Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 338 of 356
Found at i:108254358 original size:15 final size:15
Alignment explanation
Indices: 108254351--108254407 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 15
108254341 AATATTATAT
108254351 ATAATAATACTAGAA
1 ATAATAATACTAGAA
*
108254366 ATAATAATAACTAGTA
1 ATAATAAT-ACTAGAA
*
108254382 ATAATAATACATTAAAA
1 ATAATAATAC--TAGAA
108254399 ATAATAATA
1 ATAATAATA
108254408 TGTTAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 10 0.28
16 14 0.39
17 12 0.33
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (15 bp):
ATAATAATACTAGAA
Found at i:108254418 original size:17 final size:17
Alignment explanation
Indices: 108254365--108254420 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
108254355 TAATACTAGA
* *
108254365 AATAATAATA-ACTAGT
1 AATAATAATACATTAAT
*
108254381 AATAATAATACATTAAA
1 AATAATAATACATTAAT
**
108254398 AATAATAATATGTTAAT
1 AATAATAATACATTAAT
108254415 AATAAT
1 AATAAT
108254421 GATAATATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 10 0.30
17 23 0.70
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (17 bp):
AATAATAATACATTAAT
Found at i:108254446 original size:21 final size:20
Alignment explanation
Indices: 108254417--108254484 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 20
108254407 ATGTTAATAA
108254417 TAATGATAATATGAATAATGG
1 TAAT-ATAATATGAATAATGG
108254438 TCAATAT-A-AT-AATAA---
1 T-AATATAATATGAATAATGG
108254453 TAATGATAATATGAATAATGG
1 TAAT-ATAATATGAATAATGG
108254474 TAAATATAATA
1 T-AATATAATA
108254485 ATATTAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 18
0.68 0.00 0.32
Matches are distributed among these distances:
14 3 0.08
15 3 0.08
16 1 0.03
17 2 0.05
18 10 0.26
19 2 0.05
20 1 0.03
21 10 0.26
22 6 0.16
ACGTcount: A:0.53, C:0.01, G:0.12, T:0.34
Consensus pattern (20 bp):
TAATATAATATGAATAATGG
Found at i:108254451 original size:36 final size:36
Alignment explanation
Indices: 108254411--108254487 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
108254401 AATAATATGT
*
108254411 TAATAATAATGATAATATGAATAATGGTCAATATAA
1 TAATAATAATGATAATATGAATAATGGTAAATATAA
108254447 TAATAATAATGATAATATGAATAATGGTAAATATAA
1 TAATAATAATGATAATATGAATAATGGTAAATATAA
108254483 TAATA
1 TAATA
108254488 TTAAATAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.55, C:0.01, G:0.10, T:0.34
Consensus pattern (36 bp):
TAATAATAATGATAATATGAATAATGGTAAATATAA
Found at i:108254487 original size:3 final size:3
Alignment explanation
Indices: 108254351--108254463 Score: 63
Period size: 3 Copynumber: 37.0 Consensus size: 3
108254341 AATATTATAT
* * *
108254351 ATA ATA ATA CTA GA-A ATA ATA ATA ACTA GTA ATA ATA ATA CATTA AAA
1 ATA ATA ATA ATA -ATA ATA ATA ATA A-TA ATA ATA ATA ATA -A-TA ATA
* * * * *
108254399 ATA ATA AT- ATG TTA ATA ATA ATG ATA AT- ATGA ATA ATG GTCA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA AT-A ATA
*
108254443 ATA ATA ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
108254464 TGAATAATGG
Statistics
Matches: 83, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
2 7 0.08
3 67 0.81
4 7 0.08
5 2 0.02
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:108257866 original size:15 final size:16
Alignment explanation
Indices: 108257830--108257869 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
108257820 TTTAATTTTT
*
108257830 ATAAATAAAGTTAAATA
1 ATAAA-AAAGTGAAATA
108257847 ATAAAAAAGTGAAA-A
1 ATAAAAAAGTGAAATA
108257862 ATAAAAAA
1 ATAAAAAA
108257870 AATAAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 8 0.36
17 5 0.23
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (16 bp):
ATAAAAAAGTGAAATA
Found at i:108257868 original size:16 final size:17
Alignment explanation
Indices: 108257830--108257870 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
108257820 TTTAATTTTT
* *
108257830 ATAAATAAAGTTAAATA
1 ATAAAAAAAGTGAAATA
108257847 AT-AAAAAAGTGAAA-A
1 ATAAAAAAAGTGAAATA
108257862 ATAAAAAAA
1 ATAAAAAAA
108257871 ATAAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 16 0.76
17 2 0.10
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (17 bp):
ATAAAAAAAGTGAAATA
Found at i:108258317 original size:20 final size:19
Alignment explanation
Indices: 108258292--108258365 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 19
108258282 ATATTCCTTA
108258292 AAAATATTTTTAACTTTTTT
1 AAAATATTTTTAA-TTTTTT
*
108258312 AAAATATAAATTTTGGATTTTTT
1 AAAATAT---TTTT-AATTTTTT
108258335 ATAAATATTTTTAATTTTTT
1 A-AAATATTTTTAATTTTTT
108258355 AAAATTATTTT
1 AAAA-TATTTT
108258366 GATTTTTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
19 3 0.07
20 21 0.46
21 4 0.09
23 11 0.24
24 7 0.15
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (19 bp):
AAAATATTTTTAATTTTTT
Found at i:108258342 original size:44 final size:39
Alignment explanation
Indices: 108258293--108258373 Score: 117
Period size: 44 Copynumber: 1.9 Consensus size: 39
108258283 TATTCCTTAA
108258293 AAATATTTTTAACTTTTTTAAAATATAAATTTTGGATTTTTTAT
1 AAATATTTTTAA-TTTTTTAAAAT-T--ATTTT-GATTTTTTAT
108258337 AAATATTTTTAATTTTTTAAAATTATTTTGATTTTTT
1 AAATATTTTTAATTTTTTAAAATTATTTTGATTTTTT
108258374 TGTAATTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
39 8 0.22
40 5 0.14
42 1 0.03
43 11 0.30
44 12 0.32
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (39 bp):
AAATATTTTTAATTTTTTAAAATTATTTTGATTTTTTAT
Found at i:108258374 original size:20 final size:19
Alignment explanation
Indices: 108258306--108258373 Score: 66
Period size: 19 Copynumber: 3.3 Consensus size: 19
108258296 TATTTTTAAC
108258306 TTTTTTAAAATATAAATTTTGGA
1 TTTTTTAAAAT-T--ATTTT-GA
*
108258329 TTTTTTATAAA-TATTTTTAA
1 TTTTTTA-AAATTA-TTTTGA
108258349 TTTTTTAAAATTATTTTGA
1 TTTTTTAAAATTATTTTGA
108258368 TTTTTT
1 TTTTTT
108258374 TGTAATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
19 14 0.35
20 11 0.28
21 4 0.10
22 1 0.03
23 7 0.17
24 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTTTAAAATTATTTTGA
Found at i:108258380 original size:20 final size:20
Alignment explanation
Indices: 108258321--108258380 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
108258311 TAAAATATAA
* *
108258321 ATTTTGGATTTTTTATAAAT
1 ATTTTGAATTTTTTATAATT
* *
108258341 ATTTTTAATTTTTTAAAATT
1 ATTTTGAATTTTTTATAATT
* *
108258361 ATTTTGATTTTTTTGTAATT
1 ATTTTGAATTTTTTATAATT
108258381 TTTGTTGAGA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (20 bp):
ATTTTGAATTTTTTATAATT
Found at i:108258799 original size:28 final size:28
Alignment explanation
Indices: 108258768--108258830 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
108258758 TCCCATATTA
108258768 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
108258796 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
108258824 ATGGGGT
1 ATGGGGT
108258831 CGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:108260369 original size:27 final size:27
Alignment explanation
Indices: 108260332--108260387 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
108260322 GCCCATTTGG
*
108260332 CCCCTAGCCCAAAACCCATTTTCTAAC
1 CCCCTAGCCCAAAACCCATCTTCTAAC
*
108260359 CCCCTAGCCCAAAACCTATCTTCTAAC
1 CCCCTAGCCCAAAACCCATCTTCTAAC
108260386 CC
1 CC
108260388 ACAAAGCCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.46, G:0.04, T:0.21
Consensus pattern (27 bp):
CCCCTAGCCCAAAACCCATCTTCTAAC
Found at i:108260400 original size:27 final size:27
Alignment explanation
Indices: 108260337--108260403 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
108260327 TTTGGCCCCT
* * **
108260337 AGCCCAAAACCCATTTTCTAACCCCCT
1 AGCCCAAAACCTATCTTCTAACCCCAA
108260364 AGCCCAAAACCTATCTTCTAACCCACAA
1 AGCCCAAAACCTATCTTCTAACCC-CAA
108260392 AGCCC-AAACCTA
1 AGCCCAAAACCTA
108260404 AAAAAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 29 0.83
28 6 0.17
ACGTcount: A:0.36, C:0.42, G:0.04, T:0.18
Consensus pattern (27 bp):
AGCCCAAAACCTATCTTCTAACCCCAA
Found at i:108261790 original size:26 final size:27
Alignment explanation
Indices: 108261735--108261799 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
108261725 ACATATTAAC
108261735 ATTATACTATATATATATTTTTATAAAT
1 ATTATA-TATATATATATTTTTATAAAT
* *
108261763 ATTATATATATGTATATTTTTA-ATAT
1 ATTATATATATATATATTTTTATAAAT
108261789 ATTATATATAT
1 ATTATATATAT
108261800 TGTGTACATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 14 0.40
27 15 0.43
28 6 0.17
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
ATTATATATATATATATTTTTATAAAT
Found at i:108274388 original size:44 final size:43
Alignment explanation
Indices: 108274322--108274480 Score: 139
Period size: 44 Copynumber: 3.7 Consensus size: 43
108274312 AAGATTTACA
* *
108274322 GATCTT-AACCCTTTAAGTAGTAGGGAAACAGATCAAAAGCGAAG
1 GATCTTAAACCC-CTAAGCAGTAGGGAAACAGATCAAAAGC-AAG
* * *
108274366 GGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAATA-C-A-
1 GATCTTAAACCCCTAAGCAGTAGGGAAACAGATC-AAA-AGCAAG
* ** *
108274408 GATC-TAACCCCCTAAGCAGTAGGGAAAGGGATCAAAGGCAACG
1 GATCTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAAGCAA-G
* *
108274451 GACCTTAAACCCTTAAGCAGTAGGGAAACA
1 GATCTTAAACCCCTAAGCAGTAGGGAAACA
108274481 TATCGAAGGT
Statistics
Matches: 90, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
40 4 0.04
41 25 0.28
42 3 0.03
43 4 0.04
44 44 0.49
45 9 0.10
46 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (43 bp):
GATCTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAAGCAAG
Found at i:108274441 original size:85 final size:86
Alignment explanation
Indices: 108274318--108274617 Score: 239
Period size: 85 Copynumber: 3.5 Consensus size: 86
108274308 GCTGAAGATT
** * **
108274318 TACAGATCTTAACCCTTTAAGTAGTAGGGAAACAGATCAAAAGCGAA-GGGTCTTAAACCCCTAA
1 TACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAAGC-AACGGACCTTAAACCCCTAA
*
108274382 GCAGTAGGGTAACAGACCGAAA
65 GCAGTAGGGAAACAGACCGAAA
** * *
108274404 TACAGATC-TAACCCCCTAAGCAGTAGGGAAAGGGATCAAAGGCAACGGACCTTAAACCCTTAAG
1 TACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAAGCAACGGACCTTAAACCCCTAAG
* * *
108274468 CAGTAGGGAAACATATCGAAGG
66 CAGTAGGGAAACAGACCGAA-A
* ** * * ** * ** *** *
108274490 TGA-TGGGCTTTAACCCCCTAAGTAGTAGGGTAGTA-AGCTGAATTTACAGACCTTAAACCCCTA
1 T-ACAGATC-TTAACCCCCTAAGCAGTAGGGAAACAGATCAAAAGCAACGGACCTTAAACCCCTA
* *** *
108274553 AGCAGTAGGGTAACAGGTTGAATC
64 AGCAGTAGGGAAACAGACCGAA-A
108274577 TACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAA
1 TACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAA
108274618 GGTGACAAGC
Statistics
Matches: 161, Mismatches: 46, Indels: 13
0.73 0.21 0.06
Matches are distributed among these distances:
84 2 0.01
85 61 0.38
86 34 0.21
87 44 0.27
88 20 0.12
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (86 bp):
TACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAAGCAACGGACCTTAAACCCCTAAG
CAGTAGGGAAACAGACCGAAA
Found at i:108274611 original size:43 final size:43
Alignment explanation
Indices: 108274499--108274700 Score: 163
Period size: 43 Copynumber: 4.6 Consensus size: 43
108274489 GTGATGGGCT
* ** * *
108274499 TTAACCCCCTAAGTAGTAGGGTAGTAAGCTGAATTTACAGACC
1 TTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGACC
* * *
108274542 TTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATCTACAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGACC
* * ** * *
108274585 TTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGTGACA-AGCC
1 TTAACCCCCTAAGCAGTAGGGTAACAGGTTGAA-TTTACAGA-CC
* * * *
108274629 TTAACCCCCTAAGCAGTAAGGTAATAGGTTGAAGATTTGCAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAGGTTG-A-ATTTACAGACC
* * * *
108274674 TCATCACCCTAAGCAGTAGGGAAACAG
1 TTAACCCCCTAAGCAGTAGGGTAACAG
108274701 ATCGAAGCTA
Statistics
Matches: 121, Mismatches: 33, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
43 64 0.53
44 29 0.24
45 26 0.21
46 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (43 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGACC
Found at i:108274863 original size:45 final size:45
Alignment explanation
Indices: 108274801--108274972 Score: 263
Period size: 45 Copynumber: 3.8 Consensus size: 45
108274791 AAGTCACATG
* * *
108274801 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCAAA
1 TCTTATTTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAA
* * *
108274846 TCTTATTTCCCTAAAGTTACAGTCGAGCAGACTGAAGATAGCAAA
1 TCTTATTTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAA
108274891 TCTTATTTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAA
1 TCTTATTTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAA
* * *
108274936 TCTTATTCCCCTGAAGTTGCAGTAGAACAGATTGAAG
1 TCTTATTTCCCTGAAGTTGCAGTAGAGCAGACTGAAG
108274973 CTATAAATAA
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 116 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
TCTTATTTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAA
Found at i:108275263 original size:27 final size:27
Alignment explanation
Indices: 108275225--108275277 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
108275215 CAACTGTACA
*
108275225 TATTTTCTCATTACTTAGTTATTTACT
1 TATTTCCTCATTACTTAGTTATTTACT
108275252 TATTTCCTCATTACTTAGTTATTTAC
1 TATTTCCTCATTACTTAGTTATTTAC
108275278 GTTTCTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.04, T:0.57
Consensus pattern (27 bp):
TATTTCCTCATTACTTAGTTATTTACT
Found at i:108280160 original size:28 final size:28
Alignment explanation
Indices: 108280129--108280191 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
108280119 TCCCATATTA
108280129 ATGGGGTACAGGAAAAGTCTCATAACTT
1 ATGGGGTACAGGAAAAGTCTCATAACTT
* * *
108280157 ATGGGGTATAGGAAAAGTTTTATAACTT
1 ATGGGGTACAGGAAAAGTCTCATAACTT
108280185 ATGGGGT
1 ATGGGGT
108280192 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (28 bp):
ATGGGGTACAGGAAAAGTCTCATAACTT
Found at i:108280887 original size:7 final size:7
Alignment explanation
Indices: 108280875--108280899 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
108280865 AATCCATTCG
108280875 TAAATAA
1 TAAATAA
108280882 TAAATAA
1 TAAATAA
108280889 TAAATAA
1 TAAATAA
108280896 TAAA
1 TAAA
108280900 ATTGTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAATAA
Found at i:108283450 original size:16 final size:15
Alignment explanation
Indices: 108283431--108283474 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
108283421 TTTAACTTTT
108283431 ATAAAAAAGTTAAATA
1 ATAAAAAAGTTAAA-A
* *
108283447 ATAAAAAAGTGAAAG
1 ATAAAAAAGTTAAAA
*
108283462 ATAAAAAAATTAA
1 ATAAAAAAGTTAA
108283475 GAAAAATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (15 bp):
ATAAAAAAGTTAAAA
Found at i:108283465 original size:15 final size:16
Alignment explanation
Indices: 108283431--108283469 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
108283421 TTTAACTTTT
*
108283431 ATAAAAAAGTTAAATA
1 ATAAAAAAGTGAAATA
*
108283447 ATAAAAAAGTGAAA-G
1 ATAAAAAAGTGAAATA
108283462 ATAAAAAA
1 ATAAAAAA
108283470 ATTAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (16 bp):
ATAAAAAAGTGAAATA
Found at i:108290716 original size:21 final size:20
Alignment explanation
Indices: 108290636--108290722 Score: 52
Period size: 21 Copynumber: 4.0 Consensus size: 20
108290626 TTATTTTATT
108290636 AAATAAAAA-AA-ATTAAAA
1 AAATAAAAATAATATTAAAA
108290654 AATATAATAAATCAAATATATTTAAAA
1 AA-ATAA-AAAT---A-ATA-TTAAAA
* *
108290681 ACATAAAAACAAATATTAAAA
1 AAATAAAAA-TAATATTAAAA
*
108290702 CAAATAAAAATAATACTAAAA
1 -AAATAAAAATAATATTAAAA
108290723 TAATTCTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 19
0.69 0.06 0.25
Matches are distributed among these distances:
18 2 0.04
19 4 0.08
20 3 0.06
21 15 0.28
22 11 0.21
23 1 0.02
24 1 0.02
25 4 0.08
26 5 0.09
27 7 0.13
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATAAAAATAATATTAAAA
Found at i:108304830 original size:16 final size:16
Alignment explanation
Indices: 108304809--108304844 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
108304799 AATCCCTAAC
* *
108304809 AATCTTCAAGTCCCTA
1 AATCTTCAAATACCTA
108304825 AATCTTCAAATACCTA
1 AATCTTCAAATACCTA
108304841 AATC
1 AATC
108304845 GATAGCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.03, T:0.31
Consensus pattern (16 bp):
AATCTTCAAATACCTA
Found at i:108304928 original size:32 final size:32
Alignment explanation
Indices: 108304866--108304939 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
108304856 GAAATCTTCT
* *
108304866 TGAAATCCCTAAAATTTTTACGAATCAAATCG
1 TGAAATCCCTAAAACTATTACGAATCAAATCG
*
108304898 TTG-AATCCCTAAAACTATTAGGAA-CGAAATCG
1 -TGAAATCCCTAAAACTATTACGAATC-AAATCG
108304930 TGAAATCCCT
1 TGAAATCCCT
108304940 TAGAACCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
31 3 0.08
32 31 0.86
33 2 0.06
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.28
Consensus pattern (32 bp):
TGAAATCCCTAAAACTATTACGAATCAAATCG
Found at i:108305930 original size:22 final size:22
Alignment explanation
Indices: 108305900--108305944 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
108305890 AAATTTGATC
*
108305900 ATTTGGATAAATGTACTTTACA
1 ATTTCGATAAATGTACTTTACA
*
108305922 ATTTCGATAAATGTTCTTTACA
1 ATTTCGATAAATGTACTTTACA
108305944 A
1 A
108305945 AAGCATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (22 bp):
ATTTCGATAAATGTACTTTACA
Found at i:108308795 original size:51 final size:51
Alignment explanation
Indices: 108308720--108308873 Score: 227
Period size: 51 Copynumber: 3.0 Consensus size: 51
108308710 TATGTGTAGC
* * *
108308720 AGCAACATTATCTAGTCCATCTGATGTTGCAAAGTCACCAGCATATTTATT
1 AGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTTATT
* * * *
108308771 AGCAATATTATCCACTCTATCTGATGTTGCAAAATCACCAACATATTTATC
1 AGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTTATT
* *
108308822 AGCAACATTATCCACTCCATCTGATGTTGTAAAATCACTAGCATATTTATT
1 AGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTTATT
108308873 A
1 A
108308874 CCAGCAACTT
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 90 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (51 bp):
AGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTTATT
Found at i:108310133 original size:16 final size:16
Alignment explanation
Indices: 108310112--108310145 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
108310102 GAATGCTATC
* *
108310112 GATTTAGGTATTTGAA
1 GATTTAGGGACTTGAA
108310128 GATTTAGGGACTTGAA
1 GATTTAGGGACTTGAA
108310144 GA
1 GA
108310146 CTGTTAGTGA
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:0.32, C:0.03, G:0.29, T:0.35
Consensus pattern (16 bp):
GATTTAGGGACTTGAA
Found at i:108310744 original size:14 final size:13
Alignment explanation
Indices: 108310716--108310767 Score: 59
Period size: 15 Copynumber: 3.7 Consensus size: 13
108310706 GAAGTCAATG
108310716 AAAAATAAAGAAA
1 AAAAATAAAGAAA
108310729 AAAAATAAAGTTAAA
1 AAAAATAAAG--AAA
108310744 AAAATATAAAAGAAA
1 AAAA-AT-AAAGAAA
*
108310759 AAAATTAAA
1 AAAAATAAA
108310768 TTGCTCAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
13 13 0.38
14 1 0.03
15 14 0.41
16 2 0.06
17 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (13 bp):
AAAAATAAAGAAA
Found at i:108315898 original size:18 final size:18
Alignment explanation
Indices: 108315877--108315942 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 18
108315867 TATAATATTT
108315877 TATTATGTTATTTTCATA
1 TATTATGTTATTTTCATA
* * *
108315895 TATTTTTTTAAATTTATAATA
1 TATTATGTT--ATTT-TCATA
108315916 TTTTATTATGTTATTTTCATA
1 ---TATTATGTTATTTTCATA
108315937 TATTAT
1 TATTAT
108315943 ATAATTTAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
18 13 0.36
20 4 0.11
21 8 0.22
22 4 0.11
24 7 0.19
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
TATTATGTTATTTTCATA
Found at i:108315912 original size:42 final size:42
Alignment explanation
Indices: 108315857--108315940 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
108315847 GTCTGATTTA
108315857 TTTTTAAATTTATAATATTTTATTATGTTATTTTCATATATT
1 TTTTTAAATTTATAATATTTTATTATGTTATTTTCATATATT
108315899 TTTTTAAATTTATAATATTTTATTATGTTATTTTCATATATT
1 TTTTTAAATTTATAATATTTTATTATGTTATTTTCATATATT
108315941 ATATAATTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (42 bp):
TTTTTAAATTTATAATATTTTATTATGTTATTTTCATATATT
Found at i:108316889 original size:36 final size:36
Alignment explanation
Indices: 108316849--108316917 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
108316839 GTTTAGTTCA
*
108316849 ACATGTTTAAGTTGTTTTTTAAATATATATTTACAT
1 ACATGTTTAAGTTGTTTTTTAAAAATATATTTACAT
108316885 ACATGTTTAAGTTGTTTTTTAAAAATATATTTA
1 ACATGTTTAAGTTGTTTTTTAAAAATATATTTA
108316918 TATATATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (36 bp):
ACATGTTTAAGTTGTTTTTTAAAAATATATTTACAT
Found at i:108317671 original size:29 final size:31
Alignment explanation
Indices: 108317619--108317683 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
108317609 TATAGTTTAT
*
108317619 ATTTTTATAATTTTTAAAGAATTAAATTA-A
1 ATTTTTATAATTTTTAAAGAATTAAAGTATA
** *
108317649 ATTTTTATAA-TTTTAGGGGATTAAAGTATA
1 ATTTTTATAATTTTTAAAGAATTAAAGTATA
108317679 ATTTT
1 ATTTT
108317684 AATTTTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (31 bp):
ATTTTTATAATTTTTAAAGAATTAAAGTATA
Found at i:108317684 original size:29 final size:30
Alignment explanation
Indices: 108317616--108317684 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
108317606 TTTTATAGTT
* *
108317616 TATATTTTTATAATTTTTAAAGAATTAAAT
1 TATAATTTTATAATTTTTAAAGAATTAAAG
** *
108317646 TA-AATTTTTATAA-TTTTAGGGGATTAAAG
1 TATAA-TTTTATAATTTTTAAAGAATTAAAG
108317675 TATAATTTTA
1 TATAATTTTA
108317685 ATTTTATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.51
Consensus pattern (30 bp):
TATAATTTTATAATTTTTAAAGAATTAAAG
Found at i:108319851 original size:119 final size:119
Alignment explanation
Indices: 108319634--108319852 Score: 287
Period size: 119 Copynumber: 1.8 Consensus size: 119
108319624 TCATTGATAG
* * * * *
108319634 TAGTGGTTAATTTTCTAACCGTGGATACTTACCAAAAAGTTAAATGAGTGACAATAAAATGTGTT
1 TAGTGATTAATCTTCTAACCGTAGATACTTACCAAAAAGATAAATGAGTGACAATAAAATGTATT
** *
108319699 CCATTTTTGTGAGCGGGATTAAAAATTATTTTTTTCGGTATCCATCATCAGTAA
66 CCATTTCCGCGAGCGGGATTAAAAATTATTTTTTTCGGTATCCATCATCAGTAA
* * * * *
108319753 TAGTGATTAATCTTCTAACTGTAGATGCTTTCCGAAAAGATAAATGATTGACAATAAAATGTATT
1 TAGTGATTAATCTTCTAACCGTAGATACTTACCAAAAAGATAAATGAGTGACAATAAAATGTATT
*
108319818 CTATTTCCGCGAG-GGGAGGTTAAAAATTATTTTTT
66 CCATTTCCGCGAGCGGGA--TTAAAAATTATTTTTT
108319853 AATTATTTGA
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
118 4 0.05
119 64 0.76
120 16 0.19
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (119 bp):
TAGTGATTAATCTTCTAACCGTAGATACTTACCAAAAAGATAAATGAGTGACAATAAAATGTATT
CCATTTCCGCGAGCGGGATTAAAAATTATTTTTTTCGGTATCCATCATCAGTAA
Found at i:108320944 original size:19 final size:19
Alignment explanation
Indices: 108320898--108320975 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 19
108320888 TTTTTTTTAA
* *
108320898 ATTTTTTCCTTTTTCCTTTT
1 ATTTTTT-CTTCTTCTTTTT
*
108320918 ATAATTTTC-TCTCTCTTTTT
1 AT-TTTTTCTTCT-TCTTTTT
108320938 ATTTTTT-TGTCATTCTTTTT
1 ATTTTTTCT-TC-TTCTTTTT
108320958 ATTTTTTCTTCTTCTTTT
1 ATTTTTTCTTCTTCTTTT
108320976 ATAATGTATG
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
19 13 0.27
20 29 0.60
21 6 0.12
ACGTcount: A:0.09, C:0.17, G:0.01, T:0.73
Consensus pattern (19 bp):
ATTTTTTCTTCTTCTTTTT
Found at i:108323191 original size:78 final size:78
Alignment explanation
Indices: 108323059--108323210 Score: 250
Period size: 78 Copynumber: 1.9 Consensus size: 78
108323049 GAGTCACATC
* * * *
108323059 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCCT
1 TCATGTAACTGTAGCGAATCAGAATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
108323124 AATGAATCATATA
66 AATGAATCATATA
*
108323137 TCATGTAACTGTAGCGAATCAGAATTACCTTTTCAGGTCAAATCCTATCTACCTTAAGTTACCAT
1 TCATGTAACTGTAGCGAATCAGAATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
*
108323202 AGTGAATCA
66 AATGAATCA
108323211 GGAATAAATC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.33
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGAATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
AATGAATCATATA
Found at i:108323223 original size:40 final size:40
Alignment explanation
Indices: 108323175--108323263 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
108323165 CTTTTCAGGT
108323175 CAAATCCTA-TCTAC-CTTAAGTTACCATAGTGAATCAGGAA
1 CAAATCCTATTC-ACTCTTAA-TTACCATAGTGAATCAGGAA
* * *
108323215 TAAATCCTATTCACTTTTAATTACCATTGTGAATCAGGAA
1 CAAATCCTATTCACTCTTAATTACCATAGTGAATCAGGAA
*
108323255 CAAAACCTA
1 CAAATCCTA
108323264 ACCACTTTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 36 0.86
41 6 0.14
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.30
Consensus pattern (40 bp):
CAAATCCTATTCACTCTTAATTACCATAGTGAATCAGGAA
Found at i:108323270 original size:40 final size:41
Alignment explanation
Indices: 108323190--108323311 Score: 113
Period size: 40 Copynumber: 3.0 Consensus size: 41
108323180 CCTATCTACC
* * **
108323190 TTAAGTTACCATAGTGAATCAGGAATAAATCCTATTCACTT
1 TTAAGTTACCATAGTGAATCAGGAACAAAACCTAACCACTT
*
108323231 TTAA-TTACCATTGTGAATCAGGAACAAAACCTAACCAC-T
1 TTAAGTTACCATAGTGAATCAGGAACAAAACCTAACCACTT
* * ** * * * *
108323270 TTGAGGTATTATAGTGAATCATGAACGAATCCTATCCACTT
1 TTAAGTTACCATAGTGAATCAGGAACAAAACCTAACCACTT
108323311 T
1 T
108323312 ATATTTTCGA
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
39 4 0.06
40 55 0.85
41 6 0.09
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (41 bp):
TTAAGTTACCATAGTGAATCAGGAACAAAACCTAACCACTT
Found at i:108324985 original size:10 final size:10
Alignment explanation
Indices: 108324970--108324996 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
108324960 TATATACTAG
108324970 ATAAATAATA
1 ATAAATAATA
108324980 ATAAATAATA
1 ATAAATAATA
108324990 ATAAATA
1 ATAAATA
108324997 TCTCATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
ATAAATAATA
Found at i:108327840 original size:72 final size:72
Alignment explanation
Indices: 108327723--108327961 Score: 379
Period size: 72 Copynumber: 3.3 Consensus size: 72
108327713 GAGGAAAAGT
108327723 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAACG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAACG
108327788 GAATTTG
66 GAATTTG
* * * *
108327795 ACCATTTAATTGATTTTCTGAAACATCAAAAAACTCCAAAGATGATAACTGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAACG
108327860 GAATTTG
66 GAATTTG
* * * * * *
108327867 GCCGTTTAACTGATTTTTTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAACG
*
108327932 GAATCTG
66 GAATTTG
108327939 ACCATTTAATTGATTTTCTGAAA
1 ACCATTTAATTGATTTTCTGAAA
108327962 GATAAAGGTG
Statistics
Matches: 149, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 149 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAACG
GAATTTG
Found at i:108330153 original size:8 final size:8
Alignment explanation
Indices: 108330140--108330165 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
108330130 ATTGCCAAAC
108330140 TTATTACT
1 TTATTACT
108330148 TTATTACT
1 TTATTACT
108330156 TTATTACT
1 TTATTACT
108330164 TT
1 TT
108330166 TCACAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATTACT
Found at i:108330275 original size:21 final size:22
Alignment explanation
Indices: 108330235--108330276 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
108330225 TTTTTTCCCC
*
108330235 TATATTAGTACCTAAATTTTCT
1 TATATTAGTACATAAATTTTCT
* *
108330257 TATATTGGTACATAATTTTT
1 TATATTAGTACATAAATTTT
108330277 TTGTTATAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (22 bp):
TATATTAGTACATAAATTTTCT
Found at i:108330920 original size:16 final size:16
Alignment explanation
Indices: 108330899--108330932 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
108330889 TAGTTTTCTC
108330899 TATTTTTA-AAATATTT
1 TATTTTTATAAA-ATTT
108330915 TATTTTTATAAAATTT
1 TATTTTTATAAAATTT
108330931 TA
1 TA
108330933 ATATCAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTTTATAAAATTT
Found at i:108332831 original size:23 final size:22
Alignment explanation
Indices: 108332792--108332835 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
108332782 GAAAGTAAGC
*
108332792 AAATAAATAAAAGAAAAAAATT
1 AAATAAACAAAAGAAAAAAATT
*
108332814 AAATAAAACAAAATAAAAAAAT
1 AAAT-AAACAAAAGAAAAAAAT
108332836 GGTAGTAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (22 bp):
AAATAAACAAAAGAAAAAAATT
Found at i:108333768 original size:14 final size:14
Alignment explanation
Indices: 108333732--108333769 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
108333722 AATCAGTTTC
108333732 GAAAAAAAAATAAA
1 GAAAAAAAAATAAA
*
108333746 GAGAAAAAAATAAA
1 GAAAAAAAAATAAA
108333760 -AAAATAAAAA
1 GAAAA-AAAAA
108333770 GAACCTTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 3 0.14
14 18 0.86
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (14 bp):
GAAAAAAAAATAAA
Found at i:108339017 original size:9 final size:10
Alignment explanation
Indices: 108339003--108339084 Score: 67
Period size: 12 Copynumber: 7.7 Consensus size: 10
108338993 ACCAAAGGTT
108339003 TAAATAA-AA
1 TAAATAATAA
*
108339012 TAAATAAAAA
1 TAAATAATAA
**
108339022 TAAATAGGAA
1 TAAATAATAA
*
108339032 GAAATAATAA
1 TAAATAATAA
108339042 TAATGATAATAA
1 TAA--ATAATAA
108339054 TAATAATAATAA
1 T-A-AATAATAA
108339066 TAAACTCAATAA
1 TAAA-T-AATAA
108339078 TAAATAA
1 TAAATAA
108339085 AATGATAGGA
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
9 7 0.12
10 23 0.38
11 3 0.05
12 25 0.42
13 1 0.02
14 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (10 bp):
TAAATAATAA
Found at i:108339080 original size:3 final size:3
Alignment explanation
Indices: 108339034--108339068 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
108339024 AATAGGAAGA
*
108339034 AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
108339069 ACTCAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:108340533 original size:43 final size:42
Alignment explanation
Indices: 108340472--108340846 Score: 273
Period size: 43 Copynumber: 8.8 Consensus size: 42
108340462 ATTTTAATTC
* * *
108340472 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCT
1 GCTCCACTGTAAC-TCAGGGAGATAAGATACTGTCTTCAATCT
* * * * * *
108340515 GCTCCGCTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCC
1 GCTCCACTGTAA-CTCAGGGAGATAAGATACTGT-CTTCAATCT
* *
108340559 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCT
1 GCTCCACTGTAAC-TCAGGGAGATAAGATACTGTCTTCAATCT
* * * *
108340602 GCTCCGCTGTAATCTCAGGGAGATAAGATTCTGGCCTCAATCT
1 GCTCCACTGTAA-CTCAGGGAGATAAGATACTGTCTTCAATCT
* *
108340645 GCTCCACTGTAACCTCAGGGAGATAAGAT-CTGACATTCTTTAGTCT
1 GCTCCACTGTAA-CTCAGGGAGATAAGATACTG----TCTTCAATCT
* * * * * *
108340691 GTTCCACTGTAATCTCAGGGAAATAAGA-CCTG-GTGCGATC-
1 GCTCCACTGTAA-CTCAGGGAGATAAGATACTGTCTTCAATCT
* * * *
108340731 GCTCTACTGTAACTTCAGAGAGATAAGAT-C---CTTTAATCC
1 GCTCCACTGTAAC-TCAGGGAGATAAGATACTGTCTTCAATCT
* * *
108340770 GCTCCACTGTAACTTCAGGGAGATAGGATTACTATATTCAATCT
1 GCTCCACTGTAAC-TCAGGGAGATAAGA-TACTGTCTTCAATCT
*
108340814 GCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGT
1 GCTCCACTGTAA-CTCAGGGAGATAAGATACTGT
108340847 AATTCTTTGG
Statistics
Matches: 260, Mismatches: 54, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
38 4 0.02
39 26 0.10
40 24 0.09
41 4 0.02
42 6 0.02
43 97 0.37
44 64 0.25
45 1 0.00
46 34 0.13
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (42 bp):
GCTCCACTGTAACTCAGGGAGATAAGATACTGTCTTCAATCT
Found at i:108340543 original size:87 final size:87
Alignment explanation
Indices: 108340447--108340630 Score: 350
Period size: 87 Copynumber: 2.1 Consensus size: 87
108340437 TAACCTTAAA
* *
108340447 GAGATAAGATCCTTTATTTTAATTCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGA
1 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCAA
108340512 TCTGCTCCGCTGTAATCTCAGG
66 TCTGCTCCGCTGTAATCTCAGG
108340534 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCAA
1 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCAA
108340599 TCTGCTCCGCTGTAATCTCAGG
66 TCTGCTCCGCTGTAATCTCAGG
108340621 GAGATAAGAT
1 GAGATAAGAT
108340631 TCTGGCCTCA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 95 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (87 bp):
GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCAA
TCTGCTCCGCTGTAATCTCAGG
Found at i:108359562 original size:22 final size:22
Alignment explanation
Indices: 108359537--108359578 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
108359527 TAAATTTTTC
108359537 TAAA-AAAATTCTAAAAAATATA
1 TAAAGAAAATT-TAAAAAATATA
*
108359559 TAAAGAAAGTTTAAAAAATA
1 TAAAGAAAATTTAAAAAATA
108359579 AAAAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (22 bp):
TAAAGAAAATTTAAAAAATATA
Found at i:108363161 original size:3 final size:3
Alignment explanation
Indices: 108363115--108363149 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
108363105 AATAGGAAGA
*
108363115 AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
108363150 ACTCAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:108365114 original size:72 final size:72
Alignment explanation
Indices: 108364992--108365194 Score: 257
Period size: 72 Copynumber: 2.8 Consensus size: 72
108364982 CCAGATACTC
* * ** * *
108364992 CAAAGATGATAACTCCCCTATAGACAATGGAA-AAGTACCATGTAATTGATTTTCTGAAACATCA
1 CAAAGATGATAACTCTCCTATAGACAAGGGAATTTG-ACCATTTAACTGATTTTCTGAAACATCA
108365056 AACAACTT
65 AACAACTT
* * * * *
108365064 CAAAGATGATAACTGC-CGTATAGATAAGGGAATTTGGCCGTTTAACTGATTTTTTGAAACATCA
1 CAAAGATGATAACT-CTCCTATAGACAAGGGAATTTGACCATTTAACTGATTTTCTGAAACATCA
108365128 AACAACTT
65 AACAACTT
* *
108365136 CAAAGATGATAACTCTCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAA
1 CAAAGATGATAACTCTCCTATAGACAAGGGAATTTGACCATTTAACTGATTTTCTGAAA
108365195 GATAGAGGTG
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
71 1 0.01
72 108 0.97
73 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (72 bp):
CAAAGATGATAACTCTCCTATAGACAAGGGAATTTGACCATTTAACTGATTTTCTGAAACATCAA
ACAACTT
Found at i:108372537 original size:16 final size:16
Alignment explanation
Indices: 108372516--108372547 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
108372506 AGAGAAAAAC
*
108372516 CAAAAATAAAAATAAA
1 CAAAAACAAAAATAAA
108372532 CAAAAACAAAAATAAA
1 CAAAAACAAAAATAAA
108372548 TTAAGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.09
Consensus pattern (16 bp):
CAAAAACAAAAATAAA
Found at i:108375526 original size:26 final size:26
Alignment explanation
Indices: 108375473--108375576 Score: 192
Period size: 26 Copynumber: 4.0 Consensus size: 26
108375463 AATTCCCATA
108375473 ATGGAACATTTACCTAA-CCATTATC
1 ATGGAACATTTACCTAACCCATTATC
108375498 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
*
108375524 ATGAAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
108375550 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
108375576 A
1 A
108375577 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
25 17 0.22
26 59 0.78
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATC
Found at i:108384106 original size:29 final size:28
Alignment explanation
Indices: 108384074--108384128 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
108384064 TTTCATGTTG
*
108384074 TTATTATTAGTAGTATACTATTATATTTA
1 TTATTAATAGTAGTATA-TATTATATTTA
* *
108384103 TTATTAATATTAGTATATATTTTATT
1 TTATTAATAGTAGTATATATTATATT
108384129 ATGTATGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (28 bp):
TTATTAATAGTAGTATATATTATATTTA
Found at i:108384485 original size:21 final size:23
Alignment explanation
Indices: 108384460--108384518 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 23
108384450 ATATTATTGT
*
108384460 TATATTTATTATATA-GTA-GTG
1 TATATTTATTATATATCTATGTG
108384481 TATATTT-TTAT-TATCTATGTG
1 TATATTTATTATATATCTATGTG
*
108384502 TATATATATTTATATAT
1 TATATTTA-TTATATAT
108384519 ATAGTATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 2 0.06
20 6 0.19
21 16 0.52
23 4 0.13
24 3 0.10
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (23 bp):
TATATTTATTATATATCTATGTG
Found at i:108384490 original size:23 final size:25
Alignment explanation
Indices: 108384460--108384524 Score: 84
Period size: 23 Copynumber: 2.7 Consensus size: 25
108384450 ATATTATTGT
108384460 TATATTTATTATATAGTAGTGTATA
1 TATATTTATTATATAGTAGTGTATA
*
108384485 T-T-TTTATTATCTA-T-GTGTATA
1 TATATTTATTATATAGTAGTGTATA
108384506 TATATTTATATATATAGTA
1 TATATTTAT-TATATAGTA
108384525 TGATTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
21 8 0.24
22 2 0.06
23 15 0.45
24 6 0.18
25 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (25 bp):
TATATTTATTATATAGTAGTGTATA
Found at i:108384548 original size:18 final size:19
Alignment explanation
Indices: 108384527--108384566 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
108384517 ATATAGTATG
108384527 ATTTTTAAT-TACTTTATT
1 ATTTTTAATATACTTTATT
* *
108384545 ATTTTTATTATATTTTATT
1 ATTTTTAATATACTTTATT
108384564 ATT
1 ATT
108384567 CTTTTTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTAATATACTTTATT
Found at i:108384579 original size:21 final size:22
Alignment explanation
Indices: 108384540--108384590 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
108384530 TTTAATTACT
108384540 TTATTATTTTTATTATATTTTA
1 TTATTATTTTTATTATATTTTA
* *
108384562 TTATTCTTTTT-TTGTATTTTA
1 TTATTATTTTTATTATATTTTA
*
108384583 ATATTATT
1 TTATTATT
108384591 ACTATTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (22 bp):
TTATTATTTTTATTATATTTTA
Found at i:108385760 original size:18 final size:19
Alignment explanation
Indices: 108385737--108385779 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
108385727 ACATATATGT
108385737 ATAATAAT-GATGAAAAT-A
1 ATAATAATAG-TGAAAATAA
108385755 ATAATAATAGTGAAAATAA
1 ATAATAATAGTGAAAATAA
108385774 ATAATA
1 ATAATA
108385780 TAATAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
ATAATAATAGTGAAAATAA
Found at i:108385787 original size:15 final size:17
Alignment explanation
Indices: 108385751--108385791 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
108385741 TAATGATGAA
108385751 AATAAT-AATAATAGTG
1 AATAATAAATAATAGTG
108385767 AA-AATAAATAATA-T-
1 AATAATAAATAATAGTG
108385781 AATAATAAATA
1 AATAATAAATA
108385792 TAATAGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AATAATAAATAATAGTG
Found at i:108385964 original size:26 final size:26
Alignment explanation
Indices: 108385904--108385968 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
108385894 TACGAAGAAG
* *
108385904 TATATATAATATAATAATAATATTAA
1 TATAAATAATATAAAAATAATATTAA
*
108385930 AATACAATAAT-TAAAAATAATATTATA
1 TATA-AATAATATAAAAATAATATTA-A
108385957 TATAAAT-ATATA
1 TATAAATAATATA
108385969 CAATATTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
25 2 0.06
26 21 0.66
27 9 0.28
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
TATAAATAATATAAAAATAATATTAA
Found at i:108386531 original size:20 final size:19
Alignment explanation
Indices: 108386508--108386553 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
108386498 AGGAAGAGGA
*
108386508 GGGAGAGAAAAGAGGGAGCG
1 GGGAGAGAAAAGAGGG-GAG
* *
108386528 GGGAAAGAAGAGAGGGGAG
1 GGGAGAGAAAAGAGGGGAG
108386547 GGGAGAG
1 GGGAGAG
108386554 CTCCGGCCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.39, C:0.02, G:0.59, T:0.00
Consensus pattern (19 bp):
GGGAGAGAAAAGAGGGGAG
Found at i:108387153 original size:22 final size:22
Alignment explanation
Indices: 108387096--108387153 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
108387086 TACGAGGACT
* *
108387096 GTGGAGGTATGGGACTGTTGTA
1 GTGGGGGTATGGGGCTGTTGTA
108387118 GTGGGGGTATGGGGCTGTTGTA
1 GTGGGGGTATGGGGCTGTTGTA
108387140 GTGGGGGTATGGGG
1 GTGGGGGTATGGGG
108387154 TTGCTTCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.12, C:0.03, G:0.55, T:0.29
Consensus pattern (22 bp):
GTGGGGGTATGGGGCTGTTGTA
Found at i:108387434 original size:16 final size:16
Alignment explanation
Indices: 108387413--108387444 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
108387403 ATATTTTTGT
108387413 TATATGTATGTATATA
1 TATATGTATGTATATA
*
108387429 TATATGTATTTATATA
1 TATATGTATGTATATA
108387445 ATAGTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (16 bp):
TATATGTATGTATATA
Found at i:108387813 original size:23 final size:24
Alignment explanation
Indices: 108387787--108387836 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
108387777 TTATATGTAG
*
108387787 TATGTACATA-TTTTCAATACTAT
1 TATGTAAATACTTTTCAATACTAT
* *
108387810 TATGTAAATACTTTTCATTCCTAT
1 TATGTAAATACTTTTCAATACTAT
108387834 TAT
1 TAT
108387837 TACGTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.50
Consensus pattern (24 bp):
TATGTAAATACTTTTCAATACTAT
Found at i:108391951 original size:3 final size:3
Alignment explanation
Indices: 108391945--108392063 Score: 66
Period size: 3 Copynumber: 39.0 Consensus size: 3
108391935 TCATTTCTAA
* ** *
108391945 TAT TAT TAA TAT TAT TAT GTA- TAT TAT TAT TGC TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
108391990 T-C TAGT TAT TAA CA- TAT TAT TAT TTT TAAT GTAT TAT TAT TACT AAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT TA-T TAT
*
108392037 TAT TAT TAT T-T CTAG TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT
108392064 ATATAACATT
Statistics
Matches: 87, Mismatches: 19, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
2 5 0.06
3 72 0.83
4 9 0.10
5 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:108392111 original size:23 final size:22
Alignment explanation
Indices: 108392085--108392133 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
108392075 GTGCATATTG
*
108392085 TATTATATGTATGTATATGTATA
1 TATTATATATATGT-TATGTATA
*
108392108 TATTTTTATATATGTTATGTATA
1 TA-TTATATATATGTTATGTATA
108392131 TAT
1 TAT
108392134 GTTTTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 1 0.04
23 12 0.52
24 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (22 bp):
TATTATATATATGTTATGTATA
Found at i:108392184 original size:22 final size:21
Alignment explanation
Indices: 108392145--108392209 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
108392135 TTTTCTTTTA
108392145 ATATTTTATATATTATTATGTAC
1 ATATTTTA-ATA-TATTATGTAC
*
108392168 ATATTTTAATATCATTA-GTTAT
1 ATATTTTAATAT-ATTATG-TAC
108392190 ATATATTT-ATATATTATGTA
1 ATAT-TTTAATATATTATGTA
108392210 TATTTCTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
21 8 0.22
22 18 0.49
23 11 0.30
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (21 bp):
ATATTTTAATATATTATGTAC
Found at i:108392487 original size:25 final size:24
Alignment explanation
Indices: 108392382--108392492 Score: 91
Period size: 25 Copynumber: 4.5 Consensus size: 24
108392372 ATATTTCTTT
** *
108392382 TACTATTCCATGTATATATTTTTA
1 TACTATTTTATGTATATATTTTAA
* *
108392406 TA-TCATCTTATGTATAAATTCTTGAA
1 TACT-ATTTTATGTATATATT-TT-AA
* *
108392432 TACTATGTTATATATATACTTTTAA
1 TACTATTTTATGTATATA-TTTTAA
108392457 TACTATTTTATGTATATATTATT-A
1 TACTATTTTATGTATATATT-TTAA
108392481 TATCTATTTTAT
1 TA-CTATTTTAT
108392493 CCCTATTATA
Statistics
Matches: 70, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
23 1 0.01
24 19 0.27
25 31 0.44
26 16 0.23
27 3 0.04
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.54
Consensus pattern (24 bp):
TACTATTTTATGTATATATTTTAA
Found at i:108392703 original size:23 final size:23
Alignment explanation
Indices: 108392653--108392723 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
108392643 CATACAACTT
*
108392653 TTTATCATTATTATTATATAATA
1 TTTATTATTATTATTATATAATA
* *
108392676 ATTATTATTATTATTAGTAT-ATG
1 TTTATTATTATTATTA-TATAATA
108392699 TTTATTATGTATTTATT-T-TAATA
1 TTTATTAT-TA-TTATTATATAATA
108392722 TT
1 TT
108392724 ACTATGTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
22 1 0.03
23 28 0.72
24 5 0.13
25 5 0.13
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTATTATTATTATTATATAATA
Found at i:108392918 original size:28 final size:28
Alignment explanation
Indices: 108392876--108392935 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
108392866 TATATTGTTA
108392876 TTTTCTATTATTATTA-TAAATACATTAT
1 TTTTCTATTATTATTAGT-AATACATTAT
*
108392904 TTTTCTTATTA-TATTAGTAGTACATTAT
1 TTTTC-TATTATTATTAGTAATACATTAT
108392932 TTTT
1 TTTT
108392936 ATTTTCTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (28 bp):
TTTTCTATTATTATTAGTAATACATTAT
Found at i:108396738 original size:21 final size:22
Alignment explanation
Indices: 108396701--108396750 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
108396691 TATAACTTTC
108396701 TCTTTCTTTTTATTTTTTC-TCAT
1 TCTTT-TTTTTATTTTTTCTTC-T
108396724 TCTTTTTTTTA-TTTTTCTTCT
1 TCTTTTTTTTATTTTTTCTTCT
108396745 TCTTTT
1 TCTTTT
108396751 ATAATGTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 13 0.50
22 8 0.31
23 5 0.19
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (22 bp):
TCTTTTTTTTATTTTTTCTTCT
Found at i:108400787 original size:72 final size:72
Alignment explanation
Indices: 108400670--108400878 Score: 312
Period size: 72 Copynumber: 2.9 Consensus size: 72
108400660 CCAGATACTT
**
108400670 CAAAGATGATAACTCCCCTATAGACAATGGAA-AAGTACCATTTAATTGATTTTCTGAAACATCA
1 CAAAGATGATAACTCCCCTATAGACAATGGAATTTG-ACCATTTAATTGATTTTCTGAAACATCA
*
108400734 AATAACTC
65 AAGAACTC
*
108400742 CAAAGATGATAACTCCCCTATCGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
1 CAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
108400807 AGAACTC
66 AGAACTC
* * * * * *
108400814 CAAAGATGATAACTGCCCTATAGACAAGGGAATTTGGCCGTTTAGTTGATTTTCTGAAAGATCAA
1 CAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
108400879 GGTAGGTAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
72 124 0.99
73 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.29
Consensus pattern (72 bp):
CAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
AGAACTC
Found at i:108402334 original size:72 final size:72
Alignment explanation
Indices: 108402244--108402386 Score: 214
Period size: 72 Copynumber: 2.0 Consensus size: 72
108402234 TGCGAGCCTA
* ** *
108402244 TTGAAGACACCAACTGAAGACAGTAAGCCAAAGTGCGAGCCTGTCAAAGGTGTATGGTTGCAAGC
1 TTGAAGACACCAACTGAAGACAGTAAGCAAAAAAGCGAGCCTGTCAAAGGTGTATAGTTGCAAGC
108402309 AGCAAAG
66 AGCAAAG
*** *
108402316 TTGAAGACACCTGTTGAAGACAGTAAGCAAAAAAGCGAGCCTGTCAAAGGTGTATAGTTGCGAGC
1 TTGAAGACACCAACTGAAGACAGTAAGCAAAAAAGCGAGCCTGTCAAAGGTGTATAGTTGCAAGC
108402381 AGCAAA
66 AGCAAA
108402387 ATGCAAGCCC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.17
Consensus pattern (72 bp):
TTGAAGACACCAACTGAAGACAGTAAGCAAAAAAGCGAGCCTGTCAAAGGTGTATAGTTGCAAGC
AGCAAAG
Found at i:108403857 original size:25 final size:26
Alignment explanation
Indices: 108403804--108403859 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
108403794 TTTAGGTCTT
*
108403804 AAAAGCTGAAGGAGAAAAAAAGAAAG
1 AAAAGCTAAAGGAGAAAAAAAGAAAG
* *
108403830 AAAAGCTAAAGGAG-ATAAAAGAAGG
1 AAAAGCTAAAGGAGAAAAAAAGAAAG
108403855 AAAAG
1 AAAAG
108403860 AAAATGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 14 0.52
26 13 0.48
ACGTcount: A:0.64, C:0.04, G:0.27, T:0.05
Consensus pattern (26 bp):
AAAAGCTAAAGGAGAAAAAAAGAAAG
Found at i:108405921 original size:3 final size:3
Alignment explanation
Indices: 108405913--108405945 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
108405903 ATTTAAGTAA
108405913 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
108405946 GTAACACCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:108408632 original size:26 final size:26
Alignment explanation
Indices: 108408596--108408808 Score: 345
Period size: 26 Copynumber: 8.2 Consensus size: 26
108408586 ATGAAATGCC
*
108408596 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
*
108408622 TATCATGGAACGTTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* *
108408648 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
108408674 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* * *
108408700 TATCATAGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
108408726 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* *
108408752 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
108408778 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
108408804 TATCA
1 TATCA
108408809 ATTTGTACCA
Statistics
Matches: 170, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 170 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:108408674 original size:52 final size:52
Alignment explanation
Indices: 108408596--108408808 Score: 390
Period size: 52 Copynumber: 4.1 Consensus size: 52
108408586 ATGAAATGCC
* * *
108408596 TATCATGGAACATTTACCTAAACCATTATCATGGAACGTTTACCTAACCCAT
1 TATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCAT
108408648 TATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCAT
1 TATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCAT
*
108408700 TATCATAGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCAT
1 TATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCAT
108408752 TATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCAT
1 TATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCAT
108408804 TATCA
1 TATCA
108408809 ATTTGTACCA
Statistics
Matches: 156, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 156 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (52 bp):
TATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCAT
Found at i:108410494 original size:19 final size:19
Alignment explanation
Indices: 108410456--108410494 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
108410446 AATCAGAGTC
*
108410456 CCTCAGAACACAAATTCTT
1 CCTCAGAACACAAATACTT
108410475 CCTCAGAAACACAAA-ACTT
1 CCTCAG-AACACAAATACTT
108410494 C
1 C
108410495 ATCACCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.41, C:0.33, G:0.05, T:0.21
Consensus pattern (19 bp):
CCTCAGAACACAAATACTT
Found at i:108415831 original size:26 final size:26
Alignment explanation
Indices: 108415801--108415908 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
108415791 TGAAGTTCCC
108415801 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
108415827 ATCATGGAACATTTACCTAACCAATT
1 ATCATGGAACATTTACCTAACCCATT
*
108415853 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
108415879 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
108415905 ATCA
1 ATCA
108415909 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:108417235 original size:43 final size:43
Alignment explanation
Indices: 108417180--108417302 Score: 104
Period size: 43 Copynumber: 2.8 Consensus size: 43
108417170 AGTTCTTATA
* * **
108417180 TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTGC
1 TTATATATTTCAAATTATTATATATTATTTATTTTGAAATCAC
** * * *** *
108417223 TTATATATTTCAAGCTGTTATATTTTATTTCCCTTGAAATCAT
1 TTATATATTTCAAATTATTATATATTATTTATTTTGAAATCAC
*
108417266 TTATATACTTT-AAATTTTATATATATTATTTATTTTG
1 TTATATA-TTTCAAATTAT-TATATATTATTTATTTTG
108417303 GATTATTTAT
Statistics
Matches: 60, Mismatches: 18, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
43 43 0.72
44 17 0.28
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.55
Consensus pattern (43 bp):
TTATATATTTCAAATTATTATATATTATTTATTTTGAAATCAC
Found at i:108417300 original size:18 final size:18
Alignment explanation
Indices: 108417279--108417357 Score: 81
Period size: 18 Copynumber: 4.2 Consensus size: 18
108417269 TATACTTTAA
108417279 ATTTTATATATATTATTT
1 ATTTTATATATATTATTT
* *
108417297 ATTTTGGATTATTTATATACTT
1 ATTTT--A-TATATAT-TATTT
108417319 A-TTTATATTATATT-TTT
1 ATTTTATA-TATATTATTT
108417336 ATTTTATATATATTATTT
1 ATTTTATATATATTATTT
108417354 ATTT
1 ATTT
108417358 ACTTATTTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
17 9 0.18
18 21 0.42
19 5 0.10
20 1 0.02
21 9 0.18
22 5 0.10
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (18 bp):
ATTTTATATATATTATTT
Found at i:108417331 original size:17 final size:16
Alignment explanation
Indices: 108417305--108417355 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
108417295 TTATTTTGGA
108417305 TTAT-TTATATACTTAT
1 TTATATTATATA-TTAT
*
108417321 TTATATTATATTTTTAT
1 TTATATTATA-TATTAT
108417338 TT-TA-TATATATTAT
1 TTATATTATATATTAT
108417352 TTAT
1 TTAT
108417356 TTACTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 7 0.23
15 5 0.17
16 6 0.20
17 11 0.37
18 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATATTATATATTAT
Found at i:108417344 original size:30 final size:30
Alignment explanation
Indices: 108417310--108417378 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
108417300 TTGGATTATT
*
108417310 TATATACTTATTTATATTA-TATTTTTATTTTA
1 TATATA-TTATTTAT-TTACT-TATTTATTTTA
108417342 TATATATTATTTATTTACTTATTTATTTTA
1 TATATATTATTTATTTACTTATTTATTTTA
*
108417372 TACATAT
1 TATATAT
108417379 ATACATGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 19 0.56
31 9 0.26
32 6 0.18
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (30 bp):
TATATATTATTTATTTACTTATTTATTTTA
Found at i:108417371 original size:17 final size:16
Alignment explanation
Indices: 108417308--108417373 Score: 54
Period size: 13 Copynumber: 4.4 Consensus size: 16
108417298 TTTTGGATTA
108417308 TTTATATACTTATTTA-
1 TTTATATA-TTATTTAT
*
108417324 TAT-TATATT-TTTAT
1 TTTATATATTATTTAT
108417338 TTTATATA-TA-TTA-
1 TTTATATATTATTTAT
*
108417351 TTTATTTACTTATTTAT
1 TTTATATA-TTATTTAT
108417368 TTTATA
1 TTTATA
108417374 CATATATACA
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
13 11 0.28
14 8 0.21
15 10 0.26
16 5 0.13
17 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATATATTATTTAT
Found at i:108417482 original size:3 final size:3
Alignment explanation
Indices: 108417474--108417513 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
108417464 TATTTTACTT
* *
108417474 TTA TTA TTA CTA TTA CTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
108417514 CATCGTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:108417493 original size:12 final size:12
Alignment explanation
Indices: 108417464--108417513 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
108417454 ATGCATTTCC
*
108417464 TATT-TTACTTT
1 TATTATTACTAT
108417475 TATTATTACTAT
1 TATTATTACTAT
* *
108417487 TACTATTATTAT
1 TATTATTACTAT
*
108417499 TATTATTATTAT
1 TATTATTACTAT
108417511 TAT
1 TAT
108417514 CATCGTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 4 0.12
12 30 0.88
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:108417695 original size:29 final size:31
Alignment explanation
Indices: 108417663--108417724 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
108417653 ATTATATTTC
* *
108417663 CATTTACTA-TACTTCTATTTTT-ATTTATA
1 CATTTAATATTACTTCTATTTTTCATATATA
*
108417692 CA-TTAATATTACTTTTATTTTTCATATATA
1 CATTTAATATTACTTCTATTTTTCATATATA
108417722 CAT
1 CAT
108417725 ATTTTATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
28 5 0.19
29 14 0.52
30 8 0.30
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (31 bp):
CATTTAATATTACTTCTATTTTTCATATATA
Found at i:108418093 original size:12 final size:12
Alignment explanation
Indices: 108418076--108418101 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
108418066 ATATACATGC
108418076 ATATGTATATAT
1 ATATGTATATAT
108418088 ATATGTATATAT
1 ATATGTATATAT
108418100 AT
1 AT
108418102 TTTCTATTGT
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:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:108419654 original size:14 final size:14
Alignment explanation
Indices: 108419635--108419685 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
108419625 TGTAGGTTTG
*
108419635 AATTTTAGTTTCAT
1 AATTTTAATTTCAT
*
108419649 AATTTTAATTTCAA
1 AATTTTAATTTCAT
* *
108419663 AAATATAATTTC-T
1 AATTTTAATTTCAT
108419676 ATATTTTAAT
1 A-ATTTTAAT
108419686 AGTATGATAC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
13 1 0.03
14 28 0.97
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (14 bp):
AATTTTAATTTCAT
Found at i:108423609 original size:32 final size:32
Alignment explanation
Indices: 108423573--108423637 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
108423563 TGTATGCATT
108423573 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
108423605 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
108423637 T
1 T
108423638 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:108425147 original size:26 final size:26
Alignment explanation
Indices: 108425118--108425170 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
108425108 TTTACAGTTT
108425118 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
108425144 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
108425170 T
1 T
108425171 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:108426450 original size:21 final size:22
Alignment explanation
Indices: 108426425--108426466 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
108426415 TCACATGACC
* *
108426425 AATTATAATCGATA-AATGTTG
1 AATTAGAAACGATATAATGTTG
108426446 AATTAGAAACGATATAATGTT
1 AATTAGAAACGATATAATGTT
108426467 TTATTTGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (22 bp):
AATTAGAAACGATATAATGTTG
Found at i:108426918 original size:39 final size:39
Alignment explanation
Indices: 108426875--108426968 Score: 154
Period size: 39 Copynumber: 2.4 Consensus size: 39
108426865 TGAGCTTCAG
108426875 TTAGCTTTCGGGCTTCCGTTTAGCACTTATGTGCTCCAA
1 TTAGCTTTCGGGCTTCCGTTTAGCACTTATGTGCTCCAA
* *
108426914 TTAGCTTTCGGGCTTCCGTTTAGCACTTATGTGCTTCAG
1 TTAGCTTTCGGGCTTCCGTTTAGCACTTATGTGCTCCAA
108426953 TTAGAC-TTCGGGCTTC
1 TTAG-CTTTCGGGCTTC
108426969 AGATCATAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
39 51 0.98
40 1 0.02
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.39
Consensus pattern (39 bp):
TTAGCTTTCGGGCTTCCGTTTAGCACTTATGTGCTCCAA
Found at i:108430774 original size:17 final size:17
Alignment explanation
Indices: 108430752--108430790 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
108430742 TTGTTATATA
*
108430752 TATATTTCAAATTATTT
1 TATATTTCAAATTATTG
* *
108430769 TATATTTTAAGTTATTG
1 TATATTTCAAATTATTG
108430786 TATAT
1 TATAT
108430791 GATATATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (17 bp):
TATATTTCAAATTATTG
Found at i:108430921 original size:27 final size:28
Alignment explanation
Indices: 108430891--108430947 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 28
108430881 ATCATATATT
* *
108430891 TTAAACTTCT-TATTAATTATTTTTAAA
1 TTAAACTTATATATTAATTATTTTAAAA
* *
108430918 TT-AATTTATATATTATTTATTTTAAAA
1 TTAAACTTATATATTAATTATTTTAAAA
108430945 TTA
1 TTA
108430948 TTCATATATG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (28 bp):
TTAAACTTATATATTAATTATTTTAAAA
Found at i:108430954 original size:26 final size:27
Alignment explanation
Indices: 108430901--108430956 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
108430891 TTAAACTTCT
* *
108430901 TATTAATTATTTTTAAATTAATTTATA
1 TATTAATTATTTTAAAATTAATTCATA
*
108430928 TATTATTTATTTTAAAATT-ATTCATA
1 TATTAATTATTTTAAAATTAATTCATA
108430954 TAT
1 TAT
108430957 GTCATTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (27 bp):
TATTAATTATTTTAAAATTAATTCATA
Found at i:108431037 original size:27 final size:26
Alignment explanation
Indices: 108430964--108431057 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
108430954 TATGTCATTC
* * * **
108430964 TTTAATTTGCTTTGTGTATTATAAAT
1 TTTAAATTGTTTTATGTATTATTCAT
* * ** *
108430990 TTTAAAATGCTTTATACATTATTTAT
1 TTTAAATTGTTTTATGTATTATTCAT
108431016 TTTAAACTTGTTTTATGTATTATTCAT
1 TTTAAA-TTGTTTTATGTATTATTCAT
108431043 TTTAAATTGTTTTAT
1 TTTAAATTGTTTTAT
108431058 TGTTTACTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 34 0.62
27 21 0.38
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (26 bp):
TTTAAATTGTTTTATGTATTATTCAT
Found at i:108432842 original size:122 final size:122
Alignment explanation
Indices: 108432672--108432909 Score: 343
Period size: 122 Copynumber: 1.9 Consensus size: 122
108432662 GATAATCAGG
* * * *
108432672 GTATTCATCATTGATAGCAGTGATTAATTTTCTAACCGTGGATACTTTCTGAAAAGTTAAATGAA
1 GTATCCATCATCGATAGCAGTGATTAATCTTCTAACCGTGGATACTTTCTGAAAAGATAAATGAA
* *
108432737 TGACAATAAAATGTGTTCCATTTTCGTGAGCAGGA-TTAAAAATTATTTTTCTTGTCA
66 TGACAATAAAATGTATTCCATTTTCATGAGC-GGAGTTAAAAATTATTTTTCTTGTCA
* ** * **
108432794 GTATCCATCATCGGTAGCAGTGATTAATCTTCTAATTGTGGATGCTTTCTGAAAAGATAAATGGT
1 GTATCCATCATCGATAGCAGTGATTAATCTTCTAACCGTGGATACTTTCTGAAAAGATAAATGAA
108432859 TGACAATAAAATGTATTCCATTTTCATGAGCGGAGGTTAAAAATTATTTTT
66 TGACAATAAAATGTATTCCATTTTCATGAGCGGA-GTTAAAAATTATTTTT
108432910 AAATTATTCG
Statistics
Matches: 102, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
121 3 0.03
122 84 0.82
123 15 0.15
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (122 bp):
GTATCCATCATCGATAGCAGTGATTAATCTTCTAACCGTGGATACTTTCTGAAAAGATAAATGAA
TGACAATAAAATGTATTCCATTTTCATGAGCGGAGTTAAAAATTATTTTTCTTGTCA
Found at i:108436768 original size:35 final size:35
Alignment explanation
Indices: 108436722--108436793 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
108436712 AGTGGTTCTC
108436722 TGATTTAGTAGAACTAAATGGAGGAGTTATTTATA
1 TGATTTAGTAGAACTAAATGGAGGAGTTATTTATA
*
108436757 TGATTTAGTAGAACTAAATGGAGGAGTTGTTTATA
1 TGATTTAGTAGAACTAAATGGAGGAGTTATTTATA
108436792 TG
1 TG
108436794 GGCAATGACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (35 bp):
TGATTTAGTAGAACTAAATGGAGGAGTTATTTATA
Found at i:108446503 original size:14 final size:15
Alignment explanation
Indices: 108446484--108446512 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
108446474 ATAAAGCCAA
108446484 TTCACT-TTACTTCC
1 TTCACTATTACTTCC
108446498 TTCACTATTACTTCC
1 TTCACTATTACTTCC
108446513 ATTATTTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.48
Consensus pattern (15 bp):
TTCACTATTACTTCC
Found at i:108452133 original size:188 final size:188
Alignment explanation
Indices: 108451899--108452260 Score: 652
Period size: 188 Copynumber: 1.9 Consensus size: 188
108451889 TAAATCCCCT
*
108451899 GTTAATTCTAGTAATAGATGAAAGACCACGTTATTGACCCAAATTTTCAATTATGATTTCCTTCT
1 GTTAATTCTAGTAATAGATGAAAGACCACGTTATTGACCCAAATTTTAAATTATGATTTCCTTCT
*
108451964 CTATGACATCATTCACTGTAATTTTCAATTCTTTTTCTTAGTTTCCCAAATTTCCTATTTATTTC
66 CTATGACATCATTCACTGTAATTTTCAATTCTTTTTCTCAGTTTCCCAAATTTCCTATTTATTTC
* * *
108452029 CTCTTGACAGTCAATGATGACAAATTATTTTATGTTCAGTTTTCTCCATAAAGCAGGG
131 CTCTTGACAGTCAATGACGACAAATTATATCATGTTCAGTTTTCTCCATAAAGCAGGG
*
108452087 GTTAATTCTAGTAATAGATGAAAGACCACGTTATTGAGCCAAATTTTAAATTATGATTTCCTTCT
1 GTTAATTCTAGTAATAGATGAAAGACCACGTTATTGACCCAAATTTTAAATTATGATTTCCTTCT
*
108452152 TTATGACATCATTCACTGTAATTTTCAATTCTTTTTCTCAGTTTCCCAAATTTCCTATTTATTTC
66 CTATGACATCATTCACTGTAATTTTCAATTCTTTTTCTCAGTTTCCCAAATTTCCTATTTATTTC
*
108452217 CTCTTGACAGTCACTGACGACAAATTATATCATGTTCAGTTTTC
131 CTCTTGACAGTCAATGACGACAAATTATATCATGTTCAGTTTTC
108452261 GCAATTAAGT
Statistics
Matches: 166, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
188 166 1.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (188 bp):
GTTAATTCTAGTAATAGATGAAAGACCACGTTATTGACCCAAATTTTAAATTATGATTTCCTTCT
CTATGACATCATTCACTGTAATTTTCAATTCTTTTTCTCAGTTTCCCAAATTTCCTATTTATTTC
CTCTTGACAGTCAATGACGACAAATTATATCATGTTCAGTTTTCTCCATAAAGCAGGG
Found at i:108454701 original size:72 final size:72
Alignment explanation
Indices: 108454584--108454792 Score: 312
Period size: 72 Copynumber: 2.9 Consensus size: 72
108454574 CCAGATACTT
**
108454584 CAAAGATGATAACTCCCCTATAGACAATGGAA-AAGTACCATTTAATTGATTTTCTGAAACATCA
1 CAAAGATGATAACTCCCCTATAGACAATGGAATTTG-ACCATTTAATTGATTTTCTGAAACATCA
*
108454648 AATAACTC
65 AACAACTC
*
108454656 CAAAGATGATAACTCCCCTATCGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
1 CAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
108454721 ACAACTC
66 ACAACTC
* * * * * *
108454728 CAAAGATGATAACTGCCCTATAGACAAGGGAATTTGGCCGTTTAGTTGATTTTCTGAAAGATCAA
1 CAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
108454793 GGTAAGTAAC
Statistics
Matches: 125, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
72 124 0.99
73 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (72 bp):
CAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
ACAACTC
Found at i:108469435 original size:15 final size:15
Alignment explanation
Indices: 108469415--108469443 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
108469405 TGTTACTTTG
108469415 CTGGCCATCAAATGA
1 CTGGCCATCAAATGA
108469430 CTGGCCATCAAATG
1 CTGGCCATCAAATG
108469444 TCTCGGACCC
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:0.28, G:0.21, T:0.21
Consensus pattern (15 bp):
CTGGCCATCAAATGA
Found at i:108469705 original size:24 final size:24
Alignment explanation
Indices: 108469673--108469719 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
108469663 GCATGGAGTC
108469673 CTTCCCCATATAAATACCCTAGGG
1 CTTCCCCATATAAATACCCTAGGG
108469697 CTTCCCCATATAAATACCCTAGG
1 CTTCCCCATATAAATACCCTAGG
108469720 CCACGATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.34, G:0.11, T:0.26
Consensus pattern (24 bp):
CTTCCCCATATAAATACCCTAGGG
Found at i:108469810 original size:16 final size:16
Alignment explanation
Indices: 108469785--108469815 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108469775 AACAATCTAC
*
108469785 CTCTTCTCTCCTTAAT
1 CTCTTATCTCCTTAAT
108469801 CTCTTATCTCCTTAA
1 CTCTTATCTCCTTAA
108469816 CTCCTTTACC
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:0.16, C:0.35, G:0.00, T:0.48
Consensus pattern (16 bp):
CTCTTATCTCCTTAAT
Found at i:108470356 original size:6 final size:6
Alignment explanation
Indices: 108470345--108470399 Score: 101
Period size: 6 Copynumber: 9.2 Consensus size: 6
108470335 ATTTTATCTT
*
108470345 TCTATA TCTATA TTTATA TCTATA TCTATA TCTATA TCTATA TCTATA
1 TCTATA TCTATA TCTATA TCTATA TCTATA TCTATA TCTATA TCTATA
108470393 TCTATA T
1 TCTATA T
108470400 ATAATTTCAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.53
Consensus pattern (6 bp):
TCTATA
Found at i:108471266 original size:20 final size:20
Alignment explanation
Indices: 108471241--108471282 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
108471231 ATAAAACCGT
108471241 GTTGTCAGAGTTAAGGACAC
1 GTTGTCAGAGTTAAGGACAC
108471261 GTTGTCAGAGTTAAGGACAC
1 GTTGTCAGAGTTAAGGACAC
108471281 GT
1 GT
108471283 GATTAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (20 bp):
GTTGTCAGAGTTAAGGACAC
Found at i:108472439 original size:34 final size:34
Alignment explanation
Indices: 108472398--108472487 Score: 162
Period size: 34 Copynumber: 2.6 Consensus size: 34
108472388 TTACTTTTAA
108472398 AAAATCAAATTAAAGTCAAGGTCAACACATTATT
1 AAAATCAAATTAAAGTCAAGGTCAACACATTATT
*
108472432 AAAATCAAATTAAAGTCAAGGACAACACATTATT
1 AAAATCAAATTAAAGTCAAGGTCAACACATTATT
*
108472466 AAAATCAAACTAAAGTCAAGGT
1 AAAATCAAATTAAAGTCAAGGT
108472488 GTGTGGCAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 53 1.00
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.23
Consensus pattern (34 bp):
AAAATCAAATTAAAGTCAAGGTCAACACATTATT
Found at i:108473415 original size:23 final size:22
Alignment explanation
Indices: 108473385--108473429 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
108473375 AGATTATTTT
* *
108473385 AAACTTAATTACTTAATATAAA
1 AAACTTAATAACTTAACATAAA
108473407 AAACGTTAATAACTTAACATAAA
1 AAAC-TTAATAACTTAACATAAA
108473430 TATTTTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (22 bp):
AAACTTAATAACTTAACATAAA
Found at i:108474815 original size:20 final size:21
Alignment explanation
Indices: 108474750--108474815 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 21
108474740 ATAAACATAA
108474750 AAAATTAAAAATATAATAATATT
1 AAAATTAAAAATATAAT-A-ATT
*
108474773 AACAACTTAAAAATGATATTAATT
1 AA-AA-TTAAAAAT-ATAATAATT
108474797 AAAA-TAAAAATATAATAAT
1 AAAATTAAAAATATAATAAT
108474816 ATTCTCTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 7 0.18
21 7 0.18
23 4 0.11
24 7 0.18
25 9 0.24
26 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAATTAAAAATATAATAATT
Found at i:108479944 original size:3 final size:3
Alignment explanation
Indices: 108479925--108480072 Score: 66
Period size: 3 Copynumber: 49.0 Consensus size: 3
108479915 AAATTGATAG
* * * ** * * *
108479925 TAA TAG TAA TGA TAA TAA TAA TAG TGG TAG TAA AAA TAA TAA TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * * * * *
108479973 TGG TAA TAA TAA -AA GTAA TAA TAA GAA TTAA TAT TAG TAT TAA CAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
* * * * * *
108480019 TAA TGA TAA TAG TAA TAGA AAA TAA TAA -AA AAA TGA TAA TAG TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
108480064 TAA TAA TAA
1 TAA TAA TAA
108480073 AAGTGAAGAT
Statistics
Matches: 105, Mismatches: 35, Indels: 10
0.70 0.23 0.07
Matches are distributed among these distances:
2 4 0.04
3 95 0.90
4 6 0.06
ACGTcount: A:0.57, C:0.01, G:0.11, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:108480097 original size:30 final size:29
Alignment explanation
Indices: 108480020--108480097 Score: 97
Period size: 27 Copynumber: 2.7 Consensus size: 29
108480010 TATTAACAAT
*
108480020 AATGATAATAGTAATAGAAAATAATAAAAA
1 AATGATAATAGTAATA-ATAATAATAAAAA
***
108480050 AATGATAATAGTAATAATAATAA-AAGTG
1 AATGATAATAGTAATAATAATAATAAAAA
108480078 AA-GATAATAGTAATAATAAT
1 AATGATAATAGTAATAATAAT
108480098 GGTAAATACA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 18 0.41
28 4 0.09
29 6 0.14
30 16 0.36
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (29 bp):
AATGATAATAGTAATAATAATAATAAAAA
Found at i:108480267 original size:9 final size:9
Alignment explanation
Indices: 108480243--108480301 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
108480233 CAATATATTT
*
108480243 ATAATAACG
1 ATAATAATG
*
108480252 ATAAATAATA
1 AT-AATAATG
108480262 ATAATAATG
1 ATAATAATG
108480271 ATAATAATG
1 ATAATAATG
108480280 ATAA-ATATG
1 ATAATA-ATG
* *
108480289 GTAATAATA
1 ATAATAATG
108480298 ATAA
1 ATAA
108480302 ATATAAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
8 1 0.02
9 32 0.78
10 8 0.20
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (9 bp):
ATAATAATG
Found at i:108480302 original size:18 final size:18
Alignment explanation
Indices: 108480255--108480305 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
108480245 AATAACGATA
108480255 AATAATAAT-AATAATGAT
1 AATAATAATAAAT-ATGAT
* *
108480273 AATAATGATAAATATGGT
1 AATAATAATAAATATGAT
108480291 AATAATAATAAATAT
1 AATAATAATAAATAT
108480306 AAAAAAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 26 0.90
19 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
AATAATAATAAATATGAT
Found at i:108480389 original size:16 final size:16
Alignment explanation
Indices: 108480368--108480407 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
108480358 AACATGTTAA
*
108480368 TAATAAATTAATGAAT
1 TAATAAATGAATGAAT
*
108480384 TAATAAAAGAATGAAT
1 TAATAAATGAATGAAT
*
108480400 AAATAAAT
1 TAATAAAT
108480408 ACACAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (16 bp):
TAATAAATGAATGAAT
Done.