 333
Period size: 94 Copynumber: 2.4 Consensus size: 94
16419310 TGTGACAATG
* *
16419320 ACAGCTCGCACATACATTCCAAAGACAGCTCACACATGCATGGTAAAACTGCTTGCACATACATT
1 ACAGCTCGCACATACATTTCAAAGACAGCTCGCACATGCATGGTAAAACTGCTTGCACATACATT
* * *
16419385 TCAAATATAGCTAGCACATGCGTGATAAA
66 TCAAAGACAACTAGCACATGCGTGATAAA
*
16419414 ATAGCTCGCACATACATTTCAAAGACAGCTCGCACATGCATGGTAAAACTGCTTGCACATACATT
1 ACAGCTCGCACATACATTTCAAAGACAGCTCGCACATGCATGGTAAAACTGCTTGCACATACATT
*
16419479 TCAAAGACAACTAGCACATGCGTGGTAAA
66 TCAAAGACAACTAGCACATGCGTGATAAA
** * * * *
16419508 ACATATTGCACATGCATTTCAAAGACAACTCGTACAT
1 ACAGCTCGCACATACATTTCAAAGACAGCTCGCACAT
16419545 ATATTTAATC
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 117 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (94 bp):
ACAGCTCGCACATACATTTCAAAGACAGCTCGCACATGCATGGTAAAACTGCTTGCACATACATT
TCAAAGACAACTAGCACATGCGTGATAAA
Found at i:16419537 original size:47 final size:47
Alignment explanation
Indices: 16419327--16419534 Score: 269
Period size: 47 Copynumber: 4.4 Consensus size: 47
16419317 ATGACAGCTC
*
16419327 GCACATACATTCCAAAGACAGCTCA-CACATGCATGGTAAAACTGCTT
1 GCACATACATTTCAAAGACAGCT-AGCACATGCATGGTAAAACTGCTT
* * * * *
16419374 GCACATACATTTCAAATATAGCTAGCACATGCGTGATAAAA-TAGCTC
1 GCACATACATTTCAAAGACAGCTAGCACATGCATGGTAAAACT-GCTT
*
16419421 GCACATACATTTCAAAGACAGCTCGCACATGCATGGTAAAACTGCTT
1 GCACATACATTTCAAAGACAGCTAGCACATGCATGGTAAAACTGCTT
* * *
16419468 GCACATACATTTCAAAGACAACTAGCACATGCGTGGTAAAACAT-ATT
1 GCACATACATTTCAAAGACAGCTAGCACATGCATGGTAAAAC-TGCTT
*
16419515 GCACATGCATTTCAAAGACA
1 GCACATACATTTCAAAGACA
16419535 ACTCGTACAT
Statistics
Matches: 140, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
46 2 0.01
47 136 0.97
48 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (47 bp):
GCACATACATTTCAAAGACAGCTAGCACATGCATGGTAAAACTGCTT
Found at i:16420239 original size:20 final size:20
Alignment explanation
Indices: 16420214--16420281 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
16420204 AAGGGCATCG
*
16420214 AAGTGCAACCAGGGACACCA
1 AAGTGCAACCAGGGGCACCA
*
16420234 AAGTGCAACCAGGGGCACGA
1 AAGTGCAACCAGGGGCACCA
* * *
16420254 AAGTACAATCAGGGGCACTA
1 AAGTGCAACCAGGGGCACCA
*
16420274 GAGTGCAA
1 AAGTGCAA
16420282 ATCATACATC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.38, C:0.24, G:0.29, T:0.09
Consensus pattern (20 bp):
AAGTGCAACCAGGGGCACCA
Found at i:16420267 original size:40 final size:40
Alignment explanation
Indices: 16420206--16420281 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
16420196 AAACCAATAA
*
16420206 GGGCATCGAAGTGCAACCAGGGACACCAAAGTGCAACCAG
1 GGGCATCGAAGTACAACCAGGGACACCAAAGTGCAACCAG
* * * *
16420246 GGGCA-CGAAAGTACAATCAGGGGCACTAGAGTGCAA
1 GGGCATCG-AAGTACAACCAGGGACACCAAAGTGCAA
16420282 ATCATACATC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.07
40 28 0.93
ACGTcount: A:0.36, C:0.24, G:0.32, T:0.09
Consensus pattern (40 bp):
GGGCATCGAAGTACAACCAGGGACACCAAAGTGCAACCAG
Found at i:16425915 original size:3 final size:3
Alignment explanation
Indices: 16425909--16425938 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
16425899 CCCTAATAAC
16425909 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
16425939 GACTATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:16439009 original size:29 final size:29
Alignment explanation
Indices: 16438967--16439025 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
16438957 TGAATAGAAG
16438967 AATGAGAGGATTTAGATTTAAAGCTTGGT
1 AATGAGAGGATTTAGATTTAAAGCTTGGT
16438996 AATGAGAGGATTTAGATTTAAAGCTTGGT
1 AATGAGAGGATTTAGATTTAAAGCTTGGT
16439025 A
1 A
16439026 GGCCATTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (29 bp):
AATGAGAGGATTTAGATTTAAAGCTTGGT
Found at i:16439465 original size:13 final size:13
Alignment explanation
Indices: 16439447--16439471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16439437 AGAGGTAGCA
16439447 AAGAGATATTTTG
1 AAGAGATATTTTG
16439460 AAGAGATATTTT
1 AAGAGATATTTT
16439472 TATCAAGTGG
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:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (13 bp):
AAGAGATATTTTG
Found at i:16449021 original size:18 final size:21
Alignment explanation
Indices: 16448998--16449040 Score: 65
Period size: 18 Copynumber: 2.2 Consensus size: 21
16448988 TATGTTATTC
16448998 ATTTTTATT-TA-ATATTA-A
1 ATTTTTATTATATATATTATA
16449016 ATTTTTATTATATATATTATA
1 ATTTTTATTATATATATTATA
16449037 ATTT
1 ATTT
16449041 AGATTAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
19 2 0.09
20 6 0.27
21 5 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTTATTATATATATTATA
Found at i:16449813 original size:4 final size:4
Alignment explanation
Indices: 16449804--16449830 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
16449794 AACAAAACCC
16449804 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
16449831 ATAAACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:16455668 original size:22 final size:24
Alignment explanation
Indices: 16455638--16455684 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
16455628 CATGCAATTC
* *
16455638 AGAACTAAAAA-ACAAAGA-AAGT
1 AGAAATAAAAATAAAAAGAGAAGT
16455660 AGAAATAAAAATAAAAAGAGAAGT
1 AGAAATAAAAATAAAAAGAGAAGT
16455684 A
1 A
16455685 CGTATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 6 0.29
24 5 0.24
ACGTcount: A:0.70, C:0.04, G:0.15, T:0.11
Consensus pattern (24 bp):
AGAAATAAAAATAAAAAGAGAAGT
Found at i:16456884 original size:15 final size:17
Alignment explanation
Indices: 16456843--16456888 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
16456833 ATTATCATTG
*
16456843 TATCCTCATTATTATAT
1 TATCCTTATTATTATAT
*
16456860 TATGCATTATT-TT-TAT
1 TAT-CCTTATTATTATAT
16456876 TATCCTTATTATT
1 TATCCTTATTATT
16456889 TTCAGGCACC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 6 0.25
16 8 0.33
17 5 0.21
18 5 0.21
ACGTcount: A:0.26, C:0.13, G:0.02, T:0.59
Consensus pattern (17 bp):
TATCCTTATTATTATAT
Found at i:16457023 original size:31 final size:36
Alignment explanation
Indices: 16456956--16457024 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 36
16456946 TACATGCGCA
16456956 TTTTACATATATAATACATTATTATTTATTTCATAT
1 TTTTACATATATAATACATTATTATTTATTTCATAT
*
16456992 TTTTA-ATATATTATAC-TTA-T-TTTATTT-ATAT
1 TTTTACATATATAATACATTATTATTTATTTCATAT
16457023 TT
1 TT
16457025 ATAAAGTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 6 0.19
32 7 0.22
33 1 0.03
34 3 0.09
35 10 0.31
36 5 0.16
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (36 bp):
TTTTACATATATAATACATTATTATTTATTTCATAT
Done.