Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 70 of 77
Found at i:14152205 original size:12 final size:12
Alignment explanation
Indices: 14152188--14152225 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
14152178 CCATCCTCGG
14152188 CACCACTGCCAC
1 CACCACTGCCAC
14152200 CACCACTGCCAC
1 CACCACTGCCAC
14152212 CACC-CTTGCCAC
1 CACCAC-TGCCAC
14152224 CA
1 CA
14152226 GACCCTACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 1 0.04
12 24 0.96
ACGTcount: A:0.24, C:0.58, G:0.08, T:0.11
Consensus pattern (12 bp):
CACCACTGCCAC
Found at i:14152456 original size:23 final size:22
Alignment explanation
Indices: 14152420--14152477 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
14152410 GCTCCTAGCC
14152420 AAACA-AAAAAAAAAGAAGAAAA
1 AAACACAAAAAAAAAG-AGAAAA
*
14152442 AAACTGCAAAAAAAAAGAGAAAA
1 AAAC-ACAAAAAAAAAGAGAAAA
14152465 AAACACAAAAAAA
1 AAACACAAAAAAA
14152478 TATATACAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 12 0.38
23 10 0.31
24 10 0.31
ACGTcount: A:0.81, C:0.09, G:0.09, T:0.02
Consensus pattern (22 bp):
AAACACAAAAAAAAAGAGAAAA
Found at i:14153535 original size:18 final size:18
Alignment explanation
Indices: 14153496--14153538 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14153486 TTTTTTTTAA
**
14153496 TAATAAATAAAAATTGGT
1 TAATAAATAAAAATAAGT
14153514 TAATAAATTAAAAATAAG-
1 TAATAAA-TAAAAATAAGT
14153532 TAATAAA
1 TAATAAA
14153539 AATGAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
TAATAAATAAAAATAAGT
Found at i:14154523 original size:6 final size:5
Alignment explanation
Indices: 14154462--14154528 Score: 68
Period size: 5 Copynumber: 14.0 Consensus size: 5
14154452 TAAAAAAGGT
* * *
14154462 CAAAA -AAAA AAAAA CAAAA CCAAA CAAAA CAAAA CAAAA CAAAT CAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA
* *
14154511 -ATAA -AAAG CAAAA CAAAA
1 CAAAA CAAAA CAAAA CAAAA
14154529 AAATTCACAC
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
4 9 0.18
5 42 0.82
ACGTcount: A:0.79, C:0.16, G:0.01, T:0.03
Consensus pattern (5 bp):
CAAAA
Found at i:14155647 original size:29 final size:28
Alignment explanation
Indices: 14155614--14155720 Score: 90
Period size: 29 Copynumber: 3.8 Consensus size: 28
14155604 ATGTTCAATT
* *
14155614 TTTTAGATTTTTTAAAAATTTTCATAATC
1 TTTTAGATTTTTT-AAAATTTTAATAATA
* *
14155643 TTTTA-ATTGTTTATAATTTTAAATAATA
1 TTTTAGATTTTTTAAAATTTT-AATAATA
* * *
14155671 TTTTAGATTTTTTGAAATTTATTATAATT
1 TTTTAGATTTTTTAAAATTT-TAATAATA
* * *
14155700 TTTTAAATTATTTAAGATTTT
1 TTTTAGATTTTTTAAAATTTT
14155721 TTAAAAAAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
27 7 0.11
28 17 0.27
29 37 0.60
30 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTTAGATTTTTTAAAATTTTAATAATA
Found at i:14155707 original size:19 final size:19
Alignment explanation
Indices: 14155659--14155725 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 19
14155649 TTGTTTATAA
*
14155659 TTTTAAATAATATTTTAGATT
1 TTTTAAAT--TATTTAAGATT
14155680 TTTTGAAATT-TATTATA-ATT
1 TTTT-AAATTAT-TTA-AGATT
14155700 TTTTAAATTATTTAAGATT
1 TTTTAAATTATTTAAGATT
14155719 TTTTAAA
1 TTTTAAA
14155726 AAAATTAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
18 1 0.03
19 19 0.47
20 11 0.28
21 5 0.12
22 4 0.10
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
TTTTAAATTATTTAAGATT
Found at i:14155713 original size:9 final size:9
Alignment explanation
Indices: 14155610--14155725 Score: 63
Period size: 10 Copynumber: 12.2 Consensus size: 9
14155600 AATTATGTTC
14155610 AATTTTTTA
1 AATTTTTTA
*
14155619 GATTTTTTAA
1 AATTTTTT-A
* *
14155629 AAATTTTCA
1 AATTTTTTA
*
14155638 TAATCTTTT-
1 -AATTTTTTA
*
14155647 AATTGTTTA
1 AATTTTTTA
**
14155656 TAATTTTAAA
1 -AATTTTTTA
*
14155666 TAATATTTTA
1 -AATTTTTTA
*
14155676 GATTTTTTGA
1 AATTTTTT-A
*
14155686 AATTTATTA
1 AATTTTTTA
14155695 TAATTTTTTA
1 -AATTTTTTA
*
14155705 AATTATTTA
1 AATTTTTTA
14155714 AGATTTTTTA
1 A-ATTTTTTA
14155724 AA
1 AA
14155726 AAAATTAAAA
Statistics
Matches: 78, Mismatches: 22, Indels: 14
0.68 0.19 0.12
Matches are distributed among these distances:
8 6 0.08
9 25 0.32
10 47 0.60
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (9 bp):
AATTTTTTA
Found at i:14155733 original size:19 final size:19
Alignment explanation
Indices: 14155691--14155743 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
14155681 TTTGAAATTT
* **
14155691 ATTATAATTTTTTAAATTA
1 ATTAAAATTTTTTAAAAAA
* *
14155710 TTTAAGATTTTTTAAAAAA
1 ATTAAAATTTTTTAAAAAA
*
14155729 ATTAAAAATTTTTAA
1 ATTAAAATTTTTTAA
14155744 TTTAAGAATT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTAAAATTTTTTAAAAAA
Found at i:14156579 original size:24 final size:24
Alignment explanation
Indices: 14156525--14156582 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
14156515 ATATTTTATA
* *
14156525 AATAAAATAAACCAATGTTATTAG
1 AATAAAGTAAACCAATATTATTAG
*
14156549 AATAAAGTAAACCAATATTCTTAG
1 AATAAAGTAAACCAATATTATTAG
14156573 AATAAAGTAA
1 AATAAAGTAA
14156583 GTTTTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.28
Consensus pattern (24 bp):
AATAAAGTAAACCAATATTATTAG
Found at i:14162609 original size:20 final size:21
Alignment explanation
Indices: 14162566--14162605 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
14162556 ATTTTATTAT
14162566 TTTTTATTTCGTTACTTTTTA
1 TTTTTATTTCGTTACTTTTTA
*
14162587 TTTTT-TTTC-TTTCTTTTTA
1 TTTTTATTTCGTTACTTTTTA
14162606 ATTTCAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTTTATTTCGTTACTTTTTA
Found at i:14162665 original size:21 final size:21
Alignment explanation
Indices: 14162641--14162695 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 21
14162631 AATTTATTCT
14162641 TTCTTTCTACAACCAATCTAA
1 TTCTTTCTACAACCAATCTAA
14162662 TTCTTTCTCTAATACAACCAATCTAA
1 TTC-TT-TC---TACAACCAATCTAA
14162688 TTCTTTCT
1 TTCTTTCT
14162696 CTAATGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
21 4 0.14
22 2 0.07
23 2 0.07
24 2 0.07
25 2 0.07
26 17 0.59
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (21 bp):
TTCTTTCTACAACCAATCTAA
Found at i:14162682 original size:26 final size:26
Alignment explanation
Indices: 14162648--14162700 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
14162638 TCTTTCTTTC
14162648 TACAACCAATCTAATTCTTTCTCTAA
1 TACAACCAATCTAATTCTTTCTCTAA
14162674 TACAACCAATCTAATTCTTTCTCTAA
1 TACAACCAATCTAATTCTTTCTCTAA
14162700 T
1 T
14162701 GGTTTAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (26 bp):
TACAACCAATCTAATTCTTTCTCTAA
Found at i:14164344 original size:21 final size:20
Alignment explanation
Indices: 14164320--14164369 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
14164310 TCCTCCAAGG
*
14164320 GATAGGATTGATCATTTGCTT
1 GATAGGATGGATCATTT-CTT
* *
14164341 GATAGAATGGATCCTTTCTT
1 GATAGGATGGATCATTTCTT
14164361 GTATAGGAT
1 G-ATAGGAT
14164370 CAATTGGGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (20 bp):
GATAGGATGGATCATTTCTT
Found at i:14165325 original size:18 final size:19
Alignment explanation
Indices: 14165304--14165349 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
14165294 ATAATTAAAT
*
14165304 TTATTTAATATAAT-AATA
1 TTATTTAATAAAATGAATA
14165322 TTATTTTAATAAAATGAATA
1 TTA-TTTAATAAAATGAATA
14165342 TT-TTTAAT
1 TTATTTAAT
14165350 CTTTACTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 9 0.36
19 10 0.40
20 6 0.24
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATTTAATAAAATGAATA
Found at i:14165539 original size:21 final size:22
Alignment explanation
Indices: 14165484--14165547 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 22
14165474 TTTTAATTTA
*
14165484 AAATATAACTATTTTAATAGTAT
1 AAATATTACTATTTTAATAG-AT
14165507 AAATATTTTTACTATTTTAATA-AT
1 AAATA---TTACTATTTTAATAGAT
14165531 AAATATTACTATTTTAA
1 AAATATTACTATTTTAA
14165548 ATATTATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
21 12 0.32
23 5 0.14
24 7 0.19
26 13 0.35
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
AAATATTACTATTTTAATAGAT
Found at i:14165566 original size:18 final size:17
Alignment explanation
Indices: 14165527--14165573 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
14165517 ACTATTTTAA
*
14165527 TAATAAATATTACTATT
1 TAATAAATATTATTATT
14165544 T--TAAATATTATTATAT
1 TAATAAATATTATTAT-T
*
14165560 TAATAAATAATATT
1 TAATAAATATTATT
14165574 TAAAGAATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 12 0.48
16 2 0.08
17 1 0.04
18 10 0.40
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATAAATATTATTATT
Found at i:14165697 original size:15 final size:15
Alignment explanation
Indices: 14165675--14165710 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
14165665 AAATATGATT
14165675 TTTAATAAT-AGTAA
1 TTTAATAATAAGTAA
14165689 TTTATATAATAAGTAA
1 TTTA-ATAATAAGTAA
14165705 TTTAAT
1 TTTAAT
14165711 TATATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTAATAATAAGTAA
Found at i:14166146 original size:22 final size:21
Alignment explanation
Indices: 14166088--14166148 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
14166078 ACTTTAATTA
*
14166088 TAATTT-TTTT-ACAATATATT
1 TAATTTATTTTGA-AATTTATT
* **
14166108 TAATTTGTTTTTTAATTTATT
1 TAATTTATTTTGAAATTTATT
14166129 TAATTATATTTTGAAATTTA
1 TAATT-TATTTTGAAATTTA
14166149 CTGTATAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 6 0.18
21 16 0.48
22 11 0.33
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (21 bp):
TAATTTATTTTGAAATTTATT
Found at i:14166201 original size:20 final size:20
Alignment explanation
Indices: 14166163--14166211 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
14166153 ATAATTTTAA
*
14166163 TTGTTTATAATTTAATATATT
1 TTGTTTA-AATTTAATATAAT
**
14166184 TTGTTTAAATTTGTTATAAT
1 TTGTTTAAATTTAATATAAT
14166204 TT-TTTAAA
1 TTGTTTAAA
14166212 AATTTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.24
20 12 0.48
21 7 0.28
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (20 bp):
TTGTTTAAATTTAATATAAT
Found at i:14166664 original size:37 final size:37
Alignment explanation
Indices: 14166613--14166711 Score: 103
Period size: 37 Copynumber: 2.7 Consensus size: 37
14166603 GTTAAAGTTG
***
14166613 ATTT-TATTCGAATTTGATTTAATTTTATATTTATAAT
1 ATTTATATTC-AATTTGATTTAATTTTATAAAAATAAT
* * *
14166650 ATTTATATTCAATTTGATCTAATTTTTTAAAAATTAT
1 ATTTATATTCAATTTGATTTAATTTTATAAAAATAAT
*
14166687 -TTTATATTTCAATTTAATTTAATTT
1 ATTTATA-TTCAATTTGATTTAATTT
14166712 GATTTAAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
36 6 0.12
37 41 0.79
38 5 0.10
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (37 bp):
ATTTATATTCAATTTGATTTAATTTTATAAAAATAAT
Found at i:14166771 original size:19 final size:18
Alignment explanation
Indices: 14166747--14166782 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
14166737 ATTAATATAA
14166747 ATATAAATAAATATAATAT
1 ATATAAATAAATA-AATAT
*
14166766 ATATAATTAAATAAATA
1 ATATAAATAAATAAATA
14166783 ATTAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATATAAATAAATAAATAT
Found at i:14167416 original size:20 final size:21
Alignment explanation
Indices: 14167380--14167431 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
14167370 TCTGAAATTA
14167380 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
14167402 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
14167423 AT-AAATATT
1 ATAAAATATT
14167432 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:14167422 original size:21 final size:22
Alignment explanation
Indices: 14167380--14167431 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
14167370 TCTGAAATTA
14167380 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
14167402 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
14167423 AT-AAATATT
1 ATAAAATATT
14167432 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:14167905 original size:30 final size:30
Alignment explanation
Indices: 14167869--14167932 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
14167859 TAAATAGTAT
* *
14167869 TATATTATTTATTAATTATTATATTA-ATAG
1 TATATTATTTATTAA-TATGATATAATATAG
14167899 TATATTATTTATTAATATGATATAATATAG
1 TATATTATTTATTAATATGATATAATATAG
14167929 TATA
1 TATA
14167933 ATATCATACT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (30 bp):
TATATTATTTATTAATATGATATAATATAG
Found at i:14168921 original size:183 final size:183
Alignment explanation
Indices: 14168613--14169064 Score: 796
Period size: 183 Copynumber: 2.5 Consensus size: 183
14168603 CAACTTCAGA
14168613 AACAAGTTCAGAATCTGGTGCTGGAATACCGCCCATCTCTGAAGACAACCCGCCGGGTACAGTGA
1 AACAAGTTCAGAATCTGGTGCTGGAATACCGCCCATCTCTGAAGACAACCCGCCGGGTACAGTGA
* *
14168678 CTGACGCTGAAGGTTCGCAGATCCGAATGTTGCTTCCTAGTAATTCGAATGACGTGCAAGTTCAA
66 CTGACCCTGAAGGTTCGCAGATCAGAATGTTGCTTCCTAGTAATTCGAATGACGTGCAAGTTCAA
* * *
14168743 GCTGAAGCTGTGCACATTCAATCCACTTACTCCGGCGATATGCAGCAACTTCC
131 CCTGAAGCCGTGCACATTCAATCCACTTACTCCGGCGATATGCAGCAACCTCC
* *
14168796 AACAAGTTCAGAATCTGGTGCTGGAATACCGCCCATCTCTGAAGACAACCCGCTGGATACAGTGA
1 AACAAGTTCAGAATCTGGTGCTGGAATACCGCCCATCTCTGAAGACAACCCGCCGGGTACAGTGA
* *
14168861 CTGACCCTAAAGGTTCGCAGATCAGAATGTTGCTTCCTAGTAATTCGAATGATGTGCAAGTTCAA
66 CTGACCCTGAAGGTTCGCAGATCAGAATGTTGCTTCCTAGTAATTCGAATGACGTGCAAGTTCAA
14168926 CCTGAAGCCGTGCACATTCAATCCACTTACTCCGGCGATATGCAGCAACCTCC
131 CCTGAAGCCGTGCACATTCAATCCACTTACTCCGGCGATATGCAGCAACCTCC
*
14168979 AACAAGTTCAGAATCAGGTGCTGGAATACCGCCCATCTCTGAAGACAACCCGCCGGGTACAGTGA
1 AACAAGTTCAGAATCTGGTGCTGGAATACCGCCCATCTCTGAAGACAACCCGCCGGGTACAGTGA
* *
14169044 TTGACCCTGAAGGTCCGCAGA
66 CTGACCCTGAAGGTTCGCAGA
14169065 ATTTACCAAG
Statistics
Matches: 254, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
183 254 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (183 bp):
AACAAGTTCAGAATCTGGTGCTGGAATACCGCCCATCTCTGAAGACAACCCGCCGGGTACAGTGA
CTGACCCTGAAGGTTCGCAGATCAGAATGTTGCTTCCTAGTAATTCGAATGACGTGCAAGTTCAA
CCTGAAGCCGTGCACATTCAATCCACTTACTCCGGCGATATGCAGCAACCTCC
Found at i:14170811 original size:15 final size:15
Alignment explanation
Indices: 14170791--14170833 Score: 86
Period size: 15 Copynumber: 2.9 Consensus size: 15
14170781 ATGAAAGCTG
14170791 GGAGTTGTTTAAAAA
1 GGAGTTGTTTAAAAA
14170806 GGAGTTGTTTAAAAA
1 GGAGTTGTTTAAAAA
14170821 GGAGTTGTTTAAA
1 GGAGTTGTTTAAA
14170834 GAGAAGGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.28, T:0.35
Consensus pattern (15 bp):
GGAGTTGTTTAAAAA
Found at i:14171761 original size:18 final size:18
Alignment explanation
Indices: 14171738--14171791 Score: 108
Period size: 18 Copynumber: 3.0 Consensus size: 18
14171728 TCCCAGTCAC
14171738 CACAATGTAATATTCGAA
1 CACAATGTAATATTCGAA
14171756 CACAATGTAATATTCGAA
1 CACAATGTAATATTCGAA
14171774 CACAATGTAATATTCGAA
1 CACAATGTAATATTCGAA
14171792 GGCTTGCAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (18 bp):
CACAATGTAATATTCGAA
Found at i:14173873 original size:12 final size:12
Alignment explanation
Indices: 14173856--14173907 Score: 59
Period size: 12 Copynumber: 4.0 Consensus size: 12
14173846 AAAAATGATA
*
14173856 TAATAAAAATTT
1 TAATAAAAAATT
14173868 TAATAAAAAATT
1 TAATAAAAAATT
14173880 TAAATTAATAAAATT
1 T-AA-TAA-AAAATT
14173895 TAATATAAAAATT
1 TAATA-AAAAATT
14173908 AATCATATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
12 12 0.34
13 10 0.29
14 6 0.17
15 7 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATAAAAAATT
Found at i:14173876 original size:13 final size:13
Alignment explanation
Indices: 14173856--14173907 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
14173846 AAAAATGATA
14173856 TAAT-AAAAATTT
1 TAATAAAAAATTT
14173868 TAATAAAAAATTT
1 TAATAAAAAATTT
*
14173881 AAATTAATAAAA-TT
1 TAA-TAA-AAAATTT
14173895 TAATATAAAAATT
1 TAATA-AAAAATT
14173908 AATCATATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
12 4 0.12
13 16 0.48
14 9 0.27
15 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATAAAAAATTT
Found at i:14174108 original size:20 final size:21
Alignment explanation
Indices: 14174070--14174108 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14174060 ATAACTAGAT
14174070 TTTTTAATTTATTAGTTTTTA
1 TTTTTAATTTATTAGTTTTTA
14174091 TTTTT-ATTTAATTA-TTTT
1 TTTTTAATTT-ATTAGTTTT
14174109 AATAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (21 bp):
TTTTTAATTTATTAGTTTTTA
Found at i:14178836 original size:3 final size:3
Alignment explanation
Indices: 14178828--14178855 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
14178818 AGATGTAAAC
14178828 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
14178856 GCGGTGGGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:14180725 original size:3 final size:3
Alignment explanation
Indices: 14180717--14180763 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
14180707 CCTCTATTTA
14180717 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
14180764 ACCTTTAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14185529 original size:262 final size:264
Alignment explanation
Indices: 14185045--14185574 Score: 752
Period size: 262 Copynumber: 2.0 Consensus size: 264
14185035 AAGTCATGTA
* *
14185045 ACAATTAGAAGAATGTTTATATGGGAAGTTAGAAAGCCAACACTCAGGCAATGTAGCAATTCAAT
1 ACAATTAGAAGAATGTTTATATGGAAACTTAGAAAGCCAACACTCAGG--ATGTAGCAATTCAAT
* * *
14185110 TGGAGTATGATCATGCACATAAACAATGAACAATGATAAGGAAATAATTTGAACTGATGCATACC
64 TGGAATAAGATCACGCACATAAACAATGAACAATGATAAGGAAATAATTTGAACTGATGCATACC
* * * *
14185175 ATTTTCTGACCACTGTTGAACAATGGCCTTGAAGGTTGCCTTCCCCAATGCCCTACATATTCACC
129 ATTTTCTGACAACTGCTGAACAATGGCATTGAAGGTTGCCTTCCCCAACGCCCTACATATTCACC
* * * *
14185240 TTCGGTTGATTGTATTCCCCGCAGCATTGGTGTGCTCAACTCTCCCATAGTCAAAATTTCCATCT
194 TTCAGTTGACTGTATTCCCCGCAGCATTGGTGTACTCAACTCTCCCATAGTCAAAATTGCCATCT
14185305 TTGGAC
259 TTGGAC
*
14185311 ACAATTA-ACAGAATG-TTATATGGAAACTTAGAAAGTCAACACTCAGG-T-T-GCAATTCAATT
1 ACAATTAGA-AGAATGTTTATATGGAAACTTAGAAAGCCAACACTCAGGATGTAGCAATTCAATT
* *
14185371 GGAATAAGATCACGCACATAAAACAATGTAACAATGATAAGGAAATCATTTGAATTGATGCATAC
65 GGAATAAGATCACGCACAT-AAACAATG-AACAATGATAAGGAAATAATTTGAACTGATGCATAC
*
14185436 C-TTTTCTGTAAATAACTGCTGAACAATGGCATTG-AGGTTGCCTT-CCCAACGCCCTACATATT
128 CATTTTCTG---ACAACTGCTGAACAATGGCATTGAAGGTTGCCTTCCCCAACGCCCTACATATT
* *
14185498 CACCTTCAGTTGACTGTATTCCCCGCAGCATTGGTGTACTCAACTCTCCCGTAGTGAAAATTGCC
190 CACCTTCAGTTGACTGTATTCCCCGCAGCATTGGTGTACTCAACTCTCCCATAGTCAAAATTGCC
*
14185563 ATTTTTGGAC
255 ATCTTTGGAC
14185573 AC
1 AC
14185575 TGTCTCATTA
Statistics
Matches: 238, Mismatches: 20, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
260 27 0.11
261 16 0.07
262 123 0.52
263 10 0.04
264 19 0.08
265 30 0.13
266 13 0.05
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (264 bp):
ACAATTAGAAGAATGTTTATATGGAAACTTAGAAAGCCAACACTCAGGATGTAGCAATTCAATTG
GAATAAGATCACGCACATAAACAATGAACAATGATAAGGAAATAATTTGAACTGATGCATACCAT
TTTCTGACAACTGCTGAACAATGGCATTGAAGGTTGCCTTCCCCAACGCCCTACATATTCACCTT
CAGTTGACTGTATTCCCCGCAGCATTGGTGTACTCAACTCTCCCATAGTCAAAATTGCCATCTTT
GGAC
Found at i:14186788 original size:26 final size:26
Alignment explanation
Indices: 14186759--14186821 Score: 62
Period size: 26 Copynumber: 2.4 Consensus size: 26
14186749 TTACTTTTTA
14186759 AATTATTAT-TTTAATTAATA-ATTTCT
1 AATT-TTATATTT-ATTAATATATTTCT
14186785 AATTTTATAATTTATTAATATA-TT-T
1 AATTTTAT-ATTTATTAATATATTTCT
14186810 AATTTTAATATT
1 AATTTT-ATATT
14186822 ATTTAAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
25 14 0.42
26 15 0.45
27 4 0.12
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
AATTTTATATTTATTAATATATTTCT
Found at i:14186812 original size:35 final size:34
Alignment explanation
Indices: 14186720--14186812 Score: 82
Period size: 35 Copynumber: 2.7 Consensus size: 34
14186710 AGTCAATTTA
* *
14186720 TTTAATATTATTTA-ATATTTATATAATTATTACTT
1 TTTAA-ATTATTAATATATTTA-ATAATTATTAATT
* * *
14186755 TTTAAATTATTATTTTAATTAATAATT-TCTAATT
1 TTTAAATTATTAATATATTTAATAATTAT-TAATT
*
14186789 TTATAATTTATTAATATATTTAAT
1 TT-TAAATTATTAATATATTTAAT
14186813 TTTAATATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
33 1 0.02
34 18 0.39
35 27 0.59
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (34 bp):
TTTAAATTATTAATATATTTAATAATTATTAATT
Found at i:14186889 original size:23 final size:24
Alignment explanation
Indices: 14186858--14186903 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
14186848 TAGATCGCAA
* *
14186858 TATTCAATATTACTAT-CAAATAG
1 TATTAAATAATACTATGCAAATAG
*
14186881 TATTAAATAATATTATGCAAATA
1 TATTAAATAATACTATGCAAATA
14186904 ATATAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (24 bp):
TATTAAATAATACTATGCAAATAG
Found at i:14187082 original size:19 final size:18
Alignment explanation
Indices: 14187050--14187085 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
14187040 CTACCTGTTC
*
14187050 AAAACAAAATTAGAAAAA
1 AAAACAAAAATAGAAAAA
14187068 AAAACTAAAAATAGAAAA
1 AAAAC-AAAAATAGAAAA
14187086 TTATACCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.11
Consensus pattern (18 bp):
AAAACAAAAATAGAAAAA
Found at i:14188662 original size:17 final size:18
Alignment explanation
Indices: 14188630--14188664 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14188620 TATGATAATT
14188630 TATTGAAAATTTTCAAAA
1 TATTGAAAATTTTCAAAA
14188648 TATTGAAAA-TTTCAAAA
1 TATTGAAAATTTTCAAAA
14188665 CTTCAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (18 bp):
TATTGAAAATTTTCAAAA
Found at i:14188694 original size:25 final size:26
Alignment explanation
Indices: 14188635--14188695 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
14188625 TAATTTATTG
*
14188635 AAAATTTTCAAAATATTGAAAATTTC
1 AAAATTTTCAAAATAATGAAAATTTC
*
14188661 AAAA-CTTCAAAATAATGAAAATTT-
1 AAAATTTTCAAAATAATGAAAATTTC
14188685 AAAATTTTCAA
1 AAAATTTTCAA
14188696 TGACTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.13
25 23 0.74
26 4 0.13
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.34
Consensus pattern (26 bp):
AAAATTTTCAAAATAATGAAAATTTC
Found at i:14196568 original size:3 final size:3
Alignment explanation
Indices: 14196554--14196599 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
14196544 ATATTGTATA
* *
14196554 AAT AAC AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14196600 GATCAAAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:14198052 original size:18 final size:18
Alignment explanation
Indices: 14198012--14198069 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
14198002 TGCAAAATTA
*
14198012 TTTTGAAAATTTTTGGA-T
1 TTTTTAAAATTTTT-GATT
*
14198030 ATTTTAAAATTTTTGATTT
1 TTTTTAAAATTTTTGA-TT
*
14198049 TTTTATAAAATTTTTAATT
1 TTTT-TAAAATTTTTGATT
14198068 TT
1 TT
14198070 CCTTAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 2 0.06
18 12 0.36
19 8 0.24
20 11 0.33
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (18 bp):
TTTTTAAAATTTTTGATT
Found at i:14198118 original size:10 final size:10
Alignment explanation
Indices: 14198103--14198176 Score: 53
Period size: 10 Copynumber: 7.5 Consensus size: 10
14198093 AAATGTGTAG
14198103 ATTTTTTAAA
1 ATTTTTTAAA
*
14198113 ATTTTTTTGAA
1 A-TTTTTTAAA
* *
14198124 TTTTTTTATA
1 ATTTTTTAAA
14198134 A-TTTTTAAA
1 ATTTTTTAAA
** *
14198143 AACTTTTAGA
1 ATTTTTTAAA
*
14198153 ATTTTAT-AA
1 ATTTTTTAAA
*
14198162 ATTTTTTGAA
1 ATTTTTTAAA
14198172 ATTTT
1 ATTTT
14198177 CTTTTAATTC
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
9 15 0.31
10 25 0.52
11 8 0.17
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:14198174 original size:19 final size:20
Alignment explanation
Indices: 14198103--14198176 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 20
14198093 AAATGTGTAG
* * *
14198103 ATTTTTTAAAATTTTTTTGA
1 ATTTTTTGAAATTTTTATAA
* *
14198123 ATTTTTTTATAATTTTTAAAA
1 ATTTTTTGA-AATTTTTATAA
* *
14198144 ACTTTTAG-AA-TTTTATAA
1 ATTTTTTGAAATTTTTATAA
14198162 ATTTTTTGAAATTTT
1 ATTTTTTGAAATTTT
14198177 CTTTTAATTC
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
18 13 0.32
19 4 0.10
20 11 0.27
21 13 0.32
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (20 bp):
ATTTTTTGAAATTTTTATAA
Found at i:14198495 original size:2 final size:2
Alignment explanation
Indices: 14198488--14198529 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
14198478 TAAGAGGGAC
14198488 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
14198530 AGGATGGTGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14200317 original size:1 final size:1
Alignment explanation
Indices: 14200306--14200335 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
14200296 GCTCTTAGTC
*
14200306 AAAACAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14200336 CAACGTACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:14201352 original size:13 final size:13
Alignment explanation
Indices: 14201334--14201362 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
14201324 TTATCTAATT
14201334 AAAAAATTATAAA
1 AAAAAATTATAAA
14201347 AAAAAATTATAAA
1 AAAAAATTATAAA
14201360 AAA
1 AAA
14201363 TTTATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAAATTATAAA
Found at i:14201374 original size:11 final size:11
Alignment explanation
Indices: 14201333--14201374 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
14201323 TTTATCTAAT
14201333 TAAAAAATTATA
1 TAAAAAATT-TA
* *
14201345 AAAAAAAATTA
1 TAAAAAATTTA
14201356 TAAAAAATTTA
1 TAAAAAATTTA
14201367 TAAAAAAT
1 TAAAAAAT
14201375 ACCACATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 19 0.73
12 7 0.27
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAAAAATTTA
Found at i:14203533 original size:6 final size:7
Alignment explanation
Indices: 14203511--14203541 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
14203501 AAATTTATCT
14203511 AATTAAAA
1 AATT-AAA
14203519 AATTAAA
1 AATTAAA
14203526 AATTAAA
1 AATTAAA
14203533 AATTAAA
1 AATTAAA
14203540 AA
1 AA
14203542 CAAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AATTAAA
Found at i:14203535 original size:14 final size:15
Alignment explanation
Indices: 14203511--14203556 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
14203501 AAATTTATCT
14203511 AATTAAAAAATTAAA
1 AATTAAAAAATTAAA
14203526 AATT-AAAAATTAAA
1 AATTAAAAAATTAAA
** *
14203540 AACAAAAAAAATAAA
1 AATTAAAAAATTAAA
14203555 AA
1 AA
14203557 AAATACTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (15 bp):
AATTAAAAAATTAAA
Found at i:14204383 original size:2 final size:2
Alignment explanation
Indices: 14204376--14204409 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14204366 ACAAGAATTG
14204376 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14204410 GCTAATCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14205567 original size:17 final size:17
Alignment explanation
Indices: 14205545--14205578 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
14205535 TATTATTATT
14205545 AAATATAAAATATAAAA
1 AAATATAAAATATAAAA
14205562 AAATATAAAATATAAAA
1 AAATATAAAATATAAAA
14205579 TACCAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATATAAAATATAAAA
Found at i:14205572 original size:24 final size:24
Alignment explanation
Indices: 14205545--14205599 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
14205535 TATTATTATT
*
14205545 AAATATAAAATATAAAAAAATATA
1 AAATATAAAATACAAAAAAATATA
*
14205569 AAATATAAAATACCAAAAAATATA
1 AAATATAAAATACAAAAAAATATA
14205593 AAATATA
1 AAATATA
14205600 TAAAAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (24 bp):
AAATATAAAATACAAAAAAATATA
Found at i:14205604 original size:17 final size:17
Alignment explanation
Indices: 14205547--14205605 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
14205537 TTATTATTAA
14205547 ATAT-AAAATATAAAA-
1 ATATAAAAATATAAAAT
*
14205562 AAATATAAAATATAAAAT
1 ATATA-AAAATATAAAAT
*
14205580 ACCA-AAAAATATAAAAT
1 A-TATAAAAATATAAAAT
14205597 ATATAAAAA
1 ATATAAAAA
14205606 AAACAAATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
15 3 0.08
16 1 0.03
17 29 0.81
18 2 0.06
19 1 0.03
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
ATATAAAAATATAAAAT
Found at i:14207592 original size:20 final size:18
Alignment explanation
Indices: 14207547--14207595 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
14207537 TTCTTTTTTT
*
14207547 TAAGTAATAAATAAAATT
1 TAAGTAATAAATAAAATA
* *
14207565 TGATTAATAAATTAAAAATA
1 TAAGTAATAAA-T-AAAATA
14207585 TAAGTAATAAA
1 TAAGTAATAAA
14207596 AATGAGAAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 9 0.38
19 1 0.04
20 14 0.58
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (18 bp):
TAAGTAATAAATAAAATA
Found at i:14221347 original size:10 final size:10
Alignment explanation
Indices: 14221332--14221360 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
14221322 AAAAATTTCT
14221332 AATTAAAAAA
1 AATTAAAAAA
14221342 AATT-AAAAA
1 AATTAAAAAA
14221351 AATTAAAAAA
1 AATTAAAAAA
14221361 GCCTTCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AATTAAAAAA
Found at i:14222240 original size:15 final size:16
Alignment explanation
Indices: 14222220--14222249 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14222210 AAAATTAAAA
14222220 ATTTTTAATA-ATTTT
1 ATTTTTAATATATTTT
14222235 ATTTTTAATATATTT
1 ATTTTTAATATATTT
14222250 GTTAAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTTAATATATTTT
Found at i:14223600 original size:265 final size:267
Alignment explanation
Indices: 14223062--14223649 Score: 1000
Period size: 265 Copynumber: 2.2 Consensus size: 267
14223052 AAGCATCAAA
*
14223062 TGCTACTCAATTATTTCCACCTATACGTCAAGCATCAATTGTCACTCAATTATTACGCAGAAAAA
1 TGCTACTTAATTATTTCCACCTATACGTCAAGCATCAATTGTCACTCAATTATTACGCAGAAAAA
* *
14223127 AGCATCAATTCCTAGTGAATTGTATGTACCGACACCTGCTAGCATTAATGGCTACTCAATTATTT
66 AGCATCAATTCCTAGTCAATTATATGTACCGACACCTGCTAGCATTAATGGCTACTCAATTATTT
14223192 CAACCTACAACTGTTAGGATTAATGGCTACTCAAACTACACGGGAAAAAGCAGTAATTGCTACGC
131 CAACCTACAACTGTTAGGATTAATGGCTACTCAAACTA-ACGGGAAAAAGCAGTAATTGCTACGC
** *
14223257 AACTATTTCAACGTACGGCTGCCAGCATCAATGCTACTCAATTATTTGAACCTACACAGAAAAAA
195 AACTATTTCAACGTACACCTGCCAGCATCAATGCTACTCAATTATTTGAACCCACACAGAAAAAA
14223322 ACATTAAT
260 ACATTAAT
14223330 TGCTACTTAATTATTTCCACCTATACGTCAAGCATCAATTGTCACTCAATTATTACGCAGAAAAA
1 TGCTACTTAATTATTTCCACCTATACGTCAAGCATCAATTGTCACTCAATTATTACGCAGAAAAA
*
14223395 AG-ATCAATTGCTAGTCAATTATATGTACCGACACCTGCTAGCATTAATGGCTACTCAATTATTT
66 AGCATCAATTCCTAGTCAATTATATGTACCGACACCTGCTAGCATTAATGGCTACTCAATTATTT
14223459 CAACCTACAACTGTTAGGATTAATGGCTACTCAAACT-ACGGGAAAAAGCAGTAATTGCTACGCA
131 CAACCTACAACTGTTAGGATTAATGGCTACTCAAACTAACGGGAAAAAGCAGTAATTGCTACGCA
*
14223523 ACTATTTCAACGTACACCTGCCAGCATCAATGCTACTCAATTATTTGAACCCACACAGGAAAAAA
196 ACTATTTCAACGTACACCTGCCAGCATCAATGCTACTCAATTATTTGAACCCACACAGAAAAAAA
*
14223588 CATTAGT
261 CATTAAT
* * * * * * *
14223595 TGCTACTTAATTGTTTCAACGTACACCTGCAAGCATCTATTGCCACTCAATTATT
1 TGCTACTTAATTATTTCCACCTATACGT-CAAGCATCAATTGTCACTCAATTATT
14223650 TTAATTTACA
Statistics
Matches: 303, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
265 117 0.39
266 24 0.08
267 96 0.32
268 66 0.22
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (267 bp):
TGCTACTTAATTATTTCCACCTATACGTCAAGCATCAATTGTCACTCAATTATTACGCAGAAAAA
AGCATCAATTCCTAGTCAATTATATGTACCGACACCTGCTAGCATTAATGGCTACTCAATTATTT
CAACCTACAACTGTTAGGATTAATGGCTACTCAAACTAACGGGAAAAAGCAGTAATTGCTACGCA
ACTATTTCAACGTACACCTGCCAGCATCAATGCTACTCAATTATTTGAACCCACACAGAAAAAAA
CATTAAT
Found at i:14223665 original size:81 final size:81
Alignment explanation
Indices: 14223511--14223694 Score: 208
Period size: 81 Copynumber: 2.3 Consensus size: 81
14223501 AAAAAGCAGT
* * * * *
14223511 AATTGCTACGCAACTATTTCAACGTACACCTGCCAGCATCAATGCTACTCAATTATTTGAACCCA
1 AATTGCAACTCAATTATTTCAACGTACACCTGCAAGCATCAATGCCACTCAATTATTTGAACCCA
*
14223576 CACAGGAAAAAACATT
66 CACAGGAAAAAACATC
* * * * * * ***
14223592 AGTTGCTACTTAATTGTTTCAACGTACACCTGCAAGCATCTATTGCCACTCAATTATTTTAATTT
1 AATTGCAACTCAATTATTTCAACGTACACCTGCAAGCATC-AATGCCACTCAATTATTTGAACCC
*
14223657 ACAC-GGAAAAACCATC
65 ACACAGGAAAAAACATC
14223673 AATTGCAACTCAATTATTTCAA
1 AATTGCAACTCAATTATTTCAA
14223695 TCTACAAAAA
Statistics
Matches: 84, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
81 62 0.74
82 22 0.26
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.30
Consensus pattern (81 bp):
AATTGCAACTCAATTATTTCAACGTACACCTGCAAGCATCAATGCCACTCAATTATTTGAACCCA
CACAGGAAAAAACATC
Found at i:14223708 original size:41 final size:41
Alignment explanation
Indices: 14223628--14223779 Score: 106
Period size: 43 Copynumber: 3.6 Consensus size: 41
14223618 CACCTGCAAG
* * * * *** *
14223628 CATCTATTGCCACTCAATTATTTTAATTTACACGGAAAAAC
1 CATCAATTGCAACTCAATTATTTCAATCTACAAAAAAAAAA
14223669 CATCAATTGCAACTCAATTATTTCAATCTACAAAAAAAAAAAA
1 CATCAATTGCAACTCAATTATTTCAATCTAC--AAAAAAAAAA
* * * * * *
14223712 AATCAATTGCAATTCAATTATTTTAACCGACATAAAAAAAAG
1 CATCAATTGCAACTCAATTATTTCAATCTACA-AAAAAAAAA
* *** *
14223754 GATCAATTATTATTCAATTATTTCAA
1 CATCAATTGCAACTCAATTATTTCAA
14223780 CTTACACACT
Statistics
Matches: 89, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
41 28 0.31
42 29 0.33
43 32 0.36
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.32
Consensus pattern (41 bp):
CATCAATTGCAACTCAATTATTTCAATCTACAAAAAAAAAA
Found at i:14223750 original size:42 final size:43
Alignment explanation
Indices: 14223670--14223780 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 43
14223660 CGGAAAAACC
* * *
14223670 ATCAATTGCAACTCAATTATTTCAATCTACAAAAAAAAAAAAA
1 ATCAATTGCAATTCAATTATTTCAACCGACAAAAAAAAAAAAA
* * **
14223713 ATCAATTGCAATTCAATTATTTTAACCGAC-ATAAAAAAAAGG
1 ATCAATTGCAATTCAATTATTTCAACCGACAAAAAAAAAAAAA
***
14223755 ATCAATTATTATTCAATTATTTCAAC
1 ATCAATTGCAATTCAATTATTTCAAC
14223781 TTACACACTA
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 31 0.54
43 26 0.46
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.32
Consensus pattern (43 bp):
ATCAATTGCAATTCAATTATTTCAACCGACAAAAAAAAAAAAA
Found at i:14227325 original size:15 final size:15
Alignment explanation
Indices: 14227305--14227372 Score: 72
Period size: 15 Copynumber: 4.7 Consensus size: 15
14227295 TAAGTTTCAA
14227305 GATTTTGAA-GATTTG
1 GATTTT-AAGGATTTG
*
14227320 GATTTTAAGGGTTTG
1 GATTTTAAGGATTTG
14227335 GA-TTTAAGGATTTTG
1 GATTTTAAGGA-TTTG
*
14227350 GATTTT-AGGGTTTG
1 GATTTTAAGGATTTG
14227364 G-TTTTAAGG
1 GATTTTAAGG
14227373 TATGGAAGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
13 4 0.09
14 17 0.37
15 22 0.48
16 3 0.07
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (15 bp):
GATTTTAAGGATTTG
Found at i:14227342 original size:14 final size:14
Alignment explanation
Indices: 14227316--14227372 Score: 69
Period size: 14 Copynumber: 3.9 Consensus size: 14
14227306 ATTTTGAAGA
14227316 TTTGGATTTTAAGGG
1 TTTGGA-TTTAAGGG
*
14227331 TTTGGATTTAAGGAT
1 TTTGGATTTAAGG-G
*
14227346 TTTGGATTTTAGGG
1 TTTGGATTTAAGGG
*
14227360 TTTGGTTTTAAGG
1 TTTGGATTTAAGG
14227373 TATGGAAGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
14 18 0.50
15 18 0.50
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (14 bp):
TTTGGATTTAAGGG
Found at i:14227359 original size:29 final size:30
Alignment explanation
Indices: 14227316--14227372 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
14227306 ATTTTGAAGA
14227316 TTTGGATTTTAAGGGTTTGGATTTAAGGAT
1 TTTGGATTTTAAGGGTTTGGATTTAAGGAT
*
14227346 TTTGGATTTT-AGGGTTTGGTTTTAAGG
1 TTTGGATTTTAAGGGTTTGGATTTAAGG
14227373 TATGGAAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (30 bp):
TTTGGATTTTAAGGGTTTGGATTTAAGGAT
Found at i:14227429 original size:30 final size:30
Alignment explanation
Indices: 14227350--14227430 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
14227340 AAGGATTTTG
*
14227350 GATTTTAGGGTTTGGTTTTAAGGTATGGAA
1 GATTTTAGGGTTTGGTTTTAAGCTATGGAA
* *
14227380 G-GTTTAGGGTTTTGCTTTTAGAGCT-T-GAA
1 GATTTTAGGG-TTTGGTTTTA-AGCTATGGAA
14227409 GATTTTAGGGTTTCGGTTTTAA
1 GATTTTAGGGTTT-GGTTTTAA
14227431 AATTTGAGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
29 15 0.36
30 24 0.57
31 3 0.07
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.46
Consensus pattern (30 bp):
GATTTTAGGGTTTGGTTTTAAGCTATGGAA
Found at i:14227463 original size:14 final size:14
Alignment explanation
Indices: 14227444--14227492 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
14227434 TTGAGGTTTG
14227444 GGGTTTTGATTTAA
1 GGGTTTTGATTTAA
* *
14227458 GGGTTTGGATTTTAG
1 GGGTTTTGA-TTTAA
14227473 GGGTTTTGATTTAA
1 GGGTTTTGATTTAA
*
14227487 GAGTTT
1 GGGTTT
14227493 AAAGGTTTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (14 bp):
GGGTTTTGATTTAA
Found at i:14227471 original size:15 final size:15
Alignment explanation
Indices: 14227444--14227484 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
14227434 TTGAGGTTTG
14227444 GGGTTTTGA-TTTAA
1 GGGTTTTGATTTTAA
* *
14227458 GGGTTTGGATTTTAG
1 GGGTTTTGATTTTAA
14227473 GGGTTTTGATTT
1 GGGTTTTGATTT
14227485 AAGAGTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (15 bp):
GGGTTTTGATTTTAA
Found at i:14227499 original size:58 final size:56
Alignment explanation
Indices: 14227328--14227503 Score: 158
Period size: 58 Copynumber: 3.0 Consensus size: 56
14227318 TGGATTTTAA
* * * *
14227328 GGGTTTGGATTTAAGGATTTTGGATTTTAGGGTTTGGTTTTAAG-GTATGGAAGGTTTA
1 GGGTTTTGATTTAAGG-GTTTGGATTTTAGGGTTTGGTTTTAAGAGT-T-TAAGGTTTG
* * * * * *
14227386 GGGTTTTGCTTTTAGAGCTTGAAGATTTTAGGGTTTCGGTTTTAA-AATTTGAGGTTTG
1 GGGTTTTGATTTAAGGGTTTG--GATTTTAGGGTTT-GGTTTTAAGAGTTTAAGGTTTG
* *
14227444 GGGTTTTGATTTAAGGGTTTGGATTTTAGGGGTTTTGATTTAAGAGTTTAAAGGTTTG
1 GGGTTTTGATTTAAGGGTTTGGATTTTA-GGGTTTGGTTTTAAGAGTTT-AAGGTTTG
14227502 GG
1 GG
14227504 ATTTCGAATT
Statistics
Matches: 93, Mismatches: 18, Indels: 14
0.74 0.14 0.11
Matches are distributed among these distances:
56 13 0.14
57 13 0.14
58 44 0.47
59 14 0.15
60 9 0.10
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.45
Consensus pattern (56 bp):
GGGTTTTGATTTAAGGGTTTGGATTTTAGGGTTTGGTTTTAAGAGTTTAAGGTTTG
Found at i:14227564 original size:17 final size:16
Alignment explanation
Indices: 14227545--14227620 Score: 84
Period size: 15 Copynumber: 4.8 Consensus size: 16
14227535 AATTTTAGAT
*
14227545 TTTTAGGGGTTTCGGA
1 TTTTAGGGGTTTTGGA
* *
14227561 TTTTA-GGATTTAGGA
1 TTTTAGGGGTTTTGGA
**
14227576 TTTTA-GTATTTTGGA
1 TTTTAGGGGTTTTGGA
14227591 TTTTAGGGGATTTTGGA
1 TTTTAGGGG-TTTTGGA
14227608 TTTTAGGGGTTTT
1 TTTTAGGGGTTTT
14227621 AGAAACCTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
15 26 0.50
16 10 0.19
17 16 0.31
ACGTcount: A:0.17, C:0.01, G:0.30, T:0.51
Consensus pattern (16 bp):
TTTTAGGGGTTTTGGA
Found at i:14227594 original size:7 final size:8
Alignment explanation
Indices: 14227536--14227614 Score: 67
Period size: 8 Copynumber: 10.0 Consensus size: 8
14227526 GATTCAAAGA
14227536 ATTTTA-G
1 ATTTTAGG
14227543 ATTTTTAGG
1 A-TTTTAGG
** *
14227552 GGTTTCGG
1 ATTTTAGG
14227560 ATTTTAGG
1 ATTTTAGG
14227568 A-TTTAGG
1 ATTTTAGG
*
14227575 ATTTTAGT
1 ATTTTAGG
14227583 ATTTT-GG
1 ATTTTAGG
14227590 ATTTTAGGGG
1 ATTTTA--GG
14227600 ATTTT-GG
1 ATTTTAGG
14227607 ATTTTAGG
1 ATTTTAGG
14227615 GGTTTTAGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
7 21 0.37
8 28 0.49
9 1 0.02
10 7 0.12
ACGTcount: A:0.20, C:0.01, G:0.28, T:0.51
Consensus pattern (8 bp):
ATTTTAGG
Found at i:14229325 original size:18 final size:17
Alignment explanation
Indices: 14229292--14229330 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
14229282 ATATTATGTA
14229292 AATAATATAATTTTATT
1 AATAATATAATTTTATT
14229309 AATAA-ATACATTATTATT
1 AATAATATA-ATT-TTATT
14229327 AATA
1 AATA
14229331 TTTAATTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
AATAATATAATTTTATT
Found at i:14230389 original size:12 final size:12
Alignment explanation
Indices: 14230359--14230409 Score: 70
Period size: 12 Copynumber: 4.3 Consensus size: 12
14230349 GTGTGATGTA
14230359 TTTGTTTT-TTT
1 TTTGTTTTGTTT
14230370 TTTGTTTTGTTT
1 TTTGTTTTGTTT
14230382 TGTT-TTTTGTTT
1 T-TTGTTTTGTTT
*
14230394 TTTTTTTTGTTT
1 TTTGTTTTGTTT
14230406 TTTG
1 TTTG
14230410 GTGTAAAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
11 10 0.28
12 24 0.67
13 2 0.06
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTGTTTTGTTT
Found at i:14230389 original size:19 final size:19
Alignment explanation
Indices: 14230359--14230409 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
14230349 GTGTGATGTA
14230359 TTTGTTTT-TTTTTTG--T
1 TTTGTTTTGTTTTTTGTTT
14230375 TTTGTTTTGTTTTTTGTTT
1 TTTGTTTTGTTTTTTGTTT
*
14230394 TTTTTTTTGTTTTTTG
1 TTTGTTTTGTTTTTTG
14230410 GTGTAAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
16 8 0.26
17 7 0.23
19 16 0.52
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (19 bp):
TTTGTTTTGTTTTTTGTTT
Found at i:14242115 original size:14 final size:15
Alignment explanation
Indices: 14242098--14242126 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14242088 ATGTTTTATG
14242098 TTTTC-AAAACAAAA
1 TTTTCGAAAACAAAA
14242112 TTTTCGAAAACAAAA
1 TTTTCGAAAACAAAA
14242127 AAAATGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.28
Consensus pattern (15 bp):
TTTTCGAAAACAAAA
Found at i:14259874 original size:20 final size:18
Alignment explanation
Indices: 14259849--14259899 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
14259839 TCTTCTCATT
*
14259849 TTTATTACTTATATTTTTAA
1 TTTATTACTTA-AATTTT-A
* *
14259869 TTTATTAATCAAATTTTA
1 TTTATTACTTAAATTTTA
14259887 TTTATTACTTAAA
1 TTTATTACTTAAA
14259900 AAAAAAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 12 0.46
19 5 0.19
20 9 0.35
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTATTACTTAAATTTTA
Found at i:14261859 original size:18 final size:17
Alignment explanation
Indices: 14261838--14261899 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
14261828 TCTATTTGTT
14261838 TTTTTTATATATTTTATA
1 TTTTTTAT-TATTTTATA
14261856 TTTTTT-TGGTATTTTATA
1 TTTTTTAT--TATTTTATA
* *
14261874 TTTTGTATTTTTTTATA
1 TTTTTTATTATTTTATA
*
14261891 TTTTATATT
1 TTTTTTATT
14261900 TAATAATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
17 17 0.45
18 20 0.53
19 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
TTTTTTATTATTTTATA
Found at i:14261882 original size:25 final size:24
Alignment explanation
Indices: 14261845--14261900 Score: 85
Period size: 25 Copynumber: 2.3 Consensus size: 24
14261835 GTTTTTTTTA
*
14261845 TATATTTTATATTTTTTTGGTATTT
1 TATATTTTATATTTTTTT-ATATTT
*
14261870 TATATTTTGTATTTTTTTATATTT
1 TATATTTTATATTTTTTTATATTT
14261894 TATATTT
1 TATATTT
14261901 AATAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.73
Consensus pattern (24 bp):
TATATTTTATATTTTTTTATATTT
Found at i:14261885 original size:8 final size:8
Alignment explanation
Indices: 14261839--14261900 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 8
14261829 CTATTTGTTT
14261839 TTTTTATA
1 TTTTTATA
14261847 TATTTTATA
1 T-TTTTATA
* *
14261856 TTTTTTTGG
1 TTTTTAT-A
14261865 TATTTTATA
1 T-TTTTATA
*
14261874 TTTTGTATT
1 TTTT-TATA
14261883 TTTTTATA
1 TTTTTATA
14261891 -TTTTATA
1 TTTTTATA
14261898 TTT
1 TTT
14261901 AATAATAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
7 7 0.16
8 14 0.33
9 17 0.40
10 5 0.12
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (8 bp):
TTTTTATA
Found at i:14261899 original size:17 final size:17
Alignment explanation
Indices: 14261867--14261900 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14261857 TTTTTTGGTA
*
14261867 TTTTATATTTTGTATTT
1 TTTTATATTTTATATTT
14261884 TTTTATATTTTATATTT
1 TTTTATATTTTATATTT
14261901 AATAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATATTTTATATTT
Found at i:14263062 original size:2 final size:2
Alignment explanation
Indices: 14263055--14263082 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14263045 AAAGATTAGC
14263055 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
14263083 CAATTCTTGT
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:14263826 original size:29 final size:28
Alignment explanation
Indices: 14263777--14263836 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
14263767 TAAAAATATT
**
14263777 TATATCTATTATTAATTTTATT-TTTATA
1 TATATCTATTATTAAAATTATTATTTA-A
14263805 TATATCATATTATTAAAATTATTATTTAA
1 TATATC-TATTATTAAAATTATTATTTAA
14263834 TAT
1 TAT
14263837 TTTAATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 6 0.21
29 18 0.64
30 4 0.14
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (28 bp):
TATATCTATTATTAAAATTATTATTTAA
Found at i:14263928 original size:14 final size:14
Alignment explanation
Indices: 14263911--14263945 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
14263901 TTTTTTTATT
*
14263911 TTTTTTGTTTTTAA
1 TTTTTTATTTTTAA
*
14263925 TTTTTAATTTTTAA
1 TTTTTTATTTTTAA
14263939 TTTTTTA
1 TTTTTTA
14263946 ATTAGATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTTTATTTTTAA
Found at i:14263936 original size:15 final size:15
Alignment explanation
Indices: 14263903--14263948 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
14263893 ATAAGTATTT
* **
14263903 TTTTTATTTTTTTTG
1 TTTTTAATTTTTTAA
14263918 TTTTTAA-TTTTTAA
1 TTTTTAATTTTTTAA
14263932 TTTTTAATTTTTTAA
1 TTTTTAATTTTTTAA
14263947 TT
1 TT
14263949 AGATAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTTAATTTTTTAA
Found at i:14263943 original size:8 final size:7
Alignment explanation
Indices: 14263918--14263948 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
14263908 ATTTTTTTTG
14263918 TTTTTAA
1 TTTTTAA
14263925 TTTTTAA
1 TTTTTAA
14263932 TTTTTAA
1 TTTTTAA
14263939 TTTTTTAA
1 -TTTTTAA
14263947 TT
1 TT
14263949 AGATAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTAA
Found at i:14264070 original size:8 final size:8
Alignment explanation
Indices: 14264059--14264083 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14264049 AAAATTGAAA
14264059 AATAAAAT
1 AATAAAAT
14264067 AATAAAAT
1 AATAAAAT
14264075 AATAAAAT
1 AATAAAAT
14264083 A
1 A
14264084 TTTCAGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:14264479 original size:39 final size:41
Alignment explanation
Indices: 14264390--14264479 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 41
14264380 GTACAAGTCG
* * * *
14264390 AAATAATTGAATAGTAATAAATGCTTTTTCTGTGTAAATTG
1 AAATAATTGAATAGTAATAAATGCTTTGTCAGTGCAAATTA
**
14264431 AAATAATTGAATAGTAATTGATG-TTTGT-AGTGCAAATTA
1 AAATAATTGAATAGTAATAAATGCTTTGTCAGTGCAAATTA
14264470 AAATAATTGA
1 AAATAATTGA
14264480 GTAGCAACTG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 18 0.42
40 4 0.09
41 21 0.49
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (41 bp):
AAATAATTGAATAGTAATAAATGCTTTGTCAGTGCAAATTA
Found at i:14265458 original size:25 final size:25
Alignment explanation
Indices: 14265430--14265487 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
14265420 AAGTGTTGAT
14265430 TCACATTATTTGTTGGCAAGTCGTA
1 TCACATTATTTGTTGGCAAGTCGTA
14265455 TCACATTATTTGTTGGCAAGTCGTA
1 TCACATTATTTGTTGGCAAGTCGTA
*
14265480 TCCCATTA
1 TCACATTA
14265488 AAGCATGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (25 bp):
TCACATTATTTGTTGGCAAGTCGTA
Found at i:14267249 original size:28 final size:30
Alignment explanation
Indices: 14267183--14267249 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 30
14267173 ATGAATTCAA
*
14267183 AAAAAATTT-TATAAAATATATCTTAAATT
1 AAAAAATTTATATAAAAAATATCTTAAATT
* *
14267212 AAAAAA-TTATA-AAAAAAT-TTTTAAGTT
1 AAAAAATTTATATAAAAAATATCTTAAATT
14267239 AAAAAATTTAT
1 AAAAAATTTAT
14267250 TAATATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 13 0.39
28 12 0.36
29 8 0.24
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (30 bp):
AAAAAATTTATATAAAAAATATCTTAAATT
Found at i:14267382 original size:20 final size:20
Alignment explanation
Indices: 14267353--14267394 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
14267343 ATGTCAAATA
14267353 TTAGACTTGTACCTTGGTAT
1 TTAGACTTGTACCTTGGTAT
*
14267373 TTAGATTTGTACCTTGGTAT
1 TTAGACTTGTACCTTGGTAT
14267393 TT
1 TT
14267395 GTATAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (20 bp):
TTAGACTTGTACCTTGGTAT
Found at i:14268731 original size:2 final size:2
Alignment explanation
Indices: 14268724--14268753 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14268714 CCACCATTCT
14268724 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14268754 GTCCCTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:14269102 original size:19 final size:18
Alignment explanation
Indices: 14269063--14269112 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
14269053 GAATTAAAAG
*
14269063 AAAATTTTAAAAATTTAT
1 AAAATTATAAAAATTTAT
* *
14269081 AAAATTCTAAAAATTTTTT
1 AAAATTATAAAAA-TTTAT
14269100 AAAATTATAAAAA
1 AAAATTATAAAAA
14269113 AATAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTATAAAAATTTAT
Found at i:14269179 original size:48 final size:48
Alignment explanation
Indices: 14269081--14269179 Score: 119
Period size: 48 Copynumber: 2.1 Consensus size: 48
14269071 AAAAATTTAT
*
14269081 AAAATTCTAAAAATTTTTTAAAATTATAAAAAAATAAAAAAAAGTTAA
1 AAAATTCTAAAAATTTTTTAAAATTATAAAAAAATAAAAAAAAGTGAA
* * * * **
14269129 AAAATTCTACACATTTTTTAAAAATTATTAAAAATTAAGGAAAA-TGAA
1 AAAATTCTAAAAATTTTTT-AAAATTATAAAAAAATAAAAAAAAGTGAA
14269177 AAA
1 AAA
14269180 TTTTCAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 23 0.53
49 20 0.47
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (48 bp):
AAAATTCTAAAAATTTTTTAAAATTATAAAAAAATAAAAAAAAGTGAA
Found at i:14270206 original size:21 final size:21
Alignment explanation
Indices: 14270161--14270203 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
14270151 CTATTTCAAG
14270161 AATTTTTTAAAAAATTTTTGA
1 AATTTTTTAAAAAATTTTTGA
**
14270182 AATTTTTTTGAAAA-TTTTGA
1 AATTTTTTAAAAAATTTTTGA
14270202 AA
1 AA
14270204 ATTAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (21 bp):
AATTTTTTAAAAAATTTTTGA
Found at i:14270329 original size:10 final size:10
Alignment explanation
Indices: 14270292--14270329 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
14270282 TATTTTTTTA
14270292 ATTTTAAAA-
1 ATTTTAAAAT
14270301 ATTTTAAAAT
1 ATTTTAAAAT
* *
14270311 GTTTAAAAAT
1 ATTTTAAAAT
14270321 ATTTTAAAA
1 ATTTTAAAA
14270330 GTTTTTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:14280337 original size:19 final size:18
Alignment explanation
Indices: 14280315--14280363 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
14280305 AATTAATTAA
*
14280315 AAATAATATTGTATTTATT
1 AAATAATATTATA-TTATT
*
14280334 AAATAAAATTATATTATT
1 AAATAATATTATATTATT
**
14280352 GCATAATATTAT
1 AAATAATATTAT
14280364 TTAATACTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (18 bp):
AAATAATATTATATTATT
Found at i:14280508 original size:22 final size:24
Alignment explanation
Indices: 14280480--14280536 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 24
14280470 TAGAAAATTT
14280480 TAATTAAA-AT-AATATTAAAAAG
1 TAATTAAATATAAATATTAAAAAG
*
14280502 TAATTAATTATATAAATATTAAAAAT
1 TAATTAA--ATATAAATATTAAAAAG
*
14280528 TAAATAAAT
1 TAATTAAAT
14280537 GACTGTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 7 0.24
24 3 0.10
25 2 0.07
26 17 0.59
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (24 bp):
TAATTAAATATAAATATTAAAAAG
Found at i:14286733 original size:12 final size:12
Alignment explanation
Indices: 14286658--14286752 Score: 50
Period size: 13 Copynumber: 7.3 Consensus size: 12
14286648 TAAAATTAAT
* *
14286658 AAAATAATAATG
1 AAAATAAAAAAG
*
14286670 ATAAATAAAATA-
1 A-AAATAAAAAAG
14286682 AAAATAAAATAAG
1 AAAATAAAA-AAG
*
14286695 AAAAACCTAAAAATG
1 -AAAA--TAAAAAAG
*
14286710 AAAATTGCAAAAA-
1 AAAA-T-AAAAAAG
14286723 AAAATCAAAAAATG
1 AAAAT-AAAAAA-G
14286737 AAAATAAAAAAG
1 AAAATAAAAAAG
14286749 AAAA
1 AAAA
14286753 GGAAAACCTA
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
11 8 0.12
12 14 0.22
13 18 0.28
14 17 0.27
15 2 0.03
16 5 0.08
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAG
Found at i:14286752 original size:27 final size:27
Alignment explanation
Indices: 14286676--14286752 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
14286666 AATGATAAAT
* *
14286676 AAAATAAAAATAAAATAAGAAAAACCTA
1 AAAATGAAAATAAAA-AAGAAAAACCAA
** *
14286704 AAAATGAAAATTGCAAAA-AAAAATCAA
1 AAAATGAAAA-TAAAAAAGAAAAACCAA
14286731 AAAATGAAAATAAAAAAGAAAA
1 AAAATGAAAATAAAAAAGAAAA
14286753 GGAAAACCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
26 5 0.12
27 21 0.52
28 11 0.28
29 3 0.08
ACGTcount: A:0.75, C:0.05, G:0.06, T:0.13
Consensus pattern (27 bp):
AAAATGAAAATAAAAAAGAAAAACCAA
Found at i:14290728 original size:31 final size:30
Alignment explanation
Indices: 14290685--14290747 Score: 99
Period size: 31 Copynumber: 2.1 Consensus size: 30
14290675 AAAAATAAAG
* *
14290685 AAAATTAAAAATTTTCAAAAAAAGTTTTAA
1 AAAATTAAAAATTTTCAAAAAAACTTTGAA
14290715 AAAATCTAAAAATTTTCAAAAAAACTTTGAA
1 AAAAT-TAAAAATTTTCAAAAAAACTTTGAA
14290746 AA
1 AA
14290748 TTTCAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 5 0.17
31 25 0.83
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.30
Consensus pattern (30 bp):
AAAATTAAAAATTTTCAAAAAAACTTTGAA
Found at i:14290736 original size:20 final size:20
Alignment explanation
Indices: 14290713--14290757 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
14290703 AAAAAGTTTT
14290713 AAAAAA-TCTAAAAATTTTCA
1 AAAAAACTCTAAAAA-TTTCA
* *
14290733 AAAAAACTTTGAAAATTTCA
1 AAAAAACTCTAAAAATTTCA
14290753 AAAAA
1 AAAAA
14290758 TGAATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAAACTCTAAAAATTTCA
Found at i:14290737 original size:21 final size:20
Alignment explanation
Indices: 14290713--14290757 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
14290703 AAAAAGTTTT
14290713 AAAAAATCTAAAAATTTTCAA
1 AAAAAATCTAAAAA-TTTCAA
* * *
14290734 AAAAACTTTGAAAATTTCAA
1 AAAAAATCTAAAAATTTCAA
14290754 AAAA
1 AAAA
14290758 TGAATATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAAATCTAAAAATTTCAA
Found at i:14290757 original size:31 final size:31
Alignment explanation
Indices: 14290691--14290758 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
14290681 AAAGAAAATT
* * *
14290691 AAAAATTTTCAAAAAAAGTTTTAAAAAATCT
1 AAAAATTTTCAAAAAAACTTTGAAAAAATCA
**
14290722 AAAAATTTTCAAAAAAACTTTGAAAATTTCA
1 AAAAATTTTCAAAAAAACTTTGAAAAAATCA
14290753 AAAAAT
1 AAAAAT
14290759 GAATATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (31 bp):
AAAAATTTTCAAAAAAACTTTGAAAAAATCA
Found at i:14291805 original size:11 final size:10
Alignment explanation
Indices: 14291774--14291875 Score: 74
Period size: 10 Copynumber: 10.8 Consensus size: 10
14291764 TTTTATATTA
14291774 TTTTA-AATT
1 TTTTAGAATT
14291783 TTTTAGAATT
1 TTTTAGAATT
14291793 TTCTTAG-ATT
1 TT-TTAGAATT
14291803 TTTT-GAA-T
1 TTTTAGAATT
* *
14291811 TTTTAAAACT
1 TTTTAGAATT
*
14291821 TTTTGGAATT
1 TTTTAGAATT
*
14291831 TTTTTGAA--
1 TTTTAGAATT
14291839 TTTTA-AATT
1 TTTTAGAATT
*
14291848 TTTTATAATT
1 TTTTAGAATT
* * *
14291858 TTTAAAAATA
1 TTTTAGAATT
14291868 TTTTAGAA
1 TTTTAGAA
14291876 AATTTTTAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
7 2 0.03
8 10 0.14
9 15 0.20
10 43 0.58
11 4 0.05
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (10 bp):
TTTTAGAATT
Found at i:14291805 original size:38 final size:37
Alignment explanation
Indices: 14291751--14291860 Score: 100
Period size: 38 Copynumber: 2.9 Consensus size: 37
14291741 TTTAATTCAT
14291751 AATTTTCCTTAG-TTTTTATATTATTTTAAATTTTTTAG
1 AATTTT-CTTAGATTTTTATATT-TTTTAAATTTTTTAG
* * *
14291789 AATTTTCTTAGATTTTT-TGAATTTTTAAAACTTTTTGG
1 AATTTTCTTAGATTTTTAT--ATTTTTTAAATTTTTTAG
* * *
14291827 AATTTT-TTTGAATTTTAAATTTTTTATAATTTTT
1 AATTTTCTTAGATTTTTATATTTTTTA-AATTTTT
14291861 AAAAATATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
36 7 0.12
37 20 0.34
38 29 0.49
39 3 0.05
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (37 bp):
AATTTTCTTAGATTTTTATATTTTTTAAATTTTTTAG
Found at i:14291815 original size:28 final size:28
Alignment explanation
Indices: 14291801--14291860 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
14291791 TTTTCTTAGA
* *
14291801 TTTTTTGAATTTTTAAAACTTTTTGGAAT
1 TTTTTTGAATTTTT-AAATTTTTTAGAAT
*
14291830 TTTTTTGAA-TTTTAAATTTTTTATAAT
1 TTTTTTGAATTTTTAAATTTTTTAGAAT
14291857 TTTT
1 TTTT
14291861 AAAAATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 15 0.54
28 4 0.14
29 9 0.32
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.65
Consensus pattern (28 bp):
TTTTTTGAATTTTTAAATTTTTTAGAAT
Found at i:14291903 original size:10 final size:9
Alignment explanation
Indices: 14291763--14291902 Score: 68
Period size: 10 Copynumber: 14.6 Consensus size: 9
14291753 TTTTCCTTAG
*
14291763 TTTTTATAT
1 TTTTTAAAT
14291772 TATTTTAAAT
1 T-TTTTAAAT
14291782 TTTTTAGAAT
1 TTTTTA-AAT
*
14291792 TTTCTTAGAT
1 TTT-TTAAAT
*
14291802 TTTTTGAAT
1 TTTTTAAAT
*
14291811 TTTTAAAACT
1 TTTTTAAA-T
* *
14291821 TTTTGGAATT
1 TTTT-TAAAT
*
14291831 TTTTTGAA-
1 TTTTTAAAT
14291839 -TTTTAAAT
1 TTTTTAAAT
14291847 TTTTTATAAT
1 TTTTTA-AAT
*
14291857 TTTTAAAAAT
1 TTTT-TAAAT
* *
14291867 ATTTTAGAAAA
1 -TTTT-TAAAT
*
14291878 TTTTTAATGTT
1 TTTTTAA--AT
14291889 TTTTTAAAT
1 TTTTTAAAT
14291898 TTTTT
1 TTTTT
14291903 TTAATTCTAA
Statistics
Matches: 100, Mismatches: 19, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
7 6 0.06
9 30 0.30
10 43 0.43
11 21 0.21
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:14293318 original size:52 final size:51
Alignment explanation
Indices: 14293233--14293378 Score: 195
Period size: 52 Copynumber: 2.8 Consensus size: 51
14293223 TATAACTATA
* * *
14293233 CAAACTTGCCCA-TAAGAATCTCTCTCCTCTTAGAATTCTTTTCCTGCAAGT
1 CAAACTTGCCTATTAAGAATC-CTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* *
14293284 CAAACTTGCCTATTAAGAATCCATTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-TTTCCTCTTAGAATTCTTCTCCTGCAAGT
* *
14293336 CAAACTTACCTATTAAGAATCCTCTTTCTCTTAGAATTCTTCT
1 CAAACTTGCCTATTAAGAATCCT-TTCCTCTTAGAATTCTTCT
14293379 TTTCCAAGTC
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
51 13 0.15
52 71 0.85
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:14293429 original size:11 final size:11
Alignment explanation
Indices: 14293413--14293443 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
14293403 GCAATATCTG
14293413 ACAAATCTCAA
1 ACAAATCTCAA
*
14293424 ACAAATCCCAA
1 ACAAATCTCAA
14293435 ACAAATCTC
1 ACAAATCTC
14293444 TTATGGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:14293749 original size:25 final size:25
Alignment explanation
Indices: 14293693--14293767 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
14293683 CTCTTCCCAT
* *
14293693 ATCTTGAACTATCAACTCTTTTCAT
1 ATCTTGAACCATCAACTCTTTTCAC
* * **
14293718 GTTTTGAACCATCGGCTCTTTTCAC
1 ATCTTGAACCATCAACTCTTTTCAC
* * *
14293743 ATCTTGAATCTTCAACTCTTCTCAC
1 ATCTTGAACCATCAACTCTTTTCAC
14293768 GTTTCAAACA
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.23, C:0.28, G:0.08, T:0.41
Consensus pattern (25 bp):
ATCTTGAACCATCAACTCTTTTCAC
Found at i:14294404 original size:52 final size:51
Alignment explanation
Indices: 14294318--14294474 Score: 188
Period size: 52 Copynumber: 3.0 Consensus size: 51
14294308 TATAACCATA
* * * *
14294318 CAAACTTACCTATTAAGAATTTCTCTCCTCTTAGAATTTTTCTTTTGTAAGT
1 CAAACTTACCTATTAAGAA-TCCTCTCCTCTTAGAATTCTTCTATTGCAAGT
* * *
14294370 CAAACTTGCCTATTAAGAATCCATTTCCTTTTAGAATTCTTCTATTGCAAGT
1 CAAACTTACCTATTAAGAATCC-TCTCCTCTTAGAATTCTTCTATTGCAAGT
* * * *
14294422 CAAACTTACCTATTAAGAATCTTCTTTCTCTTAAAATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATCCTC-TCCTCTTAGAATTCTTCTATTGCAAGT
14294474 C
1 C
14294475 TTCTTGTCCA
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
51 3 0.03
52 86 0.97
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (51 bp):
CAAACTTACCTATTAAGAATCCTCTCCTCTTAGAATTCTTCTATTGCAAGT
Found at i:14294515 original size:11 final size:11
Alignment explanation
Indices: 14294499--14294529 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
14294489 GTAATATTTG
14294499 ACAAATCTCAA
1 ACAAATCTCAA
*
14294510 ACAAATCCCAA
1 ACAAATCTCAA
14294521 ACAAATCTC
1 ACAAATCTC
14294530 TTATGAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:14295869 original size:52 final size:52
Alignment explanation
Indices: 14295783--14295929 Score: 197
Period size: 52 Copynumber: 2.8 Consensus size: 52
14295773 TATAACTATA
* * * * *
14295783 CAAACTTGCCCATTAAGAATCTCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * *
14295835 CAAACTTATCTATTAAGAATCCCTTTCCTTTTAGAATTATTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
14295887 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTAGAATTCTTCT
1 CAAACTTACCTATTAAGAATCC-CTTTCCTCTTAGAATTCTTCT
14295930 TTTTCAAGTC
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
52 78 0.95
53 4 0.05
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.40
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:14303298 original size:25 final size:25
Alignment explanation
Indices: 14303248--14303299 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
14303238 TGTTATTTTA
*
14303248 TTTTTTTAATTATTCTTCAAGTGTT
1 TTTTTTTAATTATTCATCAAGTGTT
* *
14303273 TTTTTTTTATTATT-ATCTAGTCGTT
1 TTTTTTTAATTATTCATCAAGT-GTT
14303298 TT
1 TT
14303300 GAAAGGATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.17, C:0.08, G:0.08, T:0.67
Consensus pattern (25 bp):
TTTTTTTAATTATTCATCAAGTGTT
Found at i:14306152 original size:29 final size:29
Alignment explanation
Indices: 14306119--14306177 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
14306109 TTGAACACAT
14306119 AGAATATGTTTTGTAAGTAATTTTGTTAC
1 AGAATATGTTTTGTAAGTAATTTTGTTAC
14306148 AGAATATGTTTTGTAAGTAATTTTGTTAC
1 AGAATATGTTTTGTAAGTAATTTTGTTAC
14306177 A
1 A
14306178 TATGAAAAGA
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:0.32, C:0.03, G:0.17, T:0.47
Consensus pattern (29 bp):
AGAATATGTTTTGTAAGTAATTTTGTTAC
Found at i:14310492 original size:29 final size:29
Alignment explanation
Indices: 14310450--14310507 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
14310440 ATCTTCTTAA
14310450 GGATCTCTTTTACGACTATGTATATGGAG
1 GGATCTCTTTTACGACTATGTATATGGAG
14310479 GGATCTCTTTTACGACTATGTATATGGAG
1 GGATCTCTTTTACGACTATGTATATGGAG
14310508 ACACCTTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (29 bp):
GGATCTCTTTTACGACTATGTATATGGAG
Found at i:14312402 original size:27 final size:27
Alignment explanation
Indices: 14312364--14312417 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
14312354 AAATATAATG
*
14312364 TTAAAAAATTTATT-TTTATTATTTTAT
1 TTAAAAAATTTATTATTTA-CATTTTAT
14312391 TTAAAAAATTTATTATTTACATTTTAT
1 TTAAAAAATTTATTATTTACATTTTAT
14312418 AAAATTTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (27 bp):
TTAAAAAATTTATTATTTACATTTTAT
Found at i:14314316 original size:3 final size:3
Alignment explanation
Indices: 14314308--14314344 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14314298 CAAAAGCAAG
14314308 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
14314345 TATTATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:14314349 original size:3 final size:3
Alignment explanation
Indices: 14314343--14314382 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
14314333 AATAATAATA
14314343 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
14314383 CACAATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:14315500 original size:21 final size:21
Alignment explanation
Indices: 14315464--14315506 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14315454 TAAAATCAGA
* * *
14315464 TGATTTTATTGTCATAGAAGT
1 TGATTTTATCGCCATAAAAGT
14315485 TGATTTTATCGCCATAAAAGT
1 TGATTTTATCGCCATAAAAGT
14315506 T
1 T
14315507 AAATGAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.44
Consensus pattern (21 bp):
TGATTTTATCGCCATAAAAGT
Found at i:14315637 original size:2 final size:2
Alignment explanation
Indices: 14315632--14315658 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14315622 AAAAAAGTTG
14315632 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14315659 AAATCCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14322926 original size:2 final size:2
Alignment explanation
Indices: 14322921--14322947 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14322911 ACATATACAC
14322921 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14322948 AAGTGATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.