Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 77 of 106
Found at i:14963992 original size:18 final size:18
Alignment explanation
Indices: 14963959--14964016 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
14963949 TATATTATTT
14963959 TTATATTT-TATATTTATA
1 TTATATTTATAT-TTTATA
14963977 TTATATTTATATTTTATCA
1 TTATATTTATATTTTAT-A
** *
14963996 TCGTA-TCATATTTTATA
1 TTATATTTATATTTTATA
14964013 TTAT
1 TTAT
14964017 TAAATTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
17 3 0.09
18 23 0.70
19 7 0.21
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATATTTATATTTTATA
Found at i:14977113 original size:14 final size:13
Alignment explanation
Indices: 14977085--14977123 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
14977075 AAGCCAGATA
*
14977085 TATATTATATATT
1 TATATAATATATT
*
14977098 TATATACATATTTT
1 TATATA-ATATATT
14977112 TATATAATATAT
1 TATATAATATAT
14977124 ATGAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATAATATATT
Found at i:14985733 original size:14 final size:14
Alignment explanation
Indices: 14985714--14985741 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14985704 TAGGAAACAC
14985714 TTCCTACATTTGCT
1 TTCCTACATTTGCT
14985728 TTCCTACATTTGCT
1 TTCCTACATTTGCT
14985742 CCTGACTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.29, G:0.07, T:0.50
Consensus pattern (14 bp):
TTCCTACATTTGCT
Found at i:14992393 original size:21 final size:21
Alignment explanation
Indices: 14992369--14992408 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14992359 AAATGGATTA
*
14992369 TTTATTTATACATTTATTATT
1 TTTATCTATACATTTATTATT
**
14992390 TTTATCTATTTATTTATTA
1 TTTATCTATACATTTATTA
14992409 ATAATTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTATCTATACATTTATTATT
Found at i:14992840 original size:18 final size:18
Alignment explanation
Indices: 14992798--14992840 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
14992788 ATTATACTCT
*
14992798 TAAAAATTATATTAATAA
1 TAAAAATTATATAAATAA
** *
14992816 TTTAAATTATATAAATTA
1 TAAAAATTATATAAATAA
14992834 TAAAAAT
1 TAAAAAT
14992841 GGATAATTTT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAAATTATATAAATAA
Found at i:14993513 original size:16 final size:16
Alignment explanation
Indices: 14993485--14993528 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
14993475 ATTTGATTTG
14993485 AAATT-AATAAAATATA
1 AAATTAAAT-AAATATA
*
14993501 AAATTAAATAAATATT
1 AAATTAAATAAATATA
*
14993517 TAATTAAATAAA
1 AAATTAAATAAA
14993529 AATTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 22 0.88
17 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTAAATAAATATA
Found at i:14993525 original size:28 final size:26
Alignment explanation
Indices: 14993488--14993542 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
14993478 TGATTTGAAA
14993488 TTAATAAAATATAAAATTAAATAAATAT
1 TTAATAAAATA-AAAATTAAA-AAATAT
* *
14993516 TTAATTAAATAAAAATTTAAAAATAT
1 TTAATAAAATAAAAATTAAAAAATAT
14993542 T
1 T
14993543 ATATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 7 0.28
27 8 0.32
28 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
TTAATAAAATAAAAATTAAAAAATAT
Found at i:14993533 original size:16 final size:16
Alignment explanation
Indices: 14993502--14993535 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
14993492 TAAAATATAA
*
14993502 AATTAAATAAATATTT
1 AATTAAATAAAAATTT
14993518 AATTAAATAAAAATTT
1 AATTAAATAAAAATTT
14993534 AA
1 AA
14993536 AAATATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTAAATAAAAATTT
Found at i:14995839 original size:13 final size:12
Alignment explanation
Indices: 14995820--14995859 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
14995810 CTTCTTCTCA
14995820 TGTTTTATTTTT
1 TGTTTTATTTTT
14995832 TAGTTTTATTTTT
1 T-GTTTTATTTTT
*
14995845 TGCTTTTTTTTTT
1 TG-TTTTATTTTT
14995858 TG
1 TG
14995860 CGGGTGTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 2 0.08
13 23 0.92
ACGTcount: A:0.07, C:0.03, G:0.10, T:0.80
Consensus pattern (12 bp):
TGTTTTATTTTT
Found at i:14996514 original size:15 final size:16
Alignment explanation
Indices: 14996480--14996519 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
14996470 TTAAGCTTTA
*
14996480 AATTTTATTTGTATTTT
1 AATTTT-TTTGTAGTTT
14996497 AATTTTTTT-TAGTTT
1 AATTTTTTTGTAGTTT
14996512 AATTTTTT
1 AATTTTTT
14996520 GTTTAACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.59
16 3 0.14
17 6 0.27
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (16 bp):
AATTTTTTTGTAGTTT
Found at i:14997252 original size:45 final size:47
Alignment explanation
Indices: 14997200--14997303 Score: 160
Period size: 47 Copynumber: 2.3 Consensus size: 47
14997190 GTTTGCATGG
*
14997200 TTAATATATTTATTTGTGTGATT-TA-TTAATAT-ATATGCATGATTA
1 TTAATATATTTATTTGTATGATTATATTTAATATGAT-TGCATGATTA
*
14997245 TTAATATATTTATTTGTATGATTATATTTAATTTGATTGCATGATTA
1 TTAATATATTTATTTGTATGATTATATTTAATATGATTGCATGATTA
14997292 TTAATATATTTA
1 TTAATATATTTA
14997304 ATTTTATATT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
45 22 0.41
46 2 0.04
47 28 0.52
48 2 0.04
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.55
Consensus pattern (47 bp):
TTAATATATTTATTTGTATGATTATATTTAATATGATTGCATGATTA
Found at i:14997390 original size:20 final size:23
Alignment explanation
Indices: 14997347--14997398 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 23
14997337 TACATGATTG
*
14997347 CATGATTTATATATTATTATTTA
1 CATGATTTATATATTATTAATTA
14997370 CATGA-TTATATA-T-TTAATTA
1 CATGATTTATATATTATTAATTA
14997390 CAT-ATTTAT
1 CATGATTTAT
14997399 TTGCATGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 13 0.48
21 1 0.04
22 7 0.26
23 5 0.19
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (23 bp):
CATGATTTATATATTATTAATTA
Found at i:14997407 original size:141 final size:137
Alignment explanation
Indices: 14997250--14997520 Score: 322
Period size: 141 Copynumber: 1.9 Consensus size: 137
14997240 GATTATTAAT
* *
14997250 ATATTTATTTGTATGATTATATTTAATTTGATTGCATGATTATTAATATATTTAATTT-TAT-AT
1 ATATTTATTTGCATGATTATA--T-ATTTAATTGCATGATTATTAATATATTT-ATTTGTATGAT
* *
14997313 T-T-TGAATGTTTATATA-TTA-TTATTTACATGATTGCATGATTTATATATTATTATTTACATG
62 TGTATGAATATTAATATATTTATTTATTT--ATGATTGCATGATTT-TATA-T-TTA-TTACATG
14997374 ATTAT-ATATTTAATTAC
121 A-TATGATATTTAATTAC
* *
14997391 ATATTTATTTGCATGATTATATATTTAATTGTATGATTATTAATTTATTTATTTGTATGATTGTA
1 ATATTTATTTGCATGATTATATATTTAATTGCATGATTATTAATATATTTATTTGTATGATTGTA
* *
14997456 TGATTATTAATATATTTATTTATTTATTATTGCATGATTTTATATTTATTACATGATATGATATT
66 TGAATATTAATATATTTATTTATTTATGATTGCATGATTTTATATTTATTACATGATATGATATT
14997521 ATATGTTATT
Statistics
Matches: 115, Mismatches: 8, Indels: 18
0.82 0.06 0.13
Matches are distributed among these distances:
136 3 0.03
137 17 0.15
138 31 0.27
139 5 0.04
140 5 0.04
141 45 0.39
142 3 0.03
143 6 0.05
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.56
Consensus pattern (137 bp):
ATATTTATTTGCATGATTATATATTTAATTGCATGATTATTAATATATTTATTTGTATGATTGTA
TGAATATTAATATATTTATTTATTTATGATTGCATGATTTTATATTTATTACATGATATGATATT
TAATTAC
Found at i:14997431 original size:32 final size:31
Alignment explanation
Indices: 14997330--14997420 Score: 105
Period size: 32 Copynumber: 2.9 Consensus size: 31
14997320 GTTTATATAT
** *
14997330 TATTATTTACATGATTGCATGATTT-ATATA-T
1 TATTATTTACATGATTATAT-ATTTAAT-TACA
14997361 TATTATTTACATGATTATATATTTAATTACA
1 TATTATTTACATGATTATATATTTAATTACA
*
14997392 TATTTATTTGCATGATTATATATTTAATT
1 TA-TTATTTACATGATTATATATTTAATT
14997421 GTATGATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
30 6 0.11
31 22 0.42
32 25 0.47
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (31 bp):
TATTATTTACATGATTATATATTTAATTACA
Found at i:14997437 original size:20 final size:20
Alignment explanation
Indices: 14997386--14997430 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
14997376 TATATATTTA
* *
14997386 ATTACATATTTATTTGCATG
1 ATTATATATTTAATTGCATG
*
14997406 ATTATATATTTAATTGTATG
1 ATTATATATTTAATTGCATG
14997426 ATTAT
1 ATTAT
14997431 TAATTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.53
Consensus pattern (20 bp):
ATTATATATTTAATTGCATG
Found at i:14997441 original size:44 final size:41
Alignment explanation
Indices: 14997392--14997560 Score: 139
Period size: 44 Copynumber: 3.9 Consensus size: 41
14997382 TTTAATTACA
*
14997392 TATTTATTTGCATGATTATATATTTAATTGTATGATTATTAATT
1 TATTTATTTGCATGATTATATATTT-ATT-AATGA-TATTAATT
* * *
14997436 TATTTATTTGTATGATTGTATGA-TTATTAAT-ATATTTATT
1 TATTTATTTGCATGATTATAT-ATTTATTAATGATATTAATT
* *
14997476 TATTTATTATTGCATGATTTTATATTTATTACATGATATGATATT
1 TATTTA-T-TTGCATGATTATATATTTATTA-ATGATATTA-ATT
14997521 ATATGTTA-TTGCATGATTA-ATATTATATTTGAATGATATT
1 -TAT-TTATTTGCATGATTATATATT-TA-TT-AATGATATT
14997561 TAGTTGCATG
Statistics
Matches: 103, Mismatches: 10, Indels: 23
0.76 0.07 0.17
Matches are distributed among these distances:
40 13 0.13
41 3 0.03
42 20 0.19
43 10 0.10
44 37 0.36
45 13 0.13
46 4 0.04
47 3 0.03
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (41 bp):
TATTTATTTGCATGATTATATATTTATTAATGATATTAATT
Found at i:14997516 original size:24 final size:24
Alignment explanation
Indices: 14997489--14997550 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
14997479 TTATTATTGC
*
14997489 ATGATTTTATATTTATTACATGAT
1 ATGATATTATATTTATTACATGAT
*
14997513 ATGATATTATATGTTATTGCATGAT
1 ATGATATTATAT-TTATTACATGAT
*
14997538 -TAATATTATATTT
1 ATGATATTATATTT
14997551 GAATGATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.06
24 21 0.62
25 11 0.32
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (24 bp):
ATGATATTATATTTATTACATGAT
Found at i:14997519 original size:19 final size:19
Alignment explanation
Indices: 14997482--14997520 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14997472 TATTTATTTA
* * *
14997482 TTATTGCATGATTTTATAT
1 TTATTACATGATATGATAT
14997501 TTATTACATGATATGATAT
1 TTATTACATGATATGATAT
14997520 T
1 T
14997521 ATATGTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (19 bp):
TTATTACATGATATGATAT
Found at i:14997694 original size:20 final size:19
Alignment explanation
Indices: 14997661--14997748 Score: 67
Period size: 17 Copynumber: 4.7 Consensus size: 19
14997651 ATGGTTATTA
*
14997661 ATATATTTGTATGATATTTT
1 ATATA-TTGCATGATATTTT
14997681 ATATTATTGCATGAT-TTTT
1 ATA-TATTGCATGATATTTT
* * *
14997700 GTAT-TTACATGAT-TGTT
1 ATATATTGCATGATATTTT
* *
14997717 AT-TATTGCATGATAATTA
1 ATATATTGCATGATATTTT
14997735 ATATATTTGCATGA
1 ATATA-TTGCATGA
14997749 CATTCTTACA
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
16 1 0.02
17 20 0.37
18 4 0.07
19 8 0.15
20 19 0.35
21 2 0.04
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (19 bp):
ATATATTGCATGATATTTT
Found at i:14997798 original size:24 final size:24
Alignment explanation
Indices: 14997771--14997816 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
14997761 AATATTTTCG
14997771 CATGAT-CTAGGTATGATATTATTT
1 CATGATACTAGGTATGAT-TTATTT
* *
14997795 CATGGTACTTGGTATGATTTAT
1 CATGATACTAGGTATGATTTAT
14997817 AATATATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.46
Consensus pattern (24 bp):
CATGATACTAGGTATGATTTATTT
Found at i:15003594 original size:2 final size:2
Alignment explanation
Indices: 15003589--15003616 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15003579 ATATATGTGA
15003589 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
15003617 TTCATTTGAA
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:15004958 original size:11 final size:11
Alignment explanation
Indices: 15004942--15004966 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15004932 AAATTTCATA
15004942 AGAGATTTGTT
1 AGAGATTTGTT
15004953 AGAGATTTGTT
1 AGAGATTTGTT
15004964 AGA
1 AGA
15004967 TATTGCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:15005074 original size:52 final size:51
Alignment explanation
Indices: 15004987--15005142 Score: 172
Period size: 52 Copynumber: 3.0 Consensus size: 51
15004977 CGGACAAGAA
* * *
15004987 GACTTACA-AAAGAAGAATTTTAAAAGAAAAAAGATTCTTAATAGGTAAGTTT
1 GACTTACAGAAA-AAGAATTCTAAGAG-AAAAAGATTTTTAATAGGTAAGTTT
* * * * *
15005039 GACTTGCA-AGAGAAGAATTCTAAGGCGAAAGAGATTTTTAATAGGCAAGTTT
1 GACTTACAGA-AAAAGAATTCTAA-GAGAAAAAGATTTTTAATAGGTAAGTTT
* *
15005091 GACTTACAGAAAAAGAATTCTAAGAGAAAAAGATTTTTAATGGGTAAATTT
1 GACTTACAGAAAAAGAATTCTAAGAGAAAAAGATTTTTAATAGGTAAGTTT
15005142 G
1 G
15005143 TATGGTTATA
Statistics
Matches: 86, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
51 24 0.28
52 59 0.69
53 3 0.03
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (51 bp):
GACTTACAGAAAAAGAATTCTAAGAGAAAAAGATTTTTAATAGGTAAGTTT
Found at i:15005724 original size:25 final size:25
Alignment explanation
Indices: 15005696--15005745 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
15005686 CAAAACGTGG
15005696 GAAGAG-TCAAATGTTCGAGATATGA
1 GAAGAGTTCAAA-GTTCGAGATATGA
* *
15005721 GAAGAGTTGACAGTTCGAGATATGA
1 GAAGAGTTCAAAGTTCGAGATATGA
15005746 AAAAAGCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.38, C:0.08, G:0.30, T:0.24
Consensus pattern (25 bp):
GAAGAGTTCAAAGTTCGAGATATGA
Found at i:15006101 original size:52 final size:51
Alignment explanation
Indices: 15006033--15006183 Score: 153
Period size: 52 Copynumber: 2.9 Consensus size: 51
15006023 AGATAAAAAG
* * *
15006033 ACTTACAAAAGAAGAATTTTAAAAGAAAAAAGATTTTTAATAGGTAAGTTTA
1 ACTT-CAAGAGAAGAATTCTAAGAGAAAAAAGATTTTTAATAGGTAAGTTTA
* * * * * *
15006085 ACTTGCAAGAGAAGAATTCTAAGGGAAAAATGATTCTTAATAAGCAAGTTTG
1 ACTT-CAAGAGAAGAATTCTAAGAGAAAAAAGATTTTTAATAGGTAAGTTTA
*
15006137 ACTT-ATAGAAGAAGAATTCTAAGAG-AAAAAGAATTTTTAATGGGTAA
1 ACTTCA-AG-AGAAGAATTCTAAGAGAAAAAAG-ATTTTTAATAGGTAA
15006184 ATTTGTATGA
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
50 1 0.01
51 7 0.09
52 72 0.90
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.28
Consensus pattern (51 bp):
ACTTCAAGAGAAGAATTCTAAGAGAAAAAAGATTTTTAATAGGTAAGTTTA
Found at i:15006771 original size:25 final size:26
Alignment explanation
Indices: 15006737--15006823 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 26
15006727 AAAGTTTAAA
15006737 ATATGAGAAGAGTTAAAT-GTTCGAG
1 ATATGAGAAGAGTTAAATGGTTCGAG
* * **
15006762 ATGTGGGAAGAG-TCGATGGTTCGAG
1 ATATGAGAAGAGTTAAATGGTTCGAG
* * *
15006787 ATATGAGAAGAGTT-GATAGCTCGAG
1 ATATGAGAAGAGTTAAATGGTTCGAG
15006812 ATATGAGAAGAG
1 ATATGAGAAGAG
15006824 CTTGGTTTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
24 3 0.06
25 48 0.92
26 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (26 bp):
ATATGAGAAGAGTTAAATGGTTCGAG
Found at i:15007198 original size:52 final size:53
Alignment explanation
Indices: 15007129--15007230 Score: 143
Period size: 52 Copynumber: 1.9 Consensus size: 53
15007119 ATTTTAAAAG
* * ** *
15007129 AAAGAGAATTTTTAATAGGTAAGTTTGACTTGTAAGAGAATAATTCTAAGGGT
1 AAAGAGAATTCTTAATAGGTAAGTTTAACTTACAAGAGAAGAATTCTAAGGGT
*
15007182 AAAGAG-ATTCTTAATAGGTAAGTTTAACTTACAGGAGAAGAATTCTAAG
1 AAAGAGAATTCTTAATAGGTAAGTTTAACTTACAAGAGAAGAATTCTAAG
15007231 AGAATAGATT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 37 0.86
53 6 0.14
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (53 bp):
AAAGAGAATTCTTAATAGGTAAGTTTAACTTACAAGAGAAGAATTCTAAGGGT
Found at i:15007851 original size:25 final size:24
Alignment explanation
Indices: 15007819--15007887 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 24
15007809 AGAGTCAAAT
*
15007819 GTTCGAGATATGGAAAGAGTCGATG
1 GTTCGAGATATGG-AAGAGTCGATA
* *
15007844 GTTTGAGATATAGGAAGAGTTGATA
1 GTTCGAGATAT-GGAAGAGTCGATA
15007869 GTTCGAGATATGAGAAGAG
1 GTTCGAGATATG-GAAGAG
15007888 CTTGGTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 35 0.92
26 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.35, T:0.26
Consensus pattern (24 bp):
GTTCGAGATATGGAAGAGTCGATA
Found at i:15007861 original size:50 final size:48
Alignment explanation
Indices: 15007807--15007914 Score: 112
Period size: 50 Copynumber: 2.2 Consensus size: 48
15007797 TGAAACGTGA
* *
15007807 GAAGAGTCAAAT-GTTCGAGATATG-GAAAGAGTCGATGGTTTGAGATATAG
1 GAAGAGT-AAATAGTTCGAGATATGAG-AAGAG-C-ATGGTTTAAGACATAG
** *
15007857 GAAGAGTTGATAGTTCGAGATATGAGAAGAGCTTGGTTTAAGACATAG
1 GAAGAGTAAATAGTTCGAGATATGAGAAGAGCATGGTTTAAGACATAG
15007905 GAAGAAGTAA
1 GAAG-AGTAA
15007915 GCTTAGAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
48 17 0.35
49 6 0.12
50 24 0.50
51 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (48 bp):
GAAGAGTAAATAGTTCGAGATATGAGAAGAGCATGGTTTAAGACATAG
Found at i:15008302 original size:52 final size:51
Alignment explanation
Indices: 15008203--15008307 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 51
15008193 AAAGAGGATT
* * * * *
15008203 AAGTTTGACTTGCAAGAGAAGAATTCTAAGGGGAAAATGATTCTTAATAGGC
1 AAGTATGACTTACAAGAAAAGAATTCTAAGGAGAAAAGGATTCTTAAT-GGC
* *
15008255 AAGTATGACTTACAGGAAAAGAATTCTAA-GAGAAAAGGGATTTTTAATGGC
1 AAGTATGACTTACAAGAAAAGAATTCTAAGGAGAAAA-GGATTCTTAATGGC
15008306 AA
1 AA
15008308 ATTTGTATAG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
51 11 0.24
52 34 0.76
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.26
Consensus pattern (51 bp):
AAGTATGACTTACAAGAAAAGAATTCTAAGGAGAAAAGGATTCTTAATGGC
Found at i:15011995 original size:136 final size:136
Alignment explanation
Indices: 15011743--15012000 Score: 410
Period size: 136 Copynumber: 1.9 Consensus size: 136
15011733 ACAACCATGT
* * * *
15011743 GCCAATCCGTCCAAAGACCCAGTTTTTTTATTTCTTCTTTGGTAATTATTAAAGCTCTTAGCCCA
1 GCCAATCAGCCCAAAGACCCAGCTTTCTTATTTCTTCTTTGGTAATTATTAAAGCTCTTAGCCCA
* * *
15011808 TTGGTGGCACAGTCGTTTTCCTATCTTGAACCAAATCTATGCCTATTAAACCTCCAACCATGAGT
66 TTGGTGGCACAGTCGTTTTCCTATCTTGAACCAAATCTATGCATATCAAACCACCAACCATGAGT
15011873 CCATAA
131 CCATAA
* *
15011879 GCCAATCAGCCCAAAGAGCCAGCTTTCTTGTTTCTTCTTTGGTAATTATTAAAGCTCTTAGCCCA
1 GCCAATCAGCCCAAAGACCCAGCTTTCTTATTTCTTCTTTGGTAATTATTAAAGCTCTTAGCCCA
*
15011944 TTGGTGGCACAGTCGTTTTCCTATCTTGAACCACATCTGA-GCATATCAAACCACCAA
66 TTGGTGGCACAGTCGTTTTCCTATCTTGAACCAAATCT-ATGCATATCAAACCACCAA
15012001 TGTCCAATCT
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
136 110 0.99
137 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.33
Consensus pattern (136 bp):
GCCAATCAGCCCAAAGACCCAGCTTTCTTATTTCTTCTTTGGTAATTATTAAAGCTCTTAGCCCA
TTGGTGGCACAGTCGTTTTCCTATCTTGAACCAAATCTATGCATATCAAACCACCAACCATGAGT
CCATAA
Found at i:15015928 original size:17 final size:16
Alignment explanation
Indices: 15015888--15015937 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
15015878 TTTTTATTTG
15015888 ATTTAGAATAAATTTAA
1 ATTTA-AATAAATTTAA
*
15015905 ATATTAAATATATATTAA
1 AT-TTAAATAAAT-TTAA
15015923 ATTTAAATCAAATTT
1 ATTTAAAT-AAATTT
15015938 CGAATCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTTAAATAAATTTAA
Found at i:15015997 original size:11 final size:11
Alignment explanation
Indices: 15015981--15016006 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15015971 ATTAAATCGA
15015981 TTTATATATTT
1 TTTATATATTT
15015992 TTTATATATTT
1 TTTATATATTT
15016003 TTTA
1 TTTA
15016007 AATTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTATATATTT
Found at i:15016084 original size:20 final size:20
Alignment explanation
Indices: 15016035--15016084 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
15016025 ATAATTATTT
* *
15016035 TATATATAAATCTATTTAAA
1 TATATAAAAATCTATTAAAA
*
15016055 TATATTAAAATCTTATTAAAA
1 TATATAAAAATC-TATTAAAA
15016076 TA-ATAAAAA
1 TATATAAAAA
15016085 ATAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
TATATAAAAATCTATTAAAA
Found at i:15018709 original size:16 final size:16
Alignment explanation
Indices: 15018690--15018736 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
15018680 ATTAATTTAT
15018690 TTATTTATTTAAAAAA
1 TTATTTATTTAAAAAA
* *
15018706 TTATTTAATTATTAAATA
1 TTATTT-ATT-TAAAAAA
15018724 TTA-TTATTTAAAA
1 TTATTTATTTAAAA
15018737 TTAATTACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 4 0.15
16 9 0.35
17 5 0.19
18 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATTTATTTAAAAAA
Found at i:15023934 original size:28 final size:27
Alignment explanation
Indices: 15023902--15023954 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
15023892 ATATTTATAA
*
15023902 ATTAAATATAAATTATATTTTTTATTTT
1 ATTAAATATAAA-TATAATTTTTATTTT
* *
15023930 ATTAAATTTATATATAATTTTTATT
1 ATTAAATATAAATATAATTTTTATT
15023955 AAAATTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
ATTAAATATAAATATAATTTTTATTTT
Found at i:15025745 original size:27 final size:28
Alignment explanation
Indices: 15025713--15025766 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
15025703 ATTCGAGGTT
*
15025713 TTAAGAATTGAAT-TTTAATTATTAAAA
1 TTAAGAATTGAATATTTAATTAATAAAA
* *
15025740 TTAAGAATTTAATATTTTATTAATAAA
1 TTAAGAATTGAATATTTAATTAATAAA
15025767 TTACGTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (28 bp):
TTAAGAATTGAATATTTAATTAATAAAA
Found at i:15026296 original size:16 final size:18
Alignment explanation
Indices: 15026271--15026312 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
15026261 AGAAATGGTT
*
15026271 TTTTTTTTTCCTC-TT-C
1 TTTTTCTTTCCTCTTTGC
15026287 TTTTTCTTTCCTCTTTGC
1 TTTTTCTTTCCTCTTTGC
15026305 TTTTTCTT
1 TTTTTCTT
15026313 GTTATTACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.52
17 2 0.09
18 9 0.39
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTCTTTCCTCTTTGC
Found at i:15029317 original size:23 final size:24
Alignment explanation
Indices: 15029290--15029391 Score: 65
Period size: 25 Copynumber: 4.5 Consensus size: 24
15029280 ACACGATTTA
15029290 AAATTTTAATAATAATTAT-ATAT
1 AAATTTTAATAATAATTATCATAT
* **
15029313 AAA-TTT-ATATTTTTTATCAATAT
1 AAATTTTAATAATAATTATC-ATAT
* *
15029336 AAATTATAATATATAATTTTCATAT
1 AAATTTTAATA-ATAATTATCATAT
* * *
15029361 AAAATATGAT-ATAA--AT-ATAT
1 AAATTTTAATAATAATTATCATAT
15029381 AAATTTTAATA
1 AAATTTTAATA
15029392 TTTTATAAAA
Statistics
Matches: 59, Mismatches: 14, Indels: 14
0.68 0.16 0.16
Matches are distributed among these distances:
20 11 0.19
21 9 0.15
22 3 0.05
23 14 0.24
24 2 0.03
25 15 0.25
26 5 0.08
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (24 bp):
AAATTTTAATAATAATTATCATAT
Found at i:15029342 original size:13 final size:12
Alignment explanation
Indices: 15029326--15029382 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 12
15029316 TTTATATTTT
15029326 TTATCAATATAAA
1 TTAT-AATATAAA
15029339 TTATAATATATAA
1 TTATAATATA-AA
* *
15029352 TTTTCATATAAA
1 TTATAATATAAA
* *
15029364 ATATGATATAAA
1 TTATAATATAAA
15029376 TATATAA
1 T-TATAA
15029383 ATTTTAATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
12 17 0.49
13 18 0.51
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (12 bp):
TTATAATATAAA
Found at i:15054421 original size:17 final size:17
Alignment explanation
Indices: 15054399--15054431 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15054389 TGACATGATA
*
15054399 GAATAAAATAATATTAT
1 GAATAAAATAAAATTAT
15054416 GAATAAAATAAAATTA
1 GAATAAAATAAAATTA
15054432 AATAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (17 bp):
GAATAAAATAAAATTAT
Found at i:15055321 original size:23 final size:24
Alignment explanation
Indices: 15055281--15055332 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
15055271 AATTTGTGTG
* *
15055281 ATTTTTGTATATTTTTA-TATATT
1 ATTTTTGTATATTATTATTATATC
15055304 ATTTTTGTAT-TATATTATTATATC
1 ATTTTTGTATAT-TATTATTATATC
15055328 ATTTT
1 ATTTT
15055333 AAATTTTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 1 0.04
23 14 0.56
24 10 0.40
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (24 bp):
ATTTTTGTATATTATTATTATATC
Found at i:15055860 original size:22 final size:22
Alignment explanation
Indices: 15055812--15055855 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
15055802 GTACGAATTT
*
15055812 AATTTAATTTTATGTGTTATTA
1 AATTTAAATTTATGTGTTATTA
15055834 AATTTAAATTTAT-T-TTATTA
1 AATTTAAATTTATGTGTTATTA
15055854 AA
1 AA
15055856 AATTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 1 0.05
22 12 0.57
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
AATTTAAATTTATGTGTTATTA
Found at i:15056002 original size:30 final size:30
Alignment explanation
Indices: 15055932--15056003 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
15055922 ATTTGATTTG
* * * *
15055932 AAATTAAT-AAAATATTATTTTTTAAATAT
1 AAATAAATAAAAATATCATTATCTAAATAT
**
15055961 AAATATTTAAAAATATCATTATCTAAATAT
1 AAATAAATAAAAATATCATTATCTAAATAT
*
15055991 ATATAAATAAAAA
1 AAATAAATAAAAA
15056004 ATTAAATAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
29 5 0.15
30 28 0.85
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (30 bp):
AAATAAATAAAAATATCATTATCTAAATAT
Found at i:15056363 original size:19 final size:19
Alignment explanation
Indices: 15056336--15056376 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
15056326 AATCATTTAT
* *
15056336 AATTTTTAAGATATATTAAA
1 AATTTTAAAAATA-ATTAAA
15056356 AATTTTAAAAATAATTAAA
1 AATTTTAAAAATAATTAAA
15056375 AA
1 AA
15056377 ATAAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
AATTTTAAAAATAATTAAA
Found at i:15065321 original size:30 final size:30
Alignment explanation
Indices: 15065264--15065321 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15065254 ATCTCAAGAT
**
15065264 TTTAATTATAATAGAATAAAATTTTATTAC
1 TTTAATTATAATAGAATAAAAGATTATTAC
*
15065294 TTTAATT-TAATATAATAAAAAGATTATT
1 TTTAATTATAATAGAAT-AAAAGATTATT
15065322 TTCACTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (30 bp):
TTTAATTATAATAGAATAAAAGATTATTAC
Found at i:15066645 original size:31 final size:31
Alignment explanation
Indices: 15066610--15066671 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
15066600 AGAGTTAATT
15066610 ATCTAATATTGGTTTTAAAATCTATAATCTA
1 ATCTAATATTGGTTTTAAAATCTATAATCTA
*
15066641 ATCTAATATTGGTTTTAACATCTATAATCTA
1 ATCTAATATTGGTTTTAAAATCTATAATCTA
15066672 TATCCAGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.45
Consensus pattern (31 bp):
ATCTAATATTGGTTTTAAAATCTATAATCTA
Found at i:15068938 original size:2 final size:2
Alignment explanation
Indices: 15068933--15068968 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15068923 TCTCTCTCTC
15068933 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15068969 AACACACACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15069408 original size:33 final size:33
Alignment explanation
Indices: 15069364--15069427 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
15069354 TTCTTGTTAC
*
15069364 ATGGCTCATATGATGTGTGGATAAATAAGTTTT
1 ATGGCTCATATGATGCGTGGATAAATAAGTTTT
*
15069397 ATGGCTTATATGATGCGTGGATAAATAAGTT
1 ATGGCTCATATGATGCGTGGATAAATAAGTT
15069428 AGTCGAGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (33 bp):
ATGGCTCATATGATGCGTGGATAAATAAGTTTT
Found at i:15073774 original size:2 final size:2
Alignment explanation
Indices: 15073769--15073794 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15073759 TGTGTGTATG
15073769 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
15073795 GGATCATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15074789 original size:13 final size:13
Alignment explanation
Indices: 15074730--15074804 Score: 57
Period size: 13 Copynumber: 5.9 Consensus size: 13
15074720 TTATTATTTA
*
15074730 ATTAATTTTATAT
1 ATTAATTTAATAT
* *
15074743 -TTATATATATTAT
1 ATTA-ATTTAATAT
**
15074756 ATTAATAAAAT-T
1 ATTAATTTAATAT
15074768 ATT-ATTTAATAT
1 ATTAATTTAATAT
* *
15074780 TTTAATTTAAAAT
1 ATTAATTTAATAT
15074793 ATTAATTTAATA
1 ATTAATTTAATA
15074805 CAAATATTAT
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
11 5 0.11
12 10 0.21
13 29 0.62
14 3 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTAATTTAATAT
Found at i:15074796 original size:42 final size:47
Alignment explanation
Indices: 15074720--15074814 Score: 123
Period size: 42 Copynumber: 2.1 Consensus size: 47
15074710 GATATATTTT
*
15074720 TTATTATTTAATTAATTTTATATTTATATATATT-ATATTAATA-AAA
1 TTATTATTTAATTAATTTTATATTTATAAATATTAAT-TTAATACAAA
15074766 TTATTATTTAA-T-ATTTTA-ATTTA-AAATATTAATTTAATACAAA
1 TTATTATTTAATTAATTTTATATTTATAAATATTAATTTAATACAAA
15074809 -TATTAT
1 TTATTAT
15074815 ATTTATGTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
42 18 0.39
43 10 0.22
44 6 0.13
45 1 0.02
46 11 0.24
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (47 bp):
TTATTATTTAATTAATTTTATATTTATAAATATTAATTTAATACAAA
Found at i:15076449 original size:13 final size:13
Alignment explanation
Indices: 15076431--15076458 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15076421 ATAATCACTT
15076431 GTTCAGCAGTGCA
1 GTTCAGCAGTGCA
15076444 GTTCAGCAGTGCA
1 GTTCAGCAGTGCA
15076457 GT
1 GT
15076459 CCTTGACACG
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:0.21, C:0.21, G:0.32, T:0.25
Consensus pattern (13 bp):
GTTCAGCAGTGCA
Found at i:15077109 original size:11 final size:11
Alignment explanation
Indices: 15077090--15077120 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15077080 TTTTTCTTAT
15077090 AAATAGTAATC
1 AAATAGTAATC
*
15077101 AAATGGTAATC
1 AAATAGTAATC
15077112 AAATAGTAA
1 AAATAGTAA
15077121 AGACGCAATC
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:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (11 bp):
AAATAGTAATC
Found at i:15080945 original size:5 final size:5
Alignment explanation
Indices: 15080935--15080964 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
15080925 AGAAGGAAAA
15080935 ATAGT ATAGT ATAGT ATAGT ATAGT ATAGT
1 ATAGT ATAGT ATAGT ATAGT ATAGT ATAGT
15080965 GTATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATAGT
Found at i:15082147 original size:63 final size:64
Alignment explanation
Indices: 15082069--15082197 Score: 197
Period size: 63 Copynumber: 2.0 Consensus size: 64
15082059 ATATTCGTAA
* *
15082069 TTTATTTCATTTATTTTTAGAGATGTTCAATCTCAGTTCATATTTGATAAGAAAATTGTTTTGT
1 TTTATTTCATTTATTTTTAGAGATGTTCAAGCTCAGTTCATATTTGATAAAAAAATTGTTTTGT
*** *
15082133 TTTATTT-ATTTATTTTTAGAGATGTTTGGGCTCAGTTCATGTTTGATAAAAAAATTGTTTTGT
1 TTTATTTCATTTATTTTTAGAGATGTTCAAGCTCAGTTCATATTTGATAAAAAAATTGTTTTGT
15082196 TT
1 TT
15082198 GTTCGAGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
63 52 0.88
64 7 0.12
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (64 bp):
TTTATTTCATTTATTTTTAGAGATGTTCAAGCTCAGTTCATATTTGATAAAAAAATTGTTTTGT
Found at i:15082306 original size:23 final size:23
Alignment explanation
Indices: 15082280--15082341 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 23
15082270 CTCGTTCTTG
15082280 AATATTAGACAAACATGTTCACTA
1 AATATTAGACAAACATGTTCA-TA
* *
15082304 ATACATATAAACAAACATGTTCATA
1 A-ATAT-TAGACAAACATGTTCATA
*
15082329 AATAATAGACAAA
1 AATATTAGACAAA
15082342 TTATAACCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 7 0.23
24 3 0.10
25 6 0.19
26 15 0.48
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (23 bp):
AATATTAGACAAACATGTTCATA
Found at i:15087565 original size:2 final size:2
Alignment explanation
Indices: 15087558--15087584 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15087548 TTCTCCATTT
15087558 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15087585 CTCACCTTTC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15088842 original size:22 final size:21
Alignment explanation
Indices: 15088805--15088872 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 21
15088795 TTAATTTAAC
15088805 TTAAAATTAATAAAATATTACTTT
1 TTAAAA-T-ATAAAATATTA-TTT
15088829 TTAAAATATAAAATATTATTT
1 TTAAAATATAAAATATTATTT
15088850 TAAATATAAATATAAAATATTAT
1 T---TA-AAATATAAAATATTAT
15088873 AATTAATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.10
22 11 0.28
23 1 0.03
24 8 0.20
25 16 0.40
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAAATATAAAATATTATTT
Found at i:15088856 original size:19 final size:21
Alignment explanation
Indices: 15088805--15088859 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
15088795 TTAATTTAAC
15088805 TTAAAATTAATAAAATATTACTTT
1 TTAAAA-T-ATAAAATATTAC-TT
15088829 TTAAAATATAAAATATTA-TT
1 TTAAAATATAAAATATTACTT
15088849 TT-AAATATAAA
1 TTAAAATATAAA
15088860 TATAAAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.29
20 4 0.13
22 11 0.35
23 1 0.03
24 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAAATATAAAATATTACTT
Found at i:15089162 original size:22 final size:22
Alignment explanation
Indices: 15089134--15089175 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15089124 AATATAAAAG
*
15089134 TTTTAATCCTAATTATAATATT
1 TTTTAATCATAATTATAATATT
15089156 TTTTAATCATAATTATAATA
1 TTTTAATCATAATTATAATA
15089176 GTAATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTAATCATAATTATAATATT
Found at i:15101449 original size:2 final size:2
Alignment explanation
Indices: 15101442--15101466 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15101432 ATTAAAATTA
15101442 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 A
15101467 GCTGAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15101781 original size:29 final size:32
Alignment explanation
Indices: 15101740--15101816 Score: 106
Period size: 29 Copynumber: 2.5 Consensus size: 32
15101730 TATAGATAAG
* * *
15101740 TATTTAATTTGATATTTGAATT-TTAAAA-AT
1 TATTTAATATGATATTTAAATTATAAAAATAT
15101770 T-TTTAATATGATATTTAAATTATAAAAATAT
1 TATTTAATATGATATTTAAATTATAAAAATAT
15101801 TATTTAATATGATATT
1 TATTTAATATGATATT
15101817 AAAAAATTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
29 18 0.44
30 6 0.15
31 3 0.07
32 14 0.34
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (32 bp):
TATTTAATATGATATTTAAATTATAAAAATAT
Found at i:15101954 original size:23 final size:22
Alignment explanation
Indices: 15101923--15101967 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
15101913 ATATTAACTC
15101923 TTTTCAATAAATTCAAAATAAAAA
1 TTTTCAAT-AATT-AAAATAAAAA
*
15101947 TTTT-AATAATTAGAATAAAAA
1 TTTTCAATAATTAAAATAAAAA
15101968 ATAATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 3 0.15
24 4 0.20
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (22 bp):
TTTTCAATAATTAAAATAAAAA
Found at i:15108054 original size:5 final size:5
Alignment explanation
Indices: 15108044--15108083 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
15108034 AGATGGGGAG
*
15108044 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTCT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
15108084 GGCTGGTGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (5 bp):
CTTTT
Found at i:15109798 original size:30 final size:30
Alignment explanation
Indices: 15109745--15109832 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
15109735 ATTTGTTTAA
* *
15109745 TTAAGAATTTAATTGAAATGAAAATAAATAT
1 TTAAAAATTCAATTG-AATGAAAATAAATAT
* * *
15109776 TTAAAAATTGAATTGAGTGAAAATAATTAT
1 TTAAAAATTCAATTGAATGAAAATAAATAT
* * *
15109806 TTAAATATTCAATTGATTAAAAATAAA
1 TTAAAAATTCAATTGAATGAAAATAAA
15109833 AAAATTTAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
30 35 0.73
31 13 0.27
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.36
Consensus pattern (30 bp):
TTAAAAATTCAATTGAATGAAAATAAATAT
Found at i:15110657 original size:2 final size:2
Alignment explanation
Indices: 15110650--15110674 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15110640 AATCTCCTTC
15110650 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 A
15110675 ATAACTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15111267 original size:16 final size:17
Alignment explanation
Indices: 15111242--15111274 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15111232 TTAAAAACTT
*
15111242 TTTTTGAATTTTTTTTA
1 TTTTTGAATTATTTTTA
15111259 TTTTT-AATTATTTTTA
1 TTTTTGAATTATTTTTA
15111275 ACATAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTGAATTATTTTTA
Found at i:15112087 original size:26 final size:26
Alignment explanation
Indices: 15112032--15112081 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
15112022 TTTGATTTCA
*
15112032 ATTTAAATAATTATCTAAAATATTGG
1 ATTTAAATAATTATCTAAAAAATTGG
15112058 ATTTAAATAATTTAT-TAAAAAATT
1 ATTTAAATAA-TTATCTAAAAAATT
15112082 TTATTTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (26 bp):
ATTTAAATAATTATCTAAAAAATTGG
Found at i:15112788 original size:2 final size:2
Alignment explanation
Indices: 15112777--15112808 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
15112767 CATTGTATGT
15112777 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15112809 TAGAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15113051 original size:596 final size:593
Alignment explanation
Indices: 15111624--15113401 Score: 2770
Period size: 591 Copynumber: 3.0 Consensus size: 593
15111614 TTAGAACATA
*
15111624 AATAAAATATTATATTTGTTTTCAAAGCAAAAACATATTTTTATCTAATTTTTTTATCAACATTC
1 AATAAAATATTATATTTGTTTTCAAAGCAAAAACGTATTTTTATCTAA-TTTTTTATCAACATTC
** * *
15111689 AAATGTCTCGTATTTTTATATAAAGATGTAAGCTTTTATTACTTTAAAAATATATGCTTTTTTAG
65 AAATGTCTTATATTTTCATATAAAGATGTAAGCTTTTATTACTTTAAAAATATATGC-TTTATAG
* * *
15111754 TAAATAATTCATTAACTTATCTAAAATTATTAAATTTAAATAATCTATTAAATAAATTTTAATTT
129 TCAATAATTCATTAACTTATCTAAAAGTATTAAATTTAAATAATCTATTAAATAATTTTTAATTT
*
15111819 TTGATAGATTTTTATTTGAATTTAAATAATTATCCAAAAATATTAAATTTAAATAATTTATTAAA
194 TTGATAGATTTTTATTTGAATTTAAATAATTATCTAAAAATATTAAATTTAAATAATTTATTAAA
* *
15111884 TATAATTATTTGATAAAAAATAAAATTTTATTAAGTATATATATTTGGAGCTGCCATTAAATTTA
259 TAGAATTATTTGACAAAAAATAAAATTTTATTAAGTATATATATTTGGAGCTGCCATTAAATTTA
* *
15111949 AAAAGAAAAGATAAATTATAATTTAATATATTTGAATTCAAATTTTATGCAACAATTTCAATCTT
324 AAAAGAAAAGATAAATTATAATTTAATATATTTGAATTCAAATCTTATACAA-AATTTCAATCTT
* * * **
15112014 AGATAGATTTTGATTTCAATTTAAATAATTATCTAAAATATTGGATTTAAATAATTTATTAAAAA
388 AGATAGATATTAATTTCAATTT-AATAATTATCCAAAATATTCAATTTAAATAATTTATTAAAAA
* * *
15112079 ATTTTATTTGATAAATAAAATAAAAT-AATATTATTTTATG-TGTCATTAAAAGATATTATCTAC
452 ATTTTATTTGATAAAT-AAATAATATAAATATTATCTTA-GATGTCATTAAAAGAAATTATCTAC
* * * * *
15112142 CTAAGCATCTACATAATCAATTTTTATCATGTAACCTTATATGTTGT-A-ATATA-ATATA-ATA
515 CTAGGCATCCACATAAGCAATTTTGATCATGTAACCTTGTATGTTGTAATATATATATATATATA
15112203 -ATATATATATTAG
580 TATATATATATTAG
* * *
15112216 AATAAAATATTATATTTTTTTTCAAAGCAAAAAATGTATTTTTATCTAATTTTTTATCAATATTC
1 AATAAAATATTATATTTGTTTTCAAAGC-AAAAACGTATTTTTATCTAATTTTTTATCAACATTC
* *
15112281 AAATGTCTTATATTTTCATATAAAGATGTAAGCTTTTATTACTTTAACAATATATGTTTTATAGT
65 AAATGTCTTATATTTTCATATAAAGATGTAAGCTTTTATTACTTTAAAAATATATGCTTTATAGT
*
15112346 CAATAATTCATTAACTTATCTAAAAGTATTAAATTTAAATAATCTATTAAATAATTTTCAATTTT
130 CAATAATTCATTAACTTATCTAAAAGTATTAAATTTAAATAATCTATTAAATAATTTTTAATTTT
15112411 TGATAGATTTTTATTTGAATTTAAATAATTATCTAAAAATATTAAATTTAAATAATTTATTAAAT
195 TGATAGATTTTTATTTGAATTTAAATAATTATCTAAAAATATTAAATTTAAATAATTTATTAAAT
* *
15112476 AGAATTATCTAACAAAAAATAAAATTTTATTAAGTATATATATTTGGAGCTGCCATTAAATTTAA
260 AGAATTATTTGACAAAAAATAAAATTTTATTAAGTATATATATTTGGAGCTGCCATTAAATTTAA
*
15112541 AAAGAAAAGATAAATTATAATTTAATATATTTGAATTAAAATCTTATACATAAATTTCAATCTTA
325 AAAGAAAAGATAAATTATAATTTAATATATTTGAATTCAAATCTTATACA-AAATTTCAATCTTA
* *
15112606 GATAGATATTAATTTCAATTTAATAATTATCCAAAATATTCTATTTAAATAGTTTATTAAAAAAT
389 GATAGATATTAATTTCAATTTAATAATTATCCAAAATATTCAATTTAAATAATTTATTAAAAAAT
* *
15112671 TTTATTTGATAAATAAATTAATATAAATATTATCTTAGATGTCATTAAAATAAATTATTTACCTA
454 TTTATTTGATAAATAAA-TAATATAAATATTATCTTAGATGTCATTAAAAGAAATTATCTACCTA
* * *
15112736 GGCATCCACATAAGCAATTTTGATAATGTAACATTGTATGTTATAATATATATATATATATATAT
518 GGCATCCACATAAGCAATTTTGATCATGTAACCTTGTATGTTGTAATATATATATATATATATAT
15112801 ATATATATTAG
583 ATATATATTAG
* * *
15112812 AATAAAACATTAGATTTGTTTTCAAAACAAAAACGTATTTTTATCTAACTTTTTTATCAACATTC
1 AATAAAATATTATATTTGTTTTCAAAGCAAAAACGTATTTTTATCTAA-TTTTTTATCAACATTC
*
15112877 AAATGTCTTATATTTTCATATAAA-ACTGTAAGCTTTTATTACTTTAAAAATACATGCTTTATAG
65 AAATGTCTTATATTTTCATATAAAGA-TGTAAGCTTTTATTACTTTAAAAATATATGCTTTATAG
15112941 TCAATAATTCATTAACTTATCTAAAAGTATTAAATTTAAATAATCTATTAAATAATTTTTAATTT
129 TCAATAATTCATTAACTTATCTAAAAGTATTAAATTTAAATAATCTATTAAATAATTTTTAATTT
* * * *
15113006 TTGATAAATTTTGATTTAAATTTAAATAATTATCTAAAAATATTAAATTAAAATAATTTATTAAA
194 TTGATAGATTTTTATTTGAATTTAAATAATTATCTAAAAATATTAAATTTAAATAATTTATTAAA
* * ** *
15113071 TAGAATTATTTGACAGAAAATAAAATTTTATTAAGTATATATATTTGAAATTGTCATTAAATTTA
259 TAGAATTATTTGACAAAAAATAAAATTTTATTAAGTATATATATTTGGAGCTGCCATTAAATTTA
*
15113136 AAAAG-AAA-A-AAATTATGATTTAATATATTTGAATTCAAATCTTATACAAAAATTTCAATCTT
324 AAAAGAAAAGATAAATTATAATTTAATATATTTGAATTCAAATCTTATAC-AAAATTTCAATCTT
* *
15113198 AGATAGATATTAATTTTAATGTAAATAATTATCCAAAATA-TCAATTTAAATAATTTATTAAAAA
388 AGATAGATATTAATTTCAAT-TTAATAATTATCCAAAATATTCAATTTAAATAATTTATTAAAAA
* * * *
15113262 ATTTTATTTGATAAATAAATAATATAAATATTATCCTATATGTCATTAAAAGAGATTATCCACCT
452 ATTTTATTTGATAAATAAATAATATAAATATTATCTTAGATGTCATTAAAAGAAATTATCTACCT
* *
15113327 AGACATCCACATAAGTAATTTTGATCATGTAACCTTGTATGTTGTAATATAATATATATATATAT
517 AGGCATCCACATAAGCAATTTTGATCATGTAACCTTGTATGTTGTAATAT-ATATATATATATAT
15113392 ATATATATAT
581 ATATATATAT
15113402 ATATTAGATA
Statistics
Matches: 1092, Mismatches: 79, Indels: 29
0.91 0.07 0.02
Matches are distributed among these distances:
589 3 0.00
590 60 0.05
591 342 0.31
592 181 0.17
593 156 0.14
594 25 0.02
595 26 0.02
596 299 0.27
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (593 bp):
AATAAAATATTATATTTGTTTTCAAAGCAAAAACGTATTTTTATCTAATTTTTTATCAACATTCA
AATGTCTTATATTTTCATATAAAGATGTAAGCTTTTATTACTTTAAAAATATATGCTTTATAGTC
AATAATTCATTAACTTATCTAAAAGTATTAAATTTAAATAATCTATTAAATAATTTTTAATTTTT
GATAGATTTTTATTTGAATTTAAATAATTATCTAAAAATATTAAATTTAAATAATTTATTAAATA
GAATTATTTGACAAAAAATAAAATTTTATTAAGTATATATATTTGGAGCTGCCATTAAATTTAAA
AAGAAAAGATAAATTATAATTTAATATATTTGAATTCAAATCTTATACAAAATTTCAATCTTAGA
TAGATATTAATTTCAATTTAATAATTATCCAAAATATTCAATTTAAATAATTTATTAAAAAATTT
TATTTGATAAATAAATAATATAAATATTATCTTAGATGTCATTAAAAGAAATTATCTACCTAGGC
ATCCACATAAGCAATTTTGATCATGTAACCTTGTATGTTGTAATATATATATATATATATATATA
TATATTAG
Found at i:15113385 original size:2 final size:2
Alignment explanation
Indices: 15113373--15113405 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
15113363 GTATGTTGTA
15113373 AT AT A- 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
15113406 TAGATAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15121691 original size:18 final size:19
Alignment explanation
Indices: 15121668--15121703 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15121658 AATATATAAA
*
15121668 TTAAAATTTTAAT-TTTTC
1 TTAAAATTATAATATTTTC
15121686 TTAAAATTATAATATTTT
1 TTAAAATTATAATATTTT
15121704 ATATTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAAAATTATAATATTTTC
Found at i:15122109 original size:17 final size:17
Alignment explanation
Indices: 15122071--15122110 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
15122061 TCAAATCTCG
*
15122071 AATAATAAAATCATTTT
1 AATAATAAAATCATTTC
*
15122088 GATAATAAAATCATTTC
1 AATAATAAAATCATTTC
15122105 AATAAT
1 AATAAT
15122111 TACATTACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (17 bp):
AATAATAAAATCATTTC
Found at i:15122162 original size:15 final size:15
Alignment explanation
Indices: 15122123--15122162 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
15122113 CATTACCATG
15122123 ATAATCTTAAAAATA
1 ATAATCTTAAAAATA
*
15122138 ATAGTCTTAAAAATA
1 ATAATCTTAAAAATA
*
15122153 ATAATATTAA
1 ATAATCTTAA
15122163 TCAAATGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (15 bp):
ATAATCTTAAAAATA
Found at i:15122163 original size:112 final size:112
Alignment explanation
Indices: 15122039--15122267 Score: 449
Period size: 112 Copynumber: 2.0 Consensus size: 112
15122029 TTGTATGAAT
15122039 TAATAATATTAATCAAATGATTTCAAATCTCGAATAATAAAATCATTTTGATAATAAAATCATTT
1 TAATAATATTAATCAAATGATTTCAAATCTCGAATAATAAAATCATTTTGATAATAAAATCATTT
*
15122104 CAATAATTACATTACCATGATAATCTTAAAAATAATAGTCTTAAAAA
66 CAATAATTACATTACCATGATAATCTTAAAAATAATAATCTTAAAAA
15122151 TAATAATATTAATCAAATGATTTCAAATCTCGAATAATAAAATCATTTTGATAATAAAATCATTT
1 TAATAATATTAATCAAATGATTTCAAATCTCGAATAATAAAATCATTTTGATAATAAAATCATTT
15122216 CAATAATTACATTACCATGATAATCTTAAAAATAATAATCTTAAAAA
66 CAATAATTACATTACCATGATAATCTTAAAAATAATAATCTTAAAAA
15122263 TAATA
1 TAATA
15122268 TCACACGTTT
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 116 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (112 bp):
TAATAATATTAATCAAATGATTTCAAATCTCGAATAATAAAATCATTTTGATAATAAAATCATTT
CAATAATTACATTACCATGATAATCTTAAAAATAATAATCTTAAAAA
Found at i:15122221 original size:17 final size:17
Alignment explanation
Indices: 15122183--15122222 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
15122173 TCAAATCTCG
*
15122183 AATAATAAAATCATTTT
1 AATAATAAAATCATTTC
*
15122200 GATAATAAAATCATTTC
1 AATAATAAAATCATTTC
15122217 AATAAT
1 AATAAT
15122223 TACATTACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (17 bp):
AATAATAAAATCATTTC
Found at i:15122255 original size:15 final size:15
Alignment explanation
Indices: 15122235--15122267 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
15122225 CATTACCATG
15122235 ATAATCTTAAAAATA
1 ATAATCTTAAAAATA
15122250 ATAATCTTAAAAATA
1 ATAATCTTAAAAATA
15122265 ATA
1 ATA
15122268 TCACACGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATCTTAAAAATA
Found at i:15123506 original size:2 final size:2
Alignment explanation
Indices: 15123499--15123525 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15123489 CAATAAAAAT
15123499 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15123526 TAGTAAAGAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15125198 original size:18 final size:18
Alignment explanation
Indices: 15125177--15125211 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15125167 ATAAATAAAT
15125177 AAATATAAATATAAATAC
1 AAATATAAATATAAATAC
* *
15125195 AAATATATATTTAAATA
1 AAATATAAATATAAATA
15125212 TTATCATCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATATAAATATAAATAC
Found at i:15133081 original size:24 final size:23
Alignment explanation
Indices: 15133053--15133117 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
15133043 AAATTAAAAA
*
15133053 TATATATTTTATATTTAATATATT
1 TATATATTTTATATATAATA-ATT
**
15133077 TATATAAATTATGATATAATAATT
1 TATATATTTTAT-ATATAATAATT
*
15133101 TTTATATTTTATATATA
1 TATATATTTTATATATA
15133118 TTAAACATGA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 5 0.15
24 22 0.65
25 7 0.21
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TATATATTTTATATATAATAATT
Found at i:15137616 original size:21 final size:24
Alignment explanation
Indices: 15137569--15137613 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
15137559 TTAGTTTTAT
*
15137569 TTTTTACATATTATTTTAATAAAA
1 TTTTTACATATTATTTAAATAAAA
15137593 TTTTTA-ATA-TATTTAAATAAA
1 TTTTTACATATTATTTAAATAAA
15137614 TTTATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 3 0.15
24 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTTTACATATTATTTAAATAAAA
Found at i:15138363 original size:12 final size:12
Alignment explanation
Indices: 15138346--15138393 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
15138336 ATAAAAAATT
*
15138346 ATTTTAATTATA
1 ATTTTAATTAAA
15138358 ATTTTAATTAAA
1 ATTTTAATTAAA
*
15138370 ATTTT-TTTAAA
1 ATTTTAATTAAA
*
15138381 AATTTATATTAAA
1 ATTTTA-ATTAAA
15138394 TAAATTTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 9 0.30
12 16 0.53
13 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTTTAATTAAA
Found at i:15138428 original size:23 final size:25
Alignment explanation
Indices: 15138394--15138440 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
15138384 TTATATTAAA
*
15138394 TAAATTTCATTAA-AA-ATAATATT
1 TAAATTTAATTAATAATATAATATT
15138417 TAAATTTAATTAATAATATAATAT
1 TAAATTTAATTAATAATATAATAT
15138441 ATTTAACTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.57
24 2 0.10
25 7 0.33
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TAAATTTAATTAATAATATAATATT
Found at i:15142018 original size:66 final size:66
Alignment explanation
Indices: 15141912--15142040 Score: 222
Period size: 66 Copynumber: 2.0 Consensus size: 66
15141902 ATACTTAACC
* *
15141912 CAATACGGCATGTTTCATTAGCTTCTCTGTCTGGCTGATAAGATGTTCAATCCATAGAATCCAAC
1 CAATACGGCACGTTTCATTAGCTTCTCTGTCTAGCTGATAAGATGTTCAATCCATAGAATCCAAC
15141977 T
66 T
* *
15141978 CAATATGGCACGTTTGATTAGCTTCTCTGTCTAGCTGATAAGATGTTCAATCCATAGAATCCA
1 CAATACGGCACGTTTCATTAGCTTCTCTGTCTAGCTGATAAGATGTTCAATCCATAGAATCCA
15142041 TCTAAAGAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (66 bp):
CAATACGGCACGTTTCATTAGCTTCTCTGTCTAGCTGATAAGATGTTCAATCCATAGAATCCAAC
T
Found at i:15144574 original size:31 final size:31
Alignment explanation
Indices: 15144537--15144599 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
15144527 ATATATTGTT
*
15144537 AGTGAATAAGATGATATCATTTTATTAATGA
1 AGTGAATAAGATGATATCACTTTATTAATGA
* *
15144568 AGTGAATCAGATGATATTACTTTATTAATGA
1 AGTGAATAAGATGATATCACTTTATTAATGA
15144599 A
1 A
15144600 TAAATTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (31 bp):
AGTGAATAAGATGATATCACTTTATTAATGA
Found at i:15145706 original size:19 final size:19
Alignment explanation
Indices: 15145682--15145724 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
15145672 AGTTTATGAA
*
15145682 TTTAATTAAATTTTTA-TAT
1 TTTAA-TAAATTTTAATTAT
*
15145701 TTTAATATATTTTAATTAT
1 TTTAATAAATTTTAATTAT
15145720 TTTAA
1 TTTAA
15145725 ATTCAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTAATAAATTTTAATTAT
Found at i:15145722 original size:9 final size:10
Alignment explanation
Indices: 15145696--15145724 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
15145686 ATTAAATTTT
15145696 TATATTTTAA
1 TATATTTTAA
15145706 TATATTTTAA
1 TATATTTTAA
15145716 T-TATTTTAA
1 TATATTTTAA
15145725 ATTCAAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATATTTTAA
Found at i:15146700 original size:31 final size:31
Alignment explanation
Indices: 15146665--15146739 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
15146655 ATGTATTTTT
** * * *
15146665 TAAAAATAATTTAATATTATATTTCAAAAAA
1 TAAAAATAAAATAAAATAATATTTAAAAAAA
*
15146696 TAAAAATAAAATAAAATAATTTTTAAAAAAA
1 TAAAAATAAAATAAAATAATATTTAAAAAAA
15146727 T-AAAA-AAAATAAA
1 TAAAAATAAAATAAA
15146740 TTTTTTGAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 8 0.21
30 4 0.11
31 26 0.68
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (31 bp):
TAAAAATAAAATAAAATAATATTTAAAAAAA
Found at i:15146735 original size:24 final size:26
Alignment explanation
Indices: 15146697--15146744 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
15146687 TTCAAAAAAT
15146697 AAAAATAAAATAAAAT-AATTTTTAA
1 AAAAATAAAATAAAATAAATTTTTAA
15146722 AAAAATAAAA-AAAATAAATTTTT
1 AAAAATAAAATAAAATAAATTTTT
15146745 TGAGACGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAAATAAAATAAAATAAATTTTTAA
Found at i:15147172 original size:24 final size:24
Alignment explanation
Indices: 15147128--15147246 Score: 67
Period size: 24 Copynumber: 5.1 Consensus size: 24
15147118 TTAGTACGGG
* *
15147128 ATAAATTTTTATTT-ATCTGATTTT
1 ATAAA-TTTAATTTGATTTGATTTT
*
15147152 ATAAATTTAATTTGATTTGATGTT
1 ATAAATTTAATTTGATTTGATTTT
*
15147176 A-AAATATT-A-TT--TTT-ATATT
1 ATAAAT-TTAATTTGATTTGATTTT
15147195 -TAAATTTAATTTGATTTGTATATATT
1 ATAAATTTAATTTGATTTG-AT-T-TT
* *
15147221 -TAAATTTATAATTGATTTTATTTT
1 ATAAATTTA-ATTTGATTTGATTTT
15147245 AT
1 AT
15147247 TTGAAATAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 25
0.70 0.07 0.23
Matches are distributed among these distances:
18 2 0.03
19 9 0.12
20 5 0.07
22 5 0.07
23 12 0.16
24 20 0.27
25 2 0.03
26 12 0.16
27 8 0.11
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (24 bp):
ATAAATTTAATTTGATTTGATTTT
Found at i:15147298 original size:12 final size:13
Alignment explanation
Indices: 15147266--15147300 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
15147256 TCAAACATTA
15147266 ATTTTTAATATAT
1 ATTTTTAATATAT
15147279 ATTATTTAATAT-T
1 ATT-TTTAATATAT
15147292 ATTTTTAAT
1 ATTTTTAAT
15147301 TTAAAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 7 0.33
14 8 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTTTTAATATAT
Found at i:15152488 original size:27 final size:26
Alignment explanation
Indices: 15152448--15152502 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
15152438 AAATAAAATG
*
15152448 ATATTATTTAATTTAATCTTGTTCATA
1 ATATTATTTAATTTAATCTTATT-ATA
*
15152475 ATATTATCTT-ATTTTATCTTATTATA
1 ATATTAT-TTAATTTAATCTTATTATA
15152501 AT
1 AT
15152503 CTTTATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.20
27 18 0.72
28 2 0.08
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (26 bp):
ATATTATTTAATTTAATCTTATTATA
Found at i:15164901 original size:9 final size:9
Alignment explanation
Indices: 15164887--15164928 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
15164877 TATAGATTAA
15164887 AAAAAAAAG
1 AAAAAAAAG
15164896 AAAAAAATCA-
1 AAAAAAA--AG
15164906 AAAAAAAAG
1 AAAAAAAAG
*
15164915 ACAAAAAAG
1 AAAAAAAAG
15164924 AAAAA
1 AAAAA
15164929 GAACGAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
8 1 0.04
9 19 0.68
10 7 0.25
11 1 0.04
ACGTcount: A:0.86, C:0.05, G:0.07, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:15164910 original size:20 final size:20
Alignment explanation
Indices: 15164886--15164922 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
15164876 ATATAGATTA
15164886 AAAAAAAAAGA-AAAAAATC
1 AAAAAAAAAGACAAAAAATC
15164905 AAAAAAAAAGACAAAAAA
1 AAAAAAAAAGACAAAAAA
15164923 GAAAAAGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.86, C:0.05, G:0.05, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAGACAAAAAATC
Found at i:15164928 original size:20 final size:19
Alignment explanation
Indices: 15164885--15164928 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
15164875 AATATAGATT
*
15164885 AAAAAAAAAAGAAAAAAAT
1 AAAAAAAAAAGAAAAAAAG
*
15164904 CAAAAAAAAAGACAAAAAAG
1 AAAAAAAAAAGA-AAAAAAG
15164924 AAAAA
1 AAAAA
15164929 GAACGAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.86, C:0.05, G:0.07, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAAAAG
Found at i:15166628 original size:20 final size:20
Alignment explanation
Indices: 15166603--15166647 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
15166593 ATTTTTATTT
15166603 TATAAAAAATTA-AAATAATA
1 TATAAAAAATTATAAA-AATA
*
15166623 TATAAAAATTTATAAAAATA
1 TATAAAAAATTATAAAAATA
15166643 TATAA
1 TATAA
15166648 TTTGGTTCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TATAAAAAATTATAAAAATA
Found at i:15166638 original size:10 final size:10
Alignment explanation
Indices: 15166601--15166647 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
15166591 TTATTTTTAT
15166601 TTTATAAAAA
1 TTTATAAAAA
*
15166611 ATTA-AAATAA
1 TTTATAAA-AA
*
15166621 TATATAAAAA
1 TTTATAAAAA
15166631 TTTATAAAAA
1 TTTATAAAAA
*
15166641 TATATAA
1 TTTATAA
15166648 TTTGGTTCGG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
9 3 0.10
10 24 0.80
11 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
TTTATAAAAA
Found at i:15174145 original size:11 final size:11
Alignment explanation
Indices: 15174113--15174161 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
15174103 CGAATCATTT
* *
15174113 TTTATTTTATT
1 TTTATATTATA
15174124 TTTATATTATA
1 TTTATATTATA
15174135 TTTATATTATA
1 TTTATATTATA
*
15174146 TCATTGTATTATA
1 T--TTATATTATA
15174159 TTT
1 TTT
15174162 TAAATTATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 23 0.70
13 10 0.30
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (11 bp):
TTTATATTATA
Found at i:15178327 original size:2 final size:2
Alignment explanation
Indices: 15178320--15178350 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15178310 TAGTATGCTT
15178320 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15178351 TGCTTGAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15184718 original size:15 final size:15
Alignment explanation
Indices: 15184693--15184744 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
15184683 CAATTAAATT
15184693 TAAATATTTATTTAAA
1 TAAA-ATTTATTTAAA
15184709 TAAAATTTATTTAACA
1 TAAAATTTATTTAA-A
*
15184725 T-AAATTT-TTT-AT
1 TAAAATTTATTTAAA
15184737 TAAAATTT
1 TAAAATTT
15184745 TTAATTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
12 1 0.03
13 7 0.21
14 3 0.09
15 16 0.48
16 6 0.18
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TAAAATTTATTTAAA
Found at i:15184727 original size:16 final size:16
Alignment explanation
Indices: 15184693--15184729 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
15184683 CAATTAAATT
15184693 TAAATATTTATTTAAA
1 TAAATATTTATTTAAA
15184709 TAAA-ATTTATTTAACA
1 TAAATATTTATTTAA-A
15184725 TAAAT
1 TAAAT
15184730 TTTTTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAATATTTATTTAAA
Found at i:15185686 original size:14 final size:15
Alignment explanation
Indices: 15185642--15185692 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
15185632 TATTATTTTT
*
15185642 ATTAATTGAATTAAA
1 ATTAATTAAATTAAA
15185657 ATT--TTAAATTTAAAA
1 ATTAATTAAA-TT-AAA
15185672 ATTAATT-AATTAAA
1 ATTAATTAAATTAAA
15185686 ATTAATT
1 ATTAATT
15185693 CAGTCCGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.13
14 12 0.39
15 11 0.35
16 2 0.06
17 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
ATTAATTAAATTAAA
Found at i:15186682 original size:3 final size:3
Alignment explanation
Indices: 15186665--15186709 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
15186655 CGTTTAGGAT
* * * *
15186665 CTG CTG CAG CAG CTG CTG CTG ATG CTG CTG CTG CTG CTG ATG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
15186710 ATGATGATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.09, C:0.29, G:0.33, T:0.29
Consensus pattern (3 bp):
CTG
Found at i:15186690 original size:9 final size:9
Alignment explanation
Indices: 15186678--15186715 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
15186668 CTGCAGCAGC
15186678 TGCTGCTGA
1 TGCTGCTGA
*
15186687 TGCTGCTGC
1 TGCTGCTGA
15186696 TGCTGCTGA
1 TGCTGCTGA
*
15186705 TGCTGATGA
1 TGCTGCTGA
15186714 TG
1 TG
15186716 ATAAAACTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.11, C:0.21, G:0.34, T:0.34
Consensus pattern (9 bp):
TGCTGCTGA
Found at i:15188896 original size:14 final size:14
Alignment explanation
Indices: 15188877--15188904 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15188867 AACACATCTG
15188877 GAATACATTTACAA
1 GAATACATTTACAA
15188891 GAATACATTTACAA
1 GAATACATTTACAA
15188905 TTTACACCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
GAATACATTTACAA
Found at i:15190977 original size:17 final size:16
Alignment explanation
Indices: 15190957--15190990 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15190947 ATTTTATCAA
*
15190957 TTTATTAATTTTATTTT
1 TTTATTAA-ATTATTTT
15190974 TTTATTAAATTATTTT
1 TTTATTAAATTATTTT
15190990 T
1 T
15190991 AAGAAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTAAATTATTTT
Found at i:15191749 original size:19 final size:18
Alignment explanation
Indices: 15191699--15191743 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
15191689 ATATTAATTG
15191699 ATTATAATAAAAAATATA
1 ATTATAATAAAAAATATA
* *
15191717 AATATAAATAAAAAATTTA
1 ATTAT-AATAAAAAATATA
15191736 ATTATAAT
1 ATTATAAT
15191744 TCAAAACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTATAATAAAAAATATA
Found at i:15192007 original size:20 final size:21
Alignment explanation
Indices: 15191969--15192010 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
15191959 GAAGTGAATA
* *
15191969 TATTTTATTATATTTATAATT
1 TATTTAATTATATTAATAATT
15191990 TATTTAATTA-ATTAATAATT
1 TATTTAATTATATTAATAATT
15192010 T
1 T
15192011 TTAAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTAATTATATTAATAATT
Found at i:15193376 original size:21 final size:23
Alignment explanation
Indices: 15193333--15193376 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15193323 TATATTAATT
*
15193333 TTTTATCATATATATAATCATAA
1 TTTTATAATATATATAATCATAA
15193356 TTTTATAATATATA-AAT-ATAA
1 TTTTATAATATATATAATCATAA
15193377 AAATAATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 3 0.15
23 13 0.65
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTTATAATATATATAATCATAA
Found at i:15199246 original size:6 final size:6
Alignment explanation
Indices: 15199211--15199244 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
15199201 ATATAGTGTG
* *
15199211 TATAAA TATAAA TATAAA TATATA TATATA TATA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATA
15199245 TAAAGAAGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (6 bp):
TATAAA
Found at i:15204964 original size:19 final size:19
Alignment explanation
Indices: 15204940--15204979 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
15204930 AAGTGTTCTC
15204940 ACTTCGCTATAGGAACATA
1 ACTTCGCTATAGGAACATA
15204959 ACTTCGCTATAGGAACATA
1 ACTTCGCTATAGGAACATA
15204978 AC
1 AC
15204980 CAAGGTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (19 bp):
ACTTCGCTATAGGAACATA
Found at i:15204988 original size:19 final size:19
Alignment explanation
Indices: 15204945--15204988 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
15204935 TTCTCACTTC
***
15204945 GCTATAGGAACATAACTTC
1 GCTATAGGAACATAACCAA
15204964 GCTATAGGAACATAACCAA
1 GCTATAGGAACATAACCAA
*
15204983 GGTATA
1 GCTATA
15204989 ATCTTCATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (19 bp):
GCTATAGGAACATAACCAA
Found at i:15205239 original size:2 final size:2
Alignment explanation
Indices: 15205228--15205260 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
15205218 CACCGTAAAT
15205228 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15205261 ATGCTCCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:15207131 original size:5 final size:5
Alignment explanation
Indices: 15207121--15207147 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15207111 TTAAACACGG
15207121 ATTTA ATTTA ATTTA ATTTA ATTTA AT
1 ATTTA ATTTA ATTTA ATTTA ATTTA AT
15207148 ATTCTTGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTTA
Found at i:15210296 original size:18 final size:19
Alignment explanation
Indices: 15210257--15210296 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
15210247 AATTAATCTA
*
15210257 AAATAAAAATTATATTATT
1 AAATAAAAATTATATTACT
*
15210276 AAATAAAATTTAT-TTACT
1 AAATAAAAATTATATTACT
15210294 AAA
1 AAA
15210297 CATATAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATAAAAATTATATTACT
Found at i:15211229 original size:11 final size:11
Alignment explanation
Indices: 15211175--15211231 Score: 57
Period size: 10 Copynumber: 5.3 Consensus size: 11
15211165 AATTATGTAC
15211175 AAATTTTAA-A
1 AAATTTTAATA
15211185 AAATTTTAAATA
1 AAATTTT-AATA
*
15211197 AAA-TTTAATCT
1 AAATTTTAAT-A
*
15211208 ATATTTT-ATA
1 AAATTTTAATA
15211218 AAATTTTAATA
1 AAATTTTAATA
15211229 AAA
1 AAA
15211232 AAGGTTGACA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
10 16 0.42
11 15 0.39
12 7 0.18
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
AAATTTTAATA
Found at i:15214283 original size:2 final size:2
Alignment explanation
Indices: 15214278--15214302 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15214268 TATATATATA
15214278 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
15214303 CTAAACTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:15219076 original size:6 final size:6
Alignment explanation
Indices: 15219065--15219106 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
15219055 TAGGTTGGGC
15219065 GGTTGG GGTTGG GG-TGG GGTGGCTGG GGTTGG GGTTGG GGTT
1 GGTTGG GGTTGG GGTTGG GGT---TGG GGTTGG GGTTGG GGTT
15219107 CGGTGGGCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.16
6 21 0.66
9 6 0.19
ACGTcount: A:0.00, C:0.02, G:0.67, T:0.31
Consensus pattern (6 bp):
GGTTGG
Found at i:15219111 original size:26 final size:27
Alignment explanation
Indices: 15219065--15219117 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
15219055 TAGGTTGGGC
*
15219065 GGTTGGGGTTGGGGTGGGGT-GGCTGG
1 GGTTGGGGTTGGGGTGCGGTGGGCTGG
*
15219091 GGTTGGGGTTGGGGTTCGGTGGGCTGG
1 GGTTGGGGTTGGGGTGCGGTGGGCTGG
15219118 CTTTATGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.00, C:0.06, G:0.66, T:0.28
Consensus pattern (27 bp):
GGTTGGGGTTGGGGTGCGGTGGGCTGG
Done.