Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 68 of 427
Found at i:16885555 original size:58 final size:58
Alignment explanation
Indices: 16885465--16885581 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
16885455 CCCAGCCTAT
*
16885465 ATTTGACTGTATTCTGATGTGTTTCTGTATGCATGTTTTCTGTGGGGATTACACACTG
1 ATTTGACTGTATTCTGATGTGTTTCTATATGCATGTTTTCTGTGGGGATTACACACTG
16885523 ATTTGACTGTATTCTGATGTGTTTCTATATGCATGTTTTCTGTGGGGATTACACACTG
1 ATTTGACTGTATTCTGATGTGTTTCTATATGCATGTTTTCTGTGGGGATTACACACTG
16885581 A
1 A
16885582 GTTTATGAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.19, C:0.14, G:0.23, T:0.44
Consensus pattern (58 bp):
ATTTGACTGTATTCTGATGTGTTTCTATATGCATGTTTTCTGTGGGGATTACACACTG
Found at i:16888858 original size:9 final size:9
Alignment explanation
Indices: 16888844--16888885 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
16888834 AATAAAGGGG
16888844 AAGAAAGAA
1 AAGAAAGAA
16888853 AAGAAAGAA
1 AAGAAAGAA
*
16888862 AAGAAA-AG
1 AAGAAAGAA
*
16888870 AAGAAAAACA
1 AAGAAAGA-A
16888880 AAGAAA
1 AAGAAA
16888886 CATGAAGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 7 0.24
9 16 0.55
10 6 0.21
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (9 bp):
AAGAAAGAA
Found at i:16888862 original size:13 final size:13
Alignment explanation
Indices: 16888844--16888885 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
16888834 AATAAAGGGG
16888844 AAGAAAGAAAAGA
1 AAGAAAGAAAAGA
16888857 AAGAAAAGAAAAG-
1 AAG-AAAGAAAAGA
*
16888870 AAGAAAAACAAAGA
1 AAGAAAGA-AAAGA
16888884 AA
1 AA
16888886 CATGAAGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 4 0.16
13 10 0.40
14 11 0.44
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAAAGA
Found at i:16888866 original size:14 final size:14
Alignment explanation
Indices: 16888847--16888885 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
16888837 AAAGGGGAAG
16888847 AAAGAAAAGAAAGA
1 AAAGAAAAGAAAGA
16888861 AAAGAAAAG-AAGA
1 AAAGAAAAGAAAGA
16888874 AAA-ACAAAGAAA
1 AAAGA-AAAGAAA
16888886 CATGAAGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.04
13 11 0.48
14 11 0.48
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAGAAAAGAAAGA
Found at i:16888905 original size:6 final size:6
Alignment explanation
Indices: 16888894--16888920 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16888884 AACATGAAGA
16888894 GGGAGT GGGAGT GGGAGT GGGAGT GGG
1 GGGAGT GGGAGT GGGAGT GGGAGT GGG
16888921 GTAATGGACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.70, T:0.15
Consensus pattern (6 bp):
GGGAGT
Found at i:16891953 original size:2 final size:2
Alignment explanation
Indices: 16891946--16891973 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16891936 ATCTTTAATA
16891946 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
16891974 CAATACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16915911 original size:29 final size:29
Alignment explanation
Indices: 16915847--16915920 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
16915837 ACAAAATAAT
**
16915847 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATGGCA
16915876 AACATAAGTGACTAAAATGTAACATGGGGCA
1 AACATAAGTGACTAAAATGTAACAT--GGCA
* *
16915907 AATAAAAGTGACTA
1 AACATAAGTGACTA
16915921 TTTTTATAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 25 0.64
31 14 0.36
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATGGCA
Found at i:16918460 original size:6 final size:6
Alignment explanation
Indices: 16918445--16918482 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
16918435 AACAAACAAA
*
16918445 ACACAC ACACAT ACACAT ACACAT ACACAT ACAC-T ACA
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACA
16918483 AATAAAGCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (6 bp):
ACACAT
Found at i:16920190 original size:20 final size:20
Alignment explanation
Indices: 16920147--16920190 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16920137 ATCTTTCTTT
* *
16920147 AAAA-AAAAGGGAAAATAAA
1 AAAATAAAAGGAAAAAGAAA
*
16920166 GAAATAAAAGGAAAAAGAAA
1 AAAATAAAAGGAAAAAGAAA
16920186 AAAAT
1 AAAAT
16920191 TTAATTGAGC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (20 bp):
AAAATAAAAGGAAAAAGAAA
Found at i:16925889 original size:25 final size:27
Alignment explanation
Indices: 16925866--16925958 Score: 89
Period size: 28 Copynumber: 3.3 Consensus size: 27
16925856 ATTGCAAATA
16925866 ACGATAAGCACCAAAGTGAAAAATAATT
1 ACGATAAGCACCAAAGTGAAAAATAA-T
**
16925894 ACGATAAGCACCAAAGTGCAAATTTTACA-
1 ACGATAAGCACCAAAGTG-AAA-AATA-AT
* * **
16925923 ACAATAAGCACCGAAGTGCCAAATAAT
1 ACGATAAGCACCAAAGTGAAAAATAAT
16925950 ACGATAAGC
1 ACGATAAGC
16925959 GCGCTAATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
26 1 0.02
27 10 0.19
28 19 0.37
29 19 0.37
30 2 0.04
31 1 0.02
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.17
Consensus pattern (27 bp):
ACGATAAGCACCAAAGTGAAAAATAAT
Found at i:16928223 original size:44 final size:46
Alignment explanation
Indices: 16928162--16928253 Score: 143
Period size: 44 Copynumber: 2.0 Consensus size: 46
16928152 TAAATTTCCA
*
16928162 TAAAATTTATTTTTTATTTTTAAAATGGTGAATTTAATAAAATTGT
1 TAAAATTTATTTTTTATTTTTAAAATGATGAATTTAATAAAATTGT
* *
16928208 TAAAA-TTA-TTTTTATTTTTTAAATGATGTATTTAATAAAATTGT
1 TAAAATTTATTTTTTATTTTTAAAATGATGAATTTAATAAAATTGT
16928252 TA
1 TA
16928254 GGATATCGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 35 0.81
45 3 0.07
46 5 0.12
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (46 bp):
TAAAATTTATTTTTTATTTTTAAAATGATGAATTTAATAAAATTGT
Found at i:16937929 original size:20 final size:21
Alignment explanation
Indices: 16937889--16937930 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16937879 GCTCATTCAG
*
16937889 TCCAATTCGACCTACCAAAAT
1 TCCAATTCAACCTACCAAAAT
*
16937910 TCCAATTCAACCT-TCAAAAT
1 TCCAATTCAACCTACCAAAAT
16937930 T
1 T
16937931 ATTAAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.38, C:0.31, G:0.02, T:0.29
Consensus pattern (21 bp):
TCCAATTCAACCTACCAAAAT
Found at i:16939115 original size:19 final size:20
Alignment explanation
Indices: 16939068--16939117 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
16939058 AAGTTGTAAA
*
16939068 TTTA-ATTTTTATATTTTGAT
1 TTTATATTTTTAAATTTT-AT
*
16939088 TTGATATTTTTAAATTTT-T
1 TTTATATTTTTAAATTTTAT
16939107 TTTATATTTTT
1 TTTATATTTTT
16939118 TGAATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 11 0.42
20 3 0.12
21 12 0.46
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (20 bp):
TTTATATTTTTAAATTTTAT
Found at i:16939124 original size:28 final size:31
Alignment explanation
Indices: 16939064--16939133 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 31
16939054 GTATAAGTTG
16939064 TAAATTTAATTTTTATATTTTGATTTGATATTTT
1 TAAATTT--TTTTTATATTTT-ATTTGATATTTT
16939098 TAAATTTTTTTTATA-TTT-TTTGA-ATTTT
1 TAAATTTTTTTTATATTTTATTTGATATTTT
*
16939126 AAAATTTT
1 TAAATTTT
16939134 AGTCTTGACT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
28 12 0.34
29 5 0.14
31 3 0.09
32 8 0.23
34 7 0.20
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (31 bp):
TAAATTTTTTTTATATTTTATTTGATATTTT
Found at i:16940407 original size:22 final size:22
Alignment explanation
Indices: 16940337--16940407 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 22
16940327 TCCTTAACTA
*
16940337 AGTATATATGATTAAATAATAAAT
1 AGTATA-ATAATT-AATAATAAAT
* *
16940361 ATTAT-ATAATTTAATTAA-AATT
1 AGTATAATAA-TTAA-TAATAAAT
16940383 AGTATAATAATTAATAATAAAT
1 AGTATAATAATTAATAATAAAT
16940405 AGT
1 AGT
16940408 TCCATGTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
21 3 0.08
22 22 0.58
23 9 0.24
24 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.41
Consensus pattern (22 bp):
AGTATAATAATTAATAATAAAT
Found at i:16942827 original size:23 final size:24
Alignment explanation
Indices: 16942794--16942840 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
16942784 TAATGGTAAT
16942794 ATACATGTGTAATA-AATACATAC
1 ATACATGTGTAATATAATACATAC
* *
16942817 ATACATTTGTAATATAATATATAC
1 ATACATGTGTAATATAATACATAC
16942841 TCACTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (24 bp):
ATACATGTGTAATATAATACATAC
Found at i:16942878 original size:13 final size:13
Alignment explanation
Indices: 16942860--16942886 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16942850 ATTTAATAAA
16942860 ATATTATTATATT
1 ATATTATTATATT
16942873 ATATTATTATATT
1 ATATTATTATATT
16942886 A
1 A
16942887 AAACAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:16942971 original size:13 final size:14
Alignment explanation
Indices: 16942955--16942989 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
16942945 GAAACAGGGG
16942955 AAAGAAAG-AATAA
1 AAAGAAAGAAATAA
16942968 AAAGAAAGAAATAA
1 AAAGAAAGAAATAA
16942982 AAAGAAAG
1 AAAGAAAG
16942990 GGAAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (14 bp):
AAAGAAAGAAATAA
Found at i:16944674 original size:42 final size:42
Alignment explanation
Indices: 16944611--16944724 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 42
16944601 CTTCGTTTTC
** * *
16944611 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
16944654 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
16944695 TCGATGCCATAGCCTAGCTATGGTCTTACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACA
16944725 TGAATCACAT
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.03
42 61 0.95
43 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:16944764 original size:46 final size:45
Alignment explanation
Indices: 16944696--16944815 Score: 141
Period size: 47 Copynumber: 2.6 Consensus size: 45
16944686 ATTCATATAT
* * * * *
16944696 CGATGCCATAGCCTAGCTATGGTCTTACATGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTACA-GAAGCACATATCACAC
* * *
16944742 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTC-T-TACAGAAGCACATATCACAC
16944789 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
16944816 TACGGAAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
45 2 0.03
46 21 0.33
47 36 0.57
48 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (45 bp):
CGATGCCATATCCCAGATATGGTCTTACAGAAGCACATATCACAC
Found at i:16944879 original size:31 final size:31
Alignment explanation
Indices: 16944844--16945016 Score: 225
Period size: 31 Copynumber: 5.8 Consensus size: 31
16944834 CTTGTCACTT
*
16944844 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
16944875 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
16944906 GTAACCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
16944937 GTAGCCGAAACTACCACTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
16944968 GTAGCAGAAG------C-TTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
16944992 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
16945017 TGTCATTTGT
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
24 21 0.17
25 1 0.01
30 1 0.01
31 99 0.81
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:16944988 original size:24 final size:24
Alignment explanation
Indices: 16944955--16945003 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
16944945 AACTACCACT
*
16944955 TTTCATTGATCAGGTAGCAGAAGC
1 TTTCACTGATCAGGTAGCAGAAGC
*
16944979 TTTCACTGATCAGGTAGCTGAAGC
1 TTTCACTGATCAGGTAGCAGAAGC
16945003 T
1 T
16945004 ACCACTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (24 bp):
TTTCACTGATCAGGTAGCAGAAGC
Found at i:16945009 original size:24 final size:24
Alignment explanation
Indices: 16944961--16945009 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
16944951 CACTTTTCAT
**
16944961 TGATCAGGTAGCAGAAGCTTTCAC
1 TGATCAGGTAGCAGAAGCTACCAC
*
16944985 TGATCAGGTAGCTGAAGCTACCAC
1 TGATCAGGTAGCAGAAGCTACCAC
16945009 T
1 T
16945010 TTTCACTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (24 bp):
TGATCAGGTAGCAGAAGCTACCAC
Found at i:16945094 original size:50 final size:51
Alignment explanation
Indices: 16944992--16945120 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
16944982 CACTGATCAG
* * *
16944992 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
16945043 GTAGCCGAGGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
*
16945093 GTAGCCGAAGCTGTCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
16945121 TGCCATGGTC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 43 0.62
51 26 0.38
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:16945255 original size:14 final size:15
Alignment explanation
Indices: 16945236--16945264 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16945226 TTTTATCATC
16945236 AATACAT-ATGAAAT
1 AATACATCATGAAAT
16945250 AATACATCATGAAAT
1 AATACATCATGAAAT
16945265 TCATAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (15 bp):
AATACATCATGAAAT
Found at i:16947512 original size:24 final size:24
Alignment explanation
Indices: 16947485--16947534 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
16947475 TGAACTATGG
*
16947485 GTTCATGGAATGGTTATTGATATA
1 GTTCATGGAATGATTATTGATATA
*
16947509 GTTCGTGGAATGATTATTGATATA
1 GTTCATGGAATGATTATTGATATA
16947533 GT
1 GT
16947535 GAGAAGACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.42
Consensus pattern (24 bp):
GTTCATGGAATGATTATTGATATA
Found at i:16950725 original size:2 final size:2
Alignment explanation
Indices: 16950718--16950746 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16950708 TGGTTACTTC
16950718 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 T
16950747 TTATGTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16952879 original size:20 final size:21
Alignment explanation
Indices: 16952845--16952883 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16952835 TTATAATATC
*
16952845 ATAAATAATATGAATAAAAAA
1 ATAAATAATAGGAATAAAAAA
16952866 ATAAA-AATAGGAATAAAA
1 ATAAATAATAGGAATAAAA
16952884 GAAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (21 bp):
ATAAATAATAGGAATAAAAAA
Found at i:16953994 original size:49 final size:48
Alignment explanation
Indices: 16953937--16954046 Score: 125
Period size: 49 Copynumber: 2.3 Consensus size: 48
16953927 AGAAATTTCA
* **
16953937 GCACTATGTGTGCAAGGTTATGCGGCACTATATGTGC-A-AAAACTAAGTG
1 GCACTATGTGTGCAAGATTACACGGCACTATATGTGCGAGAAAAC---GTG
* * *
16953986 GCACTATGTGTGCGAGATTACATGGCACTATGTGTGCGAGAAAACGTG
1 GCACTATGTGTGCAAGATTACACGGCACTATATGTGCGAGAAAACGTG
16954034 GCACTATGTGTGC
1 GCACTATGTGTGC
16954047 GAATAAGTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
48 16 0.30
49 31 0.58
50 1 0.02
51 5 0.09
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (48 bp):
GCACTATGTGTGCAAGATTACACGGCACTATATGTGCGAGAAAACGTG
Found at i:16954072 original size:25 final size:24
Alignment explanation
Indices: 16953983--16954048 Score: 105
Period size: 24 Copynumber: 2.8 Consensus size: 24
16953973 CAAAAACTAA
**
16953983 GTGGCACTATGTGTGCGAGATTAC
1 GTGGCACTATGTGTGCGAGAAAAC
*
16954007 ATGGCACTATGTGTGCGAGAAAAC
1 GTGGCACTATGTGTGCGAGAAAAC
16954031 GTGGCACTATGTGTGCGA
1 GTGGCACTATGTGTGCGA
16954049 ATAAGTAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (24 bp):
GTGGCACTATGTGTGCGAGAAAAC
Found at i:16959551 original size:23 final size:23
Alignment explanation
Indices: 16959508--16959551 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
16959498 TAATTATAAC
*
16959508 TAAAACAAAAAAATAATGAAACA
1 TAAAACAAAAAAATAAAGAAACA
*
16959531 TAAAAGAAAAAGAA-AAAGAAA
1 TAAAACAAAAA-AATAAAGAAA
16959552 GAACAGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.77, C:0.05, G:0.09, T:0.09
Consensus pattern (23 bp):
TAAAACAAAAAAATAAAGAAACA
Found at i:16959610 original size:17 final size:18
Alignment explanation
Indices: 16959575--16959616 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
16959565 AATGAAACAG
*
16959575 AGGAAATAAAGAATAAAA
1 AGGAAAGAAAGAATAAAA
16959593 A-GAAAGAAAGAA-AGAAA
1 AGGAAAGAAAGAATA-AAA
16959610 AGGAAAG
1 AGGAAAG
16959617 GCAAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.05
17 14 0.67
18 6 0.29
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (18 bp):
AGGAAAGAAAGAATAAAA
Found at i:16962170 original size:40 final size:39
Alignment explanation
Indices: 16962088--16962268 Score: 168
Period size: 40 Copynumber: 4.5 Consensus size: 39
16962078 AATCAAGCAT
** ** * * *
16962088 CTTCGGGGTTTAGCCGGATATAACCACTCGC-CCAAGGC
1 CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAATGC
* * * *
16962126 CTTCGGGTCTTAGCCTAGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCC-GGATATAGTCACTAGCACAAATGC
*
16962166 CTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATGC
1 CTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAATGC
* *
16962206 CTTC-GGATCTTAGTCCGGATGTAGTCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAG-CCGGATATAGTCAC-TAGCACAAATGC
16962247 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATAT
16962269 CATTCGAGTA
Statistics
Matches: 116, Mismatches: 21, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
38 13 0.11
39 14 0.12
40 57 0.49
41 29 0.25
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAATGC
Found at i:16962251 original size:41 final size:40
Alignment explanation
Indices: 16962124--16962268 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
16962114 CTCGCCCAAG
* ** * *
16962124 GCCTTCGGGTCTTAGCCTAGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
16962164 GCCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
16962204 GCCTTC-GGATCTTAGTCCGGATGTAGTCACTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
16962245 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
16962269 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 57 0.63
41 27 0.30
42 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:16962984 original size:2 final size:2
Alignment explanation
Indices: 16962977--16963008 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
16962967 ATGTGCAAAC
*
16962977 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16963009 GTGCAAGAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16966251 original size:40 final size:40
Alignment explanation
Indices: 16966193--16966411 Score: 350
Period size: 40 Copynumber: 5.5 Consensus size: 40
16966183 GGATTATATT
*
16966193 CGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTGCTATTTC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATTTC
* * * *
16966233 CAGGTTAAGTCTCGAAGGCATTTGTGCTGGTTGTTATTTC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATTTC
*
16966273 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATTTC
*
16966313 CGGGTTAAG-CCCGAAGGCATTCGTGCTGGTCGCTATTTC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATTTC
* *
16966352 CGGGTTAAGCCCCGAAGGCATTCGTGCTGGTCGCTATTTC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATTTC
16966392 CGGGTTAAGTCCCGAAGGCA
1 CGGGTTAAGTCCCGAAGGCA
16966412 ATTGGGTTGG
Statistics
Matches: 167, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 37 0.22
40 130 0.78
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.31
Consensus pattern (40 bp):
CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATTTC
Found at i:16966366 original size:79 final size:80
Alignment explanation
Indices: 16966193--16966411 Score: 350
Period size: 79 Copynumber: 2.8 Consensus size: 80
16966183 GGATTATATT
* * * *
16966193 CGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTGCTATTTCCAGGTTAAGTCTCGAAGGCATTTGT
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATTTCCGGGTTAAGTCCCGAAGGCATTCGT
* *
16966258 GCTGGTTGTTATTTC
66 GCTGGTCGCTATTTC
*
16966273 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAG-CCCGAAGGCATTCGT
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATTTCCGGGTTAAGTCCCGAAGGCATTCGT
16966337 GCTGGTCGCTATTTC
66 GCTGGTCGCTATTTC
* *
16966352 CGGGTTAAGCCCCGAAGGCATTCGTGCTGGTCGCTATTTCCGGGTTAAGTCCCGAAGGCA
1 CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATTTCCGGGTTAAGTCCCGAAGGCA
16966412 ATTGGGTTGG
Statistics
Matches: 128, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
79 72 0.56
80 56 0.44
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.31
Consensus pattern (80 bp):
CGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATTTCCGGGTTAAGTCCCGAAGGCATTCGT
GCTGGTCGCTATTTC
Found at i:16967676 original size:2 final size:2
Alignment explanation
Indices: 16967669--16967699 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16967659 ATTGGTTACT
16967669 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
16967700 TTATGTGTTA
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:16970195 original size:11 final size:11
Alignment explanation
Indices: 16970159--16970214 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
16970149 CATGGTATGT
16970159 ATGATATGCAC
1 ATGATATGCAC
* *
16970170 ATGACATG--T
1 ATGATATGCAC
16970179 ATGATATGCAC
1 ATGATATGCAC
*
16970190 ATGATATG--T
1 ATGATATGCAC
16970199 ATGATATGCAC
1 ATGATATGCAC
16970210 ATGAT
1 ATGAT
16970215 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:16970214 original size:20 final size:20
Alignment explanation
Indices: 16970148--16970214 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
16970138 ATTTTGATAA
*
16970148 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
16970168 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
16970188 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
16970208 ACATGAT
1 ACATGAT
16970215 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:16970347 original size:24 final size:25
Alignment explanation
Indices: 16970265--16970353 Score: 162
Period size: 25 Copynumber: 3.6 Consensus size: 25
16970255 AGGAAGTGTA
16970265 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
16970290 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
16970315 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
16970339 AAAGGGCTTATGCCC
1 AAAGGGCTTATGCCC
16970354 AGGCTAGGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
24 15 0.24
25 48 0.76
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:16978232 original size:11 final size:11
Alignment explanation
Indices: 16978196--16978251 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
16978186 CATGGTATGT
16978196 ATGATATGCAC
1 ATGATATGCAC
* *
16978207 ATGACATG--T
1 ATGATATGCAC
16978216 ATGATATGCAC
1 ATGATATGCAC
*
16978227 ATGATATG--T
1 ATGATATGCAC
16978236 ATGATATGCAC
1 ATGATATGCAC
16978247 ATGAT
1 ATGAT
16978252 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:16978251 original size:20 final size:20
Alignment explanation
Indices: 16978185--16978251 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
16978175 ATTTTGATAA
*
16978185 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
16978205 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
16978225 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
16978245 ACATGAT
1 ACATGAT
16978252 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:16978359 original size:24 final size:24
Alignment explanation
Indices: 16978300--16978420 Score: 183
Period size: 24 Copynumber: 5.0 Consensus size: 24
16978290 GGAGGAAGTG
16978300 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
16978324 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
16978349 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
16978373 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
16978396 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
16978421 ATGCTAAAGC
Statistics
Matches: 90, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
23 19 0.21
24 40 0.44
25 31 0.34
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:16978372 original size:49 final size:47
Alignment explanation
Indices: 16978300--16978420 Score: 181
Period size: 49 Copynumber: 2.5 Consensus size: 47
16978290 GGAGGAAGTG
16978300 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGA-AAAGGGCTT-TGCCCCAGTTAT
*
16978349 TAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGAAAAGGGCTTTGCCCCAGTTAT
*
16978396 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
16978421 ATGCTAAAGC
Statistics
Matches: 68, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
47 23 0.34
48 20 0.29
49 25 0.37
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (47 bp):
TAAAAGGGCTTATGCCCCAGTTATGAAAAGGGCTTTGCCCCAGTTAT
Found at i:16978655 original size:31 final size:31
Alignment explanation
Indices: 16978613--16978675 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
16978603 CATTTACAGT
* *
16978613 AAAGGCTTCGGCCCAGTAATATGAAGTATGA
1 AAAGGCCTCGGCCCAGTAATATGAAATATGA
* **
16978644 AAAGGCCTCGGCTCAGTGTTATGAAATATGA
1 AAAGGCCTCGGCCCAGTAATATGAAATATGA
16978675 A
1 A
16978676 CTGTGAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGCCTCGGCCCAGTAATATGAAATATGA
Found at i:16981582 original size:32 final size:32
Alignment explanation
Indices: 16981541--16981645 Score: 113
Period size: 32 Copynumber: 3.2 Consensus size: 32
16981531 AAGCGTAATG
*
16981541 CTTGAAAAGGTTATGTACACTTTGTGTGTACA
1 CTTGAAAAGGTTATGTATACTTTGTGTGTACA
* * * *
16981573 CTTGGAAAGGTTAGGTATACTTTGTATATAC-
1 CTTGAAAAGGTTATGTATACTTTGTGTGTACA
**
16981604 CATATGAAAAGGAAATGTATACTTTGTGTGTACCA
1 C-T-TGAAAAGGTTATGTATACTTTGTGTGTA-CA
16981639 CTTGAAA
1 CTTGAAA
16981646 GGAATGCACA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
31 1 0.02
32 27 0.47
33 27 0.47
34 2 0.03
35 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.35
Consensus pattern (32 bp):
CTTGAAAAGGTTATGTATACTTTGTGTGTACA
Found at i:16981638 original size:33 final size:33
Alignment explanation
Indices: 16981541--16981645 Score: 124
Period size: 33 Copynumber: 3.2 Consensus size: 33
16981531 AAGCGTAATG
*
16981541 CTTGAAAAGGTTATGTACACTTTGTGTGTA-CA
1 CTTGAAAAGGTTATGTATACTTTGTGTGTACCA
* * * *
16981573 CTTGGAAAGGTTAGGTATACTTTGTATATACCA
1 CTTGAAAAGGTTATGTATACTTTGTGTGTACCA
**
16981606 -TATGAAAAGGAAATGTATACTTTGTGTGTACCA
1 CT-TGAAAAGGTTATGTATACTTTGTGTGTACCA
16981639 CTTGAAA
1 CTTGAAA
16981646 GGAATGCACA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
32 26 0.44
33 32 0.54
34 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.35
Consensus pattern (33 bp):
CTTGAAAAGGTTATGTATACTTTGTGTGTACCA
Found at i:16991997 original size:93 final size:93
Alignment explanation
Indices: 16991885--16992056 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
16991875 GCCCATAAGT
* * * *
16991885 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAAGTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCAA
16991950 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
16991978 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
16992043 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
16992057 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:16992052 original size:46 final size:46
Alignment explanation
Indices: 16991877--16992052 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
16991867 TGTAACCCGC
* *
16991877 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
16991923 CCATAAGTGAAGTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** *
16991969 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
16992016 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
16992053 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 73 0.68
47 35 0.32
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:17006177 original size:16 final size:16
Alignment explanation
Indices: 17006156--17006194 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
17006146 ATAAAACGGC
*
17006156 AAAAGCCGAAATGTCA
1 AAAAGCCGAAATGCCA
* *
17006172 AAAAGCTGAAATGCCG
1 AAAAGCCGAAATGCCA
17006188 AAAAGCC
1 AAAAGCC
17006195 AAAAGTTGGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.21, G:0.21, T:0.10
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:17006327 original size:19 final size:19
Alignment explanation
Indices: 17006295--17006341 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
17006285 GCTGGGGTTG
* *
17006295 AGAATTGGCCAAATGGGCC
1 AGAATGGGCTAAATGGGCC
17006314 AGAATGGGCTAAATGGGCC
1 AGAATGGGCTAAATGGGCC
*
17006333 TG-ATGGGCT
1 AGAATGGGCT
17006342 GTTGGCCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.28, C:0.17, G:0.36, T:0.19
Consensus pattern (19 bp):
AGAATGGGCTAAATGGGCC
Found at i:17006467 original size:29 final size:29
Alignment explanation
Indices: 17006413--17006527 Score: 88
Period size: 29 Copynumber: 4.0 Consensus size: 29
17006403 GCATGACTAT
* * *
17006413 AATATGATTTGGGACTAATGGCCCATATG
1 AATATGAATTGGGCCTAATGGGCCATATG
* * *
17006442 AATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAATGGGCCATATG
* * * * *
17006471 AATATGAACTGGGTCAAATAGGCCATTTG
1 AATATGAATTGGGCCTAATGGGCCATATG
* * * *
17006500 AATAAG-ATTGGGCATAGTGGGTCATATG
1 AATATGAATTGGGCCTAATGGGCCATATG
17006528 CATGTATGTT
Statistics
Matches: 63, Mismatches: 23, Indels: 1
0.72 0.26 0.01
Matches are distributed among these distances:
28 14 0.22
29 49 0.78
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.28
Consensus pattern (29 bp):
AATATGAATTGGGCCTAATGGGCCATATG
Found at i:17011575 original size:39 final size:39
Alignment explanation
Indices: 17011457--17011639 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
17011447 TCGTTTAAAC
* * ** * **
17011457 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
17011497 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
17011537 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
*
17011576 GCCTTCGGGCTTAGTCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
17011615 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
17011640 CTCGAACATT
Statistics
Matches: 124, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 86 0.69
40 38 0.31
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:17015411 original size:21 final size:21
Alignment explanation
Indices: 17015385--17015434 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
17015375 TCACAAAGCG
17015385 GAGGAAGCTACTTGGGAACCT
1 GAGGAAGCTACTTGGGAACCT
17015406 GAGGAAGCTACTTGGGAACCT
1 GAGGAAGCTACTTGGGAACCT
17015427 GAGGAAGC
1 GAGGAAGC
17015435 AATGCGACGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.18, G:0.36, T:0.16
Consensus pattern (21 bp):
GAGGAAGCTACTTGGGAACCT
Found at i:17015542 original size:16 final size:17
Alignment explanation
Indices: 17015521--17015556 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
17015511 GTAACGCCCC
17015521 AAAAATCCCGAAAT-TT
1 AAAAATCCCGAAATCTT
*
17015537 AAAAATCCTGAAATCTT
1 AAAAATCCCGAAATCTT
17015554 AAA
1 AAA
17015557 TTTTTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.53, C:0.17, G:0.06, T:0.25
Consensus pattern (17 bp):
AAAAATCCCGAAATCTT
Found at i:17016921 original size:9 final size:9
Alignment explanation
Indices: 17016897--17016932 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
17016887 AGAATTGGCC
*
17016897 AAATGGGTCG
1 AAATGGG-CT
17016907 AAATGGGCT
1 AAATGGGCT
17016916 AAATGGGCT
1 AAATGGGCT
17016925 AAATGGGC
1 AAATGGGC
17016933 CTGATGGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 18 0.72
10 7 0.28
ACGTcount: A:0.33, C:0.11, G:0.36, T:0.19
Consensus pattern (9 bp):
AAATGGGCT
Found at i:17017058 original size:29 final size:29
Alignment explanation
Indices: 17017025--17017125 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
17017015 ATATAATTTA
*
17017025 GGCCTAGTGGGCCATATGAATGTGAATTG
1 GGCCTAGTGGGCCATATGAATATGAATTG
* * *
17017054 GGCCTAGTGGGCCATAAGAATATGAACTA
1 GGCCTAGTGGGCCATATGAATATGAATTG
* *
17017083 GGCC-AGATGGGCCATTTGAATAAG-ATTG
1 GGCCTAG-TGGGCCATATGAATATGAATTG
*
17017111 GGCCTAGTGGTCCAT
1 GGCCTAGTGGGCCAT
17017126 GTGCATGTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 15 0.25
29 45 0.75
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.25
Consensus pattern (29 bp):
GGCCTAGTGGGCCATATGAATATGAATTG
Found at i:17017433 original size:27 final size:25
Alignment explanation
Indices: 17017387--17017440 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 25
17017377 TAACCATAAT
* *
17017387 TAAGGGAAAAATACCGAAATGCCCC
1 TAAGGGAAAAATACCAAAATACCCC
17017412 TAAGGGCAAAAATGACCAAAATACCCC
1 TAAGGG-AAAAAT-ACCAAAATACCCC
17017439 TA
1 TA
17017441 GGTGTTGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.24
26 6 0.24
27 13 0.52
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.13
Consensus pattern (25 bp):
TAAGGGAAAAATACCAAAATACCCC
Found at i:17022048 original size:31 final size:31
Alignment explanation
Indices: 17022010--17022181 Score: 317
Period size: 31 Copynumber: 5.5 Consensus size: 31
17022000 TTTAACGGTT
17022010 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
17022041 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
17022072 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
17022103 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
17022134 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
17022165 ATTGGGCTGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
17022182 ACTGTAAACG
Statistics
Matches: 137, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 137 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:17022476 original size:26 final size:26
Alignment explanation
Indices: 17022393--17022573 Score: 178
Period size: 26 Copynumber: 7.1 Consensus size: 26
17022383 GCCTAGCCTC
* *
17022393 TTCAAT-AACTGGGGCA-AAGTCCTT
1 TTCAATAAACTGAGGCATAAGCCCTT
** *
17022417 TTCGGTAAACT-AGGGCA-AAGACCTT
1 TTCAATAAACTGA-GGCATAAGCCCTT
17022442 TTCAATAAACTGAGGCATAAGCCCTT
1 TTCAATAAACTGAGGCATAAGCCCTT
* *
17022468 TT-AGGTAAACTGGGGCATAAGCCCTT
1 TTCA-ATAAACTGAGGCATAAGCCCTT
*
17022494 TTCAATAAACT-AGGGCATAAGCCATT
1 TTCAATAAACTGA-GGCATAAGCCCTT
**
17022520 TTCGGTAAACTG-GGACATAAGCCCTT
1 TTCAATAAACTGAGG-CATAAGCCCTT
*
17022546 TTCAATAAACTGGGGCATAAGCCCTT
1 TTCAATAAACTGAGGCATAAGCCCTT
17022572 TT
1 TT
17022574 GCACTTCCTC
Statistics
Matches: 130, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
24 4 0.03
25 31 0.24
26 92 0.71
27 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (26 bp):
TTCAATAAACTGAGGCATAAGCCCTT
Found at i:17022511 original size:52 final size:52
Alignment explanation
Indices: 17022393--17022573 Score: 269
Period size: 52 Copynumber: 3.5 Consensus size: 52
17022383 GCCTAGCCTC
* * *
17022393 TTCAAT-AACTGGGGCA-AAGTCCTTTTCGGTAAACTAGGGCA-AAGACCTT
1 TTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
* *
17022442 TTCAATAAACTGAGGCATAAGCCCTTTTAGGTAAACTGGGGCATAAGCCCTT
1 TTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
* * *
17022494 TTCAATAAACTAGGGCATAAGCCATTTTCGGTAAACTGGGACATAAGCCCTT
1 TTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
17022546 TTCAATAAACTGGGGCATAAGCCCTTTT
1 TTCAATAAACTGGGGCATAAGCCCTTTT
17022574 GCACTTCCTC
Statistics
Matches: 117, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
49 6 0.05
50 9 0.08
51 22 0.19
52 80 0.68
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (52 bp):
TTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
Found at i:17022541 original size:78 final size:77
Alignment explanation
Indices: 17022393--17022573 Score: 237
Period size: 78 Copynumber: 2.4 Consensus size: 77
17022383 GCCTAGCCTC
* **
17022393 TTCAAT-AACTGGGGCA-AAGTCCTTTTCGGTAAACTAGGGCAAAGACCTTTTCAATAAACTGAG
1 TTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCAAAGACCTTTTCAATAAACTGAG
17022456 GCATAAGCCCTT
66 GCATAAGCCCTT
* **
17022468 TT-AGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAG-CCATTTTCGGTAAACT
1 TTCA-ATAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCA-AAGACC-TTTTCAATAAACT
17022531 G-GGACATAAGCCCTT
63 GAGG-CATAAGCCCTT
17022546 TTCAATAAACTGGGGCATAAGCCCTTTT
1 TTCAATAAACTGGGGCATAAGCCCTTTT
17022574 GCACTTCCTC
Statistics
Matches: 92, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
74 1 0.01
75 3 0.03
76 10 0.11
77 26 0.28
78 51 0.55
79 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (77 bp):
TTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCAAAGACCTTTTCAATAAACTGAG
GCATAAGCCCTT
Found at i:17022648 original size:20 final size:20
Alignment explanation
Indices: 17022623--17022689 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
17022613 TTATGAATAC
17022623 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
17022643 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
17022663 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
17022683 ATCATGT
1 ATCATGT
17022690 ATATCATATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:17023414 original size:27 final size:28
Alignment explanation
Indices: 17023383--17023447 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
17023373 TACGGAACAT
*
17023383 AAGGGCATATT-C-GTCATTTTACCATAC
1 AAGGGC-TATTACAGTCACTTTACCATAC
*
17023410 AAGGG-TATTACAGTCACTTTACCCTAC
1 AAGGGCTATTACAGTCACTTTACCATAC
17023437 AAGGGCT-TTAC
1 AAGGGCTATTAC
17023448 GGTCTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 4 0.12
26 1 0.03
27 27 0.82
28 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (28 bp):
AAGGGCTATTACAGTCACTTTACCATAC
Found at i:17023457 original size:27 final size:27
Alignment explanation
Indices: 17023395--17023459 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
17023385 GGGCATATTC
17023395 GTCATTTTACCATACAAGGGTATTACA
1 GTCATTTTACCATACAAGGGTATTACA
* * *
17023422 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTACCATACAAGGG-TATTACA
*
17023449 GTCTTTTTACC
1 GTCATTTTACC
17023460 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACA
Found at i:17023543 original size:27 final size:27
Alignment explanation
Indices: 17023510--17023732 Score: 119
Period size: 27 Copynumber: 8.2 Consensus size: 27
17023500 TTGGTAAATC
17023510 TACAAACTAAGGGTATTTCAGTAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
* * * *
17023537 TATAAACCAATGGTATTTTTA-TAATTTT
1 TACAAACTAAGGGTA-TTTCAGTAA-TTT
* * * *
17023565 TAGAAAGTCAAAGGTATTTCTGTAATTT
1 TACAAACT-AAGGGTATTTCAGTAATTT
** * * **
17023593 TGTAAATTAGGGGTATTTTGGTAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
* * * *
17023620 TACAAATTGAGGGTATTGCAATAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
* **
17023647 CACAAACT-AGTGGTATTTTGGTAATTT
1 TACAAACTAAG-GGTATTTCAGTAATTT
* ** *
17023674 TACAAACTAGGGGTATTTTGGTAATTC
1 TACAAACTAAGGGTATTTCAGTAATTT
** *
17023701 TATCCTA-TAGGGGTATTTCAGTAATTT
1 TA-CAAACTAAGGGTATTTCAGTAATTT
*
17023728 CACAA
1 TACAA
17023733 TCGAGGGTAA
Statistics
Matches: 147, Mismatches: 42, Indels: 15
0.72 0.21 0.07
Matches are distributed among these distances:
26 3 0.02
27 109 0.74
28 26 0.18
29 9 0.06
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (27 bp):
TACAAACTAAGGGTATTTCAGTAATTT
Found at i:17023715 original size:81 final size:81
Alignment explanation
Indices: 17023577--17023732 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
17023567 GAAAGTCAAA
** * * *
17023577 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTGCAAT
1 GGTATTTCTGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTGCAAT
17023642 AATTTCACAAACTAGT
66 AATTTCACAAACTAGT
** *
17023658 GGTATTT-TGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTATAG-GGGTATTTCA
1 GGTATTTCT-GTAATTTTACAAACTAGGGGTATTTTGGTAATTCTA-CAAATAGAGGGTATTGCA
*
17023721 GTAATTTCACAA
64 ATAATTTCACAA
17023733 TCGAGGGTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.02
81 59 0.92
82 4 0.06
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (81 bp):
GGTATTTCTGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTGCAAT
AATTTCACAAACTAGT
Found at i:17023761 original size:27 final size:27
Alignment explanation
Indices: 17023731--17023874 Score: 198
Period size: 27 Copynumber: 5.3 Consensus size: 27
17023721 GTAATTTCAC
* * *
17023731 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
17023758 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
17023785 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
17023812 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
17023839 AATTGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
17023866 AATCGAGGG
1 AATCGAGGG
17023875 CATTTTAGTA
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:17025161 original size:22 final size:22
Alignment explanation
Indices: 17025112--17025162 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
17025102 AATATAATAA
* *
17025112 CAAAATAGTAGTAACACAACAG
1 CAAAATAGTAGTAAAAAAACAG
* *
17025134 CGAAATTGTAGTAAAAAAACAG
1 CAAAATAGTAGTAAAAAAACAG
*
17025156 TAAAATA
1 CAAAATA
17025163 ATAACAAAAC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.57, C:0.12, G:0.14, T:0.18
Consensus pattern (22 bp):
CAAAATAGTAGTAAAAAAACAG
Found at i:17026038 original size:49 final size:49
Alignment explanation
Indices: 17025971--17026067 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
17025961 TTATGCTTTG
* * *
17025971 CATTTCTAAACTTGGTCTTCCACTGTCTACACTCTTA-TCACTATTTATA
1 CATTGCTAAACTTAGTCTTCCACTGTCTACACTATTATTC-CTATTTATA
*
17026020 CATTGCTAAACTTAGTCTTCCACTGTCTACGCTATTATTCCTATTTAT
1 CATTGCTAAACTTAGTCTTCCACTGTCTACACTATTATTCCTATTTAT
17026068 CCTTTCTAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 41 0.95
50 2 0.05
ACGTcount: A:0.24, C:0.26, G:0.07, T:0.43
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTTCCACTGTCTACACTATTATTCCTATTTATA
Found at i:17027441 original size:16 final size:17
Alignment explanation
Indices: 17027419--17027462 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
17027409 CTTCTCATAA
17027419 TCATTTCTCATATTTTC
1 TCATTTCTCATATTTTC
*
17027436 -CATTTC-AATATTTTC
1 TCATTTCTCATATTTTC
17027451 TCA--TCTCATATT
1 TCATTTCTCATATT
17027463 CATTTCTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 2 0.09
15 13 0.57
16 8 0.35
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (17 bp):
TCATTTCTCATATTTTC
Found at i:17027458 original size:43 final size:43
Alignment explanation
Indices: 17027404--17027489 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
17027394 TCATATCTCA
*
17027404 TTTCTCTTCTCATAATCATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
* * * *
17027447 TTTCTCATCTCATATTCATTTCTCTTCTTTTTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
17027490 CAATCACATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.21, C:0.23, G:0.00, T:0.56
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
Found at i:17031273 original size:2 final size:2
Alignment explanation
Indices: 17031266--17031301 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
17031256 CACTATGTGC
17031266 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
17031302 TGTGGCAATT
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:17039930 original size:11 final size:10
Alignment explanation
Indices: 17039890--17039935 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
17039880 TAAAACATTA
17039890 TTTTTTTTAC
1 TTTTTTTTAC
*
17039900 TTTTATTTA-
1 TTTTTTTTAC
*
17039909 TTTATTTTAC
1 TTTTTTTTAC
17039919 TTTTTGTTTAC
1 TTTTT-TTTAC
17039930 TTTTTT
1 TTTTTT
17039936 AGTTTAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 7 0.23
10 13 0.43
11 10 0.33
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTTTTTTAC
Found at i:17039935 original size:19 final size:18
Alignment explanation
Indices: 17039892--17039936 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
17039882 AAACATTATT
*
17039892 TTTTTTACTTTTATTTAT
1 TTTTTTACTTTTATTTAC
*
17039910 TTATTTTACTTTTTGTTTAC
1 TT-TTTTAC-TTTTATTTAC
17039930 TTTTTTA
1 TTTTTTA
17039937 GTTTAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 11 0.48
20 10 0.43
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTTTACTTTTATTTAC
Found at i:17039953 original size:30 final size:29
Alignment explanation
Indices: 17039890--17039956 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
17039880 TAAAACATTA
*
17039890 TTTTTTTTACTTTTATTTATTTATTTTAC
1 TTTTTTTTACTTTTATTTATTTATTATAC
*
17039919 TTTTTGTTTAC-TTT-TTTAGTTTAATTATAG
1 TTTTT-TTTACTTTTATTTA-TTT-ATTATAC
17039949 TTTTTTTT
1 TTTTTTTT
17039957 CATTTTCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 4 0.12
29 14 0.42
30 15 0.45
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.75
Consensus pattern (29 bp):
TTTTTTTTACTTTTATTTATTTATTATAC
Found at i:17040455 original size:22 final size:22
Alignment explanation
Indices: 17040428--17040471 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
17040418 TAAGATGGTT
17040428 ATATATAAAATATTAATAAATAAA
1 ATATAT-AAA-ATTAATAAATAAA
*
17040452 ATATATAAAATTATTAAATA
1 ATATATAAAATTAATAAATA
17040472 TTAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 3 0.16
24 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATATAAAATTAATAAATAAA
Found at i:17042741 original size:43 final size:43
Alignment explanation
Indices: 17042674--17042770 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
17042664 TTCATATTCT
*
17042674 AGAAATATTTT-TATTTTATTTTTAGTAGTTTACTAGAATAAG
1 AGAACTATTTTCTATTTTATTTTTAGTAGTTTACTAGAATAAG
*
17042716 AGAACTATTTTCT-TTTTATGTTTTAGTAGTTTATTAGAATAAG
1 AGAACTATTTTCTATTTTAT-TTTTAGTAGTTTACTAGAATAAG
*
17042759 GGAACTATTTTC
1 AGAACTATTTTC
17042771 CCAATTAGGA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
42 16 0.32
43 34 0.68
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.49
Consensus pattern (43 bp):
AGAACTATTTTCTATTTTATTTTTAGTAGTTTACTAGAATAAG
Found at i:17047453 original size:43 final size:43
Alignment explanation
Indices: 17047405--17047497 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
17047395 ATTCTAGAAA
17047405 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
17047448 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
17047491 TATTTTC
1 TATTTTC
17047498 CCAATTAGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:17048243 original size:10 final size:10
Alignment explanation
Indices: 17048228--17048252 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17048218 GACACTTTTT
17048228 TTTTTTTAAC
1 TTTTTTTAAC
17048238 TTTTTTTAAC
1 TTTTTTTAAC
17048248 TTTTT
1 TTTTT
17048253 ATCCTTCTTT
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:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTTAAC
Found at i:17048320 original size:9 final size:9
Alignment explanation
Indices: 17048300--17048332 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
17048290 AAGTTTTACC
17048300 TTTATCTTTA
1 TTTAT-TTTA
17048310 TTTATTTTA
1 TTTATTTTA
17048319 TTTA-TTTA
1 TTTATTTTA
17048327 TTTATT
1 TTTATT
17048333 ATTAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 9 0.41
10 5 0.23
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTTA
Found at i:17048421 original size:22 final size:21
Alignment explanation
Indices: 17048339--17048421 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 21
17048329 TATTATTAAT
* *
17048339 TTTAAAAAATTTGAAATGTATA
1 TTTAAAATATTT-AAATATATA
*
17048361 TTTAAAATGTTCTATAATATATATA
1 TTTAAAAT-AT-T-TAA-ATATATA
17048386 TTTAAAAT-TTTAAATATATA
1 TTTAAAATATTTAAATATATA
17048406 TTTAAAATATTATAAA
1 TTTAAAATATT-TAAA
17048422 ACAAATAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
20 15 0.29
21 5 0.10
22 12 0.23
23 2 0.04
24 3 0.06
25 15 0.29
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (21 bp):
TTTAAAATATTTAAATATATA
Found at i:17048512 original size:21 final size:23
Alignment explanation
Indices: 17048454--17048527 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
17048444 CATATCTTTA
* * *
17048454 AAAATAATATATTTTAAATAATCT
1 AAAATCATA-ATTTTAAATATTAT
17048478 AAAATCATAATTTTAAATATTAT
1 AAAATCATAATTTTAAATATTAT
*
17048501 AAAA-CA-AATTTTAAATATATTT
1 AAAATCATAATTTTAAATAT-TAT
17048523 AAAAT
1 AAAAT
17048528 TTAAAATATA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
21 12 0.27
22 8 0.18
23 16 0.36
24 8 0.18
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAATCATAATTTTAAATATTAT
Found at i:17048527 original size:18 final size:19
Alignment explanation
Indices: 17048506--17048547 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
17048496 ATTATAAAAC
*
17048506 AAATTTTAAATAT-ATTTA
1 AAATTTAAAATATAATTTA
17048524 AAATTTAAAATATACATTTA
1 AAATTTAAAATATA-ATTTA
17048544 AAAT
1 AAAT
17048548 ATTATAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
20 9 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATTTAAAATATAATTTA
Found at i:17048544 original size:20 final size:18
Alignment explanation
Indices: 17048506--17048652 Score: 64
Period size: 20 Copynumber: 7.3 Consensus size: 18
17048496 ATTATAAAAC
*
17048506 AAATTTTAAATATATTTA
1 AAATTTAAAATATATTTA
17048524 AAATTTAAAATATACATTTA
1 AAATTTAAAATAT--ATTTA
* *
17048544 AAATATTATAAA-ACTAATAA
1 AAAT-TTA-AAATA-TATTTA
17048564 TAAATTTGAAAAGTCATATCTTTA
1 -AAATTT-AAAA-T-ATA--TTTA
*
17048588 AAATATTAAAAT-TCTTTA
1 AAAT-TTAAAATATATTTA
* *
17048606 TATTATTAAAAATATATTTA
1 -A-AATTTAAAATATATTTA
*
17048626 ATATTTAAAAAATAATATTTA
1 AAATTT--AAAAT-ATATTTA
17048647 AAATTT
1 AAATTT
17048653 TATAAAAAAT
Statistics
Matches: 99, Mismatches: 11, Indels: 35
0.68 0.08 0.24
Matches are distributed among these distances:
18 20 0.20
19 8 0.08
20 30 0.30
21 21 0.21
22 7 0.07
23 9 0.09
24 4 0.04
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (18 bp):
AAATTTAAAATATATTTA
Found at i:17048605 original size:18 final size:18
Alignment explanation
Indices: 17048582--17048616 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17048572 AAAAGTCATA
17048582 TCTTTAAAATATTAAAAT
1 TCTTTAAAATATTAAAAT
* *
17048600 TCTTTATATTATTAAAA
1 TCTTTAAAATATTAAAA
17048617 ATATATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
TCTTTAAAATATTAAAAT
Found at i:17048630 original size:18 final size:21
Alignment explanation
Indices: 17048613--17048652 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17048603 TTATATTATT
17048613 AAAAAT-ATATTTAATATTTA
1 AAAAATAATATTTAATATTTA
*
17048633 AAAAATAATATTTAAAATTT
1 AAAAATAATATTTAATATTT
17048653 TATAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAAATAATATTTAATATTTA
Found at i:17048637 original size:21 final size:22
Alignment explanation
Indices: 17048613--17048682 Score: 72
Period size: 24 Copynumber: 3.1 Consensus size: 22
17048603 TTATATTATT
*
17048613 AAAAATATATTT--AATATTTA
1 AAAAATATATTTAAAATTTTTA
17048633 AAAAATAATATTTAAAATTTTATA
1 AAAAAT-ATATTTAAAATTTT-TA
*
17048657 AAAAATATATTATAAAACATTTTA
1 AAAAATATATT-TAAAA-TTTTTA
17048681 AA
1 AA
17048683 TATACATTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
20 6 0.14
21 6 0.14
23 10 0.24
24 17 0.40
25 3 0.07
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAATATATTTAAAATTTTTA
Found at i:17048659 original size:23 final size:22
Alignment explanation
Indices: 17048612--17048673 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
17048602 TTTATATTAT
*
17048612 TAAAAAT-ATATTTAATATTTA
1 TAAAAATAATATTTAAAATTTA
17048633 -AAAAATAATATTTAAAATTTTA
1 TAAAAATAATATTTAAAA-TTTA
17048655 TAAAAA-ATATATTATAAAA
1 TAAAAATA-ATATT-TAAAA
17048674 CATTTTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
20 6 0.17
21 9 0.26
22 5 0.14
23 10 0.29
24 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAAATAATATTTAAAATTTA
Found at i:17056665 original size:35 final size:35
Alignment explanation
Indices: 17056626--17057042 Score: 381
Period size: 35 Copynumber: 12.0 Consensus size: 35
17056616 GTATTATCAA
* * *
17056626 ATCCATACTGAGTTAAGAAACGTAGGTATGGTATC
1 ATCCATACCGAGTTATGAAACGTAGGTATGGTATT
* * *
17056661 ATCCATACCGAGTTGTTAAATGTAGGTATGGTATT
1 ATCCATACCGAGTTATGAAACGTAGGTATGGTATT
* ** * * *
17056696 AACCATACTAAGTTGTGAAATGTAGGTATGGTATC
1 ATCCATACCGAGTTATGAAACGTAGGTATGGTATT
* * *
17056731 ATCCATACTGAGTTGTGAAACATAGGTATGGTATT
1 ATCCATACCGAGTTATGAAACGTAGGTATGGTATT
* *
17056766 AACCATACCGAGTTGTGAAACGTAGGTATGGTATT
1 ATCCATACCGAGTTATGAAACGTAGGTATGGTATT
* * * * * *
17056801 AACCATACTGAGCTGTGAAACATAGGTATGGCATT
1 ATCCATACCGAGTTATGAAACGTAGGTATGGTATT
*
17056836 -TCCATACCGAGCTATGAAACGTAGGTATGGTATT
1 ATCCATACCGAGTTATGAAACGTAGGTATGGTATT
* * ** *
17056870 -TCCATACCGAGCTATGAAACATAGGTATGGCGTC
1 ATCCATACCGAGTTATGAAACGTAGGTATGGTATT
* * * * * * *
17056904 GTCCATACTGAGCTATGATACATAGGTATGGCATC
1 ATCCATACCGAGTTATGAAACGTAGGTATGGTATT
* * * **
17056939 GTCCATACTGAGTTATAAAATATAGGTATGGTATT
1 ATCCATACCGAGTTATGAAACGTAGGTATGGTATT
* * * * *
17056974 TTCCATACCGAG-CATGAAAAGTAGGTATGATGTT
1 ATCCATACCGAGTTATGAAACGTAGGTATGGTATT
* *
17057008 TTCCATACCGAGTTGTGAAACGTAGGTATGGTATT
1 ATCCATACCGAGTTATGAAACGTAGGTATGGTATT
17057043 TCAATGAGGA
Statistics
Matches: 326, Mismatches: 54, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
34 87 0.27
35 239 0.73
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (35 bp):
ATCCATACCGAGTTATGAAACGTAGGTATGGTATT
Found at i:17056929 original size:173 final size:172
Alignment explanation
Indices: 17056599--17057044 Score: 455
Period size: 173 Copynumber: 2.5 Consensus size: 172
17056589 CATGGCAAAG
* * * *
17056599 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAACGTAGGTATGGTATCATC
1 TGTGAAATGTAGGTATGGTA-T-T--AA-CCATACTGAGCTATGAAACATAGGTATGG-AT-TTC
* * * * * * ** *
17056664 CATACCGAGTTGTTAAATGTAGGTATGGTATTAACCATACTAAGTTGTGAAATGTAGGTATGGTA
59 CATACCGAGTTGTGAAACGTAGGTATGGTATT-TCCATACCAAGCTATGAAACATAGGTATGGCA
* * * *
17056729 TCATCCATACTGAGTTGTGAAACATAGGTATGGTATTAACCATACCGAGT
123 TCATCCATACTGAGCTATGAAACATAGGTATGGCATCAACCATACCGAGT
* *
17056779 TGTGAAACGTAGGTATGGTATTAACCATACTGAGCTGTGAAACATAGGTATGGCATTTCCATACC
1 TGTGAAATGTAGGTATGGTATTAACCATACTGAGCTATGAAACATAGGTATGG-ATTTCCATACC
* * * * *
17056844 GAGCTATGAAACGTAGGTATGGTATTTCCATACCGAGCTATGAAACATAGGTATGGCGTCGTCCA
65 GAGTTGTGAAACGTAGGTATGGTATTTCCATACCAAGCTATGAAACATAGGTATGGCATCATCCA
* ** *
17056909 TACTGAGCTATGATACATAGGTATGGCATCGTCCATACTGAGT
130 TACTGAGCTATGAAACATAGGTATGGCATCAACCATACCGAGT
* * * ** * *
17056952 TATAAAATATAGGTATGGTATTTTCCATACCGAGC-ATGAAA-AGTAGGTATGATGTTTTCCATA
1 TGTGAAATGTAGGTATGGTATTAACCATACTGAGCTATGAAACA-TAGGTATG--GATTTCCATA
17057015 CCGAGTTGTGAAACGTAGGTATGGTATTTC
63 CCGAGTTGTGAAACGTAGGTATGGTATTTC
17057045 AATGAGGAAA
Statistics
Matches: 223, Mismatches: 40, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
171 1 0.00
172 13 0.06
173 128 0.57
174 31 0.14
175 27 0.12
176 2 0.01
178 1 0.00
179 1 0.00
180 19 0.09
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (172 bp):
TGTGAAATGTAGGTATGGTATTAACCATACTGAGCTATGAAACATAGGTATGGATTTCCATACCG
AGTTGTGAAACGTAGGTATGGTATTTCCATACCAAGCTATGAAACATAGGTATGGCATCATCCAT
ACTGAGCTATGAAACATAGGTATGGCATCAACCATACCGAGT
Found at i:17060464 original size:21 final size:20
Alignment explanation
Indices: 17060434--17060473 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
17060424 TAAAACTTGT
17060434 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
17060454 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
17060474 AATTCTCATA
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:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:17062676 original size:20 final size:21
Alignment explanation
Indices: 17062628--17062682 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
17062618 GTTGATACAA
17062628 GGCAAATAAGTTTGTTTAGGG
1 GGCAAATAAGTTTGTTTAGGG
17062649 GGCAAATAAGTTTGTTTAGGG
1 GGCAAATAAGTTTGTTTAGGG
*
17062670 GGC-AATATGTTTG
1 GGCAAATAAGTTTG
17062683 ATTTTGATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 9 0.27
21 24 0.73
ACGTcount: A:0.27, C:0.05, G:0.33, T:0.35
Consensus pattern (21 bp):
GGCAAATAAGTTTGTTTAGGG
Found at i:17064876 original size:20 final size:20
Alignment explanation
Indices: 17064851--17064893 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
17064841 CATTTTTTCA
*
17064851 AATCCTAATTTTCACCACTT
1 AATCCTAATTTTCACCACCT
17064871 AATCCTAATTTTCACCACCT
1 AATCCTAATTTTCACCACCT
17064891 AAT
1 AAT
17064894 TTTAGACCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (20 bp):
AATCCTAATTTTCACCACCT
Found at i:17081810 original size:21 final size:22
Alignment explanation
Indices: 17081786--17081829 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
17081776 ATTTTACAAA
*
17081786 TAAACATAAAAAAA-TTTATTT
1 TAAACACAAAAAAAGTTTATTT
* *
17081807 TAAATACAAAAAAAGTTTTTTT
1 TAAACACAAAAAAAGTTTATTT
17081829 T
1 T
17081830 GTAATTTCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (22 bp):
TAAACACAAAAAAAGTTTATTT
Found at i:17081984 original size:29 final size:30
Alignment explanation
Indices: 17081917--17081989 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 30
17081907 ATGTTTCAAG
* *
17081917 TCTTTGTACTCTTTATATATTTAGAATTTAG
1 TCTTTTTACT-TTTATATATTTAGAATTTAC
**
17081948 TCCCTTTACTTTTAT-T-TTTAGGAATTTAC
1 TCTTTTTACTTTTATATATTTA-GAATTTAC
*
17081977 TCTTTTTATTTTT
1 TCTTTTTACTTTT
17081990 CGAATCTAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
28 4 0.12
29 18 0.53
30 5 0.15
31 7 0.21
ACGTcount: A:0.21, C:0.12, G:0.07, T:0.60
Consensus pattern (30 bp):
TCTTTTTACTTTTATATATTTAGAATTTAC
Found at i:17088982 original size:22 final size:22
Alignment explanation
Indices: 17088954--17089002 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
17088944 ACCAAAATAG
*
17088954 GAGTTGAACATAAGGCTACTTT
1 GAGTTGAACATAAGGCTACGTT
17088976 GAGTTGAACATAAGGCTACGTT
1 GAGTTGAACATAAGGCTACGTT
17088998 GAGTT
1 GAGTT
17089003 ATTCAAAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (22 bp):
GAGTTGAACATAAGGCTACGTT
Found at i:17089899 original size:9 final size:9
Alignment explanation
Indices: 17089887--17089927 Score: 59
Period size: 8 Copynumber: 4.7 Consensus size: 9
17089877 CTCCAAATTT
17089887 TTATTTTTA
1 TTATTTTTA
17089896 TTATTTTTA
1 TTATTTTTA
17089905 TTA-TTTTA
1 TTATTTTTA
17089913 TT-TTTTTA
1 TTATTTTTA
17089921 TATATTT
1 T-TATTT
17089928 CGACAGCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 13 0.45
9 13 0.45
10 3 0.10
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTATTTTTA
Found at i:17089903 original size:15 final size:14
Alignment explanation
Indices: 17089883--17089921 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
17089873 AATACTCCAA
*
17089883 ATTTTTATTTTTATT
1 ATTTTTATTATT-TT
17089898 ATTTTTATTATTTT
1 ATTTTTATTATTTT
17089912 ATTTTT-TTAT
1 ATTTTTATTAT
17089922 ATATTTCGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 8 0.35
15 11 0.48
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTTATTATTTT
Found at i:17089913 original size:17 final size:17
Alignment explanation
Indices: 17089883--17089927 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
17089873 AATACTCCAA
17089883 ATTTTTA-T-TTTTATT
1 ATTTTTATTATTTTATT
17089898 ATTTTTATTATTTTATT
1 ATTTTTATTATTTTATT
17089915 -TTTTTATATATTT
1 ATTTTTAT-TATTT
17089928 CGACAGCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.26
16 8 0.30
17 12 0.44
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTATTATTTTATT
Found at i:17090460 original size:2 final size:2
Alignment explanation
Indices: 17090453--17090478 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17090443 ATCATTCAAT
17090453 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
17090479 CCATTCTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17090743 original size:45 final size:45
Alignment explanation
Indices: 17090693--17090803 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
17090683 AGCAGTAGCA
* *
17090693 GTAACAATAACAGTAACAGTATTCAACACACAAAATG-CTGAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAATGTC-GAATCG
* * * *
17090738 GTAACAGTAACGGTAACAGTATTCGACACATAAAGTGTCGAATCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAATGTCGAATCG
17090783 GTAACAGTAACAGTAACAGTA
1 GTAACAGTAACAGTAACAGTA
17090804 ACAATAGTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 57 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAATGTCGAATCG
Found at i:17091877 original size:13 final size:13
Alignment explanation
Indices: 17091840--17091878 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
17091830 TTCTTCTTTA
17091840 TTTTATTTTATTTC
1 TTTTATTTTA-TTC
* *
17091854 ATTTCTTTTATTC
1 TTTTATTTTATTC
17091867 TTTTATTTTATT
1 TTTTATTTTATT
17091879 AACTTTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTATTTTATTC
Found at i:17091893 original size:3 final size:3
Alignment explanation
Indices: 17091885--17091927 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
17091875 TATTAACTTT
*
17091885 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17091928 CAATTATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:17092223 original size:23 final size:20
Alignment explanation
Indices: 17092197--17092246 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 20
17092187 TTAATTTATT
17092197 TTTAATAATAAAAATAATCATAA
1 TTTAATAATAAAAAT--T-ATAA
*
17092220 TTTAATAATATAAATTATAA
1 TTTAATAATAAAAATTATAA
17092240 TTTAATA
1 TTTAATA
17092247 GAATAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.42
21 1 0.04
23 14 0.54
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTAATAATAAAAATTATAA
Found at i:17092227 original size:20 final size:20
Alignment explanation
Indices: 17092202--17092256 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
17092192 TTATTTTTAA
17092202 TAATAAAAATAATCATAATT
1 TAATAAAAATAATCATAATT
* *
17092222 TAAT-AATATAAATTATAATT
1 TAATAAAAAT-AATCATAATT
17092242 TAATAGAATAATAAT
1 TAATA-AA-AATAAT
17092257 AAATAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.14
20 17 0.61
22 5 0.18
23 2 0.07
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TAATAAAAATAATCATAATT
Found at i:17093758 original size:54 final size:54
Alignment explanation
Indices: 17093674--17093811 Score: 208
Period size: 54 Copynumber: 2.6 Consensus size: 54
17093664 TCTCATGGCA
*
17093674 GGATTA-TCAGTCTAGGCTAAAT-CCTCTATATCATGAACTCATAAGGTGATGTCG
1 GGATTACT-AGTCCAGGCTAAATCCCT-TATATCATGAACTCATAAGGTGATGTCG
*
17093728 GGATTACTAGTCCAGGCTAAATCCCTTATATCATGAACTCATAAGGTGATGTTG
1 GGATTACTAGTCCAGGCTAAATCCCTTATATCATGAACTCATAAGGTGATGTCG
* *
17093782 GGATTACCAGTCCAGGCTAAATCCTTTATA
1 GGATTACTAGTCCAGGCTAAATCCCTTATA
17093812 ACGACAAACA
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
54 74 0.95
55 4 0.05
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (54 bp):
GGATTACTAGTCCAGGCTAAATCCCTTATATCATGAACTCATAAGGTGATGTCG
Found at i:17099245 original size:28 final size:27
Alignment explanation
Indices: 17099185--17099246 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
17099175 AACTAAATTC
17099185 TAATTAATAAGAAAGTAAAAAAAAACT
1 TAATTAATAAGAAAGTAAAAAAAAACT
17099212 TAATTAATAAGAAAGTAAAAAAAAACT
1 TAATTAATAAGAAAGTAAAAAAAAACT
17099239 TACATTAA
1 TA-ATTAA
17099247 ATTTGATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 29 0.85
28 5 0.15
ACGTcount: A:0.65, C:0.05, G:0.06, T:0.24
Consensus pattern (27 bp):
TAATTAATAAGAAAGTAAAAAAAAACT
Found at i:17099509 original size:52 final size:52
Alignment explanation
Indices: 17099448--17099547 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 52
17099438 AATCAGATGG
*
17099448 ACAAATTTTTTATTTTGAGTATGAAAAATAATCCAATTTAATAGAAATATGA
1 ACAAATTTTTTATTTTAAGTATGAAAAATAATCCAATTTAATAGAAATATGA
*
17099500 ACAAATTTTTTATTTTAAGTATGAAAAATAATCTAATTTAATAGAAAT
1 ACAAATTTTTTATTTTAAGTATGAAAAATAATCCAATTTAATAGAAAT
17099548 TTTTTGATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (52 bp):
ACAAATTTTTTATTTTAAGTATGAAAAATAATCCAATTTAATAGAAATATGA
Found at i:17102368 original size:57 final size:57
Alignment explanation
Indices: 17102299--17102413 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
17102289 GCTCTCTCAT
17102299 AGATGTTTTAATTGTAGTGCTAAATTAGGCATTTGATTTGTCATGATCAGGATGCAG
1 AGATGTTTTAATTGTAGTGCTAAATTAGGCATTTGATTTGTCATGATCAGGATGCAG
17102356 AGATGTTTTAATTGTAGTGCTAAATTAGGCATTTGATTTGTCATGATCAGGATGCAG
1 AGATGTTTTAATTGTAGTGCTAAATTAGGCATTTGATTTGTCATGATCAGGATGCAG
17102413 A
1 A
17102414 TTTGATCATG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (57 bp):
AGATGTTTTAATTGTAGTGCTAAATTAGGCATTTGATTTGTCATGATCAGGATGCAG
Found at i:17105023 original size:34 final size:34
Alignment explanation
Indices: 17104980--17105047 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
17104970 CTTGATCTGA
17104980 ACCAAGTGATATCATTATCTGCACTGAATTAGCT
1 ACCAAGTGATATCATTATCTGCACTGAATTAGCT
17105014 ACCAAGTGATATCATTATCTGCACTGAATTAGCT
1 ACCAAGTGATATCATTATCTGCACTGAATTAGCT
17105048 TTACGCTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (34 bp):
ACCAAGTGATATCATTATCTGCACTGAATTAGCT
Found at i:17105177 original size:21 final size:21
Alignment explanation
Indices: 17105153--17105194 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17105143 ACATTATCCA
17105153 CTAGCTTATCTTGACATCCGT
1 CTAGCTTATCTTGACATCCGT
17105174 CTAGCTTATCTTGACATCCGT
1 CTAGCTTATCTTGACATCCGT
17105195 TTGAACTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.38
Consensus pattern (21 bp):
CTAGCTTATCTTGACATCCGT
Found at i:17106212 original size:204 final size:204
Alignment explanation
Indices: 17105862--17106274 Score: 817
Period size: 204 Copynumber: 2.0 Consensus size: 204
17105852 AAACTAAGAT
17105862 TAAATATAGAGTGTAAGCATTTTCTGTATGCTCTTGGCATTGACTTATGCATCCTTTCGCCTGCT
1 TAAATATAGAGTGTAAGCATTTTCTGTATGCTCTTGGCATTGACTTATGCATCCTTTCGCCTGCT
17105927 TATGCTTTCCAATGCTATGCTTTAAATGCCAAGTGAAGCCTATGCTCGGCAATGGATTTATGTGT
66 TATGCTTTCCAATGCTATGCTTTAAATGCCAAGTGAAGCCTATGCTCGGCAATGGATTTATGTGT
17105992 TTTTTGCCTCATGCTTTCCAACGCTCTGCATGCATTACTAGTAAATATCAGAAAGAGACGGTGTT
131 TTTTTGCCTCATGCTTTCCAACGCTCTGCATGCATTACTAGTAAATATCAGAAAGAGACGGTGTT
17106057 ATCTATACA
196 ATCTATACA
17106066 TAAATATAGAGTGTAAGCATTTTCTGTATGCTCTTGGCATTGACTTATGCATCCTTTCGCCTGCT
1 TAAATATAGAGTGTAAGCATTTTCTGTATGCTCTTGGCATTGACTTATGCATCCTTTCGCCTGCT
17106131 TATGCTTTCCAATGCTATGCTTTAAATGCCAAGTGAAGCCTATGCTCGGCAATGGATTTATGTGT
66 TATGCTTTCCAATGCTATGCTTTAAATGCCAAGTGAAGCCTATGCTCGGCAATGGATTTATGTGT
17106196 TTTTTGCCTCATGCTTTCCAACGCTCTGCATGCATTACTAGTAAATATCAGAAAGAGACGGTGTT
131 TTTTTGCCTCATGCTTTCCAACGCTCTGCATGCATTACTAGTAAATATCAGAAAGAGACGGTGTT
17106261 ATCTATACA
196 ATCTATACA
*
17106270 AAAAT
1 TAAAT
17106275 TCGCTTAAGT
Statistics
Matches: 208, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
204 208 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (204 bp):
TAAATATAGAGTGTAAGCATTTTCTGTATGCTCTTGGCATTGACTTATGCATCCTTTCGCCTGCT
TATGCTTTCCAATGCTATGCTTTAAATGCCAAGTGAAGCCTATGCTCGGCAATGGATTTATGTGT
TTTTTGCCTCATGCTTTCCAACGCTCTGCATGCATTACTAGTAAATATCAGAAAGAGACGGTGTT
ATCTATACA
Found at i:17113118 original size:21 final size:21
Alignment explanation
Indices: 17113094--17113133 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17113084 TCGTCTTCAT
* *
17113094 CGTTCAGAACGTCTTCGTTAA
1 CGTTAAGAACGTCGTCGTTAA
*
17113115 CGTTAAGGACGTCGTCGTT
1 CGTTAAGAACGTCGTCGTT
17113134 TTCGTCGACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.33
Consensus pattern (21 bp):
CGTTAAGAACGTCGTCGTTAA
Found at i:17115969 original size:14 final size:14
Alignment explanation
Indices: 17115950--17115976 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17115940 TTCCAACACT
17115950 AAAAAAAAAAGAAA
1 AAAAAAAAAAGAAA
17115964 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
17115977 GAAGAAGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAAA
Found at i:17118381 original size:21 final size:21
Alignment explanation
Indices: 17118355--17118416 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
17118345 GAAAGGGAGG
17118355 GTCTAAGTTACTTCTCTTTTT
1 GTCTAAGTTACTTCTCTTTTT
*
17118376 GTCTAAGTTGCTTCTCTTTTT
1 GTCTAAGTTACTTCTCTTTTT
* *
17118397 GTCTAACTCACTTC-CTTTTT
1 GTCTAAGTTACTTCTCTTTTT
17118417 TCTTTGTGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.16
21 31 0.84
ACGTcount: A:0.13, C:0.23, G:0.10, T:0.55
Consensus pattern (21 bp):
GTCTAAGTTACTTCTCTTTTT
Found at i:17121275 original size:34 final size:34
Alignment explanation
Indices: 17121231--17121337 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
17121221 GCATTTTTTC
17121231 ATACTGTTATTGTAATGGGCTAAAGCCCACACTG
1 ATACTGTTATTGTAATGGGCTAAAGCCCACACTG
* ** *
17121265 TTACTGTTATTGTAATGGGCTAACTCCCATACTG
1 ATACTGTTATTGTAATGGGCTAAAGCCCACACTG
* * *
17121299 ATACTGTTATTGTAATAGGCTAAGGCCCGCACTG
1 ATACTGTTATTGTAATGGGCTAAAGCCCACACTG
17121333 ATACT
1 ATACT
17121338 AGACTGTAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (34 bp):
ATACTGTTATTGTAATGGGCTAAAGCCCACACTG
Found at i:17121762 original size:29 final size:29
Alignment explanation
Indices: 17121725--17121784 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
17121715 GAAAGAACAT
17121725 TTTCAAAAACTAATAACAATTCAACATAC
1 TTTCAAAAACTAATAACAATTCAACATAC
*
17121754 TTTCGAAAACTAATAACAATTCAACATAC
1 TTTCAAAAACTAATAACAATTCAACATAC
17121783 TT
1 TT
17121785 AACATTTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (29 bp):
TTTCAAAAACTAATAACAATTCAACATAC
Found at i:17122865 original size:17 final size:17
Alignment explanation
Indices: 17122823--17122867 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
17122813 GCAGTTGTGT
* *
17122823 TTTTAAGAAAACCGTTG
1 TTTTAATAAAACCATTG
17122840 TTTGT-ATAAAACCATTG
1 TTT-TAATAAAACCATTG
17122857 TTTTAATAAAA
1 TTTTAATAAAA
17122868 AAATTTTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 1 0.04
17 22 0.92
18 1 0.04
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (17 bp):
TTTTAATAAAACCATTG
Done.