Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167851.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_121, 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: 77459
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Found at i:3179 original size:17 final size:17
Alignment explanation
Indices: 3149--3198 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
3139 AAATTATATG
*
3149 TAATAAAAATTTTAAAT
1 TAATAAATATTTTAAAT
* *
3166 TATTTAATATTTTAAAT
1 TAATAAATATTTTAAAT
*
3183 TAATAAATAATTTAAA
1 TAATAAATATTTTAAA
3199 ATTTATTAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAAATATTTTAAAT
Found at i:3213 original size:18 final size:18
Alignment explanation
Indices: 3157--3213 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
3147 TGTAATAAAA
* *
3157 ATTTTAAATTATTTAA-T
1 ATTTAAAATTAATTAATT
* * *
3174 ATTTTAAATTAATAAATA
1 ATTTAAAATTAATTAATT
*
3192 ATTTAAAATTTATTAATT
1 ATTTAAAATTAATTAATT
3210 ATTT
1 ATTT
3214 TTATGACAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 14 0.44
18 18 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTAAAATTAATTAATT
Found at i:3716 original size:1 final size:1
Alignment explanation
Indices: 3710--3750 Score: 82
Period size: 1 Copynumber: 41.0 Consensus size: 1
3700 GTAGTCAGGG
3710 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3751 CACAATGCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:5682 original size:19 final size:19
Alignment explanation
Indices: 5644--5682 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
5634 ATTCCCATGC
* * *
5644 ATCAACCAGAAAATCGCTA
1 ATCAACCAAAAAAACACTA
5663 ATCAACCAAAAAAACACTA
1 ATCAACCAAAAAAACACTA
5682 A
1 A
5683 GACCTCAATG
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:0.56, C:0.26, G:0.05, T:0.13
Consensus pattern (19 bp):
ATCAACCAAAAAAACACTA
Found at i:11507 original size:11 final size:11
Alignment explanation
Indices: 11491--11519 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
11481 AAATATTGTG
11491 TTTCTTTTTTT
1 TTTCTTTTTTT
11502 TTTCTTTTTTT
1 TTTCTTTTTTT
11513 TTT-TTTT
1 TTTCTTTT
11520 CAAACGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:13855 original size:25 final size:25
Alignment explanation
Indices: 13827--13880 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
13817 AAGTGGTATC
*
13827 AGAGCCAAAGGTTCAAGATGTGGGA
1 AGAGCCAAAGGTTCAAGATGTAGGA
** *
13852 AGAGTTAAAGGTTTAAGATGTAGGA
1 AGAGCCAAAGGTTCAAGATGTAGGA
13877 AGAG
1 AGAG
13881 ACAAGCTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.06, G:0.35, T:0.20
Consensus pattern (25 bp):
AGAGCCAAAGGTTCAAGATGTAGGA
Found at i:14103 original size:11 final size:11
Alignment explanation
Indices: 14087--14129 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
14077 AATCCCATAA
14087 GAGATTTGTTT
1 GAGATTTGTTT
*
14098 GAGATTTGTTA
1 GAGATTTGTTT
14109 GAGATTTGTTT
1 GAGATTTGTTT
*
14120 GGGATTTGTT
1 GAGATTTGTT
14130 AGATATTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:14114 original size:22 final size:22
Alignment explanation
Indices: 14086--14132 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
14076 AAATCCCATA
14086 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
*
14108 AGAGATTTGTTTGGGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
14130 AGA
1 AGA
14133 TATTGCTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:16319 original size:20 final size:24
Alignment explanation
Indices: 16276--16320 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
16266 GATCAATTAA
16276 AATTAAAGTTCATACAAAATTATT
1 AATTAAAGTTCATACAAAATTATT
16300 AATTAAA-TT-AT-CAAAA-TATT
1 AATTAAAGTTCATACAAAATTATT
16320 A
1 A
16321 TTGAGAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 5 0.24
22 2 0.10
23 2 0.10
24 7 0.33
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (24 bp):
AATTAAAGTTCATACAAAATTATT
Found at i:16845 original size:36 final size:37
Alignment explanation
Indices: 16772--16845 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 37
16762 TTAACACATC
*
16772 ACTCACTTACTTTTTCAATTAGTTTTTTTTTTAATATA
1 ACTCACTTACTTTTTCAATTAG-TTATTTTTTAATATA
*
16810 ACTCACTTATTTTTTCAATTAG-TATTTTTTAATATA
1 ACTCACTTACTTTTTCAATTAGTTATTTTTTAATATA
16846 CTTTGAAGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 13 0.38
38 21 0.62
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (37 bp):
ACTCACTTACTTTTTCAATTAGTTATTTTTTAATATA
Found at i:23449 original size:2 final size:2
Alignment explanation
Indices: 23442--23485 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
23432 TTGTACTGAG
*
23442 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23484 TA
1 TA
23486 AATTTATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:23493 original size:10 final size:10
Alignment explanation
Indices: 23442--23494 Score: 70
Period size: 10 Copynumber: 5.3 Consensus size: 10
23432 TTGTACTGAG
*
23442 TATATATATA
1 TATAAATATA
*
23452 TATATATATA
1 TATAAATATA
*
23462 TATATATATA
1 TATAAATATA
23472 TATAAATATA
1 TATAAATATA
*
23482 TATAAATTTA
1 TATAAATATA
23492 TAT
1 TAT
23495 TTTAAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TATAAATATA
Found at i:23654 original size:23 final size:20
Alignment explanation
Indices: 23628--23668 Score: 55
Period size: 23 Copynumber: 1.9 Consensus size: 20
23618 TCTATCTTAC
23628 TTTTAATATATATTAAATTATAT
1 TTTTAAT-TA-ATT-AATTATAT
23651 TTTTAATTAATTAATTAT
1 TTTTAATTAATTAATTAT
23669 TTTATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 2 0.11
23 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAATTAATTAATTATAT
Found at i:24049 original size:104 final size:103
Alignment explanation
Indices: 23849--24149 Score: 469
Period size: 104 Copynumber: 2.9 Consensus size: 103
23839 ACACATTTAT
* * * * * *
23849 AGAGAAAATTAGTCAATGAAAATTTTCTTCCTTTTTCTAATTCATG-TTTTTTTTTTCTACACAA
1 AGAGAAATTTGGTCAATGACAATTTTCTTCCCTTTTCTAATTCGTGTTTTTTTTTTTCTACACAT
23913 AAGATGTGAACATGAGACTCTTAAATGTATAATTTCTA
66 AAGATGTGAACATGAGACTCTTAAATGTATAATTTCTA
* *
23951 AGAGAAATTTGGTCAATGACAATTTTCTTCCCTTTTCTAATCCGTGTTTTTTTTTTTTCCACACA
1 AGAGAAATTTGGTCAATGACAATTTTCTTCCCTTTTCTAATTCGTG-TTTTTTTTTTTCTACACA
**
24016 TAAGATGTGAATGTGAGACTCTTAAATGTATAATTTCTA
65 TAAGATGTGAACATGAGACTCTTAAATGTATAATTTCTA
24055 AGAGAAATTTGGTCAATGACAATTTTCTTCCCTTTTCTAATTCGTGTTTTTTTTTTTCTACACAT
1 AGAGAAATTTGGTCAATGACAATTTTCTTCCCTTTTCTAATTCGTGTTTTTTTTTTTCTACACAT
* * *
24120 AAGATATGAACATAAGACTATTAAATGTAT
66 AAGATGTGAACATGAGACTCTTAAATGTAT
24150 GTTATAAAAT
Statistics
Matches: 180, Mismatches: 17, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
102 40 0.22
103 43 0.24
104 97 0.54
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (103 bp):
AGAGAAATTTGGTCAATGACAATTTTCTTCCCTTTTCTAATTCGTGTTTTTTTTTTTCTACACAT
AAGATGTGAACATGAGACTCTTAAATGTATAATTTCTA
Found at i:26677 original size:36 final size:36
Alignment explanation
Indices: 26630--26702 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
26620 ACGATAGGGA
*
26630 TATGGATATTAAAATTCTATTATTTTTTAATTTGAT
1 TATGGATATTAAAATTCTATTATTTTTTAATTAGAT
*
26666 TATGGATATTAAAATTTTATTATTTTTTAATTAGAT
1 TATGGATATTAAAATTCTATTATTTTTTAATTAGAT
26702 T
1 T
26703 TATCAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.56
Consensus pattern (36 bp):
TATGGATATTAAAATTCTATTATTTTTTAATTAGAT
Found at i:26687 original size:20 final size:20
Alignment explanation
Indices: 26630--26688 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
26620 ACGATAGGGA
*
26630 TATGGATATTAAAATTCTAT
1 TATGGATATTAAAATTTTAT
** *
26650 TAT---T-TTTTAATTTGAT
1 TATGGATATTAAAATTTTAT
26666 TATGGATATTAAAATTTTAT
1 TATGGATATTAAAATTTTAT
26686 TAT
1 TAT
26689 TTTTTAATTA
Statistics
Matches: 28, Mismatches: 7, Indels: 8
0.65 0.16 0.19
Matches are distributed among these distances:
16 11 0.39
17 1 0.04
19 1 0.04
20 15 0.54
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54
Consensus pattern (20 bp):
TATGGATATTAAAATTTTAT
Found at i:26714 original size:36 final size:36
Alignment explanation
Indices: 26635--26716 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 36
26625 AGGGATATGG
* **
26635 ATATTAAAATTCTATTATTTTTTAATTTGATTATGG
1 ATATTAAAATTCTATTATTTTTTAATTAGATTATCA
*
26671 ATATTAAAATTTTATTATTTTTTAATTAGATTTATCA
1 ATATTAAAATTCTATTATTTTTTAATTAGA-TTATCA
26708 AT-TTAAAAT
1 ATATTAAAAT
26717 ATGATATGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 35 0.85
37 6 0.15
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (36 bp):
ATATTAAAATTCTATTATTTTTTAATTAGATTATCA
Found at i:37833 original size:33 final size:33
Alignment explanation
Indices: 37791--37857 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
37781 TTTAATGTTG
37791 AATATTGAAAATAACTTTTAAGATTCTCCATCA
1 AATATTGAAAATAACTTTTAAGATTCTCCATCA
37824 AATATTGAAAATAACTTTTAAGATTCTCCATCA
1 AATATTGAAAATAACTTTTAAGATTCTCCATCA
37857 A
1 A
37858 TCTGATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (33 bp):
AATATTGAAAATAACTTTTAAGATTCTCCATCA
Found at i:39444 original size:2 final size:2
Alignment explanation
Indices: 39437--39462 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
39427 GGTGTCTACA
39437 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
39463 TGACAAAGCA
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):
AT
Found at i:45555 original size:41 final size:42
Alignment explanation
Indices: 45474--45674 Score: 248
Period size: 41 Copynumber: 4.8 Consensus size: 42
45464 CGAGGAGCCT
* *
45474 TTTATTTTTTCAAAGTTGTGGTGTCTCTATTTA-AAGGAGCAA
1 TTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGGAGCAA
* *
45516 TTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAA-GAGCAA
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGGAGCAA
* * * *
45557 TTTATTTTTTCAAAGTCGTAGTGCGTCTGTTTA-AAGGAGCGA
1 TTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGGAGCAA
* *
45599 TTTATTTTTCAAAGTTGTGGTACCTCTGTTTAG-AGGAGCAT
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGGAGCAA
* *
45640 TTTATTTTTCAAAATTGTTGTGCCTCTGTTTAGAA
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAA
45675 AAGTTTTGTT
Statistics
Matches: 137, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
41 96 0.70
42 41 0.30
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.43
Consensus pattern (42 bp):
TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGGAGCAA
Found at i:45613 original size:83 final size:82
Alignment explanation
Indices: 45474--45671 Score: 263
Period size: 83 Copynumber: 2.4 Consensus size: 82
45464 CGAGGAGCCT
* * *
45474 TTTATTTTTTCAAAGTTGTGGTGTCTCTATTTAAAGGAGCAATTTATTTTCCAAAGTCGTGGTGC
1 TTTATTTTTTCAAAGTTGTAGTG-CTCTGTTTAAAGGAGCAATTTATTTTCCAAAGTCGTGGTAC
45539 CTCTGTTTAGAAGAGCAA
65 CTCTGTTTAGAAGAGCAA
* * * *
45557 TTTATTTTTTCAAAGTCGTAGTGCGTCTGTTTAAAGGAGCGATTTATTTTTCAAAGTTGTGGTAC
1 TTTATTTTTTCAAAGTTGTAGTGC-TCTGTTTAAAGGAGCAATTTATTTTCCAAAGTCGTGGTAC
* *
45622 CTCTGTTTAGAGGAGCAT
65 CTCTGTTTAGAAGAGCAA
* *
45640 TTTA-TTTTTCAAAATTGTTGTGCCTCTGTTTA
1 TTTATTTTTTCAAAGTTGTAGTG-CTCTGTTTA
45672 GAAAAGTTTT
Statistics
Matches: 101, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
82 24 0.24
83 77 0.76
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.44
Consensus pattern (82 bp):
TTTATTTTTTCAAAGTTGTAGTGCTCTGTTTAAAGGAGCAATTTATTTTCCAAAGTCGTGGTACC
TCTGTTTAGAAGAGCAA
Found at i:46521 original size:101 final size:100
Alignment explanation
Indices: 46337--46533 Score: 297
Period size: 101 Copynumber: 2.0 Consensus size: 100
46327 TGGTTTAGGG
* * * *
46337 GAAAAAAGAGATTTTTCTAAAAAATTATGGAAAATTCCTAGATTTTGATGAAAATTTTTAATTTT
1 GAAAAAAGAGATTTTTCTAAAAAAATATGAAAAATTCCTAGATTTCGATGAAAATTTTCAATTTT
* **
46402 CGGTGAATTTTTTGGCACTGGTTGAATTTTTTAGC
66 CAGTGAATTTTTCAGCACTGGTTGAATTTTTTAGC
*
46437 GAAAAAAGAGATTTTTCTAAAAAAAATATGAAAAATTCCTAGATTTCGATG-AAATTTTCCAGTT
1 GAAAAAAGAGATTTTTCT-AAAAAAATATGAAAAATTCCTAGATTTCGATGAAAATTTT-CAATT
46501 TTCAGTGAATTTTTCAGCACTGGTTGAATTTTT
64 TTCAGTGAATTTTTCAGCACTGGTTGAATTTTT
46534 GGTGACTTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
100 25 0.29
101 62 0.71
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (100 bp):
GAAAAAAGAGATTTTTCTAAAAAAATATGAAAAATTCCTAGATTTCGATGAAAATTTTCAATTTT
CAGTGAATTTTTCAGCACTGGTTGAATTTTTTAGC
Found at i:47092 original size:17 final size:17
Alignment explanation
Indices: 47070--47107 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
47060 TAAATTCAGA
47070 AAAAAAAAG-AGAAAAAT
1 AAAAAAAAGTA-AAAAAT
*
47087 AAAAAAAGGTAAAAAAT
1 AAAAAAAAGTAAAAAAT
47104 AAAA
1 AAAA
47108 TAAATTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.08
Consensus pattern (17 bp):
AAAAAAAAGTAAAAAAT
Found at i:47165 original size:25 final size:27
Alignment explanation
Indices: 47137--47202 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 27
47127 TTAATTATCC
47137 AATGATGAAATTTAC-A-AAAATTTC-A
1 AATGATGAAATTT-CTATAAAATTTCTA
47162 AATGAT-AAATTTCTATAAAATTTCTA
1 AATGATGAAATTTCTATAAAATTTCTA
47188 AATGA-GAAA-TTCTAT
1 AATGATGAAATTTCTAT
47203 CTAAATTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
23 1 0.03
24 7 0.19
25 20 0.54
26 9 0.24
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (27 bp):
AATGATGAAATTTCTATAAAATTTCTA
Found at i:47757 original size:57 final size:57
Alignment explanation
Indices: 47643--47763 Score: 149
Period size: 56 Copynumber: 2.1 Consensus size: 57
47633 TCTTTCCAAG
*
47643 AAAG-AAAAAAGGAAATTTCTAAATAGACACAAATGGTGAAAATTTTAAAAATAAAA
1 AAAGAAAAAAAAGAAATTTCTAAATAGACACAAATGGTGAAAATTTTAAAAATAAAA
* * * * *
47699 AAATAAAAAAAAG-AATTTCTAAATAGGCCCAAATGGTGGAAAA-TTTAGAAATTCAAA
1 AAAGAAAAAAAAGAAATTTCTAAATAGACACAAATGGT-GAAAATTTTA-AAAATAAAA
47756 AAAGAAAA
1 AAAGAAAA
47764 TATTTTTAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
56 29 0.53
57 26 0.47
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.21
Consensus pattern (57 bp):
AAAGAAAAAAAAGAAATTTCTAAATAGACACAAATGGTGAAAATTTTAAAAATAAAA
Found at i:50162 original size:61 final size:58
Alignment explanation
Indices: 50037--50269 Score: 213
Period size: 61 Copynumber: 3.9 Consensus size: 58
50027 TTTATACAAA
* * * **
50037 GAAAATTGATACTTTCAACTCTTCCTTTAAAAATATTTTTTTCAAATTTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCC-TCAAAAATATTTTTTTAAAATTTTATTTCCAAG
* * *
50096 GAAAATTGGTACTTCCAACTTTTCCTCAAGAAATGCTTTTTTTGAAAATTTTATTTCCAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAA-AAAT-ATTTTTTT-AAAATTTTATTTCCAAG
* * * * * *
50157 GAAAATTGATACTTTCAACTTTTCCTTTTAAAAAATATATTTTT-AATTTTTATGTCAAAA
1 GAAAATTGATACTTTCAACTTTTCC---TCAAAAATATTTTTTTAAAATTTTATTTCCAAG
*
50217 G-AAATTGATAC-ATCAAC-TTTCCTCAAAAATATATTTTTTAAAAATTTTTATTT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTT-AAAA-TTTTATTT
50270 TAAAGAGATC
Statistics
Matches: 142, Mismatches: 22, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
54 9 0.06
55 5 0.04
57 7 0.05
58 15 0.11
59 36 0.25
60 20 0.14
61 37 0.26
62 6 0.04
63 4 0.03
64 3 0.02
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAATTTTATTTCCAAG
Found at i:50227 original size:59 final size:60
Alignment explanation
Indices: 50034--50269 Score: 216
Period size: 59 Copynumber: 4.0 Consensus size: 60
50024 GCTTTTATAC
* * **
50034 AAAGAAAATTGATACTTTCAACTCTTCCTTT-AAAAATATTTTTTTCAAATTTTATTTTT
1 AAAGAAAATTGATACTTTCAACTTTTCCTTTAAAAAATATTTTTTTAAAATTTTATTTCA
* * * * * * *
50093 AAGGAAAATTGGTACTTCCAACTTTTCC-TCAAGAAATGCTTTTTTTGAAAATTTTATTTCC
1 AAAGAAAATTGATACTTTCAACTTTTCCTTTAAAAAAT-ATTTTTTT-AAAATTTTATTTCA
* * * *
50154 AAGGAAAATTGATACTTTCAACTTTTCCTTTTAAAAAATATATTTTT-AATTTTTATGTCA
1 AAAGAAAATTGATACTTTCAACTTTTCC-TTTAAAAAATATTTTTTTAAAATTTTATTTCA
* * *
50214 AAAG-AAATTGATAC-ATCAAC-TTTCC-TCAAAAATATATTTTTTAAAAATTTTTATTT
1 AAAGAAAATTGATACTTTCAACTTTTCCTTTAAAAA-ATATTTTTTTAAAA-TTTTATTT
50270 TAAAGAGATC
Statistics
Matches: 143, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
55 6 0.04
56 8 0.06
57 7 0.05
58 13 0.09
59 39 0.27
60 20 0.14
61 37 0.26
62 6 0.04
63 7 0.05
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (60 bp):
AAAGAAAATTGATACTTTCAACTTTTCCTTTAAAAAATATTTTTTTAAAATTTTATTTCA
Found at i:50693 original size:15 final size:15
Alignment explanation
Indices: 50673--50713 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
50663 ATTCTTTTTT
50673 CCCTTCTCTCTCTTC
1 CCCTTCTCTCTCTTC
*
50688 CCCTTCT-T-TCCTC
1 CCCTTCTCTCTCTTC
*
50701 TCCTTCTCTCTCT
1 CCCTTCTCTCTCT
50714 ACCCAGATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (15 bp):
CCCTTCTCTCTCTTC
Found at i:51069 original size:21 final size:21
Alignment explanation
Indices: 51045--51089 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
51035 CTCTATTTGC
51045 TTTTTGTTTGTG-ATTTTTTTA
1 TTTTTGTTTGTGTA-TTTTTTA
*
51066 TTTTTGTTTTTGTATTTTTTA
1 TTTTTGTTTGTGTATTTTTTA
51087 TTT
1 TTT
51090 CTCTTCTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (21 bp):
TTTTTGTTTGTGTATTTTTTA
Found at i:52066 original size:21 final size:20
Alignment explanation
Indices: 52040--52096 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
52030 GGTTTCACAT
52040 CTCAAAGATTCTCATTTGAAA
1 CTCAAAGATTCTCATTTG-AA
* *
52061 CTCAAAGATTCTCACTTGAG
1 CTCAAAGATTCTCATTTGAA
* *
52081 TTCAAAGATTCACATT
1 CTCAAAGATTCTCATT
52097 CGACCAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (20 bp):
CTCAAAGATTCTCATTTGAA
Found at i:52091 original size:20 final size:21
Alignment explanation
Indices: 52040--52079 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
52030 GGTTTCACAT
*
52040 CTCAAAGATTCTCATTTGAAA
1 CTCAAAGATTCTCACTTGAAA
52061 CTCAAAGATTCTCACTTGA
1 CTCAAAGATTCTCACTTGA
52080 GTTCAAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (21 bp):
CTCAAAGATTCTCACTTGAAA
Found at i:52092 original size:80 final size:80
Alignment explanation
Indices: 51999--52217 Score: 221
Period size: 80 Copynumber: 2.8 Consensus size: 80
51989 TTTTCATTCT
* * *
51999 AGTTTGAAGATTCACA-TCTGATGAAATTTAGGGTTTCACATCTCAAAGATTC-TCATTTGAAAC
1 AGTTAGAAGATTCACATTC-GA-CAAATTTAGGGTTTCACACCTCAAAGATTCTTCATTTGAAAC
*
52062 TCAAAGATTCTCACTTG
64 TCAAAGATTCTCACTTA
* * * * ** *
52079 AGTTCA-AAGATTCACATTCGACCAATTTTGGGTTTTATACCTCAAAGATTCTTTTTTTGAAATT
1 AGTT-AGAAGATTCACATTCGACAAATTTAGGGTTTCACACCTCAAAGATTCTTCATTTGAAACT
*
52143 CAAAGATTCTCATTTA
65 CAAAGATTCTCACTTA
* * * * **
52159 AGTTAGAAGATTCACATTCAACCAATTTTGGGTTTTATGCCTCAAAGATTC-TCATTTGA
1 AGTTAGAAGATTCACATTCGACAAATTTAGGGTTTCACACCTCAAAGATTCTTCATTTGA
52218 GTTAGAAGAT
Statistics
Matches: 119, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
79 31 0.26
80 86 0.72
81 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (80 bp):
AGTTAGAAGATTCACATTCGACAAATTTAGGGTTTCACACCTCAAAGATTCTTCATTTGAAACTC
AAAGATTCTCACTTA
Found at i:52282 original size:46 final size:47
Alignment explanation
Indices: 52223--52315 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 47
52213 TTTGAGTTAG
*
52223 AAGATTCTCATTTGGAA-ACGTCTTAAAGATTTTCATTTAAG-ACTCA
1 AAGATTCTCATTT-GAAGACGTCTTAAAGATTCTCATTTAAGAACTCA
* ** *
52269 AAGATTTTCATTTGAAGATTTTTTAAAGATTCTCATTTAAGAACTCA
1 AAGATTCTCATTTGAAGACGTCTTAAAGATTCTCATTTAAGAACTCA
52316 GGACTCTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
45 3 0.08
46 32 0.80
47 5 0.12
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (47 bp):
AAGATTCTCATTTGAAGACGTCTTAAAGATTCTCATTTAAGAACTCA
Found at i:53466 original size:9 final size:9
Alignment explanation
Indices: 53447--53522 Score: 125
Period size: 9 Copynumber: 8.1 Consensus size: 9
53437 CTTTTTCTCC
53447 TTTCATCTTT
1 TTTCAT-TTT
53457 TTTCATTTTT
1 TTTCA-TTTT
53467 TTTCATTTTT
1 TTTCA-TTTT
53477 TTTCATTTT
1 TTTCATTTT
53486 TTTCATTTT
1 TTTCATTTT
53495 TTTCATTTT
1 TTTCATTTT
53504 TTTCATTTT
1 TTTCATTTT
53513 TTTCATTTT
1 TTTCATTTT
53522 T
1 T
53523 CAATTTTCAT
Statistics
Matches: 65, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
9 41 0.63
10 23 0.35
11 1 0.02
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTCATTTT
Found at i:53475 original size:18 final size:19
Alignment explanation
Indices: 53447--53572 Score: 122
Period size: 20 Copynumber: 6.6 Consensus size: 19
53437 CTTTTTCTCC
*
53447 TTTCATCTTTTTTCATTTTT
1 TTTCATTTTTTTTCA-TTTT
53467 TTTCATTTTTTTTCATTTT
1 TTTCATTTTTTTTCATTTT
53486 TTTCA-TTTTTTTCATTTT
1 TTTCATTTTTTTTCATTTT
53504 TTTCA-TTTTTTTCA--TT
1 TTTCATTTTTTTTCATTTT
53520 TTTCAATTTTCATTTTC-TCTTT
1 TTTC-ATTTT--TTTTCAT-TTT
*
53542 TCTC-TTTTTTTTCATCCTTT
1 TTTCATTTTTTTTCAT--TTT
53562 TTTC-TTTTTTT
1 TTTCATTTTTTT
53573 CATCTTCCAT
Statistics
Matches: 94, Mismatches: 3, Indels: 18
0.82 0.03 0.16
Matches are distributed among these distances:
16 6 0.06
17 1 0.01
18 35 0.37
19 10 0.11
20 37 0.39
22 5 0.05
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTCATTTTTTTTCATTTT
Found at i:53536 original size:38 final size:34
Alignment explanation
Indices: 53447--53529 Score: 112
Period size: 34 Copynumber: 2.3 Consensus size: 34
53437 CTTTTTCTCC
53447 TTTCATCTTTTTTCATTTTTTTTCATTTTTTTTCATTTT
1 TTTCAT-TTTTTTCA-TTTTTTTCA-TTTTTTTCA--TT
53486 TTTCATTTTTTTCATTTTTTTCATTTTTTTCATT
1 TTTCATTTTTTTCATTTTTTTCATTTTTTTCATT
*
53520 TTTCAATTTT
1 TTTCATTTTT
53530 CATTTTCTCT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
34 11 0.26
36 9 0.21
37 9 0.21
38 8 0.19
39 6 0.14
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (34 bp):
TTTCATTTTTTTCATTTTTTTCATTTTTTTCATT
Found at i:53571 original size:9 final size:9
Alignment explanation
Indices: 53454--53572 Score: 85
Period size: 9 Copynumber: 12.6 Consensus size: 9
53444 TCCTTTCATC
53454 TTTTTTCATT
1 TTTTTTC-TT
53464 TTTTTTCATT
1 TTTTTTC-TT
*
53474 TTTTTTCAT
1 TTTTTTCTT
*
53483 TTTTTTCAT
1 TTTTTTCTT
*
53492 TTTTTTCAT
1 TTTTTTCTT
*
53501 TTTTTTCAT
1 TTTTTTCTT
*
53510 TTTTTTCAT
1 TTTTTTCTT
***
53519 TTTTCAATT
1 TTTTTTCTT
*
53528 TTCATTTTCTC
1 TT--TTTTCTT
*
53539 TTTTCTCTT
1 TTTTTTCTT
*
53548 TTTTTTCATCC
1 TTTTTTC-T-T
53559 TTTTTTCTT
1 TTTTTTCTT
53568 TTTTT
1 TTTTT
53573 CATCTTCCAT
Statistics
Matches: 91, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
9 60 0.66
10 19 0.21
11 12 0.13
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:53980 original size:8 final size:8
Alignment explanation
Indices: 53942--53988 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
53932 TTCATCTCTT
53942 TTTTTTTC
1 TTTTTTTC
53950 TCTTTTTTC
1 T-TTTTTTC
*
53959 -TTTGTTC
1 TTTTTTTC
**
53966 TGCTTTTC
1 TTTTTTTC
53974 TTTTTTTC
1 TTTTTTTC
53982 TTTTTTT
1 TTTTTTT
53989 TCTATCTTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
7 6 0.19
8 18 0.58
9 7 0.23
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (8 bp):
TTTTTTTC
Found at i:53982 original size:16 final size:14
Alignment explanation
Indices: 53940--53989 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
53930 CATTCATCTC
53940 TTTTTTTTTCTCTT
1 TTTTTTTTTCTCTT
53954 TTTTCTTTGTTCTGCTT
1 TTTT-TTT-TTCT-CTT
53971 TTCTTTTTTTCT-TT
1 TT-TTTTTTTCTCTT
53985 TTTTT
1 TTTTT
53990 CTATCTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
13 3 0.09
14 8 0.25
15 3 0.09
16 8 0.25
17 8 0.25
18 2 0.06
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTCTCTT
Found at i:57639 original size:59 final size:58
Alignment explanation
Indices: 57563--57743 Score: 211
Period size: 61 Copynumber: 3.0 Consensus size: 58
57553 TTTTCAAGGG
*
57563 AAATTGATACTTTCAACTTTTCCTTTAAAAATATTTTTTTCAAATTTTAATTTTAAAGA
1 AAATTGATACTTTCAACTTTTCCTTAAAAAATATTTTTTTCAAATTTT-ATTTTAAAGA
* * * * *
57622 AAATTGGTACTTCCAACTTTTCCTCAAAAAATGTTTTTTTCAAAAATTTTATTTCCAAAGA
1 AAATTGATACTTTCAACTTTTCCTTAAAAAATATTTTTTTC--AAATTTTATTT-TAAAGA
* *
57683 AAATTAATACTTTCAAC-TTTCCTTCAAAAAATATATATTTTTAAAATTTTTATTTTAAAGA
1 AAATTGATACTTTCAACTTTTCCTT-AAAAAATAT-T-TTTTTCAAA-TTTTATTTTAAAGA
57744 GATCATTAAA
Statistics
Matches: 102, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
59 36 0.35
60 10 0.10
61 42 0.41
62 9 0.09
63 5 0.05
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (58 bp):
AAATTGATACTTTCAACTTTTCCTTAAAAAATATTTTTTTCAAATTTTATTTTAAAGA
Found at i:57694 original size:61 final size:60
Alignment explanation
Indices: 57554--57743 Score: 208
Period size: 59 Copynumber: 3.1 Consensus size: 60
57544 AGGTTTCTAT
* * **
57554 TTTCAAGGGAAATTGATACTTTCAACTTTTCCTTTAAAAATATTTTTTTC--AAATTTTAA
1 TTTCAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTCAAAAATTTT-A
* * * *
57613 TTTTAAAGAAAATTGGTACTTCCAACTTTTCCTCAAAAAATGTTTTTTTCAAAAATTTTA
1 TTTCAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTCAAAAATTTTA
* *
57673 TTTCCAAAGAAAATTAATACTTTCAAC-TTTCCTTCAAAAAATATATATTTTT-AAAATTTTTA
1 TTT-CAAAGAAAATTGATACTTTCAACTTTTCC-TCAAAAAATAT-T-TTTTTCAAAAATTTTA
*
57735 TTTTAAAGA
1 TTTCAAAGA
57744 GATCATTAAA
Statistics
Matches: 110, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
59 42 0.38
60 9 0.08
61 41 0.37
62 13 0.12
63 5 0.05
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (60 bp):
TTTCAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTCAAAAATTTTA
Found at i:58159 original size:13 final size:14
Alignment explanation
Indices: 58141--58177 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
58131 AATTCTTCTT
58141 TCCCCTCTCTTT-C
1 TCCCCTCTCTTTCC
58154 TCCCCT-TCTTTCC
1 TCCCCTCTCTTTCC
58167 TCTCCCTCTCT
1 TC-CCCTCTCT
58178 CTCTACCCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 5 0.24
13 9 0.43
14 4 0.19
15 3 0.14
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (14 bp):
TCCCCTCTCTTTCC
Found at i:58178 original size:23 final size:23
Alignment explanation
Indices: 58135--58178 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
58125 CTGCATAATT
* *
58135 CTTCTTTCCCCTCTCTTTCTCCC
1 CTTCTTTCCCCTCCCTCTCTCCC
*
58158 CTTCTTTCCTCTCCCTCTCTC
1 CTTCTTTCCCCTCCCTCTCTC
58179 TCTACCCGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (23 bp):
CTTCTTTCCCCTCCCTCTCTCCC
Found at i:58396 original size:10 final size:10
Alignment explanation
Indices: 58383--58407 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
58373 TCAAAAACTA
58383 AAAAATTTTC
1 AAAAATTTTC
58393 AAAAATTTTC
1 AAAAATTTTC
58403 AAAAA
1 AAAAA
58408 AAAATCACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAAATTTTC
Found at i:58987 original size:16 final size:16
Alignment explanation
Indices: 58966--58999 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
58956 ATTATTATTA
58966 TTTTTTTCCTTTTCTT
1 TTTTTTTCCTTTTCTT
*
58982 TTTTTTTTCTTTTCTT
1 TTTTTTTCCTTTTCTT
58998 TT
1 TT
59000 GTATTTTTAT
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTTCCTTTTCTT
Found at i:59102 original size:28 final size:26
Alignment explanation
Indices: 59071--59133 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
59061 GATTTATATG
59071 TATTTTATTTATATAGTTATATATTTAT
1 TATTTTATTTATA-AGTTATATA-TTAT
* * *
59099 TATTATA-TTATAATTTATGTATTAT
1 TATTTTATTTATAAGTTATATATTAT
59124 TATTATTATT
1 TATT-TTATT
59134 ATTATTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
25 8 0.28
26 9 0.31
27 6 0.21
28 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (26 bp):
TATTTTATTTATAAGTTATATATTAT
Found at i:59103 original size:3 final size:3
Alignment explanation
Indices: 59095--59142 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
59085 AGTTATATAT
*
59095 TTA TTA TTA -TA TTA TAA TTTA TGTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA
59141 TT
1 TT
59143 TTTTTTTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 5 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:59105 original size:12 final size:12
Alignment explanation
Indices: 59090--59143 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 12
59080 TATATAGTTA
59090 TATATTTATTAT
1 TATATTTATTAT
*
59102 TATA-TTATAAT
1 TATATTTATTAT
*
59113 T-TATGTATTAT
1 TATATTTATTAT
59124 TAT-TATTATTAT
1 TATAT-TTATTAT
59136 TATTATTT
1 TA-TATTT
59144 TTTTTTTTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
10 2 0.06
11 14 0.42
12 13 0.39
13 3 0.09
14 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (12 bp):
TATATTTATTAT
Found at i:59564 original size:25 final size:25
Alignment explanation
Indices: 59512--59564 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
59502 GGGAGTGAGA
*
59512 AAAAATTTTTAGAAAATTTTTGGCG
1 AAAAATTTTTAGAAAATTTCTGGCG
* *
59537 AAAAATTTTTCTGGAAATTTCTGG-G
1 AAAAATTTTT-AGAAAATTTCTGGCG
59562 AAA
1 AAA
59565 TTTCCAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (25 bp):
AAAAATTTTTAGAAAATTTCTGGCG
Found at i:59631 original size:31 final size:30
Alignment explanation
Indices: 59583--59645 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
59573 ATCCGACGAA
*
59583 AATTCGGCGAAATTTGAATTTTCCGGCAAC
1 AATTCGGCGAAATTTGAAGTTTCCGGCAAC
*
59613 AATTCCGGCGAACA-TTGAAGTTTCCGGCGAC
1 AATT-CGGCGAA-ATTTGAAGTTTCCGGCAAC
59644 AA
1 AA
59646 CCCAGTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 4 0.14
31 24 0.83
32 1 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (30 bp):
AATTCGGCGAAATTTGAAGTTTCCGGCAAC
Found at i:59718 original size:19 final size:19
Alignment explanation
Indices: 59694--59738 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
59684 TCCGGCCAAT
59694 TTCCGGCGAAATTTCCAGA
1 TTCCGGCGAAATTTCCAGA
59713 TTCCGGCGAAATTTCCAGA
1 TTCCGGCGAAATTTCCAGA
*
59732 ATCCGGC
1 TTCCGGC
59739 ACCGGCGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (19 bp):
TTCCGGCGAAATTTCCAGA
Found at i:59967 original size:5 final size:5
Alignment explanation
Indices: 59957--59989 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
59947 TTCAGCCCCT
59957 CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCG
59990 CGATCCGACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.42, G:0.39, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:60537 original size:156 final size:156
Alignment explanation
Indices: 60079--60519 Score: 855
Period size: 156 Copynumber: 2.8 Consensus size: 156
60069 TTTTTTTCTT
*
60079 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
1 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
60144 CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCG
66 CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCG
60209 ATAATTAATTAATTGGTTGATCTTGA
131 ATAATTAATTAATTGGTTGATCTTGA
*
60235 TTTTTCTTTAAATAATCCGACGATGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
1 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
60300 CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCG
66 CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCG
60365 ATAATTAATTAATTGGTTGATCTTGA
131 ATAATTAATTAATTGGTTGATCTTGA
60391 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
1 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
*
60456 TTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
60520 AACAACTAAC
Statistics
Matches: 281, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 281 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (156 bp):
TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCG
ATAATTAATTAATTGGTTGATCTTGA
Found at i:63811 original size:1 final size:1
Alignment explanation
Indices: 63807--63840 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
63797 GTAATTTTTG
63807 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
63841 CACCACAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:64245 original size:8 final size:8
Alignment explanation
Indices: 64232--64292 Score: 59
Period size: 8 Copynumber: 7.1 Consensus size: 8
64222 TGAAAAATGA
64232 AAAAAAAG
1 AAAAAAAG
*
64240 ACAAAAAAA
1 A-AAAAAAG
64249 AAAAAAAG
1 AAAAAAAG
64257 AAAAAAAG
1 AAAAAAAG
64265 AAAAGAAATG
1 AAAA-AAA-G
* *
64275 AGAAAATG
1 AAAAAAAG
64283 AAGAAAAAG
1 AA-AAAAAG
64292 A
1 A
64293 TTCAAATTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
8 21 0.49
9 18 0.42
10 4 0.09
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:64268 original size:13 final size:13
Alignment explanation
Indices: 64232--64272 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
64222 TGAAAAATGA
64232 AAAAAAAGACAAA-
1 AAAAAAAGA-AAAG
64245 AAAAAAA-AAAAG
1 AAAAAAAGAAAAG
64257 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
64270 AAA
1 AAA
64273 TGAGAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.12
12 8 0.31
13 15 0.58
ACGTcount: A:0.88, C:0.02, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:64280 original size:18 final size:17
Alignment explanation
Indices: 64223--64292 Score: 68
Period size: 17 Copynumber: 4.0 Consensus size: 17
64213 AATAATAGAT
64223 GAAAAATGAAAAAAAAGA
1 GAAAAA-GAAAAAAAAGA
* *
64241 CAAAAAAAAAAAAAAGA
1 GAAAAAGAAAAAAAAGA
* *
64258 AAAAAAGAAAAGAAATGA
1 GAAAAAGAAAA-AAAAGA
* *
64276 GAAAATGAAGAAAAAGA
1 GAAAAAGAAAAAAAAGA
64293 TTCAAATTGA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
17 24 0.57
18 18 0.43
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.04
Consensus pattern (17 bp):
GAAAAAGAAAAAAAAGA
Found at i:65522 original size:41 final size:40
Alignment explanation
Indices: 65472--66067 Score: 786
Period size: 41 Copynumber: 14.4 Consensus size: 40
65462 CAAGGAGCCT
* *
65472 TTTAATTTCCAAAGTTTCGT-TGCCTCTGTTTAGAGGAGCAA
1 TTTATTTTCCAAAG--TCGTGTGCCTCTGTTGAGAGGAGCAA
*
65513 TTTATTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAA
1 TTTATTTTCCAAAGTCGT-GTGCCTCTGTTGAGAGGAGCAA
65554 TTTACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAA
1 TTTA-TTTTCCAAAGTCGT-GTGCCTCTGTTGAGAGGAGCAA
*
65596 TTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
1 TTTA-TTTTCCAAAGTCGT-GTGCCTCTGTTGAGAGGAGCAA
* *
65637 TTTATTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAA
1 TTTATTTTCCAAAGTCGT-GTGCCTCTGTTGAGAGGAGCAA
*
65678 TTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
1 TTTA-TTTTCCAAAGTCGT-GTGCCTCTGTTGAGAGGAGCAA
*
65719 TTTACTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAA
1 TTTATTTTCCAAAGTCGT-GTGCCTCTGTTGAGAGGAGCAA
* *
65760 TTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
1 TTTATTTTCCAAAGTCGT-GTGCCTCTGTTGAGAGGAGCAA
65801 TTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAA
1 TTTA-TTTTCCAAAGTCGT-GTGCCTCTGTTGAGAGGAGCAA
*
65843 TTTACTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAA
1 TTTATTTTCCAAAGTCGT-GTGCCTCTGTTGAGAGGAGCAA
*
65884 TTTAATTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAA
1 TTTATTTTCCAAAGTCGT-GTGCCTCTGTTGAGAGGAGCAA
* *
65925 TTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
1 TTTATTTTCCAAAGTCGT-GTGCCTCTGTTGAGAGGAGCAA
* *
65966 TTTACTTTCCAAAGTCGTGGTGCCTCTGTTGAAAGGAGCAA
1 TTTATTTTCCAAAGTCGT-GTGCCTCTGTTGAGAGGAGCAA
* *
66007 TTTACTTTCCAAAGTCCGT-TGCCATCTGTTTAAGAGGAGCAA
1 TTTATTTTCCAAAGT-CGTGTGCC-TCTG-TTGAGAGGAGCAA
**
66049 TTTACTTTTATAAAGTCGT
1 TTTA-TTTTCCAAAGTCGT
66068 TGAGGGGTCT
Statistics
Matches: 518, Mismatches: 26, Indels: 21
0.92 0.05 0.04
Matches are distributed among these distances:
39 4 0.01
40 11 0.02
41 386 0.75
42 109 0.21
43 8 0.02
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (40 bp):
TTTATTTTCCAAAGTCGTGTGCCTCTGTTGAGAGGAGCAA
Found at i:65685 original size:82 final size:82
Alignment explanation
Indices: 65492--66067 Score: 931
Period size: 82 Copynumber: 7.0 Consensus size: 82
65482 AAAGTTTCGT
* * * *
65492 TGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTT
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
65557 ACTTTTCCAAAGTCGTGG
66 A-TTTTCCAAAGTCGTGG
*
65575 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
*
65640 ATTTTTCAAAGTCGTGG
66 ATTTTCCAAAGTCGTGG
* *
65657 TACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
*
65722 ACTTTCCAAAGTCGTGG
66 ATTTTCCAAAGTCGTGG
*
65739 TGCCTCTGTTGAGAGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
65804 ATTTTTCCAAAGTCGTGG
66 A-TTTTCCAAAGTCGTGG
*
65822 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTT
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
*
65887 AATTTCCAAAGTCGTGG
66 ATTTTCCAAAGTCGTGG
*
65904 TGCCTCTGTTGAGAGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
*
65969 ACTTTCCAAAGTCGTGG
66 ATTTTCCAAAGTCGTGG
*
65986 TGCCTCTGTTGAAAGGAGCAATTTACTTTCCAAAGTCCGT--TGCCATCTGTTTAAGAGGAGCAA
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGT-CGTGGTGCC-TCTGTTT-AGAGGAGCAA
**
66049 TTTACTTTTATAAAGTCGT
63 TTTA-TTTTCCAAAGTCGT
66068 TGAGGGGTCT
Statistics
Matches: 464, Mismatches: 24, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
81 4 0.01
82 292 0.63
83 157 0.34
84 11 0.02
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (82 bp):
TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
ATTTTCCAAAGTCGTGG
Found at i:65913 original size:247 final size:247
Alignment explanation
Indices: 65492--66067 Score: 967
Period size: 247 Copynumber: 2.3 Consensus size: 247
65482 AAAGTTTCGT
* * * *
65492 TGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTT
1 TGCCTCTGTTGAGAGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
*
65557 ACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTC
66 ACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTC
* * * * *
65622 TGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTT
131 TGTTGAGAGGAGCAATTTAATTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTAATTTC
65687 CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGG
196 CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGG
65739 TGCCTCTGTTGAGAGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
1 TGCCTCTGTTGAGAGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
*
65804 ATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTC
66 ACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTC
*
65869 TGTTGAGAGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTAATTTC
131 TGTTGAGAGGAGCAATTTAATTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTAATTTC
65934 CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGG
196 CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGG
* *
65986 TGCCTCTGTTGAAAGGAGCAATTTACTTTCCAAAGTCCGT--TGCCATCTGTTTAAGAGGAGCAA
1 TGCCTCTGTTGAGAGGAGCAATTTAATTTCCAAAGT-CGTGGTGCC-TCTGTTT-AGAGGAGCAA
**
66049 TTTACTTTTATAAAGTCGT
63 TTTACTTTTCCAAAGTCGT
66068 TGAGGGGTCT
Statistics
Matches: 309, Mismatches: 17, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
246 4 0.01
247 276 0.89
248 29 0.09
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (247 bp):
TGCCTCTGTTGAGAGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
ACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTC
TGTTGAGAGGAGCAATTTAATTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTAATTTC
CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGG
Found at i:66236 original size:1 final size:1
Alignment explanation
Indices: 66099--66224 Score: 81
Period size: 1 Copynumber: 126.0 Consensus size: 1
66089 GAGCTTCGGC
* * * * * * *
66099 AAAAAAAAAAAAAAAACAAAAAAAAATAAAAAAACAAAAGAACAAAAAAAACAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * ** * * ** * ** *
66164 CAAAAAACAAAAAATCAAAAATAAAACAAAAAATCAAACAAAATCAAAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
66225 TCAATCAAAA
Statistics
Matches: 90, Mismatches: 35, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 90 1.00
ACGTcount: A:0.85, C:0.10, G:0.01, T:0.05
Consensus pattern (1 bp):
A
Found at i:66858 original size:15 final size:14
Alignment explanation
Indices: 66806--66873 Score: 50
Period size: 12 Copynumber: 4.6 Consensus size: 14
66796 AGAAAAAAAG
66806 AAAAAAAAAATCAA
1 AAAAAAAAAATCAA
* *
66820 GATCAAAATCAAAGTCAA
1 -A--AAAA-AAAAATCAA
*
66838 ATAAAAAAAATTCAA
1 A-AAAAAAAAATCAA
66853 AAAAAAAAAA--AA
1 AAAAAAAAAATCAA
66865 AAAAAAAAA
1 AAAAAAAAA
66874 CCTGGAGCGG
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
12 11 0.25
14 8 0.18
15 9 0.20
16 4 0.09
17 5 0.11
18 7 0.16
ACGTcount: A:0.79, C:0.07, G:0.03, T:0.10
Consensus pattern (14 bp):
AAAAAAAAAATCAA
Found at i:66903 original size:5 final size:5
Alignment explanation
Indices: 66893--66925 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
66883 GCTCGGATCG
66893 CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGG
1 CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGG
66926 AGGGGCTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.39, G:0.42, T:0.18
Consensus pattern (5 bp):
CGGCT
Found at i:67275 original size:31 final size:31
Alignment explanation
Indices: 67237--67300 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
67227 GGAAACTGGG
*
67237 TTGTTGCCGGAAACTTC-AATGTTCGCCGGAA
1 TTGTTGCCGGAAAATTCAAAT-TTCGCCGGAA
67268 TTGTTGCCGGAAAATTCAAATTTCGCCGGAA
1 TTGTTGCCGGAAAATTCAAATTTCGCCGGAA
67299 TT
1 TT
67301 TTCGTCGGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (31 bp):
TTGTTGCCGGAAAATTCAAATTTCGCCGGAA
Found at i:67747 original size:3 final size:3
Alignment explanation
Indices: 67741--67788 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
67731 AAAAAAAAAA
*
67741 AAT AAT AAT AAT AAT AAT AAT AAT ACAT AAAT TAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT
67787 AA
1 AA
67789 ATATATAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 4 0.10
5 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:67791 original size:12 final size:12
Alignment explanation
Indices: 67740--67793 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
67730 CAAAAAAAAA
67740 AAATAATAATAAT
1 AAAT-ATAATAAT
67753 -AATAATAATAAT
1 AAAT-ATAATAAT
* *
67765 ACATA-AATTAT
1 AAATATAATAAT
67776 -AATATAATAAT
1 AAATATAATAAT
67787 AAATATA
1 AAATATA
67794 TAACTATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
10 3 0.09
11 10 0.29
12 19 0.56
13 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATATAATAAT
Found at i:67801 original size:25 final size:26
Alignment explanation
Indices: 67748--67825 Score: 67
Period size: 25 Copynumber: 3.1 Consensus size: 26
67738 AAAAATAATA
* *
67748 ATAATAATAATAAT-AATACATAAATT
1 ATAAT-ATAATAATAAATATATAAACT
67774 ATAATATAATAATAAATATAT-AACT
1 ATAATATAATAATAAATATATAAACT
*
67799 AT-ATA-AATAA-AATACATATAAATCT
1 ATAATATAATAATAA-ATATATAAA-CT
67824 AT
1 AT
67826 TCTAAAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
22 2 0.04
23 10 0.22
24 5 0.11
25 17 0.38
26 11 0.24
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAATATAATAATAAATATATAAACT
Found at i:67905 original size:16 final size:17
Alignment explanation
Indices: 67884--67920 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
67874 ATAAAAATAC
67884 AAAAGAAAA-GAAAAAA
1 AAAAGAAAAGGAAAAAA
67900 AAAAGAAAAGGAAAAAA
1 AAAAGAAAAGGAAAAAA
67917 AAAA
1 AAAA
67921 TAATAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGGAAAAAA
Found at i:68100 original size:1 final size:1
Alignment explanation
Indices: 68096--68217 Score: 100
Period size: 1 Copynumber: 122.0 Consensus size: 1
68086 TTTTGATTGA
* ** ** * * ** * *
68096 TTTTTTTTTATTTTTTTGATTTTTTTGATTTTTGTTTTTATTTTTTGATTTTTGTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
68161 TTTTGTTTTTTTGTTCTTTTGTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
68218 GCCGAAGCTC
Statistics
Matches: 92, Mismatches: 29, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 92 1.00
ACGTcount: A:0.04, C:0.01, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:68118 original size:16 final size:14
Alignment explanation
Indices: 68099--68214 Score: 119
Period size: 15 Copynumber: 7.9 Consensus size: 14
68089 TGATTGATTT
68099 TTTTTTATTTTTTTG
1 TTTTTT-TTTTTTTG
*
68114 ATTTTTTTGATTTTTG
1 -TTTTTTT-TTTTTTG
*
68130 -TTTTTATTTTTTG
1 TTTTTTTTTTTTTG
*
68143 ATTTTTGTTTTTTTG
1 -TTTTTTTTTTTTTG
68158 TTTTTTTGTTTTTTTG
1 -TTTTTT-TTTTTTTG
*
68174 TTCTTTTGTTTTTTG
1 TT-TTTTTTTTTTTG
68189 TTTTTTTTTTTTT-
1 TTTTTTTTTTTTTG
68202 TTTTTTTTTTTTT
1 TTTTTTTTTTTTT
68215 TTTGCCGAAG
Statistics
Matches: 86, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
13 19 0.22
14 15 0.17
15 28 0.33
16 24 0.28
ACGTcount: A:0.04, C:0.01, G:0.09, T:0.86
Consensus pattern (14 bp):
TTTTTTTTTTTTTG
Found at i:68162 original size:52 final size:52
Alignment explanation
Indices: 68083--68217 Score: 165
Period size: 52 Copynumber: 2.7 Consensus size: 52
68073 TCAACTCAAC
*
68083 ATTTTTTGATTGATTTTTTTTTATTTTTTTGATTTTTTTGAT-TTTTG-TTTTT
1 ATTTTTTGATT-TTTTTTTTTTATTTTTTTG-TTTTTTTGATCTTTTGTTTTTT
* *
68135 ATTTTTTGATTTTTGTTTTTTTGTTTTTTTGTTTTTTTGTTCTTTTGTTTTTT
1 ATTTTTTGATTTTT-TTTTTTTATTTTTTTGTTTTTTTGATCTTTTGTTTTTT
*
68188 GTTTTTT--TTTTTTTTTTTT-TTTTTTT-TTTT
1 ATTTTTTGATTTTTTTTTTTTATTTTTTTGTTTT
68218 GCCGAAGCTC
Statistics
Matches: 76, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
48 4 0.05
49 7 0.09
50 7 0.09
51 16 0.21
52 31 0.41
53 11 0.14
ACGTcount: A:0.06, C:0.01, G:0.09, T:0.84
Consensus pattern (52 bp):
ATTTTTTGATTTTTTTTTTTTATTTTTTTGTTTTTTTGATCTTTTGTTTTTT
Found at i:68401 original size:41 final size:41
Alignment explanation
Indices: 68224--69024 Score: 1264
Period size: 41 Copynumber: 19.5 Consensus size: 41
68214 TTTTGCCGAA
* * * * **
68224 GCTCCTCTGAACAGAGACTCAACGACTTTTAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
68265 GCTCCTCTAAACAGAGGCA--ACGGACTTTGGAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCAC-GACTTTGGAAAGTAAATT
*
68305 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGG-AAAGTAAATT
*
68347 GCTCCTTTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
* * *
68388 GCTCATCTAAACAGAGGCACCACGACTTTGGAAATTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
68429 GTTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
68470 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGG-AAAGTAAATT
* *
68512 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAATTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
68553 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
* *
68594 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAATTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
68635 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
68676 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGG-AAAGTAAATT
* *
68718 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAATTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
68759 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
* *
68800 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
* * *
68841 GCTCCTCTCAACAGAGGTACCACGACTTTGAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
* *
68882 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
68923 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGG-AAAGTAAATT
* *
68965 GCTCCTCTCAACAGAGGTACCACGACTTTGGAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
69006 GCTCCTCTAAACAGAGGCA
1 GCTCCTCTCAACAGAGGCA
69025 ACGAAACTTT
Statistics
Matches: 707, Mismatches: 46, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.00
40 34 0.05
41 512 0.72
42 159 0.22
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (41 bp):
GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:68504 original size:165 final size:165
Alignment explanation
Indices: 68224--69024 Score: 1306
Period size: 165 Copynumber: 4.9 Consensus size: 165
68214 TTTTGCCGAA
* * * * ** *
68224 GCTCCTCTGAACAGAGACTCAACGACTTTTAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCAC-
68287 GACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCC
65 GACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCC
* *
68352 TTTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
130 TCTCAACAGAGGCACCACGACTTTGGAAAATAAATT
* * *
68388 GCTCATCTAAACAGAGGCACCACGACTTTGGAAATTAAATTGTTCCTCTCAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
68453 ACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCT
66 ACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCT
* *
68518 CTAAACAGAGGCACCACGACTTTGGAAATTAAATT
131 CTCAACAGAGGCACCACGACTTTGGAAAATAAATT
* *
68553 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
* *
68618 ACTTTGGAAATTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGG-AAAGTAAATTGCTCCT
66 ACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCT
68682 CTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
131 CTCAACAGAGGCACCACGACTTTGG-AAAATAAATT
*
68718 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAATTAAATTGCTCCTCTCAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
* *
68783 ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCT
66 ACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCT
* *
68847 CTCAACAGAGGTACCACGACTTTGAAAAATAAATT
131 CTCAACAGAGGCACCACGACTTTGGAAAATAAATT
*
68882 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
*
68947 ACTTTGGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACGACTTTGG-AAAATAAATTGCTCC
66 ACTTTGG-AAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCC
*
69011 TCTAAACAGAGGCA
130 TCTCAACAGAGGCA
69025 ACGAAACTTT
Statistics
Matches: 595, Mismatches: 36, Indels: 11
0.93 0.06 0.02
Matches are distributed among these distances:
164 170 0.29
165 422 0.71
166 3 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (165 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
ACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCT
CTCAACAGAGGCACCACGACTTTGGAAAATAAATT
Found at i:68586 original size:206 final size:207
Alignment explanation
Indices: 68224--69044 Score: 1343
Period size: 206 Copynumber: 4.0 Consensus size: 207
68214 TTTTGCCGAA
* * * * *
68224 GCTCCTCTGAACAGAGACTCAACGACTTTTAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC-
* * *
68287 GACTTTGG-AAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTC
65 GACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATTAAATTGCTC
* *
68351 CTTTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCATCTAAACAGAGGCACCACGACTT
130 CTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTT
68416 TGGAAATTAAATT
195 TGGAAATTAAATT
* * *
68429 GTTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
68494 ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGG-AAATTAAATTGCTCC
66 ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATTAAATTGCTCC
68558 TCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT
131 TCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT
68623 GGAAATTAAATT
196 GGAAATTAAATT
* *
68635 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
68700 ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGG-AAATTAAATTGCTCC
66 ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATTAAATTGCTCC
68764 TCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT
131 TCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT
* *
68829 GAAAAGTAAATT
196 GGAAATTAAATT
* *
68841 GCTCCTCTCAACAGAGGTACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* * *
68906 ACTTT-GAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCC
66 ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATTAAATTGCTCC
* *
68970 TCTCAACAGAGGTACCACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCA--ACGAAACT
131 TCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG--ACT
69033 TTGGAAATTAAA
194 TTGGAAATTAAA
69045 AGGCTCCTTG
Statistics
Matches: 583, Mismatches: 27, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
204 3 0.01
205 93 0.16
206 446 0.77
207 41 0.07
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (207 bp):
GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATTAAATTGCTCC
TCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT
GGAAATTAAATT
Found at i:70245 original size:8 final size:8
Alignment explanation
Indices: 70210--70268 Score: 57
Period size: 8 Copynumber: 7.1 Consensus size: 8
70200 TCAATTTGAA
70210 TCTTTTTCT
1 TCTTTTT-T
* *
70219 TCATTTTC
1 TCTTTTTT
70227 TCATTTCTTT
1 TC-TTT-TTT
70237 TCTTTTTT
1 TCTTTTTT
70245 TCTTTTTT
1 TCTTTTTT
*
70253 T-TTTTTG
1 TCTTTTTT
70260 TCTTTTTT
1 TCTTTTTT
70268 T
1 T
70269 TCATTTTTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
7 6 0.15
8 20 0.49
9 11 0.27
10 4 0.10
ACGTcount: A:0.03, C:0.15, G:0.02, T:0.80
Consensus pattern (8 bp):
TCTTTTTT
Found at i:70248 original size:13 final size:12
Alignment explanation
Indices: 70230--70276 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
70220 CATTTTCTCA
70230 TTTCTTTTCTTTT
1 TTTCTTTT-TTTT
70243 TTTCTTTTTTTT
1 TTTCTTTTTTTT
*
70255 TTT-TGTCTTTTT
1 TTTCT-TTTTTTT
70267 TTTCATTTTT
1 TTTC-TTTTT
70277 CATCTATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 1 0.03
12 16 0.55
13 11 0.38
14 1 0.03
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:70257 original size:15 final size:15
Alignment explanation
Indices: 70234--70269 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
70224 TTCTCATTTC
*
70234 TTTTCTTTTTT-TCT
1 TTTTTTTTTTTGTCT
70248 TTTTTTTTTTTGTCT
1 TTTTTTTTTTTGTCT
70263 TTTTTTT
1 TTTTTTT
70270 CATTTTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (15 bp):
TTTTTTTTTTTGTCT
Found at i:70666 original size:1 final size:1
Alignment explanation
Indices: 70660--70687 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
70650 TTTTGTGGTG
70660 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
70688 CAAAAATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:74261 original size:156 final size:156
Alignment explanation
Indices: 73967--74261 Score: 520
Period size: 156 Copynumber: 1.9 Consensus size: 156
73957 GTTAGTTGTT
73967 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAG
*
74032 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
* *
74097 CAAGATCAACCAATTAATTAATTATC
131 AAAAATCAACCAATTAATTAATTATC
*
74123 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAG
* *
74188 AGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
66 AGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
74253 -AAAAATCAA
130 TAAAAATCAA
74262 GATCAAAATC
Statistics
Matches: 132, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
156 92 0.70
157 40 0.30
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (156 bp):
GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAG
AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
AAAAATCAACCAATTAATTAATTATC
Found at i:74344 original size:5 final size:5
Alignment explanation
Indices: 74334--74366 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
74324 GCTCGGATCG
74334 CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGG
1 CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGG
74367 AGGGGCTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.39, G:0.42, T:0.18
Consensus pattern (5 bp):
CGGCT
Found at i:77144 original size:15 final size:15
Alignment explanation
Indices: 77121--77173 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
77111 ACTATGCTTG
77121 AAAAAAAATAAAAA-
1 AAAAAAAATAAAAAT
77135 AAATAAAAATGAGAAAAT
1 AAA-AAAAAT-A-AAAAT
*
77153 GAAAAAAATAAAAAT
1 AAAAAAAATAAAAAT
77168 GAAAAA
1 -AAAAA
77174 TGAAAAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 3 0.09
15 11 0.34
16 6 0.19
17 10 0.31
18 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (15 bp):
AAAAAAAATAAAAAT
Found at i:77151 original size:14 final size:13
Alignment explanation
Indices: 77133--77183 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 13
77123 AAAAAATAAA
77133 AAAAAT-AAAAAT
1 AAAAATGAAAAAT
77145 GAGAAAATGAAAAAAAT
1 -A-AAAATG--AAAAAT
77162 AAAAATGAAAAAT
1 AAAAATGAAAAAT
77175 GAAAAATGA
1 -AAAAATGA
77184 TGAAAAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
13 7 0.21
14 13 0.39
15 6 0.18
16 1 0.03
17 6 0.18
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.14
Consensus pattern (13 bp):
AAAAATGAAAAAT
Found at i:77208 original size:9 final size:8
Alignment explanation
Indices: 77139--77219 Score: 80
Period size: 8 Copynumber: 10.1 Consensus size: 8
77129 TAAAAAAAAT
77139 AAAAATGA
1 AAAAATGA
*
77147 GAAAATGA
1 AAAAATGA
77155 AAAAA--A
1 AAAAATGA
77161 TAAAAATG-
1 -AAAAATGA
77169 AAAAATGA
1 AAAAATGA
77177 AAAATGATGA
1 AAAA--ATGA
77187 AAAAATGA
1 AAAAATGA
77195 AAAAATGGA
1 AAAAAT-GA
77204 AAAAA-GA
1 AAAAATGA
*
77211 AAAAGTGA
1 AAAAATGA
77219 A
1 A
77220 TGAAAAAAGG
Statistics
Matches: 62, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
6 1 0.02
7 18 0.29
8 28 0.45
9 7 0.11
10 8 0.13
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (8 bp):
AAAAATGA
Found at i:77225 original size:18 final size:18
Alignment explanation
Indices: 77165--77226 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 18
77155 AAAAAATAAA
77165 AATGAAAAATGAAAAATG
1 AATGAAAAATGAAAAATG
77183 -ATGAAAAAATG-AAAA--
1 AATG-AAAAATGAAAAATG
*
77198 AATGGAAAAAAGAAAAAGTG
1 AAT-GAAAAATGAAAAA-TG
77218 AATGAAAAA
1 AATGAAAAA
77227 AGGAAGGACT
Statistics
Matches: 36, Mismatches: 1, Indels: 13
0.72 0.02 0.26
Matches are distributed among these distances:
16 8 0.22
17 12 0.33
18 7 0.19
19 6 0.17
20 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (18 bp):
AATGAAAAATGAAAAATG
Done.