Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 105 of 228
Found at i:30499872 original size:183 final size:185
Alignment explanation
Indices: 30499549--30499906 Score: 578
Period size: 183 Copynumber: 1.9 Consensus size: 185
30499539 ATTTATGCTG
*** *
30499549 TTGTACTATTATACTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTATGGTTTAATAG
1 TTGTACTATTATACTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTATAACTTAACAG
* * *
30499614 ACTTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGTTTCAATTAACTAACTT
66 AC-TTTTTTTGTTTAATTTATGCAATTGTACTATTATATTAATTTAGGCTTCAATTAAATAACTT
* *
30499679 TAAAGTTTAAAGTATAGTTTAATATACTTTTTTTTGTTTAATTTACACGGTTGTAC
130 TAAAGTTTAAAATATAGTTTAACATACTTTTTTTTGTTTAATTTACACGGTTGTAC
*
30499735 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAA-TGATAACTTAACA
1 TTGTACTATTATACTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACT-ATAACTTAACA
30499799 GAC-TTTTTT-TTTAATTTATGCAATTGTACTATTATATTAATTTAGGCTTCAATTAAATAACTT
65 GACTTTTTTTGTTTAATTTATGCAATTGTACTATTATATTAATTTAGGCTTCAATTAAATAACTT
*
30499862 TAAAGTTTAAAATGTAGTTTAACATACTTTTTTTTGTTTAATTTA
130 TAAAGTTTAAAATATAGTTTAACATACTTTTTTTTGTTTAATTTA
30499907 TGCTGCCGTA
Statistics
Matches: 160, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
183 93 0.58
184 6 0.04
185 1 0.01
186 60 0.38
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (185 bp):
TTGTACTATTATACTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTATAACTTAACAG
ACTTTTTTTGTTTAATTTATGCAATTGTACTATTATATTAATTTAGGCTTCAATTAAATAACTTT
AAAGTTTAAAATATAGTTTAACATACTTTTTTTTGTTTAATTTACACGGTTGTAC
Found at i:30506636 original size:27 final size:27
Alignment explanation
Indices: 30506615--30506679 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
30506605 TCTCGCTAGA
*
30506615 CCTATTGGCGAACTCCAGCTCGCCAAG
1 CCTACTGGCGAACTCCAGCTCGCCAAG
30506642 CCTACTGGCGAACTCCAGCTCGCCAAG
1 CCTACTGGCGAACTCCAGCTCGCCAAG
30506669 CCTACTGGCGA
1 CCTACTGGCGA
30506680 TCACAGTTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.22, C:0.38, G:0.23, T:0.17
Consensus pattern (27 bp):
CCTACTGGCGAACTCCAGCTCGCCAAG
Found at i:30508131 original size:76 final size:76
Alignment explanation
Indices: 30507998--30508138 Score: 178
Period size: 76 Copynumber: 1.9 Consensus size: 76
30507988 TCAAGATGTG
* * * * ** * *
30507998 ATGATGTGATTAGTGTTACTGAAACAAGACTAGATCGGATGAATTGAGAATTTATCGATATAACA
1 ATGATGTGACTAGTGTTACTGAAACAAGACCAAATCGGAAGAACCGAAAATTAATCGATATAACA
30508063 GTTCGAACAAA
66 GTTCGAACAAA
30508074 ATGATGTGACTAGTGTTACT-AGAACAAGACCAAATCGGACAG-ACCGAAAATTAATCGATATAA
1 ATGATGTGACTAGTGTTACTGA-AACAAGACCAAATCGGA-AGAACCGAAAATTAATCGATATAA
30508137 CA
64 CA
30508139 ATTTGAACGA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
75 1 0.02
76 53 0.96
77 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (76 bp):
ATGATGTGACTAGTGTTACTGAAACAAGACCAAATCGGAAGAACCGAAAATTAATCGATATAACA
GTTCGAACAAA
Found at i:30509412 original size:17 final size:15
Alignment explanation
Indices: 30509356--30509409 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
30509346 TTTTTCACGT
*
30509356 TCTCCTTCCCTTCTTTC
1 TCTCTTTCCC-TC-TTC
*
30509373 TTTCTTTCCCTCTTC
1 TCTCTTTCCCTCTTC
30509388 TCTCTTTCCCGTC-TC
1 TCTCTTTCCC-TCTTC
30509403 TCTCTTT
1 TCTCTTT
30509410 TTCTTTTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 21 0.64
16 4 0.12
17 8 0.24
ACGTcount: A:0.00, C:0.43, G:0.02, T:0.56
Consensus pattern (15 bp):
TCTCTTTCCCTCTTC
Found at i:30510407 original size:30 final size:30
Alignment explanation
Indices: 30510371--30510433 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
30510361 ACTTATTTTA
*
30510371 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
30510401 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
30510431 TTG
1 TTG
30510434 CTTGATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:30510588 original size:13 final size:11
Alignment explanation
Indices: 30510554--30510581 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
30510544 TATATATATT
30510554 TAAAAATAATA
1 TAAAAATAATA
30510565 TAAAAATAATA
1 TAAAAATAATA
30510576 TAAAAA
1 TAAAAA
30510582 ATTAATACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:30512640 original size:62 final size:61
Alignment explanation
Indices: 30512480--30512629 Score: 157
Period size: 62 Copynumber: 2.5 Consensus size: 61
30512470 TTGTTATTAA
** *
30512480 ATTTTAATAGGATTATTATTAGAA-T-AATTTAAT-AATA-AATAATAAATAATGTAATCAC
1 ATTTTAATATAATTATTATTA-AATTAAATTTAATAAAAATAATAATAAATAATGTAATCAC
* * *
30512538 ATTTTAATATAATTATTATTAAATTTAATTTAATAAAAATAATAA-AATATAATTTAATTAC
1 ATTTTAATATAATTATTATTAAATTAAATTTAATAAAAATAATAATAA-ATAATGTAATCAC
* * *
30512599 ATTTTTAATCTAATTATTTTTATATTAAATT
1 A-TTTTAATATAATTATTATTAAATTAAATT
30512630 ATATTTAAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
57 2 0.03
58 20 0.26
59 8 0.10
60 5 0.06
61 17 0.22
62 25 0.32
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (61 bp):
ATTTTAATATAATTATTATTAAATTAAATTTAATAAAAATAATAATAAATAATGTAATCAC
Found at i:30513269 original size:30 final size:30
Alignment explanation
Indices: 30513234--30513291 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
30513224 ATTTTATTAT
*
30513234 TTTTGTTATTATTTTAAAGGCATTTGCTAA
1 TTTTGTTATTATTTTAAAGACATTTGCTAA
*
30513264 TTTTGTTATTATTTTAGAGACATTTGCT
1 TTTTGTTATTATTTTAAAGACATTTGCT
30513292 TATTAAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (30 bp):
TTTTGTTATTATTTTAAAGACATTTGCTAA
Found at i:30515877 original size:19 final size:19
Alignment explanation
Indices: 30515844--30515944 Score: 53
Period size: 19 Copynumber: 5.3 Consensus size: 19
30515834 AGGGAAACTA
* *
30515844 GCACATATAGCGCATATTG
1 GCACATAAAGTGCATATTG
**
30515863 GCACATAAAGTGCATCCTG
1 GCACATAAAGTGCATATTG
* * * *
30515882 GCGCACAAAGCGCATACTG
1 GCACATAAAGTGCATATTG
* * *
30515901 GCACACAAAATGCA-ATCTA
1 GCACATAAAGTGCATAT-TG
* *
30515920 G-AGCATGAAGTGCATCTTG
1 GCA-CATAAAGTGCATATTG
30515939 GCACAT
1 GCACAT
30515945 GAGGTGCATC
Statistics
Matches: 60, Mismatches: 18, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
18 2 0.03
19 56 0.93
20 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.20
Consensus pattern (19 bp):
GCACATAAAGTGCATATTG
Found at i:30515897 original size:38 final size:38
Alignment explanation
Indices: 30515852--30515962 Score: 107
Period size: 38 Copynumber: 2.9 Consensus size: 38
30515842 TAGCACATAT
30515852 AGCGCATATTGGCACATAAAGTGCATCCTGGCGCACAA
1 AGCGCATATTGGCACATAAAGTGCATCCTGGCGCACAA
* * * * * **
30515890 AGCGCATACTGGCACACAAAATGCAAT-CTAGAGCATGA
1 AGCGCATATTGGCACATAAAGTGC-ATCCTGGCGCACAA
* * * *
30515928 AGTGCATCTTGGCACATGAGGTGCATCCTGGCGCA
1 AGCGCATATTGGCACATAAAGTGCATCCTGGCGCA
30515963 TAAATGACTT
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
37 2 0.04
38 51 0.93
39 2 0.04
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (38 bp):
AGCGCATATTGGCACATAAAGTGCATCCTGGCGCACAA
Found at i:30515945 original size:19 final size:19
Alignment explanation
Indices: 30515861--30515959 Score: 58
Period size: 19 Copynumber: 5.2 Consensus size: 19
30515851 TAGCGCATAT
*
30515861 TGGCACATAAAGTGCATCC
1 TGGCACATGAAGTGCATCC
* ** * *
30515880 TGGCGCACAAAGCGCATAC
1 TGGCACATGAAGTGCATCC
** *
30515899 TGGCACACAAAATGCAAT-C
1 TGGCACATGAAGTGC-ATCC
* *
30515918 TAG-AGCATGAAGTGCATCT
1 TGGCA-CATGAAGTGCATCC
*
30515937 TGGCACATGAGGTGCATCC
1 TGGCACATGAAGTGCATCC
30515956 TGGC
1 TGGC
30515960 GCATAAATGA
Statistics
Matches: 61, Mismatches: 15, Indels: 8
0.73 0.18 0.10
Matches are distributed among these distances:
18 3 0.05
19 55 0.90
20 3 0.05
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.19
Consensus pattern (19 bp):
TGGCACATGAAGTGCATCC
Found at i:30516198 original size:21 final size:21
Alignment explanation
Indices: 30516155--30516200 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
30516145 TTTATTAGTT
*
30516155 TAATCTTAATTAAGTAAACAC
1 TAATCTTAATTAACTAAACAC
*
30516176 TAATCTTTAATTAACTTAA-AC
1 TAATC-TTAATTAACTAAACAC
30516197 TAAT
1 TAAT
30516201 GGCATCCACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.46, C:0.13, G:0.02, T:0.39
Consensus pattern (21 bp):
TAATCTTAATTAACTAAACAC
Found at i:30517729 original size:21 final size:19
Alignment explanation
Indices: 30517685--30517729 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
30517675 AATATTTCTT
*
30517685 ATAAATTTATTTAATTTAT
1 ATAAATTTATTTAATTTAA
*
30517704 GTAAATTTTAATTTAATTTAA
1 ATAAA-TTT-ATTTAATTTAA
30517725 ATAAA
1 ATAAA
30517730 AATAAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.19
20 3 0.14
21 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATAAATTTATTTAATTTAA
Found at i:30528773 original size:24 final size:24
Alignment explanation
Indices: 30528744--30528792 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
30528734 CGTTCTAGTC
30528744 CTTAACCTTCATCAATGAAACAGT
1 CTTAACCTTCATCAATGAAACAGT
30528768 CTTAACCTTCATCAATGAAACAGT
1 CTTAACCTTCATCAATGAAACAGT
30528792 C
1 C
30528793 AACCTATCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.29
Consensus pattern (24 bp):
CTTAACCTTCATCAATGAAACAGT
Found at i:30546496 original size:18 final size:18
Alignment explanation
Indices: 30546452--30546506 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
30546442 ATTATTCAAT
*
30546452 TTTATATTTTATTTTATATA
1 TTTATA-TTTA-TTTATTTA
**
30546472 TAAATATTTATTTATTTA
1 TTTATATTTATTTATTTA
*
30546490 TTTATATTTATATATTT
1 TTTATATTTATTTATTT
30546507 GTTCGCTAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
18 21 0.72
19 4 0.14
20 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATATTTATTTATTTA
Found at i:30546497 original size:14 final size:14
Alignment explanation
Indices: 30546452--30546506 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 14
30546442 ATTATTCAAT
30546452 TTTATATTT-TAT-
1 TTTATATTTATATA
* *
30546464 TTTATATATAAATA
1 TTTATATTTATATA
*
30546478 -TT-TATTTATTTA
1 TTTATATTTATATA
30546490 TTTATATTTATATA
1 TTTATATTTATATA
30546504 TTT
1 TTT
30546507 GTTCGCTAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
12 15 0.45
13 6 0.18
14 12 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATATTTATATA
Found at i:30559270 original size:42 final size:41
Alignment explanation
Indices: 30559223--30559361 Score: 152
Period size: 42 Copynumber: 3.3 Consensus size: 41
30559213 GCACATAAGT
* * * *
30559223 GCTAAACGGAAACCCGTAAAGGTTAAATGAAAGCTCATAGGA
1 GCTAAACGGAAACCCATAAGGGTTAAATG-AAGCTCAAAAGA
* * *
30559265 GCTAAACGAAAACCTATAAGGGTTAATCTGAAGCTCAAAAGA
1 GCTAAACGGAAACCCATAAGGGTTAA-ATGAAGCTCAAAAGA
* *
30559307 GCTAAACTGAAACCCATTAGGGTTAAACTGAAGCTCAAAAGA
1 GCTAAACGGAAACCCATAAGGGTTAAA-TGAAGCTCAAAAGA
* *
30559349 GCTGAACTGAAAC
1 GCTAAACGGAAAC
30559362 TAGAAGAGTT
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 80 0.98
43 2 0.02
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.18
Consensus pattern (41 bp):
GCTAAACGGAAACCCATAAGGGTTAAATGAAGCTCAAAAGA
Found at i:30559399 original size:20 final size:21
Alignment explanation
Indices: 30559244--30559421 Score: 105
Period size: 21 Copynumber: 8.6 Consensus size: 21
30559234 ACCCGTAAAG
*
30559244 GTTAAA-TGAAAGCTCATAGGA
1 GTTAAACTGAAA-CTCATAAGA
* *
30559265 GCTAAAC-GAAAAC-CTATAAGG
1 GTTAAACTG-AAACTC-ATAAGA
* * *
30559286 GTTAATCTGAAGCTCAAAAGA
1 GTTAAACTGAAACTCATAAGA
* * * *
30559307 GCTAAACTGAAACCCATTAGG
1 GTTAAACTGAAACTCATAAGA
* *
30559328 GTTAAACTGAAGCTCAAAAGA
1 GTTAAACTGAAACTCATAAGA
* * *
30559349 GCTGAACTGAAACT-AGAAGA
1 GTTAAACTGAAACTCATAAGA
* *
30559369 GTTAAAATGAAACTCATATGA
1 GTTAAACTGAAACTCATAAGA
* *
30559390 GTT-AACTGAAGCTCATGAGA
1 GTTAAACTGAAACTCATAAGA
* *
30559410 GCTAAACGGAAA
1 GTTAAACTGAAA
30559422 GCAAAAATGG
Statistics
Matches: 113, Mismatches: 37, Indels: 14
0.69 0.23 0.09
Matches are distributed among these distances:
20 32 0.28
21 76 0.67
22 5 0.04
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.20
Consensus pattern (21 bp):
GTTAAACTGAAACTCATAAGA
Found at i:30560937 original size:12 final size:13
Alignment explanation
Indices: 30560931--30560961 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
30560921 TTTATTGTTC
30560931 TATTTATTTATCT
1 TATTTATTTATCT
30560944 TATTTATTTAT-T
1 TATTTATTTATCT
30560956 TATTTA
1 TATTTA
30560962 ACTTGGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTTATTTATCT
Found at i:30560940 original size:4 final size:4
Alignment explanation
Indices: 30560931--30560961 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
30560921 TTTATTGTTC
30560931 TATT TATT TATCT TATT TATT TATT TATT TA
1 TATT TATT TAT-T TATT TATT TATT TATT TA
30560962 ACTTGGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:30568600 original size:25 final size:25
Alignment explanation
Indices: 30568572--30568650 Score: 140
Period size: 25 Copynumber: 3.2 Consensus size: 25
30568562 TGTAGTGGTA
30568572 AGGTGGCGGCACAGGTGTGGCAAGG
1 AGGTGGCGGCACAGGTGTGGCAAGG
30568597 AGGTGGCGGCACAGGTGTGGCAAGG
1 AGGTGGCGGCACAGGTGTGGCAAGG
* *
30568622 AGGTGGCGTCACAGGTGTGGTAAGG
1 AGGTGGCGGCACAGGTGTGGCAAGG
30568647 AGGT
1 AGGT
30568651 CAGAGGTTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.20, C:0.14, G:0.51, T:0.15
Consensus pattern (25 bp):
AGGTGGCGGCACAGGTGTGGCAAGG
Found at i:30570089 original size:26 final size:26
Alignment explanation
Indices: 30570006--30570095 Score: 117
Period size: 27 Copynumber: 3.4 Consensus size: 26
30569996 TAAAAGACTG
*
30570006 AAATACCCTCAATGGATAAAAGTATCA
1 AAATACCCTCAATGG-TAAAATTATCA
* * *
30570033 AAATACCCTCGATAAGTAAAATTATCG
1 AAATACCCTCAAT-GGTAAAATTATCA
*
30570060 AAATACCCTCAATGGTAAAATTACCA
1 AAATACCCTCAATGGTAAAATTATCA
30570086 AAATACCCTC
1 AAATACCCTC
30570096 TGTCGAAACC
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 20 0.37
27 33 0.61
28 1 0.02
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.23
Consensus pattern (26 bp):
AAATACCCTCAATGGTAAAATTATCA
Found at i:30573653 original size:44 final size:42
Alignment explanation
Indices: 30573464--30573660 Score: 166
Period size: 44 Copynumber: 4.5 Consensus size: 42
30573454 TTTAATTCAA
*
30573464 TCCACTGCAAAC-TCAGGGAGATAAGATCC-GCCATCTTTAATCTGC
1 TCCACTGC-AACTTCAGGGAGATAAGA-CCTG--AT-TTGAATCTGC
* * *
30573509 TCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACCTGATT--TGAATCTGC
* * * ** *
30573553 TTCGCTGCAACCTCAGGGAGATAAGACCTGATGCG-ATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGACCTGATTTGAATCTGC
* * * *
30573594 TCTACTGCAATTTCAGAGAGATAAGATCTATGATTTGAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-C-CTGATTTGAATCTGC
30573638 TCCACTGCAACTTCAGGGAGATA
1 TCCACTGCAACTTCAGGGAGATA
30573661 GGATTATTGG
Statistics
Matches: 120, Mismatches: 25, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
41 25 0.21
42 2 0.02
43 6 0.05
44 65 0.54
45 22 0.18
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (42 bp):
TCCACTGCAACTTCAGGGAGATAAGACCTGATTTGAATCTGC
Found at i:30573680 original size:44 final size:44
Alignment explanation
Indices: 30573503--30573682 Score: 122
Period size: 44 Copynumber: 4.2 Consensus size: 44
30573493 GCCATCTTTA
* * * * *
30573503 ATCTGCTCCACTGCAACTTCAGGGGGATAAGA-C-CTGCTTACTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGATT--TCG
* * * * * *
30573547 ATCTGCTTCGCTGCAACCTCAGGGAGATAAGA-C-CTGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGATTTCG
* * *
30573588 ATCTACTCTACTGCAATTTCAGAGAGATAAGATCTATGATTT-G
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGATTTCG
* * *
30573631 AATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TATTGGTTTCG
1 -ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTA-TGATTTCG
30573676 ATCTGCT
1 ATCTGCT
30573683 TCATTGCCAA
Statistics
Matches: 108, Mismatches: 22, Indels: 12
0.76 0.15 0.08
Matches are distributed among these distances:
41 26 0.24
42 1 0.01
43 7 0.06
44 73 0.68
45 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGATTTCG
Found at i:30573844 original size:88 final size:88
Alignment explanation
Indices: 30573752--30573948 Score: 216
Period size: 88 Copynumber: 2.2 Consensus size: 88
30573742 GGAGGCAATA
* ** ** * * * *
30573752 CTGGTGTTTTTGATCTGCTTCGTTGCCAGTACAGGAAGGTAAGATCTGCTATTTTTAACCTACTC
1 CTGGTGCTTTTGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTC
* * *
30573817 CGCT-TCTGCTTAGGGAGATAAGG
66 CACTAT-TGCTCAGGAAGATAAGG
* *
30573840 CTGGTGCTTCTGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCGACCTACTC
1 CTGGTGCTTTTGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTC
30573905 CACTATTGCTCAGGAAGATAAGG
66 CACTATTGCTCAGGAAGATAAGG
* * **
30573928 CTAGTGGTTTAAATCTGCTTC
1 CTGGTGCTTTTGATCTGCTTC
30573949 CCTACTACAT
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
88 88 0.99
89 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (88 bp):
CTGGTGCTTTTGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTC
CACTATTGCTCAGGAAGATAAGG
Found at i:30573965 original size:88 final size:88
Alignment explanation
Indices: 30573873--30574500 Score: 417
Period size: 88 Copynumber: 7.1 Consensus size: 88
30573863 TGCCAGTACA
* * *
30573873 GGAAGACAAGATCTACAATCTTCGACCTACTCCACTATTGCTCAGGAAGATAAGGCTAGTGGTTT
1 GGAAGATAAGATCTACAATCTTCGACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGTTT
30573938 AAATCTGCTTCCCTACTACATTG
66 AAATCTGCTTCCCTACTACATTG
* * * * * *
30573961 GGAAGATAAGATTCGT-C-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTAA
1 GGAAGATAAGA-TC-TACAATCTTCGACCTACTCCACTACTGCTCAGGGAGATAAG-GCTAGT-G
* * * * * *
30574023 TTTTCAACCTAC-TCCACTGCTAC-TTAT
62 GTTTAAATCTGCTTCC-CTACTACATT-G
* * * * * *
30574050 GG-AGATAAGGTCTACAATCTTCAACATACTCCATTGCTGCTCAGGGAGATAAGGCTAGTGGCTT
1 GGAAGATAAGATCTACAATCTTCGACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGTTT
30574114 AAATCTGCTTCCCTACTACATTG
66 AAATCTGCTTCCCTACTACATTG
* * * * * * **
30574137 GGAAGATAAGAT-TCGCATTCTTCGATCTATTCCACTACTGCTTAGGGAGATAAGATCT-GTAAT
1 GGAAGATAAGATCT-ACAATCTTCGACCTACTCCACTACTGCTCAGGGAGATAAG-GCTAGT-GG
* * * * *
30574200 TTTCAACCTAC-TCCACTACTGC-TCAG
63 TTTAAATCTGCTTCC-CTACTACAT-TG
* * ** *
30574226 GG-AGATAAGGTCTACAATCTTCAACCTACTCCACTGTTGCTCAGGGAGATAAGGCTAGTGGCTT
1 GGAAGATAAGATCTACAATCTTCGACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGTTT
30574290 AAATCTGCTTCCCTACTACATTG
66 AAATCTGCTTCCCTACTACATTG
* ** * * * * * * **
30574313 GGAAGATAAGAT-TCGCCGTTTTCGATCTGCTCCACTACTGCTTAGGGTGATAAGATCT-GTAAT
1 GGAAGATAAGATCT-ACAATCTTCGACCTACTCCACTACTGCTCAGGGAGATAAG-GCTAGT-GG
* * ** * *
30574376 TTTCAA-CTTAC-TCCACTGTTGC-TCAG
63 TTTAAATC-TGCTTCC-CTACTACAT-TG
* * * * *
30574402 GG-AGATAAGGTCTACAATCTTCAACCTACTCCACTACTGCTTAAGGAGATAAGGCTAGTGGCTT
1 GGAAGATAAGATCTACAATCTTCGACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGTTT
*
30574466 AAATCTGCTTCCCTACTACCTTG
66 AAATCTGCTTCCCTACTACATTG
*
30574489 GGAAAATAAGAT
1 GGAAGATAAGAT
30574501 TCACCGTCTT
Statistics
Matches: 392, Mismatches: 114, Indels: 68
0.68 0.20 0.12
Matches are distributed among these distances:
86 1 0.00
87 55 0.14
88 279 0.71
89 56 0.14
90 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (88 bp):
GGAAGATAAGATCTACAATCTTCGACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGTTT
AAATCTGCTTCCCTACTACATTG
Found at i:30574093 original size:176 final size:176
Alignment explanation
Indices: 30573884--30574627 Score: 1070
Period size: 176 Copynumber: 4.2 Consensus size: 176
30573874 GAAGACAAGA
* * * *
30573884 TCTACAATCTTCGACCTACTCCACTATTGCTCAGGAAGATAAGGCTAGTGGTTTAAATCTGCTTC
1 TCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTC
*
30573949 CCTACTACATTGGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
66 CCTACTACATTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
* * *
30574014 GATCTGTAATTTTCAACCTACTCCACTGCTACTTATGGAGATAAGG
131 GATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG
* * *
30574060 TCTACAATCTTCAACATACTCCATTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTC
1 TCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTC
** **
30574125 CCTACTACATTGGGAAGATAAGATTCGCATTCTTCGATCTATTCCACTACTGCTTAGGGAGATAA
66 CCTACTACATTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
*
30574190 GATCTGTAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGG
131 GATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG
**
30574236 TCTACAATCTTCAACCTACTCCACTGTTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTC
1 TCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTC
* *
30574301 CCTACTACATTGGGAAGATAAGATTCGCCGTTTTCGATCTGCTCCACTACTGCTTAGGGTGATAA
66 CCTACTACATTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
* *
30574366 GATCTGTAATTTTCAACTTACTCCACTGTTGCTCAGGGAGATAAGG
131 GATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG
* *
30574412 TCTACAATCTTCAACCTACTCCACTACTGCTTAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTC
1 TCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTC
* * * **
30574477 CCTACTACCTTGGGAAAATAAGATTCACCGTCTTTAATCTGCTCCACTACTGCTTAGGG-GATAA
66 CCTACTACATTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
* * * *
30574541 GATCTGTAATCTTT-AACCTATTTCACTGAT-ATCCAGGGAGAT-AGG
131 GATCTGTAAT-TTTCAACCTACTCCACTGCTGCT-CAGGGAGATAAGG
* *
30574586 AT-TCACAATCTTCAACATA-TACCACTGCTG-TCCAGGGAGATA
1 -TCT-ACAATCTTCAACCTACT-CCACTACTGCT-CAGGGAGATA
30574628 GGACTTACCA
Statistics
Matches: 515, Mismatches: 47, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
174 7 0.01
175 67 0.13
176 441 0.86
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (176 bp):
TCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTC
CCTACTACATTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
GATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG
Found at i:30574455 original size:44 final size:44
Alignment explanation
Indices: 30573990--30575268 Score: 364
Period size: 44 Copynumber: 29.2 Consensus size: 44
30573980 CTTCGATCTG
* ** *
30573990 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTA
* * * *
30574034 CTCCACTGCTACTTATGGAGATAAGGTCTACAATCTTCAACATA
1 CTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTA
* * * **** * * *
30574078 CTCCATTGCTGCTCAGGGAGATAAGG-CTAGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTA
* * * * * *
30574121 CTTCC-CTACTACATT-GGGAAGATAAGAT-TCGCATTCTTCGATCTA
1 C-TCCACTACTGC-TTAGGG-AGATAAGGTCT-ACAATCTTCAACCTA
* * ** *
30574166 TTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTA
*
30574210 CTCCACTACTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTA
** * **** * * *
30574254 CTCCACTGTTGCTCAGGGAGATAAGG-CTAGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTA
* * * ** * * * *
30574297 CTTCC-CTACTACATT-GGGAAGATAAGAT-TCGCCGTTTTCGATCTG
1 C-TCCACTACTGC-TTAGGG-AGATAAGGTCT-ACAATCTTCAACCTA
* * ** * *
30574342 CTCCACTACTGCTTAGGGTGATAAGATCTGTAATTTTCAACTTA
1 CTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTA
** *
30574386 CTCCACTGTTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTA
* **** * * *
30574430 CTCCACTACTGCTTAAGGAGATAAGG-CTAGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTA
* * * ** * * *
30574473 CTTCC-CTACTACCTT-GGGAAAATAAGAT-TCACCGTCTTTAATCTG
1 C-TCCACTACT-GCTTAGGG-AGATAAGGTCT-ACAATCTTCAACCTA
* ** *
30574518 CTCCACTACTGCTTAGGG-GATAAGATCTGTAATCTTTAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTA
* * * * *
30574561 TTTCACTGA-T-ATCCAGGGAGAT-AGGAT-TCACAATCTTCAACATA
1 CTCCACT-ACTGCT-TAGGGAGATAAGG-TCT-ACAATCTTCAACCTA
* * * *
30574605 -TACCACTGCTG-TCCAGGGAGAT-AGGACTTACCATCTTCAACCTA
1 CT-CCACTACTGCT-TAGGGAGATAAGGTC-TACAATCTTCAACCTA
* * * * *
30574649 TTCCACTACT-ATCCAAGGAGAT-AGGACTTACAATCTTCAACCTA
1 CTCCACTACTGCT-TAGGGAGATAAGGTC-TACAATCTTCAACCTA
* * *
30574693 TTCCACTACTG-TCCAGAGAGAT-AGGAT-TCACAATCTTCAACCTA
1 CTCCACTACTGCT-TAGGGAGATAAGG-TCT-ACAATCTTCAACCTA
* * ** *
30574737 TTCTACTACTG-TCTAGGGAGAT-AGAACTTACAATCTTCAACATA
1 CTCCACTACTGCT-TAGGGAGATAAGGTC-TACAATCTTCAACCTA
* * * *
30574781 TTCCACTGCTG-TCCAGGGAGAT-AGGACTTACAATCTTCAACCTA
1 CTCCACTACTGCT-TAGGGAGATAAGGTC-TACAATCTTCAACCTA
* * * * *
30574825 TTTCACTACTG-TCCAGGGAGAT-AGGATTTATAA-CTTCAACCTA
1 CTCCACTACTGCT-TAGGGAGATAAGG-TCTACAATCTTCAACCTA
* * * * *
30574868 TTCCACTGCT-ATCCAGGGAGAT-AGGAT-T-TAATCTTCAACCTA
1 CTCCACTACTGCT-TAGGGAGATAAGG-TCTACAATCTTCAACCTA
* * *
30574910 TTCTACTACT-ATCTAGGGAGAT-AGGAT-TCACAATCTTCAACCTA
1 CTCCACTACTGCT-TAGGGAGATAAGG-TCT-ACAATCTTCAACCTA
* * * *
30574954 TTCCACTGCT-ATCTAGGGAGAT-AGGATTTACAATCTTCAACCTA
1 CTCCACTACTGCT-TAGGGAGATAAGG-TCTACAATCTTCAACCTA
* * * * * *
30574998 TTCCACTACT-ATCCAGGGAGAT-AGGACTTACAATATTCAGCCTA
1 CTCCACTACTGCT-TAGGGAGATAAGGTC-TACAATCTTCAACCTA
* * *
30575042 TTCCACTGCTG-TCCAGGGAGAT-AGGAT-TCACAATCTTCAACCTA
1 CTCCACTACTGCT-TAGGGAGATAAGG-TCT-ACAATCTTCAACCTA
* ** * * * *
30575086 TTCCACTGTTG-TCCAAGGAGAT-AGGACTTACAATCCTCAACCTA
1 CTCCACTACTGCT-TAGGGAGATAAGGTC-TACAATCTTCAACCTA
* * * *
30575130 TTCCACTGCTG-TCTAGGGAGAT-AGGATTTACAATATTCAACCTA
1 CTCCACTACTGCT-TAGGGAGATAAGG-TCTACAATCTTCAACCTA
* *
30575174 TTCCACTGCTG-TCTAGGGAGAT-AGGAT-TCACAATCTTCAACCTA
1 CTCCACTACTGCT-TAGGGAGATAAGG-TCT-ACAATCTTCAACCTA
* ** * * *
30575218 TTCCACTGTTG-TCCAGGGAGAT-AGGACTTACAATCCTCAACCTA
1 CTCCACTACTGCT-TAGGGAGATAAGGTC-TACAATCTTCAACCTA
*
30575262 TTCCACT
1 CTCCACT
30575269 GCTGTCCAGG
Statistics
Matches: 996, Mismatches: 182, Indels: 114
0.77 0.14 0.09
Matches are distributed among these distances:
41 3 0.00
42 37 0.04
43 120 0.12
44 774 0.78
45 62 0.06
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTA
Found at i:30575269 original size:44 final size:44
Alignment explanation
Indices: 30574548--30575287 Score: 992
Period size: 44 Copynumber: 16.9 Consensus size: 44
30574538 TAAGATCTGT
* * * *
30574548 AATCTTTAACCTATTTCACTGATATCCAGGGAGATAGGA-TTCAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTT-AC
* *
30574592 AATCTTCAACATATACCACTGCTGTCCAGGGAGATAGGACTTAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTAC
* * * *
30574636 CATCTTCAACCTATTCCACTACTATCCAAGGAGATAGGACTTAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTAC
* *
30574680 AATCTTCAACCTATTCCACTACTGTCCAGAGAGATAGGA-TTCAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTT-AC
* * * *
30574724 AATCTTCAACCTATTCTACTACTGTCTAGGGAGATAGAACTTAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTAC
*
30574768 AATCTTCAACATATTCCACTGCTGTCCAGGGAGATAGGACTTAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTAC
* * * *
30574812 AATCTTCAACCTATTTCACTACTGTCCAGGGAGATAGGATTTAT
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTAC
* *
30574856 AA-CTTCAACCTATTCCACTGCTATCCAGGGAGATAGGA-TT-T
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTAC
* * * *
30574897 AATCTTCAACCTATTCTACTACTATCTAGGGAGATAGGA-TTCAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTT-AC
* * *
30574941 AATCTTCAACCTATTCCACTGCTATCTAGGGAGATAGGATTTAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTAC
* *
30574985 AATCTTCAACCTATTCCACTACTATCCAGGGAGATAGGACTTAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTAC
* *
30575029 AATATTCAGCCTATTCCACTGCTGTCCAGGGAGATAGGA-TTCAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTT-AC
* *
30575073 AATCTTCAACCTATTCCACTGTTGTCCAAGGAGATAGGACTTAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTAC
* * *
30575117 AATCCTCAACCTATTCCACTGCTGTCTAGGGAGATAGGATTTAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTAC
* *
30575161 AATATTCAACCTATTCCACTGCTGTCTAGGGAGATAGGA-TTCAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTT-AC
*
30575205 AATCTTCAACCTATTCCACTGTTGTCCAGGGAGATAGGACTTAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTAC
*
30575249 AATCCTCAACCTATTCCACTGCTGTCCAGGGAGATAGGA
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGA
30575288 TTTATAACTT
Statistics
Matches: 623, Mismatches: 62, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
41 3 0.00
42 37 0.06
43 39 0.06
44 534 0.86
45 10 0.02
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (44 bp):
AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTAC
Found at i:30576586 original size:49 final size:50
Alignment explanation
Indices: 30576528--30576626 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
30576518 TTTGGTTTAT
*
30576528 TTTTTATTTTTT-GGACTCAAACAACCCTTTGCGGGTTTTCACCTTGGTC
1 TTTTTATTTTTTAGGAATCAAACAACCCTTTGCGGGTTTTCACCTTGGTC
***
30576577 TTTTTATTTTTTAGGAATCAAAGTGCCCTTTGCGGGTTTTCACCTTGGTC
1 TTTTTATTTTTTAGGAATCAAACAACCCTTTGCGGGTTTTCACCTTGGTC
30576627 CCTTCTCCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 12 0.27
50 33 0.73
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (50 bp):
TTTTTATTTTTTAGGAATCAAACAACCCTTTGCGGGTTTTCACCTTGGTC
Found at i:30577517 original size:21 final size:21
Alignment explanation
Indices: 30577493--30577533 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
30577483 TCACTTTCAG
30577493 TTTTTGATTTTGATTTTTTTA
1 TTTTTGATTTTGATTTTTTTA
*
30577514 TTTTTTATTTTGATTTTTTT
1 TTTTTGATTTTGATTTTTTT
30577534 GATGATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTTGATTTTGATTTTTTTA
Found at i:30578593 original size:25 final size:25
Alignment explanation
Indices: 30578543--30578608 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
30578533 AAGAAAATCC
*
30578543 AAAAGAATGAAAGAATAATTATTCA
1 AAAAGAATGAAAGAATAATTACTCA
*
30578568 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
30578593 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
30578609 TGTATTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 3 0.08
25 23 0.64
26 5 0.14
27 5 0.14
ACGTcount: A:0.58, C:0.06, G:0.17, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:30583365 original size:18 final size:18
Alignment explanation
Indices: 30583344--30583385 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
30583334 TTATAATCAC
30583344 AAAATAACAA-ATAAAAAT
1 AAAATAA-AATATAAAAAT
*
30583362 AAAATAAAATATTAAAAT
1 AAAATAAAATATAAAAAT
30583380 AAAATA
1 AAAATA
30583386 TGTTATCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAATAAAATATAAAAAT
Found at i:30583384 original size:13 final size:13
Alignment explanation
Indices: 30583352--30583386 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
30583342 ACAAAATAAC
30583352 AAATAAAA-A-TA
1 AAATAAAATATTA
30583363 AAATAAAATATTA
1 AAATAAAATATTA
30583376 AAATAAAATAT
1 AAATAAAATAT
30583387 GTTATCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.36
12 1 0.05
13 13 0.59
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATAAAATATTA
Found at i:30583825 original size:27 final size:27
Alignment explanation
Indices: 30583786--30584073 Score: 247
Period size: 27 Copynumber: 10.7 Consensus size: 27
30583776 TGGGTATTAC
* * *
30583786 ACCCTCTATGGGTAAAATTACTGAAAT
1 ACCCTCGAAGGGTAAAATTACCGAAAT
* * *
30583813 ACCATCGATGGGTAAAATTACCAAAAT
1 ACCCTCGAAGGGTAAAATTACCGAAAT
* * * *
30583840 ACCC-CTAAAAGATAAAATTACTGAAAT
1 ACCCTC-GAAGGGTAAAATTACCGAAAT
* * **
30583867 ACCCCCAAAGGGTAAAATTACTAAAAT
1 ACCCTCGAAGGGTAAAATTACCGAAAT
**
30583894 ATTCTCGAAGGGTAAAATTACCGAAAT
1 ACCCTCGAAGGGTAAAATTACCGAAAT
* * * **
30583921 ATCCACGAAAGGTAAAACAACCGAAAT
1 ACCCTCGAAGGGTAAAATTACCGAAAT
* *
30583948 ACCCCCGAAGGGTAAAATTACCAAAAT
1 ACCCTCGAAGGGTAAAATTACCGAAAT
* * * *
30583975 ACCCTGGATGGGTAAAACTATCGAAAT
1 ACCCTCGAAGGGTAAAATTACCGAAAT
* * *
30584002 ACTCTCGAAGGGTAAAATTATCAAAAT
1 ACCCTCGAAGGGTAAAATTACCGAAAT
*
30584029 TCCCTC-AATGGGTAAAATTACCGAAAT
1 ACCCTCGAA-GGGTAAAATTACCGAAAT
* *
30584056 ACCCCCGTAGGGTAAAAT
1 ACCCTCGAAGGGTAAAAT
30584074 AATTGTTGTA
Statistics
Matches: 208, Mismatches: 49, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
26 3 0.01
27 203 0.98
28 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (27 bp):
ACCCTCGAAGGGTAAAATTACCGAAAT
Found at i:30585533 original size:26 final size:27
Alignment explanation
Indices: 30585497--30585556 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
30585487 CCTACAGTAG
30585497 TTTCAGAATATCATAACATATATCA-A
1 TTTCAGAATATCATAACATATATCAGA
* *
30585523 TTTCAGAATATCATAGCATGTATCAGA
1 TTTCAGAATATCATAACATATATCAGA
30585550 TTT-AGAA
1 TTTCAGAA
30585557 CGCTTACAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 27 0.87
27 4 0.13
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (27 bp):
TTTCAGAATATCATAACATATATCAGA
Found at i:30601577 original size:40 final size:40
Alignment explanation
Indices: 30601529--30601729 Score: 269
Period size: 40 Copynumber: 5.0 Consensus size: 40
30601519 TTATTCTCTA
*
30601529 AATGCATATACGTGCCCCTGTTTGTACTTCGATACCCCTG
1 AATGCATATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* **
30601569 AATACATATGTGTGCCCCTGTTTGTACTTCGGTACCCCTG
1 AATGCATATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * * *
30601609 AATGCACATACATGCCCTTGTTTGTACTTCGGTACCCTTG
1 AATGCATATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
*
30601649 AATGC-TCATTCGTGCCCCTGTTTGTACTTCGGTACCCCTG
1 AATGCAT-ATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * **
30601689 AATGCACATACGTGCCCCTGTTTATACTTCAATACCCCTG
1 AATGCATATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
30601729 A
1 A
30601730 GTAGGGGTGA
Statistics
Matches: 138, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.33
Consensus pattern (40 bp):
AATGCATATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
Found at i:30601606 original size:20 final size:20
Alignment explanation
Indices: 30601583--30601688 Score: 65
Period size: 20 Copynumber: 5.3 Consensus size: 20
30601573 CATATGTGTG
30601583 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * * * *
30601603 CCCCTGAATGCACATAC-ATG
1 CCCCTGTTTGTAC-TTCGGTA
*
30601623 CCCTTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* ** *
30601643 CCCTTGAATGCT-CATTC-GTG
1 CCCCTGTTTG-TAC-TTCGGTA
30601663 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
30601683 CCCCTG
1 CCCCTG
30601689 AATGCACATA
Statistics
Matches: 60, Mismatches: 20, Indels: 12
0.65 0.22 0.13
Matches are distributed among these distances:
19 6 0.10
20 48 0.80
21 6 0.10
ACGTcount: A:0.14, C:0.32, G:0.19, T:0.35
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:30601664 original size:80 final size:80
Alignment explanation
Indices: 30601529--30601729 Score: 298
Period size: 80 Copynumber: 2.5 Consensus size: 80
30601519 TTATTCTCTA
*
30601529 AATGCATATACGTGCCCCTGTTTGTACTTCGATACCCCTGAATACATATGTGTGCCCCTGTTTGT
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGAATACATATGTGTGCCCCTGTTTGT
30601594 ACTTCGGTACCCCTG
66 ACTTCGGTACCCCTG
* * * * *
30601609 AATGCACATACATGCCCTTGTTTGTACTTCGGTACCCTTGAATGC-TCAT-TCGTGCCCCTGTTT
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGAATACAT-ATGT-GTGCCCCTGTTT
30601672 GTACTTCGGTACCCCTG
64 GTACTTCGGTACCCCTG
* *
30601689 AATGCACATACGTGCCCCTGTTTATACTTCAATACCCCTGA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGA
30601730 GTAGGGGTGA
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
79 2 0.02
80 105 0.98
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.33
Consensus pattern (80 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGAATACATATGTGTGCCCCTGTTTGT
ACTTCGGTACCCCTG
Found at i:30602018 original size:19 final size:19
Alignment explanation
Indices: 30601994--30602037 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
30601984 TAAAAGCAAC
30601994 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
30602013 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
30602032 ACAACA
1 ACAACA
30602038 AAAATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:30604457 original size:4 final size:4
Alignment explanation
Indices: 30604448--30604502 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
30604438 CAGCAAAGAT
30604448 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30604496 ATAC ATA
1 ATAC ATA
30604503 TATATAAGTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:30605539 original size:21 final size:21
Alignment explanation
Indices: 30605473--30605544 Score: 76
Period size: 21 Copynumber: 3.2 Consensus size: 21
30605463 TGAGAGATTA
30605473 AAGGAGGAAGAAATACAGTGT
1 AAGGAGGAAGAAATACAGTGT
30605494 AAGGA--AATGAATGATGGATCAGTGT
1 AAGGAGGAA-GAA--AT--A-CAGTGT
30605519 AAGGAGGAAGAAATACAGTGT
1 AAGGAGGAAGAAATACAGTGT
30605540 AAGGA
1 AAGGA
30605545 AAGGAATAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
19 2 0.05
20 3 0.07
21 16 0.37
22 3 0.07
24 3 0.07
25 11 0.26
26 3 0.07
27 2 0.05
ACGTcount: A:0.46, C:0.04, G:0.33, T:0.17
Consensus pattern (21 bp):
AAGGAGGAAGAAATACAGTGT
Found at i:30605665 original size:14 final size:14
Alignment explanation
Indices: 30605646--30605679 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
30605636 CGGAGGACCA
30605646 GAGGTGGATCGGTG
1 GAGGTGGATCGGTG
*
30605660 GAGGTGGATTGGTG
1 GAGGTGGATCGGTG
30605674 GAGGTG
1 GAGGTG
30605680 AAGGTTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.59, T:0.24
Consensus pattern (14 bp):
GAGGTGGATCGGTG
Found at i:30605798 original size:29 final size:30
Alignment explanation
Indices: 30605756--30605815 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
30605746 TTTGTTTTAA
30605756 ATGTAGTGCATTTTAAAAAT-AAAAAATAT
1 ATGTAGTGCATTTTAAAAATAAAAAAATAT
*
30605785 ATGTAGTGTATTTTAAAAATAAAAAAATAT
1 ATGTAGTGCATTTTAAAAATAAAAAAATAT
30605815 A
1 A
30605816 GTTTATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.35
Consensus pattern (30 bp):
ATGTAGTGCATTTTAAAAATAAAAAAATAT
Found at i:30608318 original size:27 final size:27
Alignment explanation
Indices: 30608288--30608339 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
30608278 TTCCTTTCCT
*
30608288 TAGATCGCCACAAAGGCTTCCATTTCA
1 TAGATCGCCACAAAGGCATCCATTTCA
** *
30608315 TAGATTTCCAGAAAGGCATCCATTT
1 TAGATCGCCACAAAGGCATCCATTT
30608340 TCTGGTGTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
TAGATCGCCACAAAGGCATCCATTTCA
Found at i:30612354 original size:13 final size:14
Alignment explanation
Indices: 30612321--30612357 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
30612311 AAAAAGGCAA
30612321 TTAATAAATAAAAT
1 TTAATAAATAAAAT
30612335 TCT-ATAAA-AAAAT
1 T-TAATAAATAAAAT
30612348 TTAATAAATA
1 TTAATAAATA
30612358 GATAGGGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.05
13 11 0.55
14 7 0.35
15 1 0.05
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (14 bp):
TTAATAAATAAAAT
Found at i:30620580 original size:24 final size:24
Alignment explanation
Indices: 30620521--30620583 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
30620511 ATATTAGACT
* * *
30620521 AAAAATTATTATAAAAAAATTAAA
1 AAAAATAATTTTAAAAAAATAAAA
**
30620545 AATCATAATTTTAAAAAAATAAAA
1 AAAAATAATTTTAAAAAAATAAAA
*
30620569 AAAAATATTTTTAAA
1 AAAAATAATTTTAAA
30620584 TATGTATAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAAATAATTTTAAAAAAATAAAA
Found at i:30621131 original size:37 final size:37
Alignment explanation
Indices: 30621084--30621157 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
30621074 ATTATTTGAG
*
30621084 AAAGGATTTAAGGGATAATTAAGCCTTAATTTAAGTA
1 AAAGAATTTAAGGGATAATTAAGCCTTAATTTAAGTA
30621121 AAAGAATTTAAGGGATAATTAAGCCTTAATTTAAGTA
1 AAAGAATTTAAGGGATAATTAAGCCTTAATTTAAGTA
30621158 GTGGGACGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (37 bp):
AAAGAATTTAAGGGATAATTAAGCCTTAATTTAAGTA
Found at i:30622200 original size:21 final size:21
Alignment explanation
Indices: 30622174--30622230 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
30622164 TGGGTGGATT
* *
30622174 AGCTCTCACGAGCTTCTATTC
1 AGCTCTTACGAGCTTCTATTA
*
30622195 AGCTCTTACGAGATTCTATTA
1 AGCTCTTACGAGCTTCTATTA
*
30622216 AGCTCTTATGAGCTT
1 AGCTCTTACGAGCTT
30622231 TTGTTGGCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTATTA
Found at i:30623994 original size:20 final size:20
Alignment explanation
Indices: 30623969--30624114 Score: 93
Period size: 20 Copynumber: 7.3 Consensus size: 20
30623959 ATGCATTTAC
*
30623969 GGGCACCGAAGTACAAACAG
1 GGGCACCGAAGTACAATCAG
* * *
30623989 GGGCA-CGTATGTGCATTCAG
1 GGGCACCG-AAGTACAATCAG
*
30624009 GGGTACCGAAGTACAATCAG
1 GGGCACCGAAGTACAATCAG
*** * *
30624029 GGGCACATTTA-TACATTTAG
1 GGGCAC-CGAAGTACAATCAG
*
30624049 GGGTACCGAAGTACAATCAG
1 GGGCACCGAAGTACAATCAG
* * *
30624069 GGGCA-CGTATGTGCATTCAG
1 GGGCACCG-AAGTACAATCAG
*
30624089 GGGTACCGAAGTACAAAT-AG
1 GGGCACCGAAGTAC-AATCAG
30624109 GGGCAC
1 GGGCAC
30624115 GTTTGTGCAT
Statistics
Matches: 90, Mismatches: 29, Indels: 14
0.68 0.22 0.11
Matches are distributed among these distances:
19 5 0.06
20 78 0.87
21 7 0.08
ACGTcount: A:0.31, C:0.20, G:0.31, T:0.18
Consensus pattern (20 bp):
GGGCACCGAAGTACAATCAG
Found at i:30624017 original size:40 final size:40
Alignment explanation
Indices: 30623955--30624167 Score: 257
Period size: 40 Copynumber: 5.3 Consensus size: 40
30623945 TCAAGAGCAT
* * * *
30623955 GTATATGCATTTACGGGCACCGAAGTACAAACAGGGGCAC
1 GTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCAC
*
30623995 GTATGTGCATTCAGGGGTACCGAAGTACAATCAGGGGCAC
1 GTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCAC
* * * * * *
30624035 ATTTATACATTTAGGGGTACCGAAGTACAATCAGGGGCAC
1 GTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCAC
*
30624075 GTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCAC
1 GTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCAC
* * * * *
30624115 GTTTGTGCATTCAGAGGTGCTGAAGTACAAACAAGGGCA-
1 GTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCAC
30624154 GCTATGTGCATTCA
1 G-TATGTGCATTCA
30624168 CACAATAATT
Statistics
Matches: 148, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 1 0.01
40 147 0.99
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (40 bp):
GTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCAC
Found at i:30624140 original size:120 final size:120
Alignment explanation
Indices: 30623924--30624153 Score: 300
Period size: 120 Copynumber: 1.9 Consensus size: 120
30623914 ATATAATGTT
* * *
30623924 TTTAGAGGTACCATAGTATAATCAAGAGCATGTATATGCATTTACGGGCACCGAAGTACAAACAG
1 TTTAGAGGTACCATAGTACAATCAAGAGCACGTATATGCATTCACGGGCACCGAAGTACAAACAG
* * *
30623989 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAATCAGGGGCACATTTATACA
66 GGGCACGTATGTGCATTCAGAGGTACCGAAGTACAAACAAGGGCACATTTATACA
* * * * * * *
30624044 TTTAGGGGTACCGA-AGTACAATCAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAATA
1 TTTAGAGGTACC-ATAGTACAATCAAGAGCACGTATATGCATTCACGGGCACCGAAGTACAAACA
* * *
30624108 GGGGCACGTTTGTGCATTCAGAGGTGCTGAAGTACAAACAAGGGCA
65 GGGGCACGTATGTGCATTCAGAGGTACCGAAGTACAAACAAGGGCA
30624154 GCTATGTGCA
Statistics
Matches: 93, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
120 92 0.99
121 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (120 bp):
TTTAGAGGTACCATAGTACAATCAAGAGCACGTATATGCATTCACGGGCACCGAAGTACAAACAG
GGGCACGTATGTGCATTCAGAGGTACCGAAGTACAAACAAGGGCACATTTATACA
Found at i:30638242 original size:39 final size:40
Alignment explanation
Indices: 30638091--30638260 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
30638081 GGACTAAGAT
* * *
30638091 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
30638131 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* ** *
30638171 CCGAAGGCATTCGTGTGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
30638211 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
30638250 CCGAAGGCATT
1 CCGAAGGCATT
30638261 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 34 0.29
40 82 0.71
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:30638280 original size:79 final size:80
Alignment explanation
Indices: 30638113--30638295 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
30638103 GTGCGAGATA
* * *
30638113 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*** **
30638178 CATTCGTGTGAGTTG
66 CATTCGAACGAGGAG
* * * *
30638193 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
30638257 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
30638272 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
30638296 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:30645408 original size:101 final size:101
Alignment explanation
Indices: 30645220--30645406 Score: 259
Period size: 101 Copynumber: 1.8 Consensus size: 101
30645210 GAACATGTTG
* * *
30645220 GGCTGAGTAACCGGGGTACGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTTGATGTGTT
1 GGCTGAGTAACCGGGGTACGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTAGATATGTC
*
30645285 CTTAAGAAAAAAATATAATAAATTAGGAGTCTACTA
66 CTAAAGAAAAAAATATAATAAATTAGGAGTCTACTA
** * *
30645321 GGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTTTCTTCGTGTCAAAAGGTTCAGTATAT-
1 GGCTGAGTAACCGGGGTACGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTT-AG-ATATG
30645385 TCCTAAAGCATAAAAAATATAA
64 TCCTAAAG-A-AAAAAATATAA
30645407 ATAATAAATA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
101 52 0.70
102 7 0.09
103 4 0.05
104 11 0.15
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (101 bp):
GGCTGAGTAACCGGGGTACGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTAGATATGTC
CTAAAGAAAAAAATATAATAAATTAGGAGTCTACTA
Found at i:30645423 original size:23 final size:22
Alignment explanation
Indices: 30645396--30645451 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
30645386 CCTAAAGCAT
* *
30645396 AAAAAATATAAATAATAAATAA
1 AAAAAATATAAATAAAAAAGAA
30645418 ATAAAAATCA-AAATAAAAAAGAA
1 A-AAAAAT-ATAAATAAAAAAGAA
30645441 AAAAAATATAA
1 AAAAAATATAA
30645452 TTTGGGGACT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 9 0.31
23 18 0.62
24 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (22 bp):
AAAAAATATAAATAAAAAAGAA
Found at i:30658007 original size:21 final size:21
Alignment explanation
Indices: 30657981--30658035 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
30657971 AACAGTGGTG
*
30657981 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
30658002 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
30658023 GTGGTGAGATTAG
1 GCGGTGAGATTAG
30658036 AAATAATGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.07, G:0.40, T:0.31
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:30662054 original size:18 final size:18
Alignment explanation
Indices: 30662033--30662071 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
30662023 GATTGAGAGT
* *
30662033 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
30662051 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
30662069 GAA
1 GAA
30662072 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:30665076 original size:28 final size:28
Alignment explanation
Indices: 30665041--30665140 Score: 103
Period size: 28 Copynumber: 3.4 Consensus size: 28
30665031 ACCCATTCCA
*
30665041 ATTTCCCATTCCACCGTGCCGTCCTCCC
1 ATTTCCCATTCCACCGTGCCCTCCTCCC
* * *
30665069 ATTTCCCATTCCCATC-TCCCCTCTTCCATC
1 ATTTCCCATT-CCACCGTGCCCTCCTCC--C
*
30665099 GATTTCCCTCTTCCACCGTGCCCTCCTCCC
1 -ATTTCCC-ATTCCACCGTGCCCTCCTCCC
30665129 ATTTCCCATTCC
1 ATTTCCCATTCC
30665141 CATGCAATAC
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
28 22 0.39
29 11 0.19
30 2 0.04
31 11 0.19
32 11 0.19
ACGTcount: A:0.11, C:0.50, G:0.06, T:0.33
Consensus pattern (28 bp):
ATTTCCCATTCCACCGTGCCCTCCTCCC
Found at i:30665130 original size:60 final size:58
Alignment explanation
Indices: 30664986--30665165 Score: 213
Period size: 60 Copynumber: 3.1 Consensus size: 58
30664976 TTCCCATCTC
* *
30664986 CCCTCTTCCACCGTTCCCTCCTCCCATTTCCTATTCCCATACAATACCCATTCCAATTT
1 CCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCATAC-ATACCCATTCCAATTT
* * * *
30665045 CCC-ATTCCACCGTGCCGTCCTCCCATTTCCCATTCCCAT-C-TCCCCTCTTCCATCGATTT
1 CCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCATACATACCC-ATTCCA---ATTT
* *
30665104 CCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCATGCAATACCCATTCCCATTT
1 CCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCATAC-ATACCCATTCCAATTT
30665163 CCC
1 CCC
30665166 ATTCCCATTC
Statistics
Matches: 102, Mismatches: 11, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
55 4 0.04
56 5 0.05
57 1 0.01
58 32 0.31
59 17 0.17
60 34 0.33
61 1 0.01
62 4 0.04
63 4 0.04
ACGTcount: A:0.15, C:0.49, G:0.04, T:0.32
Consensus pattern (58 bp):
CCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCATACATACCCATTCCAATTT
Found at i:30665142 original size:6 final size:6
Alignment explanation
Indices: 30665125--30665201 Score: 93
Period size: 6 Copynumber: 12.5 Consensus size: 6
30665115 CGTGCCCTCC
* * *
30665125 TCCCATT TCCCAT TCCCA- TGCAAT ACCCAT TCCCATT TCCCAT TCCCAT
1 TCCCA-T TCCCAT TCCCAT TCCCAT TCCCAT TCCCA-T TCCCAT TCCCAT
30665174 TCCCAT TCCCATT TCCCAT TCCCAT TCC
1 TCCCAT TCCCA-T TCCCAT TCCCAT TCC
30665202 TATTATCAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
5 3 0.05
6 41 0.67
7 17 0.28
ACGTcount: A:0.18, C:0.47, G:0.01, T:0.34
Consensus pattern (6 bp):
TCCCAT
Found at i:30665143 original size:13 final size:13
Alignment explanation
Indices: 30665125--30665199 Score: 98
Period size: 13 Copynumber: 5.5 Consensus size: 13
30665115 CGTGCCCTCC
30665125 TCCCATTTCCCAT
1 TCCCATTTCCCAT
*
30665138 TCCCATGCAATACCCAT
1 TCCCAT----TTCCCAT
30665155 TCCCATTTCCCAT
1 TCCCATTTCCCAT
30665168 TCCCA-TTCCCAT
1 TCCCATTTCCCAT
30665180 TCCCATTTCCCAT
1 TCCCATTTCCCAT
30665193 TCCCATT
1 TCCCATT
30665200 CCTATTATCA
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.22
13 31 0.56
17 12 0.22
ACGTcount: A:0.19, C:0.45, G:0.01, T:0.35
Consensus pattern (13 bp):
TCCCATTTCCCAT
Found at i:30665182 original size:25 final size:25
Alignment explanation
Indices: 30665126--30665201 Score: 107
Period size: 25 Copynumber: 2.8 Consensus size: 25
30665116 GTGCCCTCCT
30665126 CCCATTTCCCATTCCCATGCAATACCCATT
1 CCCATTTCCCATTCCCAT----T-CCCATT
30665156 CCCATTTCCCATTCCCATTCCCATT
1 CCCATTTCCCATTCCCATTCCCATT
30665181 CCCATTTCCCATTCCCATTCC
1 CCCATTTCCCATTCCCATTCC
30665202 TATTATCAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
25 27 0.59
26 1 0.02
30 18 0.39
ACGTcount: A:0.18, C:0.47, G:0.01, T:0.33
Consensus pattern (25 bp):
CCCATTTCCCATTCCCATTCCCATT
Found at i:30667734 original size:21 final size:20
Alignment explanation
Indices: 30667710--30667772 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
30667700 GAACAAAGTA
*
30667710 AAAAAGAGGGGAGAAACTAGC
1 AAAAAGA-GGGAGAAACCAGC
* *
30667731 AAAAACGAGGGACAAACCAGT
1 AAAAA-GAGGGAGAAACCAGC
*
30667752 AAACA-AGGGAGAAACCAGC
1 AAAAAGAGGGAGAAACCAGC
30667771 AA
1 AA
30667773 GAACGAGGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 14 0.40
21 19 0.54
22 2 0.06
ACGTcount: A:0.54, C:0.16, G:0.27, T:0.03
Consensus pattern (20 bp):
AAAAAGAGGGAGAAACCAGC
Found at i:30667760 original size:19 final size:19
Alignment explanation
Indices: 30667733--30667769 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30667723 AAACTAGCAA
*
30667733 AAACGAGGGACAAACCAGT
1 AAACAAGGGACAAACCAGT
*
30667752 AAACAAGGGAGAAACCAG
1 AAACAAGGGACAAACCAG
30667770 CAAGAACGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.19, G:0.27, T:0.03
Consensus pattern (19 bp):
AAACAAGGGACAAACCAGT
Found at i:30669562 original size:9 final size:9
Alignment explanation
Indices: 30669513--30669581 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 9
30669503 CAATAAATGC
*
30669513 TATAAATAT
1 TATAAAAAT
*
30669522 TATTAAAATT
1 TA-TAAAAAT
30669532 TAATAAAAAT
1 T-ATAAAAAT
*
30669542 TA-AAATA-
1 TATAAAAAT
30669549 T-TAAAAAT
1 TATAAAAAT
*
30669557 TATAAAAAA
1 TATAAAAAT
30669566 TATAAAAAT
1 TATAAAAAT
*
30669575 TGTAAAA
1 TATAAAA
30669582 TAAAATATAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
7 5 0.11
8 5 0.11
9 23 0.49
10 13 0.28
11 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (9 bp):
TATAAAAAT
Found at i:30669564 original size:18 final size:18
Alignment explanation
Indices: 30669543--30669735 Score: 63
Period size: 19 Copynumber: 9.9 Consensus size: 18
30669533 AATAAAAATT
30669543 AAAATATTAAAAATTATAA
1 AAAATA-TAAAAATTATAA
*
30669562 AAAATATAAAAATTGTAAAA
1 AAAATATAAAAA-T-TATAA
*
30669582 TAAAATATAAAAAATTTTAA
1 -AAAATAT-AAAAATTATAA
** *
30669602 AATTTTATCAAAATCT-TAA
1 AA-AATATAAAAAT-TATAA
30669621 AAAACTAT-AAAATCTATAGA
1 AAAA-TATAAAAAT-TATA-A
* *
30669641 AATATAAAAAAAGTTAT-A
1 AAAATATAAAAA-TTATAA
* * * *
30669659 AAATTTTATAAAGTCATAA
1 AAAATATA-AAAATTATAA
30669678 GAAAATTATACAAAATGTA-AA
1 -AAAA-TATA-AAAAT-TATAA
* *
30669699 GAAATAT-AAATTTCATAAA
1 AAAATATAAAAATT-AT-AA
30669718 AAAATTATAAAAATTATA
1 AAAA-TATAAAAATTATA
30669736 GTACCAAAAG
Statistics
Matches: 128, Mismatches: 25, Indels: 42
0.66 0.13 0.22
Matches are distributed among these distances:
16 1 0.01
17 5 0.04
18 21 0.16
19 39 0.30
20 33 0.26
21 23 0.18
22 6 0.05
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (18 bp):
AAAATATAAAAATTATAA
Found at i:30669564 original size:25 final size:26
Alignment explanation
Indices: 30669465--30669572 Score: 78
Period size: 25 Copynumber: 4.0 Consensus size: 26
30669455 CCCATGCATT
*
30669465 TATTAAAAATTAGAAAAAGAATTATAAAA
1 TATTAAAAATTA-ATAAA-AA-TATAAAA
* * **
30669494 AATT-AAAATCAATAAATGCTATAAATA
1 TATTAAAAATTAATAAA-AATATAAA-A
*
30669521 TTATTAAAATTTAATAAAAAT-TAAAA
1 -TATTAAAAATTAATAAAAATATAAAA
30669547 TATTAAAAATT-ATAAAAAATATAAAA
1 TATTAAAAATTAAT-AAAAATATAAAA
30669573 ATTGTAAAAT
Statistics
Matches: 62, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
24 2 0.03
25 16 0.26
26 12 0.19
27 9 0.15
28 10 0.16
29 13 0.21
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (26 bp):
TATTAAAAATTAATAAAAATATAAAA
Found at i:30669584 original size:23 final size:22
Alignment explanation
Indices: 30669558--30669604 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
30669548 ATTAAAAATT
30669558 ATAAAAAATATAAAAATTGTAAA
1 ATAAAAAATA-AAAAATTGTAAA
* *
30669581 ATAAAATATAAAAAATTTTAAA
1 ATAAAAAATAAAAAATTGTAAA
30669603 AT
1 AT
30669605 TTTATCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
ATAAAAAATAAAAAATTGTAAA
Found at i:30669621 original size:29 final size:28
Alignment explanation
Indices: 30669581--30669687 Score: 92
Period size: 29 Copynumber: 3.8 Consensus size: 28
30669571 AAATTGTAAA
* *
30669581 ATAAAAT-ATAAAAAATTTTAAAATTTT
1 ATAAAATCTTAAAAAATTATAAAATTTT
* *
30669608 ATCAAAATCTTAAAAAACTATAAAA-TCT
1 AT-AAAATCTTAAAAAATTATAAAATTTT
* *
30669636 ATAGAAATATAAAAAAAGTTATAAAATTTT
1 ATA-AAATCTTAAAAAA-TTATAAAATTTT
* *
30669666 ATAAAGTCATAAGAAAATTATA
1 ATAAAATCTTAA-AAAATTATA
30669688 CAAAATGTAA
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
27 3 0.05
28 20 0.32
29 30 0.48
30 9 0.15
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.33
Consensus pattern (28 bp):
ATAAAATCTTAAAAAATTATAAAATTTT
Found at i:30669663 original size:58 final size:58
Alignment explanation
Indices: 30669542--30669708 Score: 148
Period size: 58 Copynumber: 2.9 Consensus size: 58
30669532 TAATAAAAAT
* * * * *
30669542 TAAAATATTA-AAAATTATAA-AAAA-TATAAAAATTGTAAA-ATAAAATATAAAAAATTT
1 TAAAATTTTATAAAATCATAAGAAAACTATAAAAA-TCTAAAGA-AATATA-AAAAAATTA
* *
30669599 TAAAATTTTATCAAAATCTTAA-AAAACTAT-AAAATCTATAGAAATATAAAAAAAGTTA
1 TAAAATTTTAT-AAAATCATAAGAAAACTATAAAAATCTAAAGAAATATAAAAAAA-TTA
* * *
30669657 TAAAATTTTATAAAGTCATAAGAAAATTATACAAAATGTAAAGAAATATAAA
1 TAAAATTTTATAAAATCATAAGAAAACTATA-AAAATCTAAAGAAATATAAA
30669709 TTTCATAAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 13
0.78 0.10 0.11
Matches are distributed among these distances:
57 23 0.26
58 29 0.32
59 17 0.19
60 21 0.23
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (58 bp):
TAAAATTTTATAAAATCATAAGAAAACTATAAAAATCTAAAGAAATATAAAAAAATTA
Found at i:30669934 original size:36 final size:36
Alignment explanation
Indices: 30669868--30669939 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
30669858 GTCGTTAATA
* **
30669868 TTTTTATGATTTTTATAAAATTTTACAATTTTTTAT
1 TTTTTAAGATTTTTATAAAAAATTACAATTTTTTAT
30669904 TTTTTAAGATTTTTATAAAAAATT-CTAATTTTTTAT
1 TTTTTAAGATTTTTATAAAAAATTAC-AATTTTTTAT
30669940 AAATTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 1 0.03
36 31 0.97
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (36 bp):
TTTTTAAGATTTTTATAAAAAATTACAATTTTTTAT
Found at i:30669964 original size:31 final size:29
Alignment explanation
Indices: 30669902--30669981 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 29
30669892 ACAATTTTTT
* *
30669902 ATTTTTTAAGATTTTTATAAAAAATTCTA
1 ATTTTTTAAAATTTTTATAAAAAATTATA
* *
30669931 ATTTTTTATAAATTTTTATTAAAATTTAATA
1 ATTTTTTA-AAATTTTTATAAAAAATT-ATA
*
30669962 ATTTTTCTAAAGTTTATTAT
1 ATTTTT-TAAAATTT-TTAT
30669982 TTATTATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
29 8 0.19
30 15 0.36
31 13 0.31
32 6 0.14
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (29 bp):
ATTTTTTAAAATTTTTATAAAAAATTATA
Found at i:30670118 original size:92 final size:94
Alignment explanation
Indices: 30670019--30670195 Score: 250
Period size: 93 Copynumber: 1.9 Consensus size: 94
30670009 ATAAGAGTAG
* * ** *
30670019 GGGCTTAATTGCTTTTTT-GAAAAATTTTGAGGGTCTTTTTTATACATTTTGAAAGTTCAAGTAC
1 GGGCTTAATTGCTTTTTTCGAAAAAGTTTGAGGGCCTTTTAGATACATTTTGAAAATTCAAGTAC
*
30670083 CCAATTGAGT-TAAAAAAAAGAAAAGAAA
66 CCAATTGAGTGCAAAAAAAAGAAAAGAAA
* * *
30670111 GGGCTTAATTGCTTTTTTCGAAGAAGTTTGAGGGCCTTTTAGATGCATTTTGAAAATTCAAGTGC
1 GGGCTTAATTGCTTTTTTCGAAAAAGTTTGAGGGCCTTTTAGATACATTTTGAAAATTCAAGTAC
*
30670176 TCAATTGAGTGCAAAAAAAA
66 CCAATTGAGTGCAAAAAAAA
30670196 AAGTTTGAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
92 18 0.25
93 47 0.64
94 8 0.11
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (94 bp):
GGGCTTAATTGCTTTTTTCGAAAAAGTTTGAGGGCCTTTTAGATACATTTTGAAAATTCAAGTAC
CCAATTGAGTGCAAAAAAAAGAAAAGAAA
Found at i:30676927 original size:5 final size:5
Alignment explanation
Indices: 30676917--30676962 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
30676907 TTCTTTCTCT
*
30676917 TTTCC TTTCC TTTCCC TTTCTC TTTCCC TTTCC TTTCC TTTTC TTT
1 TTTCC TTTCC TTT-CC TTTC-C TTT-CC TTTCC TTTCC TTTCC TTT
30676963 TTCTTTTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
5 23 0.62
6 13 0.35
7 1 0.03
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTCC
Found at i:30676935 original size:23 final size:23
Alignment explanation
Indices: 30676909--30676975 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
30676899 GTTAGGCTTT
30676909 CTTTCTCTTTTCCTTTCCTTTCC
1 CTTTCTCTTTTCCTTTCCTTTCC
*
30676932 CTTTCTCTTTCCCTTTCCTTTCC
1 CTTTCTCTTTTCCTTTCCTTTCC
* * *
30676955 TTTTCT-TTTTCTTTTCTTTTC
1 CTTTCTCTTTTCCTTTCCTTTC
30676976 ATTTTTAGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 12 0.31
23 27 0.69
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (23 bp):
CTTTCTCTTTTCCTTTCCTTTCC
Found at i:30677018 original size:25 final size:26
Alignment explanation
Indices: 30676969--30677018 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
30676959 CTTTTTCTTT
* *
30676969 TCTTTTCATTTTTAGTTTAGGTTTTC
1 TCTTTTCATTTTTAGGTTAGATTTTC
*
30676995 TCTTTTC-TTTTTAGGTTATATTTT
1 TCTTTTCATTTTTAGGTTAGATTTT
30677019 AATTTTGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.12, C:0.10, G:0.10, T:0.68
Consensus pattern (26 bp):
TCTTTTCATTTTTAGGTTAGATTTTC
Found at i:30678266 original size:33 final size:32
Alignment explanation
Indices: 30678193--30678283 Score: 121
Period size: 34 Copynumber: 2.8 Consensus size: 32
30678183 TATGGGTTTT
* *
30678193 GGTGTTATATATATAATATATATTTAAGTGCATG
1 GGTGTTATATGTAT-ATATATATTT-GGTGCATG
*
30678227 GATGTTATATGTATGATATATATTTGGTGCATG
1 GGTGTTATATGTAT-ATATATATTTGGTGCATG
30678260 GGTGTTATATGTATA-ATATATTTG
1 GGTGTTATATGTATATATATATTTG
30678284 CGTGGGTCTG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
31 9 0.17
32 1 0.02
33 20 0.38
34 22 0.42
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (32 bp):
GGTGTTATATGTATATATATATTTGGTGCATG
Found at i:30687355 original size:10 final size:11
Alignment explanation
Indices: 30687340--30687390 Score: 61
Period size: 10 Copynumber: 4.6 Consensus size: 11
30687330 TTTATTAAGA
30687340 TAAATTTT-AT
1 TAAATTTTGAT
30687350 TAAATTTTGAT
1 TAAATTTTGAT
30687361 AATAAATTTT-AT
1 --TAAATTTTGAT
30687373 TAAATTTTGAT
1 TAAATTTTGAT
*
30687384 AAAATTT
1 TAAATTT
30687391 AAACCAATCC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
10 16 0.44
11 10 0.28
12 2 0.06
13 8 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (11 bp):
TAAATTTTGAT
Found at i:30687366 original size:23 final size:23
Alignment explanation
Indices: 30687339--30687385 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
30687329 ATTTATTAAG
30687339 ATAAATTTTATTAAATTTTGATA
1 ATAAATTTTATTAAATTTTGATA
30687362 ATAAATTTTATTAAATTTTGATA
1 ATAAATTTTATTAAATTTTGATA
30687385 A
1 A
30687386 AATTTAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
ATAAATTTTATTAAATTTTGATA
Found at i:30694063 original size:50 final size:50
Alignment explanation
Indices: 30693949--30694083 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
30693939 AAAGTGATGG
* * * *
30693949 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGAAAGG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCAGAAAGAAAGA
* * * * ***
30693999 TCGCATGTGGAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGTTTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCAGAAAGAAAGA
*
30694049 TCACGTGTGTAGTACTATGTGAAGGCTACTGCGTG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
30694084 TATTGAATGA
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCAGAAAGAAAGA
Found at i:30695004 original size:15 final size:15
Alignment explanation
Indices: 30694992--30695033 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
30694982 TGGTATGGAG
*
30694992 TGGATTGGAATGGTA
1 TGGAATGGAATGGTA
30695007 TGGAATGGAATGGTA
1 TGGAATGGAATGGTA
30695022 TGGAATGGAATG
1 TGGAATGGAATG
30695034 AAATAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.40, T:0.29
Consensus pattern (15 bp):
TGGAATGGAATGGTA
Found at i:30695009 original size:5 final size:5
Alignment explanation
Indices: 30694986--30695033 Score: 60
Period size: 5 Copynumber: 9.6 Consensus size: 5
30694976 TATAATTGGT
* * * *
30694986 ATGGA GTGGA TTGGA ATGGT ATGGA ATGGA ATGGT ATGGA ATGGA ATG
1 ATGGA ATGGA ATGGA ATGGA ATGGA ATGGA ATGGA ATGGA ATGGA ATG
30695034 AAATAAAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.31, C:0.00, G:0.42, T:0.27
Consensus pattern (5 bp):
ATGGA
Found at i:30707474 original size:20 final size:20
Alignment explanation
Indices: 30707419--30707476 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
30707409 TATATAAATA
*
30707419 TACCCCTGATCGCACTTACG
1 TACCCCTGATCGTACTTACG
* *
30707439 TGCCCCT-ATTGTACTT-CGG
1 TACCCCTGATCGTACTTAC-G
30707458 TACCCCTGATCGTACTTAC
1 TACCCCTGATCGTACTTAC
30707477 ATGCCCTTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 14 0.47
20 14 0.47
21 1 0.03
ACGTcount: A:0.17, C:0.36, G:0.16, T:0.31
Consensus pattern (20 bp):
TACCCCTGATCGTACTTACG
Found at i:30707497 original size:39 final size:39
Alignment explanation
Indices: 30707419--30707513 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 39
30707409 TATATAAATA
* * *
30707419 TACCCCTGATCGCACTTACGTGCCCCTATTGTACTTCGG
1 TACCCCTGATCGCACTTACATGCCCCTATTATACATCGG
* * *
30707458 TACCCCTGATCGTACTTACATGCCCTTGTTATACATCGG
1 TACCCCTGATCGCACTTACATGCCCCTATTATACATCGG
* * *
30707497 TACTCTTGATAGCACTT
1 TACCCCTGATCGCACTT
30707514 TCGTGTCGTG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.34
Consensus pattern (39 bp):
TACCCCTGATCGCACTTACATGCCCCTATTATACATCGG
Found at i:30713053 original size:50 final size:50
Alignment explanation
Indices: 30712945--30713190 Score: 237
Period size: 50 Copynumber: 4.8 Consensus size: 50
30712935 ATTTGGGTAA
30712945 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATG
* * *
30713001 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACTGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* ** * ** *
30713051 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * * *
30713101 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGT-ACAGG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * *
30713150 AAACATCCCATGTAAAACCATGTCTGGGACAT-GCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30713191 TGTTATTATC
Statistics
Matches: 162, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
48 8 0.05
49 29 0.18
50 81 0.50
53 4 0.02
55 1 0.01
56 39 0.24
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:30717366 original size:29 final size:29
Alignment explanation
Indices: 30717329--30717384 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
30717319 ATAATAGTAC
30717329 GTAATAATAATATATAA-AAAGTTAAAATAA
1 GTAATAATAA-A-ATAACAAAGTTAAAATAA
*
30717359 GTAA-AATAAAATAACAAATTTAAAAT
1 GTAATAATAAAATAACAAAGTTAAAAT
30717385 GAATAAGGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 4 0.17
28 11 0.46
29 5 0.21
30 4 0.17
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (29 bp):
GTAATAATAAAATAACAAAGTTAAAATAA
Found at i:30720725 original size:28 final size:28
Alignment explanation
Indices: 30720693--30720760 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
30720683 ATGAATAGGA
* *
30720693 AATTTCATTAAGTTATTTTA-GACTCATT
1 AATTTAATTAAGTTATTTTAGGA-TAATT
*
30720721 AATTTAATTAGGTTATTTTAGGATAATT
1 AATTTAATTAAGTTATTTTAGGATAATT
30720749 AATTTAATTAAG
1 AATTTAATTAAG
30720761 ATTTTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 33 0.94
29 2 0.06
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (28 bp):
AATTTAATTAAGTTATTTTAGGATAATT
Found at i:30722414 original size:11 final size:11
Alignment explanation
Indices: 30722398--30722434 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
30722388 AATTATGAAC
30722398 TTACCATTTCA
1 TTACCATTTCA
30722409 TTACCATTTCA
1 TTACCATTTCA
*
30722420 TTACCTTTTC-
1 TTACCATTTCA
30722430 TTACC
1 TTACC
30722435 CGTTTCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.22, C:0.30, G:0.00, T:0.49
Consensus pattern (11 bp):
TTACCATTTCA
Found at i:30722423 original size:22 final size:22
Alignment explanation
Indices: 30722398--30722443 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
30722388 AATTATGAAC
30722398 TTACCATTTCATTA-CCATTTCA
1 TTACCATTTC-TTACCCATTTCA
* *
30722420 TTACCTTTTCTTACCCGTTTCA
1 TTACCATTTCTTACCCATTTCA
30722442 TT
1 TT
30722444 TGCATAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.20, C:0.28, G:0.02, T:0.50
Consensus pattern (22 bp):
TTACCATTTCTTACCCATTTCA
Found at i:30727262 original size:23 final size:23
Alignment explanation
Indices: 30727236--30727279 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
30727226 TGAATTAAAG
30727236 AGCAAATACAGACATAGATGCGT
1 AGCAAATACAGACATAGATGCGT
* **
30727259 AGCAGATACAGATTTAGATGC
1 AGCAAATACAGACATAGATGC
30727280 ATAATAGAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (23 bp):
AGCAAATACAGACATAGATGCGT
Found at i:30731652 original size:14 final size:14
Alignment explanation
Indices: 30731633--30731673 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
30731623 CAATCAATAG
30731633 ATTTTTTGTGTATT
1 ATTTTTTGTGTATT
30731647 ATTTTTTGTGTATT
1 ATTTTTTGTGTATT
30731661 ATTTTTTGT-TATT
1 ATTTTTTGTGTATT
30731674 CTTAACTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.15
14 23 0.85
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (14 bp):
ATTTTTTGTGTATT
Found at i:30748674 original size:10 final size:10
Alignment explanation
Indices: 30748659--30748684 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
30748649 CCCCGTCAAA
30748659 AGTTTCCTAT
1 AGTTTCCTAT
30748669 AGTTTCCTAT
1 AGTTTCCTAT
30748679 AGTTTC
1 AGTTTC
30748685 ACAATCCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (10 bp):
AGTTTCCTAT
Found at i:30760355 original size:5 final size:6
Alignment explanation
Indices: 30760307--30760354 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
30760297 TAAGTCTAAG
**
30760307 AAAATA AAAATAA AACAACTA AAAGCA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAAT-A AA-AA-TA AAAATA AAAATA AAAATA AAAATA AAA
30760355 TCAATTGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 25 0.71
7 4 0.11
8 5 0.14
9 1 0.03
ACGTcount: A:0.79, C:0.06, G:0.02, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:30761620 original size:26 final size:26
Alignment explanation
Indices: 30761593--30761647 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
30761583 ACTTAGCTAT
*
30761593 AATAAAATAATAATGAAGGGAAAAATA
1 AATAAAATAA-AATAAAGGGAAAAATA
* *
30761620 AATAAAATAAAATAAATGGAAAACTA
1 AATAAAATAAAATAAAGGGAAAAATA
30761646 AA
1 AA
30761648 AGTACTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.69, C:0.02, G:0.11, T:0.18
Consensus pattern (26 bp):
AATAAAATAAAATAAAGGGAAAAATA
Found at i:30761709 original size:3 final size:3
Alignment explanation
Indices: 30761701--30761728 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
30761691 CAGTAAAACA
30761701 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
30761729 TGATGATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:30769740 original size:108 final size:108
Alignment explanation
Indices: 30769551--30769768 Score: 436
Period size: 108 Copynumber: 2.0 Consensus size: 108
30769541 AGAGAGCTAT
30769551 AGATGGCAATAGGGGGTAAGCAAGATGTTAACGTGAAAAATAAACTATCGGTTGGGGAATTTTAG
1 AGATGGCAATAGGGGGTAAGCAAGATGTTAACGTGAAAAATAAACTATCGGTTGGGGAATTTTAG
30769616 GGTGAATTTTAAATTTTGGTAAAACTGCTTTATAAAAACTCAA
66 GGTGAATTTTAAATTTTGGTAAAACTGCTTTATAAAAACTCAA
30769659 AGATGGCAATAGGGGGTAAGCAAGATGTTAACGTGAAAAATAAACTATCGGTTGGGGAATTTTAG
1 AGATGGCAATAGGGGGTAAGCAAGATGTTAACGTGAAAAATAAACTATCGGTTGGGGAATTTTAG
30769724 GGTGAATTTTAAATTTTGGTAAAACTGCTTTATAAAAACTCAA
66 GGTGAATTTTAAATTTTGGTAAAACTGCTTTATAAAAACTCAA
30769767 AG
1 AG
30769769 TGTTGCCCCT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 110 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.29
Consensus pattern (108 bp):
AGATGGCAATAGGGGGTAAGCAAGATGTTAACGTGAAAAATAAACTATCGGTTGGGGAATTTTAG
GGTGAATTTTAAATTTTGGTAAAACTGCTTTATAAAAACTCAA
Found at i:30777898 original size:10 final size:10
Alignment explanation
Indices: 30777883--30777950 Score: 50
Period size: 10 Copynumber: 6.7 Consensus size: 10
30777873 CTCAATCAAT
30777883 TTTTTTTCTC
1 TTTTTTTCTC
*
30777893 TTTTTTATGT-
1 TTTTTT-TCTC
*
30777903 TTTTTCTTTTC
1 TTTTT-TTCTC
30777914 TTTTCTTT-TC
1 TTTT-TTTCTC
**
30777924 TTTTTTTCGA
1 TTTTTTTCTC
*
30777934 TTTTTTTATC
1 TTTTTTTCTC
30777944 TTTTTTT
1 TTTTTTT
30777951 AGATTAAAGA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
9 3 0.07
10 33 0.72
11 9 0.20
12 1 0.02
ACGTcount: A:0.04, C:0.12, G:0.03, T:0.81
Consensus pattern (10 bp):
TTTTTTTCTC
Found at i:30782424 original size:53 final size:53
Alignment explanation
Indices: 30782353--30782459 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
30782343 TTGATTTAAG
30782353 TATGATTGTGGTTTATCTTGATCTAAATAAATAATTCATTTCAATTAAGTACT
1 TATGATTGTGGTTTATCTTGATCTAAATAAATAATTCATTTCAATTAAGTACT
*
30782406 TATGATTGTGGTTTATCTTGATCTAAATAAATAATTCCTTTCAATTAAGTACT
1 TATGATTGTGGTTTATCTTGATCTAAATAAATAATTCATTTCAATTAAGTACT
30782459 T
1 T
30782460 CTAGTATTCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (53 bp):
TATGATTGTGGTTTATCTTGATCTAAATAAATAATTCATTTCAATTAAGTACT
Found at i:30791516 original size:18 final size:19
Alignment explanation
Indices: 30791493--30791545 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
30791483 AATCGTGTCG
30791493 TTCATTTTCAAAAT-ATTA
1 TTCATTTTCAAAATCATTA
*
30791511 TTCATTTAC-AAATCATTA
1 TTCATTTTCAAAATCATTA
*
30791529 TTCAATTTCAAAA-CATT
1 TTCATTTTCAAAATCATT
30791546 TTTTAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 4 0.13
18 23 0.77
19 3 0.10
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (19 bp):
TTCATTTTCAAAATCATTA
Found at i:30798102 original size:7 final size:7
Alignment explanation
Indices: 30798092--30798192 Score: 96
Period size: 7 Copynumber: 14.4 Consensus size: 7
30798082 AAAAATAATG
30798092 GAGAATT
1 GAGAATT
30798099 GAGAATT
1 GAGAATT
*
30798106 AAGAATT
1 GAGAATT
*
30798113 GAGGATT
1 GAGAATT
*
30798120 -AGGGATT
1 GA-GAATT
* *
30798127 GGGGATT
1 GAGAATT
*
30798134 GAGCATT
1 GAGAATT
30798141 GAGAATT
1 GAGAATT
30798148 GAGAATT
1 GAGAATT
30798155 GAGAATT
1 GAGAATT
*
30798162 GAAAATT
1 GAGAATT
*
30798169 GAAAATT
1 GAGAATT
*
30798176 GAAAATT
1 GAGAATT
*
30798183 GAAAATT
1 GAGAATT
30798190 GAG
1 GAG
30798193 GAATGAATAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
6 1 0.01
7 82 0.99
ACGTcount: A:0.43, C:0.01, G:0.29, T:0.28
Consensus pattern (7 bp):
GAGAATT
Found at i:30798199 original size:14 final size:15
Alignment explanation
Indices: 30798138--30798206 Score: 74
Period size: 14 Copynumber: 4.9 Consensus size: 15
30798128 GGGATTGAGC
*
30798138 ATTGAGAATTGAG-A
1 ATTGAAAATTGAGAA
*
30798152 ATTGAGAATTGA-AA
1 ATTGAAAATTGAGAA
30798166 ATTGAAAATTGA-AA
1 ATTGAAAATTGAGAA
*
30798180 ATTGAAAATTGAGGA
1 ATTGAAAATTGAGAA
*
30798195 A-TGAATATTGAG
1 ATTGAAAATTGAG
30798207 TATTTGGTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
14 48 0.96
15 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (15 bp):
ATTGAAAATTGAGAA
Found at i:30798199 original size:21 final size:21
Alignment explanation
Indices: 30798138--30798205 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
30798128 GGGATTGAGC
* *
30798138 ATTGAGAATTGAGAATTGAGA
1 ATTGAAAATTGAGAATTGAAA
*
30798159 ATTGAAAATTGAAAATTGAAA
1 ATTGAAAATTGAGAATTGAAA
*
30798180 ATTGAAAATTGAGGAA-TGAAT
1 ATTGAAAATTGA-GAATTGAAA
30798201 ATTGA
1 ATTGA
30798206 GTATTTGGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
21 39 0.95
22 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (21 bp):
ATTGAAAATTGAGAATTGAAA
Found at i:30799031 original size:26 final size:25
Alignment explanation
Indices: 30798984--30799032 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
30798974 ACCCATAAAA
* * *
30798984 ACCCACAAAATGCCTAAGCCCACTC
1 ACCCACAAAATCCCAAAACCCACTC
30799009 ACCCACCAAAATCCCAAAACCCAC
1 ACCCA-CAAAATCCCAAAACCCAC
30799033 CAACCATCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.41, C:0.47, G:0.04, T:0.08
Consensus pattern (25 bp):
ACCCACAAAATCCCAAAACCCACTC
Found at i:30800677 original size:6 final size:6
Alignment explanation
Indices: 30800666--30800712 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
30800656 AAATATATAC
30800666 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT -TTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
30800713 GTGTTGAGTC
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.12
6 36 0.88
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
CTTTTT
Found at i:30803009 original size:9 final size:9
Alignment explanation
Indices: 30802991--30803030 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
30802981 TTTGGTTAAA
*
30802991 AATTAACCG
1 AATTACCCG
30803000 AATTACCCG
1 AATTACCCG
*
30803009 AATTACCTG
1 AATTACCCG
30803018 AATTACCCG
1 AATTACCCG
30803027 AATT
1 AATT
30803031 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTACCCG
Found at i:30803060 original size:17 final size:17
Alignment explanation
Indices: 30803038--30803098 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
30803028 ATTGAATCAC
30803038 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
30803055 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
30803075 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
30803092 TACATAA
1 TACATAA
30803099 GTCTTGAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 20 0.61
20 13 0.39
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:30803075 original size:37 final size:37
Alignment explanation
Indices: 30803029--30803103 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
30803019 ATTACCCGAA
30803029 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
30803066 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
30803103 T
1 T
30803104 GAAATTAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:30803117 original size:37 final size:37
Alignment explanation
Indices: 30803029--30803120 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
30803019 ATTACCCGAA
*
30803029 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
*
30803066 TTGAATCACTACATAATTAAAAACATTACATAAGTC-
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
30803102 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
30803121 GAAATATAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
36 3 0.06
37 46 0.88
38 3 0.06
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTACATAAGTCT
Found at i:30808177 original size:62 final size:61
Alignment explanation
Indices: 30808066--30808191 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 61
30808056 ATATTATTTA
*
30808066 GATCATTATAGAAAACATGCACTGCACCCTTCGGTATTCAACTTAATCAATTAAATTAGTT
1 GATCATTATAGAAAACATGCACTGCACCCTTCAGTATTCAACTTAATCAATTAAATTAGTT
* * *
30808127 GATCATTATGGAACACATGCATTGCACCCCTTCAGTATTCAACTTAATCAATTAAATTAGTT
1 GATCATTATAGAAAACATGCACTGCA-CCCTTCAGTATTCAACTTAATCAATTAAATTAGTT
30808189 GAT
1 GAT
30808192 AAAGCCCAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
61 23 0.38
62 37 0.62
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (61 bp):
GATCATTATAGAAAACATGCACTGCACCCTTCAGTATTCAACTTAATCAATTAAATTAGTT
Found at i:30810218 original size:3 final size:3
Alignment explanation
Indices: 30810205--30810251 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
30810195 GTTAATTAAT
*
30810205 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
30810252 GTCATTAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:30811253 original size:109 final size:109
Alignment explanation
Indices: 30810839--30811376 Score: 843
Period size: 111 Copynumber: 4.9 Consensus size: 109
30810829 GAGGAAAATT
*
30810839 TTTCAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
30810904 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCAAAAAA
* *
30810948 TTTCAAAATAAGGTAATGTTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
30811013 CGATTTTTTCTCGTTCAACCAAAGAGCTAAATATCCTTTTAAAAAA
66 CGA-TTTTTCTCGTTCAACCAAATAGCCAAATATCC-TTCAAAAAA
*
30811059 ATTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
30811124 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCAAAAAA
*
30811168 TTTCAAAATAAGGCAATG-TTTGCGTTTGAAAACTT-GAGAAAACGTGCCCTAATGTGCTGGGTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAA-TTCGAGAAAACGTGCCCTAATGTGCTGGGTT
* *
30811231 TCGATTTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAAAA
65 TCGA-TTTTTCTCGTTCAACCAAATAGCCAAATATCC--TTCAAAAAA
* * *
30811279 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAG-GAATGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
30811343 CGA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCT
30811377 CTTGAATTTC
Statistics
Matches: 399, Mismatches: 22, Indels: 19
0.91 0.05 0.04
Matches are distributed among these distances:
106 1 0.00
108 73 0.18
109 124 0.31
110 60 0.15
111 125 0.31
112 16 0.04
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCAAAAAA
Found at i:30811286 original size:220 final size:221
Alignment explanation
Indices: 30810839--30811376 Score: 944
Period size: 220 Copynumber: 2.5 Consensus size: 221
30810829 GAGGAAAATT
*
30810839 TTTCAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
30810904 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGTAATGTTT
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGTTT
*
30810969 TACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACCA
131 TACGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACCA
30811034 AAGAGCTAAATATCCTTTTAAAAAAA
196 AAGAGCTAAATATCCTTTTAAAAAAA
30811060 -TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
30811124 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATG-TT
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGTTT
*
30811188 TGCGTTTGAAAACTT-GAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACC
131 TACGTTTGAAAA-TTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACC
*
30811252 AAATAGCTAAATATCCTTTTAAAAAAA
195 AAAGAGCTAAATATCCTTTTAAAAAAA
* * *
30811279 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAG-GAATGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
30811343 CGA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCT
30811377 CTTGAATTTC
Statistics
Matches: 306, Mismatches: 9, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
217 30 0.10
219 113 0.37
220 163 0.53
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (221 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGTTT
TACGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACCA
AAGAGCTAAATATCCTTTTAAAAAAA
Found at i:30811979 original size:26 final size:26
Alignment explanation
Indices: 30811950--30812002 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
30811940 TAAGTGGGAG
30811950 TGAGAAGTTAGTCCTTCGTGAGGTTT
1 TGAGAAGTTAGTCCTTCGTGAGGTTT
30811976 TGAGAAGTTAGTCCTTCGTGAGGTTT
1 TGAGAAGTTAGTCCTTCGTGAGGTTT
30812002 T
1 T
30812003 CACCTCCGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.40
Consensus pattern (26 bp):
TGAGAAGTTAGTCCTTCGTGAGGTTT
Found at i:30823953 original size:101 final size:101
Alignment explanation
Indices: 30823141--30823933 Score: 1153
Period size: 101 Copynumber: 7.9 Consensus size: 101
30823131 AAACCATAGT
* * * *
30823141 TTGCAATTTAAAAGATTGAAGCCACAACGGCAAATCTTA-CTT-CCAAGCGATGCAGCGGAACAG
1 TTGCAATTCAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAG
*
30823204 ATTGAAGCTACAACGGCGAATCTCGCTTCCTAGACA
66 ATTGAAGCTACAACGGTGAATCTCGCTTCCTAGACA
*
30823240 TTCCAATTCAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAG
1 TTGCAATTCAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAG
30823305 ATTGAAGCTACAACGGTGAATCTCGCTTCCTAGACA
66 ATTGAAGCTACAACGGTGAATCTCGCTTCCTAGACA
* *
30823341 TTGCAACTCAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCAATGCAGCGGAACAG
1 TTGCAATTCAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAG
* *
30823406 ATTGAAGCTACAATGGCGAATCTCGCTTCCTAGACA
66 ATTGAAGCTACAACGGTGAATCTCGCTTCCTAGACA
* * * *
30823442 TTGCAACTCAAAAGATTGAGGCCACAACGGTGAATCTTACCTTCCCAGGCAATGCAGCAGAACAG
1 TTGCAATTCAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAG
*
30823507 ATTGAAGCTACAACAGTGAATCTCGCTTCCTAGACA
66 ATTGAAGCTACAACGGTGAATCTCGCTTCCTAGACA
* * * * * *
30823543 TTGCAACTCAAAAGATTGAGGCCACAACGGCGAATCTTACATTCCCAGGGGATACAGCGAAACAA
1 TTGCAATTCAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAG
* *
30823608 ATTGAAGCTACAACGGCGAATCTCACTTCCTAGACA
66 ATTGAAGCTACAACGGTGAATCTCGCTTCCTAGACA
*
30823644 TTGCAATTCAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCAATGCAGCGGAACAG
1 TTGCAATTCAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAG
* * *
30823709 ATTGAAGCTGCAACAGTGAATCTCGCTTCCTCGACA
66 ATTGAAGCTACAACGGTGAATCTCGCTTCCTAGACA
* *
30823745 TTGCAACTCAAAAGATTAAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGC-GAAGCA
1 TTGCAATTCAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAA-CA
* * **
30823809 AATTGAAG-TCACAACGGTGAATCTTGCTTCCCCGACA
65 GATTGAAGCT-ACAACGGTGAATCTCGCTTCCTAGACA
* * ** * ** * *
30823846 TTGCAATTTAAAACATTGAGGCCACAACGGCGAATCTTACCTTCTTAGGTGATATAGTGGAATAG
1 TTGCAATTCAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAG
*
30823911 ATTGAAGCCACAACGGTGAATCT
66 ATTGAAGCTACAACGGTGAATCT
30823934 TCCTTCCCCG
Statistics
Matches: 628, Mismatches: 60, Indels: 10
0.90 0.09 0.01
Matches are distributed among these distances:
99 35 0.06
100 7 0.01
101 583 0.93
102 3 0.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (101 bp):
TTGCAATTCAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAG
ATTGAAGCTACAACGGTGAATCTCGCTTCCTAGACA
Found at i:30826715 original size:109 final size:109
Alignment explanation
Indices: 30826348--30827103 Score: 1149
Period size: 109 Copynumber: 6.9 Consensus size: 109
30826338 GAGGAAAATT
*
30826348 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGATTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
30826413 TGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
* * *
30826457 TTTCAAAATAATGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
* **
30826522 CGATTTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAAAA
66 CGA-TTTTTCTCGTTCAACCAAATAGCCAAATATCC--TTCCAAAAA
*
30826569 ATTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
30826634 CAATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
*
30826678 TTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
* **
30826743 CGATTTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAA
66 CGA-TTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
** * **
30826788 AATCAAAATAAGGCAATGTTTTGTGTTTGGAAATTCAAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
30826853 TGATTTTTCTCGTTCAACCAAATAGCCAAATATCATTCCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
* ** * *
30826897 TTTCAAAATAAGGCAATTTTTTGCGTTTAAAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
* ** *
30826962 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAT
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
* *
30827006 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAG-GAACGTGCCCTAATGTGTTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
30827070 TGA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCT
30827104 CTTGAATTTC
Statistics
Matches: 586, Mismatches: 57, Indels: 11
0.90 0.09 0.02
Matches are distributed among these distances:
106 29 0.05
108 24 0.04
109 302 0.52
110 130 0.22
111 31 0.05
112 70 0.12
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
Found at i:30826732 original size:221 final size:220
Alignment explanation
Indices: 30826349--30827103 Score: 1288
Period size: 221 Copynumber: 3.5 Consensus size: 220
30826339 AGGAAAATTT
*
30826349 TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGATTTT
1 TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTT
* *
30826414 GATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAATGTAATGTTTT
66 GATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGTTTT
*
30826479 GCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACCAA
131 GCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACCAA
30826544 ATAGCTAAATATCCTTTTAAAAAAAA
196 ATAGCTAAATATCCTTTT-AAAAAAA
*
30826570 TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTC
1 TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTT
*
30826635 AATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGTTTT
66 GATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGTTTT
*
30826700 GCGTTTGAAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACCAA
131 GCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACCAA
30826765 ATAGCTAAATATCCTTTTAAAAAAA
196 ATAGCTAAATATCCTTTTAAAAAAA
* **
30826790 -TCAAAATAAGGCAATGTTTTGTGTTTGGAAATTCAAGAAAACGTGCCCTAATGTGCTGGGTTTT
1 TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTT
* *
30826854 GATTTTTCTCGTTCAACCAAATAGCCAAATATCATTCCAAAAATTTCAAAATAAGGCAATTTTTT
66 GATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGTTTT
* *
30826919 GCGTTTAAAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTTTCGA-TTTTTCTCGTTCAACCAA
131 GCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACCAA
**
30826983 ATAGCTAAATATCCTTTT-AAAATT
196 ATAGCTAAATATCCTTTTAAAAAAA
* *
30827007 TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAG-GAACGTGCCCTAATGTGTTGGGTTTT
1 TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTT
*
30827071 GA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 GATTTTTCTCGTTCAACCAAATAGCCAAATATCCT
30827104 CTTGAATTTC
Statistics
Matches: 507, Mismatches: 26, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
215 29 0.06
217 30 0.06
218 70 0.14
219 165 0.33
220 7 0.01
221 206 0.41
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (220 bp):
TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTT
GATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGTTTT
GCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACCAA
ATAGCTAAATATCCTTTTAAAAAAA
Found at i:30829393 original size:18 final size:18
Alignment explanation
Indices: 30829354--30829477 Score: 61
Period size: 18 Copynumber: 6.6 Consensus size: 18
30829344 TTTAGGTGGG
* *
30829354 GGTGCTGGTGGA-GGCTTT
1 GGTGGTGGTGGAGGGC-TA
30829372 GGTGGTGGTGGAGGGCTA
1 GGTGGTGGTGGAGGGCTA
* * * *
30829390 GGTGGCGGTGGTGGTCTTGGG
1 GGTGGTGGTGGAGGGC-T--A
* *
30829411 GGTGGTGGGGGAGGAGGATTA
1 GGTGGTGGTGGA-G-GG-CTA
* * *
30829432 GGTGGTGGAGGAGGTCTT
1 GGTGGTGGTGGAGGGCTA
* *
30829450 GGGGGTGGTGGAGGCCTA
1 GGTGGTGGTGGAGGGCTA
30829468 GGTGGTGGTG
1 GGTGGTGGTG
30829478 CGGGAGGAGG
Statistics
Matches: 78, Mismatches: 21, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
18 49 0.63
19 5 0.06
20 1 0.01
21 20 0.26
22 1 0.01
23 2 0.03
ACGTcount: A:0.09, C:0.06, G:0.60, T:0.25
Consensus pattern (18 bp):
GGTGGTGGTGGAGGGCTA
Found at i:30829394 original size:30 final size:30
Alignment explanation
Indices: 30829300--30829394 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 30
30829290 TGGTGGTCTA
* * *
30829300 GGTGGTGGTTTTGGTGGTGGTGGAGGCACT
1 GGTGGAGGATTTGGTGGTGGTGGAGGCGCT
** * * *
30829330 GGTGGAGGAGGTGGT-TTAGGTGGGGGTGCT
1 GGTGGAGGATTTGGTGGT-GGTGGAGGCGCT
*
30829360 GGTGGAGGCTTTGGTGGTGGTGGAGG-GCT
1 GGTGGAGGATTTGGTGGTGGTGGAGGCGCT
30829389 AGGTGG
1 -GGTGG
30829395 CGGTGGTGGT
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
29 4 0.08
30 44 0.90
31 1 0.02
ACGTcount: A:0.08, C:0.05, G:0.58, T:0.28
Consensus pattern (30 bp):
GGTGGAGGATTTGGTGGTGGTGGAGGCGCT
Found at i:30829417 original size:42 final size:42
Alignment explanation
Indices: 30829371--30829460 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
30829361 GTGGAGGCTT
* * * * *
30829371 TGGTGGTGGTGGAGGGCTAGGTGGCGGTGGTGGTCTTGGGGG
1 TGGTGGGGGAGGAGGACTAGGTGGCGGAGGAGGTCTTGGGGG
* *
30829413 TGGTGGGGGAGGAGGATTAGGTGGTGGAGGAGGTCTTGGGGG
1 TGGTGGGGGAGGAGGACTAGGTGGCGGAGGAGGTCTTGGGGG
30829455 TGGTGG
1 TGGTGG
30829461 AGGCCTAGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.09, C:0.04, G:0.62, T:0.24
Consensus pattern (42 bp):
TGGTGGGGGAGGAGGACTAGGTGGCGGAGGAGGTCTTGGGGG
Done.