Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold249
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: 858763
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
File 1 of 4
Found at i:3785 original size:20 final size:21
Alignment explanation
Indices: 3760--3798 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
3750 GGATTTTTAG
*
3760 AATTAATTTAAA-AAAAAAGA
1 AATTAAATTAAATAAAAAAGA
3780 AATTAAATTAAATAAAAAA
1 AATTAAATTAAATAAAAAA
3799 TTTTACCCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (21 bp):
AATTAAATTAAATAAAAAAGA
Found at i:4872 original size:15 final size:13
Alignment explanation
Indices: 4843--4883 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
4833 ATTTTTTAAA
4843 AATATTTATATTT
1 AATATTTATATTT
4856 AATATTTATATAATT
1 AATATTTATAT--TT
4871 AATA--TATATTT
1 AATATTTATATTT
4882 AA
1 AA
4884 ATATAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.15
13 16 0.62
15 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:5364 original size:2 final size:2
Alignment explanation
Indices: 5359--5390 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5349 ATAAATGTGT
5359 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
5391 CCTTTATAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5872 original size:12 final size:12
Alignment explanation
Indices: 5848--5900 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
5838 TTAATATTTT
5848 TAAATATTA-AAA
1 TAAAT-TTATAAA
5860 TAAATTTATAAA
1 TAAATTTATAAA
*
5872 TTAAATTTAAAAA
1 -TAAATTTATAAA
5885 TAAATTT-TAAA
1 TAAATTTATAAA
5896 -AAATT
1 TAAATT
5901 CAAATTAGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
10 5 0.14
11 6 0.16
12 15 0.41
13 11 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TAAATTTATAAA
Found at i:5875 original size:25 final size:24
Alignment explanation
Indices: 5847--5895 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
5837 TTTAATATTT
5847 TTAAATATT-AAAATAAATTTATAAA
1 TTAAAT-TTAAAAATAAATTT-TAAA
5872 TTAAATTTAAAAATAAATTTTAAA
1 TTAAATTTAAAAATAAATTTTAAA
5896 AAATTCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TTAAATTTAAAAATAAATTTTAAA
Found at i:5897 original size:13 final size:12
Alignment explanation
Indices: 5856--5897 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
5846 TTTAAATATT
5856 AAAATAAATTTA
1 AAAATAAATTTA
*
5868 TAAATTAAATTTA
1 -AAAATAAATTTA
5881 AAAATAAATTTTA
1 AAAATAAA-TTTA
5894 AAAA
1 AAAA
5898 ATTCAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 7 0.27
13 19 0.73
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AAAATAAATTTA
Found at i:5986 original size:2 final size:2
Alignment explanation
Indices: 5979--6005 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5969 TGATTGATTG
5979 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6006 AAATAATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6560 original size:22 final size:21
Alignment explanation
Indices: 6508--6563 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
6498 ATTTAATCAT
6508 TAAA-TATATAAATAATATTA
1 TAAATTATATAAATAATATTA
*
6528 TTAATTAATATAACATAAATATTA
1 TAAATT-ATATAA-AT-AATATTA
6552 -AAATTATATAAA
1 TAAATTATATAAA
6564 ATTTTATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 3 0.10
21 2 0.07
22 12 0.40
23 6 0.20
24 7 0.23
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAATTATATAAATAATATTA
Found at i:7338 original size:17 final size:16
Alignment explanation
Indices: 7313--7346 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7303 ATTAGGATTT
*
7313 TAAATATAAATATATA
1 TAAATATAAAAATATA
7329 TAAATGATAAAAATATA
1 TAAAT-ATAAAAATATA
7346 T
1 T
7347 TTAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
TAAATATAAAAATATA
Found at i:7411 original size:18 final size:17
Alignment explanation
Indices: 7382--7429 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
7372 TTAAAAAAAT
* *
7382 TATAAATTTATACTTATA
1 TATAAATATATA-TTAAA
*
7400 TTTAAATATATATTAAA
1 TATAAATATATATTAAA
7417 TATAAATACTATA
1 TATAAATA-TATA
7430 AAAAATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAAATATATATTAAA
Found at i:7727 original size:24 final size:24
Alignment explanation
Indices: 7698--7749 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
7688 TCCCCAATAC
*
7698 ATATTTGTACATATATATTAAAAT
1 ATATTTGTACACATATATTAAAAT
*
7722 ATATTTGTACACATGTATTAAAAT
1 ATATTTGTACACATATATTAAAAT
7746 ATAT
1 ATAT
7750 AAAAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (24 bp):
ATATTTGTACACATATATTAAAAT
Found at i:7750 original size:26 final size:25
Alignment explanation
Indices: 7693--7750 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
7683 ATTCGTCCCC
* *
7693 AATACATATTTGTACATATATATTA
1 AATATATATTTGTACACATATATTA
*
7718 AA-ATATATTTGTACACATGTATTAA
1 AATATATATTTGTACACATATATT-A
7743 AATATATA
1 AATATATA
7751 AAAATATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 18 0.64
25 5 0.18
26 5 0.18
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (25 bp):
AATATATATTTGTACACATATATTA
Found at i:13051 original size:3 final size:3
Alignment explanation
Indices: 13038--13069 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13028 CTTTCAACCA
*
13038 AAC AGC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
13070 AGAAAAGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.31, G:0.03, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:14003 original size:20 final size:20
Alignment explanation
Indices: 13974--14015 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
13964 ATAATTTTTA
13974 TTTTATTA-TTACATTAAATTT
1 TTTTATTATTTA-A-TAAATTT
13995 TTTTA-TATTTAATAAATTT
1 TTTTATTATTTAATAAATTT
14014 TT
1 TT
14016 AAATTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 9 0.45
20 3 0.15
21 8 0.40
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTATTATTTAATAAATTT
Found at i:18696 original size:71 final size:71
Alignment explanation
Indices: 18611--18742 Score: 196
Period size: 71 Copynumber: 1.9 Consensus size: 71
18601 TGACTATAAA
* * * *
18611 AAAAAAAGTTAATGATAACAGTTACTTACCTGACTA-AGTCCGTGTGTTGA-GAGGCATAATGGT
1 AAAAAAAGCTAATGATAACAGTTACTTACATGACTATA-TCCATGTGTCGAGGA-GCATAATGGT
18674 TCATTGAC
64 TCATTGAC
18682 AAAAAAAGCTAATGATAACAGTTACTTACATGACTATATCCATGTGTCGAGGAGCATAATG
1 AAAAAAAGCTAATGATAACAGTTACTTACATGACTATATCCATGTGTCGAGGAGCATAATG
18743 ACCACCACCA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
71 52 0.95
72 3 0.05
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (71 bp):
AAAAAAAGCTAATGATAACAGTTACTTACATGACTATATCCATGTGTCGAGGAGCATAATGGTTC
ATTGAC
Found at i:21292 original size:13 final size:13
Alignment explanation
Indices: 21276--21300 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21266 TTAAAGGTAA
21276 ATTTTAATTTTAG
1 ATTTTAATTTTAG
21289 ATTTTAATTTTA
1 ATTTTAATTTTA
21301 AAAAACTTAA
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:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
ATTTTAATTTTAG
Found at i:21644 original size:23 final size:22
Alignment explanation
Indices: 21618--21661 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
21608 TAGTATTATG
21618 AATTTAAACATATAAAAATTAAA
1 AATTTAAACATA-AAAAATTAAA
* *
21641 AATTTTAACATAAAAATTTAA
1 AATTTAAACATAAAAAATTAA
21662 TTTTTTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (22 bp):
AATTTAAACATAAAAAATTAAA
Found at i:23227 original size:20 final size:21
Alignment explanation
Indices: 23195--23241 Score: 87
Period size: 20 Copynumber: 2.3 Consensus size: 21
23185 GCGAGCATAC
23195 TCTCCTGGGGTTGCATCTTTT
1 TCTCCTGGGGTTGCATCTTTT
23216 TCTCCT-GGGTTGCATCTTTT
1 TCTCCTGGGGTTGCATCTTTT
23236 TCTCCT
1 TCTCCT
23242 AATACTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.04, C:0.28, G:0.19, T:0.49
Consensus pattern (21 bp):
TCTCCTGGGGTTGCATCTTTT
Found at i:26433 original size:15 final size:15
Alignment explanation
Indices: 26415--26453 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
26405 ATAATTAAAT
*
26415 AAAATTTAATTTATA
1 AAAATTAAATTTATA
*
26430 AAAATTAAATTTATC
1 AAAATTAAATTTATA
26445 AAAA-TAAAT
1 AAAATTAAAT
26454 AAATAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATTAAATTTATA
Found at i:26455 original size:25 final size:24
Alignment explanation
Indices: 26427--26477 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
26417 AATTTAATTT
*
26427 ATAAA-AATTAAATTTATCAAAATAA
1 ATAAATAATT-AATTTAT-AAAAAAA
*
26452 ATAAATAATTTATTTATAAAAAAA
1 ATAAATAATTAATTTATAAAAAAA
26476 AT
1 AT
26478 CGAGTTATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 11 0.48
26 4 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAAATAATTAATTTATAAAAAAA
Found at i:27530 original size:34 final size:34
Alignment explanation
Indices: 27468--27540 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 34
27458 AAATATTTAA
*
27468 AAATTATTTTATATTTTATAATTAAATTTAAA-T
1 AAATTATTTTATATTTTATAATAAAATTTAAATT
27501 AAATTATTTT-TATTAATTA-AATAATAATTTAAATT
1 AAATTATTTTATATT--TTATAATAA-AATTTAAATT
27536 AAATT
1 AAATT
27541 TAAATTAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
32 4 0.11
33 14 0.40
34 11 0.31
35 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (34 bp):
AAATTATTTTATATTTTATAATAAAATTTAAATT
Found at i:27536 original size:21 final size:20
Alignment explanation
Indices: 27512--27558 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
27502 AATTATTTTT
*
27512 ATTAA-TTAAATAATAATTTAA
1 ATTAATTTAAAT--TAATATAA
27533 ATTAAATTTAAATTAATATAA
1 ATT-AATTTAAATTAATATAA
27554 ATTAA
1 ATTAA
27559 AAATATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 2 0.09
21 13 0.57
22 2 0.09
23 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTAATTTAAATTAATATAA
Found at i:30944 original size:15 final size:16
Alignment explanation
Indices: 30905--30947 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
30895 ATTTTGAGAA
30905 TATATATTTATATATAT
1 TATATATTTA-ATATAT
30922 TA-AT-TTTAA-ATAT
1 TATATATTTAATATAT
30935 TATATATTTAATA
1 TATATATTTAATA
30948 AATATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 6 0.26
14 3 0.13
15 9 0.39
16 3 0.13
17 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATATATTTAATATAT
Found at i:31179 original size:30 final size:28
Alignment explanation
Indices: 31145--31236 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 28
31135 TTTTATGTAT
31145 TATAATAATATTTAAAATATTATATATTTA
1 TATAA-AAT-TTTAAAATATTATATATTTA
*
31175 TAT-AAATTTTAATATATTA-ATAATTTA
1 TATAAAATTTTAAAATATTATAT-ATTTA
* *
31202 TTATAAAATTTTTAACATATTTATTTATTTTA
1 -TATAAAA-TTTTAAAATA-TTATATA-TTTA
31234 TAT
1 TAT
31237 TTTAATTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
26 2 0.04
27 16 0.31
28 6 0.12
29 4 0.08
30 12 0.23
31 7 0.13
32 5 0.10
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (28 bp):
TATAAAATTTTAAAATATTATATATTTA
Found at i:31245 original size:16 final size:16
Alignment explanation
Indices: 31221--31261 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
31211 TTTTAACATA
31221 TTTATTTATTTTATAT
1 TTTATTTATTTTATAT
* *
31237 TTTAATTATTTTTTAT
1 TTTATTTATTTTATAT
31253 TTTATTTAT
1 TTTATTTAT
31262 ATAATTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTATTTTATAT
Found at i:35146 original size:17 final size:17
Alignment explanation
Indices: 35124--35176 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
35114 AAAATATAAA
35124 TAAAATATATATTATAT
1 TAAAATATATATTATAT
* *
35141 TAAAATTTATATAATA-
1 TAAAATATATATTATAT
35157 TAATAATATTATATATATAT
1 TAA-AATA-TATAT-TATAT
35177 ATTAATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 3 0.11
17 17 0.61
18 5 0.18
19 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATATATATTATAT
Found at i:35182 original size:19 final size:19
Alignment explanation
Indices: 35128--35184 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
35118 TATAAATAAA
*
35128 ATATATATTATATTAAAATT
1 ATATATA-TATATTAATATT
*
35148 -TATATAATATAATAATATT
1 ATATAT-ATATATTAATATT
35167 ATATATATATATTAATAT
1 ATATATATATATTAATAT
35185 AAAATATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 26 0.81
20 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATATATATATTAATATT
Found at i:35191 original size:34 final size:32
Alignment explanation
Indices: 35116--35196 Score: 87
Period size: 34 Copynumber: 2.5 Consensus size: 32
35106 AAATAATCAA
*
35116 AATAT-AAATAAAATATATATTATATTAAAATT
1 AATATAAAATATAATA-ATATTATATTAAAATT
* *
35148 --TATATAATATAATAATATTATATATATATATT
1 AATATAAAATATAATAATATTATAT-TA-AAATT
35180 AATATAAAATATAATAA
1 AATATAAAATATAATAA
35197 ATATAATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
30 12 0.30
31 10 0.25
32 4 0.10
34 14 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (32 bp):
AATATAAAATATAATAATATTATATTAAAATT
Found at i:35200 original size:24 final size:26
Alignment explanation
Indices: 35115--35201 Score: 74
Period size: 30 Copynumber: 3.3 Consensus size: 26
35105 AAAATAATCA
*
35115 AAATATA-AATAAAATATATATTATATT
1 AAATATATAATATAATA-ATATTATA-T
35142 AAAATTTATATAATATAATAATATTATAT
1 -AAA--TATATAATATAATAATATTATAT
*
35171 ATATATATTAATATAA-AATA-TA-AT
1 AAATATA-TAATATAATAATATTATAT
35195 AAATATA
1 AAATATA
35202 ATTATAAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
24 8 0.15
25 2 0.04
26 8 0.15
27 8 0.15
28 5 0.10
29 1 0.02
30 12 0.23
31 8 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
AAATATATAATATAATAATATTATAT
Found at i:38128 original size:35 final size:32
Alignment explanation
Indices: 38055--38138 Score: 107
Period size: 32 Copynumber: 2.5 Consensus size: 32
38045 AATGAATGTT
38055 AATTTACGAA-TAATTATATTTAATATTCATCA
1 AATTTAC-AAGTAATTATATTTAATATTCATCA
*
38087 AATTTACAAGTAATTTTATTTAATATTCACCATCA
1 AATTTACAAGTAATTATATTTAATATT---CATCA
*
38122 AATTTACAAGTAGTTAT
1 AATTTACAAGTAATTAT
38139 GTCTAATTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
31 2 0.04
32 23 0.51
35 20 0.44
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.43
Consensus pattern (32 bp):
AATTTACAAGTAATTATATTTAATATTCATCA
Found at i:42661 original size:10 final size:10
Alignment explanation
Indices: 42646--42679 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
42636 TGGGAGATTC
42646 AAATTTTAAA
1 AAATTTTAAA
42656 AAATTTTAAA
1 AAATTTTAAA
*
42666 AAA-TATAAA
1 AAATTTTAAA
42675 AAATT
1 AAATT
42680 AAATATATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAATTTTAAA
Found at i:43192 original size:2 final size:2
Alignment explanation
Indices: 43181--43215 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
43171 TATTTGACAT
43181 TA TA -A TA TA 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 TA TA TA TA TA
43216 ATTTTCAGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:43572 original size:15 final size:17
Alignment explanation
Indices: 43554--43585 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
43544 TGTAGCAGTA
43554 AAAGAA-AAA-AAAAAC
1 AAAGAATAAATAAAAAC
43569 AAAGAATAAATAAAAAC
1 AAAGAATAAATAAAAAC
43586 CCTGAACTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.06
Consensus pattern (17 bp):
AAAGAATAAATAAAAAC
Found at i:44176 original size:2 final size:2
Alignment explanation
Indices: 44169--44209 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
44159 TTGAGTGTAC
44169 TA TA TA TA TA 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 TA TA TA TA TA T
44210 TTTTTCAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45894 original size:3 final size:3
Alignment explanation
Indices: 45886--45925 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
45876 GATTATACGT
45886 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
45926 TGTTGTAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:46608 original size:29 final size:28
Alignment explanation
Indices: 46525--46616 Score: 64
Period size: 29 Copynumber: 3.2 Consensus size: 28
46515 ATATAGCTCA
*
46525 AAAATTTTAAAAA-TTATTTAAGTATAAATT
1 AAAA-TTTAAAAATTTA-TTATGTAT-AATT
* * *
46555 AAAAGTT-ATAGTTTATT-TAGATATATATT
1 AAAATTTAAAAATTTATTAT-G-TATA-ATT
*
46584 AAAATTTAAAAATTTATTATGTATAATA
1 AAAATTTAAAAATTTATTATGTATAATT
46612 AAAAT
1 AAAAT
46617 AAAAAACTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
28 13 0.27
29 21 0.44
30 13 0.27
31 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (28 bp):
AAAATTTAAAAATTTATTATGTATAATT
Found at i:52108 original size:2 final size:2
Alignment explanation
Indices: 52103--52129 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
52093 ATATTAAGAT
52103 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
52130 TTACACTCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56327 original size:21 final size:21
Alignment explanation
Indices: 56297--56354 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
56287 ATTAAATAAA
*
56297 TTATAT-TTTTAATAAA-ATT
1 TTATATATTTTAATAAATACT
56316 TTATCATATTTTATATAAATACT
1 TTAT-ATATTTTA-ATAAATACT
*
56339 TTATATATTTTTATAA
1 TTATATATTTTAATAA
56355 TTTTAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 4 0.12
20 2 0.06
21 9 0.27
22 12 0.36
23 6 0.18
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
TTATATATTTTAATAAATACT
Found at i:56327 original size:22 final size:23
Alignment explanation
Indices: 56298--56353 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
56288 TTAAATAAAT
*
56298 TATATTTTTA-ATAAA-ATTTTA
1 TATATTTTTATATAAATACTTTA
56319 TCATA-TTTTATATAAATACTTTA
1 T-ATATTTTTATATAAATACTTTA
56342 TATATTTTTATA
1 TATATTTTTATA
56354 ATTTTAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.20
22 11 0.37
23 13 0.43
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
TATATTTTTATATAAATACTTTA
Found at i:56376 original size:22 final size:21
Alignment explanation
Indices: 56350--56402 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
56340 TATATATTTT
56350 TATAATTTTAAATTTTAAAATA
1 TATAATTTTAAATTTT-AAATA
*
56372 TATAAATTTT-TATTTTAAATA
1 TAT-AATTTTAAATTTTAAATA
56393 -ATTAATTTTA
1 TA-TAATTTTA
56403 TTTCTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 7 0.26
21 6 0.22
22 8 0.30
23 6 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATAATTTTAAATTTTAAATA
Found at i:56929 original size:36 final size:36
Alignment explanation
Indices: 56876--56996 Score: 106
Period size: 36 Copynumber: 3.4 Consensus size: 36
56866 AATAATTTTT
* *
56876 TAAAATTTTAT-ATTTATTTTTAACATAAATTTAAA
1 TAAAATTATATAATTTATTTTTAAAATAAATTTAAA
** *
56911 TAAAATTATATAATTTATTAATAAAATAAATTTACAT
1 TAAAATTATATAATTTATTTTTAAAATAAATTTA-AA
* ** *
56948 TAAAA-TA-AAAACATATTTTTTAAAATAAATTAAAA
1 TAAAATTATATAATTTA-TTTTTAAAATAAATTTAAA
56983 TTAAAATT-TATAAT
1 -TAAAATTATATAAT
56997 GAACAAACTT
Statistics
Matches: 66, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
35 16 0.24
36 40 0.61
37 10 0.15
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (36 bp):
TAAAATTATATAATTTATTTTTAAAATAAATTTAAA
Found at i:57422 original size:13 final size:13
Alignment explanation
Indices: 57397--57429 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
57387 ATAAATTTAA
57397 TTTATTA-ATATT
1 TTTATTATATATT
57409 TTTATTATATATT
1 TTTATTATATATT
*
57422 TTTCTTAT
1 TTTATTAT
57430 TTATAGCGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTATTATATATT
Found at i:64791 original size:10 final size:11
Alignment explanation
Indices: 64771--64797 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
64761 TGGTGGGGTA
64771 TTTTTCTTTTT
1 TTTTTCTTTTT
64782 TTTTTCTTTTT
1 TTTTTCTTTTT
64793 TTTTT
1 TTTTT
64798 TCTCAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:64792 original size:12 final size:12
Alignment explanation
Indices: 64771--64800 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
64761 TGGTGGGGTA
64771 TTTTTC-TTTTT
1 TTTTTCTTTTTT
64782 TTTTTCTTTTTT
1 TTTTTCTTTTTT
64794 TTTTTCT
1 TTTTTCT
64801 CAAGAAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:65223 original size:20 final size:21
Alignment explanation
Indices: 65175--65224 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
65165 GATAACTTAT
* *
65175 AATATAAAGATAGTATATATTG
1 AATATAAAGATAG-ATACATTA
*
65197 TATATAAAGATA-ATACATTA
1 AATATAAAGATAGATACATTA
65217 AATATAAA
1 AATATAAA
65225 TTTTTAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 13 0.54
22 11 0.46
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (21 bp):
AATATAAAGATAGATACATTA
Found at i:69822 original size:5 final size:5
Alignment explanation
Indices: 69796--69891 Score: 53
Period size: 5 Copynumber: 19.6 Consensus size: 5
69786 CAAATACATA
* * *
69796 TATATT TATAT TAT-T T-TTT TATAT TATAAT TATAT T-TAA AATAT TATA-
1 TATA-T TATAT TATAT TATAT TATAT TAT-AT TATAT TATAT TATAT TATAT
* *
69844 TATATT TATTAT TATAT TATAT TTTAAT TAT-T T-T-T TGTAT TATAT
1 TATA-T TA-TAT TATAT TATAT TAT-AT TATAT TATAT TATAT TATAT
69889 TAT
1 TAT
69892 TATTTAAAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
3 4 0.06
4 13 0.18
5 35 0.49
6 18 0.25
7 2 0.03
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (5 bp):
TATAT
Found at i:69874 original size:65 final size:69
Alignment explanation
Indices: 69794--69920 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 69
69784 CACAAATACA
*
69794 TATATATTTATATTATTTTTTTATATTATAATTA-TATTTAAAA-TATTATATATAT-TTATTAT
1 TATATATTTATATTATTTTTTTATATTAT-ATTATTATTTAAAATTATTAGATATATATTATTAT
69856 TATAT
65 TATAT
*
69861 TATAT-TTTA-ATTA-TTTTTTGTATTATATTATTATTTAAAATTATTAGATATATATTATTA
1 TATATATTTATATTATTTTTTTATATTATATTATTATTTAAAATTATTAGATATATATTATTA
69921 ACTTTGCTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
63 4 0.07
64 21 0.38
65 15 0.27
66 10 0.18
67 5 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (69 bp):
TATATATTTATATTATTTTTTTATATTATATTATTATTTAAAATTATTAGATATATATTATTATT
ATAT
Found at i:69890 original size:36 final size:36
Alignment explanation
Indices: 69814--69894 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 36
69804 TATTATTTTT
69814 TTATATTA-TA-ATTATATTTAAAATATTATATATA
1 TTATATTATTATATTATATTTAAAATATTATATATA
* * * * *
69848 TT-TATTATTATATTATATTTTAATTATTTTTTGTA
1 TTATATTATTATATTATATTTAAAATATTATATATA
69883 TTATATTATTAT
1 TTATATTATTAT
69895 TTAAAATTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
33 5 0.13
34 4 0.10
35 21 0.54
36 9 0.23
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (36 bp):
TTATATTATTATATTATATTTAAAATATTATATATA
Found at i:69942 original size:64 final size:64
Alignment explanation
Indices: 69796--69943 Score: 155
Period size: 64 Copynumber: 2.3 Consensus size: 64
69786 CAAATACATA
*
69796 TATATTTA-TATTATTTTTTTATATTATAATTATATTTAAAATATTATATATATTTATTATTATA
1 TATATTTATTATT-TTTTTTTATATTATAATTATATTTAAAATATTAGATATA-TTATTATTATA
69860 T
64 T
* * *
69861 TATATTT-TAATTATTTTTTGTATTAT-ATTATTATTTAAAATTATTAGATATA-TATTATTA-A
1 TATATTTATTATTTTTTTTTATATTATAATTA-TATTTAAAA-TATTAGATATATTATTATTATA
69922 CT
64 -T
*
69924 T-TGCTTTATTATTTTTTTTT
1 TAT-ATTTATTATTTTTTTTT
69944 CCCCAAACCC
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
62 2 0.03
63 17 0.24
64 31 0.44
65 20 0.29
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (64 bp):
TATATTTATTATTTTTTTTTATATTATAATTATATTTAAAATATTAGATATATTATTATTATAT
Found at i:73848 original size:2 final size:2
Alignment explanation
Indices: 73843--73868 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
73833 TATATATTCT
73843 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
73869 AAGTGTGAAT
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:77566 original size:16 final size:18
Alignment explanation
Indices: 77540--77576 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
77530 GATATTAATA
*
77540 AAATAATAT-AATTTTTT
1 AAATAATATAAAATTTTT
77557 AAAT-ATATAAAATTTTT
1 AAATAATATAAAATTTTT
77574 AAA
1 AAA
77577 AAAATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATAATATAAAATTTTT
Found at i:77570 original size:18 final size:17
Alignment explanation
Indices: 77540--77596 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
77530 GATATTAATA
*
77540 AAATAATATAATTTTTT
1 AAATAATAAAATTTTTT
*
77557 AAATATATAAAATTTTTA
1 AAATA-ATAAAATTTTTT
* * *
77575 AAAAAATTAAATATATTT
1 AAATAATAAAAT-TTTTT
77593 AAAT
1 AAAT
77597 TAAATACATT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
17 11 0.35
18 20 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATAATAAAATTTTTT
Found at i:77598 original size:15 final size:15
Alignment explanation
Indices: 77578--77607 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
77568 ATTTTTAAAA
*
77578 AAATTAAATATATTT
1 AAATTAAATACATTT
77593 AAATTAAATACATTT
1 AAATTAAATACATTT
77608 TCGTATCTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATTAAATACATTT
Found at i:82121 original size:5 final size:5
Alignment explanation
Indices: 82113--82141 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
82103 AAAAAAAAAA
82113 TTATT TTATT TTATT TTATT TTATT TTAT
1 TTATT TTATT TTATT TTATT TTATT TTAT
82142 AAAATCTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:82779 original size:21 final size:22
Alignment explanation
Indices: 82740--82780 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
82730 TAAATTATTT
**
82740 TATTATACATAATTTATTTTTA
1 TATTATACATAATAGATTTTTA
82762 TATTATAC-TAATAGATTTT
1 TATTATACATAATAGATTTT
82781 ATTTATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTATACATAATAGATTTTTA
Found at i:82787 original size:22 final size:22
Alignment explanation
Indices: 82737--82787 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
82727 TGATAAATTA
**
82737 TTTTATTATACATAATTTATTT
1 TTTTATTATACATAATAGATTT
*
82759 TTATATTATAC-TAATAGATTT
1 TTTTATTATACATAATAGATTT
82780 TATTTATT
1 T-TTTATT
82788 TTAGAAAGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTTATTATACATAATAGATTT
Found at i:82859 original size:16 final size:16
Alignment explanation
Indices: 82815--82863 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
82805 AACAACCAAA
82815 AAAAAAAACCTCAATAT
1 AAAAAAAA-CTCAATAT
*
82832 AAAAATAA--CAAT-T
1 AAAAAAAACTCAATAT
82845 AAAAAAAATCTCAATAT
1 AAAAAAAA-CTCAATAT
82862 AA
1 AA
82864 TATTAAGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 8 0.31
14 4 0.15
16 4 0.15
17 10 0.38
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAAAAACTCAATAT
Found at i:83693 original size:18 final size:18
Alignment explanation
Indices: 83652--83693 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
83642 AATTATGTTT
83652 ATAATTTAATTTAAATAA
1 ATAATTTAATTTAAATAA
* *
83670 AAAATTTATTATTAAAT-A
1 ATAATTTAAT-TTAAATAA
83688 ATAATT
1 ATAATT
83694 CAAATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTTAAATAA
Found at i:83833 original size:2 final size:2
Alignment explanation
Indices: 83828--83863 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
83818 TGGAGTCTTA
83828 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
83864 TGGGAAATGT
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:84202 original size:2 final size:2
Alignment explanation
Indices: 84195--84225 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
84185 ACCTAATGTT
84195 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
84226 TTAACGTGTT
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:84451 original size:13 final size:13
Alignment explanation
Indices: 84428--84452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84418 TATAAATACT
84428 AAATTTAAATTTC
1 AAATTTAAATTTC
84441 AAATTTAAATTT
1 AAATTTAAATTT
84453 ATTGAATGAT
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTTAAATTTC
Found at i:86258 original size:2 final size:2
Alignment explanation
Indices: 86251--86286 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
86241 CTCACTTCTC
86251 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
86287 TTTTGGAATT
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:89030 original size:21 final size:20
Alignment explanation
Indices: 89004--89045 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 20
88994 AATTACTTGG
89004 TTACCACTTTTGCTACCTTTT
1 TTACCACTTTTGCTA-CTTTT
89025 TTACCACTTTTGCTACTTTT
1 TTACCACTTTTGCTACTTTT
89045 T
1 T
89046 ACTTCCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.14, C:0.26, G:0.05, T:0.55
Consensus pattern (20 bp):
TTACCACTTTTGCTACTTTT
Found at i:100760 original size:120 final size:120
Alignment explanation
Indices: 100547--100786 Score: 480
Period size: 120 Copynumber: 2.0 Consensus size: 120
100537 AGTAAGTTAT
100547 CCCAAAAACCAAATATCAGGAAAAGGCAAATGCTTCAAACACAACAGAACTCACAAACCAATGCA
1 CCCAAAAACCAAATATCAGGAAAAGGCAAATGCTTCAAACACAACAGAACTCACAAACCAATGCA
100612 ACCTAAAAACTGAAATTAACTCAAACTATCCTGAAACAAAAGTTTGATGGAGAAA
66 ACCTAAAAACTGAAATTAACTCAAACTATCCTGAAACAAAAGTTTGATGGAGAAA
100667 CCCAAAAACCAAATATCAGGAAAAGGCAAATGCTTCAAACACAACAGAACTCACAAACCAATGCA
1 CCCAAAAACCAAATATCAGGAAAAGGCAAATGCTTCAAACACAACAGAACTCACAAACCAATGCA
100732 ACCTAAAAACTGAAATTAACTCAAACTATCCTGAAACAAAAGTTTGATGGAGAAA
66 ACCTAAAAACTGAAATTAACTCAAACTATCCTGAAACAAAAGTTTGATGGAGAAA
100787 AATGCTCATT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.50, C:0.23, G:0.12, T:0.16
Consensus pattern (120 bp):
CCCAAAAACCAAATATCAGGAAAAGGCAAATGCTTCAAACACAACAGAACTCACAAACCAATGCA
ACCTAAAAACTGAAATTAACTCAAACTATCCTGAAACAAAAGTTTGATGGAGAAA
Found at i:102526 original size:2 final size:2
Alignment explanation
Indices: 102519--102551 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
102509 CCTATCAATG
102519 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
102552 ACCCTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102846 original size:17 final size:17
Alignment explanation
Indices: 102812--102876 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
102802 ATAAGTTGTG
*
102812 AATATAAATATGTATTT
1 AATATAAATATATATTT
*
102829 AATATAAATATATTTTT
1 AATATAAATATATATTT
* * *
102846 ATTTTTTAATATATATTT
1 A-ATATAAATATATATTT
102864 AA-A-AAAT-TATATT
1 AATATAAATATATATT
102877 ATTATATTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
17 16 0.42
18 13 0.34
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
AATATAAATATATATTT
Found at i:103121 original size:2 final size:2
Alignment explanation
Indices: 103114--103163 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
103104 TGAAGAATCC
* * *
103114 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
103156 AT AT AT AT
1 AT AT AT AT
103164 GTATGTATAG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103157 original size:24 final size:24
Alignment explanation
Indices: 103125--103171 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
103115 TATATATATA
103125 TATATATATATATATGTATGTATG
1 TATATATATATATATGTATGTATG
103149 TATATATATATATATGTATGTAT
1 TATATATATATATATGTATGTAT
103172 AGATTTTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (24 bp):
TATATATATATATATGTATGTATG
Found at i:104787 original size:22 final size:22
Alignment explanation
Indices: 104713--104798 Score: 63
Period size: 22 Copynumber: 4.0 Consensus size: 22
104703 AAAAAAAAAG
* * *
104713 TTAAATTTAACATTTAATTTAA
1 TTAAATTTAAAATTTAATATAT
*
104735 TT-AATTTATAAAATT-AT-T-T
1 TTAAATTTA-AAATTTAATATAT
*
104754 TTAAAATGTAAAATTTAATATAT
1 TT-AAATTTAAAATTTAATATAT
* *
104777 TTAAATTTAAATTTTAGTATAT
1 TTAAATTTAAAATTTAATATAT
104799 ATATATATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
19 2 0.04
20 6 0.12
21 15 0.30
22 24 0.48
23 3 0.06
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (22 bp):
TTAAATTTAAAATTTAATATAT
Found at i:105875 original size:2 final size:2
Alignment explanation
Indices: 105868--105911 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
105858 CCCTCGATAC
*
105868 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105910 AT
1 AT
105912 TCTTTGGTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:111979 original size:17 final size:17
Alignment explanation
Indices: 111941--112006 Score: 75
Period size: 17 Copynumber: 4.1 Consensus size: 17
111931 AAATAAAAAT
* *
111941 ATTAAA-TTAAATTTGA
1 ATTAAATTTTAATTTAA
*
111957 AGTAAATTTTAATTTAA
1 ATTAAATTTTAATTTAA
*
111974 ATTAAATTATAATTTAA
1 ATTAAATTTTAATTTAA
111991 A--AAATTTTAATTTAA
1 ATTAAATTTTAATTTAA
112006 A
1 A
112007 ATTTAAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
15 14 0.33
16 5 0.12
17 24 0.56
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
ATTAAATTTTAATTTAA
Found at i:111987 original size:23 final size:22
Alignment explanation
Indices: 111926--111988 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 22
111916 ATATTTTTAA
* *
111926 AAATTAAATAAAAATATTAAATT
1 AAATTAAAT-TAAATTTTAAATT
* * *
111949 AAATTTGAAGTAAATTTTAATTT
1 AAA-TTAAATTAAATTTTAAATT
111972 AAATTAAATTATAATTT
1 AAATTAAATTA-AATTT
111989 AAAAAATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
22 6 0.19
23 21 0.68
24 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (22 bp):
AAATTAAATTAAATTTTAAATT
Found at i:112001 original size:15 final size:15
Alignment explanation
Indices: 111960--112007 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
111950 AATTTGAAGT
111960 AAATTTTAATTTAAA
1 AAATTTTAATTTAAA
*
111975 TTAAATTATAATTTAAA
1 --AAATTTTAATTTAAA
111992 AAATTTTAATTTAAA
1 AAATTTTAATTTAAA
112007 A
1 A
112008 TTTAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 15 0.52
17 14 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AAATTTTAATTTAAA
Found at i:112009 original size:33 final size:33
Alignment explanation
Indices: 111941--112006 Score: 100
Period size: 32 Copynumber: 2.0 Consensus size: 33
111931 AAATAAAAAT
*
111941 ATTAAATTAAATTTGAAGTAAATTTTAATTTAA
1 ATTAAATTAAATTTGAAGAAAATTTTAATTTAA
111974 ATTAAATTATAATTT-AA-AAAATTTTAATTTAA
1 ATTAAATTA-AATTTGAAGAAAATTTTAATTTAA
112006 A
1 A
112007 ATTTAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
32 15 0.48
33 11 0.35
34 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (33 bp):
ATTAAATTAAATTTGAAGAAAATTTTAATTTAA
Found at i:112144 original size:19 final size:19
Alignment explanation
Indices: 112096--112149 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
112086 ATTTATATAT
*
112096 TTTAAAATTA-AATTTTAA
1 TTTAAAATTATTATTTTAA
*
112114 -TAAAAATATATTATTTTAA
1 TTTAAAAT-TATTATTTTAA
*
112133 TTTAAAATTATTGTTTT
1 TTTAAAATTATTATTTT
112150 GAGACGCAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 6 0.21
18 2 0.07
19 15 0.52
20 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTAAAATTATTATTTTAA
Found at i:117310 original size:22 final size:23
Alignment explanation
Indices: 117267--117311 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
117257 AATTTAATTA
*
117267 TAAATATATTAAAAATAAATTTT
1 TAAATATATTAAAAAGAAATTTT
* *
117290 TAAATA-ATTAAATAGACATTTT
1 TAAATATATTAAAAAGAAATTTT
117312 GAGCCAACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAAATATATTAAAAAGAAATTTT
Found at i:120430 original size:23 final size:22
Alignment explanation
Indices: 120363--120432 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 22
120353 TATATTCATT
*
120363 TAATAAATTATTA-AAATAATA
1 TAATTAATTATTATAAATAATA
*
120384 T-ATTAATTATTATTATATTAAATA
1 TAATTAATTATTA-TA-AAT-AATA
*
120408 TAATATAGTTATTATAAATAATA
1 TAAT-TAATTATTATAAATAATA
120431 TA
1 TA
120433 TTATTTAATC
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
20 10 0.26
21 1 0.03
22 1 0.03
23 8 0.21
24 7 0.18
25 4 0.10
26 8 0.21
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (22 bp):
TAATTAATTATTATAAATAATA
Found at i:121000 original size:110 final size:114
Alignment explanation
Indices: 120880--121085 Score: 296
Period size: 110 Copynumber: 1.8 Consensus size: 114
120870 TTGTATTTTG
**
120880 TTTATATATTTTTATTTCATAATTATTTTAAATTTAATAGATTAATAA-AAA-TAT-TA-T-TAA
1 TTTATATATTTTTAAATCATAATTATTTTAAA-TTAATAGATTAATAATAAATTATATATTATAA
*
120940 TATTTTTATTATATTTTAAATATATATTTTTCATATATAAAATTTATTTA
65 TAATTTTATTATATTTTAAATATATATTTTTCATATATAAAATTTATTTA
*
120990 TTTATATATTTTTAAATCATAATTATTTTAAATTAATATATTAATAATAAATTTTATCATATTTA
1 TTTATATATTTTTAAATCATAATTATTTTAAATTAATAGATTAATAATAAA--TTAT-ATA-TTA
121055 TAATAATTTTATTATATTTTAAATATATATT
62 TAATAATTTTATTATATTTTAAATATATATT
121086 ATTTTTCAGG
Statistics
Matches: 83, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
109 14 0.17
110 33 0.40
113 3 0.04
115 2 0.02
117 1 0.01
118 30 0.36
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (114 bp):
TTTATATATTTTTAAATCATAATTATTTTAAATTAATAGATTAATAATAAATTATATATTATAAT
AATTTTATTATATTTTAAATATATATTTTTCATATATAAAATTTATTTA
Found at i:121064 original size:20 final size:21
Alignment explanation
Indices: 121027--121073 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
121017 TTAAATTAAT
*
121027 ATATTAATAATAAATTTTATC
1 ATATTTATAATAAATTTTATC
*
121048 ATATTTATAAT-AATTTTATT
1 ATATTTATAATAAATTTTATC
121068 ATATTT
1 ATATTT
121074 TAAATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATATTTATAATAAATTTTATC
Found at i:131993 original size:3 final size:3
Alignment explanation
Indices: 131985--132009 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
131975 TTCCACCTCA
131985 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
132010 TGTTCTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:133564 original size:3 final size:3
Alignment explanation
Indices: 133558--133588 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
133548 TTTTTTTTAC
*
133558 TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
133589 TTTAAATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:139554 original size:2 final size:2
Alignment explanation
Indices: 139547--139582 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
139537 AGTTGGATAC
139547 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
139583 GCATCAAAAT
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:141680 original size:22 final size:22
Alignment explanation
Indices: 141655--141696 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
141645 TTTTTATAAA
141655 AAATTAATTAATAATAAATTTT
1 AAATTAATTAATAATAAATTTT
* * *
141677 AAATTTATTATTAATTAATT
1 AAATTAATTAATAATAAATT
141697 AATATAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATTAATTAATAATAAATTTT
Found at i:142157 original size:27 final size:26
Alignment explanation
Indices: 142099--142157 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
142089 ATTAAATATA
142099 AATATAAATATAAAATTTATTTATTT
1 AATATAAATATAAAATTTATTTATTT
* *
142125 ATATATAAA-ATTACATTTATATGTATTT
1 A-ATATAAATATAAAATTTAT-T-TATTT
142153 AATAT
1 AATAT
142158 TTATTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 10 0.36
27 12 0.43
28 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
AATATAAATATAAAATTTATTTATTT
Found at i:142649 original size:21 final size:20
Alignment explanation
Indices: 142623--142661 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
142613 ATAAATTAAA
*
142623 TAATATTTTATTTTATTATTT
1 TAATATATTATTTT-TTATTT
142644 TAATATATTATTTTTTAT
1 TAATATATTATTTTTTAT
142662 AAATAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TAATATATTATTTTTTATTT
Found at i:142668 original size:21 final size:22
Alignment explanation
Indices: 142619--142668 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
142609 TTAAATAAAT
*
142619 TAAATAATATTTTATTTTATTA
1 TAAATAATATATTATTTTATTA
**
142641 T-TTTAATATATTATTTT-TTA
1 TAAATAATATATTATTTTATTA
142661 TAAATAAT
1 TAAATAAT
142669 TAATCATCAT
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
20 4 0.18
21 17 0.77
22 1 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TAAATAATATATTATTTTATTA
Found at i:142817 original size:21 final size:21
Alignment explanation
Indices: 142771--142819 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
142761 AATTAACGGG
*
142771 ATTTTAATTGTATTTGATTTA
1 ATTTTAATTGTATTTGAATTA
* *
142792 GTTTTAATTATTATTT-AATTA
1 ATTTTAATT-GTATTTGAATTA
142813 ATTTTAA
1 ATTTTAA
142820 AAATATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (21 bp):
ATTTTAATTGTATTTGAATTA
Found at i:142870 original size:32 final size:30
Alignment explanation
Indices: 142821--142912 Score: 89
Period size: 33 Copynumber: 2.9 Consensus size: 30
142811 TAATTTTAAA
142821 AATATTTTTATTAAAATTTAATTAAAATAATTT
1 AATATTTTTATT-AAATTTAATTAAAATAA--T
*
142854 AATATTTTTATTAAATTTTAAATAATAA-AAT
1 AATATTTTTATTAAA-TTTAATTAA-AATAAT
*
142885 AA-ATTTTTAAATTAAATTTAATTTAAAT
1 AATATTTTT--ATTAAATTTAATTAAAAT
142913 TTAGATAAGT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
30 8 0.16
31 10 0.20
32 9 0.18
33 22 0.43
34 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
AATATTTTTATTAAATTTAATTAAAATAAT
Found at i:143438 original size:20 final size:22
Alignment explanation
Indices: 143405--143445 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
143395 AGACAAAATC
143405 TATTTGTTTCATTTAAAATATA
1 TATTTGTTTCATTTAAAATATA
*
143427 TATTT-TTT-ATTTCAAATAT
1 TATTTGTTTCATTTAAAATAT
143446 GTAATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTTGTTTCATTTAAAATATA
Found at i:144715 original size:2 final size:2
Alignment explanation
Indices: 144708--144735 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
144698 ACTTTTGCCA
144708 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
144736 TGTTTCTAAA
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:144921 original size:73 final size:73
Alignment explanation
Indices: 144833--144984 Score: 277
Period size: 73 Copynumber: 2.1 Consensus size: 73
144823 ATTAATATTT
144833 ATAATCATCTCATGGGACTAAAGGAAAATGAGAGTTTTACGTATTAAATTTATGTTTTGTTTGAA
1 ATAA-CATCTCATGGGACTAAAGGAAAATGAGAGTTTTACGTATTAAATTTATGTTTTGTTTGAA
144898 TTGGAATTG
65 TTGGAATTG
* *
144907 ATAACATCTCATGGGGCTAAAGGAAAATGAGAGTTTTACGTATTAAATTTATGTTTTGTTTTAAT
1 ATAACATCTCATGGGACTAAAGGAAAATGAGAGTTTTACGTATTAAATTTATGTTTTGTTTGAAT
144972 TGGAATTG
66 TGGAATTG
144980 ATAAC
1 ATAAC
144985 GAGTGTGTGT
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
73 72 0.95
74 4 0.05
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (73 bp):
ATAACATCTCATGGGACTAAAGGAAAATGAGAGTTTTACGTATTAAATTTATGTTTTGTTTGAAT
TGGAATTG
Found at i:146562 original size:2 final size:2
Alignment explanation
Indices: 146555--146580 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
146545 ACAAAAGGAC
146555 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
146581 CTATTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:149756 original size:56 final size:56
Alignment explanation
Indices: 149670--149782 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
149660 AACCAGTGCC
149670 GCCACAGAATGGAGGGCAAGTGCATTAATCCTTTCTTCCTGTATGTTGTTTAACAA
1 GCCACAGAATGGAGGGCAAGTGCATTAATCCTTTCTTCCTGTATGTTGTTTAACAA
*
149726 GCCACAGAATGGAGGGCAAGTGCATTAATCCTTTCTTCCTGTATGTTGTTTCACAA
1 GCCACAGAATGGAGGGCAAGTGCATTAATCCTTTCTTCCTGTATGTTGTTTAACAA
149782 G
1 G
149783 AGCTGTGGAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (56 bp):
GCCACAGAATGGAGGGCAAGTGCATTAATCCTTTCTTCCTGTATGTTGTTTAACAA
Found at i:150783 original size:2 final size:2
Alignment explanation
Indices: 150771--150816 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
150761 TGAAATTATT
* *
150771 GA GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA G-
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
150812 GA GA G
1 GA GA G
150817 CAAACCAGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:151519 original size:15 final size:16
Alignment explanation
Indices: 151496--151528 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
151486 TTAAAGTACT
*
151496 AATTTTCATT-AATTA
1 AATTATCATTAAATTA
151511 AATTATCATTAAATTA
1 AATTATCATTAAATTA
151527 AA
1 AA
151529 AAAATACTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTATCATTAAATTA
Found at i:152043 original size:12 final size:12
Alignment explanation
Indices: 152023--152059 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
152013 CCCTGTTGGC
152023 GTCCCGGTGGTT
1 GTCCCGGTGGTT
*
152035 GTGCCGGTGGTT
1 GTCCCGGTGGTT
*
152047 GTCCCTGTGGTT
1 GTCCCGGTGGTT
152059 G
1 G
152060 GAGTTGTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.22, G:0.43, T:0.35
Consensus pattern (12 bp):
GTCCCGGTGGTT
Found at i:154583 original size:2 final size:2
Alignment explanation
Indices: 154578--154611 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
154568 CATTAAGTTC
154578 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
154612 TTGAAGCCAA
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:155116 original size:22 final size:21
Alignment explanation
Indices: 155082--155126 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
155072 AAATATAACT
* *
155082 ATAAATATTTAAATTTAAATTA
1 ATAAAAATATAAA-TTAAATTA
*
155104 ATAAAAATATAAATTAATTTA
1 ATAAAAATATAAATTAAATTA
155125 AT
1 AT
155127 TAAATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAAAAATATAAATTAAATTA
Found at i:155482 original size:2 final size:2
Alignment explanation
Indices: 155477--155512 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
155467 ATAAGGACAT
*
155477 TA TA TA TA TA TA TA TA TA -A TG TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
155513 GGTTGTAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:165600 original size:2 final size:2
Alignment explanation
Indices: 165593--165620 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
165583 CTTGTTTTTC
165593 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
165621 TCTGCATCCA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:169035 original size:22 final size:25
Alignment explanation
Indices: 169000--169054 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
168990 TTTTGAACAA
169000 TAAA-AATTTATAGA-TTT-AATTT
1 TAAATAATTTATAGATTTTCAATTT
*
169022 TAAATAATTT-TAGATTTTCATTTT
1 TAAATAATTTATAGATTTTCAATTT
169046 TAAATAATT
1 TAAATAATT
169055 ACAATACTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 8 0.28
23 8 0.28
24 13 0.45
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (25 bp):
TAAATAATTTATAGATTTTCAATTT
Found at i:170319 original size:13 final size:12
Alignment explanation
Indices: 170300--170329 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
170290 ATTAAGTCTC
170300 AAATAATAATAA
1 AAATAATAATAA
170312 ATAATAATAATAA
1 A-AATAATAATAA
170325 AAATA
1 AAATA
170330 CAAACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAATAATAATAA
Found at i:171133 original size:72 final size:75
Alignment explanation
Indices: 170997--171147 Score: 245
Period size: 72 Copynumber: 2.1 Consensus size: 75
170987 TTTAATAATA
*
170997 TTAAAAAAATTTAATATTTAAAATGATCGACTTATCCTTTATTTGTAAAAATTATATATAGCTCT
1 TTAAAAAAATTTAATATTTAAAACGATCGACTTATCCTTTATTTGTAAAAATTATATATAGCTCT
171062 AACCAAAAAT
66 AACCAAAAAT
* * *
171072 TTAAAAAATTTTAATATTTATAACGATCG-CTTAT-C-TTATTTGTAAAAATTATATATGGCTCT
1 TTAAAAAAATTTAATATTTAAAACGATCGACTTATCCTTTATTTGTAAAAATTATATATAGCTCT
171134 AACCAAAAAT
66 AACCAAAAAT
171144 TTAA
1 TTAA
171148 TGAAATTGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
72 40 0.56
73 1 0.01
74 5 0.07
75 26 0.36
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.40
Consensus pattern (75 bp):
TTAAAAAAATTTAATATTTAAAACGATCGACTTATCCTTTATTTGTAAAAATTATATATAGCTCT
AACCAAAAAT
Found at i:190580 original size:15 final size:16
Alignment explanation
Indices: 190555--190595 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
190545 TAGTCTTGAA
*
190555 GAAGATGATGACGATG
1 GAAGATGATGAAGATG
190571 GAAG-TGATGAAGAT-
1 GAAGATGATGAAGATG
*
190585 GATGATGATGA
1 GAAGATGATGA
190596 TAGTGGTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 3 0.14
15 15 0.68
16 4 0.18
ACGTcount: A:0.39, C:0.02, G:0.37, T:0.22
Consensus pattern (16 bp):
GAAGATGATGAAGATG
Found at i:197304 original size:17 final size:19
Alignment explanation
Indices: 197282--197321 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
197272 ATCAGGATTT
197282 AATTTTAT-TTA-ATTTAA
1 AATTTTATATTATATTTAA
197299 AATTTTATATTATTATTTAA
1 AATTTTATATTA-TATTTAA
197319 AAT
1 AAT
197322 ATATTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
20 9 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AATTTTATATTATATTTAA
Found at i:197337 original size:22 final size:20
Alignment explanation
Indices: 197293--197338 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
197283 ATTTTATTTA
* *
197293 ATTTAAAATTTTATATTATT
1 ATTTAAAATTTTAAAATATT
197313 ATTTAAAATATATTAAAATATT
1 ATTTAAAAT-T-TTAAAATATT
197335 ATTT
1 ATTT
197339 TTTTATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 1 0.05
22 12 0.55
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTAAAATTTTAAAATATT
Found at i:198114 original size:16 final size:16
Alignment explanation
Indices: 198088--198160 Score: 60
Period size: 16 Copynumber: 4.4 Consensus size: 16
198078 TATTTTAGGA
*
198088 TTAAGATTATTTTTTAT
1 TTAA-ATTATTTTTAAT
* *
198105 TTAAATTATTTTAAAA
1 TTAAATTATTTTTAAT
198121 TTAAA--ATTTTTAATT
1 TTAAATTATTTTTAA-T
198136 TTAAAATTATTTTATTAAT
1 TT-AAATTA-TTT-TTAAT
198155 TTAAAT
1 TTAAAT
198161 AATAAATTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
14 7 0.16
15 2 0.04
16 17 0.38
17 4 0.09
18 5 0.11
19 6 0.13
20 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (16 bp):
TTAAATTATTTTTAAT
Found at i:199154 original size:17 final size:17
Alignment explanation
Indices: 199124--199158 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
199114 CAAATAATAA
*
199124 AAATAAATTTAATTTAT
1 AAATAAATTAAATTTAT
*
199141 AAATATATTAAATTTAT
1 AAATAAATTAAATTTAT
199158 A
1 A
199159 TAAATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATAAATTAAATTTAT
Found at i:209023 original size:10 final size:11
Alignment explanation
Indices: 209008--209050 Score: 58
Period size: 10 Copynumber: 4.3 Consensus size: 11
208998 TTTAAAATAT
209008 TATAAT-TTTA
1 TATAATATTTA
209018 TATAATATTTA
1 TATAATATTTA
209029 TA-AATATTT-
1 TATAATATTTA
209038 T-TAATATTTA
1 TATAATATTTA
209048 TAT
1 TAT
209051 TTTTATGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 8 0.28
10 14 0.48
11 7 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TATAATATTTA
Found at i:209031 original size:19 final size:18
Alignment explanation
Indices: 209003--209056 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
208993 TATTATTTAA
209003 AATA-TTATAATTTTATAT
1 AATATTTATAATTTTAT-T
209021 AATATTTATAAATATTT-TT
1 AATATTTAT-AAT-TTTATT
*
209040 AATATTTATATTTTTAT
1 AATATTTATAATTTTAT
209057 GTCTTATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
17 3 0.10
18 7 0.23
19 14 0.45
20 4 0.13
21 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AATATTTATAATTTTATT
Found at i:209078 original size:11 final size:11
Alignment explanation
Indices: 209064--209097 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
209054 TATGTCTTAT
209064 TTATTTTTTAA
1 TTATTTTTTAA
*
209075 TTATGTTTTAA
1 TTATTTTTTAA
*
209086 TTAATTTTTAA
1 TTATTTTTTAA
209097 T
1 T
209098 GTTATATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
TTATTTTTTAA
Found at i:209102 original size:24 final size:22
Alignment explanation
Indices: 209053--209097 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
209043 ATTTATATTT
* * *
209053 TTATGTCTTATTTATTTTTTAA
1 TTATGTTTTAATTAATTTTTAA
209075 TTATGTTTTAATTAATTTTTAA
1 TTATGTTTTAATTAATTTTTAA
209097 T
1 T
209098 GTTATATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (22 bp):
TTATGTTTTAATTAATTTTTAA
Found at i:209277 original size:13 final size:13
Alignment explanation
Indices: 209261--209285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
209251 CATGTTATAT
209261 TTATTTTTTAATA
1 TTATTTTTTAATA
209274 TTATTTTTTAAT
1 TTATTTTTTAAT
209286 TAATTTTTAA
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTTTTTAATA
Found at i:210514 original size:19 final size:18
Alignment explanation
Indices: 210492--210538 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 18
210482 TTATTTGAAA
210492 TAAATAATAATAAATTATT
1 TAAATAATAAT-AATTATT
210511 TAAATAAATAATAATTATT
1 TAAAT-AATAATAATTATT
210530 TAATATAAT
1 TAA-ATAAT
210539 TTAATTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAATAATAATAATTATT
Found at i:210818 original size:15 final size:16
Alignment explanation
Indices: 210798--210830 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
210788 ACCAATAAGG
*
210798 AAAATACAAA-AAAAT
1 AAAATAAAAATAAAAT
210813 AAAATAAAAATAAAAT
1 AAAATAAAAATAAAAT
210829 AA
1 AA
210831 CAACCGACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:210823 original size:11 final size:11
Alignment explanation
Indices: 210798--210830 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
210788 ACCAATAAGG
*
210798 AAAATACAA-A
1 AAAATAAAATA
210808 AAAATAAAATA
1 AAAATAAAATA
210819 AAAATAAAATA
1 AAAATAAAATA
210830 A
1 A
210831 CAACCGACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:213574 original size:25 final size:25
Alignment explanation
Indices: 213534--213587 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
213524 AAGGGCTGCG
213534 TGTGCAAAAAGAACAATACTTAGGA
1 TGTGCAAAAAGAACAATACTTAGGA
* *
213559 TGTGCAAAGAGGACAATACTTAGGA
1 TGTGCAAAAAGAACAATACTTAGGA
213584 TGTG
1 TGTG
213588 GTGTAGACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.41, C:0.11, G:0.26, T:0.22
Consensus pattern (25 bp):
TGTGCAAAAAGAACAATACTTAGGA
Found at i:214647 original size:16 final size:17
Alignment explanation
Indices: 214623--214656 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
214613 ATACCCCACT
*
214623 ATGATCTTCT-AGCCGC
1 ATGAGCTTCTCAGCCGC
214639 ATGAGCTTCTCAGCCGC
1 ATGAGCTTCTCAGCCGC
214656 A
1 A
214657 ACCTCAGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (17 bp):
ATGAGCTTCTCAGCCGC
Found at i:216365 original size:2 final size:2
Alignment explanation
Indices: 216358--216393 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
216348 CCTTCTTAAT
216358 TA TA TA TA TA 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 TA TA TA TA TA
216394 AATTTAGGTT
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):
TA
Found at i:216757 original size:2 final size:2
Alignment explanation
Indices: 216750--216775 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
216740 TTATTAGTGC
216750 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
216776 CACACATTTG
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
Done.