Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 98 of 290
Found at i:33330027 original size:24 final size:24
Alignment explanation
Indices: 33330000--33330046 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
33329990 TTATTGCCAA
33330000 TTCATATCAG-TCAAATATTCATTT
1 TTCATATCAGCT-AAATATTCATTT
*
33330024 TTCATATCAGCTGAATATTCATT
1 TTCATATCAGCTAAATATTCATT
33330047 GTACCCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (24 bp):
TTCATATCAGCTAAATATTCATTT
Found at i:33331719 original size:50 final size:49
Alignment explanation
Indices: 33331616--33331786 Score: 172
Period size: 49 Copynumber: 3.5 Consensus size: 49
33331606 GAATTTTGGG
* * * *
33331616 CATGTCTAGGACATGGCATCAGCACGTATA-GAG-GTGTTAGTGTAAGAC
1 CATGTCTAGGACATGGCATCGGCACGAATATGTGAGAG-TAGTGTAAGAC
*
33331664 CATGTCTGGGACATGGCATCGGCACGAATATGTGAGAGCTAGTGTAAGAC
1 CATGTCTAGGACATGGCATCGGCACGAATATGTGAGAG-TAGTGTAAGAC
* * * *
33331714 CATGTCTGGGACATGGCGTCGGC-CTCAAT-T-TCGATAGTCAGTGTAAGAC
1 CATGTCTAGGACATGGCATCGGCAC-GAATATGT-GAGAGT-AGTGTAAGAC
*
33331763 CATGTCTAGGACATGGCATTGGCA
1 CATGTCTAGGACATGGCATCGGCA
33331787 TTATACCCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
48 29 0.28
49 38 0.36
50 38 0.36
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (49 bp):
CATGTCTAGGACATGGCATCGGCACGAATATGTGAGAGTAGTGTAAGAC
Found at i:33334001 original size:29 final size:28
Alignment explanation
Indices: 33333946--33334060 Score: 104
Period size: 29 Copynumber: 4.0 Consensus size: 28
33333936 TTGAGCATGA
* * *
33333946 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
33333974 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * * *
33334003 ATACATAGGTTATTTGGGCCTAATAGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * *
33334032 ATATGAATATGATTGGGCTTAATTGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
33334060 A
1 A
33334061 AATACAAGTA
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
28 26 0.37
29 44 0.63
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:33338917 original size:65 final size:66
Alignment explanation
Indices: 33338811--33338938 Score: 161
Period size: 65 Copynumber: 2.0 Consensus size: 66
33338801 GGGTACCACA
* *
33338811 GTACAAATAGGGGCATATATGTGCAAACAAGGGTACCGAAGTACAAATAAGGGTACGTATGTATA
1 GTACAAATAGGGGCATATACGTGCAAACAAGGGTACCGAAGTACAAATAAGGGCACGTATGTATA
33338876 T
66 T
* * * * * *
33338877 GTACAAATAGGGG-GTGTACGTGCAAAC-AGGAGTACTGAAGTAGAAATAGGGGCATGTATGTA
1 GTACAAATAGGGGCATATACGTGCAAACAAGG-GTACCGAAGTACAAATAAGGGCACGTATGTA
33338939 CAAACAGGGG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
64 3 0.06
65 37 0.70
66 13 0.25
ACGTcount: A:0.38, C:0.11, G:0.30, T:0.22
Consensus pattern (66 bp):
GTACAAATAGGGGCATATACGTGCAAACAAGGGTACCGAAGTACAAATAAGGGCACGTATGTATA
T
Found at i:33338952 original size:40 final size:39
Alignment explanation
Indices: 33338881--33338958 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
33338871 GTATATGTAC
* *
33338881 AAATAGGGGGTGTACGTGCAAACAGGAGTACTGAAGTAG
1 AAATAGGGGATGTACGTACAAACAGGAGTACTGAAGTAG
* *
33338920 AAATAGGGGCATGTATGTACAAACAGGGGTACTGAAGTA
1 AAATAGGGG-ATGTACGTACAAACAGGAGTACTGAAGTA
33338959 TAAACAATGG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 9 0.26
40 25 0.74
ACGTcount: A:0.37, C:0.10, G:0.33, T:0.19
Consensus pattern (39 bp):
AAATAGGGGATGTACGTACAAACAGGAGTACTGAAGTAG
Found at i:33338963 original size:20 final size:20
Alignment explanation
Indices: 33338899--33338964 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
33338889 GGTGTACGTG
*
33338899 CAAACAGGAGTACTGAAGTA
1 CAAACAGGGGTACTGAAGTA
* * * *
33338919 GAAATAGGGGCA-TGTATGTA
1 CAAACAGGGGTACTG-AAGTA
33338939 CAAACAGGGGTACTGAAGTA
1 CAAACAGGGGTACTGAAGTA
*
33338959 TAAACA
1 CAAACA
33338965 ATGGCACCTA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.18
Consensus pattern (20 bp):
CAAACAGGGGTACTGAAGTA
Found at i:33338977 original size:40 final size:40
Alignment explanation
Indices: 33338899--33338991 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
33338889 GGTGTACGTG
* * * **
33338899 CAAACAGGAGTACTGAAGTAGAAATAGGGGCATGTATGTA
1 CAAACAGGGGTACTGAAGTAGAAACAAGGGCACCTATGTA
* * *
33338939 CAAACAGGGGTACTGAAGTATAAACAATGGCACCTATGTG
1 CAAACAGGGGTACTGAAGTAGAAACAAGGGCACCTATGTA
*
33338979 CAAACAAGGGTAC
1 CAAACAGGGGTAC
33338992 CAAAGTACAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.18
Consensus pattern (40 bp):
CAAACAGGGGTACTGAAGTAGAAACAAGGGCACCTATGTA
Found at i:33339002 original size:20 final size:20
Alignment explanation
Indices: 33338936--33339003 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
33338926 GGGCATGTAT
* **
33338936 GTACAAACAGGGGTACTGAA
1 GTACAAACAAGGGTACCAAA
* * * * *
33338956 GTATAAACAATGGCACCTAT
1 GTACAAACAAGGGTACCAAA
*
33338976 GTGCAAACAAGGGTACCAAA
1 GTACAAACAAGGGTACCAAA
33338996 GTACAAAC
1 GTACAAAC
33339004 TAAGAAACCA
Statistics
Matches: 34, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (20 bp):
GTACAAACAAGGGTACCAAA
Found at i:33344064 original size:27 final size:27
Alignment explanation
Indices: 33344034--33344087 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
33344024 ATAAATGAGA
33344034 TCAACAGATTACCCTTCTGGGATAAAT
1 TCAACAGATTACCCTTCTGGGATAAAT
*
33344061 TCAACAGATTACCCTTCTGGGCTAAAT
1 TCAACAGATTACCCTTCTGGGATAAAT
33344088 CCTTACTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (27 bp):
TCAACAGATTACCCTTCTGGGATAAAT
Found at i:33344966 original size:27 final size:27
Alignment explanation
Indices: 33344926--33344979 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
33344916 GGAGAAGAAG
33344926 AATGGCTGAGTTTTGGTACATTTTTCC
1 AATGGCTGAGTTTTGGTACATTTTTCC
*
33344953 AATGGCTGATTTTTGGTACATTTTTCC
1 AATGGCTGAGTTTTGGTACATTTTTCC
33344980 CATTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.15, G:0.20, T:0.46
Consensus pattern (27 bp):
AATGGCTGAGTTTTGGTACATTTTTCC
Found at i:33354480 original size:41 final size:41
Alignment explanation
Indices: 33354434--33354551 Score: 137
Period size: 41 Copynumber: 2.9 Consensus size: 41
33354424 CGGGGGCAGA
** *
33354434 AAAGTACAAATGGGGGCACGCATGTGCAATTTAGGGGTACC
1 AAAGTACAAACAGGGGCACACATGTGCAATTTAGGGGTACC
* * * * *
33354475 GAAGTACAAACAGGGGCATATATGTGTAATTTAGGGGTACT
1 AAAGTACAAACAGGGGCACACATGTGCAATTTAGGGGTACC
* * *
33354516 AAAGTACAAACAGGGGCACATATGTGTAATTCAGGG
1 AAAGTACAAACAGGGGCACACATGTGCAATTTAGGG
33354552 AATAATTAAC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.22
Consensus pattern (41 bp):
AAAGTACAAACAGGGGCACACATGTGCAATTTAGGGGTACC
Found at i:33356219 original size:48 final size:48
Alignment explanation
Indices: 33356167--33356276 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
33356157 AAACCACATC
* * *
33356167 TGGGACATGGCGTCGGCATTGTTATGTGAGCAAGTGTAAGACCATGTA
1 TGGGACATGGCATCGGCATCGTTATGTAAGCAAGTGTAAGACCATGTA
* *
33356215 TGGGACATGGCATCGGCATCGTTATGTAAGCCAGTGTAAGACCATGTC
1 TGGGACATGGCATCGGCATCGTTATGTAAGCAAGTGTAAGACCATGTA
33356263 TGGGACATGGCATC
1 TGGGACATGGCATC
33356277 ATGAGGCATC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (48 bp):
TGGGACATGGCATCGGCATCGTTATGTAAGCAAGTGTAAGACCATGTA
Found at i:33357599 original size:48 final size:48
Alignment explanation
Indices: 33357547--33357674 Score: 204
Period size: 48 Copynumber: 2.7 Consensus size: 48
33357537 GTGTAACCGC
33357547 GTAAGACCATGTCTGGGACATGGCATCGGCAT-TGTTATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCT-TTATGTGAGCCAGT
* *
33357595 GTAAGACCATGTTTGGGACATGGCATCGGAATCTTTATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCTTTATGTGAGCCAGT
* *
33357643 GTAAGACCATTTCTAGGACATGGCATCGGCAT
1 GTAAGACCATGTCTGGGACATGGCATCGGCAT
33357675 GGGGCATCGT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
48 72 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCATCTTTATGTGAGCCAGT
Found at i:33359330 original size:20 final size:20
Alignment explanation
Indices: 33359305--33359345 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
33359295 TGAATAGTAA
*
33359305 AAAAATCAGT-AAAAATCATT
1 AAAAAT-AGTCAAAAATAATT
33359325 AAAAATAGTCAAAAATAATT
1 AAAAATAGTCAAAAATAATT
33359345 A
1 A
33359346 CAGCTATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAAATAGTCAAAAATAATT
Found at i:33362164 original size:38 final size:40
Alignment explanation
Indices: 33362103--33362205 Score: 113
Period size: 38 Copynumber: 2.6 Consensus size: 40
33362093 ATTTGATGTG
33362103 TATCCGGGCTTAAAGACCCGCAGGCTATA-TGCTGAAATTA
1 TATCCGGGCTTAAAGACCCGCAGG-TATAGTGCTGAAATTA
* **
33362143 TATCCGGG-TTAAA-TCCCGCAGGTATAGTGCTGGTATTA
1 TATCCGGGCTTAAAGACCCGCAGGTATAGTGCTGAAATTA
* * * *
33362181 TATCTGAGCTTAAAGTCCCACAGGT
1 TATCCGGGCTTAAAGACCCGCAGGT
33362206 TTTGTGTTGG
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
37 4 0.07
38 23 0.43
39 10 0.19
40 17 0.31
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGTATAGTGCTGAAATTA
Found at i:33362821 original size:16 final size:18
Alignment explanation
Indices: 33362790--33362822 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
33362780 AGTTCATCAC
33362790 ACTATTGATCATTTTGGT
1 ACTATTGATCATTTTGGT
33362808 ACTATT-AT-ATTTTGG
1 ACTATTGATCATTTTGG
33362823 AGTTGATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (18 bp):
ACTATTGATCATTTTGGT
Found at i:33363787 original size:9 final size:10
Alignment explanation
Indices: 33363764--33363789 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
33363754 GTGAATAGTA
33363764 AAAAATCATT
1 AAAAATCATT
33363774 AAAAATCATT
1 AAAAATCATT
33363784 AAAAAT
1 AAAAAT
33363790 AGTAAAAAAA
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:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATCATT
Found at i:33364099 original size:374 final size:375
Alignment explanation
Indices: 33363401--33364256 Score: 1471
Period size: 374 Copynumber: 2.3 Consensus size: 375
33363391 CTGACTTTGG
* *
33363401 AAAATCATTAAAAATAGTAAAAAAAATAATTACAAACTATGATTTATATTTTTTAAATTCTTAAT
1 AAAATCATTAAAAATAGTAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAGT
* *
33363466 GAAAATATTTTGAGGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAAATT
66 GAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAAATT
* *
33363531 TTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAACAGAGACGATTTTAAAAAATAAACTGTA
131 TTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAACAGAGACAATTTAAAAAAATAAACTGTA
*
33363596 CTTATTGGCTAAACAAAAAATTTTGAAAATTTTATTGTAAGGAGATAGCTGAGTTTAGTTCCAGG
196 CTTATTAGCTAAACAAAAAATTTTGAAAATTTTATTGTAAGGAGATAGCTGAGTTTAGTTCCAGG
* * * *
33363661 GAAAATTAGCAAAACTAAATTTTGATTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATAAC
261 GAAAATTAGCAAAAATAAATTTGGAGTTCCATAGCTCAAGATATAAATAATTTAGTGACTATAAC
33363726 TTGCGTAGACAACTTGGTATGAACATAAGTGAATAGT-AAAAAATCATTA
326 TTGCGTAGACAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATTA
33363775 AAAATCATTAAAAATAGTAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAGT
1 AAAATCATTAAAAATAGTAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAGT
* * *
33363840 GAATATATTTTGAAGAGAATCAAACTAGAACATCATTCGAGTCTCGTACGAGGAGATAATAATTT
66 GAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAAATT
* *
33363905 TTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAATAGGGACAATTTAAAAAAATAAACTGTA
131 TTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAACAGAGACAATTTAAAAAAATAAACTGTA
* ** *
33363970 CTTATTAGCTAAACCAAAAATTTTGAAAATTTTATTGTAAGGAGATATTTGAGTTTAGTTTCAGG
196 CTTATTAGCTAAACAAAAAATTTTGAAAATTTTATTGTAAGGAGATAGCTGAGTTTAGTTCCAGG
* * *
33364035 GAAAATTAGCAAAAATTAATTTGGAGTTCCATAGCTCAAGATATAAATAATTTATTGGCTATAAC
261 GAAAATTAGCAAAAATAAATTTGGAGTTCCATAGCTCAAGATATAAATAATTTAGTGACTATAAC
33364100 TTGCGTAGACAACTTGGTATGAACATAAGTGAATAGTAAAAAAAATCATTA
326 TTGCGTAGACAACTTGGTATGAACATAAGTGAATAGT-AAAAAAATCATTA
*
33364151 AAAATCATTAAAAATAGTAAAAAAAAATAATTCCAAGCTATGATTTATATTTTTTAAATTCTTAG
1 AAAATCATTAAAAATAGT-AAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAG
33364216 TGAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGA
65 TGAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGA
33364257 CCATGAGTAA
Statistics
Matches: 453, Mismatches: 26, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
374 339 0.75
376 30 0.07
377 84 0.19
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.31
Consensus pattern (375 bp):
AAAATCATTAAAAATAGTAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAGT
GAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAAATT
TTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAACAGAGACAATTTAAAAAAATAAACTGTA
CTTATTAGCTAAACAAAAAATTTTGAAAATTTTATTGTAAGGAGATAGCTGAGTTTAGTTCCAGG
GAAAATTAGCAAAAATAAATTTGGAGTTCCATAGCTCAAGATATAAATAATTTAGTGACTATAAC
TTGCGTAGACAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATTA
Found at i:33364163 original size:9 final size:10
Alignment explanation
Indices: 33364140--33364165 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
33364130 GAATAGTAAA
33364140 AAAAATCATT
1 AAAAATCATT
33364150 AAAAATCATT
1 AAAAATCATT
33364160 AAAAAT
1 AAAAAT
33364166 AGTAAAAAAA
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:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATCATT
Found at i:33370843 original size:47 final size:48
Alignment explanation
Indices: 33370739--33370879 Score: 176
Period size: 47 Copynumber: 2.9 Consensus size: 48
33370729 ACCATGGCAA
* * * *
33370739 TATGTGTAGCCAGTGTAAAACCATATCTGGGACATAGCATCGACATTAT
1 TATGTG-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATCAT
* * * *
33370788 TATGTGAGCCAATGTAAGACCGTGTCTGGG-CATGGCATCGGCATCGT
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATCAT
* *
33370835 TATGTGAGCCAGTGTGAGACCATGTCTGGGACATGGCATCAACAT
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAT
33370880 GAGGTATCGT
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
47 40 0.51
48 32 0.41
49 6 0.08
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (48 bp):
TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATCAT
Found at i:33373322 original size:38 final size:40
Alignment explanation
Indices: 33373261--33373363 Score: 122
Period size: 38 Copynumber: 2.6 Consensus size: 40
33373251 ATTTGATGTG
33373261 TATCCGGGCTTAAAGACCCGCAGGCTATA-TGCTGGAATTA
1 TATCCGGGCTTAAAGACCCGCAGG-TATAGTGCTGGAATTA
* *
33373301 TATCCGGG-TTAAA-TCCCGCAGGTATAGTGCTGGTATTA
1 TATCCGGGCTTAAAGACCCGCAGGTATAGTGCTGGAATTA
* * * *
33373339 TATCTGAGCTTAAAGTCCCACAGGT
1 TATCCGGGCTTAAAGACCCGCAGGT
33373364 TTTGTGTTGG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
37 4 0.07
38 24 0.44
39 10 0.18
40 17 0.31
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGTATAGTGCTGGAATTA
Found at i:33374285 original size:9 final size:10
Alignment explanation
Indices: 33374250--33374284 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
33374240 TGAATAGTAA
33374250 AAAAATCATT
1 AAAAATCATT
*
33374260 AATAATCATT
1 AAAAATCATT
33374270 AAAAAT-ATT
1 AAAAATCATT
33374279 AAAAAT
1 AAAAAT
33374285 AAATAAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAAATCATT
Found at i:33374291 original size:19 final size:20
Alignment explanation
Indices: 33374250--33374291 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
33374240 TGAATAGTAA
* * *
33374250 AAAAATCATTAATAATCATT
1 AAAAATCATTAAAAATAAAT
33374270 AAAAAT-ATTAAAAATAAAT
1 AAAAATCATTAAAAATAAAT
33374289 AAA
1 AAA
33374292 TACAAGCTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATCATTAAAAATAAAT
Found at i:33374659 original size:10 final size:9
Alignment explanation
Indices: 33374626--33374658 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
33374616 TGAATAGTAA
33374626 AAAAATCATT
1 AAAAAT-ATT
33374636 AAAAATATT
1 AAAAATATT
33374645 AAAAATATT
1 AAAAATATT
33374654 AAAAA
1 AAAAA
33374659 AAATAATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAAATATT
Found at i:33374857 original size:374 final size:376
Alignment explanation
Indices: 33374054--33374960 Score: 1539
Period size: 374 Copynumber: 2.4 Consensus size: 376
33374044 NNNNNNNNNN
*
33374054 AGGGACGATTTTAAAAAATAAACTGTACTTATTGGCTAAACAAAAAATTTTGAAAATTTTATTGT
1 AGGGACAATTTTAAAAAATAAACTGTACTTATTGGCTAAACAAAAAATTTTGAAAATTTTATTGT
* *
33374119 AAGGAGATAGTTGAGTTTAGTTCCAGGGAAAATTAGAAAAACTAAATTTGGAGTTCCGTAGCTCA
66 AAGGAGATACTTGAGTTTAGTTCCAGGGAAAATTAGCAAAACTAAATTTGGAGTTCCGTAGCTCA
*
33374184 GGATATAAATAATTTAGTGACTATAACTTGCGTAGAAAACTTGGTATGAACATAAGTGAATAGTA
131 AGATATAAATAATTTAGTGACTATAACTTGCGTAGAAAACTTGGTATGAACATAAGTGAATAGTA
*
33374249 AAAAAATCATTAATAATCATTAAAAATATTAAAAATAAATAAATACAAGCTATGATTTATATTTT
196 AAAAAATCATTAAAAATCATTAAAAATATTAAAAATAAATAAATACAAGCTATGATTTATATTTT
*
33374314 TTAATTTCCTAGTGAATATATTTTGAAGAGAATCAAACCAGAACATCATCCAAGTCTCGTACGAG
261 TTAAATTCCTAGTGAATATATTTTGAAGAGAATCAAACCAGAACATCATCCAAGTCTCGTACGAG
33374379 GAGATAATAATTTTTTAGTGAAGAAGGGTTGAAACTGTCAAACAGCAGAAC
326 GAGATAATAATTTTTTAGTGAAGAAGGGTTGAAACTGTCAAACAGCAGAAC
* * *
33374430 AGGGACCATTTTAAAAAATAAACTATACTTATTGGCTAAAAAAAAAATTTTGAAAATTTTATTGT
1 AGGGACAATTTTAAAAAATAAACTGTACTTATTGGCTAAACAAAAAATTTTGAAAATTTTATTGT
* * *
33374495 AAGGAGATATTTGAGTTTAGTTCCAGGGAAAATTAGCAAAACTAAATTTTGATTTCCGTAGCTCA
66 AAGGAGATACTTGAGTTTAGTTCCAGGGAAAATTAGCAAAACTAAATTTGGAGTTCCGTAGCTCA
*
33374560 AGATATAAATAATTTAGTGACTATAACTTGCGTAGACAACTTGGTATGAACATAAGTGAATAGTA
131 AGATATAAATAATTTAGTGACTATAACTTGCGTAGAAAACTTGGTATGAACATAAGTGAATAGTA
*
33374625 AAAAAATCATTAAAAAT-ATTAAAAATATTAAAAA-AAATAATTACAAGCTATGATTTATATTTT
196 AAAAAATCATTAAAAATCATTAAAAATATTAAAAATAAATAAATACAAGCTATGATTTATATTTT
* * * *
33374688 TTAAATTCTTAGTGAATATATTTTGAAGAGAATCAAACTAGAACATCATTCGAGTCTCGTACGAG
261 TTAAATTCCTAGTGAATATATTTTGAAGAGAATCAAACCAGAACATCATCCAAGTCTCGTACGAG
* *
33374753 GAGATAATAATTTTTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAAT
326 GAGATAATAATTTTTTAGTGAAGAAGGGTTGAAACTGTCAAACAGCAGAAC
* ** * *
33374804 AGGGACAATTTAAAAAAATAAACTGTACTTATTAACTACACCAAAAATTTTGAAAATTTTATTGT
1 AGGGACAATTTTAAAAAATAAACTGTACTTATTGGCTAAACAAAAAATTTTGAAAATTTTATTGT
* * * *
33374869 AAGGAGATACTTGAGTTTAGTTTCAGGAAAAATTAGCAAAAATTAATTTGGAGTTCCGTAGCTCA
66 AAGGAGATACTTGAGTTTAGTTCCAGGGAAAATTAGCAAAACTAAATTTGGAGTTCCGTAGCTCA
33374934 AGATATAAATAATTTAGTGACTATAAC
131 AGATATAAATAATTTAGTGACTATAAC
33374961 GAGTTTTCCT
Statistics
Matches: 498, Mismatches: 33, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
374 279 0.56
375 17 0.03
376 202 0.41
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.32
Consensus pattern (376 bp):
AGGGACAATTTTAAAAAATAAACTGTACTTATTGGCTAAACAAAAAATTTTGAAAATTTTATTGT
AAGGAGATACTTGAGTTTAGTTCCAGGGAAAATTAGCAAAACTAAATTTGGAGTTCCGTAGCTCA
AGATATAAATAATTTAGTGACTATAACTTGCGTAGAAAACTTGGTATGAACATAAGTGAATAGTA
AAAAAATCATTAAAAATCATTAAAAATATTAAAAATAAATAAATACAAGCTATGATTTATATTTT
TTAAATTCCTAGTGAATATATTTTGAAGAGAATCAAACCAGAACATCATCCAAGTCTCGTACGAG
GAGATAATAATTTTTTAGTGAAGAAGGGTTGAAACTGTCAAACAGCAGAAC
Found at i:33376311 original size:86 final size:86
Alignment explanation
Indices: 33376216--33376606 Score: 755
Period size: 86 Copynumber: 4.5 Consensus size: 86
33376206 TGTGAGCCAG
** *
33376216 TGTAAGACCATGTCGGGGAGATGGCATCGGTACGAGGCATCGTGTAAGACCATAGCTGGGTTATT
1 TGTAAGACCATGTTTGGGACATGGCATCGGTACGAGGCATCGTGTAAGACCATAGCTGGGTTATT
33376281 GGCATCGATATGAGATTTTCA
66 GGCATCGATATGAGATTTTCA
33376302 TGTAAGACCATGTTTGGGACATGGCATCGGTACGAGGCATCGTGTAAGACCATAGCTGGGTTATT
1 TGTAAGACCATGTTTGGGACATGGCATCGGTACGAGGCATCGTGTAAGACCATAGCTGGGTTATT
33376367 GGCATCGATATGAGATTTTCA
66 GGCATCGATATGAGATTTTCA
33376388 TGTAAGACCATGTTTGGGACATGGCATCGGTACGAGGCATCGTGTAAGACCATAGCTGGGTTATT
1 TGTAAGACCATGTTTGGGACATGGCATCGGTACGAGGCATCGTGTAAGACCATAGCTGGGTTATT
33376453 GGCATCGATATGAGATTTTCA
66 GGCATCGATATGAGATTTTCA
33376474 TGTAAGACCATGTTTGGGACATGGCATCGGTACGAGGCATCGTGTAAGACCATAGCTGGGTTATT
1 TGTAAGACCATGTTTGGGACATGGCATCGGTACGAGGCATCGTGTAAGACCATAGCTGGGTTATT
33376539 GGCATCGATATGAGATTTTCA
66 GGCATCGATATGAGATTTTCA
33376560 TGTAAGACCATGTTTGGGACATGGCATCGGTACGAGGCATCGTGTAA
1 TGTAAGACCATGTTTGGGACATGGCATCGGTACGAGGCATCGTGTAA
33376607 ATAAGATATG
Statistics
Matches: 302, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 302 1.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (86 bp):
TGTAAGACCATGTTTGGGACATGGCATCGGTACGAGGCATCGTGTAAGACCATAGCTGGGTTATT
GGCATCGATATGAGATTTTCA
Found at i:33376327 original size:43 final size:43
Alignment explanation
Indices: 33376280--33376588 Score: 279
Period size: 43 Copynumber: 7.2 Consensus size: 43
33376270 GCTGGGTTAT
33376280 TGGCATCGATATGAGATTTTCATGTAAGACCATGTTTGGGACA
1 TGGCATCGATATGAGATTTTCATGTAAGACCATGTTTGGGACA
* * *** * * **
33376323 TGGCATCGGTACGAG-GCATCGTGTAAGACCATAG-CTGGGTTA
1 TGGCATCGATATGAGATTTTCATGTAAGACCAT-GTTTGGGACA
33376365 TTGGCATCGATATGAGATTTTCATGTAAGACCATGTTTGGGACA
1 -TGGCATCGATATGAGATTTTCATGTAAGACCATGTTTGGGACA
* * *** * * **
33376409 TGGCATCGGTACGAG-GCATCGTGTAAGACCATAG-CTGGGTTA
1 TGGCATCGATATGAGATTTTCATGTAAGACCAT-GTTTGGGACA
33376451 TTGGCATCGATATGAGATTTTCATGTAAGACCATGTTTGGGACA
1 -TGGCATCGATATGAGATTTTCATGTAAGACCATGTTTGGGACA
* * *** * * **
33376495 TGGCATCGGTACGAG-GCATCGTGTAAGACCATAG-CTGGGTTA
1 TGGCATCGATATGAGATTTTCATGTAAGACCAT-GTTTGGGACA
33376537 TTGGCATCGATATGAGATTTTCATGTAAGACCATGTTTGGGACA
1 -TGGCATCGATATGAGATTTTCATGTAAGACCATGTTTGGGACA
33376581 TGGCATCG
1 TGGCATCG
33376589 GTACGAGGCA
Statistics
Matches: 200, Mismatches: 54, Indels: 24
0.72 0.19 0.09
Matches are distributed among these distances:
42 54 0.27
43 92 0.46
44 54 0.27
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (43 bp):
TGGCATCGATATGAGATTTTCATGTAAGACCATGTTTGGGACA
Found at i:33377136 original size:9 final size:10
Alignment explanation
Indices: 33377113--33377138 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
33377103 GAATAGTAAA
33377113 AAAAATCATT
1 AAAAATCATT
33377123 AAAAATCATT
1 AAAAATCATT
33377133 AAAAAT
1 AAAAAT
33377139 AGTAAAAAAA
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:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATCATT
Found at i:33378685 original size:48 final size:48
Alignment explanation
Indices: 33378633--33378757 Score: 169
Period size: 48 Copynumber: 2.6 Consensus size: 48
33378623 GTGTAACCGC
* * *
33378633 GTAAGACCATGTCTAGGACATGGCATCGGCATTGTTATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGAATCGTTATGTGAGCCAGT
* *** *
33378681 GTAAGAGCATGTCTGGGACATGTTTTCAGAATCGTTATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGAATCGTTATGTGAGCCAGT
*
33378729 GTAAGACCATGTTTGGGACATGGCATCGG
1 GTAAGACCATGTCTGGGACATGGCATCGG
33378758 TACGAGGCAT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGGAATCGTTATGTGAGCCAGT
Found at i:33379945 original size:9 final size:10
Alignment explanation
Indices: 33379910--33379944 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
33379900 TGAATAGTAA
33379910 AAAAATCATT
1 AAAAATCATT
*
33379920 AATAATCATT
1 AAAAATCATT
33379930 AAAAAT-ATT
1 AAAAATCATT
33379939 AAAAAT
1 AAAAAT
33379945 AAATAAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAAATCATT
Found at i:33379951 original size:19 final size:20
Alignment explanation
Indices: 33379910--33379951 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
33379900 TGAATAGTAA
* * *
33379910 AAAAATCATTAATAATCATT
1 AAAAATCATTAAAAATAAAT
33379930 AAAAAT-ATTAAAAATAAAT
1 AAAAATCATTAAAAATAAAT
33379949 AAA
1 AAA
33379952 TACAAGCTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATCATTAAAAATAAAT
Found at i:33380241 original size:377 final size:375
Alignment explanation
Indices: 33379545--33380621 Score: 1850
Period size: 377 Copynumber: 2.9 Consensus size: 375
33379535 CTGACTTTGG
* *
33379545 AAAATCATTAAAAATAGTAAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAA
1 AAAATCATTAAAAATA-TTAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAG
* * * *
33379610 TGAAAATATTTTGAAGAGAATCAAACTAGAACATCATCCGAGTCTCATACGAGGAGATAATAAAT
65 TGAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAATT
* * * *
33379675 TTTTAGTGAAGAAGGCTTGAAAATGTCAGACAGCAGAAGAGGGACGATTTTAAAAAATAAACTGT
130 TTTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAATAGGGACAATTTTAAAAAATAAACTGT
* * *
33379740 ACTTATTGGCTAAACAAAAAATTTTGAAAATTTTATTGTAAGGAGATAGTTGAGTTTAGTTCCAG
195 ACTTATTAGCTAAACCAAAAATTTTGAAAATTTTATTGTAAGGAGATACTTGAGTTTAGTTCCAG
* * *
33379805 GGAAAATTAGAAAAACTAAATTTGGAGTTCCGTAGCTCAGGATATAAATAATTTAGTGACTATAA
260 GAAAAATTAGCAAAACTAAATTTGGAGTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATAA
33379870 CTTGCGTAGAAAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATTA
325 CTTGCGTAGAAAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATTA
* * * *
33379921 ATAATCATTAAAAATATTAAAAATAAATAAATACAAGCTATGATTTATATTTTTTAATTTCCTAG
1 AAAATCATTAAAAATATTAAAAA-AAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAG
*
33379986 TGAATATATTTTGAAGAGAATCAAACCAGAACATCATCCAAGTCTCGTACGAGGAGATAATAATT
65 TGAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAATT
33380051 TTTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAATAGGGACAATTTTAAAAAAATAAACTG
130 TTTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAATAGGGACAATTTT-AAAAAATAAACTG
*
33380116 TACTTATTAGCTAAACCAAAAATTTTGAAAATTTTATTGTAAGGAGATATTTGAGTTTAGTTCCA
194 TACTTATTAGCTAAACCAAAAATTTTGAAAATTTTATTGTAAGGAGATACTTGAGTTTAGTTCCA
* *
33380181 GGAAAAATTAGCAAAACTAAATTTGGAATTCCGTAGCTCAATATATAAATAATTTAGTGACTATA
259 GGAAAAATTAGCAAAACTAAATTTGGAGTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATA
*
33380246 ACTTGCGTAGACAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATTA
324 ACTTGCGTAGAAAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATTA
33380298 AAAAT-ATTAAAAATATTAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAGT
1 AAAATCATTAAAAATATTAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAGT
33380362 GAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAATTT
66 GAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAATTT
* *
33380427 TTTAGTGAAGAAGGGTTGAAACTGTCTGACAGCAGAATAGGGACAATTTTCAAAAATAAACTGTA
131 TTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAATAGGGACAATTTTAAAAAATAAACTGTA
*
33380492 CTTATTAGCTAAACCAAAAATTTTGAAAATTTTATTGTAAGGAGATACTTGAGTTTAGTTTCAGG
196 CTTATTAGCTAAACCAAAAATTTTGAAAATTTTATTGTAAGGAGATACTTGAGTTTAGTTCCAGG
* *
33380557 AAAAATTAGCAAAAATTAATTTGGAGTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATAAC
261 AAAAATTAGCAAAACTAAATTTGGAGTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATAAC
33380622 GAGTTTTCCT
Statistics
Matches: 662, Mismatches: 37, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
374 138 0.21
375 158 0.24
376 176 0.27
377 190 0.29
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (375 bp):
AAAATCATTAAAAATATTAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAGT
GAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAATTT
TTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAATAGGGACAATTTTAAAAAATAAACTGTA
CTTATTAGCTAAACCAAAAATTTTGAAAATTTTATTGTAAGGAGATACTTGAGTTTAGTTCCAGG
AAAAATTAGCAAAACTAAATTTGGAGTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATAAC
TTGCGTAGAAAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATTA
Found at i:33380320 original size:10 final size:9
Alignment explanation
Indices: 33380287--33380319 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
33380277 TGAATAGTAA
33380287 AAAAATCATT
1 AAAAAT-ATT
33380297 AAAAATATT
1 AAAAATATT
33380306 AAAAATATT
1 AAAAATATT
33380315 AAAAA
1 AAAAA
33380320 AAATAATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAAATATT
Found at i:33381882 original size:48 final size:48
Alignment explanation
Indices: 33381830--33381954 Score: 169
Period size: 48 Copynumber: 2.6 Consensus size: 48
33381820 GTGTAACCGC
* * *
33381830 GTAAGACCATGTCTAGGACATGGCATCGGCATTGTTATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGAATCGTTATGTGAGCCAGT
* *** *
33381878 GTAAGAGCATGTCTGGGACATGTTTTCAGAATCGTTATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGAATCGTTATGTGAGCCAGT
*
33381926 GTAAGACCATGTTTGGGACATGGCATCGG
1 GTAAGACCATGTCTGGGACATGGCATCGG
33381955 TACGAGGCAT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGGAATCGTTATGTGAGCCAGT
Found at i:33383128 original size:9 final size:10
Alignment explanation
Indices: 33383105--33383130 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
33383095 TGAATAGTAA
33383105 AAAAATCATT
1 AAAAATCATT
33383115 AAAAATCATT
1 AAAAATCATT
33383125 AAAAAT
1 AAAAAT
33383131 AGTAAAAAAA
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:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATCATT
Found at i:33383241 original size:374 final size:374
Alignment explanation
Indices: 33382742--33383439 Score: 1189
Period size: 374 Copynumber: 1.9 Consensus size: 374
33382732 CTGACTTTGG
*
33382742 AAAATCATTAAAAATAGAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAATG
1 AAAATCATTAAAAATAGAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAAATCTTAATG
33382807 AAAATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCATACGAGGAGATAATAAATTT
66 AAAATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCATACGAGGAGATAATAAATTT
*
33382872 TTAGTGAAGAAGGGTTGAAACTGTCAAACAGCAGAACAGGGACCATTTTAAAAAATAAACTATAC
131 TTAGTGAAGAAGGGTTGAAACTGTCAAACAGCAGAACAGGGACAATTTTAAAAAATAAACTATAC
** * *
33382937 TTATTGGCTAAAAAAAAAATTTTGAAAATTTTATTGTAAGGAGATATTTGAGTTTAGTTCCAGGG
196 TTATTAACTAAAAAAAAAATTTTGAAAATTTTATTGTAAGGAGATACTTGAGTTTAGTTCCAGGA
* *
33383002 AAAATTAGCAAAACTAAATTTGAAGTTCCGTAGCTCAAGATATAAATAATTTAGTAACTTTAACT
261 AAAATTAGCAAAAATAAATTTGAAGTTCCGTAGCTCAAGATATAAATAATTTAGTAACTATAACT
33383067 TGCGTAGACAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATTA
326 TGCGTAGACAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATTA
* *
33383116 AAAATCATTAAAAATAGTAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAAATCTTAGTG
1 AAAATCATTAAAAATAGAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAAATCTTAATG
* * *
33383181 AATATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAATTTT
66 AAAATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCATACGAGGAGATAATAAATTT
* * *
33383246 TTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAATAGGGACAATTTTAAAAAATAAACTGTAC
131 TTAGTGAAGAAGGGTTGAAACTGTCAAACAGCAGAACAGGGACAATTTTAAAAAATAAACTATAC
* ** *
33383311 TTATTAACTACACCAAAAATTTTGAAAATTTTATTGTAAGGAGATACTTGAGTTTAGTTTCAGGA
196 TTATTAACTAAAAAAAAAATTTTGAAAATTTTATTGTAAGGAGATACTTGAGTTTAGTTCCAGGA
* * *
33383376 AAAATTAGCAAAAATTAATTTGGAGTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATAAC
261 AAAATTAGCAAAAATAAATTTGAAGTTCCGTAGCTCAAGATATAAATAATTTAGTAACTATAAC
33383440 GAGTTTTCCT
Statistics
Matches: 301, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
374 301 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (374 bp):
AAAATCATTAAAAATAGAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAAATCTTAATG
AAAATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCATACGAGGAGATAATAAATTT
TTAGTGAAGAAGGGTTGAAACTGTCAAACAGCAGAACAGGGACAATTTTAAAAAATAAACTATAC
TTATTAACTAAAAAAAAAATTTTGAAAATTTTATTGTAAGGAGATACTTGAGTTTAGTTCCAGGA
AAAATTAGCAAAAATAAATTTGAAGTTCCGTAGCTCAAGATATAAATAATTTAGTAACTATAACT
TGCGTAGACAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATTA
Found at i:33384700 original size:48 final size:48
Alignment explanation
Indices: 33384648--33384771 Score: 167
Period size: 48 Copynumber: 2.6 Consensus size: 48
33384638 TGTAACCGCA
* * *
33384648 TAAGACCATGTCTAGGACATGGCATCGGCATTGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGAATCGTTATGTGAGCCAGTG
* *** *
33384696 TAAGAGCATGTCTGGGACATGTTTTCAGAATCGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGAATCGTTATGTGAGCCAGTG
*
33384744 TAAGACCATGTTTGGGACATGGCATCGG
1 TAAGACCATGTCTGGGACATGGCATCGG
33384772 TACGAGGCAT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGAATCGTTATGTGAGCCAGTG
Found at i:33386140 original size:48 final size:48
Alignment explanation
Indices: 33386084--33386211 Score: 175
Period size: 48 Copynumber: 2.7 Consensus size: 48
33386074 GTGTAACCGC
**
33386084 GTAAGACCATGTCTAGGACATGGCATCGGCATTTTTATGTGAGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCATCGTTATGTGAGCCAGT
* * * * *
33386132 GTAGGACCATGCCTGGGACATGGCATTGGAATCGTTATGTGAGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCATCGTTATGTGAGCCAGT
* *
33386180 GTAAGACCATGTCTAGGACATAGCATCAGCAT
1 GTAAGACCATGTCTAGGACATGGCATCGGCAT
33386212 GAGGCATCAT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (48 bp):
GTAAGACCATGTCTAGGACATGGCATCGGCATCGTTATGTGAGCCAGT
Found at i:33387872 original size:37 final size:37
Alignment explanation
Indices: 33387822--33387892 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
33387812 TTTAGCTCGA
*
33387822 ATAATCCCCACACGTAGTCATCGGGTCTTACCCGGGC
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
*
33387859 ATAATCTCCACACGTAGCCATCGGGTCTTACCCG
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCG
33387893 AAATATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.23
Consensus pattern (37 bp):
ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
Found at i:33388090 original size:48 final size:48
Alignment explanation
Indices: 33388035--33388132 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 48
33388025 ATATATCCAC
* *
33388035 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
*
33388083 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
33388131 AT
1 AT
33388133 ATTTATCTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
Found at i:33392631 original size:37 final size:37
Alignment explanation
Indices: 33392553--33392651 Score: 126
Period size: 37 Copynumber: 2.7 Consensus size: 37
33392543 GTATGGAATG
*
33392553 TAAGACCATAGCTGGGCTATGGCATTGTAATGACATG
1 TAAGACCATAGCTGGGCTATGGCATTGTAATGACATA
* ****
33392590 TAAGACCATAGCTGGGCTATGGCATTGTGATTTTGTA
1 TAAGACCATAGCTGGGCTATGGCATTGTAATGACATA
* *
33392627 TAAGACCATAGTTGGACTATGGCAT
1 TAAGACCATAGCTGGGCTATGGCAT
33392652 CAAGTAAATG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (37 bp):
TAAGACCATAGCTGGGCTATGGCATTGTAATGACATA
Found at i:33396149 original size:48 final size:48
Alignment explanation
Indices: 33396093--33396312 Score: 296
Period size: 48 Copynumber: 4.6 Consensus size: 48
33396083 TTGTAACCGC
**
33396093 GTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
*
33396141 GTAAGACCATGTCTAGGACATGGCATCGGCATCATTATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
* * * *
33396189 GTCAGACCATGTCTAGGACATGGCATCGACATCATTATGTGAACCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
* ** ** * *
33396237 CTAAGACCATGTCTGGGACATGGCATTAGCATTGTTAAGTTAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
* *
33396285 GTAAGAACATGTCCGGGACATGGCATCG
1 GTAAGACCATGTCTGGGACATGGCATCG
33396313 ACATGAGGCA
Statistics
Matches: 150, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 150 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
Found at i:33403301 original size:49 final size:49
Alignment explanation
Indices: 33403247--33403346 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
33403237 GTTTGTAGAA
* *
33403247 ACGTAAATTGCACTTTGGTGAATTGCTAGTAAGCTAAGTGCTTCTTTGT
1 ACGTAAATCGCACTTTGGTCAATTGCTAGTAAGCTAAGTGCTTCTTTGT
* *
33403296 ACGTAAATCGCACTTTGGTCAATTGCTAGTAAGCTGAGTGTTTCTTTGT
1 ACGTAAATCGCACTTTGGTCAATTGCTAGTAAGCTAAGTGCTTCTTTGT
33403345 AC
1 AC
33403347 CTTTCAGGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (49 bp):
ACGTAAATCGCACTTTGGTCAATTGCTAGTAAGCTAAGTGCTTCTTTGT
Found at i:33404688 original size:27 final size:27
Alignment explanation
Indices: 33404653--33404704 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
33404643 AAGTGTATTA
33404653 TACTGGTGGCTTCACCACATATACTAT
1 TACTGGTGGCTTCACCACATATACTAT
**
33404680 TACTGGTGGCTTTGCCACATATACT
1 TACTGGTGGCTTCACCACATATACT
33404705 GATAATTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
TACTGGTGGCTTCACCACATATACTAT
Found at i:33412051 original size:27 final size:27
Alignment explanation
Indices: 33412012--33412070 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
33412002 GAAGGGTATT
33412012 ATACTAGTGGCTTCGCCACATATACTG
1 ATACTAGTGGCTTCGCCACATATACTG
* * *
33412039 TTACTAGTGGCTTTGCCATATATACTG
1 ATACTAGTGGCTTCGCCACATATACTG
33412066 ATACT
1 ATACT
33412071 GACAGTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (27 bp):
ATACTAGTGGCTTCGCCACATATACTG
Found at i:33419276 original size:40 final size:40
Alignment explanation
Indices: 33419232--33419308 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
33419222 ATGGTACCAT
* * * *
33419232 TTGGTGTGTAGGG-TTGGATGGGTTGATTTTATCCCCATAC
1 TTGGTATGTAGGGCTAGG-TGGGTCGATTCTATCCCCATAC
33419272 TTGGTATGTAGGGCTAGGTGGGTCGATTCTATCCCCA
1 TTGGTATGTAGGGCTAGGTGGGTCGATTCTATCCCCA
33419309 CATGGTATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 29 0.91
41 3 0.09
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.36
Consensus pattern (40 bp):
TTGGTATGTAGGGCTAGGTGGGTCGATTCTATCCCCATAC
Found at i:33428331 original size:49 final size:48
Alignment explanation
Indices: 33428180--33428358 Score: 177
Period size: 49 Copynumber: 3.7 Consensus size: 48
33428170 TGTGTGTGCT
* *
33428180 AGTGTAAGACTTGTCTGGGATATGGCATC-AGCATC-GATAGAT-AAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CA-CAGATAG-TGAA-AGCC
* * * * * * *
33428229 AGTGTAAGACCTGTCTAGGACATAGTATCGGCCTCAAGATA-TGCAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACAC-AGATAGTGAAAGCC
33428278 AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGAT-AGTGAAAGCC
*
33428327 AGTGTAAAACCTGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
33428359 TTAAATGTGA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
47 4 0.04
48 4 0.04
49 92 0.87
50 2 0.02
51 4 0.04
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAGTGAAAGCC
Found at i:33443194 original size:90 final size:90
Alignment explanation
Indices: 33443021--33443195 Score: 217
Period size: 90 Copynumber: 1.9 Consensus size: 90
33443011 CCATATAAAA
* ** *
33443021 TGCCAAAGCCATGTCCCCGACATGGTCTTACATGGGTTTACATACCGATGTCATATCCCAGATAT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGCCTACATACCGATGTCATATCCCAGAAAT
* *
33443086 GATCTTAAATGAAGTCTCATGTCAG
66 GATCTTAAACGAAATCTCATGTCAG
* * * * *
33443111 TGCCAATGCCATGTCCTAGACATGGTCTTATATGGGACCT-CATATCGATGTCATGTCCCAGAAA
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGG-CCTACATACCGATGTCATATCCCAGAAA
* *
33443175 TGGTCTTACACGAAATCTCAT
65 TGATCTTAAACGAAATCTCAT
33443196 ATCAACGCCA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
90 70 0.99
91 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (90 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGCCTACATACCGATGTCATATCCCAGAAAT
GATCTTAAACGAAATCTCATGTCAG
Found at i:33443285 original size:48 final size:48
Alignment explanation
Indices: 33443233--33443324 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
33443223 TACATGAAAT
*
33443233 CACATACCAAGGCCGATAACATATCCCAGATATGGTCTTACACTGGCA
1 CACATACCAAGGCCGATAACATATCCCAGACATGGTCTTACACTGGCA
* * * ** *
33443281 CACATATCAATGTCGATGCCATGTCCCAGACATGGTCTTACACT
1 CACATACCAAGGCCGATAACATATCCCAGACATGGTCTTACACT
33443325 AGCTCTCATA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (48 bp):
CACATACCAAGGCCGATAACATATCCCAGACATGGTCTTACACTGGCA
Found at i:33448706 original size:46 final size:45
Alignment explanation
Indices: 33448580--33448706 Score: 107
Period size: 46 Copynumber: 2.8 Consensus size: 45
33448570 GTGCTGATGC
* * * *
33448580 CATGTCTCAAACATGGTCTTACACTG-ACACATCTCGTAGCCGATG
1 CATGTCACAAACAT-GTCTTACACTGCACTCGTCTCGTAGCCAATG
* * *
33448625 CATGTCACAGACATGTCTTACACTGGC-TTAAGTCTCG-AGGCCAATG
1 CATGTCACAAACATGTCTTACACT-GCACT-CGTCTCGTA-GCCAATG
* *
33448671 CATGTCCCATACATGTCTTACACTAGCACTCGTCTC
1 CATGTCACAAACATGTCTTACACT-GCACTCGTCTC
33448707 AATGTCGATG
Statistics
Matches: 65, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
44 10 0.15
45 14 0.22
46 40 0.62
47 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (45 bp):
CATGTCACAAACATGTCTTACACTGCACTCGTCTCGTAGCCAATG
Found at i:33454077 original size:48 final size:48
Alignment explanation
Indices: 33454025--33454153 Score: 195
Period size: 48 Copynumber: 2.7 Consensus size: 48
33454015 ATGCCGAACT
* * * *
33454025 TGATGTCATATCCTAGATATGGTCTTACACTGGCACACATATCAATGC
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
* *
33454073 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAATGC
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
*
33454121 CGATGCCATGTCCCAGACATGGTCTTACACTGG
1 TGATGCCATGTCCCAGACATGGTCTTACACTGG
33454154 ATCTCATAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
TGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
Found at i:33457775 original size:24 final size:24
Alignment explanation
Indices: 33457748--33457794 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
33457738 ATATGTTGAC
33457748 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
33457772 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
33457795 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:33457828 original size:24 final size:24
Alignment explanation
Indices: 33457758--33457820 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
33457748 ATTCAAATCA
* * * *
33457758 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
33457782 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
33457806 GCACACATAGTGCCA
1 GCACACATAGTGCCA
33457821 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:33459640 original size:20 final size:20
Alignment explanation
Indices: 33459591--33459640 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
33459581 ACGTGAAAAT
33459591 CATACATTTCACAATCATAA
1 CATACATTTCACAATCATAA
*
33459611 CATTCAATTT-ACACAT-ATAAA
1 CATAC-ATTTCACA-ATCAT-AA
33459632 CATACATTT
1 CATACATTT
33459641 TAGTTACACG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (20 bp):
CATACATTTCACAATCATAA
Found at i:33459642 original size:21 final size:20
Alignment explanation
Indices: 33459591--33459642 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
33459581 ACGTGAAAAT
*
33459591 CATACATTTCACAATCATAA
1 CATACATTTTACAATCATAA
* *
33459611 CATTCAATTTACACAT-ATAAA
1 CATACATTTTACA-ATCAT-AA
33459632 CATACATTTTA
1 CATACATTTTA
33459643 GTTACACGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (20 bp):
CATACATTTTACAATCATAA
Found at i:33462363 original size:25 final size:25
Alignment explanation
Indices: 33462303--33462381 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
33462293 TTCAAGAAGC
*
33462303 ACTC-TCTGGAGCCATATAACAGGAT
1 ACTCATCT-GAGCCATATAACAGGAA
* * *
33462328 AGTCATGTGAGCCATGTAACAGGAA
1 ACTCATCTGAGCCATATAACAGGAA
*
33462353 ACTTATCTGAG-C-TATAACAGGAA
1 ACTCATCTGAGCCATATAACAGGAA
33462376 ACTCAT
1 ACTCAT
33462382 AAGAGTTTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 15 0.34
24 1 0.02
25 26 0.59
26 2 0.05
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (25 bp):
ACTCATCTGAGCCATATAACAGGAA
Found at i:33465690 original size:40 final size:40
Alignment explanation
Indices: 33465653--33465838 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
33465643 GCTACTCGTT
* *
33465653 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
33465693 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
33465733 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * * *
33465773 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
33465814 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
33465839 CATCATTCAA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:33473773 original size:79 final size:79
Alignment explanation
Indices: 33473662--33473884 Score: 276
Period size: 79 Copynumber: 2.8 Consensus size: 79
33473652 GCTACTCGTT
* * *
33473662 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
33473726 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
*
33473742 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
33473806 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
* * * *
33473820 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
33473882 GGA
63 GGA
33473885 CATCATTCAA
Statistics
Matches: 127, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
78 44 0.35
79 60 0.47
80 23 0.18
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:33473779 original size:39 final size:40
Alignment explanation
Indices: 33473662--33473884 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
33473652 GCTACTCGTT
* *
33473662 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
33473702 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
33473742 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
33473781 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
33473820 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
33473861 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33473885 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:33475813 original size:3 final size:3
Alignment explanation
Indices: 33475807--33475832 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33475797 ACTACTTTCA
33475807 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
33475833 CATAATGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33476345 original size:19 final size:19
Alignment explanation
Indices: 33476304--33476347 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
33476294 CAAATAATTT
* *
33476304 AAAATTTATAAAAAAAATT
1 AAAAATTATAAAAAAAATA
33476323 AAAAATTATAAAAAGAAA-A
1 AAAAATTATAAAAA-AAATA
33476342 AAAAAT
1 AAAAAT
33476348 AAAGCACACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAAATTATAAAAAAAATA
Found at i:33478590 original size:97 final size:97
Alignment explanation
Indices: 33478424--33478619 Score: 374
Period size: 97 Copynumber: 2.0 Consensus size: 97
33478414 TGAGAATGCT
*
33478424 CAACCGATCCCAAGTTCCCAAAGGCGGCTTTTGGGGTATAATACATCAGAAGCGAAACGGGCAGC
1 CAACCGATCCCAAGCTCCCAAAGGCGGCTTTTGGGGTATAATACATCAGAAGCGAAACGGGCAGC
33478489 ATTGAAGAAATTGGAAGACGTTCTTCTTGAAC
66 ATTGAAGAAATTGGAAGACGTTCTTCTTGAAC
*
33478521 CAACCGATCCCAAGCTCGCAAAGGCGGCTTTTGGGGTATAATACATCAGAAGCGAAACGGGCAGC
1 CAACCGATCCCAAGCTCCCAAAGGCGGCTTTTGGGGTATAATACATCAGAAGCGAAACGGGCAGC
33478586 ATTGAAGAAATTGGAAGACGTTCTTCTTGAAC
66 ATTGAAGAAATTGGAAGACGTTCTTCTTGAAC
33478618 CA
1 CA
33478620 CCAAGAGCAT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (97 bp):
CAACCGATCCCAAGCTCCCAAAGGCGGCTTTTGGGGTATAATACATCAGAAGCGAAACGGGCAGC
ATTGAAGAAATTGGAAGACGTTCTTCTTGAAC
Found at i:33481797 original size:43 final size:43
Alignment explanation
Indices: 33481725--33481925 Score: 203
Period size: 43 Copynumber: 4.7 Consensus size: 43
33481715 ACATTTATTG
* * * *
33481725 CTATAGAACATGACCTTCAGCGACACTTTTACTACAAACGCTA
1 CTATAGAACATGACCTTTAGCGGCGCTTTTACTACAAACGCCA
*
33481768 ATATAGAACATGACCTTTAGCGGCGCTTTTA-TCACAAACGCCA
1 CTATAGAACATGACCTTTAGCGGCGCTTTTACT-ACAAACGCCA
* * * *
33481811 CTATAGAACATGACCTTTAGCTGTGATTTCT-CTACAAACGCCG
1 CTATAGAACATGACCTTTAGCGGCGCTTT-TACTACAAACGCCA
* * ** *
33481854 CTATAGAACGTGACCTTTAGCGGCACTTTCCCGACAAACG-CA
1 CTATAGAACATGACCTTTAGCGGCGCTTTTACTACAAACGCCA
* *
33481896 GCTATAAAACATGACCTTTAGTGGCG-TTTT
1 -CTATAGAACATGACCTTTAGCGGCGCTTTT
33481926 CACAAAAAAC
Statistics
Matches: 130, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
42 5 0.04
43 123 0.95
44 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
CTATAGAACATGACCTTTAGCGGCGCTTTTACTACAAACGCCA
Found at i:33482114 original size:19 final size:19
Alignment explanation
Indices: 33482090--33482126 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
33482080 AGCCAAAAAC
*
33482090 AGCAAATACAAATCCAACT
1 AGCAAATACAAAGCCAACT
33482109 AGCAAATACAAAGCCAAC
1 AGCAAATACAAAGCCAAC
33482127 CAAAAATAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.27, G:0.08, T:0.11
Consensus pattern (19 bp):
AGCAAATACAAAGCCAACT
Found at i:33482820 original size:13 final size:14
Alignment explanation
Indices: 33482794--33482822 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
33482784 AACAAAGACG
33482794 AATTAAACCATTAT
1 AATTAAACCATTAT
33482808 AATTAAA-CATTAT
1 AATTAAACCATTAT
33482821 AA
1 AA
33482823 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:33487870 original size:28 final size:27
Alignment explanation
Indices: 33487813--33487964 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
33487803 TAAATTGTGC
*
33487813 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
33487840 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
33487868 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
33487895 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
33487923 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
33487950 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33487965 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:33487878 original size:55 final size:55
Alignment explanation
Indices: 33487813--33487964 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
33487803 TAAATTGTGC
*
33487813 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
33487868 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
33487923 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
33487965 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:33491413 original size:9 final size:9
Alignment explanation
Indices: 33491397--33491541 Score: 86
Period size: 9 Copynumber: 16.3 Consensus size: 9
33491387 AAATTCTGTT
33491397 AGTTATGTA
1 AGTTATGTA
*
33491406 AATTATGTA
1 AGTTATGTA
33491415 AGTTATGTA
1 AGTTATGTA
*
33491424 AGTTATAATA
1 AGTTAT-GTA
* * *
33491434 TGATAT-TT
1 AGTTATGTA
*
33491442 ATTTATGT-
1 AGTTATGTA
*
33491450 A-TTATATA
1 AGTTATGTA
33491458 AGTTATGTA
1 AGTTATGTA
33491467 AGTTATGATA
1 AGTTATG-TA
* * *
33491477 TGATATAT-
1 AGTTATGTA
*
33491485 ATTTATGTA
1 AGTTATGTA
33491494 AGTTATGTA
1 AGTTATGTA
33491503 AGTTATG-A
1 AGTTATGTA
* *
33491511 TA-TGATATA
1 -AGTTATGTA
*
33491520 CATTTATGTA
1 -AGTTATGTA
33491530 AGTTATGTA
1 AGTTATGTA
33491539 AGT
1 AGT
33491542 CCATAGATAT
Statistics
Matches: 102, Mismatches: 25, Indels: 18
0.70 0.17 0.12
Matches are distributed among these distances:
7 5 0.05
8 14 0.14
9 66 0.65
10 17 0.17
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.47
Consensus pattern (9 bp):
AGTTATGTA
Found at i:33491462 original size:43 final size:44
Alignment explanation
Indices: 33491399--33491509 Score: 170
Period size: 43 Copynumber: 2.5 Consensus size: 44
33491389 ATTCTGTTAG
*
33491399 TTATGTAAATTATGTAAGTTATGTAAGTTATAATATGATATTTAT
1 TTATGT-AATTATGTAAGTTATGTAAGTTATAATATGATATATAT
* *
33491444 TTATGT-ATTATATAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAATTATGTAAGTTATGTAAGTTATAATATGATATATAT
33491487 TTATGTAAGTTATGTAAGTTATG
1 TTATGTAA-TTATGTAAGTTATG
33491510 ATATGATATA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
43 40 0.67
44 1 0.02
45 19 0.32
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (44 bp):
TTATGTAATTATGTAAGTTATGTAAGTTATAATATGATATATAT
Found at i:33491553 original size:79 final size:77
Alignment explanation
Indices: 33491408--33491560 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 77
33491398 GTTATGTAAA
** * *
33491408 TTATGTAAGTTATGTAAGTTATAATATGATATTTATTTATGTATTATATAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTATAATATGATATACATTTATGTATTATATAAGTCA-GTAAGATAT
33491473 GATATGATATATAT
65 GATAT-ATATATAT
* *
33491487 TTATGTAAGTTATGTAAGTTATGATATGATATACATTTATGTAAGTTATGTAAGTCCA-T-AGAT
1 TTATGTAAGTTATGTAAGTTATAATATGATATACATTTATGT-A-TTATATAAGT-CAGTAAGAT
33491550 ATGATATATAT
63 ATGATATATAT
33491561 TTATCTATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
78 4 0.06
79 49 0.75
80 2 0.03
81 9 0.14
82 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (77 bp):
TTATGTAAGTTATGTAAGTTATAATATGATATACATTTATGTATTATATAAGTCAGTAAGATATG
ATATATATATAT
Found at i:33491572 original size:36 final size:36
Alignment explanation
Indices: 33491451--33491564 Score: 183
Period size: 36 Copynumber: 3.1 Consensus size: 36
33491441 TATTTATGTA
*
33491451 TTATATAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
*
33491487 TTATGTAAGTTATGTAAGTTATGATATGATATACAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
*
33491523 TTATGTAAGTTATGTAAGTCCATAGATATGATATATAT
1 TTATGTAAGTTATGTAAGT-TAT-GATATGATATATAT
33491561 TTAT
1 TTAT
33491565 CTATTATGAT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 53 0.74
37 2 0.03
38 17 0.24
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.46
Consensus pattern (36 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATAT
Found at i:33494939 original size:7 final size:7
Alignment explanation
Indices: 33494929--33495053 Score: 87
Period size: 7 Copynumber: 17.6 Consensus size: 7
33494919 GGTTTAGAAT
33494929 TTTAAGG
1 TTTAAGG
33494936 TTTAAGG
1 TTTAAGG
33494943 TTT-AGG
1 TTTAAGG
33494949 ATTTAATGG
1 -TTTAA-GG
33494958 TTTAAGGG
1 TTTAA-GG
33494966 TTT-AGTG
1 TTTAAG-G
33494973 TTT-AGAG
1 TTTAAG-G
33494980 TTT-AGTG
1 TTTAAG-G
* *
33494987 GTTATGG
1 TTTAAGG
*
33494994 TTTAGGG
1 TTTAAGG
* *
33495001 TTTATGA
1 TTTAAGG
33495008 TTTAAGG
1 TTTAAGG
*
33495015 TTTAGGG
1 TTTAAGG
*
33495022 TTTAGGG
1 TTTAAGG
*
33495029 TTTAGGG
1 TTTAAGG
33495036 TTTAAGG
1 TTTAAGG
*
33495043 TTTAATG
1 TTTAAGG
33495050 TTTA
1 TTTA
33495054 CAATTTAGGG
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
6 4 0.04
7 81 0.82
8 12 0.12
9 2 0.02
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.47
Consensus pattern (7 bp):
TTTAAGG
Found at i:33494944 original size:22 final size:22
Alignment explanation
Indices: 33494914--33494970 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
33494904 GAAAGTTATT
*
33494914 TTTAGGGTTTAGAATTTTAA-GG
1 TTTAAGGTTTAGAA-TTTAATGG
*
33494936 TTTAAGGTTTAGGATTTAATGG
1 TTTAAGGTTTAGAATTTAATGG
33494958 TTTAAGGGTTTAG
1 TTTAA-GGTTTAG
33494971 TGTTTAGAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 5 0.16
22 19 0.61
23 7 0.23
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (22 bp):
TTTAAGGTTTAGAATTTAATGG
Found at i:33495052 original size:21 final size:21
Alignment explanation
Indices: 33494929--33495053 Score: 101
Period size: 21 Copynumber: 5.9 Consensus size: 21
33494919 GGTTTAGAAT
*
33494929 TTTAAGGTTTAAGGTTTAGGA
1 TTTAAGGTTTAAGGTTTAGGG
*
33494950 TTTAATGGTTTAAGGGTTTAGTG
1 TTTAA-GGTTTAA-GGTTTAGGG
* *
33494973 TTT-AGAGTTT-AGTGGTTATGG
1 TTTAAG-GTTTAAG-GTTTAGGG
* * * *
33494994 TTTAGGGTTTATGATTTAAGG
1 TTTAAGGTTTAAGGTTTAGGG
* *
33495015 TTTAGGGTTTAGGGTTTAGGG
1 TTTAAGGTTTAAGGTTTAGGG
*
33495036 TTTAAGGTTTAATGTTTA
1 TTTAAGGTTTAAGGTTTA
33495054 CAATTTAGGG
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
20 1 0.01
21 57 0.70
22 14 0.17
23 10 0.12
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.47
Consensus pattern (21 bp):
TTTAAGGTTTAAGGTTTAGGG
Found at i:33495685 original size:40 final size:40
Alignment explanation
Indices: 33495595--33495789 Score: 162
Period size: 41 Copynumber: 4.8 Consensus size: 40
33495585 CGTTTGGATA
* * *
33495595 AAAAACACCACTATTGCTCAACCTTTT-GTGGCGTTTTGAAC
1 AAAAACACCACTATTGCTCAA-TTTTTAGCGGC-ATTTGAAC
33495636 AAAAACACCACTATTGCTCAATTTTTAGCGGCATTTGAA-
1 AAAAACACCACTATTGCTCAATTTTTAGCGGCATTTGAAC
* * ** *
33495675 ACAAAGCACCACTATTGCTCAATTTTTAGCTGTGTTTGGAC
1 A-AAAACACCACTATTGCTCAATTTTTAGCGGCATTTGAAC
* * * * **
33495716 GAAGAACACCACTATTGCTCAGTTTTTAGCAGCGTTTGTTC
1 -AAAAACACCACTATTGCTCAATTTTTAGCGGCATTTGAAC
* * *
33495757 AAAAAACGCCATTGTTGCTCAACTTTTT-GCGGC
1 -AAAAACACCACTATTGCTCAA-TTTTTAGCGGC
33495790 TTTTTTGTTT
Statistics
Matches: 127, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
39 1 0.01
40 43 0.34
41 77 0.61
42 6 0.05
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (40 bp):
AAAAACACCACTATTGCTCAATTTTTAGCGGCATTTGAAC
Found at i:33498216 original size:22 final size:22
Alignment explanation
Indices: 33498175--33498216 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
33498165 TGAATATCAC
*
33498175 TAAAATAAAAATTTGTAGAATT
1 TAAAATAAAAATTAGTAGAATT
33498197 TAAAATAAAACATTAG-AGAA
1 TAAAATAAAA-ATTAGTAGAA
33498217 AAAAAACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (22 bp):
TAAAATAAAAATTAGTAGAATT
Found at i:33505010 original size:20 final size:20
Alignment explanation
Indices: 33504985--33505023 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
33504975 CATTAGTGCC
33504985 CCTGTTTGTACTTCGGTACT
1 CCTGTTTGTACTTCGGTACT
*
33505005 CCTGTTTGTACTTTGGTAC
1 CCTGTTTGTACTTCGGTAC
33505024 CCTTGAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (20 bp):
CCTGTTTGTACTTCGGTACT
Found at i:33505125 original size:40 final size:40
Alignment explanation
Indices: 33505003--33505117 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
33504993 TACTTCGGTA
* *
33505003 CTCCTGTTTGTACTTTGGTACCCTTGAATGCACATACGTG
1 CTCCTGTTTGTACTTCGGTACCCCTGAATGCACATACGTG
* * *
33505043 CTCCTGTTTGTACTTCAGTACCCCTGAATGCACATGCCTG
1 CTCCTGTTTGTACTTCGGTACCCCTGAATGCACATACGTG
* * * *
33505083 CTCCGGTTTTTACTTCGGTACCCCTAAATGGACAT
1 CTCCTGTTTGTACTTCGGTACCCCTGAATGCACAT
33505118 TTGTGCTCTG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (40 bp):
CTCCTGTTTGTACTTCGGTACCCCTGAATGCACATACGTG
Found at i:33507746 original size:25 final size:24
Alignment explanation
Indices: 33507700--33507818 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 24
33507690 TCCTGTTATA
* **
33507700 TGGCTCTCACGAGCTTTTCGATATT
1 TGGCTCTCATGAGCTTCCCGAT-TT
*
33507725 TGGCTCTCATGAGCTTCCCGATTAA
1 TGGCTCTCATGAGCTTCCCGATT-T
*
33507750 TGGCTCTCTTGAGCTTCCCG-TTT
1 TGGCTCTCATGAGCTTCCCGATTT
* * *
33507773 ATGGCTC-CTATGAGCCTCCAGATAAT
1 -TGGCTCTC-ATGAGCTTCCCGAT-TT
* *
33507799 TGGCTCGCAAGAGCTTCCCG
1 TGGCTCTCATGAGCTTCCCG
33507819 TTATACAGCT
Statistics
Matches: 75, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
23 1 0.01
24 18 0.24
25 54 0.72
26 2 0.03
ACGTcount: A:0.17, C:0.29, G:0.22, T:0.33
Consensus pattern (24 bp):
TGGCTCTCATGAGCTTCCCGATTT
Found at i:33507803 original size:49 final size:49
Alignment explanation
Indices: 33507725--33507820 Score: 115
Period size: 49 Copynumber: 2.0 Consensus size: 49
33507715 TTTCGATATT
* * * **
33507725 TGGCTCTCATGAGCTTCCCGATTAATGGCTCTCTTGAGCTTCCCGTTTA
1 TGGCTCTCATGAGCCTCCAGATTAATGGCTCGCAAGAGCTTCCCGTTTA
33507774 TGGCTC-CTATGAGCCTCCAGA-TAATTGGCTCGCAAGAGCTTCCCGTT
1 TGGCTCTC-ATGAGCCTCCAGATTAA-TGGCTCGCAAGAGCTTCCCGTT
33507821 ATACAGCTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 4 0.10
49 36 0.90
ACGTcount: A:0.17, C:0.29, G:0.22, T:0.32
Consensus pattern (49 bp):
TGGCTCTCATGAGCCTCCAGATTAATGGCTCGCAAGAGCTTCCCGTTTA
Found at i:33512308 original size:20 final size:20
Alignment explanation
Indices: 33512283--33512327 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
33512273 AGCACATGTA
* *
33512283 TTCATCAAATTTTATAATTT
1 TTCATCAAATTTTACAACTT
33512303 TTCATCAAATTTTACAACTT
1 TTCATCAAATTTTACAACTT
33512323 TTCAT
1 TTCAT
33512328 TTTAGTCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCATCAAATTTTACAACTT
Found at i:33527582 original size:45 final size:45
Alignment explanation
Indices: 33527523--33527619 Score: 169
Period size: 45 Copynumber: 2.2 Consensus size: 45
33527513 TTATTCAACC
*
33527523 TAGGG-TTAGACGTTATTAGTCTCGAGAGAGATAATAATATAACT
1 TAGGGATTAGACGTTATTAGTCTCAAGAGAGATAATAATATAACT
*
33527567 TAGGGATTAGGCGTTATTAGTCTCAAGAGAGATAATAATATAACT
1 TAGGGATTAGACGTTATTAGTCTCAAGAGAGATAATAATATAACT
33527612 TAGGGATT
1 TAGGGATT
33527620 TCTACGGATC
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 5 0.10
45 45 0.90
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (45 bp):
TAGGGATTAGACGTTATTAGTCTCAAGAGAGATAATAATATAACT
Found at i:33540119 original size:4 final size:4
Alignment explanation
Indices: 33540110--33540176 Score: 134
Period size: 4 Copynumber: 16.8 Consensus size: 4
33540100 CTATATAGAT
33540110 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
33540158 ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATA
33540177 TATCTTTATT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.25
Consensus pattern (4 bp):
ATAG
Found at i:33546740 original size:42 final size:42
Alignment explanation
Indices: 33546669--33546774 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 42
33546659 GAGTTACATG
* * * *
33546669 GCCTGAACACATGCCCATGTCCTTGCCCGTGTGGCTCACACG
1 GCCTGAGCACATGCTCATGTCCTTACCCGTGTGGCTCACACA
*
33546711 GCTTGAGCACATGCTCATGTCCTTACCCGTGTGGCTCACACA
1 GCCTGAGCACATGCTCATGTCCTTACCCGTGTGGCTCACACA
* * *
33546753 GCCTGGGCACACGCTTATGTCC
1 GCCTGAGCACATGCTCATGTCC
33546775 CTAGCCATGT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.17, C:0.36, G:0.24, T:0.24
Consensus pattern (42 bp):
GCCTGAGCACATGCTCATGTCCTTACCCGTGTGGCTCACACA
Found at i:33546786 original size:42 final size:42
Alignment explanation
Indices: 33546669--33546786 Score: 110
Period size: 42 Copynumber: 2.8 Consensus size: 42
33546659 GAGTTACATG
* * * * * * *
33546669 GCCTGAACACATGCCCATGTCCTTGCCCGTGTGGCTCACACG
1 GCCTGAGCACACGCTCATGTCCCTACCCATGTGGCTCACACA
* * * *
33546711 GCTTGAGCACATGCTCATGTCCTTACCCGTGTGGCTCACACA
1 GCCTGAGCACACGCTCATGTCCCTACCCATGTGGCTCACACA
* * *
33546753 GCCTGGGCACACGCTTATGTCCCTAGCCATGTGG
1 GCCTGAGCACACGCTCATGTCCCTACCCATGTGG
33546787 TTCCAAAGCG
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.17, C:0.35, G:0.25, T:0.24
Consensus pattern (42 bp):
GCCTGAGCACACGCTCATGTCCCTACCCATGTGGCTCACACA
Found at i:33550361 original size:13 final size:13
Alignment explanation
Indices: 33550343--33550367 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33550333 AAACTAAACA
33550343 TTAACTAAGAAAT
1 TTAACTAAGAAAT
33550356 TTAACTAAGAAA
1 TTAACTAAGAAA
33550368 AAAAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
TTAACTAAGAAAT
Found at i:33551271 original size:21 final size:21
Alignment explanation
Indices: 33551246--33551285 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33551236 AGAGAGAAAA
*
33551246 TGTG-AGTGAGTGAGTGAGATG
1 TGTGAAGTGAGGGA-TGAGATG
33551267 TGTGAAGTGAGGGATGAGA
1 TGTGAAGTGAGGGATGAGA
33551286 AATGAGGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.47, T:0.25
Consensus pattern (21 bp):
TGTGAAGTGAGGGATGAGATG
Found at i:33552436 original size:42 final size:42
Alignment explanation
Indices: 33552358--33552437 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
33552348 GTGCAGGTTT
*
33552358 CACACGGCCAAGACACACACCCGTGTTCTAGGCCATGTAGCA
1 CACACGGCCAAGACACACACCCGTGTTCTAGCCCATGTAGCA
**
33552400 CACACGGTTAAGACACACACCCGTGTCTCT-GCCCATGT
1 CACACGGCCAAGACACACACCCGTGT-TCTAGCCCATGT
33552438 GCTCAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
42 31 0.91
43 3 0.09
ACGTcount: A:0.26, C:0.36, G:0.20, T:0.17
Consensus pattern (42 bp):
CACACGGCCAAGACACACACCCGTGTTCTAGCCCATGTAGCA
Found at i:33555540 original size:16 final size:15
Alignment explanation
Indices: 33555519--33555552 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
33555509 CTTCAAATTC
33555519 AAGTATACAACATCGA
1 AAGTATACAACATC-A
33555535 AAGTATACAACATCA
1 AAGTATACAACATCA
33555550 AAG
1 AAG
33555553 GATATCTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.53, C:0.18, G:0.12, T:0.18
Consensus pattern (15 bp):
AAGTATACAACATCA
Found at i:33558288 original size:43 final size:43
Alignment explanation
Indices: 33558224--33558328 Score: 165
Period size: 43 Copynumber: 2.4 Consensus size: 43
33558214 AGATTACCTG
33558224 TCCGGGCTAAATCCTTTCTATAATAATATCAATGGACTACCCA
1 TCCGGGCTAAATCCTTTCTATAATAATATCAATGGACTACCCA
* * * *
33558267 TCTGGGCTAAATCCTTTCTATAATGATATCAATGGATTACCCT
1 TCCGGGCTAAATCCTTTCTATAATAATATCAATGGACTACCCA
*
33558310 TCCGGGCTAAATCCATTCT
1 TCCGGGCTAAATCCTTTCT
33558329 GCAACACATG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (43 bp):
TCCGGGCTAAATCCTTTCTATAATAATATCAATGGACTACCCA
Found at i:33571664 original size:17 final size:18
Alignment explanation
Indices: 33571626--33571664 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
33571616 GCTCGTTCTG
33571626 GCGTAGTTCTGGTTTATC
1 GCGTAGTTCTGGTTTATC
33571644 GCGT-GTTCTTGGTTTAT-
1 GCGTAGTTC-TGGTTTATC
33571661 GCGT
1 GCGT
33571665 CTGACATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (18 bp):
GCGTAGTTCTGGTTTATC
Found at i:33574025 original size:15 final size:15
Alignment explanation
Indices: 33574007--33574039 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
33573997 CTACCAAGAG
33574007 AAAAAAAAGTAAATT
1 AAAAAAAAGTAAATT
*
33574022 AAAAAAAATTAAATT
1 AAAAAAAAGTAAATT
33574037 AAA
1 AAA
33574040 TTAAAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAAAAAGTAAATT
Found at i:33578210 original size:27 final size:29
Alignment explanation
Indices: 33578078--33578193 Score: 133
Period size: 29 Copynumber: 4.0 Consensus size: 29
33578068 TGAAAATAAG
* * * * *
33578078 GTGATTTGGGCCTAACGGGCCATATAAAG
1 GTGAATTGGGCCTAATGGGTCATATGAAT
* * *
33578107 GTGATTTGGGCCTAATTGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGTCATATGAAT
* * *
33578136 ATGAATTAGGCCTAATAGGTCATATGAAT
1 GTGAATTGGGCCTAATGGGTCATATGAAT
33578165 GTGAATTGGGCCTAATGGGTCATATGAAT
1 GTGAATTGGGCCTAATGGGTCATATGAAT
33578194 TAGATGGGCC
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 75 1.00
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (29 bp):
GTGAATTGGGCCTAATGGGTCATATGAAT
Found at i:33579296 original size:17 final size:18
Alignment explanation
Indices: 33579263--33579297 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33579253 TTTTAAGAAG
33579263 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
33579281 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
33579298 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:33585504 original size:40 final size:40
Alignment explanation
Indices: 33585421--33585683 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
33585411 TTGAATGCTG
* * * * * *
33585421 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
33585461 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
33585501 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
33585541 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
33585581 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
33585621 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
33585660 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33585684 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:33585703 original size:79 final size:80
Alignment explanation
Indices: 33585460--33585718 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
33585450 AAGTGAATAT
* * * * * *
33585460 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
33585524 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
33585540 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
33585605 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
33585620 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
33585684 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
33585699 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
33585719 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:33593456 original size:40 final size:40
Alignment explanation
Indices: 33593373--33593635 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
33593363 TTGAATGCTG
* * * * * *
33593373 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
33593413 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
33593453 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
33593493 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
33593533 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
33593573 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
33593612 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33593636 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:33593655 original size:79 final size:80
Alignment explanation
Indices: 33593412--33593670 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
33593402 AAGTGAATAT
* * * * * *
33593412 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
33593476 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
33593492 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
33593557 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
33593572 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
33593636 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
33593651 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
33593671 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:33620026 original size:20 final size:20
Alignment explanation
Indices: 33619997--33620041 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
33619987 AACACATGTA
* *
33619997 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
33620017 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
33620037 TTCAT
1 TTCAT
33620042 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:33622961 original size:51 final size:51
Alignment explanation
Indices: 33622869--33623069 Score: 151
Period size: 51 Copynumber: 4.0 Consensus size: 51
33622859 CCATTGTAGT
* * * *
33622869 CAAAGCTATCTTCTT-CACAAAGTGGCCTT-CACATAGTACCACACTTGTGAC
1 CAAAGCTATCTT-TTACACATAGTGG-CTTGCACTTAGCACCACACATGTGAC
*
33622920 CAAAGCTATCTTTTACACATAGTGGCTTGCACTTAGCACCACACATGTGAT
1 CAAAGCTATCTTTTACACATAGTGGCTTGCACTTAGCACCACACATGTGAC
* * * * * * *
33622971 CGAAGCTATC--GTACGCATAGTAGCTTGCACTTAGTACTACACACGTGAC
1 CAAAGCTATCTTTTACACATAGTGGCTTGCACTTAGCACCACACATGTGAC
* * * * * * * *
33623020 CTAAAACCAT-TTTAAACACATAGTAGTTTGCACATAGTACTACACATGTG
1 C-AAAGCTATCTTT-TACACATAGTGGCTTGCACTTAGCACCACACATGTG
33623070 TTCTCACAAC
Statistics
Matches: 122, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
49 33 0.27
50 10 0.08
51 48 0.39
52 31 0.25
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (51 bp):
CAAAGCTATCTTTTACACATAGTGGCTTGCACTTAGCACCACACATGTGAC
Found at i:33625245 original size:42 final size:42
Alignment explanation
Indices: 33625183--33625266 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
33625173 AAACCAAGAG
*
33625183 ATACAATTATCATTCATCACTTAATAATTATTTTCCAACAAT
1 ATACAATTATCATTCATCACTCAATAATTATTTTCCAACAAT
*
33625225 ATACAATTATCATTCTTCACTCAATAATTATTTTCCAACAAT
1 ATACAATTATCATTCATCACTCAATAATTATTTTCCAACAAT
33625267 GGTTCTTCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.40
Consensus pattern (42 bp):
ATACAATTATCATTCATCACTCAATAATTATTTTCCAACAAT
Found at i:33626867 original size:20 final size:18
Alignment explanation
Indices: 33626829--33626865 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
33626819 ATACAATGAA
33626829 AAAAACAAAAAAAGAGAG
1 AAAAACAAAAAAAGAGAG
33626847 AAAAACAAAAAAAGAGAG
1 AAAAACAAAAAAAGAGAG
33626865 A
1 A
33626866 GAGAAGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.78, C:0.05, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAACAAAAAAAGAGAG
Found at i:33627219 original size:9 final size:9
Alignment explanation
Indices: 33627205--33627246 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
33627195 TTACATAAAC
33627205 TTATAAATA
1 TTATAAATA
33627214 TTATAAA-A
1 TTATAAATA
* *
33627222 ATATAAGTA
1 TTATAAATA
33627231 TTATAAATA
1 TTATAAATA
33627240 TTATAAA
1 TTATAAA
33627247 AATATCCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
TTATAAATA
Found at i:33627334 original size:21 final size:20
Alignment explanation
Indices: 33627292--33627359 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
33627282 AGAAAAAATA
*
33627292 ATAAAAATAT-TTAAAATTT
1 ATAAAAATGTATTAAAATTT
33627311 ATAAAAATGTATTAAAATTCT
1 ATAAAAATGTATTAAAATT-T
* *
33627332 ATAAAAA-GCATTAAAATTG
1 ATAAAAATGTATTAAAATTT
33627351 ATATAAAAT
1 ATA-AAAAT
33627360 TATAAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 12 0.29
20 22 0.52
21 8 0.19
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (20 bp):
ATAAAAATGTATTAAAATTT
Found at i:33627338 original size:11 final size:10
Alignment explanation
Indices: 33627269--33627338 Score: 54
Period size: 10 Copynumber: 6.9 Consensus size: 10
33627259 ATCTAATAAA
33627269 TTATAAAAAAT
1 TTAT-AAAAAT
* *
33627280 TTAGAAAAAA
1 TTATAAAAAT
*
33627290 TAATAAAAAT
1 TTATAAAAAT
33627300 ATT-T-AAAAT
1 -TTATAAAAAT
33627309 TTATAAAAAT
1 TTATAAAAAT
* *
33627319 GTATTAAAAT
1 TTATAAAAAT
33627329 TCTATAAAAA
1 T-TATAAAAA
33627339 GCATTAAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
8 2 0.04
9 6 0.13
10 26 0.58
11 11 0.24
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (10 bp):
TTATAAAAAT
Found at i:33629827 original size:35 final size:36
Alignment explanation
Indices: 33629778--33629845 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 36
33629768 TTCTAATTAA
*
33629778 ATTAACTTTAGAAAAATCAAATAATTTGAATAATTG
1 ATTAACTTTAGAAAAATCAAATAACTTGAATAATTG
*
33629814 ATTAACTTT-GAAAAATCAAATAACTTGCATAA
1 ATTAACTTTAGAAAAATCAAATAACTTGAATAA
33629846 CTCAATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 21 0.70
36 9 0.30
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.34
Consensus pattern (36 bp):
ATTAACTTTAGAAAAATCAAATAACTTGAATAATTG
Found at i:33629837 original size:18 final size:18
Alignment explanation
Indices: 33629780--33629839 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
33629770 CTAATTAAAT
33629780 TAACTTTAGAAAAATCAAA
1 TAACTTT-GAAAAATCAAA
* ** *
33629799 TAA-TTTGAATAATTGAT
1 TAACTTTGAAAAATCAAA
33629816 TAACTTTGAAAAATCAAA
1 TAACTTTGAAAAATCAAA
33629834 TAACTT
1 TAACTT
33629840 GCATAACTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
17 10 0.31
18 19 0.59
19 3 0.09
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (18 bp):
TAACTTTGAAAAATCAAA
Found at i:33629854 original size:36 final size:36
Alignment explanation
Indices: 33629777--33629854 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 36
33629767 TTTCTAATTA
* *
33629777 AATTAACTTTAGAAAAATCAAATAATTTGAATAATT
1 AATTAACTTTAGAAAAATCAAATAACTTGAATAATC
* *
33629813 GATTAACTTT-GAAAAATCAAATAACTTGCATAACTC
1 AATTAACTTTAGAAAAATCAAATAACTTGAATAA-TC
33629849 AATTAA
1 AATTAA
33629855 ATTAATTTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
35 21 0.58
36 15 0.42
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.33
Consensus pattern (36 bp):
AATTAACTTTAGAAAAATCAAATAACTTGAATAATC
Found at i:33630569 original size:6 final size:6
Alignment explanation
Indices: 33630560--33630586 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
33630550 TTGTAATGGT
33630560 AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAA
33630587 TTTAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:33631516 original size:14 final size:13
Alignment explanation
Indices: 33631497--33631540 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
33631487 TAATTTATTT
33631497 TAAATAAAATATAA
1 TAAATAAAATA-AA
33631511 TAAATAAAATAAA
1 TAAATAAAATAAA
*
33631524 TTAAT-AAATAAA
1 TAAATAAAATAAA
*
33631536 AAAAT
1 TAAAT
33631541 TTCAGCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 10 0.37
13 6 0.22
14 11 0.41
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAATAAAATAAA
Found at i:33631530 original size:17 final size:17
Alignment explanation
Indices: 33631498--33631541 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
33631488 AATTTATTTT
33631498 AAATAAAATATAATAAATA
1 AAAT-AAAT-TAATAAATA
33631517 AAATAAATTAATAAATA
1 AAATAAATTAATAAATA
33631534 AAA-AAATT
1 AAATAAATT
33631542 TCAGCATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.20
17 12 0.48
18 4 0.16
19 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAAATTAATAAATA
Found at i:33635928 original size:11 final size:11
Alignment explanation
Indices: 33635896--33635936 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
33635886 GAATAAAAAG
*
33635896 TATATACATAG
1 TATATACATAA
*
33635907 TAT-TA-AAAA
1 TATATACATAA
33635916 TATATACATAA
1 TATATACATAA
33635927 TATATACATA
1 TATATACATA
33635937 TTAGAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 5 0.20
10 4 0.16
11 16 0.64
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (11 bp):
TATATACATAA
Found at i:33636286 original size:25 final size:26
Alignment explanation
Indices: 33636258--33636322 Score: 87
Period size: 25 Copynumber: 2.5 Consensus size: 26
33636248 AATAATGTGA
*
33636258 TATTAAAAATATATACAATATATA-G
1 TATTAAAAATATACACAATATATAGG
* *
33636283 TATTAAGAATATACGCAATATATATGG
1 TATTAAAAATATACACAATATATA-GG
33636310 TATTAAAAATATA
1 TATTAAAAATATA
33636323 GTATTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 21 0.62
27 13 0.38
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (26 bp):
TATTAAAAATATACACAATATATAGG
Found at i:33639385 original size:11 final size:11
Alignment explanation
Indices: 33639353--33639393 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
33639343 GAATAAAAAG
*
33639353 TATATACATAG
1 TATATACATAA
*
33639364 TAT-TA-AAAA
1 TATATACATAA
33639373 TATATACATAA
1 TATATACATAA
33639384 TATATACATA
1 TATATACATA
33639394 TTAGAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 5 0.20
10 4 0.16
11 16 0.64
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (11 bp):
TATATACATAA
Found at i:33639736 original size:25 final size:26
Alignment explanation
Indices: 33639708--33639772 Score: 87
Period size: 25 Copynumber: 2.5 Consensus size: 26
33639698 AATAATGTGA
*
33639708 TATTAAAAATATATACAATATATA-G
1 TATTAAAAATATACACAATATATAGG
* *
33639733 TATTAAGAATATACGCAATATATATGG
1 TATTAAAAATATACACAATATATA-GG
33639760 TATTAAAAATATA
1 TATTAAAAATATA
33639773 GTATTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 21 0.62
27 13 0.38
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (26 bp):
TATTAAAAATATACACAATATATAGG
Found at i:33639918 original size:154 final size:154
Alignment explanation
Indices: 33639744--33640205 Score: 915
Period size: 154 Copynumber: 3.0 Consensus size: 154
33639734 ATTAAGAATA
33639744 TACGCAATATATATGGTATTAAAAATATAGTATTAAAAAACATAATATATACATATACGTATTGA
1 TACGCAATATATATGGTATTAAAAATATAGTATTAAAAAACATAATATATACATATACGTATTGA
33639809 TTAAAAAATAATACTAATAATAGTAATAGTAAAATACTAATAAATAATAGATATAGTAATAATAA
66 TTAAAAAATAATACTAATAATAGTAATAGTAAAATACTAATAAATAATAGATATAGTAATAATAA
33639874 GAATATATAAACAACAATATGTAC
131 GAATATATAAACAACAATATGTAC
*
33639898 TACGCAATAAATATGGTATTAAAAATATAGTATTAAAAAACATAATATATACATATACGTATTGA
1 TACGCAATATATATGGTATTAAAAATATAGTATTAAAAAACATAATATATACATATACGTATTGA
33639963 TTAAAAAATAATACTAATAATAGTAATAGTAAAATACTAATAAATAATAGATATAGTAATAATAA
66 TTAAAAAATAATACTAATAATAGTAATAGTAAAATACTAATAAATAATAGATATAGTAATAATAA
33640028 GAATATATAAACAACAATATGTAC
131 GAATATATAAACAACAATATGTAC
33640052 TACGCAATATATATGGTATTAAAAATATAGTATTAAAAAACATAATATATACATATACGTATTGA
1 TACGCAATATATATGGTATTAAAAATATAGTATTAAAAAACATAATATATACATATACGTATTGA
33640117 TTAAAAAATAATACTAATAATAGTAATAGTAAAATACTAATAAATAATAGATATAGTAATAATAA
66 TTAAAAAATAATACTAATAATAGTAATAGTAAAATACTAATAAATAATAGATATAGTAATAATAA
33640182 GAATATATAAACAACAATATGTAC
131 GAATATATAAACAACAATATGTAC
33640206 AGGGAAAAAT
Statistics
Matches: 306, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
154 306 1.00
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (154 bp):
TACGCAATATATATGGTATTAAAAATATAGTATTAAAAAACATAATATATACATATACGTATTGA
TTAAAAAATAATACTAATAATAGTAATAGTAAAATACTAATAAATAATAGATATAGTAATAATAA
GAATATATAAACAACAATATGTAC
Found at i:33639923 original size:14 final size:14
Alignment explanation
Indices: 33639906--33639936 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33639896 ACTACGCAAT
*
33639906 AAATATGGTATTAA
1 AAATATAGTATTAA
33639920 AAATATAGTATTAA
1 AAATATAGTATTAA
33639934 AAA
1 AAA
33639937 ACATAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (14 bp):
AAATATAGTATTAA
Found at i:33640268 original size:18 final size:17
Alignment explanation
Indices: 33640244--33640286 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
33640234 TTAGTAACGC
33640244 TATATATATATATGTAAACA
1 TATATATAT-TA-G-AAACA
33640264 TATATATATTAGAAACA
1 TATATATATTAGAAACA
33640281 TATATA
1 TATATA
33640287 CATAGTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.48
18 1 0.04
19 2 0.09
20 9 0.39
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (17 bp):
TATATATATTAGAAACA
Found at i:33640426 original size:16 final size:15
Alignment explanation
Indices: 33640370--33640427 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 15
33640360 GCGTTTAAAG
33640370 TATATATGTAATATA
1 TATATATGTAATATA
33640385 -ATAT-TAG-ACATATA
1 TATATAT-GTA-ATATA
*
33640399 TATATAT-AAATATA
1 TATATATGTAATATA
33640413 TATATATGGTAATAT
1 TATATAT-GTAATAT
33640428 GAAAATATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 13
0.71 0.02 0.27
Matches are distributed among these distances:
13 2 0.06
14 22 0.63
15 5 0.14
16 6 0.17
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (15 bp):
TATATATGTAATATA
Found at i:33640536 original size:26 final size:26
Alignment explanation
Indices: 33640450--33640536 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
33640440 CTAATAATAT
*
33640450 TTAAGAA-TGTATACATAATATAGTAA
1 TTAAGAATTATATACATAATATAG-AA
** * *
33640476 GAAATATATATATATACGTAATATAGAA
1 TTAAGA-AT-TATATACATAATATAGAA
*
33640504 TTTAGAATTATATACATAATATA-ATA
1 TTAAGAATTATATACATAATATAGA-A
33640530 TTAAGAA
1 TTAAGAA
33640537 AATTAATAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
25 1 0.02
26 24 0.52
27 3 0.07
28 4 0.09
29 14 0.30
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (26 bp):
TTAAGAATTATATACATAATATAGAA
Done.