Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1985
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: 83953
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Found at i:6153 original size:34 final size:34
Alignment explanation
Indices: 6115--6179 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
6105 CTTCACAATA
6115 CTATCTTTT-CAAAGGCTAAGATAGAACCTCTTCC
1 CTATCTTTTAC-AAGGCTAAGATAGAACCTCTTCC
6149 CTATCTTTTACAAGGCTAAGATAGAACCTCT
1 CTATCTTTTACAAGGCTAAGATAGAACCTCT
6180 CAATCACTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (34 bp):
CTATCTTTTACAAGGCTAAGATAGAACCTCTTCC
Found at i:6876 original size:21 final size:21
Alignment explanation
Indices: 6851--6897 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
6841 TTATGTAATT
*
6851 GATACAAATAGTACATGTATC
1 GATACAAATAGTACATATATC
6872 GATACAAATAGTACATATATC
1 GATACAAATAGTACATATATC
6893 GATAC
1 GATAC
6898 TTTGAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.28
Consensus pattern (21 bp):
GATACAAATAGTACATATATC
Found at i:9253 original size:11 final size:11
Alignment explanation
Indices: 9232--9263 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
9222 AAGGAAAACA
9232 ATGAG-ATTTG
1 ATGAGAATTTG
9242 ATGAGAATTTG
1 ATGAGAATTTG
9253 ATGA-AATTTG
1 ATGAGAATTTG
9263 A
1 A
9264 AAAGATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (11 bp):
ATGAGAATTTG
Found at i:9475 original size:29 final size:29
Alignment explanation
Indices: 9425--9481 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
9415 ACAATTTTTT
* *
9425 TGTATCGATAGATCTAGGAAAAATCCAGC
1 TGTATCGATACATCTAGAAAAAATCCAGC
*
9454 TGTATCGATACATTCT-GAAAAATTCCAG
1 TGTATCGATACA-TCTAGAAAAAATCCAG
9482 AAGTACCTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (29 bp):
TGTATCGATACATCTAGAAAAAATCCAGC
Found at i:9564 original size:10 final size:10
Alignment explanation
Indices: 9549--9585 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
9539 AATCAAAATT
9549 CATTCAAAAA
1 CATTCAAAAA
*
9559 CATTCAAGAA
1 CATTCAAAAA
*
9569 CATTCATAAA
1 CATTCAAAAA
9579 CATTCAA
1 CATTCAA
9586 TTTGCACACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.51, C:0.22, G:0.03, T:0.24
Consensus pattern (10 bp):
CATTCAAAAA
Found at i:18686 original size:75 final size:76
Alignment explanation
Indices: 18540--18688 Score: 196
Period size: 75 Copynumber: 2.0 Consensus size: 76
18530 TTTTACGTCA
* *
18540 AAGGTATCCTTTAAGGGCATTTTTATATTTTTTTCAAAACCAACTCCTAGGTCGTCATCGGGTCT
1 AAGGTATCCCTTAAGGGCATTTTTATA-TTTTTTCAAAACCAACTCCTAGGTCGTCACCGGGTCT
*
18605 GGTTTTATGCCG
65 GATTTTATGCCG
* * *
18617 AAGGTATCCCTT-AGGAGCATTTTTGTA-TTTTTCAAAACTAACTCCTAGGTTGTCACCGGGT-T
1 AAGGTATCCCTTAAGG-GCATTTTTATATTTTTTCAAAACCAACTCCTAGGTCGTCACCGGGTCT
18679 CGATTTTATG
65 -GATTTTATG
18689 TAAAAAGTAG
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
74 1 0.02
75 39 0.61
76 3 0.05
77 21 0.33
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (76 bp):
AAGGTATCCCTTAAGGGCATTTTTATATTTTTTCAAAACCAACTCCTAGGTCGTCACCGGGTCTG
ATTTTATGCCG
Found at i:26066 original size:4 final size:4
Alignment explanation
Indices: 26057--26082 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
26047 TAACAAAAGA
26057 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
26083 TCATGGAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:30205 original size:23 final size:22
Alignment explanation
Indices: 30166--30209 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
30156 ATTAGTTATA
30166 GTTTAAAAAACATATTTCAAAG
1 GTTTAAAAAACATATTTCAAAG
30188 GTTT-AAAAACATGAATTTCAAA
1 GTTTAAAAAACAT--ATTTCAAA
30210 TTTACAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 4 0.20
23 8 0.40
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (22 bp):
GTTTAAAAAACATATTTCAAAG
Found at i:30213 original size:21 final size:20
Alignment explanation
Indices: 30165--30213 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 20
30155 AATTAGTTAT
30165 AGTTTAAAAAACATATTTCAA
1 AGTTT-AAAAACATATTTCAA
30186 AGGTTTAAAAACATGAATTTCAA
1 A-GTTTAAAAACAT--ATTTCAA
30209 A-TTTA
1 AGTTTA
30214 CAAATATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 13 0.52
22 4 0.16
23 8 0.32
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (20 bp):
AGTTTAAAAACATATTTCAA
Found at i:30704 original size:9 final size:10
Alignment explanation
Indices: 30678--30737 Score: 58
Period size: 9 Copynumber: 6.3 Consensus size: 10
30668 AAACTATATA
30678 TATATAATTAT
1 TATATAATT-T
30689 TATATAATTT
1 TATATAATTT
30699 TA-ATAATTT
1 TATATAATTT
*
30708 TATAT--TTA
1 TATATAATTT
30716 TATA-AATATT
1 TATATAAT-TT
30726 TAT-TAATTT
1 TATATAATTT
30735 TAT
1 TAT
30738 CAATACGTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
8 6 0.14
9 15 0.36
10 12 0.29
11 9 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TATATAATTT
Found at i:30719 original size:27 final size:28
Alignment explanation
Indices: 30680--30737 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
30670 ACTATATATA
30680 TATAATTATTATATAAT-TTTAATAATTT
1 TATAATTATTATA-AATATTTAATAATTT
* *
30708 TATATTTA-TATAAATATTTATTAATTT
1 TATAATTATTATAAATATTTAATAATTT
30735 TAT
1 TAT
30738 CAATACGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 3 0.11
27 17 0.63
28 7 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
TATAATTATTATAAATATTTAATAATTT
Found at i:32948 original size:13 final size:13
Alignment explanation
Indices: 32930--32963 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
32920 TTTATCATCA
32930 AATAAATATATTT
1 AATAAATATATTT
*
32943 AATAAAAGATATTT
1 AAT-AAATATATTT
32957 AATAAAT
1 AATAAAT
32964 TAAAATTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
AATAAATATATTT
Found at i:33398 original size:14 final size:14
Alignment explanation
Indices: 33375--33415 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
33365 GACTTATTTT
33375 TTAT-TTATAT-AA
1 TTATATTATATAAA
33387 TATATATTATATAAA
1 T-TATATTATATAAA
33402 TTATATTATATAAA
1 TTATATTATATAAA
33416 AAGTAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.04
13 3 0.12
14 19 0.73
15 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTATATTATATAAA
Found at i:34282 original size:12 final size:12
Alignment explanation
Indices: 34235--34292 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
34225 AAAAACCATT
*
34235 TTATTATTCATA
1 TTATTATTTATA
* *
34247 ATATTATTAAATA
1 TTATTATT-TATA
*
34260 TTAAT-TTTATA
1 TTATTATTTATA
34271 TTATTATTTATA
1 TTATTATTTATA
34283 -TATT-TTTATA
1 TTATTATTTATA
34293 ATTAAATAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 6 0.16
11 11 0.29
12 15 0.39
13 6 0.16
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTATTTATA
Found at i:35045 original size:21 final size:21
Alignment explanation
Indices: 35021--35074 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
35011 TAAAAAATAA
*
35021 ATAAATAAATAAA-TATGAATT
1 ATAAAT-AATAAATTATAAATT
*
35042 ATAAATTATAAATTATAAATT
1 ATAAATAATAAATTATAAATT
*
35063 AAAAATAATAAA
1 ATAAATAATAAA
35075 ATTAAGTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAATAATAAATTATAAATT
Found at i:35050 original size:7 final size:7
Alignment explanation
Indices: 35029--35074 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
35019 AAATAAATAA
35029 ATAAA-T
1 ATAAATT
*
35035 ATGAATT
1 ATAAATT
35042 ATAAATT
1 ATAAATT
35049 ATAAATT
1 ATAAATT
35056 ATAAATT
1 ATAAATT
* *
35063 AAAAATA
1 ATAAATT
35070 ATAAA
1 ATAAA
35075 ATTAAGTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 4 0.12
7 30 0.88
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (7 bp):
ATAAATT
Found at i:38207 original size:2 final size:2
Alignment explanation
Indices: 38200--38233 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
38190 CTTTTTGTAA
38200 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
38234 GGCTGATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41775 original size:8 final size:8
Alignment explanation
Indices: 41749--41874 Score: 54
Period size: 8 Copynumber: 15.9 Consensus size: 8
41739 TTTTTATAAT
41749 TATATTTA
1 TATATTTA
*
41757 -AAATATTA
1 TATAT-TTA
41765 TATATTTA
1 TATATTTA
*
41773 TATAATTTT
1 TAT-ATTTA
*
41782 TAATAAATTA
1 T-AT-ATTTA
41792 GTA-ATTTA
1 -TATATTTA
41800 TATTATTTA
1 TA-TATTTA
*
41809 AAT-TTTAA
1 TATATTT-A
*
41817 TATATTAA
1 TATATTTA
41825 TATA-TT-
1 TATATTTA
41831 TATA-TTA
1 TATATTTA
*
41838 AATATTTA
1 TATATTTA
*
41846 T-TTTTTA
1 TATATTTA
41853 TAT-TATTA
1 TATAT-TTA
41861 TAT-TTTA
1 TATATTTA
41868 TATATTT
1 TATATTT
41875 TTTAATTATT
Statistics
Matches: 91, Mismatches: 13, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
6 6 0.07
7 25 0.27
8 36 0.40
9 16 0.18
10 7 0.08
11 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (8 bp):
TATATTTA
Found at i:41898 original size:28 final size:27
Alignment explanation
Indices: 41821--41900 Score: 85
Period size: 26 Copynumber: 3.0 Consensus size: 27
41811 TTTTAATATA
* *
41821 TTAATATATTTATATTAAATATTTATTTT
1 TTAAT-TATTT-TATTATATATATATTTT
*
41850 TTATATTATTATATT-T-TATATATTTT
1 TTA-ATTATTTTATTATATATATATTTT
41876 TTAATTATTTTATTATATA-ATATTT
1 TTAATTATTTTATTATATATATATTT
41901 ATATCATATA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
25 10 0.23
26 19 0.43
27 2 0.05
28 4 0.09
29 7 0.16
30 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
TTAATTATTTTATTATATATATATTTT
Found at i:41937 original size:24 final size:24
Alignment explanation
Indices: 41887--41939 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
41877 TAATTATTTT
* *
41887 ATTATATAATATTTATATCATATA
1 ATTATATAATATTTAAATAATATA
*
41911 ATTATATTATATTTAAAATAATA-A
1 ATTATATAATATTT-AAATAATATA
41935 ATTAT
1 ATTAT
41940 TATAGACGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTATATAATATTTAAATAATATA
Found at i:42509 original size:13 final size:13
Alignment explanation
Indices: 42491--42515 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42481 ATAAATTATA
42491 TTTATATCATATT
1 TTTATATCATATT
42504 TTTATATCATAT
1 TTTATATCATAT
42516 CTAAAATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTATATCATATT
Found at i:47017 original size:15 final size:17
Alignment explanation
Indices: 46997--47029 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
46987 TTTTTTTATC
46997 ATTTTT-ATT-TAAAAT
1 ATTTTTAATTATAAAAT
47012 ATTTTTAATTATAAAAT
1 ATTTTTAATTATAAAAT
47029 A
1 A
47030 ATGAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTTAATTATAAAAT
Found at i:47286 original size:19 final size:19
Alignment explanation
Indices: 47239--47277 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
47229 GAAATTGGTT
47239 AAAGAAAAACA-GAAAAAAA
1 AAAGAAAAA-AGGAAAAAAA
47258 AAAGAAAAAAGGAAAAAAA
1 AAAGAAAAAAGGAAAAAAA
47277 A
1 A
47278 TATATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (19 bp):
AAAGAAAAAAGGAAAAAAA
Found at i:47948 original size:2 final size:2
Alignment explanation
Indices: 47941--47980 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
47931 AATTCAATAA
47941 AT AT 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 AT AT
47981 TGGTTTTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54925 original size:34 final size:34
Alignment explanation
Indices: 54887--54951 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
54877 AAGCTTAAGT
54887 TTTTCAATTTTAATAGGAATGGCGTGAATTATTA
1 TTTTCAATTTTAATAGGAATGGCGTGAATTATTA
* **
54921 TTTTCAATTTTAATAGGTATGGTTTGAATTA
1 TTTTCAATTTTAATAGGAATGGCGTGAATTA
54952 ATGTTCACGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.48
Consensus pattern (34 bp):
TTTTCAATTTTAATAGGAATGGCGTGAATTATTA
Found at i:55523 original size:13 final size:13
Alignment explanation
Indices: 55505--55531 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55495 TAATCTAAAC
55505 AATATATGACACA
1 AATATATGACACA
55518 AATATATGACACA
1 AATATATGACACA
55531 A
1 A
55532 TTTTAAACTT
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:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
AATATATGACACA
Found at i:56611 original size:23 final size:23
Alignment explanation
Indices: 56585--56652 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
56575 TTTATTATAT
56585 TATTAAAATATTATTTATATTAA
1 TATTAAAATATTATTTATATTAA
* *
56608 TATTAATATATT-TTTAAAATTAA
1 TATTAAAATATTATTT-ATATTAA
* *
56631 -ATTTAAAATAATATTTTTATTA
1 TA-TTAAAATATTATTTATATTA
56653 TTAAATATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
22 4 0.11
23 29 0.81
24 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAAAATATTATTTATATTAA
Found at i:56635 original size:34 final size:34
Alignment explanation
Indices: 56580--56667 Score: 85
Period size: 34 Copynumber: 2.6 Consensus size: 34
56570 CAATTTTTAT
* * *
56580 TATATTATTAAAATATTATTTATATTAATATTAA
1 TATATTATTAAAATATAATTTAAAATAATATTAA
*
56614 TATATTTTTAAAAT-TAAATTTAAAATAATATT--
1 TATATTATTAAAATAT-AATTTAAAATAATATTAA
*
56646 TTTATTATT-AAATATTAATTTA
1 TATATTATTAAAATA-TAATTTA
56668 GTTGAATCGA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
31 4 0.09
32 13 0.29
33 2 0.04
34 26 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (34 bp):
TATATTATTAAAATATAATTTAAAATAATATTAA
Found at i:56855 original size:18 final size:18
Alignment explanation
Indices: 56828--56862 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56818 TTAACTGAAA
*
56828 TTTATATTATGTATAAAG
1 TTTATATTATATATAAAG
*
56846 TTTATTTTATATATAAA
1 TTTATATTATATATAAA
56863 TTATATCAAA
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:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (18 bp):
TTTATATTATATATAAAG
Found at i:59700 original size:17 final size:16
Alignment explanation
Indices: 59681--59784 Score: 82
Period size: 16 Copynumber: 6.4 Consensus size: 16
59671 CAATAATTTG
59681 AAAATGACCCGAACCC
1 AAAATGACCCGAACCC
* * *
59697 GAAAATAACTCAAACCC
1 -AAAATGACCCGAACCC
*
59714 AAAATGACTCGAACCC
1 AAAATGACCCGAACCC
* *
59730 AAAATGATCCGAAACC
1 AAAATGACCCGAACCC
*** *
59746 AAAATGATATGAACTC
1 AAAATGACCCGAACCC
* **
59762 GAAATGACCTAAACCC
1 AAAATGACCCGAACCC
59778 AAAATGA
1 AAAATGA
59785 TATGAACTCG
Statistics
Matches: 69, Mismatches: 18, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
16 56 0.81
17 13 0.19
ACGTcount: A:0.49, C:0.26, G:0.12, T:0.13
Consensus pattern (16 bp):
AAAATGACCCGAACCC
Found at i:59723 original size:16 final size:16
Alignment explanation
Indices: 59681--59752 Score: 83
Period size: 16 Copynumber: 4.4 Consensus size: 16
59671 CAATAATTTG
*
59681 AAAATGACCCGAACCC
1 AAAATGACTCGAACCC
* *
59697 GAAAATAACTCAAACCC
1 -AAAATGACTCGAACCC
59714 AAAATGACTCGAACCC
1 AAAATGACTCGAACCC
*
59730 AAAATGA-TCCGAAACC
1 AAAATGACT-CGAACCC
59746 AAAATGA
1 AAAATGA
59753 TATGAACTCG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
15 1 0.02
16 34 0.71
17 13 0.27
ACGTcount: A:0.50, C:0.28, G:0.11, T:0.11
Consensus pattern (16 bp):
AAAATGACTCGAACCC
Found at i:59766 original size:16 final size:16
Alignment explanation
Indices: 59747--59801 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
59737 TCCGAAACCA
59747 AAATGATATGAACTCG
1 AAATGATATGAACTCG
** * * *
59763 AAATGACCTAAACCCA
1 AAATGATATGAACTCG
59779 AAATGATATGAACTCG
1 AAATGATATGAACTCG
59795 AAATGAT
1 AAATGAT
59802 CTAAATAATT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.22
Consensus pattern (16 bp):
AAATGATATGAACTCG
Found at i:59767 original size:32 final size:33
Alignment explanation
Indices: 59708--59802 Score: 124
Period size: 32 Copynumber: 2.9 Consensus size: 33
59698 AAAATAACTC
* * *
59708 AAACCCAAAATGACT-CGAACCCAAAATGATCCG
1 AAACCCAAAATGA-TATGAACTCGAAATGATCCG
*
59741 AAA-CCAAAATGATATGAACTCGAAATGA-CCT
1 AAACCCAAAATGATATGAACTCGAAATGATCCG
59772 AAACCCAAAATGATATGAACTCGAAATGATC
1 AAACCCAAAATGATATGAACTCGAAATGATC
59803 TAAATAATTA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
31 6 0.11
32 45 0.82
33 4 0.07
ACGTcount: A:0.47, C:0.23, G:0.13, T:0.17
Consensus pattern (33 bp):
AAACCCAAAATGATATGAACTCGAAATGATCCG
Found at i:59821 original size:23 final size:23
Alignment explanation
Indices: 59795--59853 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
59785 TATGAACTCG
*
59795 AAATGATCTAAATAATTAACCCA
1 AAATGATCTAAACAATTAACCCA
* *
59818 AAATTG-CCTGAACAATTAACCCA
1 AAA-TGATCTAAACAATTAACCCA
*
59841 AAATGATCCAAAC
1 AAATGATCTAAAC
59854 TTAAATTAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 2 0.07
23 24 0.86
24 2 0.07
ACGTcount: A:0.49, C:0.22, G:0.07, T:0.22
Consensus pattern (23 bp):
AAATGATCTAAACAATTAACCCA
Found at i:60423 original size:16 final size:16
Alignment explanation
Indices: 60380--60480 Score: 69
Period size: 16 Copynumber: 6.2 Consensus size: 16
60370 CTGATTAACT
*
60380 TGAATCCGAAATGACC
1 TGAACCCGAAATGACC
**
60396 TGAACCTAAAATGACC
1 TGAACCCGAAATGACC
* *
60412 TAAACCCGAAATGA-T
1 TGAACCCGAAATGACC
*
60427 TCGAACCCGAAGTGACC
1 T-GAACCCGAAATGACC
** * * *
60444 CAAACCCAAAACGATC
1 TGAACCCGAAATGACC
*
60460 TGAACCCGAAAATAACC
1 TGAACCCG-AAATGACC
60477 TGAA
1 TGAA
60481 AATTTTAAAA
Statistics
Matches: 60, Mismatches: 22, Indels: 5
0.69 0.25 0.06
Matches are distributed among these distances:
15 1 0.02
16 50 0.83
17 9 0.15
ACGTcount: A:0.43, C:0.28, G:0.15, T:0.15
Consensus pattern (16 bp):
TGAACCCGAAATGACC
Found at i:60443 original size:32 final size:32
Alignment explanation
Indices: 60407--60469 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
60397 GAACCTAAAA
* * *
60407 TGACCTAAACCCGAAATGAT-TCGAACCCGAAG
1 TGACCCAAACCCAAAACGATCT-GAACCCGAAG
60439 TGACCCAAACCCAAAACGATCTGAACCCGAA
1 TGACCCAAACCCAAAACGATCTGAACCCGAA
60470 AATAACCTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.40, C:0.32, G:0.16, T:0.13
Consensus pattern (32 bp):
TGACCCAAACCCAAAACGATCTGAACCCGAAG
Found at i:61927 original size:20 final size:20
Alignment explanation
Indices: 61899--61973 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
61889 TTTTACCCAG
61899 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
61919 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
61939 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
61959 ATGTATCGATACATT
1 ATGTATCGATACATT
61974 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:61959 original size:40 final size:39
Alignment explanation
Indices: 61899--61976 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
61889 TTTTACCCAG
*
61899 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
61939 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
61977 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:66393 original size:13 final size:13
Alignment explanation
Indices: 66375--66401 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66365 ACATTATGCT
66375 TTGTATCGATACA
1 TTGTATCGATACA
66388 TTGTATCGATACA
1 TTGTATCGATACA
66401 T
1 T
66402 GCTCATTATA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:66439 original size:20 final size:19
Alignment explanation
Indices: 66387--66441 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
66377 GTATCGATAC
*
66387 ATTGTATCGATACATGCTC
1 ATTGTATCGATACATGCTA
* *
66406 ATTATATTGATACATAGAC-A
1 ATTGTATCGATACAT-G-CTA
66426 ATTGTATCGATACATG
1 ATTGTATCGATACATG
66442 AGATTGGCAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 14 0.48
20 14 0.48
21 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACATGCTA
Found at i:71075 original size:20 final size:20
Alignment explanation
Indices: 71050--71115 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
71040 TTTGCCTGCA
71050 TGTATCGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
71070 TGTATCGATAC----A--A-
1 TGTATCGATACAAAGATCAG
71083 TGTATCGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
71103 TGTATCGATACAA
1 TGTATCGATACAA
71116 TGTATCGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 1 0.03
17 1 0.03
19 1 0.03
20 24 0.62
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAAAGATCAG
Found at i:71088 original size:13 final size:13
Alignment explanation
Indices: 71070--71127 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
71060 CAAAGATCAG
71070 TGTATCGATACAA
1 TGTATCGATACAA
71083 TGTATCGATACAA
1 TGTATCGATACAA
*
71096 ---A--GAT-CAG
1 TGTATCGATACAA
71103 TGTATCGATACAA
1 TGTATCGATACAA
71116 TGTATCGATACA
1 TGTATCGATACA
71128 TTTGAGTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
7 2 0.05
8 3 0.08
10 2 0.05
12 3 0.08
13 27 0.73
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:71091 original size:33 final size:33
Alignment explanation
Indices: 71049--71127 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
71039 ATTTGCCTGC
71049 ATGTATCGATACAAAGATCAGTGTATCGATACA
1 ATGTATCGATACAAAGATCAGTGTATCGATACA
71082 ATGTATCGATACAAAGATCAGTGTATCGATACA
1 ATGTATCGATACAAAGATCAGTGTATCGATACA
71115 ATGTATCGATACA
1 ATGTATCGATACA
71128 TTTGAGTAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAGTGTATCGATACA
Found at i:71191 original size:13 final size:13
Alignment explanation
Indices: 71173--71201 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
71163 GCTTCATAGT
71173 GATACATTGTATC
1 GATACATTGTATC
71186 GATACATTGTATC
1 GATACATTGTATC
71199 GAT
1 GAT
71202 GCAACACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:78523 original size:20 final size:20
Alignment explanation
Indices: 78476--78550 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
78466 AAAAAGACAT
*
78476 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
78495 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
78516 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
78536 AATGTATCGATACAT
1 AATGTATCGATACAT
78551 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:78544 original size:40 final size:39
Alignment explanation
Indices: 78473--78550 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
78463 GTTAAAAAGA
* *
78473 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
78512 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
78551 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:79039 original size:45 final size:48
Alignment explanation
Indices: 78939--79047 Score: 125
Period size: 45 Copynumber: 2.3 Consensus size: 48
78929 CAATGTGCCA
* * *
78939 ATTCAAAGTCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATGTGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAA-GGAAAAGTGGACCAATATGCTG
* * *
78988 ACTCAAGGCCAGCGACATTGGGCTTA-GAAAGGT-G-CCAATATGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAAGGAAAAGTGGACCAATATGCTG
*
79033 ATTCAAGGCTAGCGA
1 ATTCAAGGCCAGCGA
79048 TATCGGACTT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
45 23 0.44
46 1 0.02
47 6 0.12
49 22 0.42
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.20
Consensus pattern (48 bp):
ATTCAAGGCCAGCGACATTGGGCTAAGGAAAAGTGGACCAATATGCTG
Found at i:79133 original size:32 final size:32
Alignment explanation
Indices: 79078--79967 Score: 1290
Period size: 32 Copynumber: 27.9 Consensus size: 32
79068 AAAATGGTGA
* * * **
79078 TTTGAAAAGGGTTACCACTGACTTACGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
79110 TTTTAAATGGGTTGCCACAGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
79142 TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
79174 TTTGAAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
79206 TTTGGAATGGGTAGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
79238 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
79270 TTTGAAATGTGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
79302 TTTGAAAAGGGTTTCCACCAACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
79334 TTTGAAAAGTGTTTCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
79366 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
79398 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
79430 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
79462 TTTGAAAAT-GGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
*
79494 TTTGAAATGGGTTGCCACCGACTTTTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
79526 TTTGAAATGGGTTGCCAGCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
79558 TTTGAAATAGGTTGCCACCGATTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
79590 TTTGAAAAT-GGTTGCCACCGACTTGTGTGGG-
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
79621 TTTGAAAT-GGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
79652 TTTGAAAAT--GTTGCCACCGACTTGTGTGGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGT-GGGC
*
79684 TTTGAAAAT-TGTTGCCACCGACTTGTGGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGT-GTGGGC
79717 TTTGAAATGGGTTG-CACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
79748 TTTGAAATGGGTTGCCACCGACTTGTGTGGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGT-GGGC
79781 TTTGAAAATGGGTTGCCACCGACTTGTG-GGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
79813 TTTGAAAAT-GGTTG-CACCGACTTGTGT-GGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
*
79843 TTTTGAAAATTGGTTGCCACCGACTTGTGTGGGC
1 -TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
* *
79877 -TTGAAAT-GGTTGCCACCGACTTTTTTGGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGT-GGGC
*
79908 -TTGAAATAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
79939 TTTGAAATGGGTTGCCA-CGACTTGTGTGG
1 TTTGAAATGGGTTGCCACCGACTTGTGTGG
79968 ATTTTAAAAG
Statistics
Matches: 793, Mismatches: 45, Indels: 41
0.90 0.05 0.05
Matches are distributed among these distances:
30 58 0.07
31 95 0.12
32 556 0.70
33 56 0.07
34 28 0.04
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:80000 original size:28 final size:28
Alignment explanation
Indices: 79963--81218 Score: 490
Period size: 27 Copynumber: 46.6 Consensus size: 28
79953 CCACGACTTG
79963 TGTGGATTTTAAAAGAGTGCCACGGAGTT
1 TGTGGATTTTAAAAG-GTGCCACGGAGTT
*
79992 TG-GGATTTTTAAAAGGTGCCACAGAG-T
1 TGTGGA-TTTTAAAAGGTGCCACGGAGTT
* *
80019 TGTGGACTTAAAAAGGT-CCACGGAG-T
1 TGTGGATTTTAAAAGGTGCCACGGAGTT
** *
80045 TGTGG-TCTAAACAAAAGGATGCTAGACGGA-TT
1 TGTGGAT-T--TTAAAAGG-TGC--CACGGAGTT
80077 TGTGGA--TT---A--TGCCCACGGAGTTT
1 TGTGGATTTTAAAAGGTG-CCACGGAG-TT
*
80100 TGTGGA-CTTAAAAGGGTGCCACGGAG-T
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
* *
80127 TGTGTA-CTTAAAAGGGTG-CACGGAG-T
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
** *
80153 TGT--AACTTAAAAGGATGCCACGAAG-T
1 TGTGGATTTTAAAAGG-TGCCACGGAGTT
**
80179 TGTGGACTTAAAAAAGGGATGCCACGGAG-T
1 TGTGGA-TTTTAAAA-GG-TGCCACGGAGTT
* *
80209 TGTTG-TACTTAAAAGGTGCCACGGAG-T
1 TGTGGAT-TTTAAAAGGTGCCACGGAGTT
*
80236 TGTGGA-CTTAAAAGGTGCCACGGAG-T
1 TGTGGATTTTAAAAGGTGCCACGGAGTT
* * *
80262 TGTGGA-CTAAAAAGGGTGCCACAGAG-T
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
* * * *
80289 TGTGGACTTAAAAAAGTGCCACAGAG-T
1 TGTGGATTTTAAAAGGTGCCACGGAGTT
* *
80316 TGTGGA-CTTAAAAGATATGCCACGGAGTT
1 TGTGGATTTTAAAAG--GTGCCACGGAGTT
* *
80345 ATG-GGA-CTTAAAAGGGTGCCACAGAG-T
1 -TGTGGATTTTAAAA-GGTGCCACGGAGTT
*
80372 TGTGGA-CTTAAAAGGGTGCCACGGAGTT
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
*
80400 TGTGG-TCTTAAAAGGGATTGCCACGGAG-T
1 TGTGGATTTTAAAA-GG--TGCCACGGAGTT
*
80429 TGTGGA-CTTAAAAGGGTGCCACGGAG-T
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
*
80456 TGTGGA-CTTAAAAGGGTGCCACGGAG-T
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
* *
80483 TGTGGA-CTTAAAAGAATGCCAC-GAG-T
1 TGTGGATTTTAAAAG-GTGCCACGGAGTT
* *
80509 TGTGGACTTTAAAAGGATGCCACGAAG-T
1 TGTGGATTTTAAAAGG-TGCCACGGAGTT
*
80537 TGTGGA-CTT---A--TGCCACGGAG-T
1 TGTGGATTTTAAAAGGTGCCACGGAGTT
* **
80558 TATGGA-CGTAAAAGGGATGCCACGGAG-T
1 TGTGGATTTTAAAA-GG-TGCCACGGAGTT
* * *
80586 TGTGGA-CTTAAAAGGGTGCCAC-AAGAT
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
*
80613 TGTGGA-CTTAAAAGGTTGCCACGGAG-T
1 TGTGGATTTTAAAAGG-TGCCACGGAGTT
*
80640 TGTGGA-CTTAAAAGGGTGCCACGGAG--
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
* *
80666 T-TGGA-CTTAAAGGGTGCCACGGAG-T
1 TGTGGATTTTAAAAGGTGCCACGGAGTT
* *
80691 TGTGGA-CTTAAAAGAATGCCACGGAG-T
1 TGTGGATTTTAAAAG-GTGCCACGGAGTT
* *
80718 TGTGGA-CTTAAAAGGATGCCACGAAG-T
1 TGTGGATTTTAAAAGG-TGCCACGGAGTT
*
80745 TGTGGA-CTT---A--TGCCACGGAG-T
1 TGTGGATTTTAAAAGGTGCCACGGAGTT
*
80766 TGTGGA-CTTAAAAGGATGCCAC-GAG-T
1 TGTGGATTTTAAAAGG-TGCCACGGAGTT
*
80792 TGTGGA-CTTAAAATGGTGCCACGGAG-T
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
* *
80819 TGTGGA-CTTAAAAGGGATGCCACGAAG-T
1 TGTGGATTTTAAAA-GG-TGCCACGGAGTT
* *
80847 TGTGGA-CTTAAATGGGTGCCACGGAG-T
1 TGTGGATTTTAAA-AGGTGCCACGGAGTT
*
80874 TGTGGA-CTTAAAAGGGTGCCACGGAG-T
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
* *
80901 TGTGGA-CTTAAAAGGGTGTCACGGAG-T
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
* * *
80928 TGTGGACTTAAAAAGAATGCCACGGAG-T
1 TGTGGATTTTAAAAG-GTGCCACGGAGTT
*
80956 TGTGGA-CTTAAAAGGGTGCCAC-GAG-T
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
**
80982 TGT-GAACTTAAAAGGGTGCCACGGAG-T
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
* * *
81009 TGTGGA-CTAAAAAGGGTGCCACAGAG-T
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
* * **
81036 TGTAGACTTTAAAAGGGTGCCACAAAG-T
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
* * *
81064 TATGGA-CTTAAAAGGGTGCCACAGAG-T
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
* * * *
81091 TGTGGACTTAAAATAGATGCCACAGAG-T
1 TGTGGATTTTAAA-AGGTGCCACGGAGTT
* *
81119 TATGGA-CTTAAAAGGGTGCCACGGAG-T
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
* *
81146 TGTGGA-CTTAAAAGGGATGCCACGGA-AT
1 TGTGGATTTTAAAA-GG-TGCCACGGAGTT
*
81174 TGTGGA-CTTAAAAGGGTGCCACGGAG-T
1 TGTGGATTTTAAAA-GGTGCCACGGAGTT
*
81201 TGTGGACTTTAAAGAGGT
1 TGTGGATTTTAAA-AGGT
81219 CACAGTACTA
Statistics
Matches: 1052, Mismatches: 87, Indels: 177
0.80 0.07 0.13
Matches are distributed among these distances:
21 41 0.04
22 2 0.00
23 9 0.01
24 21 0.02
25 23 0.02
26 148 0.14
27 478 0.45
28 229 0.22
29 57 0.05
30 33 0.03
32 11 0.01
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.24
Consensus pattern (28 bp):
TGTGGATTTTAAAAGGTGCCACGGAGTT
Found at i:80061 original size:55 final size:54
Alignment explanation
Indices: 79963--81218 Score: 1405
Period size: 55 Copynumber: 23.3 Consensus size: 54
79953 CCACGACTTG
* * * *
79963 TGTGGATTTTAAAAGAGTGCCACGGAGTT-TGGGATTTTTAAAA-GGTGCCACAGAGT
1 TGTGGACTTAAAAAG-GTGCCACGGAGTTGT-GGA--CTTAAAAGGGTGCCACGGAGT
* * * * *
80019 TGTGGACTTAAAAAGGT-CCACGGAGTTGTGGTCTAAACAAAAGGATGCTAGACGGATT
1 TGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACT---TAAAAGGGTGC--CACGGAGT
80077 TGTGGA-TT----A--TGCCCACGGAGTTTTGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTAAAAAGGTG-CCACGGAG--TTGTGGACTTAAAAGGGTGCCACGGAGT
* * * * *
80127 TGTGTACTTAAAAGGGTG-CACGGAGTTGT-AACTTAAAAGGATGCCACGAAGT
1 TGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
*
80179 TGTGGACTTAAAAAAGGGATGCCACGGAGTTGTTGTACTTAAAA-GGTGCCACGGAGT
1 TGTGGACTT-AAAAA-GG-TGCCACGGAGTTG-TGGACTTAAAAGGGTGCCACGGAGT
* *
80236 TGTGGACTT-AAAAGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACAGAGT
1 TGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* * **
80289 TGTGGACTTAAAAAAGTGCCACAGAGTTGTGGACTTAAAAGATATGCCACGGAGT
1 TGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGT
* * *
80344 TATGGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
1 TGT-GGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG-T
* *
80400 TGTGGTCTTAAAAGGGATTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTAAAAAGG--TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* **
80456 TGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCAC-GAGT
1 TGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
80509 TGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTT---A---TGCCACGGAGT
1 TGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* * * *
80558 TATGGACGTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC-AAGAT
1 TGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG-T
80613 TGTGGACTT-AAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG-
1 TGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* **
80666 T-TGGACTT-AAAGGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGT
1 TGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
*
80718 TGTGGACTT-AAAAGGATGCCACGAAGTTGTGGACTT---A---TGCCACGGAGT
1 TGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
*
80766 TGTGGACTT-AAAAGGATGCCAC-GAGTTGTGGACTTAAAATGGTGCCACGGAGT
1 TGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* * *
80819 TGTGGACTTAAAAGGGATGCCACGAAGTTGTGGACTTAAATGGGTGCCACGGAGT
1 TGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
80874 TGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGT
1 TGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
*
80928 TGTGGACTTAAAAAGAATGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC-GAGT
1 TGTGGACTTAAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* * * *
80982 TGTGAACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACAGAGT
1 TGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* * ** * *
81036 TGTAGACTTTAAAAGGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCACAGAGT
1 TGTGGAC-TTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* * *
81091 TGTGGACTTAAAATAGATGCCACAGAGTTATGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTAAAA-AGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
81146 TGTGGACTTAAAAGGGATGCCACGGAATTGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
*
81201 TGTGGACTTTAAAGAGGT
1 TGTGGAC-TTAAAAAGGT
81219 CACAGTACTA
Statistics
Matches: 1046, Mismatches: 96, Indels: 117
0.83 0.08 0.09
Matches are distributed among these distances:
47 12 0.01
48 39 0.04
49 36 0.03
50 12 0.01
51 40 0.04
52 61 0.06
53 134 0.13
54 247 0.24
55 296 0.28
56 89 0.09
57 61 0.06
58 19 0.02
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.24
Consensus pattern (54 bp):
TGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
Found at i:80136 original size:27 final size:27
Alignment explanation
Indices: 80089--81214 Score: 1488
Period size: 27 Copynumber: 41.9 Consensus size: 27
80079 TGGATTATGC
80089 CCACGGAGTTTTGTGGACTTAAAAGGGTG
1 CCACGGAG--TTGTGGACTTAAAAGGGTG
*
80118 CCACGGAGTTGTGTACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
* *
80145 -CACGGAGTTGT-AACTTAAAAGGATG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
80170 CCACGAAGTTGTGGACTTAAAAAAGGGATG
1 CCACGGAGTTGTGGACTT--AAAAGGG-TG
*
80200 CCACGGAGTTGTTGTACTTAAAA-GGTG
1 CCACGGAGTTG-TGGACTTAAAAGGGTG
80227 CCACGGAGTTGTGGACTTAAAA-GGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
80253 CCACGGAGTTGTGGACTAAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
* **
80280 CCACAGAGTTGTGGACTTAAAAAAGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
* **
80307 CCACAGAGTTGTGGACTTAAAAGATATG
1 CCACGGAGTTGTGGACTTAAAAG-GGTG
*
80335 CCACGGAGTTATGGGACTTAAAAGGGTG
1 CCACGGAGTTGT-GGACTTAAAAGGGTG
*
80363 CCACAGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
80390 CCACGGAGTTTGTGGTCTTAAAAGGGATTG
1 CCACGGAG-TTGTGGACTTAAAAGGG--TG
80420 CCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
80447 CCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
**
80474 CCACGGAGTTGTGGACTTAAAAGAATG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
80501 CCAC-GAGTTGTGGACTTTAAAAGGATG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
*
80528 CCACGAAGTTGTGGACTT---A---TG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
* *
80549 CCACGGAGTTATGGACGTAAAAGGGATG
1 CCACGGAGTTGTGGACTTAAAAGGG-TG
80577 CCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
* *
80604 CCAC-AAGATTGTGGACTTAAAAGGTTG
1 CCACGGAG-TTGTGGACTTAAAAGGGTG
80631 CCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
80658 CCACGGAG-T-TGGACTT-AAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
**
80682 CCACGGAGTTGTGGACTTAAAAGAATG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
80709 CCACGGAGTTGTGGACTTAAAAGGATG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
80736 CCACGAAGTTGTGGACTT---A---TG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
80757 CCACGGAGTTGTGGACTTAAAAGGATG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
80784 CCAC-GAGTTGTGGACTTAAAATGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
80810 CCACGGAGTTGTGGACTTAAAAGGGATG
1 CCACGGAGTTGTGGACTTAAAAGGG-TG
* *
80838 CCACGAAGTTGTGGACTTAAATGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
80865 CCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
80892 CCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
* **
80919 TCACGGAGTTGTGGACTTAAAAAGAATG
1 CCACGGAGTTGTGGACTT-AAAAGGGTG
80947 CCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
80974 CCAC-GAGTTGTGAACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
81000 CCACGGAGTTGTGGACTAAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
* *
81027 CCACAGAGTTGTAGACTTTAAAAGGGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
** *
81055 CCACAAAGTTATGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
* * *
81082 CCACAGAGTTGTGGACTTAAAATAGATG
1 CCACGGAGTTGTGGACTTAAAA-GGGTG
* *
81110 CCACAGAGTTATGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
81137 CCACGGAGTTGTGGACTTAAAAGGGATG
1 CCACGGAGTTGTGGACTTAAAAGGG-TG
*
81165 CCACGGAATTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
81192 CCACGGAGTTGTGGACTTTAAAG
1 CCACGGAGTTGTGGACTTAAAAG
81215 AGGTCACAGT
Statistics
Matches: 980, Mismatches: 78, Indels: 80
0.86 0.07 0.07
Matches are distributed among these distances:
21 36 0.04
24 20 0.02
25 20 0.02
26 126 0.13
27 504 0.51
28 201 0.21
29 45 0.05
30 22 0.02
31 6 0.01
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.23
Consensus pattern (27 bp):
CCACGGAGTTGTGGACTTAAAAGGGTG
Found at i:80358 original size:54 final size:54
Alignment explanation
Indices: 80089--81214 Score: 1463
Period size: 55 Copynumber: 20.9 Consensus size: 54
80079 TGGATTATGC
* *
80089 CCACGGAGTTTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGTACTTAAAAGGGTG
1 CCACGGAG--TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATG
* * *
80145 -CACGGAGTTGT-AACTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAAAGGGATG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT--AAAA-GGATG
*
80200 CCACGGAGTTGTTGTACTTAAAA-GGTGCCACGGAGTTGTGGACTTAAAAGG-TG
1 CCACGGAGTTG-TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATG
* * *
80253 CCACGGAGTTGTGGACTAAAAAGGGTGCCACAGAGTTGTGGACTTAAAA-AAGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA-TG
* ** * *
80307 CCACAGAGTTGTGGACTTAAAAGATATGCCACGGAGTTATGGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGT-GGACTTAAAAGGATG
* *
80363 CCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTTGTGGTCTTAAAAGGGATTG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG-TTGTGGACTTAAAA-GGA-TG
*
80420 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATG
**
80474 CCACGGAGTTGTGGACTTAAAAGAATGCCAC-GAGTTGTGGACTTTAAAAGGATG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATG
* * *
80528 CCACGAAGTTGTGGACTT---A---TGCCACGGAGTTATGGACGTAAAAGGGATG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GGATG
* *
80577 CCACGGAGTTGTGGACTTAAAAGGGTGCCAC-AAGATTGTGGACTTAAAAGGTTG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG-TTGTGGACTTAAAAGGATG
*
80631 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG-T-TGGACTT-AAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATG
**
80682 CCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTAAAAGGATG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATG
*
80736 CCACGAAGTTGTGGACTT---A---TGCCACGGAGTTGTGGACTTAAAAGGATG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATG
*
80784 CCAC-GAGTTGTGGACTTAAAATGGTGCCACGGAGTTGTGGACTTAAAAGGGATG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GGATG
* * *
80838 CCACGAAGTTGTGGACTTAAATGGGTGCCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATG
* *
80892 CCACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGACTTAAAAAGAATG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGATG
* *
80947 CCACGGAGTTGTGGACTTAAAAGGGTGCCAC-GAGTTGTGAACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATG
* * * *
81000 CCACGGAGTTGTGGACTAAAAAGGGTGCCACAGAGTTGTAGACTTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATG
** * * *
81055 CCACAAAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAATAGATG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GGATG
* *
81110 CCACAGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GGATG
* *
81165 CCACGGAATTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
81215 AGGTCACAGT
Statistics
Matches: 952, Mismatches: 77, Indels: 84
0.86 0.07 0.08
Matches are distributed among these distances:
47 12 0.01
48 44 0.05
49 32 0.03
50 1 0.00
51 42 0.04
52 46 0.05
53 122 0.13
54 231 0.24
55 294 0.31
56 63 0.07
57 57 0.06
58 8 0.01
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.23
Consensus pattern (54 bp):
CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATG
Found at i:80551 original size:21 final size:21
Alignment explanation
Indices: 80525--80564 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
80515 CTTTAAAAGG
*
80525 ATGCCACGAAGTTGTGGACTT
1 ATGCCACGAAGTTATGGACTT
*
80546 ATGCCACGGAGTTATGGAC
1 ATGCCACGAAGTTATGGAC
80565 GTAAAAGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (21 bp):
ATGCCACGAAGTTATGGACTT
Found at i:80759 original size:21 final size:21
Alignment explanation
Indices: 80733--80775 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
80723 ACTTAAAAGG
80733 ATGCCACGAAGTTGTGGACTT
1 ATGCCACGAAGTTGTGGACTT
*
80754 ATGCCACGGAGTTGTGGACTT
1 ATGCCACGAAGTTGTGGACTT
80775 A
1 A
80776 AAAGGATGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (21 bp):
ATGCCACGAAGTTGTGGACTT
Found at i:81207 original size:82 final size:81
Alignment explanation
Indices: 80000--81214 Score: 1470
Period size: 82 Copynumber: 15.1 Consensus size: 81
79990 TTTGGGATTT
* * * *
80000 TTAAAA-GGTGCCACAGAGTTGTGGACTTAAAAAGGT-CCACGGAGTTGTGGTCTAAACAAAAGG
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT---TAAAAGG
* *
80063 ATGCTAGACGGATTTGTGGA-
63 ATGC--CACGGAGTTGTGGAC
*
80083 TT---A---TGCCCACGGAGTTTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGTACTTAAAAGG
1 TTAAAAGGGTG-CCACGGAG--TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
80142 GTG-CACGGAGTTGT-AAC
63 ATGCCACGGAGTTGTGGAC
* * *
80159 TTAAAAGGATGCCACGAAGTTGTGGACTTAAAAAAGGGATGCCACGGAGTTGTTGTACTTAAAAG
1 TTAAAAGGGTGCCACGGAGTTGTGGACTT--AAAAGGG-TGCCACGGAGTTG-TGGACTTAAAAG
80224 G-TGCCACGGAGTTGTGGAC
62 GATGCCACGGAGTTGTGGAC
* * *
80243 TTAAAA-GGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACAGAGTTGTGGACTTAAAA-AAGT
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA-T
*
80306 GCCACAGAGTTGTGGAC
65 GCCACGGAGTTGTGGAC
** * * *
80323 TTAAAAGATATGCCACGGAGTTATGGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGG
1 TTAAAAG-GGTGCCACGGAGTTGT-GGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
*
80388 TGCCACGGAGTTTGTGGTC
64 TGCCACGGAG-TTGTGGAC
*
80407 TTAAAAGGGATTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 TTAAAAGGG--TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
80472 TGCCACGGAGTTGTGGAC
64 TGCCACGGAGTTGTGGAC
** * *
80490 TTAAAAGAATGCCAC-GAGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTT------AT
1 TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAT
*
80548 GCCACGGAGTTATGGAC
65 GCCACGGAGTTGTGGAC
* * *
80565 GTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC-AAGATTGTGGACTTAAAAGGT
1 TTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG-TTGTGGACTTAAAAGGA
80629 TGCCACGGAGTTGTGGAC
64 TGCCACGGAGTTGTGGAC
*
80647 TTAAAAGGGTGCCACGGAG-T-TGGACTT-AAAGGGTGCCACGGAGTTGTGGACTTAAAAGAATG
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATG
80709 CCACGGAGTTGTGGAC
66 CCACGGAGTTGTGGAC
* *
80725 TTAAAAGGATGCCACGAAGTTGTGGACTT---A---TGCCACGGAGTTGTGGACTTAAAAGGATG
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATG
80784 CCAC-GAGTTGTGGAC
66 CCACGGAGTTGTGGAC
* * * *
80799 TTAAAATGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGAAGTTGTGGACTTAAATGGGT
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGAT
80864 GCCACGGAGTTGTGGAC
65 GCCACGGAGTTGTGGAC
* *
80881 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGACTTAAAAAGAAT
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGAT
80946 GCCACGGAGTTGTGGAC
65 GCCACGGAGTTGTGGAC
* * *
80963 TTAAAAGGGTGCCAC-GAGTTGTGAACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGGTG
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATG
* *
81027 CCACAGAGTTGTAGAC
66 CCACGGAGTTGTGGAC
** * * *
81043 TTTAAAAGGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAATAGA
1 -TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GGA
* *
81108 TGCCACAGAGTTATGGAC
64 TGCCACGGAGTTGTGGAC
* *
81126 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAATTGTGGACTTAAAAGGGT
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGAT
81191 GCCACGGAGTTGTGGAC
65 GCCACGGAGTTGTGGAC
*
81208 TTTAAAG
1 TTAAAAG
81215 AGGTCACAGT
Statistics
Matches: 992, Mismatches: 88, Indels: 105
0.84 0.07 0.09
Matches are distributed among these distances:
74 37 0.04
75 59 0.06
76 41 0.04
77 12 0.01
78 65 0.07
79 46 0.05
80 76 0.08
81 181 0.18
82 248 0.25
83 143 0.14
84 71 0.07
85 13 0.01
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.24
Consensus pattern (81 bp):
TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATG
CCACGGAGTTGTGGAC
Found at i:82264 original size:12 final size:12
Alignment explanation
Indices: 82232--82263 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
82222 GGTGAAAAGG
82232 TTTTTTTTTGGT
1 TTTTTTTTTGGT
82244 TTTTTTTTT-GT
1 TTTTTTTTTGGT
82255 TTTTTTTTT
1 TTTTTTTTT
82264 TAGGATTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTGGT
Found at i:82566 original size:22 final size:23
Alignment explanation
Indices: 82541--82590 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
82531 TTTTATTTTG
82541 TTTTTGCACTTTTTCTTTTCA-T
1 TTTTTGCACTTTTTCTTTTCAGT
** *
82563 TTTTTGTGCTTTTTCTTTTGAGT
1 TTTTTGCACTTTTTCTTTTCAGT
82586 TTTTT
1 TTTTT
82591 TTTTGTCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.06, C:0.12, G:0.10, T:0.72
Consensus pattern (23 bp):
TTTTTGCACTTTTTCTTTTCAGT
Done.