Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 34 of 77
Found at i:6953070 original size:26 final size:29
Alignment explanation
Indices: 6953010--6953070 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
6953000 ATATTTATTT
*
6953010 AGTTATTTATTAATGTATTATATAATAAA
1 AGTTATTTATTAATGTATAATATAATAAA
*
6953039 AATTATTTATTATAT-TA-AAT-TAAT-AA
1 AGTTATTTATTA-ATGTATAATATAATAAA
6953065 AGTTAT
1 AGTTAT
6953071 GTTTATGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 7 0.25
27 4 0.14
28 2 0.07
29 13 0.46
30 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (29 bp):
AGTTATTTATTAATGTATAATATAATAAA
Found at i:6953576 original size:26 final size:26
Alignment explanation
Indices: 6953540--6953590 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
6953530 AACAAAATTA
6953540 AAATTAATGAAAGAATTTATAAGCCC
1 AAATTAATGAAAGAATTTATAAGCCC
*
6953566 AAATTAATGAAAGTATTTATAAGCC
1 AAATTAATGAAAGAATTTATAAGCC
6953591 TAAACTAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (26 bp):
AAATTAATGAAAGAATTTATAAGCCC
Found at i:6953655 original size:19 final size:19
Alignment explanation
Indices: 6953631--6953669 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6953621 ACAGATATCT
*
6953631 CTTTTATGAA-GAATCACCA
1 CTTTTA-GAATGAAACACCA
6953650 CTTTTAGAATGAAACACCA
1 CTTTTAGAATGAAACACCA
6953669 C
1 C
6953670 GTCCAATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (19 bp):
CTTTTAGAATGAAACACCA
Found at i:6956802 original size:93 final size:93
Alignment explanation
Indices: 6956595--6956784 Score: 362
Period size: 93 Copynumber: 2.0 Consensus size: 93
6956585 CATGGGTTTT
6956595 TTATGGATTGCTAACCAAAGATAATAGTTTTGAACTTTGAAGGAAAATGAGAAGAATGAAGAATA
1 TTATGGATTGCTAACCAAAGATAATAGTTTTGAACTTTGAAGGAAAATGAGAAGAATGAAGAATA
*
6956660 CAAGAAAGAAGGAAGAAATAGCAAAAGA
66 CAAGAAAGAAAGAAGAAATAGCAAAAGA
*
6956688 TTGTGGATTGCTAACCAAAGATAATAGTTTTGAACTTTGAAGGAAAATGAGAAGAATGAAGAATA
1 TTATGGATTGCTAACCAAAGATAATAGTTTTGAACTTTGAAGGAAAATGAGAAGAATGAAGAATA
6956753 CAAGAAAGAAAGAAGAAATAGCAAAAGA
66 CAAGAAAGAAAGAAGAAATAGCAAAAGA
6956781 TTAT
1 TTAT
6956785 TGCTTCTTTT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (93 bp):
TTATGGATTGCTAACCAAAGATAATAGTTTTGAACTTTGAAGGAAAATGAGAAGAATGAAGAATA
CAAGAAAGAAAGAAGAAATAGCAAAAGA
Found at i:6956903 original size:14 final size:15
Alignment explanation
Indices: 6956884--6956916 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
6956874 TATAAGATTT
6956884 TTTTTTGGG-TTTGA
1 TTTTTTGGGTTTTGA
6956898 TTTTTTGGGTTTTGA
1 TTTTTTGGGTTTTGA
6956913 TTTT
1 TTTT
6956917 ATGAGTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.06, C:0.00, G:0.24, T:0.70
Consensus pattern (15 bp):
TTTTTTGGGTTTTGA
Found at i:6959249 original size:14 final size:14
Alignment explanation
Indices: 6959232--6959270 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
6959222 TTTTTGTTTT
* *
6959232 TTTTTTATTTTGTA
1 TTTTATATTTTATA
*
6959246 TTTTGTATTTTATA
1 TTTTATATTTTATA
6959260 TTTTATATTTT
1 TTTTATATTTT
6959271 TTTCTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (14 bp):
TTTTATATTTTATA
Found at i:6959302 original size:4 final size:4
Alignment explanation
Indices: 6959293--6959466 Score: 76
Period size: 4 Copynumber: 43.0 Consensus size: 4
6959283 ATCTTATGTA
* *
6959293 TTAT TTAT TTAT TTAT TTACT ATTA- CTAT TTAT TAATAT TTTT TTAT
1 TTAT TTAT TTAT TTAT TTA-T -TTAT TTAT TTAT T--TAT TTAT TTAT
* * * * * * *
6959340 TTTT TTAT TTTT TTAT GTTAAT ATAT ATAT TTA- TTA- TTAC TTAG CTAT
1 TTAT TTAT TTAT TTAT -TT-AT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* * * *
6959388 TTAT ATA- TTA- TTAT ATAT GTAT TTATT GTTAT TTAT TTAT TTAT ATAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA-T -TTAT TTAT TTAT TTAT TTAT
*
6959436 TATAAT TTAT CTA- TTAT TTA- TT-T TTAT TTAT
1 T-T-AT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
6959467 CTGTTAATAT
Statistics
Matches: 131, Mismatches: 23, Indels: 32
0.70 0.12 0.17
Matches are distributed among these distances:
3 19 0.15
4 89 0.68
5 8 0.06
6 15 0.11
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (4 bp):
TTAT
Found at i:6959345 original size:9 final size:8
Alignment explanation
Indices: 6959217--6959355 Score: 55
Period size: 8 Copynumber: 15.8 Consensus size: 8
6959207 GGTAGGCCTA
*
6959217 TTTTGTTT
1 TTTTATTT
*
6959225 TTGTTTTTT
1 TT-TTATTT
6959234 TTTTATTT
1 TTTTATTT
6959242 TGTATT-TTGT
1 T-T-TTATT-T
6959252 ATTTTATATT
1 -TTTTAT-TT
*
6959262 TTATATTT
1 TTTTATTT
*
6959270 TTTTCTTT
1 TTTTATTT
6959278 TTTGTATCTT
1 TTT-TAT-TT
6959288 ATGTATTATTT
1 -T-T-TTATTT
*
6959299 ATTTATTT
1 TTTTATTT
* *
6959307 ATTTACTAT
1 TTTTA-TTT
**
6959316 TACTATTT
1 TTTTATTT
*
6959324 ATTAATATTT
1 -TT-TTATTT
6959334 TTTTATTT
1 TTTTATTT
6959342 TTTTATTT
1 TTTTATTT
6959350 TTTTAT
1 TTTTAT
6959356 GTTAATATAT
Statistics
Matches: 101, Mismatches: 15, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
8 51 0.50
9 27 0.27
10 13 0.13
11 5 0.05
12 4 0.04
13 1 0.01
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (8 bp):
TTTTATTT
Found at i:6959404 original size:40 final size:40
Alignment explanation
Indices: 6959360--6959438 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
6959350 TTTTATGTTA
6959360 ATATATATATTTATTATTACTTAGCTATTTATATATTATT
1 ATATATATATTTATTATTACTTAGCTATTTATATATTATT
* * * **
6959400 ATATATGTATTTATTGTTATTTATTTATTTATATATTAT
1 ATATATATATTTATTATTACTTAGCTATTTATATATTAT
6959439 AATTTATCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.61
Consensus pattern (40 bp):
ATATATATATTTATTATTACTTAGCTATTTATATATTATT
Found at i:6959419 original size:18 final size:18
Alignment explanation
Indices: 6959360--6959466 Score: 65
Period size: 18 Copynumber: 5.8 Consensus size: 18
6959350 TTTTATGTTA
*
6959360 ATATATATATTTATTATT
1 ATATATGTATTTATTATT
* *
6959378 ACTTAGCTATTTATATATTATT
1 A--TA--TATGTATTTATTATT
*
6959400 ATATATGTATTTATTGTT
1 ATATATGTATTTATTATT
* *
6959418 ATTTATTTATTTATATATT
1 ATATATGTATTTAT-TATT
* *
6959437 ATA-ATTTATCTATTATT
1 ATATATGTATTTATTATT
* *
6959454 -TATTTTTATTTAT
1 ATATATGTATTTAT
6959467 CTGTTAATAT
Statistics
Matches: 71, Mismatches: 12, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
16 2 0.03
17 12 0.17
18 34 0.48
19 5 0.07
20 4 0.06
22 14 0.20
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
ATATATGTATTTATTATT
Found at i:6959443 original size:14 final size:14
Alignment explanation
Indices: 6959386--6959452 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
6959376 TTACTTAGCT
*
6959386 ATTTATATATTATT
1 ATTTATATATTATA
* *
6959400 ATATATGTATT-TA
1 ATTTATATATTATA
* *
6959413 TTGTTATTTATT-T-
1 AT-TTATATATTATA
6959426 ATTTATATATTATA
1 ATTTATATATTATA
*
6959440 ATTTATCTATTAT
1 ATTTATATATTAT
6959453 TTATTTTTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
12 8 0.20
13 4 0.10
14 29 0.71
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (14 bp):
ATTTATATATTATA
Found at i:6959443 original size:22 final size:21
Alignment explanation
Indices: 6959384--6959468 Score: 61
Period size: 22 Copynumber: 4.1 Consensus size: 21
6959374 TATTACTTAG
*
6959384 CTATTTATATATTATTATATAT
1 CTATTTATATATTA-TATTTAT
* *
6959406 GTATTTAT-T-GT-TATTTAT
1 CTATTTATATATTATATTTAT
*
6959424 TTATTTATATATTATAATTTAT
1 CTATTTATATATTAT-ATTTAT
* *
6959446 CTA-TTATTTATTTTTATTTAT
1 CTATTTATATA-TTATATTTAT
6959467 CT
1 CT
6959469 GTTAATATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
18 13 0.26
19 1 0.02
20 2 0.04
21 16 0.32
22 18 0.36
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
CTATTTATATATTATATTTAT
Found at i:6959516 original size:42 final size:41
Alignment explanation
Indices: 6959367--6959526 Score: 119
Period size: 42 Copynumber: 3.9 Consensus size: 41
6959357 TTAATATATA
* * * * * *
6959367 TATTTATTATTACTTAGCTATTTATATATT-A-TTATATAT
1 TATTTATTTTTAATTATCTATTAATATTTTGATTTATCTAT
* * * * *
6959406 GTATTTATTGTTATTTATTTATTTATATATTATAATTTATCTAT
1 -TATTTATTTTTAATTATCTA-TTA-ATATTTTGATTTATCTAT
* *
6959450 TATTTATTTTTATTTATCTGTTAATATTTTGATTTATCTGAT
1 TATTTATTTTTAATTATCTATTAATATTTTGATTTATCT-AT
* *
6959492 TGTTT-TCTTTTAATTATCTATTAATATTTTTATTT
1 TATTTAT-TTTTAATTATCTATTAATATTTTGATTT
6959527 GATTTTTATT
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
40 16 0.16
41 17 0.18
42 39 0.40
43 18 0.19
44 7 0.07
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (41 bp):
TATTTATTTTTAATTATCTATTAATATTTTGATTTATCTAT
Found at i:6959843 original size:13 final size:13
Alignment explanation
Indices: 6959827--6959859 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
6959817 ATTTTTGGAG
6959827 AATTTTTTTT-ACA
1 AATTTTTTTTGA-A
6959840 AATTTTTTTTGAA
1 AATTTTTTTTGAA
6959853 AATTTTT
1 AATTTTT
6959860 GAAAAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 18 0.95
14 1 0.05
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (13 bp):
AATTTTTTTTGAA
Found at i:6960376 original size:8 final size:8
Alignment explanation
Indices: 6960365--6960407 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
6960355 TTTTCAGGTT
6960365 TTTTTTTA
1 TTTTTTTA
6960373 TTTTTTTTA
1 -TTTTTTTA
6960382 TTTTTTTA
1 TTTTTTTA
* *
6960390 TATATTTA
1 TTTTTTTA
*
6960398 TTTATTTA
1 TTTTTTTA
6960406 TT
1 TT
6960408 ATGATTATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
8 23 0.74
9 8 0.26
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTTA
Found at i:6960376 original size:9 final size:9
Alignment explanation
Indices: 6960364--6960404 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
6960354 GTTTTCAGGT
6960364 TTTTTTTTA
1 TTTTTTTTA
6960373 TTTTTTTTA
1 TTTTTTTTA
6960382 TTTTTTTATA
1 TTTTTTT-TA
*
6960392 TATTTATTTA
1 T-TTTTTTTA
6960402 TTT
1 TTT
6960405 ATTATGATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 18 0.62
10 6 0.21
11 5 0.17
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:6960376 original size:10 final size:10
Alignment explanation
Indices: 6960363--6960404 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
6960353 CGTTTTCAGG
6960363 TTTTTTTTTA
1 TTTTTTTTTA
6960373 -TTTTTTTTA
1 TTTTTTTTTA
*
6960382 TTTTTTTATA
1 TTTTTTTTTA
* *
6960392 TATTTATTTA
1 TTTTTTTTTA
6960402 TTT
1 TTT
6960405 ATTATGATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:6960438 original size:19 final size:21
Alignment explanation
Indices: 6960399--6960439 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
6960389 ATATATTTAT
6960399 TTATTTATTATGATTATGATTA
1 TTATTTATTA-GATTATGATTA
6960421 TTATTTATTA-ATTA-GATTA
1 TTATTTATTAGATTATGATTA
6960440 GAATTGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 4 0.21
22 10 0.53
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (21 bp):
TTATTTATTAGATTATGATTA
Found at i:6960463 original size:5 final size:5
Alignment explanation
Indices: 6960453--6960529 Score: 65
Period size: 5 Copynumber: 15.6 Consensus size: 5
6960443 TTGTTTAATA
* *
6960453 TTTAT TTTA- TTT-T GTTAT TTTAT TTT-T CTTTAT TTTAT TCTCATT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT T-TTA-T
6960498 TTTATT TTTAT TTTAT TTTA- -TTAT TTTAT TTT
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
6960530 CTTTAAATAA
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.10
5 38 0.63
6 11 0.18
7 2 0.03
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:6960487 original size:28 final size:28
Alignment explanation
Indices: 6960453--6960534 Score: 88
Period size: 23 Copynumber: 3.1 Consensus size: 28
6960443 TTGTTTAATA
*
6960453 TTTATTTTATTTTGTTATTTTATTTTTC
1 TTTATTTTATTTTATTATTTTATTTTTC
*
6960481 TTTATTTTATTCTCA-T-TTTTA---TT-
1 TTTATTTTATT-TTATTATTTTATTTTTC
6960504 TTTATTTTATTTTATTATTTTA-TTTTC
1 TTTATTTTATTTTATTATTTTATTTTTC
6960531 TTTA
1 TTTA
6960535 AATAAAATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
22 2 0.04
23 12 0.27
24 7 0.16
26 2 0.04
27 9 0.20
28 12 0.27
29 1 0.02
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (28 bp):
TTTATTTTATTTTATTATTTTATTTTTC
Found at i:6960766 original size:59 final size:57
Alignment explanation
Indices: 6960587--6960826 Score: 283
Period size: 57 Copynumber: 4.1 Consensus size: 57
6960577 ATCAATTTTT
* *
6960587 TCAACTTTTCCTTGAAAATAAGCTTTCAAAAAAATAATTTTGGAGAAAAGTTAAAAGTA
1 TCAA-TTTTCCTTGAAAATAAGTTTTCAAAAAAAT-ATTTTGGAGAAAAGTTGAAAGTA
* *
6960646 TCAATTTTCCTTGAAAATAAGCTTTC-CAAAAATATTTTTGG-GAAAAAGTTGAAAGTA
1 TCAATTTTCCTTGAAAATAAGTTTTCAAAAAAATA-TTTTGGAG-AAAAGTTGAAAGTA
*
6960703 TCAATTTTCCTTAAAAATAAGTTTTCAAAAAGTGAAT-TTTT-GAGGAAAAGTTGAAAGTA
1 TCAATTTTCCTTGAAAATAAGTTTTCAAAAA---AATATTTTGGA-GAAAAGTTGAAAGTA
* * * *
6960762 TCAATTTTCCTCGAAATTAAAG-TTTCTAAAAAATATTTTGGAAAAAAGTTGAAAGTA
1 TCAATTTTCCTTGAAAAT-AAGTTTTCAAAAAAATATTTTGGAGAAAAGTTGAAAGTA
6960819 TCAATTTT
1 TCAATTTT
6960827 TTCTGCACAA
Statistics
Matches: 160, Mismatches: 10, Indels: 24
0.82 0.05 0.12
Matches are distributed among these distances:
56 5 0.03
57 75 0.47
58 28 0.17
59 45 0.28
60 4 0.03
61 3 0.02
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.35
Consensus pattern (57 bp):
TCAATTTTCCTTGAAAATAAGTTTTCAAAAAAATATTTTGGAGAAAAGTTGAAAGTA
Found at i:6960801 original size:116 final size:115
Alignment explanation
Indices: 6960587--6960826 Score: 333
Period size: 116 Copynumber: 2.1 Consensus size: 115
6960577 ATCAATTTTT
*
6960587 TCAACTTTTCCTTGAAAATAAGCTTTCAAAAAAATAATTTTGGAGAAAAGTTAAAAGTATCAATT
1 TCAA-TTTTCCTTAAAAATAAGCTTTCAAAAAAATAATTTTGGAGAAAAGTTAAAAGTATCAATT
* * *
6960652 TTCCTTGAAAATAAGCTTTCCAAAAATATTTTTGGGAAAAAGTTGAAAGTA
65 TTCCTCGAAAATAAGCTTTCAAAAAATATTTTTGGAAAAAAGTTGAAAGTA
* * * *
6960703 TCAATTTTCCTTAAAAATAAGTTTTC-AAAAAGTGAATTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TCAATTTTCCTTAAAAATAAGCTTTCAAAAAAAT-AATTTTGGA-GAAAAGTTAAAAGTATCAAT
*
6960767 TTTCCTCGAAATTAAAG-TTTCTAAAAAATA-TTTTGGAAAAAAGTTGAAAGTA
64 TTTCCTCGAAAAT-AAGCTTTC-AAAAAATATTTTTGGAAAAAAGTTGAAAGTA
6960819 TCAATTTT
1 TCAATTTT
6960827 TTCTGCACAA
Statistics
Matches: 111, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
114 6 0.05
115 28 0.25
116 67 0.60
117 10 0.09
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.35
Consensus pattern (115 bp):
TCAATTTTCCTTAAAAATAAGCTTTCAAAAAAATAATTTTGGAGAAAAGTTAAAAGTATCAATTT
TCCTCGAAAATAAGCTTTCAAAAAATATTTTTGGAAAAAAGTTGAAAGTA
Found at i:6971276 original size:15 final size:15
Alignment explanation
Indices: 6971256--6971311 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
6971246 TGCTTGAAAT
6971256 GAAAAAAAAAAAAGA
1 GAAAAAAAAAAAAGA
*
6971271 GAAAAAATAAAAATGA
1 GAAAAAA-AAAAAAGA
* *
6971287 AAAAAATGAAAAAAAAA
1 GAAAAA--AAAAAAAGA
6971304 GAAAAAAA
1 GAAAAAAA
6971312 TGAATGAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
15 9 0.27
16 12 0.36
17 11 0.33
18 1 0.03
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (15 bp):
GAAAAAAAAAAAAGA
Found at i:6971277 original size:14 final size:13
Alignment explanation
Indices: 6971256--6971311 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 13
6971246 TGCTTGAAAT
6971256 GAAAAAAAAAAAA
1 GAAAAAAAAAAAA
6971269 GAGAAAAAATAAAAA
1 GA-AAAAAA-AAAAA
6971284 TGAAAAAAATGAAAAA
1 -GAAAAAAA--AAAAA
6971300 -AAAAGAAAAAAA
1 GAAAA-AAAAAAA
6971312 TGAATGAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
13 6 0.16
14 10 0.27
15 14 0.38
16 7 0.19
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (13 bp):
GAAAAAAAAAAAA
Found at i:6971301 original size:19 final size:19
Alignment explanation
Indices: 6971252--6971326 Score: 75
Period size: 19 Copynumber: 3.9 Consensus size: 19
6971242 ACTATGCTTG
6971252 AAATGAAAAAAAAA-AAAGA
1 AAATGAAAAAAAAAGAAA-A
*
6971271 GAAA--AAATAAAAATGAAAA
1 -AAATGAAA-AAAAAAGAAAA
6971290 AAATGAAAAAAAAAGAAAA
1 AAATGAAAAAAAAAGAAAA
**
6971309 AAATGAATGAAAAAGAAA
1 AAATGAAAAAAAAAGAAA
6971327 GACTCAAGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
18 6 0.13
19 32 0.68
20 9 0.19
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (19 bp):
AAATGAAAAAAAAAGAAAA
Found at i:6971308 original size:25 final size:25
Alignment explanation
Indices: 6971261--6971309 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
6971251 GAAATGAAAA
*
6971261 AAAAAAAAGAGAAAAAATAAAAATG
1 AAAAAAAAGAGAAAAAAAAAAAATG
* *
6971286 AAAAAAATGAAAAAAAAAGAAAAA
1 AAAAAAAAGAGAAAAAAA-AAAAA
6971310 AATGAATGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (25 bp):
AAAAAAAAGAGAAAAAAAAAAAATG
Found at i:6972432 original size:42 final size:40
Alignment explanation
Indices: 6972327--6972617 Score: 244
Period size: 42 Copynumber: 7.0 Consensus size: 40
6972317 AAGGAGCTTT
** * *
6972327 ATTTATTTTTCAAAGTTGTTAAGCTTCTGATTAGAGGAGCC
1 ATTTATTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAG-C
* * *
6972368 ATTTATTTTTCAAAGTTATTGAGCCTCTAATTAGAGGGGC
1 ATTTATTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGC
* * *
6972408 TATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAAGAAC
1 -ATTTA-TTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGC
* * * *
6972450 GGTTTATTTTCCAAAGTCATTGAGCCTTTGTTTAGAGGAGC
1 -ATTTATTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGC
6972491 -TTTATTCATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGC
1 ATTTA-T--TTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGC
* * * *
6972533 -TTTATTCATTTTCAAAGACGTTGAGCCTCTGATTAGAAGAAC
1 ATTTA-T--TTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGC
* * *
6972575 ATTGTTTATGTTTTCTAAAGTCGTCGAGCCTCTGCTTAGAGGA
1 A---TTTAT-TTTTC-AAAGTCATTGAGCCTCTGATTAGAGGA
6972618 TTTTTTATCA
Statistics
Matches: 209, Mismatches: 31, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.02
40 2 0.01
41 68 0.33
42 102 0.49
44 5 0.02
45 24 0.11
46 4 0.02
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (40 bp):
ATTTATTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGC
Found at i:6972439 original size:83 final size:82
Alignment explanation
Indices: 6972326--6972617 Score: 277
Period size: 83 Copynumber: 3.5 Consensus size: 82
6972316 CAAGGAGCTT
* * * *
6972326 TATTTA-TTTTTCAAAGTTGTTAAGCTTCTGATTAGAGGAGCCATTTATTTTTCAAAGTTATTGA
1 TATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC-TTTATTTTTCAAAGTCATTGA
* *
6972390 GCCTCTAATTAGAGGGGC
65 GCCTCTGATTAGAGGAGC
* * * *
6972408 TATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAAGAACGGTTTATTTTCCAAAGTCATTGA
1 TATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC-CTTTATTTTTCAAAGTCATTGA
* *
6972473 GCCTTTGTTTAGAGGAGC
65 GCCTCTGATTAGAGGAGC
* * *
6972491 --TTTATTCATTTTCAAAGTCATTGAGCCTCTGATTAGAGGAG-CTTTATTCATTTTCAAAGACG
1 TATTTATT--TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCTTTA-T--TTTTCAAAGTCA
* *
6972553 TTGAGCCTCTGATTAGAAGAAC
61 TTGAGCCTCTGATTAGAGGAGC
* * * *
6972575 ATTGTTTATGTTTTCTAAAGTCGTCGAGCCTCTGCTTAGAGGA
1 --TATTTATTTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGA
6972618 TTTTTTATCA
Statistics
Matches: 171, Mismatches: 27, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
81 10 0.06
82 7 0.04
83 93 0.54
84 27 0.16
86 5 0.03
87 24 0.14
88 5 0.03
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (82 bp):
TATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCTTTATTTTTCAAAGTCATTGAG
CCTCTGATTAGAGGAGC
Found at i:6972867 original size:4 final size:4
Alignment explanation
Indices: 6972858--6973017 Score: 68
Period size: 4 Copynumber: 40.0 Consensus size: 4
6972848 ATCTTATGTA
6972858 TTAT TTAT TTA- TTAT TACTAT TTAT TAATAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT T--TAT TTAT T--TAT TTAT TTAT TTAT TTAT
* * * * * *
6972905 GTTAAT ATAT ATAT TTA- TTA- TTAC TTAG CTAT TTAT ATA- TTAT TATAT
1 -TT-AT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T-TAT
* * * * * *
6972953 ATAT GTAT TTA- TTA- TTAT TTAT CTAT GTAT ATAT TATAAT TTAT CTA-
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T-T-AT TTAT TTAT
6973000 TTAT TTA- TT-T TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT
6973018 CTGTTAATAT
Statistics
Matches: 123, Mismatches: 17, Indels: 32
0.72 0.10 0.19
Matches are distributed among these distances:
3 23 0.19
4 79 0.64
5 8 0.07
6 13 0.11
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (4 bp):
TTAT
Found at i:6972884 original size:10 final size:9
Alignment explanation
Indices: 6972859--6973008 Score: 64
Period size: 10 Copynumber: 15.9 Consensus size: 9
6972849 TCTTATGTAT
6972859 TATTTATT-
1 TATTTATTA
6972867 TA-TTATTA
1 TATTTATTA
6972875 CTATTTATTAA
1 -TATTTATT-A
6972886 TATTTATT-
1 TATTTATTA
6972894 TATTTATT-
1 TATTTATTA
*
6972902 TATGTTAATA
1 TAT-TTATTA
*
6972912 TATATATT-
1 TATTTATTA
6972920 TATTATTACTTA
1 TA-T-TTA-TTA
6972932 GCTATTTA-TA
1 --TATTTATTA
6972942 TA-TTATTA
1 TATTTATTA
* *
6972950 TATATA-TG
1 TATTTATTA
6972958 TATTTATTA
1 TATTTATTA
6972967 TTATTTATCTA
1 -TATTTAT-TA
*
6972978 TGTATATATTA
1 --TATTTATTA
6972989 TAATTTATCTA
1 T-ATTTAT-TA
6973000 TTATTTATT
1 -TATTTATT
6973009 TTTATTTATC
Statistics
Matches: 110, Mismatches: 11, Indels: 40
0.68 0.07 0.25
Matches are distributed among these distances:
7 8 0.07
8 27 0.25
9 14 0.13
10 33 0.30
11 15 0.14
12 10 0.09
13 1 0.01
14 2 0.02
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (9 bp):
TATTTATTA
Found at i:6972946 original size:22 final size:20
Alignment explanation
Indices: 6972920--6972989 Score: 70
Period size: 22 Copynumber: 3.3 Consensus size: 20
6972910 TATATATATT
*
6972920 TATTATTACTTAGCTATTTATA
1 TATTATTA-TTA-CTATGTATA
*
6972942 TATTATTATATA-TATGTATT
1 TATTATTAT-TACTATGTATA
6972962 TATTATTATTTATCTATGTATA
1 TATTATTA-TTA-CTATGTATA
6972984 TATTAT
1 TATTAT
6972990 AATTTATCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 16 0.39
21 2 0.05
22 23 0.56
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (20 bp):
TATTATTATTACTATGTATA
Found at i:6973001 original size:64 final size:62
Alignment explanation
Indices: 6972847--6973001 Score: 135
Period size: 64 Copynumber: 2.5 Consensus size: 62
6972837 TTCTTCTTTG
6972847 TATCTTATGTATTATT-TATTTAT-TA-TTACTATTTATTAATATTTATTTATTTATTTATGT
1 TATC-TATGTATTATTATATTTATCTATTTACTATTTATTAATATTTATTTATTTATTTATGT
* * * *
6972907 TAATATATATATTTATTATTACTTAGCTATTTA-TATATTATTATATATATGTATTTA-TTA-TT
1 T-ATCTATGTA-TTATTA-TATTTATCTATTTACTAT-TTATTA-ATAT-T-TATTTATTTATTT
6972969 AT-T
59 ATGT
6972972 TATCTATGTATATATTATAATTTATCTATT
1 TATCTATGTAT-TATTAT-ATTTATCTATT
6973002 ATTTATTTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
60 6 0.08
61 7 0.09
63 7 0.09
64 26 0.35
65 11 0.15
66 8 0.11
67 4 0.05
68 6 0.08
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (62 bp):
TATCTATGTATTATTATATTTATCTATTTACTATTTATTAATATTTATTTATTTATTTATGT
Found at i:6973048 original size:18 final size:19
Alignment explanation
Indices: 6972956--6973048 Score: 64
Period size: 21 Copynumber: 4.6 Consensus size: 19
6972946 ATTATATATA
6972956 TGTATTTATTATT-ATTTATC
1 TGTA-TTATT-TTAATTTATC
*
6972976 TATGTATATATTATAATTTATC
1 --TGTAT-TATTTTAATTTATC
* *
6972998 TATTATTTATTTTTATTTATC
1 T-GTA-TTATTTTAATTTATC
*
6973019 TGTTAATATTTTAATTTATC
1 TG-TATTATTTTAATTTATC
6973039 TG-ATTATTTT
1 TGTATTATTTT
6973049 CTTTTAATTA
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
18 7 0.12
20 16 0.28
21 19 0.33
22 16 0.28
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (19 bp):
TGTATTATTTTAATTTATC
Found at i:6973060 original size:42 final size:41
Alignment explanation
Indices: 6972916--6973077 Score: 148
Period size: 42 Copynumber: 3.9 Consensus size: 41
6972906 TTAATATATA
* * * * * *
6972916 TATTTATTATTACTTAGCTATTTATATATT-ATTATATATAT
1 TATTTATTTTTAATTATCTATTAATATTTTAATT-TATCTAT
* * *
6972957 GTATTTATTATTATTTATCTATGTATATATTATAATTTATCTAT
1 -TATTTATTTTTAATTATCTAT-TA-ATATTTTAATTTATCTAT
* *
6973001 TATTTATTTTTATTTATCTGTTAATATTTTAATTTATCTGAT
1 TATTTATTTTTAATTATCTATTAATATTTTAATTTATCT-AT
*
6973043 TATTT-TCTTTTAATTATCTATTAATATTTTTATTT
1 TATTTAT-TTTTAATTATCTATTAATATTTTAATTT
6973078 GATTTTTTTT
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 16 0.16
42 53 0.51
43 20 0.19
44 11 0.11
45 3 0.03
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (41 bp):
TATTTATTTTTAATTATCTATTAATATTTTAATTTATCTAT
Found at i:6973472 original size:31 final size:32
Alignment explanation
Indices: 6973428--6973489 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
6973418 TTTTTAGATT
6973428 TCGGTTGAATTTTTCGG-CAACGTTTGAATTTA
1 TCGGTTGAATTTTTCGGCCAA-GTTTGAATTTA
* *
6973460 TCGG-TGACTTTTTTGGCCAAGTTTGAATTT
1 TCGGTTGAATTTTTCGGCCAAGTTTGAATTT
6973490 TTCGACCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (32 bp):
TCGGTTGAATTTTTCGGCCAAGTTTGAATTTA
Found at i:6973995 original size:6 final size:6
Alignment explanation
Indices: 6973984--6974064 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
6973974 TTGTTTAATA
* * * *
6973984 TTTATT TTTATT TTTGTT ATTT-TAT TTT-TC TTTATT TTTATT CTCATT
1 TTTATT TTTATT TTTATT -TTTAT-T TTTATT TTTATT TTTATT TTTATT
6974032 TTTATT TTT-TAT TTTA-T TTTATTAT TTTATT TT
1 TTTATT TTTAT-T TTTATT TTTA-T-T TTTATT TT
6974065 CTTTAAATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
5 9 0.15
6 41 0.68
7 5 0.08
8 5 0.08
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:6974005 original size:15 final size:16
Alignment explanation
Indices: 6973985--6974025 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
6973975 TGTTTAATAT
6973985 TTATTTTTATTTTT-G
1 TTATTTTTATTTTTCG
*
6974000 TTA-TTTTATTTTTCT
1 TTATTTTTATTTTTCG
6974015 TTATTTTTATT
1 TTATTTTTATT
6974026 CTCATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 10 0.43
15 6 0.26
16 7 0.30
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (16 bp):
TTATTTTTATTTTTCG
Found at i:6974008 original size:5 final size:5
Alignment explanation
Indices: 6973984--6974064 Score: 57
Period size: 5 Copynumber: 16.6 Consensus size: 5
6973974 TTGTTTAATA
* *
6973984 TTTATT TTTAT TTT-T GTTAT TTTAT TTT-T CTTTATT TTTAT TCTCAT
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT -TTTA-T TTTAT T-TTAT
*
6974031 TTT-T ATT-T TTTAT TTTAT TTTA- -TTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
6974065 CTTTAAATAA
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
3 3 0.05
4 10 0.16
5 35 0.57
6 12 0.20
7 1 0.02
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:6974011 original size:13 final size:12
Alignment explanation
Indices: 6973984--6974064 Score: 58
Period size: 13 Copynumber: 6.1 Consensus size: 12
6973974 TTGTTTAATA
6973984 TTTATTTTTATTTT
1 TTTA-TTTTA-TTT
6973998 TGTTATTTTATTT
1 T-TTATTTTATTT
6974011 TTCT-TTATT-TTT
1 TT-TATT-TTATTT
6974023 ATTCTCATTTTTATTT
1 -TT-T-AT-TTTATTT
6974039 TTTATTTTATTT
1 TTTATTTTATTT
6974051 TATTATTTTATTT
1 T-TTATTTTATTT
6974064 T
1 T
6974065 CTTTAAATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 19
0.75 0.00 0.25
Matches are distributed among these distances:
12 14 0.24
13 25 0.43
14 7 0.12
15 8 0.14
16 4 0.07
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.79
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:6974154 original size:60 final size:58
Alignment explanation
Indices: 6974081--6974356 Score: 359
Period size: 60 Copynumber: 4.7 Consensus size: 58
6974071 ATAAAATTCA
*
6974081 AAAAAAAATATTTTTGACGAAAAGTTGAAAGTATCAATTTTCTTTGAGAATAAGCTTTCT
1 AAAAAAAATATTTTTGA-GAAAAGTTGAAAGTATCAATTTT-TTTGAAAATAAGCTTTCT
6974141 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
1 AAAAAAAATATTTTTGAG-AAAAGTTGAAAGTATCAATTTTT-TTGAAAATAAGCTTTCT
* *
6974201 AAAAAAAATATTTTTGGAAAAAAATTGAAAGTATCAATTTTCTTTGAAAATAAGCTTTC-
1 AAAAAAAATATTTTT-GAGAAAAGTTGAAAGTATCAATTTT-TTTGAAAATAAGCTTTCT
* * *
6974260 --CAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAG-TTTCT
1 AAAAAAAATATTTTT-GAGAAAAGTTGAAAGTATCAATTTTTTTGAAAA-T-AAGCTTTCT
6974318 --AAAAAATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTT
1 AAAAAAAATATTTTTGAG-AAAAGTTGAAAGTATCAATTTTT
6974357 CCTACACAAA
Statistics
Matches: 199, Mismatches: 9, Indels: 19
0.88 0.04 0.08
Matches are distributed among these distances:
56 9 0.05
57 68 0.34
58 10 0.05
59 2 0.01
60 107 0.54
61 3 0.02
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.37
Consensus pattern (58 bp):
AAAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTTTTTGAAAATAAGCTTTCT
Found at i:6974157 original size:30 final size:30
Alignment explanation
Indices: 6974123--6974216 Score: 86
Period size: 30 Copynumber: 3.1 Consensus size: 30
6974113 ATCAATTTTC
6974123 TTTGAGAATAAGCTTTCTAAAAAAAATATT
1 TTTGAGAATAAGCTTTCTAAAAAAAATATT
* * ** *
6974153 TTTGAGAAAAAG--TT-GAAAGTATCAATTTT
1 TTTGAGAATAAGCTTTCTAAA--AAAAATATT
*
6974182 TCTTGAAAATAAGCTTTCTAAAAAAAATATT
1 T-TTGAGAATAAGCTTTCTAAAAAAAATATT
6974213 TTTG
1 TTTG
6974217 GAAAAAAATT
Statistics
Matches: 47, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
27 3 0.06
28 2 0.04
29 7 0.15
30 23 0.49
31 7 0.15
32 2 0.04
33 3 0.06
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (30 bp):
TTTGAGAATAAGCTTTCTAAAAAAAATATT
Found at i:6977864 original size:3 final size:3
Alignment explanation
Indices: 6977856--6977881 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6977846 ACTTATTCAA
6977856 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
6977882 AATCGATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6978456 original size:21 final size:21
Alignment explanation
Indices: 6978409--6978462 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
6978399 ATCGAGTTTG
* * *
6978409 TATATTTT-ATTATATATTTT
1 TATATTTTAATTAAAAATTAT
6978429 TATTATTTTAATTAAAAATTAT
1 TA-TATTTTAATTAAAAATTAT
*
6978451 TATATTTCAATT
1 TATATTTTAATT
6978463 TGAGTTCGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.07
21 15 0.54
22 11 0.39
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATTTTAATTAAAAATTAT
Found at i:6982281 original size:28 final size:28
Alignment explanation
Indices: 6982241--6982297 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
6982231 AGGAAGAAAG
*
6982241 TGTATGCATAAGCTTCTTTTATATGTAT
1 TGTATACATAAGCTTCTTTTATATGTAT
6982269 TGTATACATAAGCTTCTTTTATATGTAT
1 TGTATACATAAGCTTCTTTTATATGTAT
6982297 T
1 T
6982298 CTGAGAAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.12, T:0.51
Consensus pattern (28 bp):
TGTATACATAAGCTTCTTTTATATGTAT
Found at i:6982755 original size:13 final size:14
Alignment explanation
Indices: 6982729--6982757 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6982719 TATATTTATA
6982729 TAATTATAATATTT
1 TAATTATAATATTT
6982743 TAATTAT-ATATTT
1 TAATTATAATATTT
6982756 TA
1 TA
6982758 TTCGATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:6988033 original size:10 final size:10
Alignment explanation
Indices: 6988020--6988044 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6988010 TGTTACTCTA
6988020 TGTGTGCGAC
1 TGTGTGCGAC
6988030 TGTGTGCGAC
1 TGTGTGCGAC
6988040 TGTGT
1 TGTGT
6988045 ATGTGTGCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.16, G:0.40, T:0.36
Consensus pattern (10 bp):
TGTGTGCGAC
Found at i:6990455 original size:131 final size:131
Alignment explanation
Indices: 6990307--6990568 Score: 524
Period size: 131 Copynumber: 2.0 Consensus size: 131
6990297 GTATATATTT
6990307 AATATTACTTAAATCAATAAATGCTTAAAAATTATTAGAAGTATTTTATATCAAATAATATTTTT
1 AATATTACTTAAATCAATAAATGCTTAAAAATTATTAGAAGTATTTTATATCAAATAATATTTTT
6990372 GTTATTAAATATTTGAAAATTATTTTTATGTATATGATAATGTTATTTAACATTTAAAATCTTAA
66 GTTATTAAATATTTGAAAATTATTTTTATGTATATGATAATGTTATTTAACATTTAAAATCTTAA
6990437 A
131 A
6990438 AATATTACTTAAATCAATAAATGCTTAAAAATTATTAGAAGTATTTTATATCAAATAATATTTTT
1 AATATTACTTAAATCAATAAATGCTTAAAAATTATTAGAAGTATTTTATATCAAATAATATTTTT
6990503 GTTATTAAATATTTGAAAATTATTTTTATGTATATGATAATGTTATTTAACATTTAAAATCTTAA
66 GTTATTAAATATTTGAAAATTATTTTTATGTATATGATAATGTTATTTAACATTTAAAATCTTAA
6990568 A
131 A
6990569 GGTTTTTTTT
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 131 1.00
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.46
Consensus pattern (131 bp):
AATATTACTTAAATCAATAAATGCTTAAAAATTATTAGAAGTATTTTATATCAAATAATATTTTT
GTTATTAAATATTTGAAAATTATTTTTATGTATATGATAATGTTATTTAACATTTAAAATCTTAA
A
Found at i:6991978 original size:3 final size:3
Alignment explanation
Indices: 6991972--6991998 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6991962 ATAATAAGAT
6991972 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
6991999 CAAACGTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6993607 original size:6 final size:6
Alignment explanation
Indices: 6993587--6993645 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
6993577 TTAGAGCTTC
* * *
6993587 TTTT-T TTTT-T TTTTCT TTTTCT TTCTCAT TTTCCT TATTCTT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT TTTTC-T TTTTCT
6993635 TTTCTCT TTTT
1 TTT-TCT TTTT
6993646 TCTCTCTGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
5 9 0.20
6 20 0.45
7 15 0.34
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:7002793 original size:45 final size:45
Alignment explanation
Indices: 7002729--7002814 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
7002719 GTTTGGAGAT
*
7002729 AGAGATCAGAAACTTGTCTATGTGCAGCCAAAACAAATGCCTTCG
1 AGAGATCAGAAACCTGTCTATGTGCAGCCAAAACAAATGCCTTCG
7002774 AGAGATCAGAAACCTGTCTATGTGCAGCCAAAACAAATGCC
1 AGAGATCAGAAACCTGTCTATGTGCAGCCAAAACAAATGCC
7002815 ATTGACTTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (45 bp):
AGAGATCAGAAACCTGTCTATGTGCAGCCAAAACAAATGCCTTCG
Found at i:7003161 original size:14 final size:15
Alignment explanation
Indices: 7003142--7003170 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7003132 AATCACATCT
7003142 TTTTCAT-TTTTTTC
1 TTTTCATATTTTTTC
7003156 TTTTCATATTTTTTC
1 TTTTCATATTTTTTC
7003171 AATTTGAAAT
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:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCATATTTTTTC
Found at i:7006620 original size:3 final size:3
Alignment explanation
Indices: 7006612--7006676 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
7006602 TTTATGCAAA
*
7006612 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
7006660 ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG AT
7006677 AATAATAATA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:7006681 original size:3 final size:3
Alignment explanation
Indices: 7006675--7006738 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
7006665 GATGATGATG
7006675 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7006723 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
7006739 CAACAACAAC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7006743 original size:3 final size:3
Alignment explanation
Indices: 7006737--7006774 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
7006727 TAATAATAAT
7006737 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
7006775 TAATGATGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:7007448 original size:23 final size:24
Alignment explanation
Indices: 7007413--7007464 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
7007403 ATAATGTAAT
*
7007413 AAAAATATAATAAA-ATAAAATTAA
1 AAAAAGATAATAAATATAAAA-TAA
*
7007437 AAAAAGAT-ATAAATATTAAATAA
1 AAAAAGATAATAAATATAAAATAA
7007460 AAAAA
1 AAAAA
7007465 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (24 bp):
AAAAAGATAATAAATATAAAATAA
Found at i:7007449 original size:34 final size:33
Alignment explanation
Indices: 7007411--7007474 Score: 76
Period size: 34 Copynumber: 1.9 Consensus size: 33
7007401 ATATAATGTA
7007411 ATAAAAA-TATAATAAAATAAAATTAAAAAAAGAT
1 ATAAAAATTA-AATAAAA-AAAATTAAAAAAAGAT
* * *
7007445 ATAAATATTAAATAAAAAAATTTTAAAAAA
1 ATAAAAATTAAATAAAAAAAATTAAAAAAA
7007475 TTTCATATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
33 11 0.42
34 13 0.50
35 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (33 bp):
ATAAAAATTAAATAAAAAAAATTAAAAAAAGAT
Found at i:7013432 original size:13 final size:13
Alignment explanation
Indices: 7013411--7013452 Score: 66
Period size: 13 Copynumber: 3.1 Consensus size: 13
7013401 CAAAAAAATT
7013411 TTTTAAAAATAAAA
1 TTTTAAAAA-AAAA
7013425 TTTTAAAAAAAAA
1 TTTTAAAAAAAAA
7013438 TTTTAAAAAAGAAA
1 TTTTAAAAAA-AAA
7013452 T
1 T
7013453 ATAAGGTACC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 14 0.52
14 13 0.48
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
TTTTAAAAAAAAA
Found at i:7013628 original size:8 final size:8
Alignment explanation
Indices: 7013613--7013680 Score: 52
Period size: 8 Copynumber: 8.6 Consensus size: 8
7013603 TAATTTTTTA
7013613 ATAT-AAT
1 ATATAAAT
7013620 ATATAAAT
1 ATATAAAT
7013628 ATA-AAATT
1 ATATAAA-T
*
7013636 AAATAAAT
1 ATATAAAT
*
7013644 AATTTAAA-
1 -ATATAAAT
*
7013652 ATATAATT
1 ATATAAAT
*
7013660 ATATACAT
1 ATATAAAT
*
7013668 ATATATAT
1 ATATAAAT
7013676 ATATA
1 ATATA
7013681 TATACTCAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
7 12 0.25
8 28 0.58
9 8 0.17
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATAAAT
Found at i:7013636 original size:39 final size:40
Alignment explanation
Indices: 7013593--7013670 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 40
7013583 TCAATTAATG
**
7013593 AATTAAAT-AATAATTTTTTAATATAA-TATATAAATATAA
1 AATTAAATAAATAA-TTTAAAATATAATTATATAAATATAA
*
7013632 AATTAAATAAATAATTTAAAATATAATTATATACATATA
1 AATTAAATAAATAATTTAAAATATAATTATATAAATATA
7013671 TATATATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 18 0.53
40 16 0.47
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (40 bp):
AATTAAATAAATAATTTAAAATATAATTATATAAATATAA
Found at i:7017498 original size:2 final size:2
Alignment explanation
Indices: 7017491--7017524 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
7017481 TTAGATTTAG
*
7017491 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7017525 CCATATCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7019247 original size:17 final size:17
Alignment explanation
Indices: 7019225--7019267 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
7019215 TTTTTAATGC
7019225 AATTTTATTATA-GATCT
1 AATTTT-TTATATGATCT
*
7019242 AATTTTTTATATGATTT
1 AATTTTTTATATGATCT
*
7019259 AATTATTTA
1 AATTTTTTA
7019268 ATTTAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (17 bp):
AATTTTTTATATGATCT
Found at i:7019644 original size:71 final size:71
Alignment explanation
Indices: 7019526--7019667 Score: 239
Period size: 71 Copynumber: 2.0 Consensus size: 71
7019516 GTTTTCTTTG
* *
7019526 ATAATGACATTATTTTTATCTATCCAAGAAAGCAAGGATAGAACCTGCTGCAAAGATGCTTACGA
1 ATAATGACATTATTTTTATCTATCCAAGAAAGCAAGGATAGAACCTGCTACAAAGATGCTTACAA
7019591 CACTAA
66 CACTAA
* * *
7019597 ATAATGACATTATTTTTATTTATCCAAGACAGCAAGGATAGAGCCTGCTACAAAGATGCTTACAA
1 ATAATGACATTATTTTTATCTATCCAAGAAAGCAAGGATAGAACCTGCTACAAAGATGCTTACAA
7019662 CACTAA
66 CACTAA
7019668 CAAAATTATA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (71 bp):
ATAATGACATTATTTTTATCTATCCAAGAAAGCAAGGATAGAACCTGCTACAAAGATGCTTACAA
CACTAA
Found at i:7020227 original size:20 final size:20
Alignment explanation
Indices: 7020202--7020240 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
7020192 TTTATTTTAA
7020202 GGTTCATTTATATTTATTTG
1 GGTTCATTTATATTTATTTG
7020222 GGTTCATTTATATTTATTT
1 GGTTCATTTATATTTATTT
7020241 AAAGTTCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.13, T:0.62
Consensus pattern (20 bp):
GGTTCATTTATATTTATTTG
Found at i:7024472 original size:2 final size:2
Alignment explanation
Indices: 7024467--7024499 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7024457 ATATATATAT
7024467 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7024500 TAAGAAGTTT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7031667 original size:29 final size:30
Alignment explanation
Indices: 7031627--7031690 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
7031617 TTGAGTTAAT
* *
7031627 GTTGAATTTTATAACTGTA-TTTCAATTTC
1 GTTGAAATTTATAACTGTACGTTCAATTTC
* *
7031656 GTTGAAATTTATTATTGTACGTTCAATTTC
1 GTTGAAATTTATAACTGTACGTTCAATTTC
*
7031686 ATTGA
1 GTTGA
7031691 TTTAAATCCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.50
Consensus pattern (30 bp):
GTTGAAATTTATAACTGTACGTTCAATTTC
Found at i:7045011 original size:26 final size:26
Alignment explanation
Indices: 7044978--7045032 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
7044968 ACCAAATAAA
*
7044978 AAAAAGGATAACATAAGCAAACAACC
1 AAAAAGGACAACATAAGCAAACAACC
* * *
7045004 AAAAAGGACAGCATAGGCAAACAATC
1 AAAAAGGACAACATAAGCAAACAACC
7045030 AAA
1 AAA
7045033 TAGTAAAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.60, C:0.18, G:0.15, T:0.07
Consensus pattern (26 bp):
AAAAAGGACAACATAAGCAAACAACC
Found at i:7047713 original size:42 final size:42
Alignment explanation
Indices: 7047666--7047746 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
7047656 AACTTTTAAT
* *
7047666 TTATTAAGTTCTTCATAGCAATAAGTAAATTTATTTTATCAG
1 TTATTAAGTTCTTCATAGCAATAAGTAAAATCATTTTATCAG
*
7047708 TTATTAAGTTCTTCATAGCAATAGGTAAAATCATTTTAT
1 TTATTAAGTTCTTCATAGCAATAAGTAAAATCATTTTAT
7047747 TTGTAGTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (42 bp):
TTATTAAGTTCTTCATAGCAATAAGTAAAATCATTTTATCAG
Found at i:7052551 original size:27 final size:27
Alignment explanation
Indices: 7052521--7052582 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
7052511 TGTAACATAA
7052521 ATTGATTATAGCTAAATATAATCAATC
1 ATTGATTATAGCTAAATATAATCAATC
7052548 ATTGATTATAGCTAAATATAATCAATC
1 ATTGATTATAGCTAAATATAATCAATC
7052575 ATTGATTA
1 ATTGATTA
7052583 CAGAATGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.39
Consensus pattern (27 bp):
ATTGATTATAGCTAAATATAATCAATC
Found at i:7056514 original size:16 final size:17
Alignment explanation
Indices: 7056477--7056515 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
7056467 GATATGGTAT
* *
7056477 AAAACAAAAATGAAGTG
1 AAAAAAAAAATAAAGTG
7056494 AAAAAAAAAATAAAGTG
1 AAAAAAAAAATAAAGTG
7056511 AAAAA
1 AAAAA
7056516 TCTATAGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (17 bp):
AAAAAAAAAATAAAGTG
Found at i:7063809 original size:22 final size:22
Alignment explanation
Indices: 7063770--7063811 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7063760 TTTTAAAATA
*
7063770 TTATTTATTTATTTTATTTTGT
1 TTATTTATTTATTGTATTTTGT
7063792 TTATTTATTT-TTAGTATTTT
1 TTATTTATTTATT-GTATTTT
7063812 TTTCACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (22 bp):
TTATTTATTTATTGTATTTTGT
Found at i:7073973 original size:23 final size:22
Alignment explanation
Indices: 7073946--7073998 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
7073936 CTTTGAAAAT
*
7073946 TTAAAATTTTTTGCCTGAAGGTC
1 TTAAAA-TTTATGCCTGAAGGTC
*
7073969 TTAAAGA-TTATGCTTGAAGGTC
1 TTAAA-ATTTATGCCTGAAGGTC
7073991 TTACAAAT
1 TTA-AAAT
7073999 CTCAACATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 17 0.68
23 7 0.28
24 1 0.04
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (22 bp):
TTAAAATTTATGCCTGAAGGTC
Found at i:7074072 original size:104 final size:104
Alignment explanation
Indices: 7073882--7074107 Score: 325
Period size: 104 Copynumber: 2.2 Consensus size: 104
7073872 TTTTGACCAG
*
7073882 AAGTCTTACAAATCTCAACACCTTTGAATGCTCATCGTATTAAAGGCATTGAAACTTTGAAAATT
1 AAGTCTTACAAATCTCAACACCTTTGAATGCTCATCGTATCAAAGGCATTGAAACTTTGAAAATT
* *
7073947 TAAAATTTTTTGCCTGAAGGTCTT-AAAGATTATGCTTGA
66 TAAAATGTTTTGCCTGAAGGTCTTGAAA-ATTATGCCTGA
* *
7073986 AGGTCTTACAAATCTCAACATCTTTGAATGCTCATCGTATCAGAA-GCATTGAAACTTT-AAAAT
1 AAGTCTTACAAATCTCAACACCTTTGAATGCTCATCGTATCA-AAGGCATTGAAACTTTGAAAA-
* *
7074049 TTTAAAATGTTTTGCTTGGAGGTCTTGAAAATTATGCCTGA
64 TTTAAAATGTTTTGCCTGAAGGTCTTGAAAATTATGCCTGA
7074090 AAGTCTTA-AAGATCTCAA
1 AAGTCTTACAA-ATCTCAA
7074108 TGCCAGCTTG
Statistics
Matches: 110, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
103 6 0.05
104 99 0.90
105 5 0.05
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (104 bp):
AAGTCTTACAAATCTCAACACCTTTGAATGCTCATCGTATCAAAGGCATTGAAACTTTGAAAATT
TAAAATGTTTTGCCTGAAGGTCTTGAAAATTATGCCTGA
Found at i:7074582 original size:26 final size:26
Alignment explanation
Indices: 7074546--7074608 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
7074536 TGCAGATACC
* **
7074546 ATGATGCAAATGCAAATATCTTTTTT
1 ATGATGTAAATGCAAATATCTTGGTT
*
7074572 ATGATGTAAATGCGAATATCTTGGTT
1 ATGATGTAAATGCAAATATCTTGGTT
*
7074598 ATGATATAAAT
1 ATGATGTAAAT
7074609 TATGTAAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.40
Consensus pattern (26 bp):
ATGATGTAAATGCAAATATCTTGGTT
Found at i:7075920 original size:62 final size:62
Alignment explanation
Indices: 7075839--7075957 Score: 193
Period size: 62 Copynumber: 1.9 Consensus size: 62
7075829 TTATTCAAGG
*
7075839 TAATTAAGCTACAAATCATATGAAACACTCTCTGGATGAAAAGTCTTATGTCTTTCTTTTTC
1 TAATTAAGCTACAAATCATATGAAACACTCTCTAGATGAAAAGTCTTATGTCTTTCTTTTTC
* ** *
7075901 TAATTAGGCTACGGATCATATGAAACATTCTCTAGATGAAAAGTCTTATGTCTTTCT
1 TAATTAAGCTACAAATCATATGAAACACTCTCTAGATGAAAAGTCTTATGTCTTTCT
7075958 CTCTTTACTC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (62 bp):
TAATTAAGCTACAAATCATATGAAACACTCTCTAGATGAAAAGTCTTATGTCTTTCTTTTTC
Found at i:7076119 original size:15 final size:15
Alignment explanation
Indices: 7076101--7076155 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
7076091 TTCTTTGCTA
7076101 TTTTTTTTTTTTTTC
1 TTTTTTTTTTTTTTC
7076116 TTTTTTTCTTTGCTATTTC
1 TTTTTTT-TTT--T-TTTC
**
7076135 TTTTTTTTTCCTTTC
1 TTTTTTTTTTTTTTC
7076150 TTTTTT
1 TTTTTT
7076156 AAATTTGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
15 17 0.50
16 3 0.09
18 3 0.09
19 11 0.32
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTTTTTTC
Found at i:7076139 original size:31 final size:31
Alignment explanation
Indices: 7076083--7076153 Score: 117
Period size: 30 Copynumber: 2.3 Consensus size: 31
7076073 GAGATGCATG
7076083 TCTTTCTTTTCTTTGCTATTTTTTTTTTTTT
1 TCTTTCTTTTCTTTGCTATTTTTTTTTTTTT
*
7076114 TCTTT-TTTTCTTTGCTATTTCTTTTTTTTT
1 TCTTTCTTTTCTTTGCTATTTTTTTTTTTTT
*
7076144 CCTTTCTTTT
1 TCTTTCTTTT
7076154 TTAAATTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 28 0.76
31 9 0.24
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (31 bp):
TCTTTCTTTTCTTTGCTATTTTTTTTTTTTT
Found at i:7078154 original size:72 final size:72
Alignment explanation
Indices: 7078037--7078179 Score: 286
Period size: 72 Copynumber: 2.0 Consensus size: 72
7078027 TAGGTAAAAG
7078037 CCTTTTAAATGTGATTGCTTGCACCTTTCCTTCATTCTTTTTTAATATGTTTTCCTTTTTAACAT
1 CCTTTTAAATGTGATTGCTTGCACCTTTCCTTCATTCTTTTTTAATATGTTTTCCTTTTTAACAT
7078102 TAGTTGA
66 TAGTTGA
7078109 CCTTTTAAATGTGATTGCTTGCACCTTTCCTTCATTCTTTTTTAATATGTTTTCCTTTTTAACAT
1 CCTTTTAAATGTGATTGCTTGCACCTTTCCTTCATTCTTTTTTAATATGTTTTCCTTTTTAACAT
7078174 TAGTTG
66 TAGTTG
7078180 CATTTATCAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.19, C:0.18, G:0.10, T:0.53
Consensus pattern (72 bp):
CCTTTTAAATGTGATTGCTTGCACCTTTCCTTCATTCTTTTTTAATATGTTTTCCTTTTTAACAT
TAGTTGA
Found at i:7081399 original size:35 final size:35
Alignment explanation
Indices: 7081360--7081500 Score: 108
Period size: 35 Copynumber: 4.0 Consensus size: 35
7081350 GTATGGGATA
7081360 CATGTGCATAAAATGGAATGCATGTACTATCTATT
1 CATGTGCATAAAATGGAATGCATGTACTATCTATT
* ** *
7081395 CATGTGGAT-GGATGGAATGCATGTATTATCTTATTAT
1 CATGTGCATAAAATGGAATGCATGTACTATC-TA-T-T
* * *
7081432 GATGTGCATTAGATAGG-ATGCATGTACTATCTATT
1 CATGTGCATAAAAT-GGAATGCATGTACTATCTATT
* * ** *
7081467 -AGGATGCCTAAAATATAATGCACGTACTATCTAT
1 CATG-TGCATAAAATGGAATGCATGTACTATCTAT
7081501 AAGGATGCAT
Statistics
Matches: 84, Mismatches: 15, Indels: 14
0.74 0.13 0.12
Matches are distributed among these distances:
34 20 0.24
35 34 0.40
36 2 0.02
37 10 0.12
38 16 0.19
39 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (35 bp):
CATGTGCATAAAATGGAATGCATGTACTATCTATT
Found at i:7081411 original size:34 final size:37
Alignment explanation
Indices: 7081361--7081472 Score: 117
Period size: 34 Copynumber: 3.1 Consensus size: 37
7081351 TATGGGATAC
* *
7081361 ATGTGCATAAAATGGAATGCATGTACTATCTATTCATG
1 ATGTGCATTAGATGGAATGCATGTACTATCTATT-ATG
* *
7081399 -TG-G-A-TGGATGGAATGCATGTATTATCTTATTATG
1 ATGTGCATTAGATGGAATGCATGTACTATC-TATTATG
*
7081433 ATGTGCATTAGATAGG-ATGCATGTACTATCTATTAGG
1 ATGTGCATTAGAT-GGAATGCATGTACTATCTATTATG
7081470 ATG
1 ATG
7081473 CCTAAAATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
34 21 0.34
35 7 0.11
36 2 0.03
37 12 0.20
38 17 0.28
39 2 0.03
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (37 bp):
ATGTGCATTAGATGGAATGCATGTACTATCTATTATG
Found at i:7085385 original size:14 final size:14
Alignment explanation
Indices: 7085341--7085389 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
7085331 TTAATCTAAT
*
7085341 AAATAAAAAAGATAA
1 AAATAAAACA-ATAA
7085356 AAATAATAAC-AT--
1 AAATAA-AACAATAA
7085368 AAATAAAACAATAA
1 AAATAAAACAATAA
7085382 AAATAAAA
1 AAATAAAA
7085390 TTGGGCTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
11 3 0.10
12 8 0.28
14 10 0.34
15 6 0.21
16 2 0.07
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (14 bp):
AAATAAAACAATAA
Found at i:7086583 original size:20 final size:22
Alignment explanation
Indices: 7086560--7086612 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
7086550 AGAATAAGCC
*
7086560 AAAAGAAAAAAGAGAAA-C-AT
1 AAAAGAAAAAAAAGAAACCAAT
7086580 AAAA-AAATAAAAAGAAACCAAT
1 AAAAGAAA-AAAAAGAAACCAAT
*
7086602 TAAAGAAAAAA
1 AAAAGAAAAAA
7086613 CATGATACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 3 0.11
20 12 0.44
21 1 0.04
22 8 0.30
23 3 0.11
ACGTcount: A:0.77, C:0.06, G:0.09, T:0.08
Consensus pattern (22 bp):
AAAAGAAAAAAAAGAAACCAAT
Found at i:7089731 original size:10 final size:11
Alignment explanation
Indices: 7089696--7089758 Score: 58
Period size: 11 Copynumber: 5.7 Consensus size: 11
7089686 TAAAACAAGT
*
7089696 AAAATGAAATAG
1 AAAAT-AAATAA
7089708 AAAATAAATAA
1 AAAATAAATAA
*
7089719 AAAATATAT-A
1 AAAATAAATAA
7089729 AAAATAAAATAA
1 AAAAT-AAATAA
* *
7089741 ATAA-AAATGA
1 AAAATAAATAA
7089751 AAAATAAA
1 AAAATAAA
7089759 ATGAAAAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
10 14 0.33
11 19 0.45
12 9 0.21
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:7089733 original size:17 final size:16
Alignment explanation
Indices: 7089709--7089758 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
7089699 ATGAAATAGA
*
7089709 AAATAAATA-AAAAAT
1 AAATAAAAATAAAAAT
*
7089724 ATATAAAAAT-AAAAT
1 AAATAAAAATAAAAAT
7089739 AAATAAAAATGAAAAAT
1 AAATAAAAAT-AAAAAT
7089756 AAA
1 AAA
7089759 ATGAAAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 21 0.72
17 8 0.28
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:7089738 original size:22 final size:21
Alignment explanation
Indices: 7089703--7089767 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 21
7089693 AGTAAAATGA
7089703 AATAGAAAAT-AAATAAAAAAT
1 AATA-AAAATAAAATAAAAAAT
7089724 ATATAAAAATAAAATAAATAAA-
1 A-ATAAAAATAAAATAAA-AAAT
7089746 AATGAAAAATAAAATGAAAAAA
1 AAT-AAAAATAAAAT-AAAAAA
7089768 GACAAAGGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
21 8 0.21
22 25 0.64
23 6 0.15
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (21 bp):
AATAAAAATAAAATAAAAAAT
Found at i:7089757 original size:13 final size:12
Alignment explanation
Indices: 7089708--7089766 Score: 56
Period size: 11 Copynumber: 5.3 Consensus size: 12
7089698 AATGAAATAG
*
7089708 AAAAT-AAATAA
1 AAAATAAAATGA
*
7089719 AAAAT-ATAT-A
1 AAAATAAAATGA
7089729 AAAATAAAAT-A
1 AAAATAAAATGA
*
7089740 AATA-AAAATGA
1 AAAATAAAATGA
7089751 AAAATAAAATGA
1 AAAATAAAATGA
7089763 AAAA
1 AAAA
7089767 AGACAAAGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
10 11 0.27
11 19 0.46
12 11 0.27
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (12 bp):
AAAATAAAATGA
Found at i:7091154 original size:194 final size:194
Alignment explanation
Indices: 7090816--7091297 Score: 476
Period size: 194 Copynumber: 2.5 Consensus size: 194
7090806 ATCGCAGGTT
* * * * **
7090816 AGAAAAATAAAATGATATGGACTAAG-TCGATATCAAAATAGATAATCAAGATTGAA-CTACGAG
1 AGAAAAATAAAATGATATGGACTGAGCT-GAGATCAAAATAGGTGATCGGGATTGAACCT--GAG
* * *
7090879 TCAAAAAAATTAAATAATCTGGACTAAGCCAAGATAAAAAACATGTGACCAGAATCAAATCGCAA
63 TCAAAAAAATAAAATAATCTGGACTGAGCCAAGATAAAAAACAGGTGACCAGAATCAAATCGCAA
* * * * *
7090944 GTCAAAAAATAAAATGATCTGGACTAAGCTTAAATCAAAATAGGTGATC--GAGATCGAACCATG
128 GTCAAAAAATAAAATGATCTAGACTAAGCTGAAATCAAAACAGGTGACCAGGA-AT-GAACCACG
7091007 -GTC
191 AGTC
* *
7091010 AGAAAAATAAAATGATCTGGATTGAGCTGAGATCAAAATAGGTGATCGGGATTGAACCCTGAGTC
1 AGAAAAATAAAATGATATGGACTGAGCTGAGATCAAAATAGGTGATCGGGATTGAA-CCTGAGTC
** * * * * * * **
7091075 AGGAAAATAAAATGATCTGGACTGAGCCAAGAT-CAGAATAGGTGATCAGGATCAAATCGTGAGT
65 AAAAAAATAAAATAATCTGGACTGAGCCAAGATAAAAAACAGGTGACCAGAATCAAATCGCAAGT
* * * **
7091139 CAAAAAATGAAAATGATCTAGACTGAGGTGAGATCAAAACAGGTGACCAGGAATGAACTGCGAGT
130 CAAAAAAT-AAAATGATCTAGACTAAGCTGAAATCAAAACAGGTGACCAGGAATGAACCACGAGT
7091204 C
194 C
* * ** * *
7091205 AAAAAAATAAAATGATTTGGACTGAGCCAAGATCGAAAATAAGTGACCAGGG-TTGAA-CTGCAG
1 AGAAAAATAAAATGATATGGACTGAGCTGAGATC-AAAATAGGTGATC-GGGATTGAACCTG-A-
7091268 GTCAAAAAAATAAAATAATCTGGACTGAGC
62 GTCAAAAAAATAAAATAATCTGGACTGAGC
7091298 TGAGATCGAA
Statistics
Matches: 236, Mismatches: 41, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
193 31 0.13
194 119 0.50
195 36 0.15
196 47 0.20
197 3 0.01
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.20
Consensus pattern (194 bp):
AGAAAAATAAAATGATATGGACTGAGCTGAGATCAAAATAGGTGATCGGGATTGAACCTGAGTCA
AAAAAATAAAATAATCTGGACTGAGCCAAGATAAAAAACAGGTGACCAGAATCAAATCGCAAGTC
AAAAAATAAAATGATCTAGACTAAGCTGAAATCAAAACAGGTGACCAGGAATGAACCACGAGTC
Found at i:7091329 original size:65 final size:65
Alignment explanation
Indices: 7090809--7091353 Score: 380
Period size: 65 Copynumber: 8.4 Consensus size: 65
7090799 AGATTGCATC
* * * * * * * * *
7090809 GCAGGTTAGAAAAATAAAATGATATGGACTAAG-TCGATATCAAAATAGATAATCAAGATTGAAC
1 GCAGGTCAAAAAAATAAAATGATCTGGACTGAGCT-AAGATCAAAATAGGTGACCAAGATTGAAC
7090873 T
65 T
* * * * * * * * * *
7090874 AC-GAGTCAAAAAAATTAAATAATCTGGACTAAGCCAAGATAAAAAACATGTGACC-AGAATCAA
1 GCAG-GTCAAAAAAATAAAATGATCTGGACTGAGCTAAGAT-CAAAATAGGTGACCAAGATTGAA
*
7090937 AT
64 CT
* * * * *
7090939 CGCAAGTC-AAAAAATAAAATGATCTGGACTAAGCTTAA-ATCAAAATAGGTGATCGAGATCGAA
1 -GCAGGTCAAAAAAATAAAATGATCTGGACTGAGC-TAAGATCAAAATAGGTGACCAAGATTGAA
7091002 C-
64 CT
* * * * **
7091003 -CATGGTCAGAAAAATAAAATGATCTGGATTGAGCTGAGATCAAAATAGGTGATCGGGATTGAAC
1 GCA-GGTCAAAAAAATAAAATGATCTGGACTGAGCTAAGATCAAAATAGGTGACCAAGATTGAA-
7091067 CCT
64 -CT
** * * * * **
7091070 G-A-GTCAGGAAAATAAAATGATCTGGACTGAGCCAAGATCAGAATAGGTGATCAGGATCAAATC
1 GCAGGTCAAAAAAATAAAATGATCTGGACTGAGCTAAGATCAAAATAGGTGACCAAGATTGAA-C
7091133 GT
65 -T
* * * * * *
7091135 G-A-GTC-AAAAAATGAAAATGATCTAGACTGAGGTGAGATCAAAACAGGTGACCAGGAATGAAC
1 GCAGGTCAAAAAAAT-AAAATGATCTGGACTGAGCTAAGATCAAAATAGGTGACCAAGATTGAAC
7091197 T
65 T
* * * * *
7091198 GC-GAGTCAAAAAAATAAAATGATTTGGACTGAGCCAAGATCGAAAATAAGTGACCAGGGTTGAA
1 GCAG-GTCAAAAAAATAAAATGATCTGGACTGAGCTAAGATC-AAAATAGGTGACCAAGATTGAA
7091262 CT
64 CT
* * *
7091264 GCAGGTCAAAAAAATAAAATAATCTGGACTGAGCTGAGATCGAAAT-GAGTGACCAAGATTGAAC
1 GCAGGTCAAAAAAATAAAATGATCTGGACTGAGCTAAGATCAAAATAG-GTGACCAAGATTGAAC
7091328 T
65 T
*
7091329 GCAGGTCTAAAAAATAAAATGATCT
1 GCAGGTCAAAAAAATAAAATGATCT
7091354 AGACCAAACC
Statistics
Matches: 379, Mismatches: 78, Indels: 46
0.75 0.16 0.09
Matches are distributed among these distances:
62 2 0.01
63 7 0.02
64 64 0.17
65 227 0.60
66 77 0.20
67 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (65 bp):
GCAGGTCAAAAAAATAAAATGATCTGGACTGAGCTAAGATCAAAATAGGTGACCAAGATTGAACT
Found at i:7091374 original size:65 final size:66
Alignment explanation
Indices: 7091140--7091472 Score: 275
Period size: 66 Copynumber: 5.1 Consensus size: 66
7091130 ATCGTGAGTC
* *** * * *
7091140 AAAAAATGAAAATGATCTAGACTGAGGTGAGATCAAAACAG-GTGACCAGGAATGAACTGC-GAG
1 AAAAAAT-AAAATGATCTAGACCGAGCCAAGATGAAAACTGAGTGACCAGGATTGAACTGCAG-G
7091203 TCA
64 TCA
* * * * *
7091206 AAAAAATAAAATGATTTGGACTGAGCCAAGATCGAAAA-TAAGTGACCAGGGTTGAACTGCAGGT
1 AAAAAATAAAATGATCTAGACCGAGCCAAGAT-GAAAACTGAGTGACCAGGATTGAACTGCAGGT
7091270 CA
65 CA
* * * ** *
7091272 AAAAAATAAAATAATCTGGACTGAGCTGAGATCG-AAA-TGAGTGACCAAGATTGAACTGCAGGT
1 AAAAAATAAAATGATCTAGACCGAGCCAAGAT-GAAAACTGAGTGACCAGGATTGAACTGCAGGT
*
7091335 CT
65 CA
* * * * * *
7091337 AAAAAATAAAATGATCTAGACCAAACCAAGATGGAAATTGAGTGAACAGGATTGAATTGCAGG-C
1 AAAAAATAAAATGATCTAGACCGAGCCAAGATGAAAACTGAGTGACCAGGATTGAACTGCAGGTC
*
7091401 TT
66 -A
* * * * * * *
7091403 GAATAATAAAATGATTTAGACCGAGCCTAGAT-AAAACTGAGTGATCAGGATTGAACCGTAGGTC
1 AAAAAATAAAATGATCTAGACCGAGCCAAGATGAAAACTGAGTGACCAGGATTGAACTGCAGGTC
7091467 A
66 A
7091468 AAAAA
1 AAAAA
7091473 TTTAAAAGTT
Statistics
Matches: 217, Mismatches: 43, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
64 1 0.00
65 103 0.47
66 112 0.52
67 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (66 bp):
AAAAAATAAAATGATCTAGACCGAGCCAAGATGAAAACTGAGTGACCAGGATTGAACTGCAGGTC
A
Found at i:7091414 original size:131 final size:131
Alignment explanation
Indices: 7090865--7091399 Score: 335
Period size: 131 Copynumber: 4.1 Consensus size: 131
7090855 AGATAATCAA
* * * * ** * *
7090865 GATTGAACTAC-GAGTCAAAAAAATTAAATAATCTGGACTAAGCCAAGATAAAAAACATGTGACC
1 GATTGAACTGCAG-GTCAAAAAAATAAAATAATCTAGACTGAGCTGAGAT-CAAAACAGGTGACC
* * * * * * * *
7090929 -AGAATCAAATCGCAAGTC-AAAAAATAAAATGATCTGGACTAAGCTTAA-ATC-AAAATAGGTG
64 AAGAATGAACT-GCGAGTCAAAAAAATAAAATGATCTAGACCAAAC-CAAGATCGAAAATAAGTG
*
7090990 ATC-G
127 AACAG
* * * * * * *
7090994 AGATCGAAC--CATGGTCAGAAAAATAAAATGATCTGGATTGAGCTGAGATCAAAATAGGTGATC
1 -GATTGAACTGCA-GGTCAAAAAAATAAAATAATCTAGACTGAGCTGAGATCAAAACAGGTGACC
** * * ** * ** * * *
7091057 GGGATTGAAC-CCTGAGTCAGGAAAATAAAATGATCTGGACTGAGCCAAGATC-AGAATAGGTGA
64 AAGAATGAACTGC-GAGTCAAAAAAATAAAATGATCTAGACCAAACCAAGATCGAAAATAAGTGA
*
7091120 TCAG
128 ACAG
** * *
7091124 GATCAAATCGTG-A-GTC-AAAAAATGAAAATGATCTAGACTGAGGTGAGATCAAAACAGGTGAC
1 GATTGAA-C-TGCAGGTCAAAAAAAT-AAAATAATCTAGACTGAGCTGAGATCAAAACAGGTGAC
* * * ** *
7091186 CAGGAATGAACTGCGAGTCAAAAAAATAAAATGATTTGGACTGAGCCAAGATCGAAAATAAGTGA
63 CAAGAATGAACTGCGAGTCAAAAAAATAAAATGATCTAGACCAAACCAAGATCGAAAATAAGTGA
*
7091251 CCAG
128 ACAG
* * * *
7091255 GGTTGAACTGCAGGTCAAAAAAATAAAATAATCTGGACTGAGCTGAGATCGAAA-TGAGTGACCA
1 GATTGAACTGCAGGTCAAAAAAATAAAATAATCTAGACTGAGCTGAGATCAAAACAG-GTGACCA
* * * * *
7091319 AGATTGAACTGC-AGGTCTAAAAAATAAAATGATCTAGACCAAACCAAGATGGAAATTGAGTGAA
65 AGAATGAACTGCGA-GTCAAAAAAATAAAATGATCTAGACCAAACCAAGATCGAAAATAAGTGAA
7091383 CAG
129 CAG
*
7091386 GATTGAATTGCAGG
1 GATTGAACTGCAGG
7091400 CTTGAATAAT
Statistics
Matches: 325, Mismatches: 61, Indels: 37
0.77 0.14 0.09
Matches are distributed among these distances:
127 1 0.00
128 17 0.05
129 86 0.26
130 95 0.29
131 118 0.36
132 8 0.02
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (131 bp):
GATTGAACTGCAGGTCAAAAAAATAAAATAATCTAGACTGAGCTGAGATCAAAACAGGTGACCAA
GAATGAACTGCGAGTCAAAAAAATAAAATGATCTAGACCAAACCAAGATCGAAAATAAGTGAACA
G
Found at i:7091479 original size:66 final size:64
Alignment explanation
Indices: 7091006--7091473 Score: 297
Period size: 65 Copynumber: 7.2 Consensus size: 64
7090996 ATCGAACCAT
* ** ** * *
7091006 GGTCAGAAAAATAAAATGATCTGGATTGAGCTGAGATCAAAAT-AGGTGATCGGGATTGAACCCT
1 GGTCA-AAAAATAAAATGATCTAGACCGAGCCAAGATCAAAATGA-GTGACCAGGATTGAA--CT
7091070 G-A
62 GCA
* * * * * **
7091072 -GTCAGGAAAATAAAATGATCTGGACTGAGCCAAGATCAGAAT-AGGTGATCAGGATCAAATCGT
1 GGTCA-AAAAATAAAATGATCTAGACCGAGCCAAGATCAAAATGA-GTGACCAGGATTGAA-C-T
7091135 G-A
62 GCA
* *** * *
7091137 -GTCAAAAAATGAAAATGATCTAGACTGAGGTGAGATCAAAA-CAGGTGACCAGGAATGAACTGC
1 GGTCAAAAAAT-AAAATGATCTAGACCGAGCCAAGATCAAAATGA-GTGACCAGGATTGAACTGC
7091200 -
64 A
* * * * *
7091200 GAGTCAAAAAAATAAAATGATTTGGACTGAGCCAAGATCGAAAATAAGTGACCAGGGTTGAACTG
1 G-GTC-AAAAAATAAAATGATCTAGACCGAGCCAAGATC-AAAATGAGTGACCAGGATTGAACTG
7091265 CA
63 CA
* * * ** * *
7091267 GGTCAAAAAAATAAAATAATCTGGACTGAGCTGAGATCGAAATGAGTGACCAAGATTGAACTGCA
1 GGTC-AAAAAATAAAATGATCTAGACCGAGCCAAGATCAAAATGAGTGACCAGGATTGAACTGCA
* * * * * *
7091332 GGTCTAAAAAATAAAATGATCTAGACCAAACCAAGATGGAAATTGAGTGAACAGGATTGAATTGC
1 GGTC-AAAAAATAAAATGATCTAGACCGAGCCAAGAT-CAAAATGAGTGACCAGGATTGAACTGC
7091397 A
64 A
** * * * * * *
7091398 GGCTTGAATAATAAAATGATTTAGACCGAGCCTAGAT-AAAACTGAGTGATCAGGATTGAACCGT
1 GG-TCAAAAAATAAAATGATCTAGACCGAGCCAAGATCAAAA-TGAGTGACCAGGATTGAACTGC
7091462 A
64 A
7091463 GGTCAAAAAAT
1 GGTCAAAAAAT
7091474 TTAAAAGTTT
Statistics
Matches: 325, Mismatches: 64, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
63 2 0.01
64 16 0.05
65 193 0.59
66 111 0.34
67 3 0.01
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (64 bp):
GGTCAAAAAATAAAATGATCTAGACCGAGCCAAGATCAAAATGAGTGACCAGGATTGAACTGCA
Found at i:7091631 original size:17 final size:17
Alignment explanation
Indices: 7091609--7091676 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
7091599 AAATTCACAA
7091609 AAGTTTGTAAGAATTTC
1 AAGTTTGTAAGAATTTC
** *
7091626 AAGTTTCACAAGAGTTTC
1 AAGTTT-GTAAGAATTTC
7091644 -AGATTTGTAAGAATTTC
1 AAG-TTTGTAAGAATTTC
* *
7091661 AGGTTCGTAAGAATTT
1 AAGTTTGTAAGAATTT
7091677 TCATCATTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
17 28 0.70
18 12 0.30
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (17 bp):
AAGTTTGTAAGAATTTC
Found at i:7092939 original size:13 final size:13
Alignment explanation
Indices: 7092921--7092950 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7092911 AGTTTAAGTC
7092921 TTTTTTTT-CTTT
1 TTTTTTTTACTTT
7092933 TTTTTTTTACTTT
1 TTTTTTTTACTTT
7092946 TTTTT
1 TTTTT
7092951 ATCATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTTTACTTT
Found at i:7097907 original size:22 final size:22
Alignment explanation
Indices: 7097864--7097907 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7097854 AATCATTTAA
* *
7097864 TTTAAAAACAAGTAGAATAAAT
1 TTTAAAAACAAGTAAAACAAAT
7097886 TTTAAAAA-AATGTAAAACAAAT
1 TTTAAAAACAA-GTAAAACAAAT
7097908 AAAACAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (22 bp):
TTTAAAAACAAGTAAAACAAAT
Found at i:7098282 original size:13 final size:13
Alignment explanation
Indices: 7098264--7098288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7098254 TAAAGTTTAC
7098264 CAAAAAATTCAAT
1 CAAAAAATTCAAT
7098277 CAAAAAATTCAA
1 CAAAAAATTCAA
7098289 ACCTTTAACC
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:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (13 bp):
CAAAAAATTCAAT
Found at i:7100127 original size:23 final size:23
Alignment explanation
Indices: 7100083--7100128 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7100073 AATTACGATT
* * **
7100083 AAAAAATTTTATTATATGATTTA
1 AAAAAATTTTATAAAAAAATTTA
7100106 AAAAAATTTTATAAAAAAATTTA
1 AAAAAATTTTATAAAAAAATTTA
7100129 TACTAAATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
AAAAAATTTTATAAAAAAATTTA
Found at i:7100135 original size:15 final size:13
Alignment explanation
Indices: 7100104--7100144 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
7100094 TTATATGATT
7100104 TAAAAAAATTTTA
1 TAAAAAAATTTTA
7100117 TAAAAAAATTTATA
1 TAAAAAAATTT-TA
*
7100131 CTAAATAAATTTTA
1 -TAAAAAAATTTTA
7100145 AATTGACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 11 0.44
14 4 0.16
15 10 0.40
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAAAAAATTTTA
Found at i:7106235 original size:33 final size:34
Alignment explanation
Indices: 7106198--7106271 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 34
7106188 TTTTTATATT
7106198 ATTTTAATAAAAAATT-TTAATATATTTAA-ATAA
1 ATTTTAATAAAAAATTATTAATATATTTAATA-AA
* ** * *
7106231 ATTTTGATATCAAATTATTAATTTATTTTATAAA
1 ATTTTAATAAAAAATTATTAATATATTTAATAAA
7106265 ATTTTAA
1 ATTTTAA
7106272 AATATTATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
33 13 0.39
34 19 0.58
35 1 0.03
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (34 bp):
ATTTTAATAAAAAATTATTAATATATTTAATAAA
Found at i:7106303 original size:17 final size:17
Alignment explanation
Indices: 7106258--7106303 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
7106248 TTAATTTATT
*
7106258 TTATAAAATTTTAAAATA
1 TTAT-AAATTTAAAAATA
7106276 TTATAAA-TTAAAAATA
1 TTATAAATTTAAAAATA
7106292 -TATACAATTTAA
1 TTATA-AATTTAA
7106304 TTCAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 4 0.16
16 10 0.40
17 7 0.28
18 4 0.16
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TTATAAATTTAAAAATA
Found at i:7114461 original size:22 final size:22
Alignment explanation
Indices: 7114435--7114478 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
7114425 TGAATATTTA
*
7114435 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7114457 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7114479 GACAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:7118175 original size:22 final size:22
Alignment explanation
Indices: 7118149--7118192 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
7118139 TGTATATTTA
*
7118149 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7118171 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7118193 GACAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:7121888 original size:22 final size:22
Alignment explanation
Indices: 7121862--7121905 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
7121852 TGTATATTTA
*
7121862 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7121884 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7121906 GACAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:7129954 original size:20 final size:21
Alignment explanation
Indices: 7129929--7129971 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
7129919 AACTCTTACC
7129929 TTTTAT-A-TTTTAAAATTATT
1 TTTTATGATTTTTAAAATT-TT
7129949 TTTTATGATTTTTAAAATTTT
1 TTTTATGATTTTTAAAATTTT
7129970 TT
1 TT
7129972 GACATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 5 0.24
22 10 0.48
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTATGATTTTTAAAATTTT
Found at i:7132772 original size:23 final size:23
Alignment explanation
Indices: 7132737--7132813 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
7132727 TGTTTAATTG
* * *
7132737 AAATGAATTCGTTCATGAATATT
1 AAATAAATACGTTCATGAATAAT
**
7132760 AAATAAATACGTTCACAAATAAT
1 AAATAAATACGTTCATGAATAAT
* * *
7132783 AAGTAAATATGTTCATGAACAAT
1 AAATAAATACGTTCATGAATAAT
*
7132806 AAACAAAT
1 AAATAAAT
7132814 CATTATCAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.30
Consensus pattern (23 bp):
AAATAAATACGTTCATGAATAAT
Found at i:7133167 original size:21 final size:20
Alignment explanation
Indices: 7133129--7133167 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
7133119 TAATTTTAAT
*
7133129 AAATAAATATAAATAAACAA
1 AAATAAATATAAACAAACAA
*
7133149 AAATCAAATATATACAAAC
1 AAAT-AAATATAAACAAAC
7133168 GATTTATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (20 bp):
AAATAAATATAAACAAACAA
Found at i:7141247 original size:21 final size:20
Alignment explanation
Indices: 7141208--7141255 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
7141198 TTAAATATAA
*
7141208 ATAAAATTATATATATAATAT
1 ATAAAATTAAATATATAAT-T
7141229 ATAAAATTAAATA-ATTAATT
1 ATAAAATTAAATATA-TAATT
*
7141249 AAAAAAT
1 ATAAAAT
7141256 AATTTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAAATTAAATATATAATT
Found at i:7143037 original size:3 final size:3
Alignment explanation
Indices: 7143029--7143058 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7143019 CTTGACTTGT
7143029 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7143059 TTCTCTTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7143742 original size:20 final size:22
Alignment explanation
Indices: 7143704--7143746 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
7143694 TATAAATTAA
*
7143704 AATTTTAATAAAAATTATAAAT
1 AATTTGAATAAAAATTATAAAT
7143726 AATTTGAAT-AAAA-TATAAAT
1 AATTTGAATAAAAATTATAAAT
7143746 A
1 A
7143747 TTATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 4 0.20
22 8 0.40
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
AATTTGAATAAAAATTATAAAT
Found at i:7143790 original size:23 final size:22
Alignment explanation
Indices: 7143690--7143824 Score: 58
Period size: 23 Copynumber: 6.3 Consensus size: 22
7143680 TGATATGAAA
7143690 ATAATATAAAT-TA-AAATT-T
1 ATAATATAAATATATAAATTAT
* *
7143709 -TAATAAAAAT-TATAAATAAT
1 ATAATATAAATATATAAATTAT
*
7143729 TTGAATA-AAATATA-AATATTAT
1 AT-AATATAAATATATAA-ATTAT
* * *
7143751 AT-TTTTATATCGATATAAATTAT
1 ATAATATAAAT--ATATAAATTAT
* *
7143774 ATAATATAATTTTTATATGAA--AT
1 ATAATATAA---ATATATAAATTAT
7143797 ATAATATAAATATATAAATTAT
1 ATAATATAAATATATAAATTAT
7143819 -TAATAT
1 ATAATAT
7143825 TTTATATAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 30
0.66 0.11 0.23
Matches are distributed among these distances:
18 11 0.13
19 4 0.05
20 9 0.10
21 16 0.19
22 13 0.15
23 21 0.24
24 5 0.06
25 6 0.07
27 1 0.01
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (22 bp):
ATAATATAAATATATAAATTAT
Found at i:7143799 original size:32 final size:32
Alignment explanation
Indices: 7143733--7143809 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
7143723 AATAATTTGA
7143733 ATAAAATATAAATATTATATTTTTATATCGAT
1 ATAAAATATAAATATTATATTTTTATATCGAT
* *
7143765 ATAAATTATATAATA-TA-ATTTTTATAT-GAA
1 ATAAAATATA-AATATTATATTTTTATATCGAT
*
7143795 ATATAATATAAATAT
1 ATAAAATATAAATAT
7143810 ATAAATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 4 0.10
30 10 0.26
31 10 0.26
32 11 0.28
33 4 0.10
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (32 bp):
ATAAAATATAAATATTATATTTTTATATCGAT
Found at i:7143812 original size:31 final size:31
Alignment explanation
Indices: 7143736--7143813 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
7143726 AATTTGAATA
*
7143736 AAATATAAATAT-TATATTTTTATATCGATAT
1 AAATATAAATATATA-ATTTTTATATCGAAAT
*
7143767 AAAT-TATATAATATAATTTTTATAT-GAAAT
1 AAATATAAAT-ATATAATTTTTATATCGAAAT
7143797 ATAATATAAATATATAA
1 A-AATATAAATATATAA
7143814 ATTATTAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
30 9 0.22
31 25 0.62
32 6 0.15
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (31 bp):
AAATATAAATATATAATTTTTATATCGAAAT
Found at i:7144450 original size:22 final size:20
Alignment explanation
Indices: 7144407--7144446 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
7144397 ATAAATATTA
*
7144407 TATATAATTAATTTTAAAAT
1 TATATAATTAATTTAAAAAT
7144427 TATATAATTATATTTAAAAA
1 TATATAATTA-ATTTAAAAA
7144447 ATTAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATAATTAATTTAAAAAT
Found at i:7144705 original size:14 final size:13
Alignment explanation
Indices: 7144672--7144717 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
7144662 TATTAAAAAG
7144672 ATTAAA-TAA-AA
1 ATTAAATTAATAA
7144683 ATTAAATTAATAA
1 ATTAAATTAATAA
7144696 ATTAAAATTAATAA
1 ATT-AAATTAATAA
7144710 ATTGAAAT
1 ATT-AAAT
7144718 GTATTATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
11 6 0.19
12 3 0.10
13 5 0.16
14 17 0.55
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (13 bp):
ATTAAATTAATAA
Found at i:7145121 original size:6 final size:6
Alignment explanation
Indices: 7145110--7145144 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
7145100 TGAATGAACC
* *
7145110 ATATAT ATATAT ATATAG ATATAG ATATAG ATATA
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATA
7145145 TGATGTGTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (6 bp):
ATATAG
Found at i:7154937 original size:15 final size:16
Alignment explanation
Indices: 7154909--7154938 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7154899 TGTTATTTGA
7154909 TTGTTTTTTGAAAATT
1 TTGTTTTTTGAAAATT
7154925 TTGTTTTTT-AAAAT
1 TTGTTTTTTGAAAAT
7154939 AATATTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (16 bp):
TTGTTTTTTGAAAATT
Found at i:7155107 original size:22 final size:21
Alignment explanation
Indices: 7155082--7155147 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 21
7155072 TTTATATGAA
7155082 TATTTTAAAATATTTAAAATAG
1 TATTTT-AAATATTTAAAATAG
*
7155104 TATTATT--AT-TCTTAAAATAT
1 TATT-TTAAATAT-TTAAAATAG
7155124 TATTTTATTAATA-TTAAAATAG
1 TATTTTA--AATATTTAAAATAG
7155146 TA
1 TA
7155148 ATATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
19 3 0.09
20 14 0.40
22 14 0.40
23 4 0.11
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (21 bp):
TATTTTAAATATTTAAAATAG
Found at i:7155128 original size:42 final size:43
Alignment explanation
Indices: 7155082--7155167 Score: 122
Period size: 42 Copynumber: 2.0 Consensus size: 43
7155072 TTTATATGAA
* *
7155082 TATTTTA-AAATATTTAAAATAGTATTA-TTATTCTTAAAATAT
1 TATTTTATAAATA-TTAAAATAGTAATATTTATTATTAAAATAT
*
7155124 TATTTTATTAATATTAAAATAGTAATATTTATTATTAAAATAT
1 TATTTTATAAATATTAAAATAGTAATATTTATTATTAAAATAT
7155167 T
1 T
7155168 TATATTTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
42 20 0.51
43 19 0.49
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (43 bp):
TATTTTATAAATATTAAAATAGTAATATTTATTATTAAAATAT
Found at i:7155161 original size:21 final size:21
Alignment explanation
Indices: 7155095--7155174 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
7155085 TTTAAAATAT
* *
7155095 TTAAAATAGTATTA-TTATTC
1 TTAAAATAGTAATATTTATTA
* * * *
7155115 TTAAAATATTATTTTATTAATA
1 TTAAAATAGTAATAT-TTATTA
7155137 TTAAAATAGTAATATTTATTA
1 TTAAAATAGTAATATTTATTA
* *
7155158 TTAAAATATTTATATTT
1 TTAAAATAGTAATATTT
7155175 TATATTGAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
20 12 0.25
21 20 0.42
22 16 0.33
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (21 bp):
TTAAAATAGTAATATTTATTA
Found at i:7155180 original size:21 final size:20
Alignment explanation
Indices: 7155115--7155186 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 20
7155105 ATTATTATTC
*
7155115 TTAAAATATTATTTTATTAATA
1 TTAAAATATTATATT-TT-ATA
*
7155137 TTAAAATAGTA-ATATTTATTA
1 TTAAAATATTATAT-TTTA-TA
7155158 TTAAAATATTTATATTTTATA
1 TTAAAATA-TTATATTTTATA
7155179 TTGAAAAT
1 TT-AAAAT
7155187 GTCTATTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
20 1 0.02
21 17 0.40
22 22 0.52
23 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
TTAAAATATTATATTTTATA
Found at i:7155186 original size:43 final size:42
Alignment explanation
Indices: 7155090--7155186 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 42
7155080 AATATTTTAA
* * *
7155090 AATATTTAAAATAGTATTATTATTCTTAAAATATTATTTTATT
1 AATA-TTAAAATAGTAATATTATTATTAAAATATTATATTATT
7155133 AATATTAAAATAGTAATATTTATTATTAAAATATTTATATT-TT
1 AATATTAAAATAGTAATA-TTATTATTAAAATA-TTATATTATT
7155176 -ATATTGAAAAT
1 AATATT-AAAAT
7155187 GTCTATTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
42 18 0.38
43 24 0.50
44 6 0.12
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (42 bp):
AATATTAAAATAGTAATATTATTATTAAAATATTATATTATT
Found at i:7155413 original size:29 final size:28
Alignment explanation
Indices: 7155373--7155434 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
7155363 TAAAATAATA
* * *
7155373 AAAATATTATATATTATTATTTATTATT
1 AAAATATAATATAATACTATTTATTATT
7155401 AAAATAATAATATAATACTATTTATTATT
1 AAAAT-ATAATATAATACTATTTATTATT
*
7155430 GAAAT
1 AAAAT
7155435 GGTAAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (28 bp):
AAAATATAATATAATACTATTTATTATT
Done.