Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 19 of 226
Found at i:6663924 original size:22 final size:22
Alignment explanation
Indices: 6663899--6663943 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6663889 AAGTTTTTTT
6663899 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
6663921 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
6663943 A
1 A
6663944 AAGTTATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (22 bp):
ATATATTTTGGTAAATAAAAAA
Found at i:6664125 original size:26 final size:26
Alignment explanation
Indices: 6664074--6664125 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
6664064 TAATTTCTTA
**
6664074 TAAAATTAATATATTTAACTTTAATT
1 TAAAATTAATATATTTAACTACAATT
6664100 TAAAATTAAATATATTTAA-TACAATT
1 TAAAATT-AATATATTTAACTACAATT
6664126 ATATATTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
TAAAATTAATATATTTAACTACAATT
Found at i:6664287 original size:42 final size:42
Alignment explanation
Indices: 6664240--6664325 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
6664230 AAAAAATTAA
6664240 TATCAAAGTTAATATATACAATTAAATTAAAATTTAAATAGT
1 TATCAAAGTTAATATATACAATTAAATTAAAATTTAAATAGT
*
6664282 TATCAAAGTTAATATATACAATTAAATTAAATTTTAAATAGT
1 TATCAAAGTTAATATATACAATTAAATTAAAATTTAAATAGT
6664324 TA
1 TA
6664326 ACATTTATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (42 bp):
TATCAAAGTTAATATATACAATTAAATTAAAATTTAAATAGT
Found at i:6669033 original size:28 final size:27
Alignment explanation
Indices: 6668993--6669046 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
6668983 TGTTCCTTTC
*
6668993 TGTTTGTTTTTTTCCTTTTGTTGTACT
1 TGTTTGTTGTTTTCCTTTTGTTGTACT
**
6669020 TGTTTGTTGGTTTTTGTTTTGTTGTAC
1 TGTTTGTT-GTTTTCCTTTTGTTGTAC
6669047 GGTGTGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.04, C:0.07, G:0.20, T:0.69
Consensus pattern (27 bp):
TGTTTGTTGTTTTCCTTTTGTTGTACT
Found at i:6673372 original size:12 final size:12
Alignment explanation
Indices: 6673355--6673380 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6673345 TGGTTCTGTC
6673355 CTAATTGCTTAG
1 CTAATTGCTTAG
6673367 CTAATTGCTTAG
1 CTAATTGCTTAG
6673379 CT
1 CT
6673381 CCACTACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.42
Consensus pattern (12 bp):
CTAATTGCTTAG
Found at i:6674484 original size:19 final size:19
Alignment explanation
Indices: 6674456--6674494 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6674446 GGTTTAACTT
* *
6674456 AAGTTTTATTTAATTGTTA
1 AAGTTATATTAAATTGTTA
*
6674475 AAGTTATATTAAATTTTTA
1 AAGTTATATTAAATTGTTA
6674494 A
1 A
6674495 CTAATATGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
AAGTTATATTAAATTGTTA
Found at i:6675607 original size:9 final size:9
Alignment explanation
Indices: 6675576--6675600 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6675566 TCAATTTGGT
6675576 TAATTCGGG
1 TAATTCGGG
6675585 TAATTCGGG
1 TAATTCGGG
6675594 TAATTCG
1 TAATTCG
6675601 ATTAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (9 bp):
TAATTCGGG
Found at i:6675888 original size:40 final size:41
Alignment explanation
Indices: 6675833--6675921 Score: 171
Period size: 40 Copynumber: 2.2 Consensus size: 41
6675823 TTAAAAAAAT
6675833 GGGCCGGGCCAGGCTCGGGCTTATGATA-TTTTCCCGGGCC
1 GGGCCGGGCCAGGCTCGGGCTTATGATATTTTTCCCGGGCC
6675873 GGGCCGGGCCAGGCTCGGGCTTATGATATTTTTCCCGGGCC
1 GGGCCGGGCCAGGCTCGGGCTTATGATATTTTTCCCGGGCC
6675914 GGGCCGGG
1 GGGCCGGG
6675922 GAAAAATTTC
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 28 0.58
41 20 0.42
ACGTcount: A:0.09, C:0.29, G:0.40, T:0.21
Consensus pattern (41 bp):
GGGCCGGGCCAGGCTCGGGCTTATGATATTTTTCCCGGGCC
Found at i:6678486 original size:12 final size:11
Alignment explanation
Indices: 6678471--6678583 Score: 56
Period size: 11 Copynumber: 11.4 Consensus size: 11
6678461 TAAAAATTAA
6678471 AAAAAGTATTTT
1 AAAAA-TATTTT
6678483 AAAAATATTTT
1 AAAAATATTTT
6678494 --AAA-A--TT
1 AAAAATATTTT
*
6678500 AAAAA-AATTT
1 AAAAATATTTT
6678510 AAAAA-A-TTT
1 AAAAATATTTT
*
6678519 AAAAA-AATTT
1 AAAAATATTTT
*
6678529 AAAAAAATTTT
1 AAAAATATTTT
6678540 --AAA-A--TT
1 AAAAATATTTT
* *
6678546 AAAAAAATTTA
1 AAAAATATTTT
6678557 AAAAAGTATTTT
1 AAAAA-TATTTT
*
6678569 AAAAGTATTTT
1 AAAAATATTTT
6678580 AAAA
1 AAAA
6678584 TTAAAAAAAT
Statistics
Matches: 84, Mismatches: 5, Indels: 25
0.74 0.04 0.22
Matches are distributed among these distances:
6 4 0.05
8 9 0.11
9 16 0.19
10 16 0.19
11 26 0.31
12 13 0.15
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:6678491 original size:11 final size:10
Alignment explanation
Indices: 6678478--6678583 Score: 73
Period size: 10 Copynumber: 10.9 Consensus size: 10
6678468 TAAAAAAAGT
6678478 ATTTTAAAAA
1 ATTTTAAAAA
6678488 TATTTT--AAA
1 -ATTTTAAAAA
6678497 A--TTAAAAA
1 ATTTTAAAAA
*
6678505 AATTTAAAAA
1 ATTTTAAAAA
*
6678515 ATTTAAAAAA
1 ATTTTAAAAA
*
6678525 ATTTAAAAAA
1 ATTTTAAAAA
6678535 ATTTT--AAA
1 ATTTTAAAAA
*
6678543 A-TTAAAAAA
1 ATTTTAAAAA
*
6678552 ATTTAAAAAA
1 ATTTTAAAAA
*
6678562 GTATTTTAAAAGT
1 --ATTTTAAAA-A
6678575 ATTTTAAAA
1 ATTTTAAAA
6678584 TTAAAAAAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 9 0.11
9 7 0.09
10 37 0.47
11 14 0.18
12 8 0.10
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:6678511 original size:10 final size:10
Alignment explanation
Indices: 6678494--6678561 Score: 92
Period size: 10 Copynumber: 7.3 Consensus size: 10
6678484 AAAATATTTT
6678494 AAAA-TTAAA
1 AAAATTTAAA
6678503 AAAATTT-AA
1 AAAATTTAAA
6678512 AAAATTTAAA
1 AAAATTTAAA
6678522 AAAATTTAAA
1 AAAATTTAAA
*
6678532 AAAATTT--T
1 AAAATTTAAA
6678540 AAAA-TTAAA
1 AAAATTTAAA
6678549 AAAATTTAAA
1 AAAATTTAAA
6678559 AAA
1 AAA
6678562 GTATTTTAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
7 2 0.04
8 4 0.08
9 17 0.33
10 29 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:6678532 original size:46 final size:48
Alignment explanation
Indices: 6678462--6678561 Score: 159
Period size: 46 Copynumber: 2.1 Consensus size: 48
6678452 AAATTAAATT
*
6678462 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTA
1 AAAAATTAAAAAAAG-ATTTTAAAAAAATTTTAAAATTAAAAAAATTTA
*
6678511 AAAAATTTAAAAAA-A-TTTAAAAAAATTTTAAAATTAAAAAAATTTA
1 AAAAATTAAAAAAAGATTTTAAAAAAATTTTAAAATTAAAAAAATTTA
6678557 AAAAA
1 AAAAA
6678562 GTATTTTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
46 35 0.71
47 1 0.02
49 13 0.27
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (48 bp):
AAAAATTAAAAAAAGATTTTAAAAAAATTTTAAAATTAAAAAAATTTA
Found at i:6681604 original size:27 final size:27
Alignment explanation
Indices: 6681570--6681633 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
6681560 ATAAAAAATA
*
6681570 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTATTT
6681597 ACCAAAATATTATAAATTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTATTT
6681624 ACCAAAATAT
1 ACCAAAATAT
6681634 AAAAAAACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (27 bp):
ACCAAAATATTATAAATTTTTTTATTT
Found at i:6681708 original size:27 final size:27
Alignment explanation
Indices: 6681670--6681746 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
6681660 AAAAAACCTG
* *
6681670 TGGCGGCACCAAAGATGCCAAAGAGAT
1 TGGCGGCACCAATGGTGCCAAAGAGAT
*
6681697 TGGCGGCACCAATGGCGCCAAAGAGAT
1 TGGCGGCACCAATGGTGCCAAAGAGAT
*
6681724 TGGGGGCACCAATGGTGCCAAAG
1 TGGCGGCACCAATGGTGCCAAAG
6681747 GACTAAAATG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.31, C:0.23, G:0.34, T:0.12
Consensus pattern (27 bp):
TGGCGGCACCAATGGTGCCAAAGAGAT
Found at i:6682041 original size:20 final size:20
Alignment explanation
Indices: 6682016--6682053 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6682006 ATTTTATTAT
6682016 TAAAGTAAATA-TATTTTACC
1 TAAAGTAAA-ACTATTTTACC
6682036 TAAAGTAAAACTATTTTA
1 TAAAGTAAAACTATTTTA
6682054 AAAAGTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (20 bp):
TAAAGTAAAACTATTTTACC
Found at i:6682403 original size:45 final size:45
Alignment explanation
Indices: 6682350--6682523 Score: 295
Period size: 45 Copynumber: 4.0 Consensus size: 45
6682340 ATTCAAGAAG
*
6682350 TAATAACTCTATTTTAATTTAATAAATTATTCTCATCAAATTACT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTACT
*
6682395 TAGTAACTCTATTTTAATTTAATAAACTATTCTCATC--A-T--T
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTACT
6682435 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTACT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTACT
6682480 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTAC
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTAC
6682524 CAAAATAGAG
Statistics
Matches: 121, Mismatches: 3, Indels: 10
0.90 0.02 0.07
Matches are distributed among these distances:
40 37 0.31
42 2 0.02
43 2 0.02
45 80 0.66
ACGTcount: A:0.39, C:0.15, G:0.01, T:0.45
Consensus pattern (45 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTACT
Found at i:6682442 original size:40 final size:42
Alignment explanation
Indices: 6682312--6682517 Score: 262
Period size: 45 Copynumber: 4.9 Consensus size: 42
6682302 TCTAATTAAG
* ** *
6682312 TAATAACTTTATTTTAATTTAATAAACTA-T-TCA--AGAAG
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCATTAT
*
6682350 TAATAACTCTATTTTAATTTAATAAATTATTCTCATCAAATTACT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATC--ATTA-T
*
6682395 TAGTAACTCTATTTTAATTTAATAAACTATTCTCATCA-T-T
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCATTAT
6682435 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTACT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATC--ATTA-T
6682480 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCA
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCA
6682518 AATTACCAAA
Statistics
Matches: 148, Mismatches: 8, Indels: 19
0.85 0.05 0.11
Matches are distributed among these distances:
38 27 0.18
39 1 0.01
40 40 0.27
42 2 0.01
43 3 0.02
44 2 0.01
45 73 0.49
ACGTcount: A:0.40, C:0.14, G:0.01, T:0.45
Consensus pattern (42 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATCATTAT
Found at i:6682468 original size:85 final size:85
Alignment explanation
Indices: 6682312--6682518 Score: 337
Period size: 85 Copynumber: 2.5 Consensus size: 85
6682302 TCTAATTAAG
* **
6682312 TAATAACTTTATTTTAATTTAATAAACTA-T-TCAAGAAGTAATAACTCTATTTTAATTTAATAA
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAGTAATAACTCTATTTTAATTTAATAA
*
6682375 ATTATTCTCATCAAATTACT
66 ACTATTCTCATCAAATTACT
* **
6682395 TAGTAACTCTATTTTAATTTAATAAACTATTCTCATCATTTAATAACTCTATTTTAATTTAATAA
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAGTAATAACTCTATTTTAATTTAATAA
6682460 ACTATTCTCATCAAATTACT
66 ACTATTCTCATCAAATTACT
6682480 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAA
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAA
6682519 ATTACCAAAA
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
83 27 0.24
84 1 0.01
85 85 0.75
ACGTcount: A:0.40, C:0.14, G:0.01, T:0.45
Consensus pattern (85 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAGTAATAACTCTATTTTAATTTAATAA
ACTATTCTCATCAAATTACT
Found at i:6683128 original size:27 final size:27
Alignment explanation
Indices: 6683067--6683130 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
6683057 TGTTTTTGAT
* *
6683067 ATATTTTAGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
6683094 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
6683121 ATATTTTGGT
1 ATATTTTGGT
6683131 TATTTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:6688942 original size:9 final size:9
Alignment explanation
Indices: 6688928--6688955 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
6688918 TGAGTTTTCG
6688928 AATTCGAAT
1 AATTCGAAT
6688937 AATTCGAAT
1 AATTCGAAT
6688946 AATTCGAAT
1 AATTCGAAT
6688955 A
1 A
6688956 TCAAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:6709793 original size:51 final size:50
Alignment explanation
Indices: 6709732--6709916 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 50
6709722 CCGGTTCACA
* * * *
6709732 TAGTATCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACAAG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGGTACAAG
* * * * *
6709783 TAGTAGCCTGCACATAGTACTACACACGTAATCGA-AGCTATTCGGTACGCA-
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGGTAC-AAG
* * * *
6709834 TAGTAGTCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGGTACAAG
*
6709884 TAGTACCCTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
6709917 TAGCAACTTC
Statistics
Matches: 106, Mismatches: 22, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
49 1 0.01
50 40 0.38
51 62 0.58
52 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCCGGTACAAG
Found at i:6709911 original size:101 final size:101
Alignment explanation
Indices: 6709730--6709912 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 101
6709720 ACCCGGTTCA
* * *
6709730 CATAGTATCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACAAGTAGTAGCCTGCA
1 CATAGTATCCTGCACATAGTACTACACATGCGACCA-TATCATCCGATACAAGTAGTACCCTGCA
6709795 CATAGTACTACACACGTAATCGAAGCTATTCGGTACG
65 CATAGTACTACACACGTAATCGAAGCTATTCGGTACG
* *
6709832 CATAGTAGT-CTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTACCCTGC
1 CATAGTA-TCCTGCACATAGTACTACACATGCGACCATATCA-TCCGATACAAGTAGTACCCTGC
6709895 ACATAGTACTACACACGT
64 ACATAGTACTACACACGT
6709913 GACCTAGCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 4 0.05
101 37 0.50
102 32 0.43
103 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (101 bp):
CATAGTATCCTGCACATAGTACTACACATGCGACCATATCATCCGATACAAGTAGTACCCTGCAC
ATAGTACTACACACGTAATCGAAGCTATTCGGTACG
Found at i:6714371 original size:18 final size:17
Alignment explanation
Indices: 6714345--6714383 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
6714335 ATTTTCCTTC
6714345 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
6714362 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
6714380 CACA
1 CACA
6714384 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:6716278 original size:24 final size:24
Alignment explanation
Indices: 6716225--6716279 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
6716215 AAAGAGCCTA
* *
6716225 TAACGAGTAACTCTGAAGAGCAAT
1 TAACGGGTAACTCCGAAGAGCAAT
* *
6716249 TAACGGGTAGCTCCGAAGAGTAAT
1 TAACGGGTAACTCCGAAGAGCAAT
6716273 TAACGGG
1 TAACGGG
6716280 AAGTTCAAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.20
Consensus pattern (24 bp):
TAACGGGTAACTCCGAAGAGCAAT
Found at i:6722062 original size:18 final size:18
Alignment explanation
Indices: 6722035--6722076 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6722025 GGCCCCAGCG
* * *
6722035 ATGGGGATGGGGATGGGT
1 ATGGGTATGGGCATGGGC
6722053 ATGGGTATGGGCATGGGC
1 ATGGGTATGGGCATGGGC
6722071 ATGGGT
1 ATGGGT
6722077 GTCATGGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.05, G:0.55, T:0.24
Consensus pattern (18 bp):
ATGGGTATGGGCATGGGC
Found at i:6724913 original size:5 final size:5
Alignment explanation
Indices: 6724903--6724930 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6724893 TTCAACTCTC
6724903 TCTTT TCTTT TCTTT TCTTT TCTTT TCT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCT
6724931 AACTCTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:6726825 original size:22 final size:21
Alignment explanation
Indices: 6726800--6726845 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
6726790 AAATTGTTGC
* *
6726800 ATTTGTTTTGATATTGGTCTTG
1 ATTTGTTCTGAAATT-GTCTTG
*
6726822 ATTTGTTCTGAAATTGTTTTG
1 ATTTGTTCTGAAATTGTCTTG
6726843 ATT
1 ATT
6726846 GTCTGCTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.17, C:0.04, G:0.20, T:0.59
Consensus pattern (21 bp):
ATTTGTTCTGAAATTGTCTTG
Found at i:6726859 original size:23 final size:23
Alignment explanation
Indices: 6726831--6726914 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
6726821 GATTTGTTCT
6726831 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
* * *
6726854 GAAATTGGTATGATTGGCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
6726877 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
*
6726900 GAAATTGTGTTGATT
1 GAAATTGTTTTGATT
6726915 TGTTTATGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.20, C:0.07, G:0.29, T:0.44
Consensus pattern (23 bp):
GAAATTGTTTTGATTGTCTGCTG
Found at i:6731466 original size:28 final size:27
Alignment explanation
Indices: 6731435--6731507 Score: 62
Period size: 28 Copynumber: 2.7 Consensus size: 27
6731425 ATTTATTAGT
6731435 TATAATTATTTTAAATTTTATGTAATCA
1 TATAATTATTTTAAATTTTATGTAAT-A
* * *
6731463 TAT-ATT-TTAATTAAAATATATTTAATA
1 TATAATTATT--TTAAATTTTATGTAATA
*
6731490 T-TAATTATTTCAAATTTT
1 TATAATTATTTTAAATTTT
6731508 CATTTATAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
26 9 0.26
27 8 0.23
28 18 0.51
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (27 bp):
TATAATTATTTTAAATTTTATGTAATA
Found at i:6731603 original size:16 final size:16
Alignment explanation
Indices: 6731582--6731623 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6731572 TTATTAAATT
*
6731582 ATATATTTTAATTATA
1 ATATATTTTAATAATA
6731598 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
6731613 AT-TATGTTTAA
1 ATATAT-TTTAA
6731624 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:6731608 original size:15 final size:15
Alignment explanation
Indices: 6731573--6731614 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6731563 TTAAGAATTT
*
6731573 TATTAAATTAT-ATA
1 TATTTAATTATAATA
6731587 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
6731601 TATTTAATAATAAT
1 TATTTAATTATAAT
6731615 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:6731840 original size:18 final size:17
Alignment explanation
Indices: 6731812--6731846 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6731802 ATTATTAAGA
*
6731812 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6731829 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6731847 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6732103 original size:16 final size:16
Alignment explanation
Indices: 6732082--6732117 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
6732072 GATTTGCTAT
6732082 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6732098 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6732114 TACA
1 TACA
6732118 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:6734948 original size:14 final size:15
Alignment explanation
Indices: 6734929--6734957 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6734919 TTGTAGTGAA
6734929 ATGATGT-TTTTCTT
1 ATGATGTGTTTTCTT
6734943 ATGATGTGTTTTCTT
1 ATGATGTGTTTTCTT
6734958 CTTTATGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.07, G:0.17, T:0.62
Consensus pattern (15 bp):
ATGATGTGTTTTCTT
Found at i:6736133 original size:39 final size:40
Alignment explanation
Indices: 6735999--6736133 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 40
6735989 GTTTGGAACA
* * * *
6735999 AAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTAGCC
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGTTTTATCT
* * ** *
6736039 AAAGCGCCGCTAAAGGTAGAGCATCAGCGGCGATTTT-TCT
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCG-TTTTATCT
* * * * *
6736079 GAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTATAT
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGTTTTATCT
6736118 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
6736134 CCTAAGAACG
Statistics
Matches: 75, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
38 4 0.05
39 25 0.33
40 43 0.57
41 3 0.04
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (40 bp):
AAAGCGCCACAAAAAATAGAGCATTAGCGGCGTTTTATCT
Found at i:6736216 original size:41 final size:40
Alignment explanation
Indices: 6736166--6736404 Score: 264
Period size: 41 Copynumber: 5.8 Consensus size: 40
6736156 TTTTTTAAAC
* **
6736166 CTTTAGCGGCGTTTTCATCTAAGCGCCGCTAATTTTCGGAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGG-T
*
6736207 CTTTCGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGTGT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCG-GT
*
6736248 CTTTAGCGGCGTTTTTATCTGAA-CGCCGCTAATGCTCTGGC
1 CTTTAGCGGCGTTTTTATCT-AAGCGCCGCTAATGCTC-GGT
* * *
6736289 CTTTGGCGGCGTTTTTATATAAGCGCCGCTAATGCTCGAAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCG-GT
* * * * * *
6736330 CTTTAGCAGCGTTTTTAACTGAGTGCCGCTAATTCTCTTGT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GGT
* * *
6736371 CTTCAGCGGCGTTTGTAGCTAAGCGCCGCTAATG
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATG
6736405 TATTTATCTT
Statistics
Matches: 166, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
40 3 0.02
41 159 0.96
42 4 0.02
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGT
Found at i:6736303 original size:82 final size:82
Alignment explanation
Indices: 6736166--6736404 Score: 293
Period size: 82 Copynumber: 2.9 Consensus size: 82
6736156 TTTTTTAAAC
* * *
6736166 CTTTAGCGGCGTTTTCATCT-AAGCGCCGCTAATTTTC-GGATCTTTCGCGGCGTTTTTATCTAA
1 CTTTAGCGGCGTTTTTATCTGAA-CGCCGCTAATTCTCTGG-TCTTTAGCGGCGTTTTTATCTAA
**
6736229 GCGCCGCTAATGCTCGTGT
64 GCGCCGCTAATGCTCGAAT
* * * *
6736248 CTTTAGCGGCGTTTTTATCTGAACGCCGCTAATGCTCTGGCCTTTGGCGGCGTTTTTATATAAGC
1 CTTTAGCGGCGTTTTTATCTGAACGCCGCTAATTCTCTGGTCTTTAGCGGCGTTTTTATCTAAGC
6736313 GCCGCTAATGCTCGAAT
66 GCCGCTAATGCTCGAAT
* * ** * * * *
6736330 CTTTAGCAGCGTTTTTAACTGAGTGCCGCTAATTCTCTTGTCTTCAGCGGCGTTTGTAGCTAAGC
1 CTTTAGCGGCGTTTTTATCTGAACGCCGCTAATTCTCTGGTCTTTAGCGGCGTTTTTATCTAAGC
6736395 GCCGCTAATG
66 GCCGCTAATG
6736405 TATTTATCTT
Statistics
Matches: 135, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
82 131 0.97
83 4 0.03
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTATCTGAACGCCGCTAATTCTCTGGTCTTTAGCGGCGTTTTTATCTAAGC
GCCGCTAATGCTCGAAT
Found at i:6736384 original size:123 final size:123
Alignment explanation
Indices: 6736165--6736404 Score: 320
Period size: 123 Copynumber: 2.0 Consensus size: 123
6736155 ATTTTTTAAA
* ** * * * *
6736165 CCTTTAGCGGCGTTTTCATCTAAGCGCCGCTAATTTTCGGATCTTTCGCGGCGTTTTTATCTAAG
1 CCTTTAGCGGCGTTTTCATATAAGCGCCGCTAATGCTCGAATCTTTAGCAGCGTTTTTAACTAAG
* * *
6736230 CGCCGCTAATGCTCGTGTCTTTAGCGGCGTTTTTATCTGAA-CGCCGCTAATGCTCTGG
66 CGCCGCTAATGCTCGTGTCTTCAGCGGCGTTTGTAGCT-AAGCGCCGCTAATGCTCTGG
* * *
6736288 CCTTTGGCGGCGTTTTTATATAAGCGCCGCTAATGCTCGAATCTTTAGCAGCGTTTTTAACTGAG
1 CCTTTAGCGGCGTTTTCATATAAGCGCCGCTAATGCTCGAATCTTTAGCAGCGTTTTTAACTAAG
* * *
6736353 TGCCGCTAATTCTCTTGTCTTCAGCGGCGTTTGTAGCTAAGCGCCGCTAATG
66 CGCCGCTAATGCTCGTGTCTTCAGCGGCGTTTGTAGCTAAGCGCCGCTAATG
6736405 TATTTATCTT
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
122 2 0.02
123 98 0.98
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (123 bp):
CCTTTAGCGGCGTTTTCATATAAGCGCCGCTAATGCTCGAATCTTTAGCAGCGTTTTTAACTAAG
CGCCGCTAATGCTCGTGTCTTCAGCGGCGTTTGTAGCTAAGCGCCGCTAATGCTCTGG
Found at i:6736935 original size:15 final size:15
Alignment explanation
Indices: 6736914--6736951 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
6736904 TTTAAGGTTA
6736914 ATTTAGGGG-TTAGAG
1 ATTTAGGGGATT-GAG
*
6736929 GTTTAGGGGATTGAG
1 ATTTAGGGGATTGAG
6736944 ATTTAGGG
1 ATTTAGGG
6736952 TTTTAACGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 18 0.90
16 2 0.10
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.34
Consensus pattern (15 bp):
ATTTAGGGGATTGAG
Found at i:6737725 original size:15 final size:16
Alignment explanation
Indices: 6737658--6737762 Score: 67
Period size: 15 Copynumber: 6.4 Consensus size: 16
6737648 AAATTTAATG
*
6737658 TTTAGGGGTTAGGGGGA
1 TTTAGGGGTTA-AGGGA
*
6737675 TTTATGGGTTAAGGGTTA
1 TTTAGGGGTTAAGGG--A
6737693 TGCTTTAGGGGTTAAGGGA
1 ---TTTAGGGGTTAAGGGA
6737712 TTTAGGGG-TAAGGG-
1 TTTAGGGGTTAAGGGA
* *
6737726 GTTAGGGGGTT-ATGGA
1 TTTA-GGGGTTAAGGGA
*
6737742 TTT-GGGGTTTAGGG-
1 TTTAGGGGTTAAGGGA
6737756 TTTAGGG
1 TTTAGGG
6737763 TTTCAACGGT
Statistics
Matches: 71, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
14 12 0.17
15 19 0.27
16 14 0.20
17 10 0.14
18 1 0.01
19 1 0.01
21 14 0.20
ACGTcount: A:0.18, C:0.01, G:0.46, T:0.35
Consensus pattern (16 bp):
TTTAGGGGTTAAGGGA
Found at i:6741148 original size:22 final size:22
Alignment explanation
Indices: 6741120--6741189 Score: 131
Period size: 22 Copynumber: 3.2 Consensus size: 22
6741110 AACTTAATTA
6741120 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTTAC
6741142 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTTAC
*
6741164 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAACTTAC
6741186 ATTA
1 ATTA
6741190 CTTAATTAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAATATTATACATAACTTAC
Found at i:6741195 original size:78 final size:78
Alignment explanation
Indices: 6741074--6741243 Score: 313
Period size: 78 Copynumber: 2.2 Consensus size: 78
6741064 ATACATAGAT
*
6741074 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACT
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACA
6741139 TACATTAATATTA
66 TACATTAATATTA
*
6741152 TACATAACTTACATTAATATTATACATAAATTACATTACTTAATTAATTAATATTATACATAACA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACA
6741217 TACATTAATATTA
66 TACATTAATATTA
*
6741230 TACATAAATTACAT
1 TACATAACTTACAT
6741244 AACTTAATTA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 89 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.41
Consensus pattern (78 bp):
TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACA
TACATTAATATTA
Found at i:6741202 original size:56 final size:56
Alignment explanation
Indices: 6741142--6741289 Score: 278
Period size: 56 Copynumber: 2.6 Consensus size: 56
6741132 CATAACTTAC
*
6741142 ATTAATATTATACATAACTTACATTAATATTATACATAAATTACATTACTTAATTA
1 ATTAATATTATACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
*
6741198 ATTAATATTATACATAACATACATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
6741254 ATTAATATTATACATAACTTACATTAATATTATACA
1 ATTAATATTATACATAACTTACATTAATATTATACA
6741290 ATTATCTAAT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 89 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (56 bp):
ATTAATATTATACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
Found at i:6741242 original size:22 final size:22
Alignment explanation
Indices: 6741193--6741243 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
6741183 TACATTACTT
6741193 AATTA-ATTAATATTATACATA
1 AATTACATTAATATTATACATA
6741214 ACA-TACATTAATATTATACATA
1 A-ATTACATTAATATTATACATA
6741236 AATTACAT
1 AATTACAT
6741244 AACTTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTACATTAATATTATACATA
Found at i:6743039 original size:66 final size:66
Alignment explanation
Indices: 6742957--6743097 Score: 196
Period size: 66 Copynumber: 2.1 Consensus size: 66
6742947 AGGCAACATG
* *
6742957 GAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTTAAAGCAGATGTAGC
1 GAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAGC-AGCAACTTAAAACAGATGCAGC
6743020 AGC
64 AGC
* * *
6743023 GAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGCAGCAGCTTAAAACAGATGCGGCAG
1 GAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAGCAACTTAAAACAGATGCAGCAG
6743088 C
66 C
*
6743089 AAGAGAAGC
1 GAGAGAAGC
6743098 AGAAGCGGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 62 0.93
67 4 0.06
ACGTcount: A:0.41, C:0.18, G:0.27, T:0.14
Consensus pattern (66 bp):
GAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAGCAACTTAAAACAGATGCAGCAG
C
Found at i:6743105 original size:21 final size:21
Alignment explanation
Indices: 6743076--6743117 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6743066 CAGCTTAAAA
*
6743076 CAGATGCGGCAGCAAGAGAAG
1 CAGAAGCGGCAGCAAGAGAAG
**
6743097 CAGAAGCGGCAGTGAGAGAAG
1 CAGAAGCGGCAGCAAGAGAAG
6743118 TACAGGCTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.40, T:0.05
Consensus pattern (21 bp):
CAGAAGCGGCAGCAAGAGAAG
Found at i:6743129 original size:21 final size:21
Alignment explanation
Indices: 6743105--6743185 Score: 99
Period size: 21 Copynumber: 3.9 Consensus size: 21
6743095 AGCAGAAGCG
* * *
6743105 GCAGTGAGAGAAGTACAGGCT
1 GCAGCGAGGGAAGTAGAGGCT
*
6743126 GCAGCGAGGGAAGCAGAGGCT
1 GCAGCGAGGGAAGTAGAGGCT
**
6743147 ATAGCGAGGGAAGTAGAGGCT
1 GCAGCGAGGGAAGTAGAGGCT
*
6743168 GCAGCGAGGGAAGCAGAG
1 GCAGCGAGGGAAGTAGAG
6743186 CAGCGTCAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.32, C:0.15, G:0.44, T:0.09
Consensus pattern (21 bp):
GCAGCGAGGGAAGTAGAGGCT
Found at i:6744982 original size:50 final size:50
Alignment explanation
Indices: 6744858--6745106 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
6744848 GATAATAACA
* * ** * *
6744858 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
6744909 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
6744959 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
6745009 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
6745064 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
6745107 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:6745036 original size:100 final size:104
Alignment explanation
Indices: 6744857--6745106 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
6744847 TGATAATAAC
**
6744857 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
6744922 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
6744959 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
6745022 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
6745064 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
6745107 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:6745222 original size:13 final size:13
Alignment explanation
Indices: 6745201--6745232 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6745191 GCTTGGATCA
*
6745201 TCATCAAATAAAT
1 TCATAAAATAAAT
6745214 TCATAAAATAAAT
1 TCATAAAATAAAT
6745227 TCATAA
1 TCATAA
6745233 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:6745479 original size:30 final size:30
Alignment explanation
Indices: 6745444--6745501 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
6745434 CCTCGACTCT
*
6745444 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
6745474 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
6745502 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:6746377 original size:43 final size:43
Alignment explanation
Indices: 6746319--6746518 Score: 229
Period size: 43 Copynumber: 4.7 Consensus size: 43
6746309 CATTACAGTA
* * * * *
6746319 GCGTTTTTGGTAAAAGCGCTGTTAAAGATAAGGGTCTTTAGCG
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGTCTTTAGCG
* * * * *
6746362 GCGTTTGTGGAAAAAGCACCACAAAAGATCATGGTCTTTAGCG
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGTCTTTAGCG
* * * *
6746405 GCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGTG
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGTCTTTAGCG
** * * *
6746448 GCGTTTGTGGCCAAAGCGCCACTAGAGATCAGGGTCTTTTGCG
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGTCTTTAGCG
6746491 GCGTTTGTGGGAAAAGCGCCGCTAAAGA
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGA
6746519 CCCTGATCTT
Statistics
Matches: 127, Mismatches: 30, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 127 1.00
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.27
Consensus pattern (43 bp):
GCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGTCTTTAGCG
Found at i:6746464 original size:86 final size:86
Alignment explanation
Indices: 6746319--6746518 Score: 265
Period size: 86 Copynumber: 2.3 Consensus size: 86
6746309 CATTACAGTA
* * * *
6746319 GCGTTTTTGGTAAAAGCGCTGTTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCACCAC
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCACCAC
*
6746384 AAAAGATCATGGTCTTTAGCG
66 AAAAGATCAGGGTCTTTAGCG
* * * * ** *
6746405 GCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGCCAAAGCGCCAC
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCACCAC
* * *
6746470 TAGAGATCAGGGTCTTTTGCG
66 AAAAGATCAGGGTCTTTAGCG
6746491 GCGTTTGTGGGAAAAGCGCCGCTAAAGA
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGA
6746519 CCCTGATCTT
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 98 1.00
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.27
Consensus pattern (86 bp):
GCGTTTGTGGGAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCACCAC
AAAAGATCAGGGTCTTTAGCG
Found at i:6747473 original size:17 final size:15
Alignment explanation
Indices: 6747446--6747484 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
6747436 ATATAAGAAC
*
6747446 ATTTTATTATTAAATT
1 ATTTTAATATT-AATT
6747462 ATATTTAATATTAATT
1 AT-TTTAATATTAATT
6747478 ATTTTAA
1 ATTTTAA
6747485 ATTGTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 8 0.38
17 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTAATATTAATT
Found at i:6747527 original size:44 final size:43
Alignment explanation
Indices: 6747478--6747618 Score: 124
Period size: 44 Copynumber: 3.1 Consensus size: 43
6747468 AATATTAATT
6747478 ATTTTAAATTGTATAAATTCATATAAGAAAATTTATTATCAAGA
1 ATTTTAAATT-TATAAATTCATATAAGAAAATTTATTATCAAGA
* * * * * **
6747522 ATTTTATGAAATTATATA-TCATTATTAA-ATTATATTTAATATTAATT
1 ATTTTA--AATTTATAAATTCA-TA-TAAGA--AAATTTATTATCAAGA
*
6747569 ATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCACGA
1 ATTTTAAATT-TATAAATTCATATAAGAAAATTTATTATCAAGA
6747613 ATTTTA
1 ATTTTA
6747619 TGAAATTATA
Statistics
Matches: 73, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
44 25 0.34
45 14 0.19
46 14 0.19
47 20 0.27
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (43 bp):
ATTTTAAATTTATAAATTCATATAAGAAAATTTATTATCAAGA
Found at i:6747549 original size:91 final size:94
Alignment explanation
Indices: 6747451--6747700 Score: 434
Period size: 91 Copynumber: 2.7 Consensus size: 94
6747441 AGAACATTTT
*
6747451 ATTATTAAATTATATTTAATATTAATTATTTTAAATTGTATAAATTCATATAAGAAAATTTATTA
1 ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
6747516 TCAAGAATTTTATGAAA-T-TATA-TATC
66 TCAAGAATTTTATGAAATTATATATTATC
6747542 ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
1 ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
* *
6747607 TCACGAATTTTATGAAATTATATATTATT
66 TCAAGAATTTTATGAAATTATATATTATC
* *
6747636 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAAGAAAATTTATTA
1 ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
6747701 GTTATAATTA
Statistics
Matches: 151, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
91 80 0.53
92 1 0.01
93 4 0.03
94 66 0.44
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (94 bp):
ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
TCAAGAATTTTATGAAATTATATATTATC
Found at i:6747559 original size:47 final size:47
Alignment explanation
Indices: 6747508--6747653 Score: 133
Period size: 44 Copynumber: 3.1 Consensus size: 47
6747498 ATATAAGAAA
*
6747508 ATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 ATTTATTATCAAGAATTTTATGAAATTATATATAATTATTAAATTAT
* * ** *
6747555 ATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--AA
1 ATTTATTATCAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATTAT
*
6747599 ATTTATTATCACGAATTTTATGAAATTATATATTATTATTATTAAATTAT
1 ATTTATTATCAAGAATTTTATGAAATTATATA-TA--ATTATTAAATTAT
6747649 ATTTA
1 ATTTA
6747654 ATAATAATTA
Statistics
Matches: 75, Mismatches: 12, Indels: 21
0.69 0.11 0.19
Matches are distributed among these distances:
43 3 0.04
44 23 0.31
45 7 0.09
46 5 0.07
47 21 0.28
48 1 0.01
49 4 0.05
50 8 0.11
51 3 0.04
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (47 bp):
ATTTATTATCAAGAATTTTATGAAATTATATATAATTATTAAATTAT
Found at i:6747663 original size:21 final size:21
Alignment explanation
Indices: 6747621--6747663 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6747611 GAATTTTATG
* *
6747621 AAATTATATATTATTATTATT
1 AAATTATATATTATAATAATT
6747642 AAATTATAT-TTAATAATAATT
1 AAATTATATATT-ATAATAATT
6747663 A
1 A
6747664 TTTTAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATTATATATTATAATAATT
Found at i:6747708 original size:47 final size:45
Alignment explanation
Indices: 6747473--6747719 Score: 168
Period size: 47 Copynumber: 5.3 Consensus size: 45
6747463 TATTTAATAT
*
6747473 TAATTATTTTAAATTGTATAAATTCATATAAGAAAATTTATTATCAA
1 TAATTATTTTAAATTATA-AAATTCATATAAGAAAATTTATTAT-AA
* * * ** *
6747520 GAATT-TTATGAAATTAT-ATA-TCAT-T-ATTAAATTATATTTAATAT
1 TAATTATT-TTAAATTATAAAATTCATATAAGAAAATT-TA-TT-ATAA
*
6747564 TAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAC
1 TAATTATTTTAAATTATA-AAATTCATATAAGAAAATTTATTAT-AA
* * * * **
6747611 GAATT-TTATGAAATTAT-ATATT-ATTATTATTAAATTATATTTAATAA
1 TAATTATT-TTAAATTATAAAATTCA-TATAAGAAAATT-TA-TT-ATAA
*
6747658 TAATTATTTTAAATTATACAAATTCATATAAGAAAATTTATTAGTTA
1 TAATTATTTTAAATTATA-AAATTCATATAAGAAAATTTATTA-TAA
6747705 TAATTATTTTAAATT
1 TAATTATTTTAAATT
6747720 TTATTAAATC
Statistics
Matches: 152, Mismatches: 27, Indels: 42
0.69 0.12 0.19
Matches are distributed among these distances:
42 6 0.04
43 3 0.02
44 20 0.13
45 19 0.12
46 11 0.07
47 64 0.42
48 9 0.06
49 19 0.12
50 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (45 bp):
TAATTATTTTAAATTATAAAATTCATATAAGAAAATTTATTATAA
Found at i:6747837 original size:16 final size:15
Alignment explanation
Indices: 6747816--6747845 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6747806 TAAATTCATA
6747816 TAAGAATTTTGATTAT
1 TAAGAATTTT-ATTAT
6747832 TAAGAATTTTATTA
1 TAAGAATTTTATTA
6747846 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (15 bp):
TAAGAATTTTATTAT
Found at i:6747854 original size:120 final size:120
Alignment explanation
Indices: 6747716--6748132 Score: 667
Period size: 120 Copynumber: 3.5 Consensus size: 120
6747706 AATTATTTTA
* * * *
6747716 AATTTTATTAAATCATATATTTTAATTAAAATATTTTTAATATTAATTACT-TCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTA-TGTTAAATTATATTT
* *
6747780 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATTTTGATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
6747836 AATTTTATTAAATTATATATTTTAATTAAAATACATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* * *
6747901 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATGTTAATTTTTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
6747956 AATTTTACTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
6748021 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAG-ATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
6748075 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
6748133 ATGATTAAAT
Statistics
Matches: 276, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
119 62 0.22
120 214 0.78
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:6747991 original size:16 final size:16
Alignment explanation
Indices: 6747970--6748016 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
6747960 TTACTAAATT
6747970 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
6747986 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
6748001 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
6748017 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:6747996 original size:15 final size:15
Alignment explanation
Indices: 6747966--6748016 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
6747956 AATTTTACTA
6747966 AATTAT-ATAT-TTT
1 AATTATAATATATTT
6747979 AATTATAATATATTT
1 AATTATAATATATTT
*
6747994 AATAATAAT-TATGTT
1 AATTATAATATAT-TT
6748009 AAATTATA
1 -AATTATA
6748017 TTTTATAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 6 0.19
14 7 0.22
15 13 0.41
16 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AATTATAATATATTT
Found at i:6748365 original size:16 final size:16
Alignment explanation
Indices: 6748344--6748380 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
6748334 CTGATTTGCT
6748344 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
6748360 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
6748376 ATTAC
1 ATTAC
6748381 AGCGAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.22, C:0.35, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:6753910 original size:13 final size:13
Alignment explanation
Indices: 6753888--6753946 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
6753878 AATCAATGTC
*
6753888 AAAATG-AAAATG
1 AAAATGAAAAAAG
6753900 AAAATGAAAAAAG
1 AAAATGAAAAAAG
6753913 AGAGAA-GAAAAAAGG
1 A-A-AATGAAAAAA-G
6753928 AAAA-GAAAAAAG
1 AAAATGAAAAAAG
6753940 AAAATGA
1 AAAATGA
6753947 GAGGTCAAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
12 11 0.27
13 17 0.41
14 9 0.22
15 4 0.10
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (13 bp):
AAAATGAAAAAAG
Found at i:6756115 original size:88 final size:88
Alignment explanation
Indices: 6755989--6756261 Score: 435
Period size: 88 Copynumber: 3.1 Consensus size: 88
6755979 GGATCAGTGA
* * * *
6755989 AGATCGAA-A-ACAAACCTTACCTCCCTCAGTTGTAGTGGAGTTGGTTGAAGATAGCAGATATTG
1 AGATCGAAGACACAAACCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTG
*
6756052 CCTTCCTGCATCGACAGCGAAGC
66 CCTTCCTGCATCGACAGTGAAGC
*
6756075 AGATCGAAGACACAAACCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCGTG
1 AGATCGAAGACACAAACCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTG
6756140 CCTTCCTGCATCGACAGTGAAGC
66 CCTTCCTGCATCGACAGTGAAGC
* *
6756163 AGAAT-GAAGACACAAACCTTGCCTCCCTCGGTTGTAATGGAGCTGGTTGAGGATAGCAGATCTT
1 AG-ATCGAAGACACAAACCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTT
*
6756227 GCCTTCCTGCATTGACAGTGAAGC
65 GCCTTCCTGCATCGACAGTGAAGC
6756251 AGATCGAAGAC
1 AGATCGAAGAC
6756262 GGTGAATCTT
Statistics
Matches: 173, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
86 8 0.05
87 3 0.02
88 160 0.92
89 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (88 bp):
AGATCGAAGACACAAACCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTG
CCTTCCTGCATCGACAGTGAAGC
Found at i:6756442 original size:44 final size:44
Alignment explanation
Indices: 6756394--6756802 Score: 296
Period size: 44 Copynumber: 9.3 Consensus size: 44
6756384 GAAAATGGTG
6756394 AATCTTATCTCCCTGATG-TTACAGTGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGA-GATTACAGTGGAGCAGATTGAAGCCAGA
* * ** * *
6756438 AATCTTATCTTCCTTAGATTACAGCAGAGCAGATTGAAGCCGGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * * ***
6756482 AATCCTATTTCCCTGAGATTACAGTGGAGC-GGTTTAAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * * * * * *
6756524 AGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGTA-TCAG-
1 A--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* ** * * *
6756568 -GTCTTATCTCCCTGAGATTACAGTGGAATAGACTGAAG-AATTTCA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA---GA
* *
6756613 AATCTTATCTCCCTAAGGTTACAGTGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * *
6756657 AATCTTATCTCCATGAGATTACAGCGGAGCAGATTAAAGCCAGA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * *
6756701 AATCTTATC-CCCTTGAGATTACAGCGGAGTAGATTGAAGCCAGT
1 AATCTTATCTCCC-TGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * * * * *
6756745 AATCCTATCTCACTGA-AGTTGCAGTGGAGCGGATTAAAACCACA
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCCAGA
*
6756789 GATCTTATCTCCCT
1 AATCTTATCTCCCT
6756803 AAGCAGTAGT
Statistics
Matches: 277, Mismatches: 73, Indels: 30
0.73 0.19 0.08
Matches are distributed among these distances:
41 29 0.10
42 1 0.00
43 9 0.03
44 200 0.72
45 5 0.02
46 32 0.12
47 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
Found at i:6756504 original size:88 final size:88
Alignment explanation
Indices: 6756394--6756805 Score: 329
Period size: 88 Copynumber: 4.7 Consensus size: 88
6756384 GAAAATGGTG
* * * *
6756394 AATCTTATCTCCCTGATG-TTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTTCCTTAGATT
1 AATCTTATCTCCCTGA-GATTACAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTAAGATT
*
6756458 ACAGCAGAGCAGATTGAAGCCGGT
65 ACAGCAGAGCAGATTGAAGCCAGT
* * * * ** * *
6756482 AATCCTATTTCCCTGAGATTACAGTGGAGCGGTTTAAA-ATA-AAGGATCTTATCTCTCTAAAAT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCCACAA--ATCTTATCTCCCTAAGAT
* * * * *
6756545 TACAGTAGAGTAGATCGTA-TCAG-
64 TACAGCAGAGCAGATTGAAGCCAGT
* ** * * * *
6756568 -GTCTTATCTCCCTGAGATTACAGTGGAATAGACTGAAG-AATTTCAAATCTTATCTCCCTAAGG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCCA---CAAATCTTATCTCCCTAAGA
** *
6756631 TTACAGTGGAGCAGATTGAAGCCAGA
63 TTACAGCAGAGCAGATTGAAGCCAGT
* * * *
6756657 AATCTTATCTCCATGAGATTACAGCGGAGCAGATTAAAGCCAGAAATCTTATC-CCCTTGAGATT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCC-TAAGATT
* *
6756721 ACAGCGGAGTAGATTGAAGCCAGT
65 ACAGCAGAGCAGATTGAAGCCAGT
* * * * * *
6756745 AATCCTATCTCACTGA-AGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTAAG
6756806 CAGTAGTGGA
Statistics
Matches: 250, Mismatches: 59, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
85 29 0.12
86 2 0.01
87 38 0.15
88 144 0.58
89 5 0.02
90 31 0.12
91 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (88 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTAAGATTA
CAGCAGAGCAGATTGAAGCCAGT
Found at i:6756834 original size:40 final size:40
Alignment explanation
Indices: 6756790--6757114 Score: 224
Period size: 40 Copynumber: 7.8 Consensus size: 40
6756780 AAAACCACAG
*
6756790 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAA
* *
6756830 ATCTTATCTCCTTAAGCAGTAGTAGAGCAGA-CAAAAGAAATCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----G-AATCAA
* ** * * ** *
6756874 TTC-TATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACA
1 ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAATCA-A
* * *
6756916 TATTTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAA
* *
6756957 ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATAGAAGAAATC-A
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT---CG-AATCAA
* ** * ** *
6757000 ATCATATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCACA
1 ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAATCA-A
*
6757043 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAA
* * * *
6757084 GTCTTATCACTCTAAGCAGTAGTGCAGCAGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
6757115 CTGAAGCTAC
Statistics
Matches: 217, Mismatches: 48, Indels: 40
0.71 0.16 0.13
Matches are distributed among these distances:
39 1 0.00
40 85 0.39
41 9 0.04
42 10 0.05
43 52 0.24
44 59 0.27
45 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (40 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAA
Found at i:6756899 original size:127 final size:125
Alignment explanation
Indices: 6756749--6757165 Score: 613
Period size: 127 Copynumber: 3.3 Consensus size: 125
6756739 GCCAGTAATC
*
6756749 CTATCTCACTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTG
1 CTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTG
*
6756814 GAGCAGATCGCATCAAATCTTATCTC-CTTAAGCAGTAGTAGAGCAGACAAAAGAAATCAATT
66 GAGCAGATCGCATCAAATCTTATCTCTC-TAAGCAGTAGT-GAGCAGACAGAAGAAATCAA-T
* * * *
6756876 CTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACATATTTTATCTCCCTAAGCAATAGTG
1 CTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTG
*
6756941 GAGCAGATCGCATCAAATCTTATCTCTCTAAGCAGTAGTGGAGCAGATAGAAGAAATCAAT
66 GAGCAGATCGCATCAAATCTTATCTCTCTAAGCAGTAGT-GAGCAGACAGAAGAAATCAAT
*
6757002 CATATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGT
1 C-TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGT
* * * **
6757067 GGAGCAGATCGCATCAAGTCTTATCACTCTAAGCAGTAGTGCAGCAGACTGAAGCTA-CTAACT
65 GGAGCAGATCGCATCAAATCTTATCTCTCTAAGCAGTAGTG-AGCAGACAGAAGAAATC-AA-T
**
6757130 CTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAAC
1 CTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
6757166 GATGAATCTT
Statistics
Matches: 263, Mismatches: 22, Indels: 10
0.89 0.07 0.03
Matches are distributed among these distances:
126 4 0.02
127 256 0.97
128 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (125 bp):
CTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGCATCAAATCTTATCTCTCTAAGCAGTAGTGAGCAGACAGAAGAAATCAAT
Found at i:6757658 original size:22 final size:22
Alignment explanation
Indices: 6757633--6757679 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6757623 GGAAACAGAA
*
6757633 ACAAACCCAAAACAAATCAAAT
1 ACAAACACAAAACAAATCAAAT
* *
6757655 ACAAATACAAAATAAATCAAAT
1 ACAAACACAAAACAAATCAAAT
6757677 ACA
1 ACA
6757680 TTAAACCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.66, C:0.21, G:0.00, T:0.13
Consensus pattern (22 bp):
ACAAACACAAAACAAATCAAAT
Found at i:6758905 original size:39 final size:40
Alignment explanation
Indices: 6758839--6758936 Score: 137
Period size: 39 Copynumber: 2.4 Consensus size: 40
6758829 AAAATTTAAA
*
6758839 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAA-TTT
1 AAAAAGTATTTTAAAAATATTTAAAAATTAAAAAAATTTT
6758878 AAAAAGTATTTTTAAAAA-ATTTAAAAATTAAAAAAATTTT
1 AAAAAGTA-TTTTAAAAATATTTAAAAATTAAAAAAATTTT
6758918 AAAAAAAAGTATTTTAAAA
1 ---AAAAAGTATTTTAAAA
6758937 TTAAAAAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
39 25 0.47
40 12 0.23
42 8 0.15
43 8 0.15
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (40 bp):
AAAAAGTATTTTAAAAATATTTAAAAATTAAAAAAATTTT
Found at i:6758941 original size:39 final size:40
Alignment explanation
Indices: 6758827--6758952 Score: 152
Period size: 40 Copynumber: 3.1 Consensus size: 40
6758817 AAATTAAAAC
*
6758827 AAAAAATTTAAAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAAATTTAAAAAAAAGTATTTT-AAAA-ATTTAAAAATTA
6758869 AAAAAATTT---AAAAAGTATTTTTAAAAAATTTAAAAATTA
1 AAAAAATTTAAAAAAAAGTA-TTTT-AAAAATTTAAAAATTA
* *
6758908 AAAAAATTTTAAAAAAAAGTATTTT-AAAATTAAAAAAATA
1 AAAAAA-TTTAAAAAAAAGTATTTTAAAAATTTAAAAATTA
6758948 AAAAA
1 AAAAA
6758953 TAAAAATATT
Statistics
Matches: 76, Mismatches: 3, Indels: 12
0.84 0.03 0.13
Matches are distributed among these distances:
39 25 0.33
40 30 0.39
42 13 0.17
43 8 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (40 bp):
AAAAAATTTAAAAAAAAGTATTTTAAAAATTTAAAAATTA
Found at i:6758953 original size:39 final size:40
Alignment explanation
Indices: 6758809--6758953 Score: 135
Period size: 40 Copynumber: 3.7 Consensus size: 40
6758799 ACCAAAAATT
*
6758809 TATTTTAAAAA-TT--AAAACAAAAAA-TTTAAAAAAAAG
1 TATTTTAAAAATTTAAAAAATAAAAAATTTTAAAAAAAAG
* * *
6758845 TATTTTAAAAATATTTTAAAATTAAAAAAATTT---AAAAAG
1 TATTTT-AAAA-ATTTAAAAAATAAAAAATTTTAAAAAAAAG
*
6758884 TATTTTTAAAAAATTTAAAAATTAAAAAAATTTTAAAAAAAAG
1 TA-TTTT-AAAAATTTAAAAAAT-AAAAAATTTTAAAAAAAAG
*
6758927 TATTTT-AAAATTAAAAAAATAAAAAAT
1 TATTTTAAAAATTTAAAAAATAAAAAAT
6758954 AAAAATATTT
Statistics
Matches: 92, Mismatches: 6, Indels: 19
0.79 0.05 0.16
Matches are distributed among these distances:
36 6 0.07
37 4 0.04
38 1 0.01
39 27 0.29
40 30 0.33
41 9 0.10
42 7 0.08
43 8 0.09
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (40 bp):
TATTTTAAAAATTTAAAAAATAAAAAATTTTAAAAAAAAG
Found at i:6758963 original size:32 final size:33
Alignment explanation
Indices: 6758890--6758964 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 33
6758880 AAAGTATTTT
**
6758890 TAAAAA-ATTTAAAAATTAAAAAAATTTTAAAA
1 TAAAAATATTTAAAAATTAAAAAAATTAAAAAA
* *
6758922 -AAAAGTATTTTAAAATTAAAAAAA-TAAAAAA
1 TAAAAATATTTAAAAATTAAAAAAATTAAAAAA
6758953 TAAAAATATTTA
1 TAAAAATATTTA
6758965 TTATATTCGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
31 9 0.26
32 26 0.74
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (33 bp):
TAAAAATATTTAAAAATTAAAAAAATTAAAAAA
Found at i:6770066 original size:25 final size:26
Alignment explanation
Indices: 6770005--6770067 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
6769995 TGGTTTACGA
6770005 ATAAATCATTATAATATAAGAATAAAT
1 ATAAA-CATTATAATATAAGAATAAAT
* * *
6770032 -TAAAAGATTATGA-ATCAGAATAAAT
1 AT-AAACATTATAATATAAGAATAAAT
6770057 ATAAACATTAT
1 ATAAACATTAT
6770068 CGATACATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
25 19 0.63
26 8 0.27
27 3 0.10
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (26 bp):
ATAAACATTATAATATAAGAATAAAT
Found at i:6777465 original size:20 final size:20
Alignment explanation
Indices: 6777428--6777468 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6777418 GTGGCTGACA
* *
6777428 GTGGTTGATGAATAGCAATG
1 GTGGTCGATGAACAGCAATG
*
6777448 GTGGTCGATGAACGGCAATG
1 GTGGTCGATGAACAGCAATG
6777468 G
1 G
6777469 CGAAAGGTCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.10, G:0.39, T:0.24
Consensus pattern (20 bp):
GTGGTCGATGAACAGCAATG
Found at i:6779437 original size:90 final size:90
Alignment explanation
Indices: 6779311--6779630 Score: 525
Period size: 90 Copynumber: 3.6 Consensus size: 90
6779301 TCAAAATAAT
* * * * *
6779311 TGTATT-ATTTCTTTAGAATGTTTGTATTTTTATATATTTGTAAATTCAATGTAGTTGTTTAGGA
1 TGTATTAATTTC-TTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATATAGTTGTTTGGGA
*
6779375 TTTAAGGTATCATTTTTATATTTTCG
65 TTTAAGGTTTCATTTTTATATTTTCG
6779401 TGTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATATAGTTGTTTGGGAT
1 TGTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATATAGTTGTTTGGGAT
6779466 TTAAGGTTTCATTTTTATATTTTCG
66 TTAAGGTTTCATTTTTATATTTTCG
*
6779491 TGTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTTTAAATTTAATATAGTTGTTTGGGAT
1 TGTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATATAGTTGTTTGGGAT
*
6779556 TTAAGGTTTCATTTTTATATTTTTG
66 TTAAGGTTTCATTTTTATATTTTCG
* * *
6779581 TGCATTAATTTCTTAGAATGTTTATATTTTTTTGTATCTGTAAATTTAAT
1 TGTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAAT
6779631 TTAATTCGTA
Statistics
Matches: 217, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
90 212 0.98
91 5 0.02
ACGTcount: A:0.25, C:0.04, G:0.13, T:0.57
Consensus pattern (90 bp):
TGTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATATAGTTGTTTGGGAT
TTAAGGTTTCATTTTTATATTTTCG
Found at i:6779696 original size:180 final size:180
Alignment explanation
Indices: 6779311--6779680 Score: 489
Period size: 180 Copynumber: 2.1 Consensus size: 180
6779301 TCAAAATAAT
* *
6779311 TGTATT-ATTTCTTTAGAATGTTTGTATTTTTATATATTTGTAAATTCAATGTAGTTGTTTAGGA
1 TGTATTAATTTC-TTACAATGTTTGTATTTTTATATATTTGTAAATTCAATATAGTTGTTTAGGA
* *
6779375 TTTAAGGTATCATTTTTATATTTTCGTGTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCT
65 TTTAAGGTATCATTTTTATATTTTCGTGCATTAATTTCTTAGAATGTTTATATTTTTTTATATCT
* * * * * *
6779440 GTAAATTTAATATAGTTGTTTGGGATTTAAGGTTTCATTTTTATATTTTCG
130 GTAAATTTAATATAATTGTTTGAGATGTAAGGTTTCAATTTAAAATTTTCG
* * * *
6779491 TGTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTT-TAAATTTAATATAGTTGTTTGGGA
1 TGTATTAATTTCTTACAATGTTTGTATTTTTATATAT-TTGTAAATTCAATATAGTTGTTTAGGA
* * *
6779555 TTTAAGGTTTCATTTTTATATTTTTGTGCATTAATTTCTTAGAATGTTTATATTTTTTTGTATCT
65 TTTAAGGTATCATTTTTATATTTTCGTGCATTAATTTCTTAGAATGTTTATATTTTTTTATATCT
* * *
6779620 GTAAATTTAATTTAATTCGTATT-ATATGT-A-GTTTGAATTTAAAATTTTCG
130 GTAAATTTAATATAATT-GT-TTGAGATGTAAGGTTTCAATTTAAAATTTTCG
6779670 TGTATTAATTT
1 TGTATTAATTT
6779681 TTCCCATTTG
Statistics
Matches: 168, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
179 27 0.16
180 127 0.76
181 12 0.07
182 2 0.01
ACGTcount: A:0.26, C:0.04, G:0.13, T:0.56
Consensus pattern (180 bp):
TGTATTAATTTCTTACAATGTTTGTATTTTTATATATTTGTAAATTCAATATAGTTGTTTAGGAT
TTAAGGTATCATTTTTATATTTTCGTGCATTAATTTCTTAGAATGTTTATATTTTTTTATATCTG
TAAATTTAATATAATTGTTTGAGATGTAAGGTTTCAATTTAAAATTTTCG
Found at i:6782525 original size:5 final size:5
Alignment explanation
Indices: 6782493--6782593 Score: 58
Period size: 5 Copynumber: 18.0 Consensus size: 5
6782483 TTCATAATCA
* * *
6782493 TCATT TTATT TTATAT TCATT TAACATT TCATT TAATT TCATAT TCATT
1 TCATT TCATT TCAT-T TCATT T--CATT TCATT TCATT TCAT-T TCATT
* *
6782542 ACAAATT ACATT TCATT TCATAT TCATATT TCATT TAGCATT TCATT TCATT
1 TC--ATT TCATT TCATT TCAT-T TC--ATT TCATT T--CATT TCATT TCATT
6782594 ATTATTTTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 22
0.74 0.06 0.21
Matches are distributed among these distances:
5 47 0.59
6 12 0.15
7 18 0.23
8 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.01, T:0.54
Consensus pattern (5 bp):
TCATT
Found at i:6782526 original size:28 final size:29
Alignment explanation
Indices: 6782493--6782568 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 29
6782483 TTCATAATCA
* * *
6782493 TCATTTTATTTTATATTCATTTA-ACATT
1 TCATTTAATTTCATATTCATTTACAAATT
6782521 TCATTTAATTTCATATTCA-TTACAAATT
1 TCATTTAATTTCATATTCATTTACAAATT
* *
6782549 ACATTTCATTTCATATTCAT
1 TCATTTAATTTCATATTCAT
6782569 ATTTCATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 3 0.07
28 38 0.93
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (29 bp):
TCATTTAATTTCATATTCATTTACAAATT
Found at i:6782586 original size:30 final size:31
Alignment explanation
Indices: 6782498--6782609 Score: 90
Period size: 30 Copynumber: 3.6 Consensus size: 31
6782488 AATCATCATT
* *
6782498 TTATT-TTATATTCATTTAACATTTCATTTAA
1 TTATTATTAT-TTCATTTAGCATTTCATTTCA
* *
6782529 TT-TCATATTCATTACAAATTA-CATTTCATTTCA
1 TTAT--TATT-ATTTC-ATTTAGCATTTCATTTCA
6782562 -TATTCA-TATTTCATTTAGCATTTCATTTCA
1 TTATT-ATTATTTCATTTAGCATTTCATTTCA
*
6782592 TTATTATTTTTTCATTTA
1 TTATTATTATTTCATTTA
6782610 AATTTATTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
29 4 0.06
30 18 0.28
31 18 0.28
32 3 0.05
33 16 0.25
34 6 0.09
ACGTcount: A:0.29, C:0.13, G:0.01, T:0.56
Consensus pattern (31 bp):
TTATTATTATTTCATTTAGCATTTCATTTCA
Found at i:6782974 original size:6 final size:6
Alignment explanation
Indices: 6782954--6782997 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
6782944 CCTCTTTTTT
6782954 TTTC-A TTTC-A TTTCTA TTTCTA TTTCTA TTTCTA TTTCTA TTTC
1 TTTCTA TTTCTA TTTCTA TTTCTA TTTCTA TTTCTA TTTCTA TTTC
6782998 AATTACGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 9 0.24
6 29 0.76
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTCTA
Found at i:6783139 original size:48 final size:48
Alignment explanation
Indices: 6783060--6783488 Score: 451
Period size: 48 Copynumber: 8.9 Consensus size: 48
6783050 TCCATTTTTA
* * * *
6783060 TTTCTATTTCATTTAAATTT-ATTTTTTTCTCATTTTATTTAATTTATC
1 TTTCT-TTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTATC
* * * *
6783108 TATCTTCCCATTTTAATTTAATTTTTTTCTCATTTCATTTATATT-TT
1 TTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTATC
* *
6783155 TTTCTCATTTCATTTAAATTT-ATTTTTTTCTCATTTCATTTAAATTATC
1 TTTCT--TTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTATC
* * *
6783204 TTTTTTTACATTTTAAAATTAAATTTTTTTCTCATTTCATTTAAATTATC
1 TTTCTTTCCATTTT--AATTTAATTTTTTTCTCATTTCATTTAAATTATC
* * *
6783254 TTTGTTTACATTTTAATTTAATATTTTTCTCATTTCATTTAAATTATC
1 TTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTATC
* * * * *
6783302 TATCTTCCCATTTTCATTTATTTATTTTTCTCATTTCATTTATATTA--
1 TTTCTTTCCATTTTAATTTAATT-TTTTTCTCATTTCATTTAAATTATC
* * * *
6783349 -TT-TTTCCATGTAAATTTAA-TTTTTTCTTACTTCATTTAAATTATC
1 TTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTATC
* * * * * *
6783394 TTTTTTTTCCATTTAAATTTAATTTCTTCCCCATTTCATTTAAATTATA
1 -TTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTATC
6783443 TTTCTTTCCATTTTAATTTAATTTTTTTTCTCATTTCATTTAAATT
1 TTTCTTTCCATTTTAATTTAA-TTTTTTTCTCATTTCATTTAAATT
6783489 TAATTTTTTT
Statistics
Matches: 316, Mismatches: 50, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
43 20 0.06
44 1 0.00
45 12 0.04
46 1 0.00
47 25 0.08
48 133 0.42
49 83 0.26
50 41 0.13
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (48 bp):
TTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTATC
Found at i:6783146 original size:27 final size:25
Alignment explanation
Indices: 6783055--6783531 Score: 250
Period size: 26 Copynumber: 19.6 Consensus size: 25
6783045 CCATTTCCAT
6783055 TTTTATTTCT-ATTTCATTTAAATTTA
1 TTTT-TTTCTCATTTCATTT-AATTTA
*
6783081 TTTTTTTCTCATTTTATTTAATTTA
1 TTTTTTTCTCATTTCATTTAATTTA
* * *
6783106 TCTATCTTCCCA--T--TTTAATTTAA
1 T-TTTTTTCTCATTTCATTTAATTT-A
6783129 TTTTTTTCTCATTTCATTT-A--TA
1 TTTTTTTCTCATTTCATTTAATTTA
6783151 TTTTTTTCTCATTTCATTTAAATTTA
1 TTTTTTTCTCATTTCATTT-AATTTA
*
6783177 TTTTTTTCTCATTTCATTTAAATTA
1 TTTTTTTCTCATTTCATTTAATTTA
** *
6783202 TCTTTTTT-TACATTT--TAAAATTAAA
1 T-TTTTTTCT-CATTTCATTTAATT-TA
*
6783227 TTTTTTTCTCATTTCATTTAAATTA
1 TTTTTTTCTCATTTCATTTAATTTA
*
6783252 TCTTTGTT-T-A---CATTTTAATTTAA
1 T-TTTTTTCTCATTTCA-TTTAATTT-A
* *
6783275 TATTTTTCTCATTTCATTTAAATTA
1 TTTTTTTCTCATTTCATTTAATTTA
* * *
6783300 TCTATCTTCCCATTTTCATTT-ATTTA
1 T-TTTTTTCTCA-TTTCATTTAATTTA
6783326 --TTTTTCTCATTTCATTT-A--TA
1 TTTTTTTCTCATTTCATTTAATTTA
*
6783346 TTATTTTTC-CATGT-A---AATTTA
1 TT-TTTTTCTCATTTCATTTAATTTA
* * * *
6783367 ATTTTTTCTTACTTCATTTAAATTA
1 TTTTTTTCTCATTTCATTTAATTTA
* *
6783392 TCTTTTT-T--TTCCATTTAAATTTAA
1 TTTTTTTCTCATTTCATTT-AATTT-A
* * *
6783416 TTTCTTCCCCATTTCATTTAAATTATA
1 TTTTTTTCTCATTTCATTT-AATT-TA
* *
6783443 TTTCTTTC-CATTTTAATTTAA--T-
1 TTTTTTTCTCA-TTTCATTTAATTTA
6783465 TTTTTTTCTCATTTCATTTAAATTTAA
1 TTTTTTTCTCATTTCATTT-AATTT-A
*
6783492 TTTTTTTCTCATTTCATTTAAATTA
1 TTTTTTTCTCATTTCATTTAATTTA
6783517 TCTTTCTTTC-CATTT
1 T-TTT-TTTCTCATTT
6783532 TAATTTACAT
Statistics
Matches: 348, Mismatches: 50, Indels: 106
0.69 0.10 0.21
Matches are distributed among these distances:
19 1 0.00
20 8 0.02
21 8 0.02
22 80 0.23
23 27 0.08
24 26 0.07
25 41 0.12
26 96 0.28
27 60 0.17
28 1 0.00
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTTTTCTCATTTCATTTAATTTA
Found at i:6783216 original size:21 final size:21
Alignment explanation
Indices: 6783191--6783271 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 21
6783181 TTTCTCATTT
6783191 CATTTAAATTATCTTTTTTTA
1 CATTTAAATTATCTTTTTTTA
6783212 CATTTTAAAATTAAAT-TTTTTTCTCA
1 CA-TTT-AAATT--ATCTTTTTT-T-A
*
6783238 TTTCATTTAAATTATCTTTGTTTA
1 ---CATTTAAATTATCTTTTTTTA
*
6783262 CATTTTAATT
1 CATTTAAATT
6783272 TAATATTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 20
0.69 0.03 0.29
Matches are distributed among these distances:
21 11 0.23
22 3 0.06
23 5 0.10
24 7 0.15
25 6 0.12
26 6 0.12
27 5 0.10
28 3 0.06
29 2 0.04
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (21 bp):
CATTTAAATTATCTTTTTTTA
Found at i:6783514 original size:76 final size:77
Alignment explanation
Indices: 6783403--6783545 Score: 243
Period size: 76 Copynumber: 1.9 Consensus size: 77
6783393 CTTTTTTTTC
6783403 CATTTAAATTTAATTTCTTCCCCATTTCATTTAAATTATATTTCTTTCCATTTTAATTTA-ATTT
1 CATTTAAATTTAATTTCTTCCCCATTTCATTTAAATTATATTTCTTTCCATTTTAATTTACATTT
6783467 TTTTTCTCATTT
66 TTTTTCTCATTT
* * * *
6783479 CATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTACATTT
1 CATTTAAATTTAATTTCTTCCCCATTTCATTTAAATTATATTTCTTTCCATTTTAATTTACATTT
6783544 TT
66 TT
6783546 CTTATATTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
76 56 0.90
77 6 0.10
ACGTcount: A:0.25, C:0.15, G:0.00, T:0.60
Consensus pattern (77 bp):
CATTTAAATTTAATTTCTTCCCCATTTCATTTAAATTATATTTCTTTCCATTTTAATTTACATTT
TTTTTCTCATTT
Found at i:6783537 original size:27 final size:26
Alignment explanation
Indices: 6783387--6783538 Score: 94
Period size: 27 Copynumber: 6.0 Consensus size: 26
6783377 ACTTCATTTA
*
6783387 AATTATCTTTTTTTTCCATTTAAATTT-
1 AATTATC-TTTCTTTCCATTT-AATTTA
* *
6783414 AATT-TC-TTC--CCCATTTCATTTA
1 AATTATCTTTCTTTCCATTTAATTTA
*
6783436 AATTATATTTCTTTCCATTTTAATTT-
1 AATTATCTTTCTTTCCA-TTTAATTTA
*
6783462 AA-T-T-TTT-TTTCTCATTTCATTTA
1 AATTATCTTTCTTTC-CATTTAATTTA
*
6783485 AATTTAAT-TTT-TTTCTCATTTCATTTA
1 AA-TT-ATCTTTCTTTC-CATTTAATTTA
6783512 AATTATCTTTCTTTCCATTTTAATTTA
1 AATTATCTTTCTTTCCA-TTTAATTTA
6783539 CATTTTTCTT
Statistics
Matches: 102, Mismatches: 8, Indels: 30
0.73 0.06 0.21
Matches are distributed among these distances:
21 4 0.04
22 21 0.21
23 8 0.08
24 6 0.06
25 4 0.04
26 14 0.14
27 45 0.44
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (26 bp):
AATTATCTTTCTTTCCATTTAATTTA
Found at i:6784616 original size:32 final size:32
Alignment explanation
Indices: 6784575--6784637 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
6784565 CTCCATCGAA
6784575 ATGAACATAAACAAACAAAATTTAGGAACTCC
1 ATGAACATAAACAAACAAAATTTAGGAACTCC
6784607 ATGAACATAAACAAACAAAATTTAGGAACTC
1 ATGAACATAAACAAACAAAATTTAGGAACTC
6784638 ATTTTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.54, C:0.17, G:0.10, T:0.19
Consensus pattern (32 bp):
ATGAACATAAACAAACAAAATTTAGGAACTCC
Found at i:6786425 original size:21 final size:21
Alignment explanation
Indices: 6786364--6786429 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
6786354 TTTTGGTTAA
6786364 GGTTTTGTTAAAATAATTTAG
1 GGTTTTGTTAAAATAATTTAG
** ** * *
6786385 GGTTAGGTTTGTAGT-GTTTAG
1 GGTTTTG-TTAAAATAATTTAG
6786406 GGTTTTGTTAAAATAATTTAG
1 GGTTTTGTTAAAATAATTTAG
6786427 GGT
1 GGT
6786430 CCTAGGCTTT
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
20 4 0.13
21 23 0.74
22 4 0.13
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (21 bp):
GGTTTTGTTAAAATAATTTAG
Found at i:6786522 original size:34 final size:34
Alignment explanation
Indices: 6786483--6786574 Score: 114
Period size: 34 Copynumber: 2.7 Consensus size: 34
6786473 TCTTTTTTTT
**
6786483 AAAATTAATTAAATCAGGGTTTAGGGGTTCTAA-
1 AAAATTAATTAAATTTGGGTTTAGGGGTTCTAAG
* * * *
6786516 ATAAATTAATTAAATTTGGGTTCAGTGTTTTTAAG
1 A-AAATTAATTAAATTTGGGTTTAGGGGTTCTAAG
6786551 AAAATTAATTAAATTTGGGTTTAG
1 AAAATTAATTAAATTTGGGTTTAG
6786575 CTTTTTCTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 1 0.02
34 48 0.96
35 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.40
Consensus pattern (34 bp):
AAAATTAATTAAATTTGGGTTTAGGGGTTCTAAG
Found at i:6786948 original size:126 final size:126
Alignment explanation
Indices: 6786650--6787168 Score: 650
Period size: 125 Copynumber: 4.1 Consensus size: 126
6786640 TTTGGTTTTT
* * *
6786650 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAATGTTAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAACAAATAGTGTTAAAA
* * * * *** *
6786715 ATACTTCAAGCAGGATGCACTATC-ACCAAATTACTGAAAAAAGCTCCCATACGGACACTC
66 ACACTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTCACGTGGACGCTC
* * *
6786775 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAACAAATAGTGTTAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAACAAATAGTGTTAAAA
* * * *
6786840 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTGA-TGAAAAAAACTCTTACGTGGATGCTC
66 ACACTTCAAGCAGGATGCACTGTCAACAAAATT-ACTGAAAAAAGCTCTCACGTGGACGCTC
* * *
6786901 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACATTTTTGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAACAAATAGTGTTAAAA
* ** * * *
6786966 ATACTTCAAATAGAATGCACTGTCAACAAAATCGA-TGAAAAAAGCTCCCACGTGGACGCTC
66 ACACTTCAAGCAGGATGCACTGTCAACAAAAT-TACTGAAAAAAGCTCTCACGTGGACGCTC
* * * * * *
6787027 TTTTTCTACAATAGTTCCTG-AAAAATGATTTTGAGAATACATTTCTGAATAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAACAAATAGTGTTAAAA
* ** * *
6787091 ACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCTCACGTGGATGCTA
66 ACACTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTCACGTGGACGCTC
6787152 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
6787169 ATGTTTGGCA
Statistics
Matches: 342, Mismatches: 48, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
124 1 0.00
125 185 0.54
126 155 0.45
127 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAACAAATAGTGTTAAAA
ACACTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTCACGTGGACGCTC
Found at i:6787093 original size:251 final size:251
Alignment explanation
Indices: 6786650--6787168 Score: 722
Period size: 251 Copynumber: 2.1 Consensus size: 251
6786640 TTTGGTTTTT
* * *
6786650 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAATGTTAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAACAAATAATGTAAAAA
* * * * *
6786715 ATACTTCAAGCAGGATGCACTATCACCAAATTACTGAAAAAAGCTCCCATACGGACACTCTTTTT
66 ATACTTCAAACAGAATGCACTATCACAAAATGACTGAAAAAAGCTCCCACACGGACACTCTTTTT
* * * *
6786780 CTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAACAAATAGTGTTAAAAACGCT
131 CTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGATTTTGAACAAATAGTGTCAAAAACGCT
* *
6786845 TCAAGCAGGATGCACTGTCAACAAAATTGA-TGAAAAAAACTCTTACGTGGATGCTC
196 TCAAGCAGGATGCACTGTCAACAAAATT-ACTGAAAAAAACTCTCACGTGGATGCTA
* * *
6786901 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACATTTTTGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAACAAATAATGTAAAAA
* * ** *
6786966 ATACTTCAAATAGAATGCACTGTCAACAAAATCGA-TGAAAAAAGCTCCCACGTGGACGCTCTTT
66 ATACTTCAAACAGAATGCACTATC-ACAAAAT-GACTGAAAAAAGCTCCCACACGGACACTCTTT
* * *
6787030 TTCTACAATAGTTCCTG-AAAAATGATTTTGAGAATAC-ATTTCTGAATAAATAGTGTCAAAAAC
129 TTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGATTT-TGAACAAATAGTGTCAAAAAC
** *
6787093 GCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCTCACGTGGATGCTA
193 GCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAACTCTCACGTGGATGCTA
6787152 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
6787169 ATGTTTGGCA
Statistics
Matches: 236, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
250 4 0.02
251 185 0.78
252 46 0.19
253 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (251 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAACAAATAATGTAAAAA
ATACTTCAAACAGAATGCACTATCACAAAATGACTGAAAAAAGCTCCCACACGGACACTCTTTTT
CTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGATTTTGAACAAATAGTGTCAAAAACGCT
TCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAACTCTCACGTGGATGCTA
Found at i:6789257 original size:21 final size:21
Alignment explanation
Indices: 6789228--6789348 Score: 100
Period size: 21 Copynumber: 5.8 Consensus size: 21
6789218 ATTCAACTCA
6789228 TATGAGTTTCAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
* * * *
6789249 TTTGGGTTTCAGTTCAACTCT
1 TATGAGTTTCAGTTTAACCCT
* *
6789270 TTTAAGTTTCAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
* * **
6789291 AATGAGTTTTAGTTTAGA-TAT
1 TATGAGTTTCAGTTTA-ACCCT
* *
6789312 TCTGAGCTTCAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
* *
6789333 AATGGGTTTCAGTTTA
1 TATGAGTTTCAGTTTA
6789349 GCTCTTCTGA
Statistics
Matches: 74, Mismatches: 24, Indels: 4
0.73 0.24 0.04
Matches are distributed among these distances:
20 1 0.01
21 72 0.97
22 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.45
Consensus pattern (21 bp):
TATGAGTTTCAGTTTAACCCT
Found at i:6789323 original size:42 final size:42
Alignment explanation
Indices: 6789277--6789365 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
6789267 TCTTTTAAGT
*
6789277 TTCAGTTTAACCCTAATGAGTTTTAGTTTAGATATTCTGAGC
1 TTCAGTTTAACCCTAATGAGTTTCAGTTTAGATATTCTGAGC
* * *
6789319 TTCAGTTTAACCCTAATGGGTTTCAGTTTAGCTCTTCTGAGC
1 TTCAGTTTAACCCTAATGAGTTTCAGTTTAGATATTCTGAGC
6789361 TTCAG
1 TTCAG
6789366 ATTATCTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (42 bp):
TTCAGTTTAACCCTAATGAGTTTCAGTTTAGATATTCTGAGC
Found at i:6789364 original size:21 final size:21
Alignment explanation
Indices: 6789301--6789365 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
6789291 AATGAGTTTT
* *
6789301 AGTTTAGATATTCTGAGCTTC
1 AGTTTAGCTCTTCTGAGCTTC
* * ** * *
6789322 AGTTTAACCCTAATGGGTTTC
1 AGTTTAGCTCTTCTGAGCTTC
6789343 AGTTTAGCTCTTCTGAGCTTC
1 AGTTTAGCTCTTCTGAGCTTC
6789364 AG
1 AG
6789366 ATTATCTTTT
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (21 bp):
AGTTTAGCTCTTCTGAGCTTC
Found at i:6789394 original size:42 final size:42
Alignment explanation
Indices: 6789230--6789405 Score: 120
Period size: 42 Copynumber: 4.2 Consensus size: 42
6789220 TCAACTCATA
* * ** * * *
6789230 TGAGTTTCAGTTTAACCCTTTTGGGTTTCAGTTCAACTCTTT
1 TGAGCTTCAGATTAACCCTAATGGATTTCAGTTCAGCTCTTC
* * * * * * *
6789272 TAAGTTTCAGTTTAACCCTAAT-GAGTTTTAGTTTAGATATTC
1 TGAGCTTCAGATTAACCCTAATGGA-TTTCAGTTCAGCTCTTC
* * *
6789314 TGAGCTTCAGTTTAACCCTAATGGGTTTCAGTTTAGCTCTTC
1 TGAGCTTCAGATTAACCCTAATGGATTTCAGTTCAGCTCTTC
* ** * * * *
6789356 TGAGCTTCAGATTATCTTTTATGGATTTCCGTTCAGCTCCTA
1 TGAGCTTCAGATTAACCCTAATGGATTTCAGTTCAGCTCTTC
6789398 TGAGCTTC
1 TGAGCTTC
6789406 CATTTAACCC
Statistics
Matches: 106, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
41 1 0.01
42 104 0.98
43 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (42 bp):
TGAGCTTCAGATTAACCCTAATGGATTTCAGTTCAGCTCTTC
Found at i:6793142 original size:24 final size:25
Alignment explanation
Indices: 6793095--6793140 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
6793085 ACTTCTATTT
6793095 TATTAAAAATATAAAAATAATTTAC
1 TATTAAAAATATAAAAATAATTTAC
*
6793120 TATT-AAAATATTAAAA-AATTT
1 TATTAAAAATATAAAAATAATTT
6793141 TATTTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
TATTAAAAATATAAAAATAATTTAC
Found at i:6793153 original size:25 final size:27
Alignment explanation
Indices: 6793090--6793153 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 27
6793080 AAAGGACTTC
*
6793090 TATTTTATTAAAAATATAAAAATAATT
1 TATTTTATTAAATATATAAAAATAATT
* *
6793117 TA--CTATTAAA-ATATTAAAAA-ATTT
1 TATTTTATTAAATATA-TAAAAATAATT
6793141 TATTTTATTAAAT
1 TATTTTATTAAAT
6793154 GAAACAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
24 8 0.27
25 13 0.43
26 7 0.23
27 2 0.07
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TATTTTATTAAATATATAAAAATAATT
Found at i:6794631 original size:17 final size:17
Alignment explanation
Indices: 6794609--6794659 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
6794599 TTGATGAAGA
6794609 ATCTGTTTGGATTTTGC
1 ATCTGTTTGGATTTTGC
*
6794626 ATCTGTTT-G--TTT-A
1 ATCTGTTTGGATTTTGC
6794639 ATCTGTTTGGATTTTGC
1 ATCTGTTTGGATTTTGC
6794656 ATCT
1 ATCT
6794660 ATCTGTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 8 0.29
14 4 0.14
16 4 0.14
17 12 0.43
ACGTcount: A:0.14, C:0.12, G:0.20, T:0.55
Consensus pattern (17 bp):
ATCTGTTTGGATTTTGC
Found at i:6796286 original size:20 final size:20
Alignment explanation
Indices: 6796261--6796298 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6796251 ACAATTTAAA
6796261 ATATAAATATATTAATATGT
1 ATATAAATATATTAATATGT
*
6796281 ATATAAATTTATTAATAT
1 ATATAAATATATTAATAT
6796299 ATGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
ATATAAATATATTAATATGT
Found at i:6796308 original size:20 final size:20
Alignment explanation
Indices: 6796265--6796309 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6796255 TTTAAAATAT
* *
6796265 AAATATATTAATATGTATAT
1 AAATATATTAATATATATAA
* *
6796285 AAATTTATTAATATATGTAA
1 AAATATATTAATATATATAA
6796305 AAATA
1 AAATA
6796310 ATTTTTTTGA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (20 bp):
AAATATATTAATATATATAA
Found at i:6796432 original size:14 final size:14
Alignment explanation
Indices: 6796410--6796461 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
6796400 TCAGAAAAAT
*
6796410 AAATTATTTTCTAG
1 AAATCATTTTCTAG
6796424 AAATCATTTTCTAG
1 AAATCATTTTCTAG
* *
6796438 AAATTATTTTCCAG
1 AAATCATTTTCTAG
*
6796452 AAAACATTTT
1 AAATCATTTT
6796462 ACTGGCAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (14 bp):
AAATCATTTTCTAG
Found at i:6796506 original size:7 final size:7
Alignment explanation
Indices: 6796496--6796527 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
6796486 TTATATACAT
6796496 AATACTA
1 AATACTA
6796503 AATACTA
1 AATACTA
6796510 AATACTA
1 AATACTA
6796517 AATACTA
1 AATACTA
6796524 AATA
1 AATA
6796528 TTTTATGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:6797701 original size:30 final size:30
Alignment explanation
Indices: 6797665--6797728 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
6797655 TTAATTAAAT
6797665 AGAGCTTTGAGAAATTTAAGGAGAAATTTG
1 AGAGCTTTGAGAAATTTAAGGAGAAATTTG
*
6797695 AGAGCTTTGAGAAATTTAGGGAGAAATTTG
1 AGAGCTTTGAGAAATTTAAGGAGAAATTTG
6797725 AGAG
1 AGAG
6797729 TTTTTTGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.39, C:0.03, G:0.30, T:0.28
Consensus pattern (30 bp):
AGAGCTTTGAGAAATTTAAGGAGAAATTTG
Found at i:6812709 original size:56 final size:56
Alignment explanation
Indices: 6812647--6812760 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
6812637 TCATCCCAAA
6812647 CACCTTTTACTCGCTTTTCTTATTTAAAAAAAAATACTAAGAAGTAAATAAGAGGC
1 CACCTTTTACTCGCTTTTCTTATTTAAAAAAAAATACTAAGAAGTAAATAAGAGGC
6812703 CACCTTTTACTCGCTTTTCTTATTTAAAAAAAAATACTAAGAAGTAAATAAGAGGC
1 CACCTTTTACTCGCTTTTCTTATTTAAAAAAAAATACTAAGAAGTAAATAAGAGGC
6812759 CA
1 CA
6812761 ATGAGGCCTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.32
Consensus pattern (56 bp):
CACCTTTTACTCGCTTTTCTTATTTAAAAAAAAATACTAAGAAGTAAATAAGAGGC
Found at i:6816861 original size:36 final size:36
Alignment explanation
Indices: 6816821--6816890 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
6816811 AGGGATCTTA
*
6816821 ATGTCGCAACACTCTCAACAATGATACCATCTTGAC
1 ATGTCACAACACTCTCAACAATGATACCATCTTGAC
** *
6816857 ATGTCATGACACTCTCAACAGTGATACCATCTTG
1 ATGTCACAACACTCTCAACAATGATACCATCTTG
6816891 GCTTTGGGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (36 bp):
ATGTCACAACACTCTCAACAATGATACCATCTTGAC
Found at i:6835974 original size:46 final size:46
Alignment explanation
Indices: 6835754--6835972 Score: 350
Period size: 46 Copynumber: 4.8 Consensus size: 46
6835744 TGGAATGTAT
* *
6835754 GTATGGTATTTCAGTAAAGAAAACCATATTGAGTTGTGAAAAGTAG
1 GTATGGTATTTCAGTAATGAAAACCATACTGAGTTGTGAAAAGTAG
* *
6835800 GTATGATATTTCAGTAATGAAAACCATACTGAGTTGTGAGAAGTAG
1 GTATGGTATTTCAGTAATGAAAACCATACTGAGTTGTGAAAAGTAG
*
6835846 GTATGGTATTTCAGTAATGAAAACCATACTGAGTTGTGAGAAGTAG
1 GTATGGTATTTCAGTAATGAAAACCATACTGAGTTGTGAAAAGTAG
* *
6835892 GTATGGTATTTCAGTAATGAAAACCATACTGAGTTATGAAAAGCAG
1 GTATGGTATTTCAGTAATGAAAACCATACTGAGTTGTGAAAAGTAG
*
6835938 GCATGGTATTTCAGTGAA-GAAAACCATACTGAGTT
1 GTATGGTATTTCAGT-AATGAAAACCATACTGAGTT
6835973 ATAGCATTGT
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 161 0.99
47 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.30
Consensus pattern (46 bp):
GTATGGTATTTCAGTAATGAAAACCATACTGAGTTGTGAAAAGTAG
Found at i:6845603 original size:20 final size:20
Alignment explanation
Indices: 6845575--6845623 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
6845565 ATATATCCTG
* *
6845575 ATTTTATTTTATTCCAATCA
1 ATTTGATTTGATTCCAATCA
**
6845595 ATTTGATTTGATTTTAATCA
1 ATTTGATTTGATTCCAATCA
*
6845615 AATTGATTT
1 ATTTGATTT
6845624 AATTGCTCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (20 bp):
ATTTGATTTGATTCCAATCA
Found at i:6846373 original size:29 final size:29
Alignment explanation
Indices: 6846336--6846402 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
6846326 CTTGAATTTT
* * *
6846336 TTATTAAAATAACATTAAAAATTAATTAA
1 TTATAAAAATAACATGAAAAATAAATTAA
** *
6846365 TTATAAAAATAAGGTGGAAAATAAATTAA
1 TTATAAAAATAACATGAAAAATAAATTAA
6846394 TTATAAAAA
1 TTATAAAAA
6846403 ATAGGGTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (29 bp):
TTATAAAAATAACATGAAAAATAAATTAA
Found at i:6846609 original size:27 final size:28
Alignment explanation
Indices: 6846567--6846638 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
6846557 AATTTTAGGA
6846567 ATTAAATGCATA-GAAAAA-CATTAAGAC
1 ATTAAATGCA-AGGAAAAATCATTAAGAC
*
6846594 ATTAAATGCAAGGAAAAATTATTAAGAC
1 ATTAAATGCAAGGAAAAATCATTAAGAC
6846622 ATTAAATG-AAGAGAAAA
1 ATTAAATGCAAG-GAAAA
6846639 TGCTATTGTC
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
26 1 0.02
27 19 0.46
28 21 0.51
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.22
Consensus pattern (28 bp):
ATTAAATGCAAGGAAAAATCATTAAGAC
Found at i:6849377 original size:21 final size:21
Alignment explanation
Indices: 6849336--6849378 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6849326 AATAAAGTAG
*
6849336 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
*
6849357 ATTATTTATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
6849378 A
1 A
6849379 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:6849454 original size:58 final size:58
Alignment explanation
Indices: 6849386--6849522 Score: 163
Period size: 58 Copynumber: 2.4 Consensus size: 58
6849376 GTAAATTCAT
*
6849386 ATAATAATTATATTAAGAATTTTATTAAATT-ATATATT-TTTCTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATTTGATTAAATTAAT-TATTATTTCTATTAAATTATATTTA
* * * * * *
6849444 ATAATTATTATGTTAAAATATGGTTAAATTAATTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATTTGATTAAATTAATTATTATTTCTATTAAATTATATTTA
6849502 ATAATAATCT-TATTAAAATTT
1 ATAATAAT-TATATTAAAATTT
6849523 AATAATAATA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
57 15 0.23
58 50 0.76
59 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (58 bp):
ATAATAATTATATTAAAATTTGATTAAATTAATTATTATTTCTATTAAATTATATTTA
Found at i:6853560 original size:44 final size:44
Alignment explanation
Indices: 6853497--6853607 Score: 206
Period size: 44 Copynumber: 2.5 Consensus size: 44
6853487 AGTACTTCTA
6853497 ATCAGTGACAAGTGATAAGT-AGTAGCTTCAGCTACACTTATCTG
1 ATCAGTGACAAGTGATAAGTGA-TAGCTTCAGCTACACTTATCTG
6853541 ATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTG
1 ATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTG
6853585 ATCAGTGACAAGTGATAAGTGAT
1 ATCAGTGACAAGTGATAAGTGAT
6853608 CATACGTAAG
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
44 65 0.98
45 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTG
Found at i:6870710 original size:25 final size:25
Alignment explanation
Indices: 6870681--6870729 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
6870671 TTTACCTTTA
*
6870681 CTTTTACGTATTTATGTAGTACATT
1 CTTTTACGTATTTATATAGTACATT
* *
6870706 CTTTTATGTATTTATATATTACAT
1 CTTTTACGTATTTATATAGTACAT
6870730 ACATTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.55
Consensus pattern (25 bp):
CTTTTACGTATTTATATAGTACATT
Found at i:6877666 original size:2 final size:2
Alignment explanation
Indices: 6877654--6877700 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
6877644 GTGTCTTGCT
*
6877654 TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6877696 TC TC T
1 TC TC T
6877701 GTGCACTTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:6881914 original size:21 final size:21
Alignment explanation
Indices: 6881890--6881934 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6881880 AATTTTATGT
*
6881890 ATAAAATTATTAT-AATGATAA
1 ATAAAATTATCATAAAT-ATAA
*
6881911 ATAATATTATCATAAATATAA
1 ATAAAATTATCATAAATATAA
6881932 ATA
1 ATA
6881935 TTCATCTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
ATAAAATTATCATAAATATAA
Found at i:6895281 original size:29 final size:26
Alignment explanation
Indices: 6895232--6895290 Score: 64
Period size: 29 Copynumber: 2.2 Consensus size: 26
6895222 AATTTCGCGG
*
6895232 AAAATGGCCCATTCCGGTAAATAATTAA
1 AAAATGGCCCATTCCGATAAAT--TTAA
* *
6895260 AAAAGTGGCCTATTTCGATAAATTTAA
1 AAAA-TGGCCCATTCCGATAAATTTAA
6895287 AAAA
1 AAAA
6895291 AAAGGCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.30
28 4 0.15
29 15 0.56
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (26 bp):
AAAATGGCCCATTCCGATAAATTTAA
Found at i:6901110 original size:20 final size:20
Alignment explanation
Indices: 6901085--6901124 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6901075 CTTTGAATAC
6901085 TTATAAATAAATA-TAATTAA
1 TTATAAATAAA-AGTAATTAA
*
6901105 TTATAATTAAAAGTAATTAA
1 TTATAAATAAAAGTAATTAA
6901125 ATTTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (20 bp):
TTATAAATAAAAGTAATTAA
Found at i:6908829 original size:18 final size:21
Alignment explanation
Indices: 6908787--6908829 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 21
6908777 GTAAAAATAA
6908787 ATTATATCCTTATAATAGTAT
1 ATTATATCCTTATAATAGTAT
6908808 -TTATAT-CTT-TAATA-TAT
1 ATTATATCCTTATAATAGTAT
6908825 ATTAT
1 ATTAT
6908830 TTTTGGTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.14
18 9 0.43
19 3 0.14
20 6 0.29
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTATATCCTTATAATAGTAT
Done.