Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 116 of 121
Found at i:19911296 original size:30 final size:30
Alignment explanation
Indices: 19911260--19911327 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
19911250 GTTTTCAAAC
*
19911260 TAAATTTTTTTATTTTTTATTAT-AATCAGT
1 TAAATTTTTTTA-TTTTTATTATAAATCAAT
* *
19911290 TAAA-TTTTTTATTTTTATTTTAAATTAAT
1 TAAATTTTTTTATTTTTATTATAAATCAAT
19911319 TAAATTTTT
1 TAAATTTTT
19911328 AAATATTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 9 0.27
29 16 0.48
30 8 0.24
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (30 bp):
TAAATTTTTTTATTTTTATTATAAATCAAT
Found at i:19911339 original size:30 final size:29
Alignment explanation
Indices: 19911266--19911357 Score: 80
Period size: 30 Copynumber: 3.2 Consensus size: 29
19911256 AAACTAAATT
* * * *
19911266 TTTTTATTTTTTATTATAA-TCAGTTAAA
1 TTTTTAATATTTATTTTAATTCAATTAAA
* *
19911294 TTTTTTATTTTTATTTTAAATT-AATTAAA
1 TTTTTAATATTTATTTT-AATTCAATTAAA
*
19911323 TTTTTAAATATTTATTTTCATTCAATTAAA
1 TTTTT-AATATTTATTTTAATTCAATTAAA
*
19911353 CTTTT
1 TTTTT
19911358 GATTGAACAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
28 14 0.27
29 16 0.31
30 22 0.42
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (29 bp):
TTTTTAATATTTATTTTAATTCAATTAAA
Found at i:19913794 original size:21 final size:21
Alignment explanation
Indices: 19913752--19913794 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
19913742 TTTAAAAGAC
19913752 TTCATGAAGTTATGATTGTTA
1 TTCATGAAGTTATGATTGTTA
*
19913773 TTCATTGAAGTTGTGATT-TTA
1 TTCA-TGAAGTTATGATTGTTA
19913794 T
1 T
19913795 ATCTGATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.26, C:0.05, G:0.19, T:0.51
Consensus pattern (21 bp):
TTCATGAAGTTATGATTGTTA
Found at i:19919355 original size:17 final size:17
Alignment explanation
Indices: 19919333--19919372 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
19919323 TTAATTTTTT
19919333 AAATATAAAAAAATTTA
1 AAATATAAAAAAATTTA
* *
19919350 AAATATAATATAATTTA
1 AAATATAAAAAAATTTA
*
19919367 ATATAT
1 AAATAT
19919373 TTTATTATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATAAAAAAATTTA
Found at i:19926519 original size:12 final size:12
Alignment explanation
Indices: 19926502--19926559 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
19926492 TGTTGTTATT
19926502 TATTTA-ATTTCA
1 TATTTATATTT-A
19926514 TATTTATATTTA
1 TATTTATATTTA
*
19926526 TATATTTTA-TT-
1 TAT-TTATATTTA
19926537 TATTTA-ATTTA
1 TATTTATATTTA
*
19926548 TAATTATATTTA
1 TATTTATATTTA
19926560 AAAATAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
9 1 0.03
10 4 0.11
11 8 0.21
12 17 0.45
13 8 0.21
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (12 bp):
TATTTATATTTA
Found at i:19926574 original size:35 final size:35
Alignment explanation
Indices: 19926498--19926571 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
19926488 TATTTGTTGT
* * * **
19926498 TATTTATTTAATTTCATATTTATATTTATATATTT
1 TATTTATTTAATTTCATAATTATATTTAAAAATAA
19926533 TATTTATTTAATTT-ATAATTATATTTAAAAATAA
1 TATTTATTTAATTTCATAATTATATTTAAAAATAA
19926567 TATTT
1 TATTT
19926572 TATATAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 20 0.59
35 14 0.41
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (35 bp):
TATTTATTTAATTTCATAATTATATTTAAAAATAA
Found at i:19926588 original size:17 final size:18
Alignment explanation
Indices: 19926558--19926591 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19926548 TAATTATATT
*
19926558 TAAAAATAATATTTTATA
1 TAAAAATAAGATTTTATA
19926576 TAAAAA-AAGATTTTAT
1 TAAAAATAAGATTTTAT
19926592 TAATCTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
TAAAAATAAGATTTTATA
Found at i:19930560 original size:15 final size:15
Alignment explanation
Indices: 19930540--19930568 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19930530 AAATTCGAAT
19930540 TTAAAAATTTTTTTG
1 TTAAAAATTTTTTTG
19930555 TTAAAAATTTTTTT
1 TTAAAAATTTTTTT
19930569 TATTAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTAAAAATTTTTTTG
Found at i:19930566 original size:16 final size:15
Alignment explanation
Indices: 19930540--19930574 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
19930530 AAATTCGAAT
*
19930540 TTAAAAATTTTTTTG
1 TTAAAAATTTTTTTA
19930555 TTAAAAATTTTTTTTA
1 TTAAAAA-TTTTTTTA
19930571 TTAA
1 TTAA
19930575 TTAAACTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TTAAAAATTTTTTTA
Found at i:19931776 original size:28 final size:28
Alignment explanation
Indices: 19931727--19931795 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
19931717 ATGAATTACT
*
19931727 TTTAAATTATAATAAAATTTTTAATATTATA
1 TTTAAATT-TAA-AAAA-TTTTAACATTATA
*
19931758 TTTAATTTTAAAAAATTTTAACATTATA
1 TTTAAATTTAAAAAATTTTAACATTATA
19931786 TTTAAATTTA
1 TTTAAATTTA
19931796 TTAATTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.60
29 4 0.11
30 3 0.09
31 7 0.20
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (28 bp):
TTTAAATTTAAAAAATTTTAACATTATA
Found at i:19931914 original size:27 final size:29
Alignment explanation
Indices: 19931865--19931921 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
19931855 TTAAATTCAT
*
19931865 AATTTATATATTACATTACAAAT-TTTTAA
1 AATTTATATATCACATTA-AAATATTTTAA
*
19931894 AATTTATATATCATATT-AAATATTTTAA
1 AATTTATATATCACATTAAAATATTTTAA
19931922 TATAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 6 0.24
29 15 0.60
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (29 bp):
AATTTATATATCACATTAAAATATTTTAA
Found at i:19937655 original size:27 final size:27
Alignment explanation
Indices: 19937625--19937681 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
19937615 TCATCATCAT
19937625 TTGGATGAAACTGCCCAAAACTCAAGG
1 TTGGATGAAACTGCCCAAAACTCAAGG
*
19937652 TTGGATGAAACTGTCCAAAACTCAAGG
1 TTGGATGAAACTGCCCAAAACTCAAGG
19937679 TTG
1 TTG
19937682 TCGTTACTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (27 bp):
TTGGATGAAACTGCCCAAAACTCAAGG
Found at i:19941316 original size:6 final size:6
Alignment explanation
Indices: 19941302--19941365 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
19941292 TTATATTGTA
* ** * *
19941302 TTATAT TTATTT TTATAT TTATAT TTA-AT AAATATT TTAAAT TTAAAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATA-T TTATAT TTATAT
*
19941350 TTATTT TTAT-T TTATA
1 TTATAT TTATAT TTATA
19941366 AGTATTCAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
5 8 0.17
6 35 0.76
7 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TTATAT
Found at i:19941489 original size:17 final size:17
Alignment explanation
Indices: 19941467--19941500 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19941457 TACATTTAAT
*
19941467 TAATTTTTTTATAAATA
1 TAATTTTTTTAAAAATA
19941484 TAATTTTTTTAAAAATA
1 TAATTTTTTTAAAAATA
19941501 CAAATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATTTTTTTAAAAATA
Found at i:19944781 original size:24 final size:23
Alignment explanation
Indices: 19944754--19944798 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
19944744 ATTTATACCG
19944754 TTTTAAGATATTATTCATTTTGAT
1 TTTTAAGATATTATT-ATTTTGAT
** *
19944778 TTTTTTGATCTTATTATTTTG
1 TTTTAAGATATTATTATTTTG
19944799 TTTAATAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.22, C:0.04, G:0.09, T:0.64
Consensus pattern (23 bp):
TTTTAAGATATTATTATTTTGAT
Found at i:19945608 original size:31 final size:32
Alignment explanation
Indices: 19945561--19945659 Score: 89
Period size: 31 Copynumber: 3.1 Consensus size: 32
19945551 TATGGCATAA
19945561 AATATTAAAAATTTATATATTTAT-A-TTATATTT
1 AATA-TAAAAA-TTATATATTTATAATTTATA-TT
* *
19945594 TATATAAAAATTATAT-GTTATAATTTATATT
1 AATATAAAAATTATATATTTATAATTTATATT
* *
19945625 AATATAAAAATATATAATATTTTTTATTT-TATT
1 AATATAAAAAT-TAT-ATATTTATAATTTATATT
19945658 AA
1 AA
19945660 ATTTATTTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
30 4 0.07
31 19 0.35
32 14 0.25
33 11 0.20
34 7 0.13
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (32 bp):
AATATAAAAATTATATATTTATAATTTATATT
Found at i:19945702 original size:23 final size:23
Alignment explanation
Indices: 19945676--19945722 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
19945666 TTATAATTTT
19945676 TATTAAAATTTTAAATTATATTA
1 TATTAAAATTTTAAATTATATTA
* ** *
19945699 TATTTATTTTTTTAATTATATTA
1 TATTAAAATTTTAAATTATATTA
19945722 T
1 T
19945723 TTTATATCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTAAAATTTTAAATTATATTA
Found at i:19945702 original size:57 final size:57
Alignment explanation
Indices: 19945601--19945722 Score: 133
Period size: 57 Copynumber: 2.1 Consensus size: 57
19945591 TTTTATATAA
19945601 AAATTATATGTTATAATTTATATTAATATAAAAATATATAATATTT-TTTATTTTATT
1 AAATTATATGTTATAATTTATATTAATATAAAAATATATAATATTTATTT-TTTTATT
* * * * *
19945658 AAATT-TAT-TTATAATTTTTATTAAAATTTTAAATTATATTATATTTATTTTTTTAATT
1 AAATTATATGTTATAATTTATATT--AATATAAAAATATATAATATTTATTTTTTT-ATT
*
19945716 ATATTAT
1 AAATTAT
19945723 TTTATATCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
55 13 0.24
56 3 0.06
57 27 0.50
58 10 0.19
59 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (57 bp):
AAATTATATGTTATAATTTATATTAATATAAAAATATATAATATTTATTTTTTTATT
Found at i:19948080 original size:9 final size:10
Alignment explanation
Indices: 19948057--19948091 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
19948047 GAATGATAAG
19948057 TTTTTATTAA
1 TTTTTATTAA
19948067 TTTTTATTAA
1 TTTTTATTAA
19948077 TTTTTA--AA
1 TTTTTATTAA
19948085 TTTTTAT
1 TTTTTAT
19948092 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
10 16 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTATTAA
Found at i:19948088 original size:8 final size:9
Alignment explanation
Indices: 19948052--19948093 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
19948042 AAAATGAATG
19948052 ATAAGTTTTT
1 ATAA-TTTTT
19948062 ATTAATTTTT
1 A-TAATTTTT
19948072 ATTAATTTTT
1 A-TAATTTTT
19948082 A-AATTTTT
1 ATAATTTTT
19948090 ATAA
1 ATAA
19948094 AATAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.27
9 2 0.07
10 17 0.57
11 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:19956576 original size:12 final size:13
Alignment explanation
Indices: 19956552--19956583 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
19956542 CGCCACTGAC
19956552 TTGGTTT-TTTGT
1 TTGGTTTGTTTGT
19956564 TT-GTTTGTTTGT
1 TTGGTTTGTTTGT
19956576 TTGGTTTG
1 TTGGTTTG
19956584 GCTCCAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 9 0.50
13 5 0.28
ACGTcount: A:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (13 bp):
TTGGTTTGTTTGT
Found at i:19956921 original size:17 final size:17
Alignment explanation
Indices: 19956899--19956935 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
19956889 ATTTAATAAA
19956899 AAATATTATAAAATTTT
1 AAATATTATAAAATTTT
*
19956916 AAATATTTTAAAATTTT
1 AAATATTATAAAATTTT
19956933 AAA
1 AAA
19956936 CTTTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATATTATAAAATTTT
Found at i:19956929 original size:10 final size:9
Alignment explanation
Indices: 19956899--19956935 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
19956889 ATTTAATAAA
*
19956899 AAATATTAT
1 AAATATTTT
19956908 AAA-ATTTT
1 AAATATTTT
19956916 AAATATTTT
1 AAATATTTT
19956925 AAA-ATTTT
1 AAATATTTT
19956933 AAA
1 AAA
19956936 CTTTTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 15 0.58
9 11 0.42
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
AAATATTTT
Found at i:19956931 original size:8 final size:8
Alignment explanation
Indices: 19956907--19956942 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
19956897 AAAAATATTA
19956907 TAAAATTT
1 TAAAATTT
19956915 TAAATATTT
1 TAAA-ATTT
19956924 TAAAATTT
1 TAAAATTT
*
19956932 TAAACTTT
1 TAAAATTT
19956940 TAA
1 TAA
19956943 TTTAAGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (8 bp):
TAAAATTT
Found at i:19956996 original size:14 final size:15
Alignment explanation
Indices: 19956971--19956999 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19956961 AATTTAATAA
19956971 TAAAACTATAAATTT
1 TAAAACTATAAATTT
19956986 TAAAA-TATAAATTT
1 TAAAACTATAAATTT
19957000 CATAGAATAA
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:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAAACTATAAATTT
Found at i:19957070 original size:13 final size:13
Alignment explanation
Indices: 19957052--19957087 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
19957042 TTTTATTTTT
19957052 TATTAATTTTATA
1 TATTAATTTTATA
19957065 TATTAATTTTATA
1 TATTAATTTTATA
*
19957078 -ATTATTTTTA
1 TATTAATTTTA
19957088 ATTTTGGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTAATTTTATA
Found at i:19959990 original size:28 final size:27
Alignment explanation
Indices: 19959930--19959990 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
19959920 ATTTAAAAAA
***
19959930 TTATAAAATATTTATAATCTATTATAT
1 TTATAAAATATTTATAAAAAATTATAT
*
19959957 TATATAAAATATTTATAAAAAAATTATCT
1 T-TATAAAATATTTAT-AAAAAATTATAT
19959986 TTATA
1 TTATA
19959991 GATGATATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.04
28 18 0.64
29 9 0.32
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (27 bp):
TTATAAAATATTTATAAAAAATTATAT
Found at i:19977724 original size:11 final size:11
Alignment explanation
Indices: 19977689--19977741 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
19977679 TGCAACTTCC
19977689 AATTTAATTT-
1 AATTTAATTTA
*
19977699 AATTTATTTTTTA
1 AATTTA--ATTTA
19977712 AATTTAATTTA
1 AATTTAATTTA
*
19977723 AATTAAATTTA
1 AATTTAATTTA
19977734 AATATTAA
1 AAT-TTAA
19977742 ATATATACAG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 6 0.17
11 17 0.49
12 6 0.17
13 6 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
AATTTAATTTA
Found at i:19984048 original size:8 final size:8
Alignment explanation
Indices: 19984015--19984065 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
19984005 AGGTGTAACC
19984015 ATATACAT
1 ATATACAT
*
19984023 ACATACAT
1 ATATACAT
*
19984031 ACATAC--
1 ATATACAT
19984037 ATATACAT
1 ATATACAT
*
19984045 ATATATAT
1 ATATACAT
*
19984053 ATATATAT
1 ATATACAT
19984061 ATATA
1 ATATA
19984066 TGATAGATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 5 0.13
8 33 0.87
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATACAT
Found at i:19984050 original size:2 final size:2
Alignment explanation
Indices: 19984037--19984078 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
19984027 ACATACATAC
* *
19984037 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT GAT AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT A
19984079 GTATTTAGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (2 bp):
AT
Found at i:19984052 original size:12 final size:12
Alignment explanation
Indices: 19984015--19984065 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
19984005 AGGTGTAACC
*
19984015 ATATACATACAT
1 ATATACATATAT
* *
19984027 ACATAC--ATAC
1 ATATACATATAT
19984037 ATATACATATAT
1 ATATACATATAT
*
19984049 ATATATATATAT
1 ATATACATATAT
19984061 ATATA
1 ATATA
19984066 TGATAGATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 7 0.23
12 24 0.77
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (12 bp):
ATATACATATAT
Found at i:19985141 original size:13 final size:14
Alignment explanation
Indices: 19985117--19985145 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19985107 ACTTTGGCTT
19985117 AATTCAAAAGTATG
1 AATTCAAAAGTATG
19985131 AATTC-AAAGTATG
1 AATTCAAAAGTATG
19985144 AA
1 AA
19985146 ACTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
AATTCAAAAGTATG
Found at i:19985271 original size:24 final size:24
Alignment explanation
Indices: 19985238--19985298 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
19985228 TGATAATTTA
* * ** *
19985238 AAATACGATACGATAATACGACAT
1 AAATATGATACGAAAATAAAACAC
19985262 AAATATGATACGAAAATAAAACAC
1 AAATATGATACGAAAATAAAACAC
*
19985286 AAATATGACACGA
1 AAATATGATACGA
19985299 CTTAAAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.56, C:0.15, G:0.11, T:0.18
Consensus pattern (24 bp):
AAATATGATACGAAAATAAAACAC
Found at i:19987570 original size:2 final size:2
Alignment explanation
Indices: 19987563--19987593 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19987553 AGGAGATTGT
19987563 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19987594 GACTCACTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19988943 original size:2 final size:2
Alignment explanation
Indices: 19988938--19988964 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19988928 GAAGTCTGTG
19988938 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
19988965 GTATGTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19992074 original size:22 final size:22
Alignment explanation
Indices: 19992038--19992095 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
19992028 AAAATATAAA
* *
19992038 TTATATATTTTTTATTAAA-TT
1 TTATATAATTATTATTAAAGTT
19992059 TATATATAATTATTATTAAAGTT
1 T-TATATAATTATTATTAAAGTT
*
19992082 TTAAATAA-TATTAT
1 TTATATAATTATTAT
19992096 GTTTATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 7 0.22
22 22 0.69
23 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATATAATTATTATTAAAGTT
Found at i:19992111 original size:18 final size:18
Alignment explanation
Indices: 19992089--19992132 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
19992079 GTTTTAAATA
19992089 ATATTATGTTTATA-TATT
1 ATATTAT-TTTATATTATT
*
19992107 TTATTTATTTTATATTATT
1 ATA-TTATTTTATATTATT
19992126 ATATTAT
1 ATATTAT
19992133 ATTTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
ATATTATTTTATATTATT
Found at i:19992293 original size:15 final size:15
Alignment explanation
Indices: 19992273--19992306 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19992263 ATTTTTGTAA
19992273 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
* *
19992288 AAAAAAGAAAGAAAG
1 AAAAAAAAAAAAAAG
19992303 AAAA
1 AAAA
19992307 TCCTTGCAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:19994422 original size:25 final size:25
Alignment explanation
Indices: 19994365--19994422 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
19994355 CATTGTCGGA
19994365 TAAAAATTTTCTTTTCTTATAATTT
1 TAAAAATTTTCTTTTCTTATAATTT
** * *
19994390 TACTAATTTT-TTTTATTTTTAATTT
1 TAAAAATTTTCTTTT-CTTATAATTT
19994415 TAAAAATT
1 TAAAAATT
19994423 CAGCAAAGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (25 bp):
TAAAAATTTTCTTTTCTTATAATTT
Found at i:19995608 original size:366 final size:366
Alignment explanation
Indices: 19994927--19995633 Score: 1261
Period size: 366 Copynumber: 1.9 Consensus size: 366
19994917 TTCCTTCTTC
*
19994927 CCTCTCTCTCTTTCCCAGACTCTCTCTCTAACTTTAGTTGGTCGTCGCTACTTCCAAAATTTAAC
1 CCTCTCTCTCTTTCCCAGACTCTCTCTCTAACTTTAGTTGGCCGTCGCTACTTCCAAAATTTAAC
* *
19994992 ATCGATGCGTTGTGTCGTCCATCGATTGCCGTCGTTATCTGCCAATCATCGATTGTTGAAAAACC
66 ATCGATGCGTTGTGTCGTCCATCGATTACCGTCGTCATCTGCCAATCATCGATTGTTGAAAAACC
*
19995057 CATAAACTTCAAAAAATCTTCATTTCAACCCTTTAAATTCATATCCGAACTTAATTTTGTGTGAA
131 CATAAACTTCAAAAAATCTTCATTTCAACCCTTTAAATTCATATCCAAACTTAATTTTGTGTGAA
* * * * *
19995122 ACGATCTCAAACTATGTAGATTGAGGCTCAAGTTACGGTCAAAGTTTTTTTGTGTTTTTTTTTAA
196 ACGATCTCAAACTACGTAGATTGAGGCCCAAGTTACAGCCAAAGTTTTTTTGTATTTTTTTTTAA
*
19995187 AGGCTCTAAAATTCTCGCTACCAAAGATTGAGTTTCTTCATGTTTGTGTTTTTTTTTTAATTTTT
261 AGGCTCTAAAATTCTCGCTACCAAAGATTGAGTTTCTTCATGTTTGTGTTTTTTTTTTAATATTT
19995252 TTGTTTGGTATTTTTAAAGGCTCTAAAATTCTCGCTACTTT
326 TTGTTTGGTATTTTTAAAGGCTCTAAAATTCTCGCTACTTT
* * *
19995293 CCTCTCTCTCTTTCCCGGACTCTCTCTCTAACTTTAGTTGGCCGTCGTTACTTTCAAAATTTAAC
1 CCTCTCTCTCTTTCCCAGACTCTCTCTCTAACTTTAGTTGGCCGTCGCTACTTCCAAAATTTAAC
* *
19995358 ATCGATGCGTTGTGTCGTTCATCGATTACCGTCGTCATCTGCCAATCGTCGATTGTTGAAAAACC
66 ATCGATGCGTTGTGTCGTCCATCGATTACCGTCGTCATCTGCCAATCATCGATTGTTGAAAAACC
19995423 CATAAACTTCAAAAAATCTTCATTTCAACCCTTTAAATTCATATCCAAACTTAATTTTGTGTGAA
131 CATAAACTTCAAAAAATCTTCATTTCAACCCTTTAAATTCATATCCAAACTTAATTTTGTGTGAA
19995488 ACGATCTCAAACTACGTAGATTGAGGCCCAAGTTACAGCCAAAGTTTTTTTTGTATTTTTTTTTA
196 ACGATCTCAAACTACGTAGATTGAGGCCCAAGTTACAGCCAAAG-TTTTTTTGTATTTTTTTTTA
*
19995553 AAGGCTCTAAAATTTTCGCTACCAAAGATTGAGTTTCTTCATGTTTGTGTTTTTTTTTTAATATT
260 AAGGCTCTAAAATTCTCGCTACCAAAGATTGAGTTTCTTCATGTTTGTGTTTTTTTTTTAATATT
19995618 TTTGTTTGGTATTTTT
325 TTTGTTTGGTATTTTT
19995634 GGGTTTTTTT
Statistics
Matches: 324, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
366 226 0.70
367 98 0.30
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (366 bp):
CCTCTCTCTCTTTCCCAGACTCTCTCTCTAACTTTAGTTGGCCGTCGCTACTTCCAAAATTTAAC
ATCGATGCGTTGTGTCGTCCATCGATTACCGTCGTCATCTGCCAATCATCGATTGTTGAAAAACC
CATAAACTTCAAAAAATCTTCATTTCAACCCTTTAAATTCATATCCAAACTTAATTTTGTGTGAA
ACGATCTCAAACTACGTAGATTGAGGCCCAAGTTACAGCCAAAGTTTTTTTGTATTTTTTTTTAA
AGGCTCTAAAATTCTCGCTACCAAAGATTGAGTTTCTTCATGTTTGTGTTTTTTTTTTAATATTT
TTGTTTGGTATTTTTAAAGGCTCTAAAATTCTCGCTACTTT
Found at i:19996369 original size:13 final size:12
Alignment explanation
Indices: 19996347--19996376 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
19996337 AAAATGTGCC
19996347 AAAAAAGAAAAA
1 AAAAAAGAAAAA
19996359 AAAAGAAGAAAAA
1 AAAA-AAGAAAAA
19996372 AAAAA
1 AAAAA
19996377 GTGTTTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAA
Found at i:20009715 original size:14 final size:14
Alignment explanation
Indices: 20009694--20009728 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
20009684 AATTCAAAGG
20009694 ATGAAAGAAGATAAA
1 ATGAAAGAA-ATAAA
20009709 A-GAAAGAAATAAA
1 ATGAAAGAAATAAA
20009722 ATGAAAG
1 ATGAAAG
20009729 TTTCACAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.32
14 12 0.63
15 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (14 bp):
ATGAAAGAAATAAA
Found at i:20011199 original size:30 final size:30
Alignment explanation
Indices: 20011160--20011218 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
20011150 TTATTTATTT
* * *
20011160 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
20011190 ATATTTATATTTAAAAAATAATATTTTTA
1 ATATATATATTTAAAAAATAATATTTTTA
20011219 TTAATTTCGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:20011433 original size:6 final size:7
Alignment explanation
Indices: 20011414--20011440 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
20011404 TTAAAATATA
20011414 TATTTTT
1 TATTTTT
20011421 TATTTTT
1 TATTTTT
20011428 TATTTTT
1 TATTTTT
20011435 TATTTT
1 TATTTT
20011441 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:20011459 original size:35 final size:35
Alignment explanation
Indices: 20011393--20011460 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
20011383 GGGGATTGCG
* * **
20011393 TATTTTTTATTTTAAAATATATATTTTTTATTTTT
1 TATTTTTTATTTTAAAAAAAATATTAATTATTTTT
20011428 TATTTTTTATTTTAATAAAAAATA-TAATTATTT
1 TATTTTTTATTTTAA-AAAAAATATTAATTATTT
20011461 AATTCATTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 22 0.79
36 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (35 bp):
TATTTTTTATTTTAAAAAAAATATTAATTATTTTT
Found at i:20012210 original size:83 final size:83
Alignment explanation
Indices: 20012117--20012269 Score: 270
Period size: 83 Copynumber: 1.8 Consensus size: 83
20012107 GTAAAATGGT
**
20012117 ATTATAATAATTTTAAATAATTATAAAAAAAGTCGTAATCATAATAGATGTGTATTATTATAATA
1 ATTATAATAATTTTAAATAATTATAAAAAAAGTCGTAATCATAATAGAAATGTATTATTATAATA
20012182 AATTAGGGCACTTGTGAA
66 AATTAGGGCACTTGTGAA
* *
20012200 ATTATAATAATTTTAAATAATTATAAAAAAATTCGTAATTATAATAGAAATGTATTATTATAATA
1 ATTATAATAATTTTAAATAATTATAAAAAAAGTCGTAATCATAATAGAAATGTATTATTATAATA
20012265 AATTA
66 AATTA
20012270 CACACTTGTC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 66 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.39
Consensus pattern (83 bp):
ATTATAATAATTTTAAATAATTATAAAAAAAGTCGTAATCATAATAGAAATGTATTATTATAATA
AATTAGGGCACTTGTGAA
Found at i:20012954 original size:27 final size:27
Alignment explanation
Indices: 20012924--20013015 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 27
20012914 TTTGTGCAGG
20012924 AAAAATTGATACTTTCAACTTTTTCTC
1 AAAAATTGATACTTTCAACTTTTTCTC
* ** * * *
20012951 AAAAATTTATTTTTTGAAAACTTATTTTTA
1 AAAAATTGATACTTT--CAACTT-TTTCTC
*
20012981 AGGAAAATTGATACTTTCAACTTTTCCTC
1 A--AAAATTGATACTTTCAACTTTTTCTC
20013010 AAAAAT
1 AAAAAT
20013016 CCCTTTGAAA
Statistics
Matches: 47, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
27 17 0.36
29 9 0.19
30 10 0.21
32 11 0.23
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.43
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTTCTC
Found at i:20013119 original size:57 final size:57
Alignment explanation
Indices: 20012923--20013327 Score: 404
Period size: 56 Copynumber: 6.9 Consensus size: 57
20012913 TTTTGTGCAG
* * *
20012923 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATTTATTTTTTGAAAACTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTGAAAATTTAATTTTAA
* *** *
20012982 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-CCCTTTGAAAAATT-ATCTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTAAT-TTTAA
** **
20013038 GGGAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTGAAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAA-TTTAATTTTAA
* * *
20013095 GAAAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAA-----ATATTTTTTGAAAATTTAATTTTAA
* * *
20013157 GAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAACTTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCT---CAAAAA-TATTTTTTGAAAATTTAATTTTAA
* * * **
20013218 GAAAAATTGATATTTTCAACTTTTTCTC-AAAATATTTTTTGGAAACTTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-GAAA-ATTTAATTTTAA
* *
20013276 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTGAAAATTTA
20013328 TTTAAAAAGA
Statistics
Matches: 291, Mismatches: 36, Indels: 38
0.80 0.10 0.10
Matches are distributed among these distances:
55 8 0.03
56 55 0.19
57 38 0.13
58 40 0.14
59 40 0.14
60 4 0.01
61 55 0.19
62 35 0.12
63 12 0.04
65 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.44
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTAATTTTAA
Found at i:20013343 original size:119 final size:114
Alignment explanation
Indices: 20012925--20013330 Score: 417
Period size: 119 Copynumber: 3.5 Consensus size: 114
20012915 TTGTGCAGGA
* * * *
20012925 AAAATTGATACTTTCAACTTTTTCTCAAAAATTTA-TTTTTTGAAAACTTATTTTTAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--AACTTTTTTGAAAATTTATTTTTAAGAAAAAT
** ** *
20012989 TGATACTTTCAACTTTTCCTCAAAA-ATCCCTTT-GAAAAATTATCTTTAAGG
64 TGATACTTTCAACTTTTCCTCAAAATAT-TTTTTGGAAATTTTA-ATTTAAGG
* * * **
20013040 GAAATTGATACTTTCAACTTTTCC-CAAAAATA-TTTTTTGAAAACTTTAATTTCGAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTGAAAA-TTTATTTTTAAGAAAAATT
* * * * *
20013103 GATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTTTTGAAAATTTATTTTTAAGA
65 GATACTTTCAACTTTTCCTCAAAA-----TATTTTTTGGAAATTTTA-ATTTAAGG
*
20013159 AAAATTGATACTTTCAACTTTTCCTAAAAAAAAACTTTTTTTTGAAAATTTATTTTTAAGAAAAA
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAAAAC--TTTTTTGAAAATTTATTTTTAAGAAAAA
* * *
20013224 TTGATATTTTCAACTTTTTCTCAAAATATTTTTTGGAAACTTTTAATTTCGAGG
63 TTGATACTTTCAACTTTTCCTCAAAATATTTTTTGGAAA-TTTTAATTT-AAGG
20013278 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAA-CTTTTTTGAAAATTTATTT
20013331 AAAAAGACAA
Statistics
Matches: 247, Mismatches: 28, Indels: 30
0.81 0.09 0.10
Matches are distributed among these distances:
112 13 0.05
113 38 0.15
114 6 0.02
115 22 0.09
117 18 0.07
118 24 0.10
119 71 0.29
121 6 0.02
123 38 0.15
124 11 0.04
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (114 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTGAAAATTTATTTTTAAGAAAAATTG
ATACTTTCAACTTTTCCTCAAAATATTTTTTGGAAATTTTAATTTAAGG
Found at i:20013351 original size:8 final size:9
Alignment explanation
Indices: 20013339--20013501 Score: 57
Period size: 8 Copynumber: 18.4 Consensus size: 9
20013329 TTAAAAAGAC
20013339 AAAATAAAT
1 AAAATAAAT
20013348 -AAATAAAT
1 AAAATAAAT
20013356 AAAATAAA-
1 AAAATAAAT
20013364 AATAA-AAAT
1 AA-AATAAAT
*
20013373 AAAAATAAAG
1 -AAAATAAAT
* *
20013383 ATAA-AGAT
1 AAAATAAAT
*
20013391 AAAAATGGAAT
1 -AAAAT-AAAT
20013402 AAAATAAA-
1 AAAATAAAT
20013410 AAGAGCACTAAAT
1 AA-A--A-TAAAT
** *
20013423 AATTCTAGAT
1 AA-AATAAAT
*
20013433 ATAAT-AAT
1 AAAATAAAT
20013441 AATAAT-AAT
1 AA-AATAAAT
20013450 AATAAT-AAT
1 AA-AATAAAT
20013459 -A-ATAAAT
1 AAAATAAAT
20013466 -AAATAAAT
1 AAAATAAAT
20013474 -AAATAAAT
1 AAAATAAAT
20013482 -AAATAAAT
1 AAAATAAAT
20013490 -AAATAAAT
1 AAAATAAAT
20013498 AAAA
1 AAAA
20013502 ATACCAAGAC
Statistics
Matches: 120, Mismatches: 17, Indels: 34
0.70 0.10 0.20
Matches are distributed among these distances:
6 2 0.02
7 4 0.03
8 51 0.43
9 39 0.32
10 15 0.12
11 3 0.03
12 4 0.03
13 2 0.02
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (9 bp):
AAAATAAAT
Found at i:20013411 original size:6 final size:6
Alignment explanation
Indices: 20013339--20013396 Score: 66
Period size: 6 Copynumber: 9.8 Consensus size: 6
20013329 TTAAAAAGAC
* *
20013339 AAAATA AATAA-A TAAAT- AAAATA AAAATA AAAATA AAAATA AAGATA
1 AAAATA AA-AATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
20013386 AAGATA AAAAT
1 AAAATA AAAAT
20013397 GGAATAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
5 6 0.13
6 37 0.82
7 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:20013441 original size:3 final size:3
Alignment explanation
Indices: 20013433--20013463 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
20013423 AATTCTAGAT
20013433 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20013464 ATAAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:20013468 original size:4 final size:4
Alignment explanation
Indices: 20013459--20013500 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
20013449 TAATAATAAT
20013459 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
20013501 AATACCAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:20015433 original size:15 final size:16
Alignment explanation
Indices: 20015403--20015459 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 16
20015393 AAAAAAAAGA
20015403 AAAAAAATCATAAAAT
1 AAAAAAATCATAAAAT
*
20015419 AAAAAAATGATAAATAT
1 AAAAAAATCATAAA-AT
20015436 GAAATAAAAAATC-TAAAAT
1 ---A-AAAAAATCATAAAAT
20015455 AAAAA
1 AAAAA
20015460 TGAATAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
15 4 0.12
16 14 0.41
17 2 0.06
19 2 0.06
20 5 0.15
21 7 0.21
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (16 bp):
AAAAAAATCATAAAAT
Found at i:20015848 original size:8 final size:8
Alignment explanation
Indices: 20015835--20015865 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
20015825 AGGCAACCTT
20015835 TTTTTTTA
1 TTTTTTTA
*
20015843 TTTTTTTG
1 TTTTTTTA
20015851 TTTTTTTA
1 TTTTTTTA
20015859 TTTTTTT
1 TTTTTTT
20015866 TTATCAAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:20015855 original size:108 final size:108
Alignment explanation
Indices: 20015648--20015904 Score: 320
Period size: 108 Copynumber: 2.4 Consensus size: 108
20015638 TTTTTTAAAT
* * * *
20015648 TTTGATCAAAGCTCCTCTAAGCAAAGGCTAAATGATTTTGAGAAACATAAACAAAGCTCCTCTAA
1 TTTGATCAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAA
20015713 ATAGAAGCAACTCTTTTTTTTGTCCATTTTTTTTTAAAAAAAA
66 ATAGAAGCAACTCTTTTTTTTGTCCATTTTTTTTTAAAAAAAA
* *
20015756 TTTGATCAAAGCTCTTCTAAATAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAA
1 TTTGATCAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAA
* *** ** *****
20015821 ATAGAGGCAAC-CTTTTTTTT-TATTTTTTTGTTTTTTTATTTTT
66 ATAGAAGCAACTCTTTTTTTTGT-CCATTTT-TTTTTAAAAAAAA
*
20015864 TTTTATCAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGA
1 TTTGATCAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGA
20015905 AAAGTAAATT
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
106 1 0.01
107 13 0.10
108 113 0.89
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (108 bp):
TTTGATCAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAA
ATAGAAGCAACTCTTTTTTTTGTCCATTTTTTTTTAAAAAAAA
Found at i:20015856 original size:16 final size:16
Alignment explanation
Indices: 20015835--20015865 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
20015825 AGGCAACCTT
20015835 TTTTTTTATTTTTTTG
1 TTTTTTTATTTTTTTG
20015851 TTTTTTTATTTTTTT
1 TTTTTTTATTTTTTT
20015866 TTATCAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.90
Consensus pattern (16 bp):
TTTTTTTATTTTTTTG
Found at i:20015931 original size:41 final size:41
Alignment explanation
Indices: 20015874--20016246 Score: 538
Period size: 41 Copynumber: 9.2 Consensus size: 41
20015864 TTTTATCAAA
* * *
20015874 GCTCCTCTAAACAGAGGCTCAATGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
20015915 GCTCCTTTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
20015957 GCTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
** * *
20015998 GCTCCTCTAAACAGAGGCACCGTGACTTTAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
20016039 ACTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * *
20016080 ACTCCTTTAAACAGAGGCACCACGACTTTTAAAAGTAAA--
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
20016119 --TCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * *
20016158 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAGTAAATC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
20016199 GTTCCTCTAAACAGAGGCACCACGACTTTAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
20016240 GCTCCTC
1 GCTCCTC
20016247 ACCACGATTT
Statistics
Matches: 296, Mismatches: 31, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
37 34 0.11
41 223 0.75
42 39 0.13
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:20016207 original size:160 final size:162
Alignment explanation
Indices: 20015875--20016245 Score: 575
Period size: 160 Copynumber: 2.3 Consensus size: 162
20015865 TTTATCAAAG
* * *
20015875 CTCCTCTAAACAGAGGCTCAATGACTTTGAAAAGTAAATTGCTCCTTTAAACAGAGGCACCACGA
1 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTTTAAACAGAGGCACCACGA
*
20015940 CTTTTGAAAAGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATTGCTCCTC
66 CTTTTGAAAAGTAAA-T--TCATCTAAACAAAGGCACCACGACTTTGAAAAGTAAATTGCTCCTC
* *
20016005 TAAACAGAGGCACCGTGACTTTAAAAAATAAATTA
128 TAAACAGAGGCACCATGACTTTAAAAAATAAATCA
*
20016040 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTACTCCTTTAAACAGAGGCACCACGA
1 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTTTAAACAGAGGCACCACGA
*
20016105 CTTTT-AAAAGTAAA-TCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAA
66 CTTTTGAAAAGTAAATTCATCTAAACAAAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAA
** * *
20016168 ACAGAGGCACCATGACTTTGGAAAGTAAATCG
131 ACAGAGGCACCATGACTTTAAAAAATAAATCA
* *
20016200 TTCCTCTAAACAGAGGCACCACGACTTTAAAAAGTAAATTGCTCCT
1 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
20016246 CACCACGATT
Statistics
Matches: 191, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
160 116 0.61
164 9 0.05
165 66 0.35
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (162 bp):
CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTTTAAACAGAGGCACCACGA
CTTTTGAAAAGTAAATTCATCTAAACAAAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAA
ACAGAGGCACCATGACTTTAAAAAATAAATCA
Found at i:20016250 original size:30 final size:30
Alignment explanation
Indices: 20016216--20016273 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20016206 TAAACAGAGG
*
20016216 CACCACGACTTTAAAAAGTAAATTGCTCCT
1 CACCACGACTTTAAAAAGTAAATGGCTCCT
* *
20016246 CACCACGATTTTGAAAAGTAAATGGCTC
1 CACCACGACTTTAAAAAGTAAATGGCTC
20016274 ATTGACAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (30 bp):
CACCACGACTTTAAAAAGTAAATGGCTCCT
Found at i:20017985 original size:18 final size:18
Alignment explanation
Indices: 20017964--20018028 Score: 69
Period size: 21 Copynumber: 3.3 Consensus size: 18
20017954 TTCAATTTGA
20017964 ATTTTTTT-TTATTTTCTC
1 ATTTTTTTATT-TTTTCTC
20017982 ATTTTTTTTATTTTTTTCATC
1 A-TTTTTTTA-TTTTTTC-TC
20018003 ATCTTCTTTTATTTTTTCTC
1 AT-TT-TTTTATTTTTTCTC
20018023 ATTTTT
1 ATTTTT
20018029 CATCCATTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
18 3 0.07
19 9 0.22
20 10 0.24
21 14 0.34
22 5 0.12
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (18 bp):
ATTTTTTTATTTTTTCTC
Found at i:20018004 original size:21 final size:20
Alignment explanation
Indices: 20017965--20018028 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
20017955 TCAATTTGAA
*
20017965 TTTTTTT-TTATTTTCTCAT
1 TTTTTTTATTTTTTTCTCAT
20017984 TTTTTTTATTTTTTTCATCAT
1 TTTTTTTATTTTTTTC-TCAT
*
20018005 CTTCTTTTA-TTTTTTCTCAT
1 -TTTTTTTATTTTTTTCTCAT
20018025 TTTT
1 TTTT
20018029 CATCCATTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
19 10 0.26
20 11 0.28
21 11 0.28
22 7 0.18
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTTATTTTTTTCTCAT
Found at i:20022669 original size:58 final size:56
Alignment explanation
Indices: 20022607--20023035 Score: 454
Period size: 59 Copynumber: 7.4 Consensus size: 56
20022597 TTGTGCAGGA
* * *
20022607 AAAATTAATACTTTCAACTTTTCCCTAAAAATATTCTTTTGAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTT-CCTAAAAATATT-TTTTGAAACTTTAATTTTGAGG
* *
20022665 AAAATTGATACTTTCAACTTTTTCTCAAAAATTTATTTTTTGAAAAC-TT-ATTATTAAGG
1 AAAATTGATACTTTCAACTTTTCCT-AAAAA--TATTTTTTG-AAACTTTAATT-TTGAGG
* *** * *
20022724 AAAATTGAT-CATTTCAACTTTTTCTCAAAAAT-CCATTTGAAAATTT-ATCTTTAAGG
1 AAAATTGATAC-TTTCAACTTTTCCT-AAAAATATTTTTTGAAACTTTAAT-TTTGAGG
* *
20022780 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCT-AAAAATATTTTTTG-AAACTTTAATTTTGAGG
* * * * *
20022838 AAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTAAAAAT-ATTTTTTGAAACTTTAATTTTGAGG
**
20022895 AAAATTGATACTTTCAACTTTTCTCCGAAAATATTTTTTGAAAACTTTTAATTTTGAGG
1 AAAATTGATACTTTCAACTTTTC-CTAAAAATATTTTTTG-AAAC-TTTAATTTTGAGG
* *
20022954 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTT-GAAAC-TTTAATTTTGAGG
20023013 AAAATTGATACTTTCAACTTTTC
1 AAAATTGATACTTTCAACTTTTC
20023036 TTCAAAAAAA
Statistics
Matches: 321, Mismatches: 32, Indels: 36
0.83 0.08 0.09
Matches are distributed among these distances:
55 3 0.01
56 43 0.13
57 56 0.17
58 82 0.26
59 127 0.40
60 10 0.03
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTGAAACTTTAATTTTGAGG
Found at i:20022795 original size:115 final size:111
Alignment explanation
Indices: 20022607--20023043 Score: 461
Period size: 115 Copynumber: 3.8 Consensus size: 111
20022597 TTGTGCAGGA
* * * ** *
20022607 AAAATTAATACTTTCAACTTTTCC-CTAAAAATATTCTTTTGAAACTTTAATTTCGAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAAT-CT-TTTTGAAAATTT-ATTTTAAGGAAAATT
*
20022671 GATACTTTCAACTTTTTCTCAAAAATTTATTTTTTGAAAACTTATTATTAAGG
62 GATACTTTCAAC-TTTTCTCAAAAA--TATTTTTTGAAAACTTATTATTGAGG
* **
20022724 AAAATTGAT-CATTTCAACTTTTTCTCAAAAATCCATTTGAAAATTTATCTTTAAGGAAAATTGA
1 AAAATTGATAC-TTTCAACTTTTCCTCAAAAATCTTTTTGAAAATTTAT-TTTAAGGAAAATTGA
* *
20022788 TACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTTAATT-TCGAGA
64 TACTTTCAACTTTT-CTCAAAAATATTTTTTGAAAAC-TT-ATTATTGAGG
20022838 AAAATTGATACTTTCAACTTTTCCTC-AAAATCTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATC--TTTTTGAAAATTTA-TTTTAAGGAAAATTG
*
20022902 ATACTTTCAACTTTTCTCCGAAAATATTTTTTGAAAACTT-TTAATTTTGAGG
63 ATACTTTCAACTTTTCT-CAAAAATATTTTTTGAAAACTTATT-A--TTGAGG
* * * **
20022954 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTAATTTCGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-CTTTTT-GAAA-ATTT-ATTTTAAGGAAAATT
20023019 GATACTTTCAACTTTTCTTCAAAAA
62 GATACTTTCAACTTTTC-TCAAAAA
20023044 AAATCTTTTT
Statistics
Matches: 275, Mismatches: 24, Indels: 41
0.81 0.07 0.12
Matches are distributed among these distances:
112 2 0.01
113 20 0.07
114 38 0.14
115 104 0.38
116 36 0.13
117 35 0.13
118 38 0.14
119 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (111 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTGAAAATTTATTTTAAGGAAAATTGATA
CTTTCAACTTTTCTCAAAAATATTTTTTGAAAACTTATTATTGAGG
Found at i:20023089 original size:5 final size:5
Alignment explanation
Indices: 20023075--20023141 Score: 57
Period size: 5 Copynumber: 12.8 Consensus size: 5
20023065 TTAAGAAGAC
20023075 AAAA- AAAAT AAAAT -AAAT AAAAT AAAAAT AAAAAT AAAGAT AAAGAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAA-AT AAA-AT
**
20023122 AAAAAT GGAAT AAAAT AAAA
1 -AAAAT AAAAT AAAAT AAAA
20023142 ATAGTACTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
4 8 0.15
5 22 0.41
6 21 0.39
7 3 0.06
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:20023102 original size:6 final size:6
Alignment explanation
Indices: 20023078--20023144 Score: 57
Period size: 6 Copynumber: 11.2 Consensus size: 6
20023068 AGAAGACAAA
* * *
20023078 AAAAAT AAAATAA ATAAAAT AAAAAT AAAAAT AAAGAT AAAGAT AAAAAT
1 AAAAAT AAAA-AT A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
**
20023128 -GGAAT -AAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT A
20023145 GTACTAAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
5 6 0.12
6 37 0.74
7 4 0.08
8 3 0.06
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:20023141 original size:16 final size:17
Alignment explanation
Indices: 20023089--20023144 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
20023079 AAAATAAAAT
20023089 AAATAAA-ATAAAAATAA
1 AAATAAAGAT-AAAATAA
20023106 AAATAAAGATAAAGATAA
1 AAATAAAGATAAA-ATAA
**
20023124 AAATGGA-ATAAAATAA
1 AAATAAAGATAAAATAA
20023140 AAATA
1 AAATA
20023145 GTACTAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 8 0.24
17 15 0.44
18 11 0.32
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (17 bp):
AAATAAAGATAAAATAA
Found at i:20025144 original size:23 final size:21
Alignment explanation
Indices: 20025110--20025160 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
20025100 CAAAAGAAAG
20025110 AAAAAGAAAATAAATCATAAAAT
1 AAAAA-AAAATAAAT-ATAAAAT
*
20025133 AAAAAAATAATAAATATGAAAT
1 AAAAAAA-AATAAATATAAAAT
20025155 AAAAAA
1 AAAAAA
20025161 TCTAAAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (21 bp):
AAAAAAAAATAAATATAAAAT
Found at i:20026968 original size:24 final size:22
Alignment explanation
Indices: 20026924--20026968 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
20026914 TTTTTTGATT
*
20026924 TTATTAAATTTAAATATTATTA
1 TTATTAAATTTAAATAGTATTA
*
20026946 TTATTAAAATTTTAAATCGTATT
1 TTATT-AAA-TTTAAATAGTATT
20026969 TTTTTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 3 0.16
24 11 0.58
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTATTAAATTTAAATAGTATTA
Found at i:20036301 original size:42 final size:42
Alignment explanation
Indices: 20036233--20036320 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
20036223 ATATTATCTT
* *
20036233 TTATTTAATTTTATATTTATATATATTATA-TTAATAAAATTA
1 TTATTTAATTTTATATTTATAGATATTA-ACTTAATAAAAATA
20036275 TTATTTAATATTT-TAATTTA-AGATATTAACTTAATAAAAATA
1 TTATTTAAT-TTTAT-ATTTATAGATATTAACTTAATAAAAATA
20036317 TTAT
1 TTAT
20036321 ATTTATGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
41 1 0.02
42 32 0.78
43 8 0.20
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (42 bp):
TTATTTAATTTTATATTTATAGATATTAACTTAATAAAAATA
Found at i:20036334 original size:42 final size:41
Alignment explanation
Indices: 20036233--20036334 Score: 93
Period size: 42 Copynumber: 2.4 Consensus size: 41
20036223 ATATTATCTT
* * *
20036233 TTATTTA-ATTTTATATTTATATATATTATATTAATAAAATTA
1 TTATTTATATTATA-ATTTA-AGATATTATATTAATAAAAATA
*
20036275 TTATTTAATATTTTAATTTAAGATATTA-ACTTAATAAAAATA
1 TTATTT-ATATTATAATTTAAGATATTATA-TTAATAAAAATA
20036317 TTATATT-TATGTATAATT
1 TTAT-TTATAT-TATAATT
20036335 AAAATGAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
41 4 0.08
42 34 0.65
43 8 0.15
44 6 0.12
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (41 bp):
TTATTTATATTATAATTTAAGATATTATATTAATAAAAATA
Found at i:20041116 original size:94 final size:94
Alignment explanation
Indices: 20040995--20041193 Score: 337
Period size: 94 Copynumber: 2.1 Consensus size: 94
20040985 GAATTATTAT
* *
20040995 TTTTTCAA-TTATGGCCATGGTATGGGAAGTAATTAACAAGGGACCATTTTTTTTTTGTCAGAAA
1 TTTTTAAAGTTATGGCCATGGTATGGGAAGTAACTAACAAGGGACCATTTTTTTTTTGTCAGAAA
*
20041059 AAAATTTATGAGTAAGGGAGGATACTTCA
66 AAAATTTATGACTAAGGGAGGATACTTCA
*
20041088 TTTTTAAAGTTATGGCCATGGTATGGGAAGTAACTAACAAGGGACCATTTTTTTTTTGTTAGAAA
1 TTTTTAAAGTTATGGCCATGGTATGGGAAGTAACTAACAAGGGACCATTTTTTTTTTGTCAGAAA
* *
20041153 AAAATTTATGACTAAGTGAGGATATTTCA
66 AAAATTTATGACTAAGGGAGGATACTTCA
20041182 TTTTTAAAGTTA
1 TTTTTAAAGTTA
20041194 AGGCAAGTCA
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
93 7 0.07
94 92 0.93
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.38
Consensus pattern (94 bp):
TTTTTAAAGTTATGGCCATGGTATGGGAAGTAACTAACAAGGGACCATTTTTTTTTTGTCAGAAA
AAAATTTATGACTAAGGGAGGATACTTCA
Found at i:20041856 original size:19 final size:19
Alignment explanation
Indices: 20041832--20041870 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
20041822 GGATTAATTC
20041832 GAACCTAACTCTTTGAATA
1 GAACCTAACTCTTTGAATA
*
20041851 GAACCTAACTTTTTGAATA
1 GAACCTAACTCTTTGAATA
20041870 G
1 G
20041871 GAAATAACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (19 bp):
GAACCTAACTCTTTGAATA
Found at i:20049156 original size:20 final size:20
Alignment explanation
Indices: 20049128--20049172 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
20049118 AAAATTTTTT
*
20049128 ATTAGAAATGAATAAAT-AAA
1 ATTAAAAATGAA-AAATCAAA
*
20049148 ATTAAAAATTAAAAATCAAA
1 ATTAAAAATGAAAAATCAAA
20049168 ATTAA
1 ATTAA
20049173 TAGATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
ATTAAAAATGAAAAATCAAA
Found at i:20049182 original size:20 final size:19
Alignment explanation
Indices: 20049141--20049183 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
20049131 AGAAATGAAT
20049141 AAATAAAATTAAAAATTAA
1 AAATAAAATTAAAAATTAA
*
20049160 AAATCAAAATTAATAGATTAA
1 AAAT-AAAATTAA-AAATTAA
20049181 AAA
1 AAA
20049184 ATTTTATTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 8 0.38
21 9 0.43
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
AAATAAAATTAAAAATTAA
Found at i:20049979 original size:30 final size:31
Alignment explanation
Indices: 20049945--20050020 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
20049935 TGAATTTTTT
*
20049945 TATTTTTAAT-CAATTAAATT-TGTTAATATC
1 TATTTTTAATCCAATTAAATTCT-TAAATATC
*
20049975 TA-TTTTCATCCAATTAAATTCTTAAATATC
1 TATTTTTAATCCAATTAAATTCTTAAATATC
20050005 TATTTTT-ATCTCAATT
1 TATTTTTAATC-CAATT
20050021 GAGCTATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 6 0.15
30 24 0.60
31 10 0.25
ACGTcount: A:0.34, C:0.12, G:0.01, T:0.53
Consensus pattern (31 bp):
TATTTTTAATCCAATTAAATTCTTAAATATC
Found at i:20050479 original size:83 final size:83
Alignment explanation
Indices: 20050365--20050518 Score: 263
Period size: 83 Copynumber: 1.9 Consensus size: 83
20050355 TGAATAAATC
20050365 AAACAACAAGGTCAATGGTTCATGCCCATCGTTATATAAAATTTTTTGGCCATTAATTGGACACC
1 AAACAACAAGGTCAATGGTTCATGCCCATCGTTATATAAAATTTTTTGGCCATTAATTGGACACC
20050430 AATTATATATTAGTGATT
66 AATTATATATTAGTGATT
* * * * *
20050448 AAACAACAAGGTCAATGGTTCATGCCCATCGTTGTATTAATTTTTTTGGCCATTAGTTGGATACC
1 AAACAACAAGGTCAATGGTTCATGCCCATCGTTATATAAAATTTTTTGGCCATTAATTGGACACC
20050513 AATTAT
66 AATTAT
20050519 TTAAATGACT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 66 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (83 bp):
AAACAACAAGGTCAATGGTTCATGCCCATCGTTATATAAAATTTTTTGGCCATTAATTGGACACC
AATTATATATTAGTGATT
Found at i:20050563 original size:3 final size:3
Alignment explanation
Indices: 20050555--20050589 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
20050545 TAACAAATCT
20050555 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
20050590 TTGTTTTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:20051544 original size:74 final size:76
Alignment explanation
Indices: 20051448--20051602 Score: 201
Period size: 74 Copynumber: 2.1 Consensus size: 76
20051438 ATATTTTATG
** * *
20051448 ATATCACTACATTTGAGTTTTTAAATT-TAAAA-ATATATATTTATATTATTAGAAAACT-TA-T
1 ATATCACTACATTTGAAATTTTAAATTGAAAAAGATATATATTTAGATTATTAGAAAA-TATATT
20051509 TTTAAAAGATAAT
65 TTTAAAA-ATAAT
* *
20051522 ATATCACTATATTTGAAATTTTAAATTGAAAAAGATATATATTTAGATTATTTGAAAATATATTT
1 ATATCACTACATTTGAAATTTTAAATTGAAAAAGATATATATTTAGATTATTAGAAAATATA-TT
20051587 TTTAAAAATAAT
65 TTTAAAAATAAT
20051599 ATAT
1 ATAT
20051603 TTAAATTAGA
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
74 24 0.34
75 5 0.07
76 24 0.34
77 9 0.13
78 8 0.11
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (76 bp):
ATATCACTACATTTGAAATTTTAAATTGAAAAAGATATATATTTAGATTATTAGAAAATATATTT
TTAAAAATAAT
Found at i:20055479 original size:23 final size:23
Alignment explanation
Indices: 20055435--20055509 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 23
20055425 TGTTCATTTT
* *
20055435 TATTTTTTAAGATATCTCAAAATTA
1 TATTTTTTTA-ATAT-TTAAAATTA
*
20055460 TATTTTTTTAATATTTAAAATTTT
1 TATTTTTTTAATATTTAAAA-TTA
*
20055484 TATTGTTTT-ATATTTTAAAATTA
1 TATTTTTTTAATA-TTTAAAATTA
20055507 TAT
1 TAT
20055510 CTTAAAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 13 0.30
24 21 0.49
25 9 0.21
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (23 bp):
TATTTTTTTAATATTTAAAATTA
Found at i:20055615 original size:29 final size:29
Alignment explanation
Indices: 20055565--20055631 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
20055555 AAATTTATAA
*
20055565 AAAAATTAAATTTTAATATTAAATAT-AT
1 AAAAATTAAAATTTAATATTAAATATCAT
* * * *
20055593 TAAAATTAAAATTTATTTTTTAAATTTCAT
1 AAAAATTAAAATTTA-ATATTAAATATCAT
20055623 AAAAATTAA
1 AAAAATTAA
20055632 TATATGATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
28 13 0.42
29 8 0.26
30 10 0.32
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (29 bp):
AAAAATTAAAATTTAATATTAAATATCAT
Found at i:20055630 original size:30 final size:28
Alignment explanation
Indices: 20055552--20055631 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 28
20055542 TTCATAAAAC
*
20055552 TTTAAATTTATAAAAAAATTAAATTTTAAT
1 TTTAAATTTAT--AAAAATTAAAATTTAAT
* * * *
20055582 ATTAAATATATTAAAATTAAAATTTATTT
1 TTTAAATTTATAAAAATTAAAATTTA-AT
20055611 TTTAAATTTCATAAAAATTAA
1 TTTAAATTT-ATAAAAATTAA
20055632 TATATGATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 13 0.32
29 8 0.20
30 19 0.47
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (28 bp):
TTTAAATTTATAAAAATTAAAATTTAAT
Found at i:20057790 original size:17 final size:17
Alignment explanation
Indices: 20057768--20057800 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
20057758 ACTAGGAACA
20057768 GAGTCTGTGGAAAAGGG
1 GAGTCTGTGGAAAAGGG
20057785 GAGTCTGTGGAAAAGG
1 GAGTCTGTGGAAAAGG
20057801 AACGTGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.45, T:0.18
Consensus pattern (17 bp):
GAGTCTGTGGAAAAGGG
Found at i:20059384 original size:23 final size:23
Alignment explanation
Indices: 20059344--20059391 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
20059334 GTTCAATTAA
* *
20059344 ATTAAATAAATTTATTTATAAAT
1 ATTAAATAAATTAATTTACAAAT
20059367 ATTAAATAAA-TAAGTTTACAAAT
1 ATTAAATAAATTAA-TTTACAAAT
20059390 AT
1 AT
20059392 ATATTTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTAAATAAATTAATTTACAAAT
Found at i:20059409 original size:16 final size:16
Alignment explanation
Indices: 20059369--20059421 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
20059359 TTATAAATAT
20059369 TAAATAAATA-AGTTTA
1 TAAATAAATATA-TTTA
*
20059385 CAAAT--ATATATTTA
1 TAAATAAATATATTTA
*
20059399 TAAATAAATATATTCA
1 TAAATAAATATATTTA
20059415 TAAATAA
1 TAAATAA
20059422 TAAATAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 11 0.35
15 1 0.03
16 19 0.61
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (16 bp):
TAAATAAATATATTTA
Found at i:20072922 original size:16 final size:17
Alignment explanation
Indices: 20072901--20072935 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
20072891 CATATACTTA
20072901 TATTTTTTAT-TTATAT
1 TATTTTTTATATTATAT
20072917 TA-TTTTTATATTATAT
1 TATTTTTTATATTATAT
20072933 TAT
1 TAT
20072936 CGTATCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTTTATATTATAT
Found at i:20073456 original size:25 final size:24
Alignment explanation
Indices: 20073404--20073456 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 24
20073394 GATATAAATT
20073404 TTAAATTTATTAAAAAAATTTTAA
1 TTAAATTTATTAAAAAAATTTTAA
* *
20073428 -TAAA-TTATTATATAAATTATTAA
1 TTAAATTTATTAAAAAAATT-TTAA
20073451 GTTAAA
1 -TTAAA
20073457 ATTTGAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 12 0.50
23 8 0.33
25 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
TTAAATTTATTAAAAAAATTTTAA
Found at i:20073747 original size:15 final size:15
Alignment explanation
Indices: 20073729--20073763 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
20073719 AAACGAATTT
20073729 GTTTAAAACTCATTC
1 GTTTAAAACTCATTC
* *
20073744 GTTTAAAATTGATTC
1 GTTTAAAACTCATTC
20073759 GTTTA
1 GTTTA
20073764 TTGTTCGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (15 bp):
GTTTAAAACTCATTC
Found at i:20073900 original size:14 final size:15
Alignment explanation
Indices: 20073874--20073919 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
20073864 TTTATGTTAG
20073874 TTTAAAGTTTGTTTA
1 TTTAAAGTTTGTTTA
20073889 TTTAAA-TTTGTTTGA
1 TTTAAAGTTTGTTT-A
* *
20073904 -TTATAGTTTATTTA
1 TTTAAAGTTTGTTTA
20073918 TT
1 TT
20073920 ATTTATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (15 bp):
TTTAAAGTTTGTTTA
Found at i:20075723 original size:20 final size:19
Alignment explanation
Indices: 20075680--20075730 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
20075670 CAATTCGAAA
20075680 TTAATA-AAATATTAATTT
1 TTAATATAAATATTAATTT
20075698 TTAATATAAATATT-ATTAT
1 TTAATATAAATATTAATT-T
20075717 TTAAATATAAATAT
1 TT-AATATAAATAT
20075731 AAAATTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.30
19 10 0.33
20 11 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAATATAAATATTAATTT
Found at i:20084454 original size:21 final size:21
Alignment explanation
Indices: 20084403--20084459 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 21
20084393 TGATATTGTT
* *
20084403 TAAAACTTTAATAATAATTATA
1 TAAAA-TTTAACAATAACTATA
20084425 TATAAATTTAACAATAACTATA
1 TA-AAATTTAACAATAACTATA
20084447 TAAAATTTAACAA
1 TAAAATTTAACAA
20084460 AATAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 11 0.34
22 18 0.56
23 3 0.09
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAATTTAACAATAACTATA
Found at i:20084816 original size:91 final size:91
Alignment explanation
Indices: 20084661--20084842 Score: 346
Period size: 91 Copynumber: 2.0 Consensus size: 91
20084651 GAGGAAAAAA
20084661 CTACACTATGTACTTCTCATTCAACACACCACCAAGAAAATGCAAGAAACAACATGAATAAACAC
1 CTACACTATGTACTTCTCATTCAACACACCACCAAGAAAATGCAAGAAACAACATGAATAAACAC
*
20084726 ATGGCAACTATCAATGAATTTGCTTT
66 ATGGCAACTAGCAATGAATTTGCTTT
*
20084752 CTACACTATGTACTTCTCATTCAACACAGCACCAAGAAAATGCAAGAAACAACATGAATAAACAC
1 CTACACTATGTACTTCTCATTCAACACACCACCAAGAAAATGCAAGAAACAACATGAATAAACAC
20084817 ATGGCAACTAGCAATGAATTTGCTTT
66 ATGGCAACTAGCAATGAATTTGCTTT
20084843 TTCTTTGTTG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.24
Consensus pattern (91 bp):
CTACACTATGTACTTCTCATTCAACACACCACCAAGAAAATGCAAGAAACAACATGAATAAACAC
ATGGCAACTAGCAATGAATTTGCTTT
Found at i:20095934 original size:2 final size:2
Alignment explanation
Indices: 20095927--20095962 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
20095917 TGGCTGTTAC
20095927 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
20095963 GGTTTAGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20100511 original size:173 final size:172
Alignment explanation
Indices: 20100174--20100517 Score: 571
Period size: 172 Copynumber: 2.0 Consensus size: 172
20100164 TTTAAATTTA
* * * *
20100174 GGGTTTGATAGGAAGGAAAGCCCAGAATTGATTGAACCTTTTTGTTTCGAAATCCGGGTTTTGCG
1 GGGTTTAATAGGAAGAAAAGCCAAGAATTGATTGAACCTTTTTGTTTCGAAATCAGGGTTTTGCG
* * *
20100239 ATTGTCTTCAAATTCGATTTTTTTTCTTTTTTGTTGTTTATGTTTCGTTGTTTTGAAGAAATTTT
66 ATTGTCTTCAAATTCGAGTTCTTTCCTTTTTTGTTGTTTATGTTTCGTTGTTTTGAAGAAATTTT
* *
20100304 GCATCTTTACCTACGATTTATTGGTTGTTAATTGGTACTTTG
131 GCATCTTTAACTACGATTTATTGGTTGCTAATTGGTACTTTG
*
20100346 GGGTTTAATAGGAAGAAAAGCCAAGAATTGATTGAACCTTTTTGTTTCGAAATTAGGGTTTTGCG
1 GGGTTTAATAGGAAGAAAAGCCAAGAATTGATTGAACCTTTTTGTTTCGAAATCAGGGTTTTGCG
*
20100411 ATTGTTTTCAAATTCGAGTTCTTTCCTCTTTTTGTTGTTTATGTTTCGTTGTTTTGAAGAAATTT
66 ATTGTCTTCAAATTCGAGTTCTTTCCT-TTTTTGTTGTTTATGTTTCGTTGTTTTGAAGAAATTT
*
20100476 TGCATCTTTAACTACGATTTCTTGGTTGCTAATTGGTACTTT
130 TGCATCTTTAACTACGATTTATTGGTTGCTAATTGGTACTTT
20100518 CTGTAAAATC
Statistics
Matches: 159, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
172 83 0.52
173 76 0.48
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.47
Consensus pattern (172 bp):
GGGTTTAATAGGAAGAAAAGCCAAGAATTGATTGAACCTTTTTGTTTCGAAATCAGGGTTTTGCG
ATTGTCTTCAAATTCGAGTTCTTTCCTTTTTTGTTGTTTATGTTTCGTTGTTTTGAAGAAATTTT
GCATCTTTAACTACGATTTATTGGTTGCTAATTGGTACTTTG
Found at i:20113614 original size:2 final size:2
Alignment explanation
Indices: 20113607--20113653 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
20113597 GTTGACCTAC
20113607 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
20113649 CT CT C
1 CT CT C
20113654 CTGTTTTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:20120910 original size:18 final size:18
Alignment explanation
Indices: 20120868--20120910 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
20120858 CCTACAATTT
20120868 TGAAAAGAAAAAAAGAAA
1 TGAAAAGAAAAAAAGAAA
**
20120886 -GAGAAAGATCAAAAGAAA
1 TGA-AAAGAAAAAAAGAAA
20120904 TGAAAAG
1 TGAAAAG
20120911 GACATCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 2 0.10
18 17 0.81
19 2 0.10
ACGTcount: A:0.70, C:0.02, G:0.21, T:0.07
Consensus pattern (18 bp):
TGAAAAGAAAAAAAGAAA
Found at i:20126018 original size:2 final size:2
Alignment explanation
Indices: 20126011--20126036 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20126001 AGGATATCTC
20126011 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
20126037 TCAACTTATT
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:20127819 original size:9 final size:9
Alignment explanation
Indices: 20127801--20127833 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
20127791 GCGTTCAACA
*
20127801 GGGCAAGGC
1 GGGCACGGC
20127810 GGGCACGGC
1 GGGCACGGC
20127819 GGGCACGGC
1 GGGCACGGC
20127828 GGGCAC
1 GGGCAC
20127834 TTTTCCTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.15, C:0.30, G:0.55, T:0.00
Consensus pattern (9 bp):
GGGCACGGC
Found at i:20129377 original size:50 final size:48
Alignment explanation
Indices: 20129294--20129391 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 48
20129284 TTAAGTCTAA
* *
20129294 CATAAAACACACAAATTTATCAAATAACATCAAATATTA-AGTAAATCT
1 CATAAAACACACAAATCTATCAAATAACATCAAACATTATA-TAAATCT
* * *
20129342 CATAAAATGCACATAAATCTATCGAATCACATCAAACATTATATAAATCT
1 CATAAAA--CACACAAATCTATCAAATAACATCAAACATTATATAAATCT
20129392 AATACAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 7 0.17
50 34 0.81
51 1 0.02
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (48 bp):
CATAAAACACACAAATCTATCAAATAACATCAAACATTATATAAATCT
Found at i:20130090 original size:6 final size:6
Alignment explanation
Indices: 20130079--20130121 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
20130069 TATTATTTTT
* *
20130079 TAAATA TAAATA TAAAATTA TATATA TAAACA TAAATA TAAAT
1 TAAATA TAAATA T-AAA-TA TAAATA TAAATA TAAATA TAAAT
20130122 TTATATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 23 0.74
7 5 0.16
8 3 0.10
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:20130115 original size:26 final size:26
Alignment explanation
Indices: 20130079--20130128 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
20130069 TATTATTTTT
*
20130079 TAAATATAAATATAAAATTATATATA
1 TAAACATAAATATAAAATTATATATA
*
20130105 TAAACATAAATATAAATTTATATA
1 TAAACATAAATATAAAATTATATA
20130129 AATAGTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
TAAACATAAATATAAAATTATATATA
Found at i:20131419 original size:2 final size:2
Alignment explanation
Indices: 20131412--20131447 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
20131402 AGGATATCTC
20131412 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20131448 TCAACTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20133085 original size:3 final size:3
Alignment explanation
Indices: 20133077--20133103 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
20133067 ATGATCATGA
20133077 TGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG
20133104 AGGAGGAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:20133108 original size:3 final size:3
Alignment explanation
Indices: 20133102--20133131 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
20133092 TGGTGGTGGT
20133102 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
20133132 TAGCAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:20133249 original size:9 final size:9
Alignment explanation
Indices: 20133231--20133263 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
20133221 GCGTTCAACA
*
20133231 GGGCAAGGC
1 GGGCACGGC
20133240 GGGCACGGC
1 GGGCACGGC
20133249 GGGCACGGC
1 GGGCACGGC
20133258 GGGCAC
1 GGGCAC
20133264 TTTTCCTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.15, C:0.30, G:0.55, T:0.00
Consensus pattern (9 bp):
GGGCACGGC
Found at i:20134806 original size:50 final size:48
Alignment explanation
Indices: 20134723--20134820 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 48
20134713 TTAAGTCTAA
* *
20134723 CATAAAACACACAAATTTATCAAATAACATCAAATATTA-AGTAAATCT
1 CATAAAACACACAAATCTATCAAATAACATCAAACATTATA-TAAATCT
* * *
20134771 CATAAAATGCACATAAATCTATCGAATCACATCAAACATTATATAAATCT
1 CATAAAA--CACACAAATCTATCAAATAACATCAAACATTATATAAATCT
20134821 AATACAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 7 0.17
50 34 0.81
51 1 0.02
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (48 bp):
CATAAAACACACAAATCTATCAAATAACATCAAACATTATATAAATCT
Found at i:20135430 original size:19 final size:18
Alignment explanation
Indices: 20135402--20135437 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
20135392 ATTTGATTTG
20135402 ATATTAAAATATTATTTTT
1 ATATTAAAAT-TTATTTTT
*
20135421 ATATTTAAATTTATTTT
1 ATATTAAAATTTATTTT
20135438 GATTTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTAAAATTTATTTTT
Found at i:20135531 original size:18 final size:16
Alignment explanation
Indices: 20135493--20135532 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
20135483 TAATTTTTTA
20135493 AATATAAATATAAAAT
1 AATATAAATATAAAAT
*
20135509 TATATAAATAATAAAAAT
1 AATATAAAT-AT-AAAAT
20135527 AATATA
1 AATATA
20135533 TATTAGGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATATAAATATAAAAT
Found at i:20136103 original size:21 final size:20
Alignment explanation
Indices: 20136075--20136114 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
20136065 TTATTAAAAT
*
20136075 TGATATTTAAATTTAATTGA
1 TGATATTTAAACTTAATTGA
20136095 TGATGATTTAAACTTAATTG
1 TGAT-ATTTAAACTTAATTG
20136115 CACTTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (20 bp):
TGATATTTAAACTTAATTGA
Found at i:20144009 original size:65 final size:65
Alignment explanation
Indices: 20143939--20144060 Score: 217
Period size: 65 Copynumber: 1.9 Consensus size: 65
20143929 CTTTATGAGT
* *
20143939 AGTTTTTTCAATATACATTCAGTTTTACTCTTAGTTTTTCACACAATTTTATTTCTTTTATAAAC
1 AGTTTTTGCAATATACATTCAATTTTACTCTTAGTTTTTCACACAATTTTATTTCTTTTATAAAC
*
20144004 AGTTTTTGCAATATACATTCAATTTTACTCTTAGTTTTTCACACAGTTTTATTTCTT
1 AGTTTTTGCAATATACATTCAATTTTACTCTTAGTTTTTCACACAATTTTATTTCTT
20144061 AATTTTTCCA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (65 bp):
AGTTTTTGCAATATACATTCAATTTTACTCTTAGTTTTTCACACAATTTTATTTCTTTTATAAAC
Found at i:20151364 original size:18 final size:17
Alignment explanation
Indices: 20151322--20151369 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
20151312 CTTGGTTAAG
20151322 ACATGAAAAGAAATCTT
1 ACATGAAAAGAAATCTT
20151339 ACATGAAAAGAAATCTT
1 ACATGAAAAGAAATCTT
20151356 ACAATGAAAAGAAA
1 AC-ATGAAAAGAAA
20151370 ATTAAACATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 19 0.63
18 11 0.37
ACGTcount: A:0.58, C:0.10, G:0.12, T:0.19
Consensus pattern (17 bp):
ACATGAAAAGAAATCTT
Found at i:20167104 original size:123 final size:123
Alignment explanation
Indices: 20166966--20167189 Score: 297
Period size: 123 Copynumber: 1.8 Consensus size: 123
20166956 AACATTTATA
* * * * *
20166966 AAAAATTGATCTAATTGACAATAATTATTTTGATTTATAAATTTTAAATTCGAATATAATTAATG
1 AAAAATTGATCTAATTGACAATAATCATTTTAATCTATAAATTTTAAATTCGAATATAATCAATA
*
20167031 ATTTTTTATTGAT-ATCATTTTTAATATAAAATTTATAATATAATTATTTATTGTAATT
66 ATTTTTTATT-ATGATAATTTTTAATATAAAATTTATAATATAATTATTTATTGTAATT
* * * * * *
20167089 AAAAATTGATTTAATTGATAATAATCATTTTAATCTCTAAATTTTGAATTTGAATTTAATCAATA
1 AAAAATTGATCTAATTGACAATAATCATTTTAATCTATAAATTTTAAATTCGAATATAATCAATA
* * *
20167154 ATTTTTTATTATGATAATTTTTTATGTATAATTTAT
66 ATTTTTTATTATGATAATTTTTAATATAAAATTTAT
20167190 GATTATTATT
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
122 2 0.02
123 83 0.98
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (123 bp):
AAAAATTGATCTAATTGACAATAATCATTTTAATCTATAAATTTTAAATTCGAATATAATCAATA
ATTTTTTATTATGATAATTTTTAATATAAAATTTATAATATAATTATTTATTGTAATT
Found at i:20168147 original size:2 final size:2
Alignment explanation
Indices: 20168140--20168170 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20168130 CCTCTCCCCT
20168140 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
20168171 GGAGATTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:20172787 original size:20 final size:17
Alignment explanation
Indices: 20172768--20172808 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
20172758 TAATTTTAAT
*
20172768 ATTTTAATATTAAAAATA
1 ATTTTTATA-TAAAAATA
*
20172786 ATTTTTTTATAAAAATA
1 ATTTTTATATAAAAATA
20172803 ATTTTT
1 ATTTTT
20172809 TTTATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTTATATAAAAATA
Found at i:20172813 original size:18 final size:17
Alignment explanation
Indices: 20172778--20172810 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
20172768 ATTTTAATAT
20172778 TAAAAATAATTTTTTTA
1 TAAAAATAATTTTTTTA
20172795 TAAAAATAATTTTTTT
1 TAAAAATAATTTTTTT
20172811 TATTTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAAAAATAATTTTTTTA
Found at i:20180316 original size:119 final size:119
Alignment explanation
Indices: 20180105--20180338 Score: 405
Period size: 119 Copynumber: 2.0 Consensus size: 119
20180095 AGAACAACAG
20180105 CAGCTTTACTGTTGGTAATCTGAATAAATTAAAGTAACCAGGATTAAAATAAGTAACATCTTTGG
1 CAGCTTTACTGTTGGTAATCTGAATAAATTAAAGTAACCAGGATTAAAATAAGTAACATCTTTGG
*
20180170 TGTAATACTTGCATACTAACCAAAGAAGAAAAAAAAATATCATGCTATTACCAA
66 TGCAATACTTGCATACTAACCAAAGAAGAAAAAAAAATATCATGCTATTACCAA
* * * *
20180224 CAGCTTTACTGTTGGTAATCTGTATAAATTAAAGTAACCGGGATTAAAATAAGTAATATTTTTGG
1 CAGCTTTACTGTTGGTAATCTGAATAAATTAAAGTAACCAGGATTAAAATAAGTAACATCTTTGG
* *
20180289 TGCAATGCTTGCATACTAACCAAAGAAGAAAAAAATATATCATGCTATTA
66 TGCAATACTTGCATACTAACCAAAGAAGAAAAAAAAATATCATGCTATTA
20180339 AATAGAAGTA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 108 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (119 bp):
CAGCTTTACTGTTGGTAATCTGAATAAATTAAAGTAACCAGGATTAAAATAAGTAACATCTTTGG
TGCAATACTTGCATACTAACCAAAGAAGAAAAAAAAATATCATGCTATTACCAA
Found at i:20182358 original size:2 final size:2
Alignment explanation
Indices: 20182351--20182386 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
20182341 ACACGTTGGA
20182351 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
20182387 CTTGTTCTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:20182881 original size:18 final size:18
Alignment explanation
Indices: 20182847--20182882 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20182837 TTTTTGATTT
* *
20182847 AATATAAATATATTTATA
1 AATATAAATAAACTTATA
20182865 AATATAAATAAACTTATA
1 AATATAAATAAACTTATA
20182883 TGTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
AATATAAATAAACTTATA
Found at i:20182967 original size:20 final size:20
Alignment explanation
Indices: 20182913--20182969 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
20182903 TTTACAAAAT
*
20182913 AAATATAAAATAATATATTTA
1 AAATATAAAA-AATAAATTTA
20182934 AAA-ACTAAATAAATAAATTTA
1 AAATA-TAAA-AAATAAATTTA
*
20182955 AAATATAAGAAATAA
1 AAATATAAAAAATAA
20182970 TATTATCAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 7 0.23
21 22 0.71
22 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATATAAAAAATAAATTTA
Found at i:20184263 original size:15 final size:15
Alignment explanation
Indices: 20184218--20184269 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
20184208 ATTCATAAAT
20184218 AATAAATAAATTAT-
1 AATAAATAAATTATA
*
20184232 AATCAAACAAATT-TA
1 AAT-AAATAAATTATA
20184247 AATAAATAAATTATA
1 AATAAATAAATTATA
*
20184262 AACAAATA
1 AATAAATA
20184270 TAAATGAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAAATAAATTATA
Done.