Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 313 of 345
Found at i:93978481 original size:21 final size:21
Alignment explanation
Indices: 93978456--93978498 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
93978446 ACAAATGTAA
*
93978456 TTTTATTTATTAAAAGATTAT
1 TTTTATTTAATAAAAGATTAT
*
93978477 TTTTATTTAATAAAATATTAT
1 TTTTATTTAATAAAAGATTAT
93978498 T
1 T
93978499 AAAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTTATTTAATAAAAGATTAT
Found at i:93978877 original size:9 final size:9
Alignment explanation
Indices: 93978865--93978889 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
93978855 ACAAATTGAA
93978865 AAACAAAAT
1 AAACAAAAT
93978874 AAACAAAAT
1 AAACAAAAT
93978883 AAACAAA
1 AAACAAA
93978890 GGACACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (9 bp):
AAACAAAAT
Found at i:93980446 original size:26 final size:27
Alignment explanation
Indices: 93980413--93980471 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
93980403 CACTTGGACT
*
93980413 AAAAAAG-TTT-GTTTCTATTTGAGAAA
1 AAAAAAGTTTTAGTATCTATTT-AGAAA
93980439 AAAAAAGTTTTAAGTATCTATTTAGAAA
1 AAAAAAGTTTT-AGTATCTATTTAGAAA
93980467 AAAAA
1 AAAAA
93980472 GGGAAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 7 0.24
27 3 0.10
28 10 0.34
29 9 0.31
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.34
Consensus pattern (27 bp):
AAAAAAGTTTTAGTATCTATTTAGAAA
Found at i:93985445 original size:24 final size:24
Alignment explanation
Indices: 93985391--93985464 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 24
93985381 AGACGAAGCT
* * *
93985391 GAGGGTAGAGATAAAGATGAAAAT
1 GAGGGTGGAGATGAAGATGAAAAC
* **
93985415 GATGGTGGAGATGAAGATGAGTAC
1 GAGGGTGGAGATGAAGATGAAAAC
* *
93985439 GAGGGTGAAGATGAAGATGAAGAC
1 GAGGGTGGAGATGAAGATGAAAAC
93985463 GA
1 GA
93985465 AGAAGATGAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.42, C:0.03, G:0.39, T:0.16
Consensus pattern (24 bp):
GAGGGTGGAGATGAAGATGAAAAC
Found at i:93987956 original size:21 final size:23
Alignment explanation
Indices: 93987909--93987956 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
93987899 AATGAGAAAT
93987909 AGACACAAAATTTAGCAGAGCAAC
1 AGACACAAAATTTAGCA-AGCAAC
93987933 AGACACAAAATTTAGC-AG-AAC
1 AGACACAAAATTTAGCAAGCAAC
93987954 AGA
1 AGA
93987957 AGTAAGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 6 0.25
22 2 0.08
24 16 0.67
ACGTcount: A:0.52, C:0.19, G:0.17, T:0.12
Consensus pattern (23 bp):
AGACACAAAATTTAGCAAGCAAC
Found at i:93990189 original size:33 final size:32
Alignment explanation
Indices: 93990142--93990250 Score: 93
Period size: 33 Copynumber: 3.5 Consensus size: 32
93990132 TAAACACAAC
*
93990142 AATTTATAACATAATTCTAAATTACTAATAAATT
1 AATTT-TAAAATAATTCTAAATTACTAA-AAATT
* *
93990176 AATTTTAAAATAATT-AAAAATAC--AAAA--
1 AATTTTAAAATAATTCTAAATTACTAAAAATT
* * * *
93990203 AATTATAACATTATCCTAAATTACTAACAAATT
1 AATTTTAAAATAATTCTAAATTACTAA-AAATT
93990236 AATTTTAAAATAATT
1 AATTTTAAAATAATT
93990251 ACAAAAAATA
Statistics
Matches: 56, Mismatches: 13, Indels: 13
0.68 0.16 0.16
Matches are distributed among these distances:
27 11 0.20
28 6 0.11
29 3 0.05
30 2 0.04
31 3 0.05
32 6 0.11
33 20 0.36
34 5 0.09
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (32 bp):
AATTTTAAAATAATTCTAAATTACTAAAAATT
Found at i:93990439 original size:16 final size:17
Alignment explanation
Indices: 93990409--93990443 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
93990399 TAATAAATTA
*
93990409 CTTTTTCTTTCTTTCTT
1 CTTTTTATTTCTTTCTT
93990426 CTTTTTATTT-TTTCTT
1 CTTTTTATTTCTTTCTT
93990442 CT
1 CT
93990444 CATTTCTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (17 bp):
CTTTTTATTTCTTTCTT
Found at i:93990462 original size:23 final size:20
Alignment explanation
Indices: 93990411--93990469 Score: 57
Period size: 23 Copynumber: 2.8 Consensus size: 20
93990401 ATAAATTACT
93990411 TTTTCTTTCTTTCTTCTTT-
1 TTTTCTTTCTTTCTTCTTTC
*
93990430 TTATTTTTTCTTCTCATTTCTTTC
1 TT-TTCTTTCTT-TC--TTCTTTC
*
93990454 TTTTCTTTCTCTCTTC
1 TTTTCTTTCTTTCTTC
93990470 CGGTGGGTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
19 2 0.06
20 11 0.34
21 2 0.06
22 2 0.06
23 13 0.41
24 2 0.06
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTCTTTCTTTCTTCTTTC
Found at i:93990826 original size:28 final size:29
Alignment explanation
Indices: 93990766--93990839 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 29
93990756 TATAAATTTA
*
93990766 AATATTTTTA--AT-AAAAATAAAATAAT
1 AATATTTTTATTATAAAAAACAAAATAAT
93990792 AATA-TTTTATT-TAAAAAACAAAA-AAT
1 AATATTTTTATTATAAAAAACAAAATAAT
93990818 ATATAATTTTTATTATAAAAAA
1 A-AT-ATTTTTATTATAAAAAA
93990840 AAAGTGTTGC
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 5 0.12
26 9 0.22
27 11 0.28
28 1 0.03
29 7 0.17
30 7 0.17
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (29 bp):
AATATTTTTATTATAAAAAACAAAATAAT
Found at i:93990842 original size:28 final size:28
Alignment explanation
Indices: 93990772--93990842 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 28
93990762 TTTAAATATT
*
93990772 TTTAATAAAAATAAAATAATAATATTTTA
1 TTTAA-AAAAAAAAAATAATAATATTTTA
93990801 TTTAAAAAACAAAAAATATATAAT-TTTTA
1 TTTAAAAAA-AAAAAATA-ATAATATTTTA
93990830 TTATAAAAAAAAA
1 TT-TAAAAAAAAA
93990843 GTGTTGCACC
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
28 4 0.11
29 22 0.58
30 12 0.32
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (28 bp):
TTTAAAAAAAAAAAATAATAATATTTTA
Found at i:93994857 original size:7 final size:7
Alignment explanation
Indices: 93994845--93994879 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
93994835 CCATTCCATT
93994845 AGCCACC
1 AGCCACC
93994852 AGCCACC
1 AGCCACC
93994859 AGCCACC
1 AGCCACC
93994866 AGCCACC
1 AGCCACC
93994873 AGCCACC
1 AGCCACC
93994880 GGCCCATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.57, G:0.14, T:0.00
Consensus pattern (7 bp):
AGCCACC
Found at i:93995302 original size:7 final size:7
Alignment explanation
Indices: 93995290--93995323 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
93995280 CTCAAGCTTG
93995290 TTTTTCA
1 TTTTTCA
93995297 TTTTTCA
1 TTTTTCA
93995304 TTTTTCA
1 TTTTTCA
93995311 TTTTTCA
1 TTTTTCA
93995318 TTTTTC
1 TTTTTC
93995324 TGATGATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:93996049 original size:2 final size:2
Alignment explanation
Indices: 93996042--93996070 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
93996032 GCTAAATTAA
93996042 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93996071 ACTCCAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93998134 original size:40 final size:40
Alignment explanation
Indices: 93998072--93998326 Score: 335
Period size: 40 Copynumber: 6.5 Consensus size: 40
93998062 AAGCCAAGTA
* * * *
93998072 CCTTCGGGATTTA-ACCGGATATAGCT-ACCCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
93998111 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
93998151 CCTTC-GGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
93998190 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
*
93998230 CCTT--GGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
93998268 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
93998308 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
93998327 TTATCATCCA
Statistics
Matches: 196, Mismatches: 12, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
38 34 0.17
39 53 0.27
40 109 0.56
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:93998205 original size:79 final size:79
Alignment explanation
Indices: 93998086--93998326 Score: 362
Period size: 78 Copynumber: 3.1 Consensus size: 79
93998076 CGGGATTTAA
* * * *
93998086 CCGGATATAGCT-ACCCGCTCGAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACGAA
1 CCGGATATAG-TAACTCGCACGAATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTCGCACGAA
93998149 TGCCTTCGGACTTAGC
64 TGCCTTCGGACTTAGC
93998165 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGAACTAGTCACTCGCACGAATG
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGAACTAGTCACTCGCACGAATG
93998230 CCTT-GGACTTAGC
66 CCTTCGGACTTAGC
* * * *
93998243 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCAAATG
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGAACTAGTCACTCGCACGAATG
93998308 CCTTCGGGACTTAGC
66 CCTTC-GGACTTAGC
93998323 CCGG
1 CCGG
93998327 TTATCATCCA
Statistics
Matches: 150, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
78 76 0.51
79 61 0.41
80 13 0.09
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.21
Consensus pattern (79 bp):
CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGAACTAGTCACTCGCACGAATG
CCTTCGGACTTAGC
Found at i:94006281 original size:40 final size:40
Alignment explanation
Indices: 94006219--94006396 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
94006209 AAGCCAAGTA
* * * *
94006219 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
94006258 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
94006298 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
94006338 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
94006378 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
94006397 TTATCATCCA
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 13 0.10
40 114 0.90
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:94019792 original size:40 final size:40
Alignment explanation
Indices: 94019730--94019907 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
94019720 AAGCCAAGTA
* * * *
94019730 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
94019769 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
94019809 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
94019849 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
94019889 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
94019908 TTATCATCCA
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 13 0.10
40 114 0.90
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:94025168 original size:40 final size:40
Alignment explanation
Indices: 94025106--94025363 Score: 396
Period size: 40 Copynumber: 6.5 Consensus size: 40
94025096 AAGCCAAGTA
* * *
94025106 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
94025145 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
94025185 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
94025225 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
94025265 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
94025305 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
94025345 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
94025364 TTATCATCCA
Statistics
Matches: 207, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 13 0.06
40 194 0.94
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:94033315 original size:40 final size:40
Alignment explanation
Indices: 94033253--94033430 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
94033243 AAGCCAAGTA
* * * *
94033253 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
94033292 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
94033332 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
94033372 CCTTCGGGACTTAGCCC-GAAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
94033412 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
94033431 TTATCATCCA
Statistics
Matches: 125, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 15 0.12
40 109 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:94058463 original size:17 final size:17
Alignment explanation
Indices: 94058443--94058476 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
94058433 TATTAAATAT
94058443 TAATTTTTTTTAATACA
1 TAATTTTTTTTAATACA
*
94058460 TAATTTTTTTTATTACA
1 TAATTTTTTTTAATACA
94058477 CATTAAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
TAATTTTTTTTAATACA
Found at i:94059524 original size:17 final size:18
Alignment explanation
Indices: 94059491--94059525 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
94059481 TATGTAGAGT
*
94059491 AAAAAGAAAATTGGAAAG
1 AAAAAAAAAATTGGAAAG
94059509 AAAAAAAAAATT-GAAAG
1 AAAAAAAAAATTGGAAAG
94059526 GATGGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.11
Consensus pattern (18 bp):
AAAAAAAAAATTGGAAAG
Found at i:94059545 original size:16 final size:16
Alignment explanation
Indices: 94059514--94059552 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
94059504 GAAAGAAAAA
*
94059514 AAAAATTGAAAGGATGG
1 AAAAATAGAAAGGAT-G
94059531 AAAAATAGAAA-GATG
1 AAAAATAGAAAGGATG
94059546 AAAAATA
1 AAAAATA
94059553 TAATTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 3 0.14
17 10 0.48
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (16 bp):
AAAAATAGAAAGGATG
Found at i:94069422 original size:25 final size:21
Alignment explanation
Indices: 94069394--94069443 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
94069384 AGTTTTGTAC
*
94069394 TCTTTCTTTTTCTTTTTCGTT
1 TCTTTCTTTTTATTTTTCGTT
94069415 TCTTTCTTTTTATTTTTCGTT
1 TCTTTCTTTTTATTTTTCGTT
94069436 TCTTTCTT
1 TCTTTCTT
94069444 CTTTTTACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
TCTTTCTTTTTATTTTTCGTT
Found at i:94071510 original size:21 final size:20
Alignment explanation
Indices: 94071475--94071522 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
94071465 CATGTATTAG
*
94071475 ATATTAAATAGATATTTATT
1 ATATTAAAAAGATATTTATT
94071495 ATATTATAAAAGATATTTATT
1 ATATTA-AAAAGATATTTATT
94071516 A-ATTAAA
1 ATATTAAA
94071523 TAATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.38
21 14 0.54
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
ATATTAAAAAGATATTTATT
Found at i:94071668 original size:2 final size:2
Alignment explanation
Indices: 94071661--94071701 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
94071651 TACATATGTG
94071661 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94071702 GAAAAAGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:94073390 original size:46 final size:46
Alignment explanation
Indices: 94073340--94073601 Score: 287
Period size: 46 Copynumber: 5.7 Consensus size: 46
94073330 TGATCCTATT
* ** *
94073340 CATGGCAACATGATATG-AAATGTGTAGGACCATGGTTGAAAGATAC
1 CATGGCAACATGACA-GAAAATGAATAAGACCATGGTTGAAAGATAC
* *
94073386 CATGGTAACATGATAGAAAATGAATAAGACCATGGTTGAAAGATAC
1 CATGGCAACATGACAGAAAATGAATAAGACCATGGTTGAAAGATAC
* * *
94073432 CATGGCAGCGTGACATG-AAATGAATAAGACCATGTTTGAAAGATAC
1 CATGGCAACATGACA-GAAAATGAATAAGACCATGGTTGAAAGATAC
* * * *
94073478 CATGGCAACACGACGGGAAAATGAATAGGAACATGGTTGAAAGAATAC
1 CATGGCAACATGAC-AGAAAATGAATAAGACCATGGTTGAAAG-ATAC
* *
94073526 CATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGATAC
1 CATGGCAACATGACAGAAAATGAATAAGACCATGGTTGAAAGATAC
* * * * *
94073572 TATGGCATCATGTCA-AAGATAAATAAGACC
1 CATGGCAACATGACAGAAAATGAATAAGACC
94073602 GTGGATGGGA
Statistics
Matches: 183, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
45 13 0.07
46 107 0.58
47 46 0.25
48 17 0.09
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.20
Consensus pattern (46 bp):
CATGGCAACATGACAGAAAATGAATAAGACCATGGTTGAAAGATAC
Found at i:94073620 original size:45 final size:45
Alignment explanation
Indices: 94073571--94073670 Score: 182
Period size: 45 Copynumber: 2.2 Consensus size: 45
94073561 TTGAAAGATA
94073571 CTATGGCATCATGTCAAAGATAAATAAGACCGTGGATGGGAGACG
1 CTATGGCATCATGTCAAAGATAAATAAGACCGTGGATGGGAGACG
*
94073616 CTATGGCATCATGTCAAAGATAAATAAGACCGTGGATGGGAGATG
1 CTATGGCATCATGTCAAAGATAAATAAGACCGTGGATGGGAGACG
*
94073661 CTATGACATC
1 CTATGGCATC
94073671 TATTGAACAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (45 bp):
CTATGGCATCATGTCAAAGATAAATAAGACCGTGGATGGGAGACG
Found at i:94073930 original size:16 final size:17
Alignment explanation
Indices: 94073909--94073941 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
94073899 ATGATGGAGC
94073909 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
94073925 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
94073942 TATACTTATG
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:94075284 original size:25 final size:25
Alignment explanation
Indices: 94075250--94075298 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
94075240 TACTTACATG
*
94075250 ATAAAAAGAAGAGTAAATTTTGAAC
1 ATAAAAAGAAGAGTAAAATTTGAAC
*
94075275 ATAAAAAGAATAGTAAAATTTGAA
1 ATAAAAAGAAGAGTAAAATTTGAA
94075299 AGGAAATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.59, C:0.02, G:0.14, T:0.24
Consensus pattern (25 bp):
ATAAAAAGAAGAGTAAAATTTGAAC
Found at i:94076325 original size:14 final size:15
Alignment explanation
Indices: 94076300--94076328 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
94076290 TTTAAATGAC
94076300 TTTAATATTTTATTT
1 TTTAATATTTTATTT
94076315 TTTAA-ATTTTATTT
1 TTTAATATTTTATTT
94076329 AATATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTAATATTTTATTT
Found at i:94076352 original size:21 final size:21
Alignment explanation
Indices: 94076310--94076352 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
94076300 TTTAATATTT
* *
94076310 TATTTTTTAAATTTTATTTAA
1 TATTTTTTAAATTTGATATAA
94076331 TATTTTTATAAATTTGA-ATAA
1 TATTTTT-TAAATTTGATATAA
94076352 T
1 T
94076353 GTCTTACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTTTTAAATTTGATATAA
Found at i:94076759 original size:5 final size:5
Alignment explanation
Indices: 94076749--94076781 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
94076739 CAAGTTTGAG
94076749 CCACT CCACT CCACT CCACT CCACT CCACT CCA
1 CCACT CCACT CCACT CCACT CCACT CCACT CCA
94076782 ATCCTCTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.21, C:0.61, G:0.00, T:0.18
Consensus pattern (5 bp):
CCACT
Found at i:94078408 original size:3 final size:3
Alignment explanation
Indices: 94078400--94078430 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
94078390 TTGGTCAAAC
*
94078400 ATA ATA ATA ATA ATC ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
94078431 AGCTTGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:94078419 original size:15 final size:15
Alignment explanation
Indices: 94078399--94078428 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
94078389 ATTGGTCAAA
94078399 CATAATAATAATAAT
1 CATAATAATAATAAT
94078414 CATAATAATAATAAT
1 CATAATAATAATAAT
94078429 AAAGCTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
CATAATAATAATAAT
Found at i:94079099 original size:23 final size:23
Alignment explanation
Indices: 94079073--94079124 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
94079063 TTCATTTAAC
*
94079073 TTAATCGAATATGCTCACAAACA
1 TTAATCGAACATGCTCACAAACA
* * *
94079096 TTAAACGAACATGTTCACGAACA
1 TTAATCGAACATGCTCACAAACA
94079119 TATAAT
1 T-TAAT
94079125 TAAGCATGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (23 bp):
TTAATCGAACATGCTCACAAACA
Found at i:94079794 original size:14 final size:16
Alignment explanation
Indices: 94079770--94079805 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
94079760 TTGACATATG
94079770 AATATTATATAT-AAA
1 AATATTATATATCAAA
94079785 AATA-TATATATCAAA
1 AATATTATATATCAAA
94079800 AA-ATTA
1 AATATTA
94079806 GTTGATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATTATATATCAAA
Found at i:94080124 original size:2 final size:2
Alignment explanation
Indices: 94080119--94080174 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
94080109 ACACACACAC
94080119 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94080161 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
94080175 CACTGTTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94087904 original size:41 final size:40
Alignment explanation
Indices: 94087821--94087911 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 40
94087811 CAAAATAATA
* * * * *
94087821 TTTAATAAAATAAAACATTTATTATATTTATTTGTATTTTT
1 TTTAATATAATAAAACATTTATTAAATGTATTGGTA-TATT
94087862 TTTAATATAATAAAACATTTATTAAATGTA-TGGTAGTATT
1 TTTAATATAATAAAACATTTATTAAATGTATTGGTA-TATT
94087902 TTTAATATAA
1 TTTAATATAA
94087912 ATATTTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 17 0.39
41 27 0.61
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (40 bp):
TTTAATATAATAAAACATTTATTAAATGTATTGGTATATT
Found at i:94093318 original size:22 final size:22
Alignment explanation
Indices: 94093290--94093344 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
94093280 GAGAGGTCAA
94093290 ACGCCCATGTGAAGAGG-GGCAC
1 ACGCCCATGTGAAG-GGAGGCAC
*
94093312 ATGCCCATGTGAAGGGAGGCAC
1 ACGCCCATGTGAAGGGAGGCAC
*
94093334 ACGCCCGTGTG
1 ACGCCCATGTG
94093345 GGCCAGGGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.24, C:0.27, G:0.36, T:0.13
Consensus pattern (22 bp):
ACGCCCATGTGAAGGGAGGCAC
Found at i:94094649 original size:16 final size:18
Alignment explanation
Indices: 94094625--94094661 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
94094615 ACAAGTCAAT
*
94094625 AAATATAAAAATATT-TA
1 AAATATAAAAAAATTATA
94094642 AAAT-TAAAAAAATTATA
1 AAATATAAAAAAATTATA
94094659 AAA
1 AAA
94094662 AGTTCATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATATAAAAAAATTATA
Found at i:94094842 original size:25 final size:25
Alignment explanation
Indices: 94094814--94094877 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
94094804 AAGATTTTTT
* *
94094814 TTTAAAAAAAAAATTAAGGGTCAAA
1 TTTAAAAAAAAAATGAAAGGTCAAA
94094839 TTTAACTAAAAAAAA-GAAAGGTCAAA
1 TTTAA--AAAAAAAATGAAAGGTCAAA
*
94094865 -TTAACAAAAAAAT
1 TTTAAAAAAAAAAT
94094878 ATAAACTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 7 0.21
25 9 0.27
26 9 0.27
27 8 0.24
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.22
Consensus pattern (25 bp):
TTTAAAAAAAAAATGAAAGGTCAAA
Found at i:94097216 original size:75 final size:74
Alignment explanation
Indices: 94097131--94097418 Score: 326
Period size: 75 Copynumber: 3.8 Consensus size: 74
94097121 GATGTTCTTA
*
94097131 GCACTAGTCAGAT-AATCTGACGAAGGTTGCGCCCAACGCTAGTAGGATAAACCGACAGATATAA
1 GCACTAGTCAGATAAAT-TGACGAAGGTTGCGCCCAGCGCTAGTA-GATAAACCGACAGATATAA
*
94097195 TAGTGTGCCCT
64 CAGTGTGCCCT
* * * * * * *
94097206 GCACTAGTCAGATAAACTAACAAAGGTTGTGCCCAGCGGTAGTTAGATAAATCGATAGATATAAC
1 GCACTAGTCAGATAAATTGACGAAGGTTGCGCCCAGCGCTAG-TAGATAAACCGACAGATATAAC
*
94097271 AGTGTGTCCT
65 AGTGTGCCCT
* * ** * * * * *
94097281 GCACTAGTCAAATAAATTGACGAAAGTTGTACCTAGTGCTAGTTGGATAAACCGATAAATATAAC
1 GCACTAGTCAGATAAATTGACGAAGGTTGCGCCCAGCGCTAG-TAGATAAACCGACAGATATAAC
94097346 AGTGTGCCCT
65 AGTGTGCCCT
* * *
94097356 GCACTAGTCAGATAAATTGACGAAGGTTGCGCCCAGCCCTAGTCAAATAAACTGACAGATATA
1 GCACTAGTCAGATAAATTGACGAAGGTTGCGCCCAGCGCTAGT-AGATAAACCGACAGATATA
94097419 CATAATTACA
Statistics
Matches: 175, Mismatches: 35, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
74 1 0.01
75 170 0.97
76 4 0.02
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (74 bp):
GCACTAGTCAGATAAATTGACGAAGGTTGCGCCCAGCGCTAGTAGATAAACCGACAGATATAACA
GTGTGCCCT
Found at i:94098753 original size:69 final size:69
Alignment explanation
Indices: 94098671--94098803 Score: 232
Period size: 69 Copynumber: 1.9 Consensus size: 69
94098661 ACTGACTTTC
94098671 GAATCATTACAATTCTTTTCCC-TTTAAAAAATTTCATCCCCAAAATTTACTTGAAAAGAGGTGA
1 GAATCATTACAATTC-TTTCCCTTTTAAAAAATTTCATCCCCAAAATTTACTTGAAAAGAGGTGA
94098735 ATTTT
65 ATTTT
* *
94098740 GAATCATTACAATTCTTTCCCTTTTAAAAAATTTCATCCTCGAAATTTACTTGAAAAGAGGTGA
1 GAATCATTACAATTCTTTCCCTTTTAAAAAATTTCATCCCCAAAATTTACTTGAAAAGAGGTGA
94098804 GGATATTGAG
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
68 6 0.10
69 55 0.90
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (69 bp):
GAATCATTACAATTCTTTCCCTTTTAAAAAATTTCATCCCCAAAATTTACTTGAAAAGAGGTGAA
TTTT
Found at i:94102851 original size:13 final size:13
Alignment explanation
Indices: 94102833--94102860 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
94102823 CTATCATCGA
94102833 GATATAGTTCCCT
1 GATATAGTTCCCT
94102846 GATATAGTTCCCT
1 GATATAGTTCCCT
94102859 GA
1 GA
94102861 CATATTTCTT
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:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (13 bp):
GATATAGTTCCCT
Found at i:94104621 original size:2 final size:2
Alignment explanation
Indices: 94104614--94104650 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
94104604 CAAAATACAA
94104614 AG AG 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 AG AG A
94104651 AGTACATCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:94105250 original size:75 final size:75
Alignment explanation
Indices: 94105038--94105250 Score: 273
Period size: 75 Copynumber: 2.8 Consensus size: 75
94105028 GATGTGTCTA
* * * *
94105038 GCACTATTCAGATAAACTGACGAAGGTTGCGCCCAGTGCTAGTCGGATAAACCAACAAATATAAT
1 GCACTAGTCAGATAAACTGACGAAGGTTGCGCCCAGCGCTAGTCGGATAAATCGACAAATATAAT
94105103 AGTGTACCCT
66 AGTGTACCCT
* * * * * *
94105113 GCACTAGTCAAATAAACTAACGAAGGTTGTGCCCAGCACTAGTTGGATAAATCGAAAAATATAAT
1 GCACTAGTCAGATAAACTGACGAAGGTTGCGCCCAGCGCTAGTCGGATAAATCGACAAATATAAT
* *
94105178 AGTGTGCCTT
66 AGTGTACCCT
* * * * *
94105188 GCACTAGTCAGATAAACTGACGAAGGTTGCACCCAACGCTAGTCAGATAAATTGACAGATATA
1 GCACTAGTCAGATAAACTGACGAAGGTTGCGCCCAGCGCTAGTCGGATAAATCGACAAATATA
94105251 CATAATTATA
Statistics
Matches: 115, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
75 115 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (75 bp):
GCACTAGTCAGATAAACTGACGAAGGTTGCGCCCAGCGCTAGTCGGATAAATCGACAAATATAAT
AGTGTACCCT
Found at i:94106794 original size:23 final size:24
Alignment explanation
Indices: 94106747--94106816 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
94106737 CTGTCAGGAG
94106747 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
94106771 AGGATTTAGGAGTTGA-AAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
94106794 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
94106817 GGAAATCTAG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 21 0.49
24 22 0.51
ACGTcount: A:0.36, C:0.01, G:0.39, T:0.24
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:94108292 original size:27 final size:27
Alignment explanation
Indices: 94108236--94108340 Score: 97
Period size: 27 Copynumber: 3.9 Consensus size: 27
94108226 AGGAAGCGTC
*
94108236 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCACAATTATCTAAT
* **
94108263 CTGGTGGCTCTGCTACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTAAT
* *
94108290 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCT-AAT
** *
94108318 CTGGTAACTCTGTCAC-ATTATCT
1 CTGGTGGCTCTGCCACAATTATCT
94108341 GTTCTGGTAG
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.05
27 44 0.69
28 17 0.27
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTAAT
Found at i:94108341 original size:27 final size:27
Alignment explanation
Indices: 94108284--94108349 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
94108274 GCTACATATT
**
94108284 TCTGTTCTGGTGGCTCTGCCACGATTA
1 TCTGTTCTGGTAACTCTGCCACGATTA
*
94108311 TCTGTATCTGGTAACTCTGTCAC-ATTA
1 TCTGT-TCTGGTAACTCTGCCACGATTA
94108338 TCTGTTCTGGTA
1 TCTGTTCTGGTA
94108350 GCCATGCTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.20
27 14 0.40
28 14 0.40
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (27 bp):
TCTGTTCTGGTAACTCTGCCACGATTA
Found at i:94108342 original size:54 final size:54
Alignment explanation
Indices: 94108236--94108348 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
94108226 AGGAAGCGTC
** *
94108236 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCTACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTAACTCTGCTACATATATCTGTT
* * *
94108290 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTAACTCTG-TCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-AATCTGGTAACTCTGCT-ACATATATCTGTT
94108344 CTGGT
1 CTGGT
94108349 AGCCATGCTG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
54 35 0.69
55 16 0.31
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTAATCTGGTAACTCTGCTACATATATCTGTT
Found at i:94118229 original size:2 final size:2
Alignment explanation
Indices: 94118222--94118250 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
94118212 AACAATAAAC
94118222 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94118251 ATTTTTTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94122441 original size:16 final size:15
Alignment explanation
Indices: 94122411--94122439 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
94122401 TAAATTCTTT
94122411 TTTTTTAAATATTTA
1 TTTTTTAAATATTTA
94122426 TTTTTTAAATATTT
1 TTTTTTAAATATTT
94122440 TACTATACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTTAAATATTTA
Found at i:94124444 original size:27 final size:27
Alignment explanation
Indices: 94124409--94124461 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
94124399 TTATTTTTTG
94124409 TTTAATCAAT-ACAAGGATAATTAATTT
1 TTTAATCAATCACAAGGATAA-TAATTT
*
94124436 TTTAATCAATCACATGGATAATAATT
1 TTTAATCAATCACAAGGATAATAATT
94124462 AAAAATTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (27 bp):
TTTAATCAATCACAAGGATAATAATTT
Found at i:94129482 original size:38 final size:38
Alignment explanation
Indices: 94129433--94129595 Score: 173
Period size: 46 Copynumber: 3.9 Consensus size: 38
94129423 ATATGAAATG
94129433 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAA
94129471 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTG------AA
*
94129515 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATA
1 --TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-A
94129556 TGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 TG---T----AAGACCATGGTTGAAAGATACCATGGCAAC
94129596 ATGACAGAAA
Statistics
Matches: 108, Mismatches: 1, Indels: 24
0.81 0.01 0.18
Matches are distributed among these distances:
38 36 0.33
39 2 0.02
40 1 0.01
41 1 0.01
42 1 0.01
44 2 0.02
46 65 0.60
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (38 bp):
TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAA
Found at i:94129534 original size:46 final size:46
Alignment explanation
Indices: 94129472--94129644 Score: 238
Period size: 46 Copynumber: 3.8 Consensus size: 46
94129462 CAACCTGAAT
* *
94129472 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATGA
* *
94129518 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATGA
** * *
94129564 ACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATGA
* * * *
94129610 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATG
94129645 TCAAAGATAA
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 112 1.00
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATGA
Found at i:94132479 original size:19 final size:16
Alignment explanation
Indices: 94132446--94132497 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
94132436 TTCTTACGTA
94132446 TATATATTATA-TATTAT
1 TATA-ATTATATTA-TAT
*
94132463 TATTAATT-GATTATAT
1 TA-TAATTATATTATAT
94132479 TATAATTATATTATAT
1 TATAATTATATTATAT
94132495 TAT
1 TAT
94132498 GAAACAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 5 0.17
16 16 0.53
17 7 0.23
18 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TATAATTATATTATAT
Found at i:94133099 original size:13 final size:13
Alignment explanation
Indices: 94133066--94133091 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94133056 TCGAAAGTGG
94133066 GAAAGAAAAGAAA
1 GAAAGAAAAGAAA
94133079 GAAAGAAAAGAAA
1 GAAAGAAAAGAAA
94133092 AGGAGAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAGAAA
Found at i:94133447 original size:22 final size:24
Alignment explanation
Indices: 94133419--94133462 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
94133409 TATGGCAAGA
94133419 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
94133441 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
94133463 AACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:94141210 original size:57 final size:57
Alignment explanation
Indices: 94141110--94141245 Score: 154
Period size: 57 Copynumber: 2.4 Consensus size: 57
94141100 GCAAAATTTG
* * * **
94141110 AAAATAGGGGAAAAAT-TGTAAA-TTTTGAAAAATAGAGGAAAAATTGTAAAATCTAA
1 AAAATAGGGGAAAACTAT-AAAATTTTTAAAAAATAGAGGAAAAATAATAAAATCTAA
*
94141166 AAAA-AGGGGCAAAACTATAAAATTTTTAAAAAATA-AGGGTAAAATAATAAAATCTAA
1 AAAATAGGGG-AAAACTATAAAATTTTTAAAAAATAGA-GGAAAAATAATAAAATCTAA
*
94141223 AAAATAGGGGAAAACTGTAAAAT
1 AAAATAGGGGAAAACTATAAAAT
94141246 CTGAAAAACA
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
55 5 0.07
56 13 0.19
57 45 0.66
58 5 0.07
ACGTcount: A:0.57, C:0.04, G:0.16, T:0.23
Consensus pattern (57 bp):
AAAATAGGGGAAAACTATAAAATTTTTAAAAAATAGAGGAAAAATAATAAAATCTAA
Found at i:94141253 original size:28 final size:27
Alignment explanation
Indices: 94141110--94141260 Score: 117
Period size: 27 Copynumber: 5.4 Consensus size: 27
94141100 GCAAAATTTG
* * * *
94141110 AAAATAGGGGAAAAATTGTAAATTTTGA
1 AAAATAGGGG-AAAACTGTAAAATCTAA
* *
94141138 AAAATAGAGGAAAAATTGTAAAATCTAA
1 AAAATAG-GGGAAAACTGTAAAATCTAA
* *
94141166 AAAA-AGGGGCAAAACTATAAAATTTTTAA
1 AAAATAGGGG-AAAACTGTAAAA--TCTAA
* *
94141195 AAAATAAGGGTAAAA-TAATAAAATCTAA
1 AAAAT-AGGGGAAAACT-GTAAAATCTAA
*
94141223 AAAATAGGGGAAAACTGTAAAATCTGA
1 AAAATAGGGGAAAACTGTAAAATCTAA
*
94141250 AAAACAGGGGA
1 AAAATAGGGGA
94141261 CACACAGTTG
Statistics
Matches: 101, Mismatches: 14, Indels: 17
0.77 0.11 0.13
Matches are distributed among these distances:
26 2 0.02
27 39 0.39
28 35 0.35
29 11 0.11
30 10 0.10
31 4 0.04
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.21
Consensus pattern (27 bp):
AAAATAGGGGAAAACTGTAAAATCTAA
Found at i:94150710 original size:5 final size:5
Alignment explanation
Indices: 94150700--94150731 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
94150690 AAATGTTAAG
94150700 TATAT TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TA
94150732 ATAAAATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:94151083 original size:30 final size:28
Alignment explanation
Indices: 94151029--94151085 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
94151019 AATTGTAGAA
*
94151029 TAAATTGTAAATTTTGAGTATTAGGGAC
1 TAAATTGTAAATTTTGAATATTAGGGAC
94151057 TAAATTGTGAAAATTTTGAA-ATTTAGGGA
1 TAAATTGT--AAATTTTGAATA-TTAGGGA
94151086 TTTAAGTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 8 0.32
29 1 0.04
30 16 0.64
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.39
Consensus pattern (28 bp):
TAAATTGTAAATTTTGAATATTAGGGAC
Found at i:94154026 original size:22 final size:22
Alignment explanation
Indices: 94153973--94154027 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
94153963 CACATCCCTC
* * *
94153973 ATCGGAGCATATCATATTTCAT
1 ATCGGAACATAACATATATCAT
*
94153995 ATC-AAGACATAACATATATCAT
1 ATCGGA-ACATAACATATATCAT
94154017 ATCGGAACATA
1 ATCGGAACATA
94154028 TCACAGAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCGGAACATAACATATATCAT
Found at i:94163325 original size:17 final size:17
Alignment explanation
Indices: 94163305--94163365 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
94163295 AATGAGCTAA
94163305 AAAAATAAAAATATT-TT
1 AAAAATAAAAA-ATTATT
94163322 AAAAATAAAAAATTATT
1 AAAAATAAAAAATTATT
* *
94163339 AAAATTATTAAAAAAGTATA
1 AAAA--A-TAAAAAATTATT
94163359 AAAAATA
1 AAAAATA
94163366 TTTTTTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 3 0.08
17 19 0.50
18 1 0.03
19 1 0.03
20 14 0.37
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAAATAAAAAATTATT
Found at i:94163352 original size:20 final size:20
Alignment explanation
Indices: 94163327--94163367 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
94163317 ATTTTAAAAA
* * *
94163327 TAAAAAATTATTAAAATTAT
1 TAAAAAAGTATAAAAAATAT
94163347 TAAAAAAGTATAAAAAATAT
1 TAAAAAAGTATAAAAAATAT
94163367 T
1 T
94163368 TTTTTAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAAAAAGTATAAAAAATAT
Found at i:94165426 original size:15 final size:16
Alignment explanation
Indices: 94165406--94165443 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
94165396 TTGATTTCAT
94165406 TTTACTTT-CAAGCTA
1 TTTACTTTGCAAGCTA
* *
94165421 TTTACTTTGCATGTTA
1 TTTACTTTGCAAGCTA
94165437 TTTACTT
1 TTTACTT
94165444 CTATGCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.21, C:0.16, G:0.08, T:0.55
Consensus pattern (16 bp):
TTTACTTTGCAAGCTA
Found at i:94167188 original size:49 final size:49
Alignment explanation
Indices: 94167108--94167213 Score: 142
Period size: 49 Copynumber: 2.2 Consensus size: 49
94167098 TCATCCAAGG
***
94167108 TGGTAGAATGTTTAGGTAATGGATTTTATCATTGATAGGCCATCTAGGT-
1 TGGTAGAATGTTTAGGTAATGGATACCATCATTGATAGGCCATCT-GGTA
* * *
94167157 TGGTAGAATGTTTAGGTAATGGATACCATCATTGTTGGGCTATCTGGTA
1 TGGTAGAATGTTTAGGTAATGGATACCATCATTGATAGGCCATCTGGTA
94167206 TGGTAGAA
1 TGGTAGAA
94167214 CACTGAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
48 3 0.06
49 47 0.94
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.37
Consensus pattern (49 bp):
TGGTAGAATGTTTAGGTAATGGATACCATCATTGATAGGCCATCTGGTA
Found at i:94169238 original size:11 final size:11
Alignment explanation
Indices: 94169222--94169247 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
94169212 AAGAAGAATG
94169222 CAAATTTTTAA
1 CAAATTTTTAA
94169233 CAAATTTTTAA
1 CAAATTTTTAA
94169244 CAAA
1 CAAA
94169248 GCATTGCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (11 bp):
CAAATTTTTAA
Found at i:94171603 original size:2 final size:2
Alignment explanation
Indices: 94171596--94171641 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
94171586 ATAGAAAATA
94171596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94171638 AT AT
1 AT AT
94171642 GAGGATGATG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94171808 original size:18 final size:18
Alignment explanation
Indices: 94171787--94171826 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
94171777 ATGTTAACAG
94171787 TAACCA-TAAACATAATAA
1 TAACCATTAAA-ATAATAA
*
94171805 TAACGATTAAAATAATAA
1 TAACCATTAAAATAATAA
94171823 TAAC
1 TAAC
94171827 AACAAAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.60, C:0.12, G:0.03, T:0.25
Consensus pattern (18 bp):
TAACCATTAAAATAATAA
Found at i:94171885 original size:17 final size:17
Alignment explanation
Indices: 94171843--94171897 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
94171833 ATAGAAGACA
*
94171843 ATAATAATAATAAT-AT
1 ATAAAAATAATAATAAT
94171859 ATTAAAAAATGAA-AATAAT
1 A-T-AAAAAT-AATAATAAT
94171878 ATAAAAATAATAATAAT
1 ATAAAAATAATAATAAT
94171895 ATA
1 ATA
94171898 GGGAAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
16 3 0.09
17 16 0.48
18 9 0.27
19 5 0.15
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
ATAAAAATAATAATAAT
Found at i:94172031 original size:3 final size:3
Alignment explanation
Indices: 94172023--94172180 Score: 96
Period size: 3 Copynumber: 53.3 Consensus size: 3
94172013 TAGTACCATG
* * * *
94172023 ATA ATA ATA ACA ATA ATA ATA ATA A-A ATA ATA AAA ATA ACA AT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
94172069 TTA CTA ATA ATA ATA ATAA ATAA ATG ATG GTA ATA A-A TATA TATA A-A
1 ATA ATA ATA ATA ATA AT-A AT-A ATA ATA ATA ATA ATA -ATA -ATA ATA
* * *
94172116 ATA ATA GTA ACA GTA ATA A-A ATA A-A TATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* *
94172159 ATA ATA ATA ATA TTA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
94172181 CACTCTCCCC
Statistics
Matches: 121, Mismatches: 24, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
2 12 0.10
3 96 0.79
4 13 0.11
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:94172169 original size:17 final size:17
Alignment explanation
Indices: 94172023--94172171 Score: 95
Period size: 17 Copynumber: 9.1 Consensus size: 17
94172013 TAGTACCATG
*
94172023 ATAATAATAACAATAAT
1 ATAATAATAATAATAAT
94172040 AATAATAA-AATAATAA-
1 -ATAATAATAATAATAAT
* **
94172056 A-AATAACAAT-ATGTT
1 ATAATAATAATAATAAT
94172071 ACTAATAATAATAATAA-
1 A-TAATAATAATAATAAT
* **
94172088 ATAAATGATGGTAATAA-
1 AT-AATAATAATAATAAT
94172105 AT-ATATATAA-AATAAT
1 ATAATA-ATAATAATAAT
* *
94172121 AGTAACAGTAATAA-AAT
1 A-TAATAATAATAATAAT
94172138 A-AAT-ATAATAATAAT
1 ATAATAATAATAATAAT
94172153 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
94172170 AT
1 AT
94172172 TAAAAATAAC
Statistics
Matches: 101, Mismatches: 16, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
14 13 0.13
15 18 0.18
16 7 0.07
17 50 0.50
18 13 0.13
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:94181091 original size:30 final size:30
Alignment explanation
Indices: 94181056--94181169 Score: 120
Period size: 31 Copynumber: 3.7 Consensus size: 30
94181046 CTTAATAAAA
* * *
94181056 AAAAGTTATAATTTAATTATTAAATTATTT
1 AAAAGTTTTAATTTAATCATTAAACTATTT
* * *
94181086 GAAAGTTTTTATTTTAATCATTAGACTATTT
1 AAAAG-TTTTAATTTAATCATTAAACTATTT
* *
94181117 AAAAGTTTTAATTTAAATCATTAAACTAGTC
1 AAAAGTTTTAATTT-AATCATTAAACTATTT
*
94181148 AAAAGTTTTTATTTAAGTCATT
1 AAAAGTTTTAATTTAA-TCATT
94181170 TAGTTGTTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
30 14 0.20
31 55 0.80
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (30 bp):
AAAAGTTTTAATTTAATCATTAAACTATTT
Found at i:94185602 original size:6 final size:6
Alignment explanation
Indices: 94185591--94185615 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
94185581 GGTTTTCTCT
94185591 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
94185616 CCTGGAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:94185800 original size:16 final size:16
Alignment explanation
Indices: 94185776--94185809 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
94185766 TAGAATTGGG
*
94185776 TTGAAAAATTATTTAA
1 TTGAAAAATTAATTAA
*
94185792 TTGAGAAATTAATTAA
1 TTGAAAAATTAATTAA
94185808 TT
1 TT
94185810 TAAGATGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (16 bp):
TTGAAAAATTAATTAA
Found at i:94186260 original size:27 final size:27
Alignment explanation
Indices: 94186222--94186284 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
94186212 AGTTCTCCAG
94186222 GCCTACTGGCGATCCTTACTTCACCAA
1 GCCTACTGGCGATCCTTACTTCACCAA
* *
94186249 GCCTACTGGCGATCCTTGCTTCGCCAA
1 GCCTACTGGCGATCCTTACTTCACCAA
*
94186276 ACCTACTGG
1 GCCTACTGG
94186285 TGAACACCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.19, C:0.37, G:0.19, T:0.25
Consensus pattern (27 bp):
GCCTACTGGCGATCCTTACTTCACCAA
Found at i:94186382 original size:27 final size:27
Alignment explanation
Indices: 94186336--94186388 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
94186326 CCAGTTCTAT
*
94186336 TAGCATACTCCATCGTGCCAGTCCTGC
1 TAGCATACTCCATCGTGCCAGACCTGC
94186363 TAGCATA-TACCATC-TCGCCAGACCTG
1 TAGCATACT-CCATCGT-GCCAGACCTG
94186389 TTGACGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.25
Consensus pattern (27 bp):
TAGCATACTCCATCGTGCCAGACCTGC
Found at i:94189390 original size:56 final size:56
Alignment explanation
Indices: 94189299--94189406 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 56
94189289 ATCTATTTGT
* *
94189299 ATTTTAAATTTCTTTACTTTTGTTTTCTGTTTTGATGTACTCCTGATATATAAGAG
1 ATTTCAAATTTCTTTACTATTGTTTTCTGTTTTGATGTACTCCTGATATATAAGAG
* * *
94189355 ATTTCAAATTTTTTTGCTATTGTTTTCTTTTTTGATGTACTCCTGATATATA
1 ATTTCAAATTTCTTTACTATTGTTTTCTGTTTTGATGTACTCCTGATATATA
94189407 GGAGTAAGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (56 bp):
ATTTCAAATTTCTTTACTATTGTTTTCTGTTTTGATGTACTCCTGATATATAAGAG
Found at i:94189582 original size:13 final size:13
Alignment explanation
Indices: 94189564--94189588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94189554 TTCTTTTCTC
94189564 TTATGAAATTTTA
1 TTATGAAATTTTA
94189577 TTATGAAATTTT
1 TTATGAAATTTT
94189589 GAGCCTAAAT
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:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TTATGAAATTTTA
Found at i:94193071 original size:29 final size:29
Alignment explanation
Indices: 94193039--94193227 Score: 274
Period size: 29 Copynumber: 6.5 Consensus size: 29
94193029 ATAGTGAATC
94193039 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
94193068 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
94193098 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
94193127 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* *
94193156 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * * *
94193184 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
94193214 CGCACACTTAGTGC
1 CGCACACTTAGTGC
94193228 CAATCTTGTC
Statistics
Matches: 148, Mismatches: 7, Indels: 9
0.90 0.04 0.05
Matches are distributed among these distances:
27 2 0.01
28 20 0.14
29 79 0.53
30 46 0.31
31 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:94200908 original size:30 final size:30
Alignment explanation
Indices: 94200853--94201012 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
94200843 ATAGTGAATC
94200853 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
94200882 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
94200912 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
94200941 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
94200969 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
94200999 CGCACACTTAGTGC
1 CGCACACTTAGTGC
94201013 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:94200945 original size:59 final size:57
Alignment explanation
Indices: 94200853--94201012 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
94200843 ATAGTGAATC
*
94200853 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
94200912 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
94200969 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
94201013 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:94205162 original size:70 final size:70
Alignment explanation
Indices: 94205052--94205238 Score: 234
Period size: 70 Copynumber: 2.7 Consensus size: 70
94205042 GTATATTATA
* * * * *
94205052 AATGAAGTACCGGTGTTATGGTA-AGATGTCAAATTG-ATGAAATATTGACGTTGTGGCGGGATG
1 AATGAAGTATCGGTGTTATGGCAGA-ATGTTAAA-TGAATGAAGTATTGACATTGTGGCGGGATG
94205115 TTAAATG
64 TTAAATG
* * *
94205122 AATGAAGTATCAGTGTTATGGCAGAATGTTAAATGAATGAAGTATTGGCATTGTGGTGGGATGTT
1 AATGAAGTATCGGTGTTATGGCAGAATGTTAAATGAATGAAGTATTGACATTGTGGCGGGATGTT
94205187 AAATG
66 AAATG
* * * *
94205192 AATGAAATATTGGTGTTGTGGCGGAATGTTAAATGAATGAAGTATTG
1 AATGAAGTATCGGTGTTATGGCAGAATGTTAAATGAATGAAGTATTG
94205239 TTGTTGAGGC
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
69 2 0.02
70 99 0.97
71 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.33
Consensus pattern (70 bp):
AATGAAGTATCGGTGTTATGGCAGAATGTTAAATGAATGAAGTATTGACATTGTGGCGGGATGTT
AAATG
Found at i:94205244 original size:35 final size:35
Alignment explanation
Indices: 94205101--94205250 Score: 192
Period size: 35 Copynumber: 4.3 Consensus size: 35
94205091 AAATATTGAC
* **
94205101 GTTGTGGCGGGATGTTAAATGAATGAAGTATCAGT
1 GTTGTGGCGGAATGTTAAATGAATGAAGTATTGGT
* * *
94205136 GTTATGGCAGAATGTTAAATGAATGAAGTATTGGC
1 GTTGTGGCGGAATGTTAAATGAATGAAGTATTGGT
* * * *
94205171 ATTGTGGTGGGATGTTAAATGAATGAAATATTGGT
1 GTTGTGGCGGAATGTTAAATGAATGAAGTATTGGT
*
94205206 GTTGTGGCGGAATGTTAAATGAATGAAGTATTGTT
1 GTTGTGGCGGAATGTTAAATGAATGAAGTATTGGT
*
94205241 GTTGAGGCGG
1 GTTGTGGCGG
94205251 GCTGTAAGTG
Statistics
Matches: 96, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 96 1.00
ACGTcount: A:0.29, C:0.04, G:0.33, T:0.33
Consensus pattern (35 bp):
GTTGTGGCGGAATGTTAAATGAATGAAGTATTGGT
Found at i:94205292 original size:69 final size:70
Alignment explanation
Indices: 94205063--94205292 Score: 207
Period size: 70 Copynumber: 3.3 Consensus size: 70
94205053 ATGAAGTACC
* * * * * *
94205063 GGTGTTATGGTA-AGATGTCAAATTG-ATGAAATATTGACGTTGTGGCGGGATGTTAAATGAATG
1 GGTGTTATGGCAGA-ATGTTAAA-TGAATGAAGTATTGGCATTGAGGCGGGATGTTAAATGAATG
* *
94205126 AAGTATC
64 AAATATT
* * *
94205133 AGTGTTATGGCAGAATGTTAAATGAATGAAGTATTGGCATTGTGGTGGGATGTTAAATGAATGAA
1 GGTGTTATGGCAGAATGTTAAATGAATGAAGTATTGGCATTGAGGCGGGATGTTAAATGAATGAA
94205198 ATATT
66 ATATT
* * *** * *
94205203 GGTGTTGTGGCGGAATGTTAAATGAATGAAGTATTGTTGTTGAGGCGGGCTG-TAAGTGAAT-AG
1 GGTGTTATGGCAGAATGTTAAATGAATGAAGTATTGGCATTGAGGCGGGATGTTAAATGAATGA-
**
94205266 TGTATT
65 AATATT
**
94205272 GGTGTTATGGTTGAATGTTAA
1 GGTGTTATGGCAGAATGTTAA
94205293 TTGATAAAGG
Statistics
Matches: 133, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
68 1 0.01
69 32 0.24
70 99 0.74
71 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.35
Consensus pattern (70 bp):
GGTGTTATGGCAGAATGTTAAATGAATGAAGTATTGGCATTGAGGCGGGATGTTAAATGAATGAA
ATATT
Found at i:94206031 original size:20 final size:20
Alignment explanation
Indices: 94206002--94206053 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
94205992 TTTAAAAGCC
94206002 ACACGCCCGTGTGGCTTAGG
1 ACACGCCCGTGTGGCTTAGG
*
94206022 ACACGTCCGTGTGGCTTAGG
1 ACACGCCCGTGTGGCTTAGG
*
94206042 ATACGCCCGTGT
1 ACACGCCCGTGT
94206054 AGGTAGGCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.29, G:0.33, T:0.23
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTAGG
Found at i:94207679 original size:21 final size:20
Alignment explanation
Indices: 94207650--94207724 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 20
94207640 AGAAAATTTA
94207650 ACTCATTTATTAATGACATT
1 ACTCATTTATTAATGACATT
*
94207670 ACTCAATTTATTAATAGAAAATTT
1 ACTC-ATTTATTAAT-G-ACA-TT
94207694 AACTCATTTATTAATGACATT
1 -ACTCATTTATTAATGACATT
94207715 ACTCAATTTA
1 ACTC-ATTTA
94207725 GTCCAAAACT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
20 8 0.17
21 17 0.36
22 3 0.06
23 3 0.06
24 12 0.26
25 4 0.09
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.43
Consensus pattern (20 bp):
ACTCATTTATTAATGACATT
Found at i:94207700 original size:45 final size:45
Alignment explanation
Indices: 94207636--94207724 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
94207626 TCTTAATCTA
94207636 TAATAGAAAATTTAACTCATTTATTAATGACATTACTCAATTTAT
1 TAATAGAAAATTTAACTCATTTATTAATGACATTACTCAATTTAT
94207681 TAATAGAAAATTTAACTCATTTATTAATGACATTACTCAATTTA
1 TAATAGAAAATTTAACTCATTTATTAATGACATTACTCAATTTA
94207725 GTCCAAAACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (45 bp):
TAATAGAAAATTTAACTCATTTATTAATGACATTACTCAATTTAT
Found at i:94207705 original size:24 final size:24
Alignment explanation
Indices: 94207636--94207708 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 24
94207626 TCTTAATCTA
94207636 TAATAGAAAATTTAACTCATTTAT
1 TAATAGAAAATTTAACTCATTTAT
*
94207660 TAAT-G-ACA-TT-ACTCAATTTAT
1 TAATAGAAAATTTAACTC-ATTTAT
94207681 TAATAGAAAATTTAACTCATTTAT
1 TAATAGAAAATTTAACTCATTTAT
94207705 TAAT
1 TAAT
94207709 GACATTACTC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
20 4 0.10
21 12 0.29
22 3 0.07
23 3 0.07
24 16 0.38
25 4 0.10
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (24 bp):
TAATAGAAAATTTAACTCATTTAT
Found at i:94214951 original size:22 final size:22
Alignment explanation
Indices: 94214919--94214970 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
94214909 GAGCACTAAA
* *
94214919 GTGCTATACAGAAAACACAGAT
1 GTGCTAAACAGAAAACACAGAC
* * *
94214941 GTGTTAAACAGAGAGCACAGAC
1 GTGCTAAACAGAAAACACAGAC
94214963 GTGCTAAA
1 GTGCTAAA
94214971 TATCAGAGAG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (22 bp):
GTGCTAAACAGAAAACACAGAC
Found at i:94214983 original size:25 final size:24
Alignment explanation
Indices: 94214949--94215032 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 24
94214939 ATGTGTTAAA
* *
94214949 CAGAGAGCACAGACGTGCTAAATAT
1 CAGAGAGCACTGGCGTGCT-AATAT
94214974 CAGAGAGCACTGGCGTGCTAATATT
1 CAGAGAGCACTGGCGTGCTAATA-T
*
94214999 CAGAGAGCACTGGCATGCTAATAAT
1 CAGAGAGCACTGGCGTGCTAAT-AT
94215024 CAGAGAGCA
1 CAGAGAGCA
94215033 TGCTGAGGTC
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
24 4 0.07
25 49 0.91
26 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (24 bp):
CAGAGAGCACTGGCGTGCTAATAT
Found at i:94226466 original size:29 final size:27
Alignment explanation
Indices: 94226432--94226534 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
94226422 TACTCAATCA
*
94226432 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
94226461 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
94226490 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
94226519 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
94226535 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:94229666 original size:6 final size:6
Alignment explanation
Indices: 94229643--94229832 Score: 147
Period size: 6 Copynumber: 30.8 Consensus size: 6
94229633 TATCAAAACT
* * *
94229643 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * * *
94229692 AGAATC AGAATC AAAATC AAAATC AAAATT AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
94229741 AGTATC AGGTAA-C AGAATC AGAATC AGAATC AGAATC AGAATC AGAATT
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
* *
94229790 AG-GTGAC AGAATC AGAATC AGTATC AGGTAA-C AGAATC AGAAT
1 AGAAT--C AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAAT
94229833 TAAAATGTGA
Statistics
Matches: 149, Mismatches: 20, Indels: 30
0.75 0.10 0.15
Matches are distributed among these distances:
5 7 0.05
6 124 0.83
7 13 0.09
8 5 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:94229684 original size:37 final size:37
Alignment explanation
Indices: 94229643--94229785 Score: 139
Period size: 37 Copynumber: 3.9 Consensus size: 37
94229633 TATCAAAACT
* *
94229643 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
94229680 AGAATCAGAATCAGAATCAGAATCAAAATCA--AAATC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAA-C
* * ** *
94229716 AAAAT-TAGGTGACAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAAT--CAGAATCAGAATCAGAATCAGGTAAC
*
94229754 AGAATCAGAATCAGAATCAGAATCAGAATCAG
1 AGAATCAAAATCAGAATCAGAATCAGAATCAG
94229786 AATTAGGTGA
Statistics
Matches: 81, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
35 2 0.02
36 5 0.06
37 66 0.81
38 5 0.06
39 3 0.04
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.17
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:94229686 original size:25 final size:25
Alignment explanation
Indices: 94229655--94229832 Score: 194
Period size: 25 Copynumber: 7.4 Consensus size: 25
94229645 AATCAAAATG
*
94229655 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
94229680 AGAATCAGAATCAGAATCA-G-AATC
1 AGAATCAGAATCAGAATCAGGTAA-C
* * * * *
94229704 AAAATCAAAATCAAAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
94229729 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
94229754 AGAATCAGAATCAG-A--A--T--C
1 AGAATCAGAATCAGAATCAGGTAAC
* *
94229772 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
94229797 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
94229822 AGAATCAGAAT
1 AGAATCAGAAT
94229833 TAAAATGTGA
Statistics
Matches: 128, Mismatches: 15, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
18 15 0.12
19 1 0.01
20 1 0.01
21 1 0.01
22 1 0.01
23 2 0.02
24 18 0.14
25 88 0.69
26 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:94229757 original size:68 final size:68
Alignment explanation
Indices: 94229660--94229832 Score: 271
Period size: 68 Copynumber: 2.5 Consensus size: 68
94229650 AAATGAGAAT
94229660 CAGAATCAGAATCAGGTGA-CA-G-AATCAGAATCAGAATCAGAATCAAAATCAAAATCAAAATT
1 CAGAATCAGAATCA-GT-ATCAGGTAA-CAGAATCAGAATCAGAATCAAAATCAAAATCAAAATT
94229722 AGGTGA
63 AGGTGA
* * *
94229728 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATCAGAATTAGG
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAAAATCAAAATCAAAATTAGG
94229793 TGA
66 TGA
94229796 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
94229833 TAAAATGTGA
Statistics
Matches: 99, Mismatches: 3, Indels: 6
0.92 0.03 0.06
Matches are distributed among these distances:
66 1 0.01
67 4 0.04
68 92 0.93
69 2 0.02
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.18
Consensus pattern (68 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAAAATCAAAATCAAAATTAGG
TGA
Found at i:94229763 original size:31 final size:31
Alignment explanation
Indices: 94229728--94229832 Score: 115
Period size: 31 Copynumber: 3.2 Consensus size: 31
94229718 AATTAGGTGA
94229728 CAGAATCAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
*
94229759 CAGAATCAGAATCAGAATCA-G-AATCAGAATTAGGT
1 CAGAATCAGAATCAGTATCAGGTAA-CAG-A--A--T
94229794 GACAGAATCAGAATCAGTATCAGGTAACAGAAT
1 --CAGAATCAGAATCAGTATCAGGTAACAGAAT
94229827 CAGAAT
1 CAGAAT
94229833 TAAAATGTGA
Statistics
Matches: 62, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
29 2 0.03
30 4 0.06
31 26 0.42
33 2 0.03
35 2 0.03
37 20 0.32
38 4 0.06
39 2 0.03
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAAT
Found at i:94229800 original size:37 final size:37
Alignment explanation
Indices: 94229691--94229816 Score: 133
Period size: 37 Copynumber: 3.6 Consensus size: 37
94229681 GAATCAGAAT
* * *
94229691 CAGAATCAGAATCAAAATCAAAATCAAAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGA
*
94229728 CAGAATCAGAATCAGTATCAGGTAA-CAG-A--A--T--
1 CAGAATCAGAATCAGAATCA-G-AATCAGAATTAGGTGA
94229759 CAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGA
*
94229796 CAGAATCAGAATCAGTATCAG
1 CAGAATCAGAATCAGAATCAG
94229817 GTAACAGAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
29 2 0.03
30 4 0.05
31 20 0.27
33 2 0.03
35 2 0.03
37 39 0.53
38 2 0.03
39 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGA
Found at i:94229989 original size:27 final size:26
Alignment explanation
Indices: 94229959--94230022 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
94229949 AAAGCTGCTA
* *
94229959 ATAACAGAATATTGTGGCAGAGCCACC
1 ATAACAGAATAATGTGGCAAAGCCA-C
94229986 ATAATCAG-ATAATGTGGCAAAGCCAC
1 ATAA-CAGAATAATGTGGCAAAGCCAC
*
94230012 TTAACAGAATA
1 ATAACAGAATA
94230023 CATGGCACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 3 0.09
26 7 0.22
27 19 0.59
28 3 0.09
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (26 bp):
ATAACAGAATAATGTGGCAAAGCCAC
Found at i:94230195 original size:22 final size:22
Alignment explanation
Indices: 94230170--94230234 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
94230160 GCAAATAAGT
*
94230170 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
94230192 TTGGCACAGAGCTAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
94230214 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
94230235 AATAATTGGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:94230778 original size:27 final size:27
Alignment explanation
Indices: 94230748--94230811 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
94230738 GGGGCAAAAT
94230748 AGTAATTTTACCCCACAAGGGTATTTC
1 AGTAATTTTACCCCACAAGGGTATTTC
* * *
94230775 AGTAATTCTACCCTACAGGGGTATTTC
1 AGTAATTTTACCCCACAAGGGTATTTC
*
94230802 AATAATTTTA
1 AGTAATTTTA
94230812 TAAATCGAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (27 bp):
AGTAATTTTACCCCACAAGGGTATTTC
Found at i:94230823 original size:27 final size:27
Alignment explanation
Indices: 94230793--94231077 Score: 163
Period size: 27 Copynumber: 10.6 Consensus size: 27
94230783 TACCCTACAG
* *
94230793 GGGTATTTCAATAATTTTATAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
** * * *
94230820 GGGTAAAAT-GGTAATTCTATAAATCG-
1 GGGT-ATTTCAGTAATTTTACAAATCGA
* *
94230846 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCAGTAATTTTACAAATCGA
**
94230873 GGGTATTTCAGTAATTTTACAGGTCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
94230900 GGGTATTTCAGTAATTTCACAAAT-TA
1 GGGTATTTCAGTAATTTTACAAATCGA
** *
94230926 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCAGTAATTTTACAAATCGA
** *
94230953 GGGGTATTTTGGTAATTTTACAAA-CCA
1 -GGGTATTTCAGTAATTTTACAAATCGA
** * *
94230980 TGGGTATTTTGGTAATTTTATAAA-CCA
1 -GGGTATTTCAGTAATTTTACAAATCGA
** * * *
94231007 GGGGTATTTTGGTAATTTTGCTAATCAA
1 -GGGTATTTCAGTAATTTTACAAATCGA
* * *
94231035 GGGTA-TTCAGTAATTTTATAAAACAA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
94231061 AGGTATTTTAGTAATTT
1 GGGTATTTCAGTAATTT
94231078 GGTAAACTAA
Statistics
Matches: 215, Mismatches: 35, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
25 1 0.00
26 42 0.20
27 168 0.78
28 4 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:94230968 original size:81 final size:81
Alignment explanation
Indices: 94230845--94231077 Score: 215
Period size: 81 Copynumber: 2.9 Consensus size: 81
94230835 TCTATAAATC
* * * ** *
94230845 GGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAGGTCGA-GGGTATTTC
1 GGGGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAGTAATTTTACA-AACCATGGGTATTTC
**
94230909 AGTAATTTCACAAATTA
65 AGTAATTTCACAAACCA
** *
94230926 GGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACCATGGGTATTTT
1 GGGGTATTTTGGTAATTTTAC-AACTAGAGGGTATTTCAGTAATTTTACAAACCATGGGTATTTC
* * *
94230990 GGTAATTTTATAAACCA
65 AGTAATTTCACAAACCA
* * * **
94231007 GGGGTATTTTGGTAATTTTGCTAA-TCA-AGGGTA-TTCAGTAATTTTATAAAACAAAGGTATTT
1 GGGGTATTTTGGTAATTTTAC-AACT-AGAGGGTATTTCAGTAATTTTACAAACCATGGGTATTT
*
94231069 TAGTAATTT
64 CAGTAATTT
94231078 GGTAAACTAA
Statistics
Matches: 125, Mismatches: 23, Indels: 9
0.80 0.15 0.06
Matches are distributed among these distances:
80 34 0.27
81 87 0.70
82 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAGTAATTTTACAAACCATGGGTATTTCA
GTAATTTCACAAACCA
Found at i:94231025 original size:54 final size:53
Alignment explanation
Indices: 94230828--94231077 Score: 191
Period size: 54 Copynumber: 4.7 Consensus size: 53
94230818 GAGGGTAAAA
* * * * *
94230828 TGGTAATTCTATAAATC-GGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTT
1 TGGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAA-ACCAGGGTATTT
** * *** ** * **
94230881 CAGTAATTTTACAGGTC-GAGGGTATTTCAGTAATTTCACAAATTAGGGGTATTT
1 TGGTAATTTTATAAACCAG-GGGTATTTTGGTAATTTTACAAACCA-GGGTATTT
* *
94230935 TGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCATGGGTATTT
1 TGGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAAACCA-GGGTATTT
* * *
94230989 TGGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTGCTAATCAAGGGTA-TT
1 TGGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTAC-AAACCAGGGTATTT
** * ** *
94231042 CAGTAATTTTATAAAACAAAGGTATTTTAGTAATTT
1 TGGTAATTTTATAAACCAGGGGTATTTTGGTAATTT
94231078 GGTAAACTAA
Statistics
Matches: 157, Mismatches: 36, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
53 45 0.29
54 107 0.68
55 5 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (53 bp):
TGGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGTATTT
Found at i:94235674 original size:20 final size:20
Alignment explanation
Indices: 94235649--94235686 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
94235639 GGTAGAATTA
94235649 TTATACTCAGAAAATAAAAT
1 TTATACTCAGAAAATAAAAT
* *
94235669 TTATACTTAGATAATAAA
1 TTATACTCAGAAAATAAA
94235687 TTCTCACTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (20 bp):
TTATACTCAGAAAATAAAAT
Found at i:94249267 original size:12 final size:12
Alignment explanation
Indices: 94249250--94249275 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
94249240 TCTTCTTAAT
94249250 AAAATAATGCAC
1 AAAATAATGCAC
94249262 AAAATAATGCAC
1 AAAATAATGCAC
94249274 AA
1 AA
94249276 GTGCCTCAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.15, G:0.08, T:0.15
Consensus pattern (12 bp):
AAAATAATGCAC
Found at i:94254467 original size:32 final size:32
Alignment explanation
Indices: 94254421--94254482 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
94254411 TATTCCGTGT
94254421 TTCCTTATTGTGACTTCTAGTTTAAGACAATG
1 TTCCTTATTGTGACTTCTAGTTTAAGACAATG
* *
94254453 TTCCTTATCT-TGACTTCTGGTTTAATACAA
1 TTCCTTAT-TGTGACTTCTAGTTTAAGACAA
94254483 ATCAAATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (32 bp):
TTCCTTATTGTGACTTCTAGTTTAAGACAATG
Found at i:94259504 original size:79 final size:77
Alignment explanation
Indices: 94259365--94259596 Score: 251
Period size: 79 Copynumber: 3.0 Consensus size: 77
94259355 AAAGGACTTG
* * ** *
94259365 GGAATAGAACAGGAGAAGCAAGAACTCGACCAAGAAAAAAAACTCTTCTTA-GAAAGGAACCAAA
1 GGAATA-AACAAGAGAAGCAAGAATTTAACC-AGAAAAAAAACACTTCTTAGGAAA-GAACCAAA
94259429 AACATCTGATACCAT
63 AACATCTGATACCAT
* * *
94259444 GGAATGAACAAGAGAAGGAAG-ATTTCAACCGGGAAAAGAAAACACTTCTTAGGAAAGAACCAAA
1 GGAATAAACAAGAGAAGCAAGAATTT-AACC-AGAAAA-AAAACACTTCTTAGGAAAGAACCAAA
*
94259508 AACATCTGATATCAT
63 AACATCTGATACCAT
** *
94259523 GGAATAAACACTAGAAGCAAGAATTTGACCAG-AAAAAAACA---CTTAGGAAAGAACCAAAAAC
1 GGAATAAACAAGAGAAGCAAGAATTTAACCAGAAAAAAAACACTTCTTAGGAAAGAACCAAAAAC
*
94259584 ATTTGATACCAT
66 ATCTGATACCAT
94259596 G
1 G
94259597 TGGAGAATTG
Statistics
Matches: 131, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
73 31 0.24
76 6 0.05
77 5 0.04
78 22 0.17
79 59 0.45
80 8 0.06
ACGTcount: A:0.50, C:0.17, G:0.18, T:0.16
Consensus pattern (77 bp):
GGAATAAACAAGAGAAGCAAGAATTTAACCAGAAAAAAAACACTTCTTAGGAAAGAACCAAAAAC
ATCTGATACCAT
Found at i:94259656 original size:14 final size:14
Alignment explanation
Indices: 94259637--94259665 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
94259627 ATTGTGAAAA
94259637 TACAGCTTCTACAG
1 TACAGCTTCTACAG
94259651 TACAGCTTCTACAG
1 TACAGCTTCTACAG
94259665 T
1 T
94259666 CCTATTTAGA
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:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (14 bp):
TACAGCTTCTACAG
Found at i:94260030 original size:43 final size:43
Alignment explanation
Indices: 94259965--94260053 Score: 135
Period size: 43 Copynumber: 2.1 Consensus size: 43
94259955 CATTGGGAAG
*
94259965 ATAGTTCCCTTATTGTAATAAACTACTAAAACATAAAA-AGAAA
1 ATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA-AAA
* *
94260008 ATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATAAAA
1 ATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATAAAA
94260051 ATA
1 ATA
94260054 TTTCTAGAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
43 41 0.98
44 1 0.02
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (43 bp):
ATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATAAAA
Found at i:94260097 original size:19 final size:18
Alignment explanation
Indices: 94260075--94260114 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
94260065 TGAATAAAAC
94260075 TTATCTACCCAAATAAGAT
1 TTATCTACCCAAATAA-AT
*
94260094 TTATCTACCTAAATAAAT
1 TTATCTACCCAAATAAAT
94260112 TTA
1 TTA
94260115 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCTACCCAAATAAAT
Found at i:94264743 original size:43 final size:43
Alignment explanation
Indices: 94264652--94264744 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
94264642 TTCTAATTGG
*
94264652 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACACAAAAA
* *
94264695 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGACAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACACAAAA-A
94264739 -AAAATA
1 GAAAATA
94264745 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27
Consensus pattern (43 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACACAAAAA
Found at i:94264788 original size:19 final size:18
Alignment explanation
Indices: 94264766--94264805 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
94264756 TGAATAAAAC
94264766 TTATCTACCCAAATAAGAT
1 TTATCTACCCAAATAA-AT
*
94264785 TTATCTACCTAAATAAAT
1 TTATCTACCCAAATAAAT
94264803 TTA
1 TTA
94264806 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCTACCCAAATAAAT
Found at i:94272715 original size:6 final size:6
Alignment explanation
Indices: 94272704--94272750 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
94272694 GACTTCACTA
* * * *
94272704 AAGCCC AAGCCC AAGCCT AAGCCC AAGCTC AAGCTC AAGCTC AAGCC
1 AAGCCC AAGCCC AAGCCC AAGCCC AAGCCC AAGCCC AAGCCC AAGCC
94272751 TAGAAAGAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.34, C:0.40, G:0.17, T:0.09
Consensus pattern (6 bp):
AAGCCC
Found at i:94276172 original size:14 final size:14
Alignment explanation
Indices: 94276135--94276172 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
94276125 CTCTAAATAT
94276135 AATAATTTAA-TTC
1 AATAATTTAATTTC
* *
94276148 AATTATCTAATTTC
1 AATAATTTAATTTC
94276162 AATAATTTAAT
1 AATAATTTAAT
94276173 AATATTTTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
AATAATTTAATTTC
Found at i:94276760 original size:25 final size:25
Alignment explanation
Indices: 94276730--94276779 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
94276720 TTAAACATTA
94276730 TTTTATTCCATAATTCATCACTAAC
1 TTTTATTCCATAATTCATCACTAAC
94276755 TTTTATTCCATAATTCATCACTAAC
1 TTTTATTCCATAATTCATCACTAAC
94276780 AGTCCGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTTATTCCATAATTCATCACTAAC
Found at i:94279928 original size:75 final size:75
Alignment explanation
Indices: 94279805--94280170 Score: 428
Period size: 75 Copynumber: 4.9 Consensus size: 75
94279795 CTTGTACAAC
* * * * * * ** *
94279805 CGTCGATTTATCCGACTAGCGCTGGGCGTAATTACCGTTGGTTCATCCAACTAGAGCTGGGCTCA
1 CGTCGGTTCATCCGACTAGCACTGGGTGCAAATATTGTTGGTTAATCCAACTAGAGCTGGGCTCA
* **
94279870 CAATTACCGT
66 CAATCACTAT
* * * *
94279880 CGTCGGTACA-CTCGACTAGCACTGGGTGCAAACATCGTTGGTTTATCCAACTAGAGCTGGGCTC
1 CGTCGGTTCATC-CGACTAGCACTGGGTGCAAATATTGTTGGTTAATCCAACTAGAGCTGGGCTC
*
94279944 ACAATTACTAT
65 ACAATCACTAT
* * *
94279955 CGTCGGTTTATCCGACTAGCACGGGGTGAAAATATTGTTGGTTAATCCAACTAGAGCTGGGCTCA
1 CGTCGGTTCATCCGACTAGCACTGGGTGCAAATATTGTTGGTTAATCCAACTAGAGCTGGGCTCA
*
94280020 CAATCATTAT
66 CAATCACTAT
* * * * *
94280030 TGTCGATTTATCCGACTAGCACTGGGTGCAAATATTGTTGGTTAATCCAACGAGAGTTGGGCTCA
1 CGTCGGTTCATCCGACTAGCACTGGGTGCAAATATTGTTGGTTAATCCAACTAGAGCTGGGCTCA
* *
94280095 AAATCATTAT
66 CAATCACTAT
* * * *
94280105 CTTCGGTTCATCCAACTAGCACTGGGTACAAATATTGTTGGTTAATCCAACTAGAGCTAGGCTCA
1 CGTCGGTTCATCCGACTAGCACTGGGTGCAAATATTGTTGGTTAATCCAACTAGAGCTGGGCTCA
94280170 C
66 C
94280171 TTTCATTTTT
Statistics
Matches: 251, Mismatches: 38, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
74 1 0.00
75 249 0.99
76 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (75 bp):
CGTCGGTTCATCCGACTAGCACTGGGTGCAAATATTGTTGGTTAATCCAACTAGAGCTGGGCTCA
CAATCACTAT
Found at i:94279973 original size:40 final size:40
Alignment explanation
Indices: 94279805--94280048 Score: 121
Period size: 35 Copynumber: 6.5 Consensus size: 40
94279795 CTTGTACAAC
* *
94279805 CGTCGATTTATCCGACTAGCGCTGGGCGT---AATTAC---
1 CGTCGGTTTATCCGACTAGAGCTGGGC-TCACAATTACTAT
* * * **
94279840 CGTTGGTTCATCCAACTAGAGCTGGGCTCACAATTACCGT
1 CGTCGGTTTATCCGACTAGAGCTGGGCTCACAATTACTAT
** *
94279880 CGTCGGTACA-CTCGACTAGCA-CTGGG-T-GCAA--AC-AT
1 CGTCGGTTTATC-CGACTAG-AGCTGGGCTCACAATTACTAT
* *
94279915 CGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTAT
1 CGTCGGTTTATCCGACTAGAGCTGGGCTCACAATTACTAT
* *
94279955 CGTCGGTTTATCCGACTAGCA-C-GGGGTGA-AA--A-TAT
1 CGTCGGTTTATCCGACTAG-AGCTGGGCTCACAATTACTAT
* * * * * *
94279990 TGTTGGTTAATCCAACTAGAGCTGGGCTCACAATCATTAT
1 CGTCGGTTTATCCGACTAGAGCTGGGCTCACAATTACTAT
* *
94280030 TGTCGATTTATCCGACTAG
1 CGTCGGTTTATCCGACTAG
94280049 CACTGGGTGC
Statistics
Matches: 158, Mismatches: 29, Indels: 39
0.70 0.13 0.17
Matches are distributed among these distances:
34 3 0.02
35 60 0.38
36 10 0.06
37 11 0.07
38 5 0.03
39 10 0.06
40 57 0.36
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (40 bp):
CGTCGGTTTATCCGACTAGAGCTGGGCTCACAATTACTAT
Found at i:94280055 original size:40 final size:38
Alignment explanation
Indices: 94279919--94280170 Score: 161
Period size: 35 Copynumber: 6.7 Consensus size: 38
94279909 AAACATCGTT
*
94279919 GGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCGTC
1 GGTTTATCCAACTAGAGCTGGGCTCACAA-TA-TATTGTC
* * * *
94279959 GGTTTATCCGACTAGCA-C-GGGGTGA-AA-ATATTGTT
1 GGTTTATCCAACTAG-AGCTGGGCTCACAATATATTGTC
*
94279994 GGTTAATCCAACTAGAGCTGGGCTCACAATCATTATTGTC
1 GGTTTATCCAACTAGAGCTGGGCTCACAAT-A-TATTGTC
* * * *
94280034 GATTTATCCGACTAGCA-CTGGG-T-GCAA-ATATTGTT
1 GGTTTATCCAACTAG-AGCTGGGCTCACAATATATTGTC
* * * *
94280069 GGTTAATCCAACGAGAGTTGGGCTCAAAATCATTATCT-TC
1 GGTTTATCCAACTAGAGCTGGGCTCACAAT-A-TAT-TGTC
* *
94280109 GGTTCATCCAACTAGCA-CTGGG-T-ACAA-ATATTGTT
1 GGTTTATCCAACTAG-AGCTGGGCTCACAATATATTGTC
* *
94280144 GGTTAATCCAACTAGAGCTAGGCTCAC
1 GGTTTATCCAACTAGAGCTGGGCTCAC
94280171 TTTCATTTTT
Statistics
Matches: 162, Mismatches: 30, Indels: 43
0.69 0.13 0.18
Matches are distributed among these distances:
34 4 0.02
35 62 0.38
36 10 0.06
37 6 0.04
38 8 0.05
39 9 0.06
40 59 0.36
41 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (38 bp):
GGTTTATCCAACTAGAGCTGGGCTCACAATATATTGTC
Done.