Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 76 of 130
Found at i:15508654 original size:36 final size:36
Alignment explanation
Indices: 15508613--15508691 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
15508603 TTTTATTATT
15508613 AATATTAATAACACCTTCTGCATATGTAGATTTTGG
1 AATATTAATAACACCTTCTGCATATGTAGATTTTGG
*
15508649 AATATTAATAACACCTTCTGCATATGTATATTTTGG
1 AATATTAATAACACCTTCTGCATATGTAGATTTTGG
*
15508685 ATTATTA
1 AATATTA
15508692 TATTAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (36 bp):
AATATTAATAACACCTTCTGCATATGTAGATTTTGG
Found at i:15508656 original size:42 final size:40
Alignment explanation
Indices: 15508609--15508697 Score: 116
Period size: 36 Copynumber: 2.3 Consensus size: 40
15508599 TCATTTTTAT
15508609 TATTAATATTAATAACACCTTCTGCATATGTAGATTTTGG
1 TATTAATATTAATAACACCTTCTGCATATGTAGATTTTGG
*
15508649 ----AATATTAATAACACCTTCTGCATATGTATATTTTGG
1 TATTAATATTAATAACACCTTCTGCATATGTAGATTTTGG
15508685 -ATTATTATATTAA
1 TATTA--ATATTAA
15508698 AATAATTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
36 35 0.81
39 1 0.02
41 7 0.16
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (40 bp):
TATTAATATTAATAACACCTTCTGCATATGTAGATTTTGG
Found at i:15518356 original size:11 final size:11
Alignment explanation
Indices: 15518340--15518366 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15518330 TATTATATAT
15518340 AAAATTTTAAA
1 AAAATTTTAAA
15518351 AAAATTTTAAA
1 AAAATTTTAAA
15518362 AAAAT
1 AAAAT
15518367 ACACAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATTTTAAA
Found at i:15518478 original size:18 final size:18
Alignment explanation
Indices: 15518442--15518475 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15518432 CTAATTATAA
*
15518442 TTTTAAAATGTAGTAAAT
1 TTTTAAAATGGAGTAAAT
15518460 TTTTAAAATGGA-TAAA
1 TTTTAAAATGGAGTAAA
15518476 ATTATTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
TTTTAAAATGGAGTAAAT
Found at i:15521161 original size:35 final size:35
Alignment explanation
Indices: 15521108--15521204 Score: 140
Period size: 35 Copynumber: 2.8 Consensus size: 35
15521098 AACAAAGTGA
* * *
15521108 CCAAAACAGGATCTGGTGGCAGTTGAGTGGTTTGG
1 CCAAAACAGGGTCTGGTGGCAGTTGAGTGGTCTGC
*
15521143 CCAAAACAGGGTCCGGTGGCAGTTGAGTGGTCTGC
1 CCAAAACAGGGTCTGGTGGCAGTTGAGTGGTCTGC
* *
15521178 CCAAAACAGGGTTTGGTGGCTGTTGAG
1 CCAAAACAGGGTCTGGTGGCAGTTGAG
15521205 AGCTCCAATC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.22, C:0.18, G:0.37, T:0.24
Consensus pattern (35 bp):
CCAAAACAGGGTCTGGTGGCAGTTGAGTGGTCTGC
Found at i:15521476 original size:15 final size:16
Alignment explanation
Indices: 15521453--15521485 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15521443 GTTGATTACT
*
15521453 TTAATCAAAG-TGCAA
1 TTAACCAAAGTTGCAA
15521468 TTAACCAAAGTTGCAA
1 TTAACCAAAGTTGCAA
15521484 TT
1 TT
15521486 TGTTTAGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (16 bp):
TTAACCAAAGTTGCAA
Found at i:15521720 original size:17 final size:17
Alignment explanation
Indices: 15521694--15521730 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15521684 CCATCACCAC
*
15521694 AAATTGAAAAAAGAAAG
1 AAATTGAAAAAAAAAAG
*
15521711 AAATTTAAAAAAAAAAG
1 AAATTGAAAAAAAAAAG
15521728 AAA
1 AAA
15521731 GAAAAAGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.14
Consensus pattern (17 bp):
AAATTGAAAAAAAAAAG
Found at i:15523035 original size:15 final size:15
Alignment explanation
Indices: 15523015--15523057 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
15523005 ATTCAAATAA
*
15523015 ATATATATTATTTAT
1 ATATATATTAATTAT
* *
15523030 ATATATGTGAATTAT
1 ATATATATTAATTAT
*
15523045 ATATAAATTAATT
1 ATATATATTAATT
15523058 CACATATTTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
ATATATATTAATTAT
Found at i:15523101 original size:7 final size:7
Alignment explanation
Indices: 15523091--15523135 Score: 54
Period size: 7 Copynumber: 6.0 Consensus size: 7
15523081 ATAAAAATCA
15523091 TATTTTT
1 TATTTTT
15523098 TATTTTT
1 TATTTTT
15523105 TATTTTT
1 TATTTTT
15523112 ATATAATTTT
1 -TAT--TTTT
15523122 TATTTTT
1 TATTTTT
*
15523129 AATTTTT
1 TATTTTT
15523136 ACATATATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 24 0.71
8 3 0.09
9 3 0.09
10 4 0.12
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (7 bp):
TATTTTT
Found at i:15523112 original size:13 final size:13
Alignment explanation
Indices: 15523094--15523165 Score: 76
Period size: 13 Copynumber: 5.5 Consensus size: 13
15523084 AAAATCATAT
*
15523094 TTTTTATTTTTTA
1 TTTTTATTTTTAA
*
15523107 TTTTTA--TATAA
1 TTTTTATTTTTAA
15523118 TTTTTATTTTTAA
1 TTTTTATTTTTAA
* *
15523131 TTTTTACATATATAA
1 TTTTT--ATTTTTAA
15523146 TTTTTATTTTTAA
1 TTTTTATTTTTAA
15523159 TTTTTAT
1 TTTTTAT
15523166 ATATATGTGA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
11 9 0.19
13 28 0.58
15 11 0.23
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTATTTTTAA
Found at i:15523121 original size:24 final size:24
Alignment explanation
Indices: 15523094--15523168 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 24
15523084 AAAATCATAT
*
15523094 TTTTTATTTTTTATTTTTATATAA
1 TTTTTATTTTTAATTTTTATATAA
15523118 TTTTTATTTTTAATTTTTACATATATAA
1 TTTTTATTTTTAA-TTTT---TATATAA
15523146 TTTTTATTTTTAATTTTTATATA
1 TTTTTATTTTTAATTTTTATATA
15523169 TATGTGAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
24 18 0.39
25 4 0.09
27 4 0.09
28 20 0.43
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTTATTTTTAATTTTTATATAA
Found at i:15523136 original size:7 final size:7
Alignment explanation
Indices: 15523115--15523164 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
15523105 TATTTTTATA
15523115 TAATTTT
1 TAATTTT
15523122 T-ATTTT
1 TAATTTT
15523128 TAATTTT
1 TAATTTT
* *
15523135 TACATATA
1 TA-ATTTT
15523143 TAATTTT
1 TAATTTT
15523150 T-ATTTT
1 TAATTTT
15523156 TAATTTT
1 TAATTTT
15523163 TA
1 TA
15523165 TATATATGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 12 0.33
7 19 0.53
8 5 0.14
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (7 bp):
TAATTTT
Found at i:15523151 original size:28 final size:28
Alignment explanation
Indices: 15523111--15523171 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
15523101 TTTTTATTTT
15523111 TATATAATTTTTATTTTTAATTTTTACA
1 TATATAATTTTTATTTTTAATTTTTACA
*
15523139 TATATAATTTTTATTTTTAATTTTTATA
1 TATATAATTTTTATTTTTAATTTTTACA
15523167 TATAT
1 TATAT
15523172 GTGAATTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (28 bp):
TATATAATTTTTATTTTTAATTTTTACA
Found at i:15525608 original size:2 final size:2
Alignment explanation
Indices: 15525601--15525625 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15525591 TTAGGTAAGG
15525601 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
15525626 GTATGTATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15527419 original size:21 final size:21
Alignment explanation
Indices: 15527364--15527421 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
15527354 AAAAAATTAA
* * * *
15527364 ATTTTATTTCTATTAAACACT
1 ATTTTATTTATTTTAAAAAAT
*
15527385 ATTTT-TTCTTTTTTAAAAAAT
1 ATTTTATT-TATTTTAAAAAAT
15527406 ATTTTATTTATTTTAA
1 ATTTTATTTATTTTAA
15527422 GAATTTGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTATTTATTTTAAAAAAT
Found at i:15527518 original size:24 final size:24
Alignment explanation
Indices: 15527484--15527529 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
15527474 ATTAGAAAAA
15527484 TAAAAAAAAAAGAAAAA-AAAGAGG
1 TAAAAAAAAAA-AAAAATAAAGAGG
*
15527508 TAAAAATAAAAAAAAATAAAGA
1 TAAAAAAAAAAAAAAATAAAGA
15527530 ATACCTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (24 bp):
TAAAAAAAAAAAAAAATAAAGAGG
Found at i:15528742 original size:24 final size:25
Alignment explanation
Indices: 15528704--15528753 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
15528694 TTCTTTTTTC
* *
15528704 TTTTTAATTTTAATTAATTAATTAA
1 TTTTTAATTTAAATTAACTAATTAA
15528729 TTTTTAA-TTAAATTAACTAATTAA
1 TTTTTAATTTAAATTAACTAATTAA
15528753 T
1 T
15528754 CTTGATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTTTAATTTAAATTAACTAATTAA
Found at i:15528744 original size:20 final size:19
Alignment explanation
Indices: 15528707--15528750 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
15528697 TTTTTTCTTT
15528707 TTAA-TTTTAATTAATTAA
1 TTAATTTTTAATTAATTAA
15528725 TTAATTTTTAATTAAATTAA
1 TTAATTTTTAATT-AATTAA
*
15528745 CTAATT
1 TTAATT
15528751 AATCTTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.17
19 8 0.35
20 11 0.48
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAATTTTTAATTAATTAA
Found at i:15528763 original size:24 final size:24
Alignment explanation
Indices: 15528710--15528764 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
15528700 TTTCTTTTTA
* * * *
15528710 ATTTTAATTAATTAATTAATTTTT
1 ATTTAAATTAACTAATTAATCTTG
*
15528734 AATTAAATTAACTAATTAATCTTG
1 ATTTAAATTAACTAATTAATCTTG
15528758 ATTTAAA
1 ATTTAAA
15528765 AATGGGCCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (24 bp):
ATTTAAATTAACTAATTAATCTTG
Found at i:15529109 original size:23 final size:22
Alignment explanation
Indices: 15529082--15529138 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
15529072 AAATTTGGGT
15529082 TTTTTGAATTTTTTTATTT-GA
1 TTTTTGAATTTTTTTATTTGGA
* *
15529103 TTCTTTTGATTTTTTTTTTTTGGA
1 -T-TTTTGAATTTTTTTATTTGGA
15529127 TTTTTGAATTTT
1 TTTTTGAATTTT
15529139 CAATTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 11 0.37
23 17 0.57
24 2 0.07
ACGTcount: A:0.14, C:0.02, G:0.11, T:0.74
Consensus pattern (22 bp):
TTTTTGAATTTTTTTATTTGGA
Found at i:15529147 original size:17 final size:17
Alignment explanation
Indices: 15529127--15529165 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
15529117 TTTTTTTGGA
15529127 TTTTTGAATTTTCAATT
1 TTTTTGAATTTTCAATT
* **
15529144 TTTTAGAATTTTTTATT
1 TTTTTGAATTTTCAATT
15529161 TTTTT
1 TTTTT
15529166 CTTTTTTGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTTTGAATTTTCAATT
Found at i:15529928 original size:49 final size:49
Alignment explanation
Indices: 15529721--15529929 Score: 228
Period size: 49 Copynumber: 4.3 Consensus size: 49
15529711 TTTTCTAAAT
* * * *
15529721 AGAGGCATAGAAACTTTAAAATTTTCATTTGAAAAAAGCTCATCTAATTA
1 AGAGGCATTGAAACTTTAAAAATCTCATCTGAAAAAAGCTCATCTAA-TA
* * *
15529771 A-AGGCATTGAAACTTTAGAAATCTCATCTGACAAAAGCTCATTTAATCA
1 AGAGGCATTGAAACTTTAAAAATCTCATCTGAAAAAAGCTCATCTAAT-A
* * *
15529820 A-AGGCATTGAAACTTTAAAAATCTCATCTGAAAAAAACTCCTCTAATC
1 AGAGGCATTGAAACTTTAAAAATCTCATCTGAAAAAAGCTCATCTAATA
* * * *
15529868 AGAAGCATTGAAACTTTAAAAATCTTATTTG-AAAAGGCTTC-TCTAATA
1 AGAGGCATTGAAACTTTAAAAATCTCATCTGAAAAAAGC-TCATCTAATA
15529916 AGAGGCATTTGAAA
1 AGAGGCA-TTGAAA
15529930 ACTCTAATAG
Statistics
Matches: 135, Mismatches: 20, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
48 19 0.14
49 115 0.85
50 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (49 bp):
AGAGGCATTGAAACTTTAAAAATCTCATCTGAAAAAAGCTCATCTAATA
Found at i:15530529 original size:23 final size:23
Alignment explanation
Indices: 15530503--15530547 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
15530493 TTCTCATTTG
*
15530503 AAAAATTCAGAGATTCATATCTA
1 AAAAATTCAGAGATTCACATCTA
* * *
15530526 AAAATTTTAGAGGTTCACATCT
1 AAAAATTCAGAGATTCACATCT
15530548 GGAATCAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (23 bp):
AAAAATTCAGAGATTCACATCTA
Found at i:15530602 original size:23 final size:21
Alignment explanation
Indices: 15530572--15530625 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
15530562 ACATTCAAAG
*
15530572 AGATTCACATATAAAATTTTCAA
1 AGATTCACATATAAAA--GTCAA
* *
15530595 AGATTCACATCTAGAAGTCAA
1 AGATTCACATATAAAAGTCAA
15530616 AGATTCACAT
1 AGATTCACAT
15530626 TTGAATAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 14 0.50
23 14 0.50
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (21 bp):
AGATTCACATATAAAAGTCAA
Found at i:15530603 original size:59 final size:60
Alignment explanation
Indices: 15530511--15530626 Score: 155
Period size: 59 Copynumber: 1.9 Consensus size: 60
15530501 TGAAAAATTC
* * * * * *
15530511 AGAGATTCATATCTAAAAATTTTAGAGGTTCACATCTGGAA-TCAAATATTCACATTCAA
1 AGAGATTCACATATAAAAATTTTAAAGATTCACATCTAGAAGTCAAAGATTCACATTCAA
15530570 AGAGATTCACATAT-AAAATTTTCAAAGATTCACATCTAGAAGTCAAAGATTCACATT
1 AGAGATTCACATATAAAAATTTT-AAAGATTCACATCTAGAAGTCAAAGATTCACATT
15530627 TGAATAGATT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
58 8 0.16
59 27 0.55
60 14 0.29
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (60 bp):
AGAGATTCACATATAAAAATTTTAAAGATTCACATCTAGAAGTCAAAGATTCACATTCAA
Found at i:15530652 original size:38 final size:38
Alignment explanation
Indices: 15530609--15530751 Score: 171
Period size: 38 Copynumber: 3.8 Consensus size: 38
15530599 TCACATCTAG
*
15530609 AAGTCAAAGATTCACATTTGAATAGATTCGCTTCTAAA
1 AAGTCAAAGATTCACATTTGAAGAGATTCGCTTCTAAA
* * * *
15530647 AAGTCAAAGATTTAAATTTGAAGACATTCACATT-TAAA
1 AAGTCAAAGATTCACATTTGAAGAGATTCGC-TTCTAAA
* * *
15530685 AAGTCAAAGATTCACATTTGAAGAGATTTGCATCTTAA
1 AAGTCAAAGATTCACATTTGAAGAGATTCGCTTCTAAA
** *
15530723 AAGTCAAAGATTCATGTTTGAAGAAATTC
1 AAGTCAAAGATTCACATTTGAAGAGATTC
15530752 ACAAGATTCA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 84 0.97
39 2 0.02
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (38 bp):
AAGTCAAAGATTCACATTTGAAGAGATTCGCTTCTAAA
Found at i:15530698 original size:76 final size:76
Alignment explanation
Indices: 15530609--15530754 Score: 220
Period size: 76 Copynumber: 1.9 Consensus size: 76
15530599 TCACATCTAG
* * * *
15530609 AAGTCAAAGATTCACATTTGAATAGATTCGCTTCTAAAAAGTCAAAGATTTAAATTTGAAGACAT
1 AAGTCAAAGATTCACATTTGAAGAGATTCGCATCTAAAAAGTCAAAGATTCAAATTTGAAGAAAT
15530674 TCACATTTAAA
66 TCACATTTAAA
* * **
15530685 AAGTCAAAGATTCACATTTGAAGAGATTTGCATCTTAAAAGTCAAAGATTCATGTTTGAAGAAAT
1 AAGTCAAAGATTCACATTTGAAGAGATTCGCATCTAAAAAGTCAAAGATTCAAATTTGAAGAAAT
15530750 TCACA
66 TCACA
15530755 AGATTCACAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (76 bp):
AAGTCAAAGATTCACATTTGAAGAGATTCGCATCTAAAAAGTCAAAGATTCAAATTTGAAGAAAT
TCACATTTAAA
Found at i:15530842 original size:21 final size:21
Alignment explanation
Indices: 15530755--15530848 Score: 64
Period size: 21 Copynumber: 4.5 Consensus size: 21
15530745 GAAATTCACA
* *
15530755 AGATTCACATTTAAAG-GTTTG
1 AGATTCACA-TCAAAGATTTTG
* * * *
15530776 AGATTCGCATTAAGGATTTTC
1 AGATTCACATCAAAGATTTTG
* * * **
15530797 ATATGCATATCAAAGATTTCA
1 AGATTCACATCAAAGATTTTG
15530818 AGATTCACATCAAAGATTTTG
1 AGATTCACATCAAAGATTTTG
*
15530839 AGATTTACAT
1 AGATTCACAT
15530849 TGAATGTTCA
Statistics
Matches: 54, Mismatches: 18, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
20 5 0.09
21 49 0.91
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (21 bp):
AGATTCACATCAAAGATTTTG
Found at i:15530913 original size:20 final size:20
Alignment explanation
Indices: 15530890--15530928 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
15530880 AAAAGCTCAC
15530890 AAATGATTTCAAAGATTCAT
1 AAATGATTTCAAAGATTCAT
*
15530910 AAATGATTTCAAAGGTTCA
1 AAATGATTTCAAAGATTCA
15530929 CAACAGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (20 bp):
AAATGATTTCAAAGATTCAT
Found at i:15538637 original size:24 final size:23
Alignment explanation
Indices: 15538602--15538646 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
15538592 TTTTTATGGC
*
15538602 ATTTTTAATAAAGTAATTAATTA
1 ATTTTTAATAAAGTAACTAATTA
*
15538625 ATTTTTAATTAAATTAACTAAT
1 ATTTTTAA-TAAAGTAACTAAT
15538647 CAATCCTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
ATTTTTAATAAAGTAACTAATTA
Found at i:15543181 original size:19 final size:19
Alignment explanation
Indices: 15543140--15543183 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
15543130 ATTTGATCTC
* * *
15543140 TTTTAGTTAAGTTAATCTT
1 TTTTGGTTAAGCTAATCCT
15543159 TTTTGGTTAAGCTAATCCT
1 TTTTGGTTAAGCTAATCCT
15543178 TTTTGG
1 TTTTGG
15543184 CTAAACTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.09, G:0.16, T:0.55
Consensus pattern (19 bp):
TTTTGGTTAAGCTAATCCT
Found at i:15543181 original size:20 final size:19
Alignment explanation
Indices: 15543135--15543181 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
15543125 AGCCTATTTG
* *
15543135 ATCTCTTTTAGTTAAGTTA
1 ATCTTTTTTAGTTAAGCTA
*
15543154 ATCTTTTTTGGTTAAGCTA
1 ATCTTTTTTAGTTAAGCTA
*
15543173 ATCCTTTTT
1 ATCTTTTTT
15543182 GGCTAAACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.55
Consensus pattern (19 bp):
ATCTTTTTTAGTTAAGCTA
Found at i:15543812 original size:56 final size:55
Alignment explanation
Indices: 15543752--15543905 Score: 156
Period size: 56 Copynumber: 2.8 Consensus size: 55
15543742 AAACTGTTCA
*
15543752 AGCTAAGTTTTTATGAAAGTAATTTATAAAGATAAGCTCTTT-AGTTAAAG-TGGTCG
1 AGCTAAGCTTTTATGAAAGTAATTTAT-AAGATAAGCTCTTTGA-TT-AAGCTGGTCG
* * * *
15543808 AGCTAAACCTTTAT-AAAGGTAATTTACTGATATGAA-CTCTTTGATTAAGCTGGTCG
1 AGCTAAGCTTTTATGAAA-GTAATTTA-TAAGAT-AAGCTCTTTGATTAAGCTGGTCG
*
15543864 AGTTAAGCTTTTATGAAAGTAATTTATCAAGATAAGCT-TTTG
1 AGCTAAGCTTTTATGAAAGTAATTTAT-AAGATAAGCTCTTTG
15543906 GTCAAGATAA
Statistics
Matches: 80, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
55 13 0.16
56 60 0.75
57 7 0.09
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (55 bp):
AGCTAAGCTTTTATGAAAGTAATTTATAAGATAAGCTCTTTGATTAAGCTGGTCG
Found at i:15544012 original size:56 final size:56
Alignment explanation
Indices: 15543867--15544073 Score: 213
Period size: 56 Copynumber: 3.7 Consensus size: 56
15543857 CTGGTCGAGT
* * *
15543867 TAAGCTTTTATGAAAGTAATTTATCAAGATAAGC-TTTTGG-TCAAGATAACCAAGC
1 TAAGCCTTTATGAAAGTAATTTATCAAGATAAGCTTTTTGGCT-AAGATAGCCAAAC
* * * * *
15543922 TAAGCCTTTATGAAGGTAATTTACCAAAACAAGCTTTTTGGCTAAGATAGCCAAAT
1 TAAGCCTTTATGAAAGTAATTTATCAAGATAAGCTTTTTGGCTAAGATAGCCAAAC
* * * * * * *
15543978 TAAGGCTTTATGAAAGTAATATATCGAGATAAGCTCTTTGGCCAATG-TGGCAAAAC
1 TAAGCCTTTATGAAAGTAATTTATCAAGATAAGCTTTTTGGCTAA-GATAGCCAAAC
* * *
15544034 TAAGTCTTTATGAAAGCAATTTATCAAGATGAGCTTTTTG
1 TAAGCCTTTATGAAAGTAATTTATCAAGATAAGCTTTTTG
15544074 ACCAATGTGA
Statistics
Matches: 123, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
55 29 0.24
56 92 0.75
57 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (56 bp):
TAAGCCTTTATGAAAGTAATTTATCAAGATAAGCTTTTTGGCTAAGATAGCCAAAC
Found at i:15544091 original size:56 final size:54
Alignment explanation
Indices: 15543982--15544176 Score: 146
Period size: 56 Copynumber: 3.6 Consensus size: 54
15543972 CCAAATTAAG
* * * * * **
15543982 GCTTTATGAAAGTAATATATCGAGATAAGCTCTTTGGCCAATGTGGCAAAACTAA
1 GCTTTATGAAAGCAATTTATCAAGATGAGCTCTTT-GCCAATGTGACTGAACTAA
* *
15544037 GTCTTTATGAAAGCAATTTATCAAGATGAGCTTTTTGACCAATGTGATTGAACTAAA
1 G-CTTTATGAAAGCAATTTATCAAGATGAGCTCTTTG-CCAATGTGACTGAACT-AA
* * * * * *
15544094 CCATTATGAAAGCAATCTA-CTGAGATGAACTCTTTG---ATGTGACTGAGCTAA
1 GCTTTATGAAAGCAATTTATC-AAGATGAGCTCTTTGCCAATGTGACTGAACTAA
* * *
15544145 GCTTTTATGAAGGTAATTTATTAAGATGAGCT
1 GC-TTTATGAAAGCAATTTATCAAGATGAGCT
15544177 TTTTAACTGA
Statistics
Matches: 109, Mismatches: 25, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
51 3 0.03
52 32 0.29
55 3 0.03
56 69 0.63
57 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (54 bp):
GCTTTATGAAAGCAATTTATCAAGATGAGCTCTTTGCCAATGTGACTGAACTAA
Found at i:15554339 original size:21 final size:21
Alignment explanation
Indices: 15554302--15554346 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
15554292 TAGCCTTTTT
15554302 TTTTTTTTGCCAATCTC-TAA
1 TTTTTTTTGCCAATCTCTTAA
* *
15554322 TTTTTTTTGTCGATTCTCTTAA
1 TTTTTTTTG-CCAATCTCTTAA
15554344 TTT
1 TTT
15554347 CATAATGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 6 0.29
22 6 0.29
ACGTcount: A:0.16, C:0.16, G:0.07, T:0.62
Consensus pattern (21 bp):
TTTTTTTTGCCAATCTCTTAA
Found at i:15564342 original size:22 final size:22
Alignment explanation
Indices: 15564316--15564372 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
15564306 TAACATGCAT
*
15564316 AAATATTAATAAA-AAAATTTAA
1 AAATATTAA-AAATAAAATTAAA
* *
15564338 AAATAATAAAAATAATATTAAA
1 AAATATTAAAAATAAAATTAAA
*
15564360 AAATTTTAAAAAT
1 AAATATTAAAAAT
15564373 TCAAAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AAATATTAAAAATAAAATTAAA
Found at i:15564346 original size:19 final size:21
Alignment explanation
Indices: 15564322--15564361 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
15564312 GCATAAATAT
15564322 TAATAAAAA-AAT-TTAAAAA
1 TAATAAAAATAATATTAAAAA
15564341 TAATAAAAATAATATTAAAAA
1 TAATAAAAATAATATTAAAAA
15564362 ATTTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 3 0.16
21 7 0.37
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
TAATAAAAATAATATTAAAAA
Found at i:15565327 original size:17 final size:16
Alignment explanation
Indices: 15565302--15565352 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
15565292 TTTTTAATTT
*
15565302 TTTTGTTTTTTTTGTA
1 TTTTATTTTTTTTGTA
*
15565318 TTTATATTTTTTTGGTA
1 TTT-TATTTTTTTTGTA
*
15565335 TTTTATATTTTTTGTA
1 TTTTATTTTTTTTGTA
15565351 TT
1 TT
15565353 CTGTATTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (16 bp):
TTTTATTTTTTTTGTA
Found at i:15565328 original size:18 final size:18
Alignment explanation
Indices: 15565307--15565347 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
15565297 AATTTTTTTG
*
15565307 TTTTTTTTGTA-TTTATA
1 TTTTTTTGGTATTTTATA
15565324 TTTTTTTGGTATTTTATA
1 TTTTTTTGGTATTTTATA
15565342 TTTTTT
1 TTTTTT
15565348 GTATTCTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (18 bp):
TTTTTTTGGTATTTTATA
Found at i:15565338 original size:24 final size:24
Alignment explanation
Indices: 15565294--15565344 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
15565284 CCATCCCTTT
* * *
15565294 TTTAATTTTTTTGTTTTTTTTGTA
1 TTTAATTTTTTTGTGTATTTTATA
15565318 TTTATATTTTTTTG-GTATTTTATA
1 TTTA-ATTTTTTTGTGTATTTTATA
15565342 TTT
1 TTT
15565345 TTTGTATTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (24 bp):
TTTAATTTTTTTGTGTATTTTATA
Found at i:15565931 original size:47 final size:49
Alignment explanation
Indices: 15565601--15566130 Score: 532
Period size: 47 Copynumber: 10.8 Consensus size: 49
15565591 TCGTCAAATC
* * * *
15565601 GAAAATGCTCCTCTC-ACTTGAGGCTCAACAACTTTTAAAAATTTAAAATC-T
1 GAAAAAGCTCCTCTCAAC-AGAGGCTCAACAAC-TTTAAAAATCT--CATCTT
* * * *
15565652 GAAAAAGATTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATTTCATCTT
1 GAAAAAG-CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTT
* * * *
15565702 -AAAAAGGGCTTCTTTCAACAAAAGCTCAACAACTTTAAAAATCTCATCTT
1 GAAAAA--GCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTT
* * * *
15565752 GAAAAGGGCTCCTCTCAACAGAAGTTCAATAACTTTAAAAATCTCATC-T
1 GAAAA-AGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTT
* * * *
15565801 GAAAAAACTCATCTCAGCAGAGGCTCAACAATTTTAAAAATTCTCATCTT
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAA-TCTCATCTT
* * *
15565851 GAAAAAGGCTCATCTCAATAAAGGCTCAACAACTTT-AAAATCTCAT-TT
1 GAAAAA-GCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTT
*
15565899 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCA-CTT
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTT
* * *
15565946 GAAAAAGCTTCTCTCAACAGAAGCTCAACAATTTTAAAAA--TCATCTT
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTT
* ** *
15565993 GAAAAAAAGCTCCTCTTAGTAGAGGCTCAACAACTTTAAAAAT-TTAT-TT
1 G--AAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTT
*
15566042 GGAAAAAG-TCCCTCTCAACAGAGGCTCAATAACTTTAAAAA--TCATCTT
1 -GAAAAAGCT-CCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTT
*
15566090 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAAT
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAAT
15566131 TTTCATATGT
Statistics
Matches: 405, Mismatches: 53, Indels: 45
0.81 0.11 0.09
Matches are distributed among these distances:
46 3 0.01
47 111 0.27
48 75 0.19
49 62 0.15
50 88 0.22
51 46 0.11
52 19 0.05
53 1 0.00
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (49 bp):
GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTT
Found at i:15566069 original size:144 final size:143
Alignment explanation
Indices: 15565651--15566130 Score: 535
Period size: 144 Copynumber: 3.3 Consensus size: 143
15565641 ATTTAAAATC
* * * *
15565651 TGAAAAAGATTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATTTCATCTT-AAAAAGGGCTTC-
1 TGAAAAAGCTT-CTCTCAGCAGAGGCTCAACAATTTTAAAAA--TCATCTTGAAAAA-AGC-TCA
* * * * * *
15565714 TTTCAACAAAAGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGGCTCCTCTCAACAGAAGTTC
61 TCTCAATAAAGGCTCAACAACTTTAAAAATCTCAT-TTGAAAA-AGCTCCTCTCAACAGAGGCTC
15565779 AATAACTTTAAAAATCTCA-T
124 AATAACTTT-AAAATCTCACT
* *
15565799 CTGAAAAAAC-TCATCTCAGCAGAGGCTCAACAATTTTAAAAATTCTCATCTTGAAAAAGGCTCA
1 -TGAAAAAGCTTC-TCTCAGCAGAGGCTCAACAATTTTAAAAA---TCATCTTGAAAAAAGCTCA
*
15565863 TCTCAATAAAGGCTCAACAACTTT-AAAATCTCATTTGAAAAAGCTCCTCTCAGCAGAGGCTCAA
61 TCTCAATAAAGGCTCAACAACTTTAAAAATCTCATTTGAAAAAGCTCCTCTCAACAGAGGCTCAA
*
15565927 CAACTTTAAAATCTCACT
126 TAACTTTAAAATCTCACT
* * * *
15565945 TGAAAAAGCTTCTCTCAACAGAAGCTCAACAATTTTAAAAATCATCTTGAAAAAAAGCTCCTCTT
1 TGAAAAAGCTTCTCTCAGCAGAGGCTCAACAATTTTAAAAATCATCTTG-AAAAAAGCTCATCTC
* * *
15566010 AGTAGAGGCTCAACAACTTTAAAAAT-TTATTTGGAAAAAG-TCCCTCTCAACAGAGGCTCAATA
65 AATAAAGGCTCAACAACTTTAAAAATCTCATTT-GAAAAAGCT-CCTCTCAACAGAGGCTCAATA
*
15566073 ACTTTAAAA-ATCATCT
128 ACTTTAAAATCTCA-CT
* *
15566089 TGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAAT
1 TGAAAAAGCTTCTCTCAGCAGAGGCTCAACAATTTTAAAAAT
15566131 TTTCATATGT
Statistics
Matches: 291, Mismatches: 29, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
142 8 0.03
143 39 0.13
144 80 0.27
145 44 0.15
146 28 0.10
147 8 0.03
148 40 0.14
149 39 0.13
150 5 0.02
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (143 bp):
TGAAAAAGCTTCTCTCAGCAGAGGCTCAACAATTTTAAAAATCATCTTGAAAAAAGCTCATCTCA
ATAAAGGCTCAACAACTTTAAAAATCTCATTTGAAAAAGCTCCTCTCAACAGAGGCTCAATAACT
TTAAAATCTCACT
Found at i:15566100 original size:191 final size:193
Alignment explanation
Indices: 15565602--15566128 Score: 611
Period size: 191 Copynumber: 2.7 Consensus size: 193
15565592 CGTCAAATCG
* * * * *
15565602 AAAATGCTCCTCTCACTTGAGGCTCAACAACTTTTAAAAATTTAAAATCTGAAAAAGATTCCTCT
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAAC-TTTAAAAATTT--AATTTGAAAAAG-TCCCTCT
* * * * * *
15565667 CAGCAAAGGCTCAACAACTTTAAAAATTTCATCTT-AAAAAGGGCTTCTTTCAACAAAAGCTCAA
62 CAACAAAGGCTCAACAACTTTAAAAA--TCATCTTGAAAAA--GCTCCTCTCAGCAGAGGCTCAA
* * *
15565731 CAACTTTAAAAATCTCATCTTGAAAAGGGCTCCTCTCAACAGAAGTTCAATAACTTTAAAAATCT
123 CAACTTT-AAAATCTCATCTTGAAAAGAGCTCCTCTCAACAGAAGCTCAACAACTTTAAAAATCT
15565796 CATCTGA
187 CATCTGA
* * * * * *
15565803 AAAAA-CTCATCTCAGCAGAGGCTCAACAATTTTAAAAATTCTCATCTTGAAAAAGGCTCATCTC
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATT-TAAT-TTGAAAAAGTC-CCTCTC
* *
15565867 AATAAAGGCTCAACAACTTTAAAATCTCAT-TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAAC
63 AACAAAGGCTCAACAACTTTAAAA-ATCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAAC
* *
15565931 TTTAAAATCTCA-CTTGAAAA-AGCTTCTCTCAACAGAAGCTCAACAATTTTAAAAA--TCATCT
127 TTTAAAATCTCATCTTGAAAAGAGCTCCTCTCAACAGAAGCTCAACAACTTTAAAAATCTCATC-
15565992 TGAA
191 TG-A
*
15565996 AAAAAGCTCCTCTTAGTAGAGGCTCAACAACTTTAAAAATTT-ATTTGGAAAAAGTCCCTCTCAA
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATTTAATTT-GAAAAAGTCCCTCTCAA
* *
15566060 CAGAGGCTCAATAACTTTAAAAATCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT
65 CAAAGGCTCAACAACTTTAAAAATCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT
15566125 AAAA
130 AAAA
15566129 ATTTTCATAT
Statistics
Matches: 282, Mismatches: 34, Indels: 30
0.82 0.10 0.09
Matches are distributed among these distances:
190 4 0.01
191 74 0.26
192 12 0.04
193 37 0.13
194 39 0.14
195 9 0.03
196 24 0.09
197 2 0.01
198 11 0.04
199 45 0.16
200 21 0.07
201 4 0.01
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (193 bp):
AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATTTAATTTGAAAAAGTCCCTCTCAAC
AAAGGCTCAACAACTTTAAAAATCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
AAATCTCATCTTGAAAAGAGCTCCTCTCAACAGAAGCTCAACAACTTTAAAAATCTCATCTGA
Found at i:15566468 original size:10 final size:10
Alignment explanation
Indices: 15566444--15566478 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
15566434 CAATGTCTTG
*
15566444 TCATGCTTTTC
1 TCAT-CTTTTT
15566455 TCATCTTTTT
1 TCATCTTTTT
15566465 TCATCTTTTT
1 TCATCTTTTT
15566475 TCAT
1 TCAT
15566479 ATGCCTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 19 0.83
11 4 0.17
ACGTcount: A:0.11, C:0.23, G:0.03, T:0.63
Consensus pattern (10 bp):
TCATCTTTTT
Found at i:15576283 original size:324 final size:323
Alignment explanation
Indices: 15575695--15576339 Score: 1177
Period size: 324 Copynumber: 2.0 Consensus size: 323
15575685 TTTCGTATAT
15575695 ACGGATTTGAGAAAGCATTATTCTCGTACTTGAAATGACTTCTGATCCACACATATAATAACGAT
1 ACGGATTTGAGAAAGCATTATTCTCGTACTTGAAATGACTTCTGATCCACACATATAATAACGAT
*
15575760 GTACATCCTATGAACCTTCCTTGTTCATTTCATCGACAGAAATTCAATGACCCGATGGTTTCAGC
66 GCACATCCTATGAACCTTCCTTGTTCATTTCATCGACAGAAATTCAATGACCCGATGGTTTCAGC
15575825 TAAGACTGCTGAAGCAGGATTAATTGCTTGAGTTTCAATTTACTCTAAAAAGTCTACCACAGTTA
131 TAAGACTGCTGAAGCAGGATTAATTGCTTGAGTTTCAATTTACTCTAAAAAGTCTACCACAGTTA
* *
15575890 TCTCAATGTAACTCAAAGTTTTTGAAAAAGTTACCATGCCATACTATGCTAGAGCAAACACAGCC
196 TCTCAATGTAACCCAAAGTTTTTGAAAAAGTTACAATGCCATACTATGCTAGAGCAAACACAGCC
15575955 ATACCTTGATCATTATTTAAATACTCCTGATTAAAGTTTCAGAGAAAAGTCCC-AATGAATGCC
261 ATACCTTGATCATTATTTAAATACTCCTGATTAAAGTTTCAGAG-AAAGTCCCTAATGAATGCC
15576018 ACGGATTTGAGAAAGCATTATTCTCGTACTTGAAATGACTTCTGGATCCACACATATAATAACGA
1 ACGGATTTGAGAAAGCATTATTCTCGTACTTGAAATGACTTCT-GATCCACACATATAATAACGA
* * *
15576083 TGCACATCTTATGAACCTTCTTTTTTCATTTCATCGACAGAAATTCAATGACCCGATGGTTTCAG
65 TGCACATCCTATGAACCTTCCTTGTTCATTTCATCGACAGAAATTCAATGACCCGATGGTTTCAG
* *
15576148 CTAGGACTGCTGAAGCAGGATTAATTGCTTGAGTTTCAATTTGCTCTAAAAAGTCTACCACAGTT
130 CTAAGACTGCTGAAGCAGGATTAATTGCTTGAGTTTCAATTTACTCTAAAAAGTCTACCACAGTT
15576213 ATCTCAATGTAACCCAAAGTTTTTG-AAAAGATTACAATGCCATACTATGCTAGAGCAAACACAG
195 ATCTCAATGTAACCCAAAGTTTTTGAAAAAG-TTACAATGCCATACTATGCTAGAGCAAACACAG
15576277 CCATACCTTGATCATTATTTAAATACTCCTGATTAAAGTTTCAGAGAAAGTCCCTAATGAATG
259 CCATACCTTGATCATTATTTAAATACTCCTGATTAAAGTTTCAGAGAAAGTCCCTAATGAATG
15576340 TCGAGATGTT
Statistics
Matches: 311, Mismatches: 8, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
323 56 0.18
324 255 0.82
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (323 bp):
ACGGATTTGAGAAAGCATTATTCTCGTACTTGAAATGACTTCTGATCCACACATATAATAACGAT
GCACATCCTATGAACCTTCCTTGTTCATTTCATCGACAGAAATTCAATGACCCGATGGTTTCAGC
TAAGACTGCTGAAGCAGGATTAATTGCTTGAGTTTCAATTTACTCTAAAAAGTCTACCACAGTTA
TCTCAATGTAACCCAAAGTTTTTGAAAAAGTTACAATGCCATACTATGCTAGAGCAAACACAGCC
ATACCTTGATCATTATTTAAATACTCCTGATTAAAGTTTCAGAGAAAGTCCCTAATGAATGCC
Found at i:15579536 original size:11 final size:12
Alignment explanation
Indices: 15579516--15579540 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15579506 TTTTTGTAGG
15579516 TTTTCTTTTTTT
1 TTTTCTTTTTTT
15579528 TTTTCTTTTTTT
1 TTTTCTTTTTTT
15579540 T
1 T
15579541 CTGGTTCGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:15579805 original size:21 final size:21
Alignment explanation
Indices: 15579772--15579812 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15579762 TCGTCTCTTT
* *
15579772 TTTTTGTTTTTTTCTATTCTC
1 TTTTTCTTATTTTCTATTCTC
*
15579793 TTTTTCTTATTTTGTATTCT
1 TTTTTCTTATTTTCTATTCT
15579813 TTGTATTCTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTTTCTTATTTTCTATTCTC
Found at i:15585402 original size:2 final size:2
Alignment explanation
Indices: 15585397--15585430 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
15585387 TATACATAGA
* *
15585397 AT AT AT AT AT AT AT AT AT AG AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15585431 TCTCTATGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (2 bp):
AT
Found at i:15587080 original size:12 final size:12
Alignment explanation
Indices: 15587016--15587080 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
15587006 TTCAATCAAC
15587016 AATTAAAATAATA
1 AATTAAAATAA-A
15587029 AATATAAAAATAAA
1 AAT-T-AAAATAAA
*
15587043 AATCAAACA-AAA
1 AATTAAA-ATAAA
*
15587055 AATTAAAATTAA
1 AATTAAAATAAA
*
15587067 AATTAAAAGAAA
1 AATTAAAATAAA
15587079 AA
1 AA
15587081 GAAAAAATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
11 1 0.02
12 26 0.60
13 4 0.09
14 5 0.12
15 7 0.16
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.22
Consensus pattern (12 bp):
AATTAAAATAAA
Found at i:15587790 original size:24 final size:25
Alignment explanation
Indices: 15587762--15587838 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 25
15587752 AAATTGAATA
15587762 CCTAGAAACCCAAAACCC-AAAAAT
1 CCTAGAAACCCAAAACCCTAAAAAT
*
15587786 CCTAGAAACTCAAATAAGACCCTAAAAAT
1 CCTAGAAAC-C-CA-AA-ACCCTAAAAAT
*
15587815 -CTAGAAACTCAAAA-CCTAGAAAAT
1 CCTAGAAACCCAAAACCCTA-AAAAT
15587839 TTCAACGTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
23 4 0.09
24 15 0.34
25 3 0.07
26 2 0.05
27 2 0.05
28 12 0.27
29 6 0.14
ACGTcount: A:0.53, C:0.26, G:0.06, T:0.14
Consensus pattern (25 bp):
CCTAGAAACCCAAAACCCTAAAAAT
Found at i:15588099 original size:19 final size:19
Alignment explanation
Indices: 15588077--15588119 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
15588067 ATTTTCCCTT
* *
15588077 TTTTTTTTTTACTTTTGAC
1 TTTTTTTATTACTTTTAAC
15588096 TTTTTTTATTACTTTTAAC
1 TTTTTTTATTACTTTTAAC
15588115 TTTTT
1 TTTTT
15588120 GACTCTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTTTATTACTTTTAAC
Found at i:15588553 original size:35 final size:35
Alignment explanation
Indices: 15588509--15588598 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 35
15588499 ATTTTCATAA
*
15588509 GTTCCAGATTCACAAAGATTTCAAGTTTGACAGAG
1 GTTCCAGATTCACAAAGATTTCAAGTTTGACAAAG
* ** * *
15588544 GTTCTAGATTCGTAAATATTTCAAGTTTTACAAAG
1 GTTCCAGATTCACAAAGATTTCAAGTTTGACAAAG
* *
15588579 GTTCCAAATTCA-AAAAATTT
1 GTTCCAGATTCACAAAGATTT
15588599 TAGCTCCCCA
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
34 7 0.16
35 38 0.84
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.34
Consensus pattern (35 bp):
GTTCCAGATTCACAAAGATTTCAAGTTTGACAAAG
Found at i:15588665 original size:17 final size:17
Alignment explanation
Indices: 15588607--15588953 Score: 121
Period size: 17 Copynumber: 20.2 Consensus size: 17
15588597 TTTAGCTCCC
*
15588607 CAAGACTTTCAAATTCG
1 CAAGAATTTCAAATTCG
* * **
15588624 CAAGAATTTTAACTTTA
1 CAAGAATTTCAAATTCG
* * *
15588641 AAAAAATTTCAAATTCA
1 CAAGAATTTCAAATTCG
*
15588658 CAAGAATTTAAAGATTCG
1 CAAGAATTTCAA-ATTCG
* * *
15588676 TAA-AACTTTCAGATTTG
1 CAAGAA-TTTCAAATTCG
* * * *
15588693 TAAGGATTTTAGATTCG
1 CAAGAATTTCAAATTCG
* *
15588710 CAAGAATTTTAGATTCG
1 CAAGAATTTCAAATTCG
* * * *
15588727 TAAGAATTTTATATTTG
1 CAAGAATTTCAAATTCG
* * *
15588744 TAAGAA-TTCAAGTTCA
1 CAAGAATTTCAAATTCG
*
15588760 CAAGAATTTAAAGATTCG
1 CAAGAATTTCAA-ATTCG
* **
15588778 TAAGAATTTCAAATTTT
1 CAAGAATTTCAAATTCG
* * *
15588795 TAAAAATTTCAATTTCG
1 CAAGAATTTCAAATTCG
*
15588812 CAAGAATTTTCAAAATT-T
1 CAAGAA-TTTC-AAATTCG
* *
15588830 CAAGAA-CTCAAATTTG
1 CAAGAATTTCAAATTCG
* * **
15588846 TAAGAATTTAAAGATTTA
1 CAAGAATTTCAA-ATTCG
* *
15588864 CAAAAATTTCAAATTCT
1 CAAGAATTTCAAATTCG
**
15588881 CAA-AATTTTCAGTTTCG
1 CAAGAA-TTTCAAATTCG
* * *
15588898 CAAGAATTTTTAGATTCA
1 CAAGAA-TTTCAAATTCG
* * *
15588916 CAAAAAATTT-AATTTCA
1 C-AAGAATTTCAAATTCG
*
15588933 CAAGAATTTCATATTCG
1 CAAGAATTTCAAATTCG
15588950 CAAG
1 CAAG
15588954 TGTCATAACA
Statistics
Matches: 245, Mismatches: 71, Indels: 28
0.71 0.21 0.08
Matches are distributed among these distances:
15 5 0.02
16 26 0.11
17 144 0.59
18 62 0.25
19 8 0.03
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.36
Consensus pattern (17 bp):
CAAGAATTTCAAATTCG
Found at i:15588845 original size:102 final size:101
Alignment explanation
Indices: 15588648--15588853 Score: 240
Period size: 102 Copynumber: 2.0 Consensus size: 101
15588638 TTAAAAAAAT
* ** *
15588648 TTCAAATTCACAAGAATTTAAAGATTCGTAAAACTTTCAGATTTGTAAGGATTTTAGATTCGCAA
1 TTCAAATTCACAAGAATTTAAAGATTCGTAAAACTTTCAAATTTGTAAAAATTTCAGATTCGCAA
* * * *
15588713 GAATTTTAGATTCGTAAGAATTTTATATTTGTAAGAA
66 GAATTTTAAATTCG-AAGAATCTCAAATTTGTAAGAA
* *
15588750 TTCAAGTTCACAAGAATTTAAAGATTCGTAAGAA-TTTCAAATTTTTAAAAATTTCA-ATTTCGC
1 TTCAAATTCACAAGAATTTAAAGATTCGTAA-AACTTTCAAATTTGTAAAAATTTCAGA-TTCGC
15588813 AAGAATTTTCAAAATTTC-AAGAA-CTCAAATTTGTAAGAA
64 AAGAATTTT--AAA-TTCGAAGAATCTCAAATTTGTAAGAA
15588852 TT
1 TT
15588854 TAAAGATTTA
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
101 1 0.01
102 76 0.85
103 7 0.08
104 2 0.02
105 3 0.03
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.37
Consensus pattern (101 bp):
TTCAAATTCACAAGAATTTAAAGATTCGTAAAACTTTCAAATTTGTAAAAATTTCAGATTCGCAA
GAATTTTAAATTCGAAGAATCTCAAATTTGTAAGAA
Found at i:15588943 original size:52 final size:52
Alignment explanation
Indices: 15588847--15588953 Score: 121
Period size: 52 Copynumber: 2.1 Consensus size: 52
15588837 TCAAATTTGT
* *
15588847 AAGAATTTAAAGATTTACAAAAATTTCAAATTCTCAAAATTTTCAGT-TTCGC
1 AAGAATTTAAAGATTCACAAAAATTTCAAATTCACAAAATTTTCA-TATTCGC
** *
15588899 AAGAATTTTTAGATTCACAAAAAATTT-AATTTCACAAGAA-TTTCATATTCGC
1 AAGAATTTAAAGATTCAC-AAAAATTTCAAATTCACAA-AATTTTCATATTCGC
15588951 AAG
1 AAG
15588954 TGTCATAACA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
51 1 0.02
52 36 0.77
53 10 0.21
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (52 bp):
AAGAATTTAAAGATTCACAAAAATTTCAAATTCACAAAATTTTCATATTCGC
Found at i:15589742 original size:17 final size:17
Alignment explanation
Indices: 15589692--15589743 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
15589682 CAAAGGTTTT
* *
15589692 AGATTCGCAAAAATTTT
1 AGATTCGCAAGAATTTC
* * * *
15589709 AGCTCCCCAAGACTTTC
1 AGATTCGCAAGAATTTC
15589726 AGATTCGCAAGAATTTC
1 AGATTCGCAAGAATTTC
15589743 A
1 A
15589744 AGTTTACAAG
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (17 bp):
AGATTCGCAAGAATTTC
Found at i:15589754 original size:34 final size:34
Alignment explanation
Indices: 15589716--15589977 Score: 120
Period size: 34 Copynumber: 7.8 Consensus size: 34
15589706 TTTAGCTCCC
* *
15589716 CAAGACTTTCAGATTCGCAAGAATTTCAAGTTTA
1 CAAGACTTTCAGATTCACAAGAATTTCAAGTTCA
* * * * * * **
15589750 CAAGA-ATCCAAATTCAAAATAATATCAAGTTTG
1 CAAGACTTTCAGATTCACAAGAATTTCAAGTTCA
* * * * *
15589783 C-AGGCTTTTAGATTCGCAAGAATTTTAAATTCA
1 CAAGACTTTCAGATTCACAAGAATTTCAAGTTCA
* * * * *
15589816 CAAAAATTTCAGATTCATAAGAATTTAAAAATTCA
1 CAAGACTTTCAGATTCACAAGAATTT-CAAGTTCA
* * * *
15589851 TAAAACTTTCAGATTCATAAGAATTTCAAGTTCG
1 CAAGACTTTCAGATTCACAAGAATTTCAAGTTCA
* * ** * *
15589885 CAAGAATTTTAGATTCGTAAGAATTTTATAG-TCG
1 CAAGACTTTCAGATTCACAAGAATTTCA-AGTTCA
* * * * *
15589919 CAAGA-ATTCAGGTTCGCAA-AAATTCAAGTTTA
1 CAAGACTTTCAGATTCACAAGAATTTCAAGTTCA
* * *
15589951 CAAAATTTTAAAGATTCACAAGAATTT
1 CAAGACTTT-CAGATTCACAAGAATTT
15589978 TAAATTTTTA
Statistics
Matches: 167, Mismatches: 53, Indels: 15
0.71 0.23 0.06
Matches are distributed among these distances:
31 2 0.01
32 12 0.07
33 50 0.30
34 66 0.40
35 37 0.22
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (34 bp):
CAAGACTTTCAGATTCACAAGAATTTCAAGTTCA
Found at i:15589814 original size:17 final size:17
Alignment explanation
Indices: 15589788--15590018 Score: 92
Period size: 17 Copynumber: 13.5 Consensus size: 17
15589778 GTTTGCAGGC
* *
15589788 TTTTAGATTCGCAAGAA
1 TTTTAAATTCACAAGAA
*
15589805 TTTTAAATTCACAAAAA
1 TTTTAAATTCACAAGAA
* * *
15589822 TTTCAGATTCATAAGAA
1 TTTTAAATTCACAAGAA
* *
15589839 TTTAAAAATTCATAA-AA
1 TTT-TAAATTCACAAGAA
* * *
15589856 CTTTCAGATTCATAAGAA
1 -TTTTAAATTCACAAGAA
* * *
15589874 TTTCAAGTTCGCAAGAA
1 TTTTAAATTCACAAGAA
* **
15589891 TTTTAGATTCGTAAGAA
1 TTTTAAATTCACAAGAA
* * *
15589908 TTTTATAGTCGCAAGAA
1 TTTTAAATTCACAAGAA
* ** *
15589925 -TTCAGGTTCGCAA-AA
1 TTTTAAATTCACAAGAA
* * * *
15589940 ATTCAAGTTTACAA-AA
1 TTTTAAATTCACAAGAA
15589956 TTTTAAAGATTCACAAGAA
1 TTTT-AA-ATTCACAAGAA
***
15589975 TTTTAAATTTTTAAGAA
1 TTTTAAATTCACAAGAA
* *
15589992 TTTCAATTTCACAAGAA
1 TTTTAAATTCACAAGAA
15590009 TTTTTAAATT
1 -TTTTAAATT
15590019 TTCAAGAACT
Statistics
Matches: 163, Mismatches: 43, Indels: 15
0.74 0.19 0.07
Matches are distributed among these distances:
15 2 0.01
16 23 0.14
17 103 0.63
18 29 0.18
19 6 0.04
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (17 bp):
TTTTAAATTCACAAGAA
Found at i:15589861 original size:35 final size:34
Alignment explanation
Indices: 15589800--15589910 Score: 132
Period size: 34 Copynumber: 3.2 Consensus size: 34
15589790 TTAGATTCGC
*
15589800 AAGAATTTTAAATTCACAAAAATTTCAGATTCAT
1 AAGAATTTAAAATTCACAAAAATTTCAGATTCAT
* *
15589834 AAGAATTTAAAAATTCATAAAACTTTCAGATTCAT
1 AAGAATTT-AAAATTCACAAAAATTTCAGATTCAT
* * * * * *
15589869 AAGAATTTCAAGTTCGCAAGAATTTTAGATTCGT
1 AAGAATTTAAAATTCACAAAAATTTCAGATTCAT
15589903 AAGAATTT
1 AAGAATTT
15589911 TATAGTCGCA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 34 0.52
35 31 0.48
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (34 bp):
AAGAATTTAAAATTCACAAAAATTTCAGATTCAT
Found at i:15590068 original size:17 final size:17
Alignment explanation
Indices: 15590028--15590104 Score: 66
Period size: 18 Copynumber: 4.4 Consensus size: 17
15590018 TTTCAAGAAC
**
15590028 TTAGATTTATAAAAATT
1 TTAGATTTGCAAAAATT
*
15590045 TAAAGATTTGCAAAAATT
1 T-TAGATTTGCAAAAATT
* *
15590063 TTAGATTTTCAAAATTT
1 TTAGATTTGCAAAAATT
*
15590080 TTA-ATTTCGCAAGAATTT
1 TTAGATTT-GCAA-AAATT
15590098 TTAGATT
1 TTAGATT
15590105 CGTAAAAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
16 4 0.08
17 20 0.41
18 22 0.45
19 3 0.06
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.45
Consensus pattern (17 bp):
TTAGATTTGCAAAAATT
Found at i:15590086 original size:16 final size:17
Alignment explanation
Indices: 15590048--15590104 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
15590038 AAAAATTTAA
*
15590048 AGATTTGCAAAAATTTT
1 AGATTTGCAAAATTTTT
*
15590065 AGATTTTCAAAATTTTT
1 AGATTTGCAAAATTTTT
15590082 A-ATTTCGCAAGAATTTTT
1 AGATTT-GCAA-AATTTTT
15590100 AGATT
1 AGATT
15590105 CGTAAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.12
17 19 0.56
18 8 0.24
19 3 0.09
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.46
Consensus pattern (17 bp):
AGATTTGCAAAATTTTT
Found at i:15590097 original size:34 final size:34
Alignment explanation
Indices: 15590007--15590104 Score: 92
Period size: 34 Copynumber: 2.8 Consensus size: 34
15589997 ATTTCACAAG
* *
15590007 AATTTTTAAATTTTCAAGAA-CTTAGATTTATAAA
1 AATTTTT-AATTTGCAAGAATTTTAGATTTATAAA
** * *
15590041 AATTTAAAGATTTGCAAAAATTTTAGATTT-TCAA
1 AATTTTTA-ATTTGCAAGAATTTTAGATTTATAAA
15590075 AATTTTTAATTTCGCAAGAATTTTTAGATT
1 AATTTTTAATTT-GCAAGAA-TTTTAGATT
15590105 CGTAAAAAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
33 5 0.10
34 29 0.57
35 17 0.33
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (34 bp):
AATTTTTAATTTGCAAGAATTTTAGATTTATAAA
Found at i:15590106 original size:18 final size:17
Alignment explanation
Indices: 15590048--15590111 Score: 58
Period size: 17 Copynumber: 3.7 Consensus size: 17
15590038 AAAAATTTAA
* *
15590048 AGATTTGCAAAAATTTT
1 AGATTCGCAAAATTTTT
**
15590065 AGATTTTCAAAATTTTT
1 AGATTCGCAAAATTTTT
15590082 A-ATTTCGCAAGAATTTTT
1 AGA-TTCGCAA-AATTTTT
*
15590100 AGATTCGTAAAA
1 AGATTCGCAAAA
15590112 AATTCAGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 1 0.03
17 23 0.59
18 14 0.36
19 1 0.03
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (17 bp):
AGATTCGCAAAATTTTT
Found at i:15590134 original size:17 final size:17
Alignment explanation
Indices: 15590108--15590143 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15590098 TTAGATTCGT
*
15590108 AAAAAATTCAGTTTCAC
1 AAAAAATTCAGATTCAC
*
15590125 AAAAATTTCAGATTCAC
1 AAAAAATTCAGATTCAC
15590142 AA
1 AA
15590144 GCGTCATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (17 bp):
AAAAAATTCAGATTCAC
Found at i:15590790 original size:18 final size:18
Alignment explanation
Indices: 15590764--15590805 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
15590754 TAAATTAATA
*
15590764 AAATCAAAAA-TAAAAATC
1 AAATAAAAAACTAAAAA-C
*
15590782 AAATAAAAAACTAATAAC
1 AAATAAAAAACTAAAAAC
15590800 AAATAA
1 AAATAA
15590806 CTAAATAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.17
Consensus pattern (18 bp):
AAATAAAAAACTAAAAAC
Found at i:15590987 original size:17 final size:18
Alignment explanation
Indices: 15590965--15591056 Score: 79
Period size: 17 Copynumber: 5.4 Consensus size: 18
15590955 CATCTACAGC
*
15590965 AAGAATTTCAAATTT-GT
1 AAGAATTTCAAATTTCAT
15590982 AAGAATTTC-AATTTCAT
1 AAGAATTTCAAATTTCAT
* * *
15590999 AAGAA-CTCAGA-TTCGT
1 AAGAATTTCAAATTTCAT
* *
15591015 AAGAAATTC-AATTTCAC
1 AAGAATTTCAAATTTCAT
*
15591032 AAGAATTTCAAA-TTCAC
1 AAGAATTTCAAATTTCAT
15591049 AAGAATTT
1 AAGAATTT
15591057 TAGATTAGCA
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
16 17 0.28
17 42 0.69
18 2 0.03
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (18 bp):
AAGAATTTCAAATTTCAT
Found at i:15591025 original size:50 final size:49
Alignment explanation
Indices: 15590962--15591107 Score: 132
Period size: 50 Copynumber: 2.9 Consensus size: 49
15590952 ATACATCTAC
15590962 AGCAAGAATTTCAAATTTGTAAGAATTTCAATTTCATAAGAACTCAGATT
1 AGCAAGAATTTCAAATTTGTAAGAATTTCAA-TTCATAAGAACTCAGATT
* * * ** * * *
15591012 CGTAAGAAATTC-AATTTCACAAGAATTTCAAATTCACAAGAATTTTAGATT
1 AGCAAGAATTTCAAATTT-GTAAGAATTTC-AATTCATAAGAA-CTCAGATT
** *
15591063 AGCAAGAATTTCAGTTTTGTAAAAATTTTCAGATTCATAAGAACT
1 AGCAAGAATTTCAAATTTGTAAGAA-TTTCA-ATTCATAAGAACT
15591108 TAAAGATTCG
Statistics
Matches: 72, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
49 5 0.07
50 27 0.38
51 23 0.32
52 17 0.24
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (49 bp):
AGCAAGAATTTCAAATTTGTAAGAATTTCAATTCATAAGAACTCAGATT
Found at i:15591362 original size:44 final size:44
Alignment explanation
Indices: 15591279--15591363 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
15591269 AGGCTCACAT
* *
15591279 CCAAAATTTAAAGATTCTCATTTGAAAATTATAGAGATTCAAAC
1 CCAAAAGTTAAAGATTCTCATTTGAAAACTATAGAGATTCAAAC
* * *
15591323 CCAAAAGTTAAATATTTTCATTTGAAAAACT-TAGGGATTCA
1 CCAAAAGTTAAAGATTCTCATTTG-AAAACTATAGAGATTCA
15591364 CATTCACAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 30 0.86
45 5 0.14
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.33
Consensus pattern (44 bp):
CCAAAAGTTAAAGATTCTCATTTGAAAACTATAGAGATTCAAAC
Found at i:15591468 original size:46 final size:45
Alignment explanation
Indices: 15591415--15591537 Score: 120
Period size: 46 Copynumber: 2.7 Consensus size: 45
15591405 TTCACATCCA
* ****
15591415 AAAGATTCTTATTCAAAAAATTTTAGAATTTTGTATCCAAAATTTT
1 AAAGATTCTCATTCAAAAAATTTTAGAATTCACAAT-CAAAATTTT
** *
15591461 AAAGATTCAGATTCAATAAATTTTAGAGATTCACAATCAAAATTTT
1 AAAGATTCTCATTCAAAAAATTTTAGA-ATTCACAATCAAAATTTT
* * *
15591507 AAAGATTGTCATTCGAAAAACTTTAGTAATT
1 AAAGATTCTCATTCAAAAAATTTTAG-AATT
15591538 ACGCTTAGAG
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
46 56 0.90
47 6 0.10
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (45 bp):
AAAGATTCTCATTCAAAAAATTTTAGAATTCACAATCAAAATTTT
Found at i:15591506 original size:22 final size:22
Alignment explanation
Indices: 15591452--15591513 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 22
15591442 ATTTTGTATC
* *
15591452 CAAAATTTTAAAGATTCAGATT
1 CAAAATTTTAAAGATTCACAAT
*
15591474 CAATAAATTTTAGAGATTCACAAT
1 C-A-AAATTTTAAAGATTCACAAT
15591498 CAAAATTTTAAAGATT
1 CAAAATTTTAAAGATT
15591514 GTCATTCGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 14 0.41
23 2 0.06
24 18 0.53
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (22 bp):
CAAAATTTTAAAGATTCACAAT
Found at i:15598038 original size:18 final size:20
Alignment explanation
Indices: 15597995--15598038 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
15597985 TATTTTCCCC
15597995 CTTTTTCTTTTGACTTTTGA
1 CTTTTTCTTTTGACTTTTGA
*
15598015 -TTTTT-TTTTTACTTTTGA
1 CTTTTTCTTTTGACTTTTGA
15598033 CTTTTT
1 CTTTTT
15598039 GATTCTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.09, C:0.11, G:0.07, T:0.73
Consensus pattern (20 bp):
CTTTTTCTTTTGACTTTTGA
Found at i:15598387 original size:16 final size:16
Alignment explanation
Indices: 15598354--15598393 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
15598344 AATTTGTCTT
**
15598354 TTTTTTTAATTTTTAA
1 TTTTTTTAATTTCAAA
15598370 TTTTTTTAATTTCAAA
1 TTTTTTTAATTTCAAA
15598386 TTTATTTT
1 TTT-TTTT
15598394 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTTAATTTCAAA
Found at i:15598438 original size:16 final size:17
Alignment explanation
Indices: 15598409--15598451 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
15598399 TTTTTGATAT
* *
15598409 TAAAAATTAT-AAAACA
1 TAAATATTATAAAAAAA
15598425 TAAAT-TTATAAAAAAA
1 TAAATATTATAAAAAAA
15598441 TAAATATTATA
1 TAAATATTATA
15598452 CACAAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 4 0.17
16 14 0.61
17 5 0.22
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAATATTATAAAAAAA
Found at i:15599890 original size:107 final size:107
Alignment explanation
Indices: 15599704--15599917 Score: 392
Period size: 107 Copynumber: 2.0 Consensus size: 107
15599694 ATTTTGAGTC
* *
15599704 GTGCATCAGACTTGCATACAGAGAAGAGCACGGTTTACTGCTACGCTTGACTTTTGAAAACCTTG
1 GTGCATCAGACTTGCACACAGAGAAGAGCACGGTTTACTGCTACGCTTGACTTTTGAAAACCTCG
15599769 CTTGTTTGCAATCGGCATCATGTCTCTTTAGCATGTATATAT
66 CTTGTTTGCAATCGGCATCATGTCTCTTTAGCATGTATATAT
* *
15599811 GTGCATTAGACTTGCACGCAGAGAAGAGCACGGTTTACTGCTACGCTTGACTTTTGAAAACCTCG
1 GTGCATCAGACTTGCACACAGAGAAGAGCACGGTTTACTGCTACGCTTGACTTTTGAAAACCTCG
15599876 CTTGTTTGCAATCGGCATCATGTCTCTTTAGCATGTATATAT
66 CTTGTTTGCAATCGGCATCATGTCTCTTTAGCATGTATATAT
15599918 ATATATATTG
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 103 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (107 bp):
GTGCATCAGACTTGCACACAGAGAAGAGCACGGTTTACTGCTACGCTTGACTTTTGAAAACCTCG
CTTGTTTGCAATCGGCATCATGTCTCTTTAGCATGTATATAT
Found at i:15602036 original size:16 final size:16
Alignment explanation
Indices: 15602011--15602079 Score: 74
Period size: 16 Copynumber: 4.4 Consensus size: 16
15602001 AAATTTATTT
*
15602011 TTAAACAATTTTAATTA
1 TTAAA-AATTTTAATAA
15602028 TTAAAAATTTTAATAA
1 TTAAAAATTTTAATAA
*
15602044 TTAAAAA-TTT-AT-T
1 TTAAAAATTTTAATAA
15602057 TTAAACAATTTTAA-AA
1 TTAAA-AATTTTAATAA
15602073 TTAAAAA
1 TTAAAAA
15602080 AAAAAAGCTA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
13 5 0.11
14 4 0.09
15 8 0.18
16 23 0.51
17 5 0.11
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAAAAATTTTAATAA
Found at i:15609121 original size:5 final size:5
Alignment explanation
Indices: 15609111--15609139 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
15609101 AAGAAAAAAA
15609111 AGATC AGATC AGATC AGATC AGATC AGAT
1 AGATC AGATC AGATC AGATC AGATC AGAT
15609140 GACGGTGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (5 bp):
AGATC
Found at i:15611770 original size:25 final size:25
Alignment explanation
Indices: 15611742--15611799 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
15611732 AATTCAAGAT
15611742 TGAAATCAAAATTAAGTATTTTAGG
1 TGAAATCAAAATTAAGTATTTTAGG
15611767 TGAAATCAAAATTAAGTATTTTAGG
1 TGAAATCAAAATTAAGTATTTTAGG
*
15611792 TAAAATCA
1 TGAAATCA
15611800 GCTGTATCTC
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:0.47, C:0.05, G:0.14, T:0.34
Consensus pattern (25 bp):
TGAAATCAAAATTAAGTATTTTAGG
Found at i:15612328 original size:18 final size:18
Alignment explanation
Indices: 15612305--15612353 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
15612295 ATCTTGCAAA
15612305 AAAAAAAATTGTTTTCTC
1 AAAAAAAATTGTTTTCTC
* *
15612323 AAAAAAAATTATTTTTTC
1 AAAAAAAATTGTTTTCTC
* *
15612341 AGAAATAATTGTT
1 AAAAAAAATTGTT
15612354 ATCTATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (18 bp):
AAAAAAAATTGTTTTCTC
Found at i:15612684 original size:18 final size:18
Alignment explanation
Indices: 15612661--15612696 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15612651 TTCAAAAGTT
*
15612661 GAATGACTAAAATAAAAA
1 GAATGACTAAAACAAAAA
15612679 GAATGACTAAAACAAAAA
1 GAATGACTAAAACAAAAA
15612697 ATTTCAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.67, C:0.08, G:0.11, T:0.14
Consensus pattern (18 bp):
GAATGACTAAAACAAAAA
Found at i:15625910 original size:24 final size:24
Alignment explanation
Indices: 15625880--15625927 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
15625870 TTTGAGTACA
15625880 AATAATTAAA-TTTTTATTAAATAT
1 AATAATTAAACTTTTT-TTAAATAT
*
15625904 AATAATTAAACTTTTTTTACATAT
1 AATAATTAAACTTTTTTTAAATAT
15625928 TATCGAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
AATAATTAAACTTTTTTTAAATAT
Found at i:15626068 original size:31 final size:32
Alignment explanation
Indices: 15626006--15626068 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
15625996 TAAAACTTAA
* *
15626006 TTAAATTCGAATCAAATTTTAAATCTTATATT
1 TTAAATTCGAATCAAATTTTAAATATAATATT
15626038 TTAAA-TCGAA-CTAAATTTTAAATATAATATT
1 TTAAATTCGAATC-AAATTTTAAATATAATATT
15626069 ATATTAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 1 0.04
31 22 0.79
32 5 0.18
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (32 bp):
TTAAATTCGAATCAAATTTTAAATATAATATT
Found at i:15633875 original size:14 final size:15
Alignment explanation
Indices: 15633858--15633886 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15633848 AATACAAATG
15633858 AAAAGAAAA-AAAAA
1 AAAAGAAAAGAAAAA
15633872 AAAAGAAAAGAAAAA
1 AAAAGAAAAGAAAAA
15633887 TCTGCAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAGAAAAA
Found at i:15637216 original size:1 final size:1
Alignment explanation
Indices: 15637210--15637239 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
15637200 TTCAAAATTT
15637210 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15637240 CCTAGCCGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15638932 original size:32 final size:31
Alignment explanation
Indices: 15638896--15638976 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 31
15638886 TTAAGATATT
* *
15638896 ATAAAATTTTTATATTTTATTATTTTATTTAG
1 ATAAAATTTTTATATTTTATTATATT-TTTAA
*
15638928 AT-AAATTTTTAAATTTTTATTATATTTTTAA
1 ATAAAATTTTTATA-TTTTATTATATTTTTAA
* *
15638959 ATAAGATTTTGAT-TTTTA
1 ATAAAATTTTTATATTTTA
15638977 ATTTGCATCC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
30 5 0.12
31 16 0.39
32 20 0.49
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (31 bp):
ATAAAATTTTTATATTTTATTATATTTTTAA
Found at i:15638934 original size:31 final size:30
Alignment explanation
Indices: 15638899--15638976 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 30
15638889 AGATATTATA
* *
15638899 AAATTTTTATATTTTATTATTTTATTTAGAT
1 AAATTTTTATATTTTATTATATT-TTTAAAT
*
15638930 AAATTTTTAAATTTTTATTATATTTTTAAAT
1 AAATTTTTATA-TTTTATTATATTTTTAAAT
*
15638961 AAGATTTTGAT-TTTTA
1 AA-ATTTTTATATTTTA
15638977 ATTTGCATCC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 5 0.12
31 18 0.45
32 17 0.43
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (30 bp):
AAATTTTTATATTTTATTATATTTTTAAAT
Found at i:15639050 original size:59 final size:60
Alignment explanation
Indices: 15638943--15639060 Score: 132
Period size: 59 Copynumber: 2.0 Consensus size: 60
15638933 TTTTTAAATT
* * * *
15638943 TTTATTATATTTTTAAATAAGATTTTGATTTTTAATTTGCATCCAAATAA-ACTTTAAAC
1 TTTATTATATATTTAAATAAGATTCTAATTTTTAATATGCATCCAAATAAGACTTTAAAC
* * ** *
15639002 TTTATTTTATATTTAAATAA-ATTCCTAATTTTTAATATGTATTTAAATAAGTCTTTAAA
1 TTTATTATATATTTAAATAAGATT-CTAATTTTTAATATGCATCCAAATAAGACTTTAAA
15639061 ATAAATTAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
58 3 0.06
59 38 0.79
60 7 0.15
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (60 bp):
TTTATTATATATTTAAATAAGATTCTAATTTTTAATATGCATCCAAATAAGACTTTAAAC
Found at i:15639131 original size:29 final size:29
Alignment explanation
Indices: 15639099--15639163 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
15639089 CAATAAGAAT
15639099 TTATTTAGATACAAATCAAAAA-TTAA-AAA
1 TTATTTAGATA-AAAT-AAAAATTTAATAAA
* * *
15639128 TTATTCAGATATAATAAAAATTTAATAAC
1 TTATTTAGATAAAATAAAAATTTAATAAA
15639157 TTATTTA
1 TTATTTA
15639164 AAATAGTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 5 0.17
28 7 0.23
29 18 0.60
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.38
Consensus pattern (29 bp):
TTATTTAGATAAAATAAAAATTTAATAAA
Found at i:15652699 original size:20 final size:22
Alignment explanation
Indices: 15652674--15652717 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
15652664 AGCTTTAGAA
15652674 TTTTTTATTTCA-A-TTTTTCT
1 TTTTTTATTTCATATTTTTTCT
*
15652694 TTTTTTGTTTCATATTTTTTCT
1 TTTTTTATTTCATATTTTTTCT
15652716 TT
1 TT
15652718 GTAGATTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 1 0.05
22 9 0.43
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTTTATTTCATATTTTTTCT
Found at i:15656547 original size:3 final size:3
Alignment explanation
Indices: 15656431--15656536 Score: 108
Period size: 3 Copynumber: 36.0 Consensus size: 3
15656421 AAAAAATGAC
*
15656431 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * ** * * *
15656479 GAT GAT ACT AAT AAT AAT AAT ACG AGT -AC AAT AAT AAT ATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
15656526 ACT -AT AAT AAT
1 AAT AAT AAT AAT
15656537 TTACAATAAT
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
2 1 0.01
3 83 0.99
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15656549 original size:18 final size:20
Alignment explanation
Indices: 15656433--15656560 Score: 64
Period size: 21 Copynumber: 6.1 Consensus size: 20
15656423 AAAATGACAA
*
15656433 TAACAATAATAATAATAATAA
1 TAACAATAAT-ATAATAATAT
* *
15656454 TAATAATAATAATAATAATAA
1 TAACAATAAT-ATAATAATAT
** *
15656475 TAATGATGATACTAATAATAAT
1 TAACAATAATA-TAATAAT-AT
* *
15656497 AATACGAGTACA-ATAATAATAT
1 TA-AC-AATA-ATATAATAATAT
* *
15656519 TAATAATACTATAATAAT-T
1 TAACAATAATATAATAATAT
15656538 T-ACAATAATATATCATAATAT
1 TAACAATAATATA--ATAATAT
15656559 TA
1 TA
15656561 TATTATATTA
Statistics
Matches: 82, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
18 9 0.11
19 2 0.02
20 17 0.21
21 38 0.46
22 5 0.06
23 8 0.10
24 2 0.02
25 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
TAACAATAATATAATAATAT
Found at i:15656555 original size:10 final size:10
Alignment explanation
Indices: 15656438--15656590 Score: 104
Period size: 9 Copynumber: 14.9 Consensus size: 10
15656428 GACAATAACA
15656438 ATAATAATA-
1 ATAATAATAT
15656447 ATAATAATA-
1 ATAATAATAT
15656456 ATAATAATA-
1 ATAATAATAT
15656465 ATAATAATA-
1 ATAATAATAT
*
15656474 ATAATGATGAT
1 ATAATAAT-AT
15656485 ACTAATAATA-
1 A-TAATAATAT
*
15656495 ATAATACGAGTACA
1 ATAATA--A-TA-T
15656509 ATAATAATAT
1 ATAATAATAT
15656519 -TAATAATACT
1 ATAATAATA-T
*
15656529 ATAATAATTT
1 ATAATAATAT
*
15656539 ACAATAATAT
1 ATAATAATAT
*
15656549 ATCATAATAT
1 ATAATAATAT
*
15656559 -TATATTATATT
1 ATA-ATAATA-T
15656570 ATAATATATACT
1 ATAATA-ATA-T
15656582 ATAATAATA
1 ATAATAATA
15656591 AAAGAAATCG
Statistics
Matches: 118, Mismatches: 12, Indels: 26
0.76 0.08 0.17
Matches are distributed among these distances:
9 48 0.41
10 25 0.21
11 18 0.15
12 21 0.18
14 6 0.05
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.37
Consensus pattern (10 bp):
ATAATAATAT
Found at i:15656588 original size:15 final size:14
Alignment explanation
Indices: 15656438--15656591 Score: 82
Period size: 12 Copynumber: 11.7 Consensus size: 14
15656428 GACAATAACA
15656438 ATAATAATAATA--
1 ATAATAATAATACT
15656450 ATAATAATAATA--
1 ATAATAATAATACT
15656462 ATAATAATAATA--
1 ATAATAATAATACT
* *
15656474 ATAATGATGATACT
1 ATAATAATAATACT
*
15656488 AATAATAATAATACG
1 -ATAATAATAATACT
*
15656503 AGT-ACAATAATA--
1 A-TAATAATAATACT
*
15656515 ATATTAATAATACT
1 ATAATAATAATACT
* *
15656529 ATAATAAT-TTACA
1 ATAATAATAATACT
* *
15656542 ATAATATATCATAAT
1 ATAATA-ATAATACT
* * *
15656557 ATTAT-ATTATATT
1 ATAATAATAATACT
15656570 ATAAT-AT-ATACT
1 ATAATAATAATACT
15656582 ATAATAATAA
1 ATAATAATAA
15656592 AAGAAATCGA
Statistics
Matches: 112, Mismatches: 19, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
11 1 0.01
12 51 0.46
13 23 0.21
14 19 0.17
15 18 0.16
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.37
Consensus pattern (14 bp):
ATAATAATAATACT
Found at i:15658241 original size:18 final size:18
Alignment explanation
Indices: 15658206--15658249 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
15658196 ATTTGACATT
*
15658206 ATTAAAATGTTATGAAAA
1 ATTAAAATATTATGAAAA
* *
15658224 ATTAAAATATTTTTAAAA
1 ATTAAAATATTATGAAAA
15658242 ATATAAAA
1 AT-TAAAA
15658250 AATAATATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
ATTAAAATATTATGAAAA
Found at i:15676909 original size:17 final size:16
Alignment explanation
Indices: 15676884--15676917 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
15676874 TTAATTGAAT
15676884 TAAATTTTAAATTTTA
1 TAAATTTTAAATTTTA
15676900 TAAATATTTAAATTTTA
1 TAAAT-TTTAAATTTTA
15676917 T
1 T
15676918 GTGAATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAAATTTTAAATTTTA
Found at i:15677580 original size:14 final size:13
Alignment explanation
Indices: 15677557--15677613 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
15677547 AAATATTTTA
*
15677557 TAAAAATTTAATAT
1 TAAAATTTTAA-AT
*
15677571 TAAAATTTTAAAA
1 TAAAATTTTAAAT
*
15677584 TAATATATTTAAAAT
1 TAA-A-ATTTTAAAT
*
15677599 TAAAATTTTTAAT
1 TAAAATTTTAAAT
15677612 TA
1 TA
15677614 TTATCATTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
13 13 0.37
14 12 0.34
15 10 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAAATTTTAAAT
Found at i:15677609 original size:15 final size:15
Alignment explanation
Indices: 15677563--15677610 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
15677553 TTTATAAAAA
*
15677563 TTTAATATTAAAA-T
1 TTTAAAATTAAAATT
* *
15677577 TTTAAAA-TAATATA
1 TTTAAAATTAAAATT
15677591 TTTAAAATTAAAATT
1 TTTAAAATTAAAATT
15677606 TTTAA
1 TTTAA
15677611 TTATTATCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
13 4 0.15
14 13 0.48
15 10 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAAAATTAAAATT
Found at i:15677672 original size:16 final size:17
Alignment explanation
Indices: 15677651--15677689 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
15677641 TATTTGGCAT
*
15677651 ATAAAATTATAATA-AA
1 ATAAAATGATAATATAA
*
15677667 ATAAAATGATATTATAA
1 ATAAAATGATAATATAA
15677684 ATAAAA
1 ATAAAA
15677690 AATTAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
ATAAAATGATAATATAA
Found at i:15677793 original size:16 final size:17
Alignment explanation
Indices: 15677774--15677806 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15677764 ATTTTTTTTA
15677774 AAAATTT-ATATAATTT
1 AAAATTTAATATAATTT
15677790 AAAATTTAATATAATTT
1 AAAATTTAATATAATTT
15677807 TTTAAAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAAATTTAATATAATTT
Found at i:15677864 original size:14 final size:14
Alignment explanation
Indices: 15677847--15677873 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15677837 AAATAATTAA
15677847 TTATTTTTTTAATT
1 TTATTTTTTTAATT
15677861 TTATTTTTTTAAT
1 TTATTTTTTTAAT
15677874 ACAAAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTATTTTTTTAATT
Found at i:15678936 original size:26 final size:24
Alignment explanation
Indices: 15678906--15678962 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
15678896 ATTAAATTTG
*
15678906 ATAATTAAAAAAAAGGTTTTGTTTA
1 ATAATTAAAAAAAA-CTTTTGTTTA
* *
15678931 ATTAATGTAGACAAAACTTTTGTTTA
1 A-TAAT-TAAAAAAAACTTTTGTTTA
15678957 ATAATT
1 ATAATT
15678963 GTAATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 1 0.04
25 5 0.19
26 14 0.52
27 7 0.26
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.42
Consensus pattern (24 bp):
ATAATTAAAAAAAACTTTTGTTTA
Found at i:15679624 original size:23 final size:22
Alignment explanation
Indices: 15679574--15679624 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
15679564 AATGCATAAC
*
15679574 ATAATGAATATATATTTACTAG
1 ATAATGAATATATATTTAATAG
* *
15679596 ATTAATGTATATATATTTAAATAT
1 A-TAATGAATATATATTT-AATAG
15679620 ATAAT
1 ATAAT
15679625 AAGTAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 19 0.79
24 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (22 bp):
ATAATGAATATATATTTAATAG
Found at i:15686971 original size:26 final size:26
Alignment explanation
Indices: 15686918--15686971 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
15686908 TTGATAATTA
** * * *
15686918 AAACAAAGGTTTTGTTTAATTAATGT
1 AAACAAAACTTTTGCTTAATAAACGT
15686944 AAACAAAACTTTTGCTTAATAAACGT
1 AAACAAAACTTTTGCTTAATAAACGT
15686970 AA
1 AA
15686972 TTAAACTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.35
Consensus pattern (26 bp):
AAACAAAACTTTTGCTTAATAAACGT
Found at i:15692056 original size:17 final size:17
Alignment explanation
Indices: 15692024--15692055 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15692014 TTTTATGATT
15692024 TAATATTTTTAAAAAAC
1 TAATATTTTTAAAAAAC
15692041 TAAT-TTTTTAAAAAA
1 TAATATTTTTAAAAAA
15692056 AATTTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATATTTTTAAAAAAC
Found at i:15692902 original size:41 final size:40
Alignment explanation
Indices: 15692824--15692903 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 40
15692814 AAATTATAAT
* * * *
15692824 ATTTAATTCAGTTTAAATTATATTTTTTTATTTAATTCAA
1 ATTTAATTCAGTTTAAATTATATATATATATTAAATTCAA
15692864 ATTTAATTCATGTATTAAA-TATATATATATATTAAATTCA
1 ATTTAATTCA-GT-TTAAATTATATATATATATTAAATTCA
15692904 TATCGAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 10 0.29
41 19 0.56
42 5 0.15
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (40 bp):
ATTTAATTCAGTTTAAATTATATATATATATTAAATTCAA
Found at i:15693045 original size:21 final size:23
Alignment explanation
Indices: 15693020--15693066 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
15693010 TTTTATACTT
* *
15693020 AAATT-TATTTAAAT-ATATTAA
1 AAATTATATTAAAATAATATAAA
15693041 AAATTATATTAAAATAATATAAA
1 AAATTATATTAAAATAATATAAA
15693064 AAA
1 AAA
15693067 ATAAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 8 0.36
23 9 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATTATATTAAAATAATATAAA
Found at i:15694169 original size:17 final size:19
Alignment explanation
Indices: 15694144--15694190 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
15694134 ATATTTTAAA
*
15694144 TTATTATTTT-GTA-AAAT
1 TTATAATTTTAGTAGAAAT
*
15694161 TTATAATTTTAGTAGAATT
1 TTATAATTTTAGTAGAAAT
*
15694180 TTATAAATTTA
1 TTATAATTTTA
15694191 TACTTGTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.36
18 3 0.12
19 13 0.52
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (19 bp):
TTATAATTTTAGTAGAAAT
Found at i:15705668 original size:19 final size:20
Alignment explanation
Indices: 15705645--15705700 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
15705635 AATAAAAATT
15705645 AATTACAAAAAAAG-AATCA
1 AATTACAAAAAAAGAAATCA
* * *
15705664 GATTACATAAAAAGAAATTA
1 AATTACAAAAAAAGAAATCA
*
15705684 AATTACAAAAAAGGAAA
1 AATTACAAAAAAAGAAA
15705701 AAAAAAGCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.66, C:0.07, G:0.09, T:0.18
Consensus pattern (20 bp):
AATTACAAAAAAAGAAATCA
Found at i:15713131 original size:37 final size:37
Alignment explanation
Indices: 15713081--15713179 Score: 180
Period size: 37 Copynumber: 2.7 Consensus size: 37
15713071 AATCAGTAAA
15713081 ATCTTCTAATAGTTTGGTAAGATTTACTTTGATGCAG
1 ATCTTCTAATAGTTTGGTAAGATTTACTTTGATGCAG
15713118 ATCTTCTAATAGTTTGGTAAGATTTACTTTGATGCAG
1 ATCTTCTAATAGTTTGGTAAGATTTACTTTGATGCAG
* *
15713155 ATCTTCCAATAGTTTGGTGAGATTT
1 ATCTTCTAATAGTTTGGTAAGATTT
15713180 TGTTATAAGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.43
Consensus pattern (37 bp):
ATCTTCTAATAGTTTGGTAAGATTTACTTTGATGCAG
Found at i:15713290 original size:93 final size:93
Alignment explanation
Indices: 15713118--15713290 Score: 199
Period size: 93 Copynumber: 1.9 Consensus size: 93
15713108 TTTGATGCAG
* * * ****
15713118 ATCTTCTAATAGTTTGGTAAGATTTACTTTGATGCAGATCTTCCAATAGTTTGGTGAGATTTTGT
1 ATCTTCTAATAGTTTAGTAAGATTTAATTTGATGCAAATCTTCCAATAGTTTGGTGAGATTAAAA
* * *
15713183 TATAAGATTTTTTTAGAAAAGACATTAA
66 TACAAGAATATTTTAGAAAAGACATTAA
*
15713211 ATCTTCTAATAGTTTAGTAAGTTTTAATTTAAGATGCAAATCTTCCAATAGTTTGGT-AGGA-TA
1 ATCTTCTAATAGTTTAGTAAGATTTAATTT--GATGCAAATCTTCCAATAGTTTGGTGA-GATTA
15713274 AAATACAA-AATATTTTA
63 AAATACAAGAATATTTTA
15713291 TTAACAATTT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
93 34 0.52
94 6 0.09
95 26 0.39
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.42
Consensus pattern (93 bp):
ATCTTCTAATAGTTTAGTAAGATTTAATTTGATGCAAATCTTCCAATAGTTTGGTGAGATTAAAA
TACAAGAATATTTTAGAAAAGACATTAA
Found at i:15713321 original size:59 final size:59
Alignment explanation
Indices: 15713248--15713401 Score: 281
Period size: 59 Copynumber: 2.6 Consensus size: 59
15713238 TTTAAGATGC
* *
15713248 AAATCTTCCAATAGTTTGGTAGGATAAAATACAAAATATTTTATTAACAATTTTTTTAT
1 AAATCTTTCAATAGTTTGGTAGGATAAAATATAAAATATTTTATTAACAATTTTTTTAT
*
15713307 AAATCTTTCAATAGTTTGGTAGGATAAAATATAAAATATTTTATTAACATTTTTTTTAT
1 AAATCTTTCAATAGTTTGGTAGGATAAAATATAAAATATTTTATTAACAATTTTTTTAT
15713366 AAATCTTTCAATAGTTTGGTAGGATAAAATATAAAA
1 AAATCTTTCAATAGTTTGGTAGGATAAAATATAAAA
15713402 CTGATTTATG
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 92 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (59 bp):
AAATCTTTCAATAGTTTGGTAGGATAAAATATAAAATATTTTATTAACAATTTTTTTAT
Found at i:15713628 original size:24 final size:25
Alignment explanation
Indices: 15713570--15713628 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
15713560 TATAAATATT
*
15713570 TAAAAGAAATTAATAATAATAATAA
1 TAAAAGAAATTAATAATAATAAAAA
*
15713595 TAAATGAAATTGAA-AA-AATAAAAA
1 TAAAAGAAATT-AATAATAATAAAAA
*
15713619 TAAAACAAAT
1 TAAAAGAAAT
15713629 AAAATGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 15 0.52
25 12 0.41
26 2 0.07
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (25 bp):
TAAAAGAAATTAATAATAATAAAAA
Found at i:15713683 original size:18 final size:17
Alignment explanation
Indices: 15713660--15713704 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
15713650 AAAAAGAAAA
*
15713660 TAAATGAAAATGTAAATG
1 TAAATGAAAAT-AAAATG
15713678 TAAATGAAAAATAAAATG
1 TAAATG-AAAATAAAATG
15713696 -AAATGAAAA
1 TAAATGAAAA
15713705 AAGAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 4 0.16
17 5 0.20
18 11 0.44
19 5 0.20
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.22
Consensus pattern (17 bp):
TAAATGAAAATAAAATG
Found at i:15713705 original size:12 final size:11
Alignment explanation
Indices: 15713655--15713704 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
15713645 TAAGAAAAAA
15713655 GAAAAT-AAAT
1 GAAAATGAAAT
15713665 GAAAATGTAAAT
1 GAAAATG-AAAT
*
15713677 GTAAATGAAAAAT
1 GAAAATG--AAAT
15713690 -AAAATGAAAT
1 GAAAATGAAAT
15713700 GAAAA
1 GAAAA
15713705 AAGAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 10 0.30
11 4 0.12
12 15 0.45
13 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (11 bp):
GAAAATGAAAT
Found at i:15714550 original size:3 final size:3
Alignment explanation
Indices: 15714532--15714608 Score: 91
Period size: 3 Copynumber: 25.7 Consensus size: 3
15714522 AAAGAATAAT
* * * * * *
15714532 AAC AAT AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAT AAT AAT AAT
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
*
15714580 AAC AAC AAT AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
15714609 TAATAATAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.68, C:0.23, G:0.00, T:0.09
Consensus pattern (3 bp):
AAC
Found at i:15714550 original size:9 final size:9
Alignment explanation
Indices: 15714535--15714721 Score: 167
Period size: 9 Copynumber: 20.4 Consensus size: 9
15714525 GAATAATAAC
15714535 AATAACAAT
1 AATAACAAT
* *
15714544 AACAACAAC
1 AATAACAAT
* *
15714553 AACAACAAC
1 AATAACAAT
*
15714562 AACAACAAT
1 AATAACAAT
*
15714571 AATAATAAT
1 AATAACAAT
*
15714580 AACAACAAT
1 AATAACAAT
* *
15714589 AACAACAAC
1 AATAACAAT
* *
15714598 AACAACAAC
1 AATAACAAT
*
15714607 AATAATAAT
1 AATAACAAT
*
15714616 AATAATAAT
1 AATAACAAT
15714625 AATAACAATAAT
1 AATAAC---AAT
*
15714637 AATAATAAT
1 AATAACAAT
15714646 AATAACAAT
1 AATAACAAT
*
15714655 AATAATAAT
1 AATAACAAT
*
15714664 AATAATAAT
1 AATAACAAT
*
15714673 AATAATAAT
1 AATAACAAT
*
15714682 AATAATAAT
1 AATAACAAT
15714691 AATAACAAT
1 AATAACAAT
*
15714700 AATAATAAT
1 AATAACAAT
*
15714709 AATAATAAT
1 AATAACAAT
15714718 AATA
1 AATA
15714722 TACTCGACGA
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
9 150 0.95
12 8 0.05
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (9 bp):
AATAACAAT
Found at i:15714613 original size:3 final size:3
Alignment explanation
Indices: 15714607--15714721 Score: 203
Period size: 3 Copynumber: 38.3 Consensus size: 3
15714597 CAACAACAAC
* *
15714607 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
15714655 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15714703 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
15714722 TACTCGACGA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 106 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:15715229 original size:64 final size:64
Alignment explanation
Indices: 15715134--15715380 Score: 212
Period size: 64 Copynumber: 3.9 Consensus size: 64
15715124 CGCAAGTCAA
* * * * * * *
15715134 AAAATTAAAATGATTTGAATTGAACCGAGATCAAAATAAGTGATCGGGATTGAATTGTAAATTTG
1 AAAA-TAAAATGATCTGGATTGAACCAAGATCGAAATGAGTGATCGGGATTGAATCGTAAGTTTG
* * * * * *
15715199 AAAATAAAATGATCTGGATTAAACTAAGATCGAAATGAGTGA-CTGGATTAAATCGTAGGTCTG
1 AAAATAAAATGATCTGGATTGAACCAAGATCGAAATGAGTGATCGGGATTGAATCGTAAGTTTG
* * * * * *
15715262 AAAATAAAATGAAT-TGGACTGAGCCAAGATCGAAACGAGTGATCGAGATTGAACCATAAGTTTG
1 AAAATAAAATG-ATCTGGATTGAACCAAGATCGAAATGAGTGATCGGGATTGAATCGTAAGTTTG
* * * * * * *
15715326 AAAATAAAATCATCTAGACT-AAGCCGAGATCGAAATGAATGACCAGGATTGAATC
1 AAAATAAAATGATCTGGATTGAA-CCAAGATCGAAATGAGTGATCGGGATTGAATC
15715381 ATAAATTAAA
Statistics
Matches: 143, Mismatches: 35, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
63 52 0.36
64 87 0.61
65 4 0.03
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (64 bp):
AAAATAAAATGATCTGGATTGAACCAAGATCGAAATGAGTGATCGGGATTGAATCGTAAGTTTG
Found at i:15715666 original size:21 final size:20
Alignment explanation
Indices: 15715642--15715680 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
15715632 ATTCATGGAT
15715642 TCACATCAAAAATTTCAAAGC
1 TCACATCAAAAA-TTCAAAGC
* *
15715663 TCACCTCTAAAATTCAAA
1 TCACATCAAAAATTCAAA
15715681 AATTTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.46, C:0.26, G:0.03, T:0.26
Consensus pattern (20 bp):
TCACATCAAAAATTCAAAGC
Found at i:15717035 original size:13 final size:12
Alignment explanation
Indices: 15717008--15717040 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15716998 ACCCTATCAA
15717008 TTTTTTCTTCAT
1 TTTTTTCTTCAT
15717020 TTTTTTCTTC-T
1 TTTTTTCTTCAT
15717031 CTTTTTTCTT
1 -TTTTTTCTT
15717041 TTTTTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 1 0.05
12 19 0.95
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTCTTCAT
Done.