Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 21 of 318
Found at i:8099942 original size:22 final size:21
Alignment explanation
Indices: 8099886--8099967 Score: 62
Period size: 22 Copynumber: 4.0 Consensus size: 21
8099876 AACCTTAAAT
8099886 CTCT-AACTCTTAAACCCTAAC
1 CTCTAAAC-CTTAAACCCTAAC
* * * *
8099907 ATCTAATCCCTAAACCCCTGAC
1 CTCTAAACCTTAAA-CCCTAAC
*
8099929 CTCTAAACCTTAAATCC-AAC
1 CTCTAAACCTTAAACCCTAAC
* *
8099949 CT-TAAACCATAAACGCTAA
1 CTCTAAACCTTAAACCCTAA
8099968 TCCATAATCC
Statistics
Matches: 46, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
19 11 0.24
20 6 0.13
21 10 0.22
22 19 0.41
ACGTcount: A:0.38, C:0.35, G:0.02, T:0.24
Consensus pattern (21 bp):
CTCTAAACCTTAAACCCTAAC
Found at i:8099986 original size:15 final size:15
Alignment explanation
Indices: 8099966--8099997 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8099956 CATAAACGCT
8099966 AATCCATAATCCCTA
1 AATCCATAATCCCTA
*
8099981 AATCCATACTCCCTA
1 AATCCATAATCCCTA
8099996 AA
1 AA
8099998 CATTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.25
Consensus pattern (15 bp):
AATCCATAATCCCTA
Found at i:8100592 original size:1 final size:1
Alignment explanation
Indices: 8100588--8100623 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
8100578 AAAACGCGCT
8100588 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8100624 TAAATCATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:8100674 original size:40 final size:38
Alignment explanation
Indices: 8100629--8100741 Score: 113
Period size: 40 Copynumber: 2.9 Consensus size: 38
8100619 AAAAATAAAT
*
8100629 CATTAGCGGCGCTATATAAAAAACGCCGCTAAAGATCGAG
1 CATTAGCGGCGCT-TATAAAAAACGCCGCTAAAAAT-GAG
* * * *
8100669 TATTAGCGGCGCTTTTCTAAAAACGCCACTAAAAATGAG
1 CATTAGCGGCGCTTAT-AAAAAACGCCGCTAAAAATGAG
*
8100708 CATTAGCGGCG-TTTTACAAAAAGCGCCGC-AAAAA
1 CATTAGCGGCGCTTATA-AAAAA-CGCCGCTAAAAA
8100742 CCTAAACCTA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
38 14 0.23
39 20 0.32
40 28 0.45
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (38 bp):
CATTAGCGGCGCTTATAAAAAACGCCGCTAAAAATGAG
Found at i:8100844 original size:41 final size:40
Alignment explanation
Indices: 8100781--8100972 Score: 296
Period size: 40 Copynumber: 4.8 Consensus size: 40
8100771 TTTTTAGCGA
*
8100781 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCG-TTTTTAAGAAGCGCCGCTAATGCTCTGGTC
* *
8100822 TTTAGCGGCGTTTTTGATGAAGCGCCACTAATGCTCTGGTC
1 TTTAGCGGCGTTTTT-AAGAAGCGCCGCTAATGCTCTGGTC
*
8100863 TTTAGCGGCGTTTTGAAGAAGCGCCGCTAAAT-CTCTGGTC
1 TTTAGCGGCGTTTTTAAGAAGCGCCGCT-AATGCTCTGGTC
*
8100903 TTTAGCGGCGTTTTTAAGAAGCGCCGCTAAAGCTCTGGTC
1 TTTAGCGGCGTTTTTAAGAAGCGCCGCTAATGCTCTGGTC
*
8100943 TTTAGGGGCGTTTTTAAGAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTAAGAAGCGCCGCTAA
8100973 AAGCATTTTA
Statistics
Matches: 139, Mismatches: 9, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
39 2 0.01
40 88 0.63
41 49 0.35
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTAAGAAGCGCCGCTAATGCTCTGGTC
Found at i:8101562 original size:15 final size:15
Alignment explanation
Indices: 8101542--8101573 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8101532 TATTTTAATG
8101542 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
*
8101557 TTTAGGGATTATGGA
1 TTTAGGGAGTATGGA
8101572 TT
1 TT
8101574 AGCGTTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (15 bp):
TTTAGGGAGTATGGA
Found at i:8102313 original size:21 final size:21
Alignment explanation
Indices: 8102289--8102356 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
8102279 TAAATAAGGT
8102289 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAGTAGTTAGGGG
*
8102310 TTAGGGGTTAG-ATGTTAGAGG
1 TTAGGGGTTAGTA-GTTAGGGG
* * * *
8102331 TTAAGAGTTAGTGATTTAGGGT
1 TTAGGGGTTAGT-AGTTAGGGG
8102353 TTAG
1 TTAG
8102357 ATATTCGGGG
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.03
21 27 0.73
22 8 0.22
23 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.37
Consensus pattern (21 bp):
TTAGGGGTTAGTAGTTAGGGG
Found at i:8102518 original size:50 final size:50
Alignment explanation
Indices: 8102437--8102535 Score: 162
Period size: 50 Copynumber: 2.0 Consensus size: 50
8102427 TAATTGTAAA
* * *
8102437 ATAGGGGTTAAGGGTTTAGAGTTTTTGTTTTATGATTTAGGGTTTAGGAG
1 ATAGGGGTTAAGGGTTTAGAGTTTCTATTTTACGATTTAGGGTTTAGGAG
*
8102487 ATAGGGGTTAGGGGTTTAGAGTTTCTATTTTACGATTTAGGGTTTAGGA
1 ATAGGGGTTAAGGGTTTAGAGTTTCTATTTTACGATTTAGGGTTTAGGA
8102536 TTAATTGGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.42
Consensus pattern (50 bp):
ATAGGGGTTAAGGGTTTAGAGTTTCTATTTTACGATTTAGGGTTTAGGAG
Found at i:8106132 original size:27 final size:26
Alignment explanation
Indices: 8106102--8106158 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
8106092 AATTTCGAGG
*
8106102 TTTACAATTTT-TAATTTTTATTAATT
1 TTTA-AATTTTCTAACTTTTATTAATT
* *
8106128 ATTTATATTTTCTCACTTTTATTAATT
1 -TTTAAATTTTCTAACTTTTATTAATT
8106155 TTTA
1 TTTA
8106159 TTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTAAATTTTCTAACTTTTATTAATT
Found at i:8106461 original size:42 final size:42
Alignment explanation
Indices: 8106405--8106547 Score: 198
Period size: 43 Copynumber: 3.4 Consensus size: 42
8106395 TTTGAGATAA
* * *
8106405 AAAGCGTCGCTAAAGATCATAGTCTTTAGCGGCATTTGTGGG
1 AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTGTGGG
*
8106447 AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTATG-GGA
1 AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGC-ATT-TGTGGG
*
8106490 AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTGTGGG
1 AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTGTGGG
*
8106532 AGAAGCGCCGCAAAAG
1 A-AAGCGCCGCTAAAG
8106548 TTAGCGACGT
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
41 2 0.02
42 35 0.39
43 51 0.57
44 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.22
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTGTGGG
Found at i:8106643 original size:21 final size:21
Alignment explanation
Indices: 8106617--8106661 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
8106607 TTTAGTGGCG
*
8106617 CTAAAAAGCGCCGCTAAAGGC
1 CTAAAAAGCGCCGCTAAAAGC
*
8106638 CTAAAAAGCGCCTCTAAAAGC
1 CTAAAAAGCGCCGCTAAAAGC
8106659 CTA
1 CTA
8106662 TTTTGGTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.29, G:0.18, T:0.13
Consensus pattern (21 bp):
CTAAAAAGCGCCGCTAAAAGC
Found at i:8109454 original size:14 final size:14
Alignment explanation
Indices: 8109435--8109462 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8109425 GAAATAAAAT
8109435 TTAATTTATTCAGA
1 TTAATTTATTCAGA
8109449 TTAATTTATTCAGA
1 TTAATTTATTCAGA
8109463 ACAAACTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TTAATTTATTCAGA
Found at i:8114272 original size:21 final size:21
Alignment explanation
Indices: 8114247--8114314 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
8114237 ATATTGTAGC
*
8114247 AAAATAGTGAGAAAACAATAA
1 AAAATAGTGAAAAAACAATAA
* * *
8114268 AAAATAGTAAAAAAATAGTAAA
1 AAAATAGTGAAAAAACAAT-AA
*
8114290 AAAATA-AGAAAAAACAA-AA
1 AAAATAGTGAAAAAACAATAA
8114309 AAAATA
1 AAAATA
8114315 ATAATTTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 8 0.21
21 22 0.58
22 8 0.21
ACGTcount: A:0.75, C:0.03, G:0.09, T:0.13
Consensus pattern (21 bp):
AAAATAGTGAAAAAACAATAA
Found at i:8114303 original size:11 final size:11
Alignment explanation
Indices: 8114266--8114295 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
8114256 AGAAAACAAT
8114266 AAAAAATAGTA
1 AAAAAATAGTA
8114277 AAAAAATAGTA
1 AAAAAATAGTA
8114288 AAAAAATA
1 AAAAAATA
8114296 AGAAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (11 bp):
AAAAAATAGTA
Found at i:8123303 original size:21 final size:20
Alignment explanation
Indices: 8123188--8123306 Score: 63
Period size: 21 Copynumber: 6.0 Consensus size: 20
8123178 TTATATTTTC
* *
8123188 TATTA-AAAATTAATATAAA
1 TATTATAAAATTTATAAAAA
*
8123207 T-TTATAAAAAATTCATAAAAA
1 TATTAT--AAAATTTATAAAAA
* *
8123228 CA-TAT-AAATATTATACAAA
1 TATTATAAAAT-TTATAAAAA
* *
8123247 TACTA-ATAAA-TTATTAAAA
1 TATTATA-AAATTTATAAAAA
*
8123266 TATTATAAAATTAATAAAACA
1 TATTATAAAATTTATAAAA-A
8123287 TATT-TAAAATTTTATAAAAA
1 TATTATAAAA-TTTATAAAAA
8123307 CTCACCAAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 23
0.68 0.11 0.21
Matches are distributed among these distances:
18 7 0.09
19 23 0.30
20 15 0.20
21 31 0.41
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
TATTATAAAATTTATAAAAA
Found at i:8123835 original size:3 final size:3
Alignment explanation
Indices: 8123827--8123861 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8123817 AAAAATTCAA
8123827 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8123862 AATCCGATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8124122 original size:10 final size:10
Alignment explanation
Indices: 8124100--8124223 Score: 51
Period size: 10 Copynumber: 12.5 Consensus size: 10
8124090 TTTTTATATA
*
8124100 TTTTA-AATA
1 TTTTAGAATT
8124109 TTTTAGAATT
1 TTTTAGAATT
* *
8124119 TTTTATAAGT
1 TTTTAGAATT
*
8124129 TTTAATGAATT
1 TTTTA-GAATT
*
8124140 TTTTATAA-T
1 TTTTAGAATT
* *
8124149 TTTTATAAGT
1 TTTTAGAATT
* *
8124159 TTATAGGAA-G
1 TTTTA-GAATT
8124169 TTTTA-AATTT
1 TTTTAGAA-TT
*
8124179 TTTTAGTATGT
1 TTTTAGAAT-T
* *
8124190 TTTTTGGA-T
1 TTTTAGAATT
*
8124199 TTTTATAATT
1 TTTTAGAATT
*
8124209 TATTAGAATT
1 TTTTAGAATT
8124219 TTTTA
1 TTTTA
8124224 TATTTATAGT
Statistics
Matches: 84, Mismatches: 22, Indels: 17
0.68 0.18 0.14
Matches are distributed among these distances:
8 2 0.02
9 20 0.24
10 45 0.54
11 17 0.20
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (10 bp):
TTTTAGAATT
Found at i:8124140 original size:21 final size:21
Alignment explanation
Indices: 8124114--8124153 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8124104 AAATATTTTA
8124114 GAATTTTTTATAAGTTTTAAT
1 GAATTTTTTATAAGTTTTAAT
*
8124135 GAATTTTTTATAATTTTTA
1 GAATTTTTTATAAGTTTTA
8124154 TAAGTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
GAATTTTTTATAAGTTTTAAT
Found at i:8124241 original size:20 final size:21
Alignment explanation
Indices: 8124196--8124241 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
8124186 ATGTTTTTTG
8124196 GATTTTTATAATTTATTAGAA
1 GATTTTTATAATTTATTAGAA
*
8124217 -TTTTTTAT-ATTTA-TAGTAA
1 GATTTTTATAATTTATTAG-AA
8124236 GATTTT
1 GATTTT
8124242 ATGATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 3 0.14
19 7 0.33
20 11 0.52
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (21 bp):
GATTTTTATAATTTATTAGAA
Found at i:8124275 original size:20 final size:18
Alignment explanation
Indices: 8124256--8124296 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
8124246 TTTTTTTATA
8124256 ATTTTTAAAGTTTATATAT
1 ATTTTTAAAGTTTA-ATAT
*
8124275 ATTTTTAAATTTTAATAT
1 ATTTTTAAAGTTTAATAT
8124293 -TTTT
1 ATTTT
8124297 ATGATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 4 0.19
19 13 0.62
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTTAAAGTTTAATAT
Found at i:8124278 original size:19 final size:17
Alignment explanation
Indices: 8124249--8124297 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
8124239 TTTATGATTT
8124249 TTTTATA-ATTTTTAAA
1 TTTTATATATTTTTAAA
8124265 GTTTATATATATTTTTAAA
1 -TTT-TATATATTTTTAAA
8124284 TTTTA-ATATTTTTA
1 TTTTATATATTTTTA
8124298 TGATTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.30
17 5 0.17
18 7 0.23
19 9 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTTATATATTTTTAAA
Found at i:8125510 original size:10 final size:11
Alignment explanation
Indices: 8125468--8125518 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
8125458 TATGTTAAAA
8125468 ATATTTTAATT
1 ATATTTTAATT
*
8125479 ATGATTTGAATT
1 AT-ATTTTAATT
**
8125491 GATAAATTAA-T
1 -ATATTTTAATT
8125502 ATATTTTAATT
1 ATATTTTAATT
8125513 ATATTT
1 ATATTT
8125519 AGTAATTCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
10 7 0.23
11 10 0.32
12 12 0.39
13 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
ATATTTTAATT
Found at i:8125540 original size:34 final size:33
Alignment explanation
Indices: 8125466--8125540 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 33
8125456 AATATGTTAA
* *
8125466 AAATATTTTAATTATGATTTGAATTGATAAATT
1 AAATATTTTAATTATGATTTGAATTCATAAAGT
8125499 AATATATTTTAATTAT-ATTTAGTAATTCA-AATAGT
1 AA-ATATTTTAATTATGATTT-G-AATTCATAA-AGT
8125534 AAATATT
1 AAATATT
8125541 ATTTTATGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
33 6 0.17
34 21 0.58
35 9 0.25
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (33 bp):
AAATATTTTAATTATGATTTGAATTCATAAAGT
Found at i:8136206 original size:31 final size:31
Alignment explanation
Indices: 8136171--8136379 Score: 255
Period size: 31 Copynumber: 6.7 Consensus size: 31
8136161 CTTGTCACTT
*
8136171 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
**** *
8136202 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
**
8136233 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
8136264 GTAGCCGAAA-CTACCACTTTTCACTGATTC-G
1 GTAGCC-AAAGCTACCACTTTTCACTGA-TCAG
8136295 GTAG-CAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCA-AAGCTACCACTTTTCACTGATCAG
*
8136326 GTAGCTGAAA-CTACCACTTTTCACTGATCAG
1 GTAGC-CAAAGCTACCACTTTTCACTGATCAG
**
8136357 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCAAAGCTACCACTTTTCA
8136380 GTTGTCATTT
Statistics
Matches: 156, Mismatches: 14, Indels: 16
0.84 0.08 0.09
Matches are distributed among these distances:
29 1 0.01
30 7 0.04
31 142 0.91
32 5 0.03
33 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCAAAGCTACCACTTTTCACTGATCAG
Found at i:8136268 original size:62 final size:62
Alignment explanation
Indices: 8136178--8136379 Score: 307
Period size: 62 Copynumber: 3.3 Consensus size: 62
8136168 CTTGTAGCCA
* *** * *
8136178 AAGCTACCACTATTCACTGATCAGGTAGCTGGTGCTACCATTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTGAAACTACCACTTTTCACTGATCAGGTAGCAG
* *
8136240 GAGCTACCACTTTTCACTGATCAGGTAGCCGAAACTACCACTTTTCACTGATTC-GGTAGCAG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTGAAACTACCACTTTTCACTGA-TCAGGTAGCAG
*
8136302 AAGCTACCACTTTTCACTGATCAGGTAGCTGAAACTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTGAAACTACCACTTTTCACTGATCAGGTAGCAG
8136364 AAGCTACCACTTTTCA
1 AAGCTACCACTTTTCA
8136380 GTTGTCATTT
Statistics
Matches: 127, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
61 2 0.02
62 123 0.97
63 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (62 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCTGAAACTACCACTTTTCACTGATCAGGTAGCAG
Found at i:8136330 original size:93 final size:93
Alignment explanation
Indices: 8136171--8136379 Score: 296
Period size: 93 Copynumber: 2.2 Consensus size: 93
8136161 CTTGTCACTT
* * ** *
8136171 GTAGCC-AAAGCTACCACTATTCACTGATCAGGTAGCTGGTGCTACCATTTTTCACTGATCAGGT
1 GTAGCCGAAA-CTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGT
* *
8136235 AGCCGGAGCTACCACTTTTCACTGATCAG
65 AGCCGAAACTACCACTTTTCACTGATCAG
8136264 GTAGCCGAAACTACCACTTTTCACTGATTC-GGTAGCAGAAGCTACCACTTTTCACTGATCAGGT
1 GTAGCCGAAACTACCACTTTTCACTGA-TCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGT
*
8136328 AGCTGAAACTACCACTTTTCACTGATCAG
65 AGCCGAAACTACCACTTTTCACTGATCAG
* *
8136357 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCGAAACTACCACTTTTCA
8136380 GTTGTCATTT
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
93 99 0.95
94 5 0.05
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (93 bp):
GTAGCCGAAACTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTA
GCCGAAACTACCACTTTTCACTGATCAG
Found at i:8136463 original size:50 final size:50
Alignment explanation
Indices: 8136357--8136533 Score: 239
Period size: 50 Copynumber: 3.5 Consensus size: 50
8136347 CACTGATCAG
* * * * *
8136357 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAAT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
8136408 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
8136458 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
8136508 GTAGTCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
8136534 GTTTCCATGG
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 87 0.78
51 24 0.22
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:8141768 original size:47 final size:47
Alignment explanation
Indices: 8141714--8141809 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
8141704 AAAAGGAAGA
8141714 AAGAAAAAGAATAGAAATAATATTTTGATTCTATATCATAGGAACGG
1 AAGAAAAAGAATAGAAATAATATTTTGATTCTATATCATAGGAACGG
8141761 AAGAAAAAGAATAGAAATAATATTTTGATTCTATATCATAGGAACGG
1 AAGAAAAAGAATAGAAATAATATTTTGATTCTATATCATAGGAACGG
8141808 AA
1 AA
8141810 ATAGGACTTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (47 bp):
AAGAAAAAGAATAGAAATAATATTTTGATTCTATATCATAGGAACGG
Found at i:8142103 original size:21 final size:21
Alignment explanation
Indices: 8142064--8142103 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8142054 TTTATTTCAA
*
8142064 AATATAAATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
8142085 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
8142104 TACTGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:8142144 original size:21 final size:21
Alignment explanation
Indices: 8142111--8142151 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8142101 AATTACTGAT
* *
8142111 AAAAGTTCTATATCTCTATAG
1 AAAAGTTCGATATATCTATAG
*
8142132 AAAAGTTGGATATATCTATA
1 AAAAGTTCGATATATCTATA
8142152 TAATCAATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
AAAAGTTCGATATATCTATAG
Found at i:8142244 original size:14 final size:14
Alignment explanation
Indices: 8142225--8142253 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8142215 TAGATAAATA
8142225 ATAATCTATATAAC
1 ATAATCTATATAAC
8142239 ATAATCTATATAAC
1 ATAATCTATATAAC
8142253 A
1 A
8142254 AAGTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATCTATATAAC
Found at i:8143979 original size:2 final size:2
Alignment explanation
Indices: 8143972--8144017 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
8143962 TTTGCACTTC
8143972 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8144014 CT CT
1 CT CT
8144018 TTTTAAGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8145799 original size:15 final size:15
Alignment explanation
Indices: 8145781--8145811 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8145771 ATTCTAAATT
8145781 ATTAAATTAATAATA
1 ATTAAATTAATAATA
8145796 ATTAAATTAATAATA
1 ATTAAATTAATAATA
8145811 A
1 A
8145812 ATTCTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTAAATTAATAATA
Found at i:8145847 original size:11 final size:11
Alignment explanation
Indices: 8145831--8145858 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
8145821 ATTCTAAATA
8145831 TAAATAATAAC
1 TAAATAATAAC
8145842 TAAATAATAAC
1 TAAATAATAAC
8145853 TAAATA
1 TAAATA
8145859 GAAATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAATAATAAC
Found at i:8145850 original size:3 final size:3
Alignment explanation
Indices: 8145833--8145966 Score: 73
Period size: 3 Copynumber: 42.3 Consensus size: 3
8145823 TCTAAATATA
*
8145833 AAT AAT AACT AAAT AAT AACT AAAT AGA- AAT AAA AAT -AT ATAT AAT
1 AAT AAT AA-T -AAT AAT AA-T -AAT A-AT AAT AAT AAT AAT A-AT AAT
* *
8145879 AAT AAT ATAT AAA AAT AAT ATT AAT ATAT AAAT AGAT AAT -AT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT A-AT -AAT A-AT AAT AAT AAT AAT
*
8145927 AGAT AAT -AT AAT AAT AGAT -AG AAT AAT AA- AAT AAAT AAT A
1 A-AT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT -AAT AAT A
8145967 TAGAAATATA
Statistics
Matches: 104, Mismatches: 8, Indels: 38
0.69 0.05 0.25
Matches are distributed among these distances:
2 10 0.10
3 63 0.61
4 26 0.25
5 5 0.05
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8145978 original size:30 final size:31
Alignment explanation
Indices: 8145855--8145978 Score: 89
Period size: 32 Copynumber: 3.9 Consensus size: 31
8145845 ATAATAACTA
*
8145855 AATAGAAATAAA-AATATATATAATA-ATAAT
1 AATA-AAATAAATAATATATATAATATAGAAT
* *
8145885 ATATAAAAATAATATTAATATATA-AATAGATAAT
1 A-AT-AAAATAA-A-TAATATATATAATATAGAAT
*
8145919 -ATAATAATAGATAATATA-ATAATAGATAGAAT
1 AATAA-AATAAATAATATATATAAT--ATAGAAT
*
8145951 AATAAAATAAATAATATAGA-AATATAGA
1 AATAAAATAAATAATATATATAATATAGA
8145979 TTTATAAATC
Statistics
Matches: 78, Mismatches: 4, Indels: 24
0.74 0.04 0.23
Matches are distributed among these distances:
29 1 0.01
30 16 0.21
31 11 0.14
32 28 0.36
33 9 0.12
34 13 0.17
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (31 bp):
AATAAAATAAATAATATATATAATATAGAAT
Found at i:8148986 original size:15 final size:15
Alignment explanation
Indices: 8148966--8148996 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8148956 CTGTATCAGT
8148966 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
8148981 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
8148996 A
1 A
8148997 CGGAACCGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (15 bp):
AATGAATCAGAGCAC
Found at i:8153022 original size:11 final size:11
Alignment explanation
Indices: 8153008--8153086 Score: 65
Period size: 11 Copynumber: 7.3 Consensus size: 11
8152998 AATAGAAATA
8153008 AAAATATATAT
1 AAAATATATAT
8153019 AAAA-ATA-AT
1 AAAATATATAT
8153028 ATAAA-ATATAT
1 A-AAATATATAT
* *
8153039 AAAATATTTAG
1 AAAATATATAT
*
8153050 AATATATATAAT
1 AAAATATAT-AT
*
8153062 AAAATAGATAT
1 AAAATATATAT
* *
8153073 AATATATAAAT
1 AAAATATATAT
8153084 AAA
1 AAA
8153087 TTGAATATAA
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
9 3 0.06
10 12 0.23
11 30 0.57
12 8 0.15
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
AAAATATATAT
Found at i:8153040 original size:9 final size:9
Alignment explanation
Indices: 8153013--8153082 Score: 58
Period size: 9 Copynumber: 8.0 Consensus size: 9
8153003 AAATAAAAAT
8153013 ATATATAAAA
1 ATATAT-AAA
8153023 ATAATATAAA
1 AT-ATATAAA
8153033 ATATATAAA
1 ATATATAAA
* *
8153042 ATATTTAGA
1 ATATATAAA
8153051 ATATAT---
1 ATATATAAA
8153057 ATA-ATAAA
1 ATATATAAA
* *
8153065 ATAGATATA
1 ATATATAAA
8153074 ATATATAAA
1 ATATATAAA
8153083 TAAATTGAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
5 2 0.04
6 3 0.06
8 3 0.06
9 30 0.61
10 7 0.14
11 4 0.08
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (9 bp):
ATATATAAA
Found at i:8153066 original size:54 final size:51
Alignment explanation
Indices: 8153003--8153115 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 51
8152993 CAAAAAATAG
*
8153003 AAATAAAAATATATATAA-AAATAATATAAAAT-ATATAAAATATTTAGAATATAT
1 AAAT-AAAATAGATATAATAAATAA-ATAAAATGA-ATAAAATA-TTA-AATATAT
* * *
8153057 ATAATAAAATAGATATAATATATAAATAAATTGAATATAATATTAAATATAT
1 A-AATAAAATAGATATAATAAATAAATAAAATGAATAAAATATTAAATATAT
8153109 AAATAAA
1 AAATAAA
8153116 TTAAACCAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
51 6 0.12
52 8 0.15
53 3 0.06
54 26 0.50
55 9 0.17
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (51 bp):
AAATAAAATAGATATAATAAATAAATAAAATGAATAAAATATTAAATATAT
Found at i:8153094 original size:22 final size:22
Alignment explanation
Indices: 8152981--8153105 Score: 82
Period size: 23 Copynumber: 5.7 Consensus size: 22
8152971 TTTGTATTGT
*
8152981 ATATAATGTATACAA-AAAATAG
1 ATATAATATATA-AATAAAATAG
* * *
8153003 AAATAAAAATATATATAAAAATA-
1 ATAT-AATATATAAAT-AAAATAG
* *
8153026 ATATAA-A-ATATATAAAATAT
1 ATATAATATATAAATAAAATAG
* *
8153046 TTAGAATATATATAATAAAATAG
1 ATATAATATATA-AATAAAATAG
*
8153069 ATATAATATATAAAT-AAATTG
1 ATATAATATATAAATAAAATAG
8153090 AATATAATAT-TAAATA
1 -ATATAATATATAAATA
8153106 TATAAATAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
19 6 0.07
20 10 0.12
21 12 0.15
22 21 0.26
23 27 0.33
24 6 0.07
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (22 bp):
ATATAATATATAAATAAAATAG
Found at i:8153520 original size:13 final size:13
Alignment explanation
Indices: 8153504--8153531 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8153494 GATATTCATA
8153504 ATTAATATGAATT
1 ATTAATATGAATT
8153517 ATTAATATGAATT
1 ATTAATATGAATT
8153530 AT
1 AT
8153532 AGACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:8153598 original size:8 final size:8
Alignment explanation
Indices: 8153585--8153611 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
8153575 GCCATACTTA
8153585 ATATAAAT
1 ATATAAAT
8153593 ATATAAAT
1 ATATAAAT
8153601 ATATAAAT
1 ATATAAAT
8153609 ATA
1 ATA
8153612 ACATATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATAAAT
Found at i:8153612 original size:22 final size:22
Alignment explanation
Indices: 8153584--8153625 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8153574 TGCCATACTT
8153584 AATATAA-ATATATAAATATATA
1 AATATAACATAT-TAAATATATA
*
8153606 AATATAACATATTTAATATA
1 AATATAACATATTAAATATA
8153626 ATAATGGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AATATAACATATTAAATATATA
Found at i:8153859 original size:17 final size:17
Alignment explanation
Indices: 8153837--8153875 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
8153827 CTGACTCCAT
*
8153837 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
8153854 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
8153871 TTTTA
1 TTTTA
8153876 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:8154035 original size:15 final size:17
Alignment explanation
Indices: 8154005--8154036 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
8153995 GTCAAAATCT
8154005 TTTTATGCATTTATATA
1 TTTTATGCATTTATATA
8154022 TTTTATG-A-TTATATA
1 TTTTATGCATTTATATA
8154037 AATGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTATGCATTTATATA
Found at i:8154164 original size:27 final size:28
Alignment explanation
Indices: 8154134--8154190 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
8154124 AAATGAATGG
*
8154134 AATAATTAGTTCTAGTTATTA-AATATA
1 AATAATTAGTTCTAGCTATTATAATATA
*
8154161 AATAATTAGTTCTAGCTATTATACTATA
1 AATAATTAGTTCTAGCTATTATAATATA
8154189 AA
1 AA
8154191 AAATAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
AATAATTAGTTCTAGCTATTATAATATA
Found at i:8154198 original size:31 final size:27
Alignment explanation
Indices: 8154134--8154199 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 27
8154124 AAATGAATGG
* *
8154134 AATAATTAGTTCTAGTTATTAAATATA
1 AATAATTAGTTCTAGCTATTAAATAAA
8154161 AATAATTAGTTCTAGCTATTATACTATAAAA
1 AATAATTAGTTCTAGCTATTA-A--AT-AAA
8154192 AATAATTA
1 AATAATTA
8154200 TTTTCATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 20 0.61
28 1 0.03
30 2 0.06
31 10 0.30
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (27 bp):
AATAATTAGTTCTAGCTATTAAATAAA
Found at i:8159182 original size:42 final size:42
Alignment explanation
Indices: 8159126--8159213 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
8159116 TTTATTAAAC
8159126 AATAATAAATTAATGTTTATTTAATGGTTTACTTAATATAAT
1 AATAATAAATTAATGTTTATTTAATGGTTTACTTAATATAAT
8159168 AATAATAAATTAATGTTTATTTAATGGTTTACTTAATATAAT
1 AATAATAAATTAATGTTTATTTAATGGTTTACTTAATATAAT
8159210 AATA
1 AATA
8159214 TATATAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (42 bp):
AATAATAAATTAATGTTTATTTAATGGTTTACTTAATATAAT
Found at i:8159562 original size:55 final size:55
Alignment explanation
Indices: 8159455--8159562 Score: 130
Period size: 55 Copynumber: 2.0 Consensus size: 55
8159445 TAGTCTTAAT
* * **
8159455 TGTTGGAATACTACTTCTTTTAAATATATTTTTTATATGTTTAAATTGATTGTGA
1 TGTTGGAATACTACTTCTTTTAAATATATTATTTATATATTTAAATCAATTGTGA
* *
8159510 TGTTGGAATATTACCTT-TTTTGAAT-TAATTATTTATATATTTAAATCAATTGT
1 TGTTGGAATACTA-CTTCTTTTAAATAT-ATTATTTATATATTTAAATCAATTGT
8159563 TACATAGCAG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
54 1 0.02
55 41 0.91
56 3 0.07
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (55 bp):
TGTTGGAATACTACTTCTTTTAAATATATTATTTATATATTTAAATCAATTGTGA
Found at i:8160444 original size:33 final size:33
Alignment explanation
Indices: 8160402--8160468 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
8160392 AAACCTTGAG
8160402 AAAGGAACTTGAAAATAAGTCTCAAGAGATACA
1 AAAGGAACTTGAAAATAAGTCTCAAGAGATACA
8160435 AAAGGAACTTGAAAATAAGTCTCAAGAGATACA
1 AAAGGAACTTGAAAATAAGTCTCAAGAGATACA
8160468 A
1 A
8160469 GACACCGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (33 bp):
AAAGGAACTTGAAAATAAGTCTCAAGAGATACA
Found at i:8166984 original size:48 final size:48
Alignment explanation
Indices: 8166893--8166984 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
8166883 TTAGAGTGTT
** * * *
8166893 GATTTGGCTTCGGGCCATGATATCGGTACTTCGGGTGTGAGTTATAAC
1 GATTTGGCTTCAAGCCATGATATCAGTACTTCGGGTATAAGTTATAAC
8166941 GATTTGGCTTCAAGCCATGATATCAGTACTTCGGAG-ATAAGTTA
1 GATTTGGCTTCAAGCCATGATATCAGTACTTCGG-GTATAAGTTA
8166985 CCTTGTTTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
48 37 0.97
49 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (48 bp):
GATTTGGCTTCAAGCCATGATATCAGTACTTCGGGTATAAGTTATAAC
Found at i:8167799 original size:12 final size:12
Alignment explanation
Indices: 8167779--8167807 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
8167769 GAGTGGAACG
8167779 AAATTTTTTTTT
1 AAATTTTTTTTT
8167791 -AATTTTTTTTT
1 AAATTTTTTTTT
8167802 AAATTT
1 AAATTT
8167808 CGGCAGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
AAATTTTTTTTT
Found at i:8168441 original size:22 final size:22
Alignment explanation
Indices: 8168412--8168479 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
8168402 TGCACAAACG
8168412 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* *
8168434 TACAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
*
8168456 AACAGAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
8168479 A
1 A
8168480 TAATAGAACG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.74
23 8 0.21
24 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:8169670 original size:7 final size:7
Alignment explanation
Indices: 8169660--8169748 Score: 64
Period size: 7 Copynumber: 13.3 Consensus size: 7
8169650 TACTTATGTT
8169660 TTATATA
1 TTATATA
8169667 -T-TATA
1 TTATATA
8169672 TTATATA
1 TTATATA
*
8169679 TAATATA
1 TTATATA
*
8169686 ATA-ATA
1 TTATATA
*
8169692 TGATATA
1 TTATATA
8169699 TTATATA
1 TTATATA
8169706 TTA-ATA
1 TTATATA
*
8169712 CTTAAATA
1 -TTATATA
8169720 TTA-A-A
1 TTATATA
8169725 TTAATATA
1 TT-ATATA
*
8169733 ATATATA
1 TTATATA
*
8169740 ATATATA
1 TTATATA
8169747 TT
1 TT
8169749 TTTATATTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 7 0.11
6 11 0.17
7 43 0.65
8 5 0.08
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (7 bp):
TTATATA
Found at i:8169697 original size:20 final size:20
Alignment explanation
Indices: 8169669--8169711 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8169659 TTTATATATT
*
8169669 ATATTATATATAATATAATA
1 ATATGATATATAATATAATA
* *
8169689 ATATGATATATTATATATTA
1 ATATGATATATAATATAATA
8169709 ATA
1 ATA
8169712 CTTAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATGATATATAATATAATA
Found at i:8171186 original size:46 final size:46
Alignment explanation
Indices: 8171127--8171307 Score: 184
Period size: 46 Copynumber: 3.8 Consensus size: 46
8171117 TATTTGGGCA
*
8171127 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * * * *
8171173 TTCGAACTCGTTGAGTTGAGT-TGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTT-ATG-GATGCAA--A--CG
*
8171225 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
8171271 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
8171308 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
45 5 0.05
46 58 0.54
47 2 0.02
48 7 0.07
50 6 0.06
51 2 0.02
52 22 0.21
53 5 0.05
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:8172953 original size:19 final size:19
Alignment explanation
Indices: 8172929--8172978 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
8172919 CGGGTTTGGG
8172929 ACACGGGCGTGTCCCTAGC
1 ACACGGGCGTGTCCCTAGC
**
8172948 ACACGGAAGTGTCCCTAGC
1 ACACGGGCGTGTCCCTAGC
8172967 ACACGGGCGTGT
1 ACACGGGCGTGT
8172979 GCTCTATACC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (19 bp):
ACACGGGCGTGTCCCTAGC
Found at i:8175689 original size:38 final size:38
Alignment explanation
Indices: 8175646--8175940 Score: 203
Period size: 38 Copynumber: 7.0 Consensus size: 38
8175636 TTTCAAATTA
*
8175646 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
*
8175684 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* * * *
8175725 GAATCAATATATGTAACAGTGGCATATCCACTTAGCACTACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
8175769 ACATGTATCAATATGTGTAATCGTGGTATATCTACTTAGCACCACGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
* *
8175817 ACACGTATAACCGTGGTATATCCACTTAGCACCACATT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
** *
8175855 ACATGTATCAATATGTGTAATTGTGGTATAACCACTTAGCACCACGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
*
8175903 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
8175941 TTTCCATTCC
Statistics
Matches: 204, Mismatches: 26, Indels: 54
0.72 0.09 0.19
Matches are distributed among these distances:
38 94 0.46
39 1 0.00
40 2 0.01
41 2 0.01
42 5 0.02
43 1 0.00
44 4 0.02
45 3 0.01
46 3 0.01
47 26 0.13
48 63 0.31
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:8175800 original size:48 final size:48
Alignment explanation
Indices: 8175686--8175910 Score: 247
Period size: 48 Copynumber: 4.9 Consensus size: 48
8175676 ACCACGTTAC
* *
8175686 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * * *
8175733 ATATGTAACAGTGGCATATCCACTTAGCACTACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
8175781 ATGTGTAATCGTGGTATATCTACTTAGCACCACGTTAC----A-C---
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
8175821 --GTATAACCGTGGTATATCCACTTAGCACCACATTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
** * *
8175867 ATGTGTAATTGTGGTATAACCACTTAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
8175911 AACCGTGGTA
Statistics
Matches: 145, Mismatches: 22, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
38 32 0.22
42 1 0.01
43 2 0.01
44 1 0.01
47 32 0.22
48 77 0.53
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:8175858 original size:86 final size:86
Alignment explanation
Indices: 8175738--8175937 Score: 337
Period size: 86 Copynumber: 2.3 Consensus size: 86
8175728 TCAATATATG
* * * * * *
8175738 TAACAGTGGCATATCCACTTAGCACTACGTTACATGTATCAATATGTGTAATCGTGGTATATCTA
1 TAACCGTGGTATATCCACTTAGCACCACATTACATGTATCAATATGTGTAATCGTGGTATAACCA
8175803 CTTAGCACCACGTTACACGTA
66 CTTAGCACCACGTTACACGTA
*
8175824 TAACCGTGGTATATCCACTTAGCACCACATTACATGTATCAATATGTGTAATTGTGGTATAACCA
1 TAACCGTGGTATATCCACTTAGCACCACATTACATGTATCAATATGTGTAATCGTGGTATAACCA
8175889 CTTAGCACCACGTTACACGTA
66 CTTAGCACCACGTTACACGTA
8175910 TAACCGTGGTATATCCACTTAGCACCAC
1 TAACCGTGGTATATCCACTTAGCACCAC
8175938 GTTTTTCCAT
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 107 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (86 bp):
TAACCGTGGTATATCCACTTAGCACCACATTACATGTATCAATATGTGTAATCGTGGTATAACCA
CTTAGCACCACGTTACACGTA
Found at i:8179077 original size:19 final size:20
Alignment explanation
Indices: 8179031--8179077 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
8179021 ATCGAGTGAT
*
8179031 TAATTAGGCTTTAATTAAGTG
1 TAATTA-GCTTTAATTAAGAG
8179052 -AATTTAGC-TTAATTAAGAG
1 TAA-TTAGCTTTAATTAAGAG
8179071 TAATTAG
1 TAATTAG
8179078 GAAAAAAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 14 0.61
20 6 0.26
21 3 0.13
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.40
Consensus pattern (20 bp):
TAATTAGCTTTAATTAAGAG
Found at i:8180588 original size:24 final size:22
Alignment explanation
Indices: 8180561--8180604 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
8180551 TAAATTGATA
8180561 TGAATATGTGATTATTGTGAAATT
1 TGAATATGTG-TTATT-TGAAATT
*
8180585 TGAATATTTGTTATTTGAAA
1 TGAATATGTGTTATTTGAAA
8180605 AGTAAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 5 0.26
24 9 0.47
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (22 bp):
TGAATATGTGTTATTTGAAATT
Found at i:8180886 original size:51 final size:53
Alignment explanation
Indices: 8180793--8180919 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 53
8180783 ATAAGTGTCG
**
8180793 CCTTACTGTTACTGTTACTGTTCCGGATTCGTTCCATAGAGGTACT-T-TGTA
1 CCTTACTGTTACTGTTACTGTTCCAAATTCGTTCCATAGAGGTACTCTGTGTA
* *
8180844 CCTTACTGTTACTGTTACTGTTCCAAATTTGTTTCGAT-GAGGTACTCTGTGTA
1 CCTTACTGTTACTGTTACTGTTCCAAATTCG-TTCCATAGAGGTACTCTGTGTA
*
8180897 CCGCTACTGTTACTGTTACTGTT
1 CC-TTACTGTTACTGTTACTGTT
8180920 ACCGTTACGG
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
51 36 0.54
52 6 0.09
53 6 0.09
54 19 0.28
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (53 bp):
CCTTACTGTTACTGTTACTGTTCCAAATTCGTTCCATAGAGGTACTCTGTGTA
Found at i:8181580 original size:20 final size:20
Alignment explanation
Indices: 8181555--8181599 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
8181545 CTTTCTTTAC
*
8181555 AATTTAGTCTTTCCACCAAA
1 AATTTAGTATTTCCACCAAA
* * *
8181575 AATTTATTATTTTCACCTAA
1 AATTTAGTATTTCCACCAAA
8181595 AATTT
1 AATTT
8181600 GAAAGAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (20 bp):
AATTTAGTATTTCCACCAAA
Found at i:8183347 original size:46 final size:46
Alignment explanation
Indices: 8183295--8183613 Score: 397
Period size: 46 Copynumber: 6.9 Consensus size: 46
8183285 AGTGTACTCT
* * *
8183295 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACTATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
8183341 CTGATATGAAATGTGCAAGACCGTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
8183387 CGGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
8183433 GTGATATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
8183479 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
8183525 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
8183571 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGC
8183614 GTCATGTCAG
Statistics
Matches: 245, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 244 1.00
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:8183921 original size:16 final size:17
Alignment explanation
Indices: 8183900--8183932 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8183890 ATGATGGAGC
8183900 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
8183916 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
8183933 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:8184561 original size:18 final size:18
Alignment explanation
Indices: 8184538--8184595 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
8184528 TAAATAAAGG
* *
8184538 TACTGAATAATTAACTGC
1 TACTGAATAACTGACTGC
*
8184556 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGC
*
8184574 TACTGGATAACTGACTGC
1 TACTGAATAACTGACTGC
8184592 TACT
1 TACT
8184596 ATAAAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (18 bp):
TACTGAATAACTGACTGC
Found at i:8184635 original size:18 final size:18
Alignment explanation
Indices: 8184608--8184654 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
8184598 AAAAAAATTC
* *
8184608 TTACTTAATAATTTATTA
1 TTACTGAATAATTTATCA
*
8184626 TTACTGAATAATTTATCG
1 TTACTGAATAATTTATCA
8184644 TTACTGAATAA
1 TTACTGAATAA
8184655 CTGACTGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (18 bp):
TTACTGAATAATTTATCA
Found at i:8186640 original size:21 final size:21
Alignment explanation
Indices: 8186616--8186693 Score: 147
Period size: 21 Copynumber: 3.7 Consensus size: 21
8186606 AGTGCCTAAA
8186616 ACGACACACGAGGTGTCTGAT
1 ACGACACACGAGGTGTCTGAT
8186637 ACGACACACGAGGTGTCTGAT
1 ACGACACACGAGGTGTCTGAT
8186658 ACGACACACGAGGTGTCTGAT
1 ACGACACACGAGGTGTCTGAT
*
8186679 ACGACACGCGAGGTG
1 ACGACACACGAGGTG
8186694 CCTAAAATAC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.28, C:0.24, G:0.31, T:0.17
Consensus pattern (21 bp):
ACGACACACGAGGTGTCTGAT
Found at i:8214200 original size:24 final size:24
Alignment explanation
Indices: 8214173--8214224 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
8214163 TTAGTAAGTC
*
8214173 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
8214197 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
8214221 AAAT
1 AAAT
8214225 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:8216171 original size:24 final size:24
Alignment explanation
Indices: 8216144--8216195 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
8216134 TTAGTAAGTC
*
8216144 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
8216168 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
8216192 AAAT
1 AAAT
8216196 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:8224850 original size:68 final size:68
Alignment explanation
Indices: 8224741--8224877 Score: 274
Period size: 68 Copynumber: 2.0 Consensus size: 68
8224731 TATACACAAC
8224741 TTATGAAATTTTTAAACTTCATAAATATAGTTAAAAATGTGATAAGTGTCCTTTATATATGTAAT
1 TTATGAAATTTTTAAACTTCATAAATATAGTTAAAAATGTGATAAGTGTCCTTTATATATGTAAT
8224806 TTT
66 TTT
8224809 TTATGAAATTTTTAAACTTCATAAATATAGTTAAAAATGTGATAAGTGTCCTTTATATATGTAAT
1 TTATGAAATTTTTAAACTTCATAAATATAGTTAAAAATGTGATAAGTGTCCTTTATATATGTAAT
8224874 TTT
66 TTT
8224877 T
1 T
8224878 AAAACTTTTT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (68 bp):
TTATGAAATTTTTAAACTTCATAAATATAGTTAAAAATGTGATAAGTGTCCTTTATATATGTAAT
TTT
Found at i:8226609 original size:27 final size:28
Alignment explanation
Indices: 8226562--8226615 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
8226552 TGAAATTTTT
*
8226562 AAAAAAATAAAATATTATAAAAGTCATG
1 AAAAAAATAAAAAATTATAAAAGTCATG
* *
8226590 AAAAATATAAAAAATT-TAAAATTCAT
1 AAAAAAATAAAAAATTATAAAAGTCAT
8226616 TATCAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (28 bp):
AAAAAAATAAAAAATTATAAAAGTCATG
Found at i:8226720 original size:19 final size:21
Alignment explanation
Indices: 8226679--8226726 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
8226669 TTAAATTTTT
8226679 AACTAAAAATATTAAAATAAA
1 AACTAAAAATATTAAAATAAA
* *
8226700 AA-TAAAAAT-TTAGAATCAA
1 AACTAAAAATATTAAAATAAA
8226719 AACTAAAA
1 AACTAAAA
8226727 TAAATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (21 bp):
AACTAAAAATATTAAAATAAA
Found at i:8230113 original size:37 final size:37
Alignment explanation
Indices: 8230063--8230141 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
8230053 TTATTACGAA
* * *
8230063 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
8230100 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
8230137 GTCTT
1 GTCTT
8230142 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:8230338 original size:47 final size:47
Alignment explanation
Indices: 8230260--8230482 Score: 313
Period size: 47 Copynumber: 4.7 Consensus size: 47
8230250 CCCTTCGGGA
* * * * * * *
8230260 CTTATCACATTTATACACTTTTACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
8230307 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8230354 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8230401 CTTATCACATATATTCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
8230448 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
8230483 AGAATCCTAA
Statistics
Matches: 160, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
46 1 0.01
47 159 0.99
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:8233405 original size:40 final size:40
Alignment explanation
Indices: 8233373--8233754 Score: 339
Period size: 40 Copynumber: 9.6 Consensus size: 40
8233363 CCAGCATGAT
* * * * *
8233373 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
8233413 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
8233453 TGCTCTTCGGAACTTAGCCCAGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
8233493 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
8233533 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * *
8233573 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* ** * * *
8233614 TGC-CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* * * * *
8233654 TGC-CTTCGAG-CTTAGCCCGGAATTA-GTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGG-A-TACATCACTAGCACGAA
* **
8233693 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAA
*
8233733 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
8233755 CATCATTTGA
Statistics
Matches: 292, Mismatches: 41, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
38 3 0.01
39 29 0.10
40 239 0.82
41 21 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:8235671 original size:37 final size:37
Alignment explanation
Indices: 8235610--8235688 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
8235600 TTATTACGAA
* * * *
8235610 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
*
8235647 GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
8235684 GTCTT
1 GTCTT
8235689 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:8235885 original size:47 final size:47
Alignment explanation
Indices: 8235809--8235982 Score: 206
Period size: 47 Copynumber: 3.7 Consensus size: 47
8235799 CTTCGGGACT
* * * * *
8235809 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
8235856 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
8235903 TATCACATATATTCACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
8235950 TATCTCATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATACACT-TTCACATTCATCACAT
8235983 AGAATCCTAA
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 1 0.01
47 112 0.99
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:8235971 original size:94 final size:94
Alignment explanation
Indices: 8235807--8235982 Score: 228
Period size: 94 Copynumber: 1.9 Consensus size: 94
8235797 CCCTTCGGGA
* * * * *
8235807 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
8235872 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATCCATCACATCGGCCATTAGGC
* * * * * *
8235901 CTTATCACATATATTCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
8235965 TGTTCACATCCATCACAT
66 T-TTCACATCCATCACAT
8235983 AGAATCCTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
93 1 0.01
94 68 0.99
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATCCATCACATCGGCCATTAGGC
Found at i:8238817 original size:7 final size:7
Alignment explanation
Indices: 8238816--8238854 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
8238806 TTTTTAAGTT
*
8238816 TTTTAAT
1 TTTTAAA
*
8238823 TTTTAAT
1 TTTTAAA
8238830 TTTTAAA
1 TTTTAAA
8238837 TTTTAAA
1 TTTTAAA
8238844 TTTTAAA
1 TTTTAAA
8238851 TTTT
1 TTTT
8238855 TATTTTTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTTAAA
Found at i:8238832 original size:15 final size:15
Alignment explanation
Indices: 8238802--8238862 Score: 72
Period size: 14 Copynumber: 4.1 Consensus size: 15
8238792 GACTAAAATA
8238802 TTAATTTTTAAGTTTT
1 TTAATTTTTAA-TTTT
8238818 TTAATTTTTAA-TTT
1 TTAATTTTTAATTTT
* *
8238832 TTAAATTTTAAATTT
1 TTAATTTTTAATTTT
*
8238847 TAAATTTTT-ATTTT
1 TTAATTTTTAATTTT
8238861 TT
1 TT
8238863 GAGTTTATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
14 18 0.46
15 10 0.26
16 11 0.28
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TTAATTTTTAATTTT
Found at i:8238834 original size:14 final size:14
Alignment explanation
Indices: 8238802--8238861 Score: 68
Period size: 15 Copynumber: 4.1 Consensus size: 14
8238792 GACTAAAATA
8238802 TTAATTTTTAAGTTTT
1 TTAATTTTTAA--TTT
8238818 TTAATTTTTAATTT
1 TTAATTTTTAATTT
*
8238832 TTAAATTTTAAATTT
1 TT-AATTTTTAATTT
*
8238847 TAAATTTTT-ATTT
1 TTAATTTTTAATTT
8238860 TT
1 TT
8238862 TGAGTTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
13 5 0.13
14 11 0.28
15 12 0.31
16 11 0.28
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (14 bp):
TTAATTTTTAATTT
Found at i:8239803 original size:41 final size:41
Alignment explanation
Indices: 8239746--8239947 Score: 264
Period size: 41 Copynumber: 4.9 Consensus size: 41
8239736 GGGGTTATAT
* * *
8239746 GACTTTTAGCGGCGTTTTATCAAAAGCGCCGCTAATGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCC
8239787 GACTTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCC
* *
8239828 GACTTTTAGCGGCGTTTTACCAAAACCGCCGCTATTGCTCT
1 GACTTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCC
* *
8239869 G-TTTTTAGCGGGGCGTTTTAACAAAAAGCGCCGCTATTGCT-C
1 GACTTTTAGC--GGCGTTTTACCAAAAA-CGCCGCTATTGCTCC
* * * *
8239911 TATTTTTAGTGGCGTTTTACCAAAAACGCCTCTATTG
1 GACTTTTAGCGGCGTTTTACCAAAAACGCCGCTATTG
8239948 ATCTGTGTTT
Statistics
Matches: 144, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
40 17 0.12
41 93 0.65
42 14 0.10
43 20 0.14
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (41 bp):
GACTTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCC
Found at i:8239928 original size:83 final size:81
Alignment explanation
Indices: 8239746--8239959 Score: 268
Period size: 83 Copynumber: 2.6 Consensus size: 81
8239736 GGGGTTATAT
* * * * * *
8239746 GACTTTTAGCGGCGTTTTATCAAAAGCGCCGCTAATGCTCCGACTTTTAGCGGCGTTTTACCAAA
1 GACTTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTG-TTTTTAGCGGCGTTTTAACAAA
8239811 AACGCCGCTATTGCTCC
65 AACGCCGCTATTGCTCC
*
8239828 GACTTTTAGCGGCGTTTTACCAAAACCGCCGCTATTGCTCTGTTTTTAGCGGGGCGTTTTAACAA
1 GACTTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGTTTTTAGC--GGCGTTTTAACAA
8239893 AAAGCGCCGCTATTGCT-C
64 AAA-CGCCGCTATTGCTCC
* * * * *
8239911 TATTTTTAGTGGCGTTTTACCAAAAACGCCTCTATTGATCTGTGTTTTA
1 GACTTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGT-TTTTA
8239960 CAATTTTTGT
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
81 7 0.06
82 38 0.33
83 53 0.46
84 18 0.16
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (81 bp):
GACTTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGTTTTTAGCGGCGTTTTAACAAAA
ACGCCGCTATTGCTCC
Found at i:8250986 original size:15 final size:15
Alignment explanation
Indices: 8250947--8250987 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
8250937 CAAGGAAACC
8250947 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
8250962 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
8250977 GAATAAAGAAA
1 GAATAAAGAAA
8250988 CCCAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.61, C:0.10, G:0.17, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:8263723 original size:16 final size:16
Alignment explanation
Indices: 8263702--8263732 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8263692 GATATTTTAA
8263702 TATATTATATTAATAT
1 TATATTATATTAATAT
*
8263718 TATATTATGTTAATA
1 TATATTATATTAATA
8263733 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:8263829 original size:12 final size:12
Alignment explanation
Indices: 8263812--8263842 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8263802 GAAGCAGGGG
8263812 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
8263824 AGAAAAAGGGAA
1 AGAAAAAGAGAA
8263836 AGAAAAA
1 AGAAAAA
8263843 TAAAGAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:8271357 original size:16 final size:16
Alignment explanation
Indices: 8271336--8271366 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8271326 GATATTTTAA
8271336 TATATTATATTAATAT
1 TATATTATATTAATAT
*
8271352 TATATTATGTTAATA
1 TATATTATATTAATA
8271367 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:8271463 original size:12 final size:12
Alignment explanation
Indices: 8271446--8271476 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8271436 GAAGCAGGGG
8271446 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
8271458 AGAAAAAGGGAA
1 AGAAAAAGAGAA
8271470 AGAAAAA
1 AGAAAAA
8271477 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:8279964 original size:30 final size:30
Alignment explanation
Indices: 8279923--8279980 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
8279913 TTATTGTTAA
*
8279923 TTTTTTTATTATTTTAAAGACATTTGCTAC
1 TTTTGTTATTATTTTAAAGACATTTGCTAC
*
8279953 TTTTGTTATTATTTTAGAGACATTTGCT
1 TTTTGTTATTATTTTAAAGACATTTGCT
8279981 TGTTAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.57
Consensus pattern (30 bp):
TTTTGTTATTATTTTAAAGACATTTGCTAC
Found at i:8280131 original size:12 final size:12
Alignment explanation
Indices: 8280101--8280133 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
8280091 TATATATTTT
8280101 AAAATT-ATATA
1 AAAATTAATATA
8280112 AAAA-TAATATA
1 AAAATTAATATA
8280123 AAAATTAATAT
1 AAAATTAATAT
8280134 GGACTTGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:8280468 original size:31 final size:30
Alignment explanation
Indices: 8280407--8280469 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
8280397 TCACTTGTTT
**
8280407 ATATATATATACATATATTGTTTATTTTAA
1 ATATATATATACATATATTGTTTAAATTAA
* *
8280437 ATATATTTATACTATATATTTTTTAAATTAA
1 ATATATATATAC-ATATATTGTTTAAATTAA
8280468 AT
1 AT
8280470 TCAACCCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (30 bp):
ATATATATATACATATATTGTTTAAATTAA
Found at i:8290759 original size:27 final size:27
Alignment explanation
Indices: 8290728--8290780 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
8290718 TTTGTTGATT
8290728 TTCTTTTCATTTCCCTTTCGTTTTTAA
1 TTCTTTTCATTTCCCTTTCGTTTTTAA
8290755 TTCTTTTCATTTCCCTTTCGTTTTTA
1 TTCTTTTCATTTCCCTTTCGTTTTTA
8290781 CTTTCTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.09, C:0.23, G:0.04, T:0.64
Consensus pattern (27 bp):
TTCTTTTCATTTCCCTTTCGTTTTTAA
Found at i:8303084 original size:24 final size:24
Alignment explanation
Indices: 8303057--8303108 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
8303047 TTAGTAAGTC
*
8303057 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
8303081 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
8303105 AAAT
1 AAAT
8303109 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:8307752 original size:34 final size:34
Alignment explanation
Indices: 8307709--8307774 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
8307699 AGTAAAATAT
8307709 TTTTCGTAAAATGATTT-CAGGAAAATATTTTAC
1 TTTTCGTAAAATGATTTACAGGAAAATATTTTAC
*
8307742 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGATTTACAGGAAAATATTTT
8307775 CTGCTGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACAGGAAAATATTTTAC
Found at i:8341162 original size:51 final size:51
Alignment explanation
Indices: 8341106--8341215 Score: 202
Period size: 51 Copynumber: 2.2 Consensus size: 51
8341096 CTGATCACAT
8341106 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
8341157 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
8341208 TTGTCACT
1 TTATCACT
8341216 GATCAGAAGT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:8342861 original size:21 final size:21
Alignment explanation
Indices: 8342837--8342888 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
8342827 CTTTTTATTC
8342837 AATTAAC-TATCGAAACTTTAA
1 AATTAACTTA-CGAAACTTTAA
*
8342858 AATT-TCTTGACGAAACTTTAA
1 AATTAACTT-ACGAAACTTTAA
*
8342879 TATTAACTTA
1 AATTAACTTA
8342889 TTAACACTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.38
Consensus pattern (21 bp):
AATTAACTTACGAAACTTTAA
Found at i:8343131 original size:31 final size:31
Alignment explanation
Indices: 8343093--8343156 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
8343083 GGATTTAGTG
*
8343093 ATCTCGAATCACTGTTCTGACACTACTGAAA
1 ATCTCGAATCACTGTTCTGACACCACTGAAA
*
8343124 ATCTCGAATTACTGTTCTGACACCACTGAAA
1 ATCTCGAATCACTGTTCTGACACCACTGAAA
8343155 AT
1 AT
8343157 TTAGGCTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (31 bp):
ATCTCGAATCACTGTTCTGACACCACTGAAA
Found at i:8344373 original size:21 final size:22
Alignment explanation
Indices: 8344344--8344387 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
8344334 TCCGTTCTTC
*
8344344 TTTTTCTTTGT-TTTATT-TAT
1 TTTTTCTTTATGTTTATTATAT
8344364 TTTTTACTTTATGTTTATTATAT
1 TTTTT-CTTTATGTTTATTATAT
8344387 T
1 T
8344388 AATATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 5 0.25
22 6 0.30
23 4 0.20
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (22 bp):
TTTTTCTTTATGTTTATTATAT
Found at i:8344400 original size:16 final size:16
Alignment explanation
Indices: 8344379--8344412 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8344369 ACTTTATGTT
*
8344379 TATTATATTAATATAA
1 TATTATATTAACATAA
8344395 TATTATATTAACATAA
1 TATTATATTAACATAA
8344411 TA
1 TA
8344413 ATAATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTATATTAACATAA
Found at i:8349585 original size:24 final size:24
Alignment explanation
Indices: 8349522--8349586 Score: 82
Period size: 22 Copynumber: 2.8 Consensus size: 24
8349512 TGATGTTGAT
* *
8349522 GATATTTTATGATTA-TTTAATTA
1 GATATTTTATTATTATTTTAATGA
*
8349545 GATA-TATA-TATTATTTTAATGA
1 GATATTTTATTATTATTTTAATGA
8349567 GATATTTTATTATTATTTTA
1 GATATTTTATTATTATTTTA
8349587 TTATTAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 4 0.11
22 14 0.40
23 7 0.20
24 10 0.29
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (24 bp):
GATATTTTATTATTATTTTAATGA
Found at i:8351647 original size:46 final size:46
Alignment explanation
Indices: 8351595--8351915 Score: 435
Period size: 46 Copynumber: 7.0 Consensus size: 46
8351585 AGTGTGCTCT
*
8351595 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
8351641 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
8351687 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
8351733 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* *** ***
8351779 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * ** *
8351825 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * ** * * * *
8351871 ATGACAAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
8351916 TCATGTCAAA
Statistics
Matches: 251, Mismatches: 23, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
46 218 0.87
47 33 0.13
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
Found at i:8352715 original size:10 final size:10
Alignment explanation
Indices: 8352700--8352731 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
8352690 AGCATCCAAT
8352700 TTCGACTCAA
1 TTCGACTCAA
8352710 TTCGACTCAA
1 TTCGACTCAA
8352720 TTCGACTCAA
1 TTCGACTCAA
8352730 TT
1 TT
8352732 ATGACATGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (10 bp):
TTCGACTCAA
Found at i:8354504 original size:41 final size:39
Alignment explanation
Indices: 8354459--8354550 Score: 96
Period size: 41 Copynumber: 2.3 Consensus size: 39
8354449 ATTTTTCATA
*
8354459 TAATCACA-TAAATATACATATATTCATTTCAATTCAAAAAT
1 TAATCA-ATTAAATATACATATA-TC-TATCAATTCAAAAAT
* * *
8354500 TAATCAATTCAATATATATATATCTATCAATTCAAATCAT
1 TAATCAATTAAATATACATATATCTATCAATTCAAA-AAT
8354540 TCAATCAATTA
1 T-AATCAATTA
8354551 TTAAAATATC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
39 11 0.26
40 6 0.14
41 26 0.60
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (39 bp):
TAATCAATTAAATATACATATATCTATCAATTCAAAAAT
Found at i:8363462 original size:25 final size:25
Alignment explanation
Indices: 8363434--8363481 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
8363424 CCTAATAATT
*
8363434 AAATATAAATTTTGAAATT-TAAAAA
1 AAATATAAAATTT-AAATTCTAAAAA
*
8363459 AAATGTAAAATTTAAATTCTAAA
1 AAATATAAAATTTAAATTCTAAA
8363482 TTTATAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
AAATATAAAATTTAAATTCTAAAAA
Found at i:8365823 original size:16 final size:18
Alignment explanation
Indices: 8365796--8365830 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
8365786 ATGTAATTTA
8365796 TAAAATTTTATAA-ATAT
1 TAAAATTTTATAATATAT
8365813 TAAAA-TTTATAATATAT
1 TAAAATTTTATAATATAT
8365830 T
1 T
8365831 TTTAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAATTTTATAATATAT
Found at i:8373691 original size:46 final size:48
Alignment explanation
Indices: 8373635--8373725 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
8373625 TTAACTTAAA
8373635 AAATATAAAAATAAGAT-ATT-TCTAATA-TTTTAATATAATTATTATT
1 AAATATAAAAATAAGATAATTAT-TAATATTTTTAATATAATTATTATT
* **
8373681 AAATATAAAAATAATATAATTATTTTTATTTTTAATATAATTATT
1 AAATATAAAAATAAGATAATTATTAATATTTTTAATATAATTATT
8373726 TTTATATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
46 16 0.41
47 6 0.15
48 17 0.44
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (48 bp):
AAATATAAAAATAAGATAATTATTAATATTTTTAATATAATTATTATT
Found at i:8373751 original size:48 final size:48
Alignment explanation
Indices: 8373662--8373758 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 48
8373652 ATTTCTAATA
*
8373662 TTTTAATATAATTATTATTAAATATAAAAATAATATAATTATTTTTAT
1 TTTTAATATAATTATTATTAAATATAAAAATAAAATAATTATTTTTAT
* * *
8373710 TTTTAATATAATTATTTTTATAT-TAAATTATTAAAAT-ATTATTTTTAT
1 TTTTAATATAATTATTATTAAATATAAA--AATAAAATAATTATTTTTAT
8373758 T
1 T
8373759 AAATTATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
47 4 0.09
48 33 0.77
49 6 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (48 bp):
TTTTAATATAATTATTATTAAATATAAAAATAAAATAATTATTTTTAT
Found at i:8373768 original size:41 final size:44
Alignment explanation
Indices: 8373706--8373789 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 44
8373696 ATAATTATTT
*
8373706 TTATTTTTAATATAATTATTTTT-ATATTAAAT-TATTAAAATA
1 TTATTTTTAATATAATTATTTTTAATAATAAATCTATTAAAATA
* *
8373748 TTATTTTTATTA-AATTATTTTTAATAATAATTCTATTAAAAT
1 TTATTTTTAATATAATTATTTTTAATAATAAATCTATTAAAAT
8373790 TTAATAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.27
42 18 0.49
43 9 0.24
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (44 bp):
TTATTTTTAATATAATTATTTTTAATAATAAATCTATTAAAATA
Found at i:8373779 original size:16 final size:16
Alignment explanation
Indices: 8373706--8373779 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 16
8373696 ATAATTATTT
8373706 TTATTTTTAAT-ATAA
1 TTATTTTTAATAATAA
*
8373721 TTATTTTT-ATATTAA
1 TTATTTTTAATAATAA
*
8373736 --ATTATTAA-AAT-A
1 TTATTTTTAATAATAA
*
8373748 TTATTTTT-ATTA-AA
1 TTATTTTTAATAATAA
8373762 TTATTTTTAATAATAA
1 TTATTTTTAATAATAA
8373778 TT
1 TT
8373780 CTATTAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 15
0.68 0.09 0.23
Matches are distributed among these distances:
12 1 0.02
13 8 0.18
14 18 0.40
15 14 0.31
16 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATTTTTAATAATAA
Found at i:8376745 original size:61 final size:61
Alignment explanation
Indices: 8376672--8376810 Score: 269
Period size: 61 Copynumber: 2.3 Consensus size: 61
8376662 CGAAATAACA
8376672 TTAACCGAATTAACCGACCCTTTAAAATTTTTAACCGTTAACCCAATCGAAATTTTTTCGG
1 TTAACCGAATTAACCGACCCTTTAAAATTTTTAACCGTTAACCCAATCGAAATTTTTTCGG
*
8376733 TTAACCGAATTAACTGACCCTTTAAAATTTTTAACCGTTAACCCAATCGAAATTTTTTCGG
1 TTAACCGAATTAACCGACCCTTTAAAATTTTTAACCGTTAACCCAATCGAAATTTTTTCGG
8376794 TTAACCGAATTAACCGA
1 TTAACCGAATTAACCGA
8376811 AAATTATATT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 76 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (61 bp):
TTAACCGAATTAACCGACCCTTTAAAATTTTTAACCGTTAACCCAATCGAAATTTTTTCGG
Found at i:8376913 original size:6 final size:6
Alignment explanation
Indices: 8376902--8376954 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
8376892 AAATTATATT
* * *
8376902 TTTTTA TTTTTA TTTTTA GTTTTA GTTTTA GTTTTAAA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA
8376952 TTT
1 TTT
8376955 ATTAAATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 33 0.80
7 7 0.17
8 1 0.02
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:8376976 original size:21 final size:21
Alignment explanation
Indices: 8376935--8376977 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
8376925 AGTTTTAGTT
**
8376935 TTAAATTTTTATTTTTATTTA
1 TTAAATTTTTATAATTATTTA
8376956 TTAAATTATTTATAATT-TTTA
1 TTAAATT-TTTATAATTATTTA
8376977 T
1 T
8376978 GATTGGATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTAAATTTTTATAATTATTTA
Found at i:8377203 original size:29 final size:29
Alignment explanation
Indices: 8377168--8377236 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
8377158 TCAAAAAATT
8377168 ATTAACCGACCTCTGACTGAATTAATTCG
1 ATTAACCGACCTCTGACTGAATTAATTCG
* *
8377197 ATTAACCAATCTCTGACTGAATTAATTCG
1 ATTAACCGACCTCTGACTGAATTAATTCG
8377226 ATTAACCGACC
1 ATTAACCGACC
8377237 AATTAACCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (29 bp):
ATTAACCGACCTCTGACTGAATTAATTCG
Found at i:8387692 original size:15 final size:15
Alignment explanation
Indices: 8387666--8387703 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
8387656 ACAGAGCAGG
*
8387666 GGAAAGAAAGAAGGAA
1 GGAAA-AAAGAAAGAA
8387682 GGAAAAAAGAAAGAA
1 GGAAAAAAGAAAGAA
8387697 GGAAAAA
1 GGAAAAA
8387704 GGGGAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
GGAAAAAAGAAAGAA
Found at i:8388587 original size:16 final size:16
Alignment explanation
Indices: 8388566--8388599 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8388556 AAATATAGTT
8388566 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
8388582 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
8388598 AA
1 AA
8388600 AAGTGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:8389019 original size:18 final size:18
Alignment explanation
Indices: 8388966--8389033 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
8388956 AAAGATCGAC
*
8388966 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
* *
8388985 TGTTACTGTATATTTGAT
1 TGTTACTGAATAATTGAT
* *
8389003 TTTTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
*
8389021 TGTTACTGGATAA
1 TGTTACTGAATAA
8389034 CCGATCAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
18 29 0.73
19 11 0.28
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:8391255 original size:23 final size:23
Alignment explanation
Indices: 8391229--8391327 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
8391219 ATAAGTGCAA
8391229 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
8391252 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
8391275 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
8391298 CATTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
8391321 CACTGAT
1 CACTGAT
8391328 CAATAACACT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Done.