Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 154 of 172
Found at i:50419880 original size:52 final size:52
Alignment explanation
Indices: 50419813--50419919 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
50419803 CGGCTATCAG
*
50419813 ATGTGAGATCTCATAAAATACTTTATGTGTATGGCTTTGATACCAATTGAAA
1 ATGTAAGATCTCATAAAATACTTTATGTGTATGGCTTTGATACCAATTGAAA
*
50419865 ATGTAAGATCTCATAAAATGCTTTATGTGTATGGCTTTGATACCAATTGAAA
1 ATGTAAGATCTCATAAAATACTTTATGTGTATGGCTTTGATACCAATTGAAA
50419917 ATG
1 ATG
50419920 CAACATTATA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (52 bp):
ATGTAAGATCTCATAAAATACTTTATGTGTATGGCTTTGATACCAATTGAAA
Found at i:50424424 original size:54 final size:54
Alignment explanation
Indices: 50424360--50424462 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
50424350 TTTGATGGTG
* *
50424360 TTGAGCTTCCTGCTGGAGAAGATACATCCATCCCATGGTTTGAAAATATGACCA
1 TTGAGCTTCCTGATGGAGAAGAGACATCCATCCCATGGTTTGAAAATATGACCA
* ** *
50424414 TTGAGGTTCCTGATGGATTAGAGGCATCCATCCCATGGTTTGAAAATAT
1 TTGAGCTTCCTGATGGAGAAGAGACATCCATCCCATGGTTTGAAAATAT
50424463 TTCAGAGAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (54 bp):
TTGAGCTTCCTGATGGAGAAGAGACATCCATCCCATGGTTTGAAAATATGACCA
Found at i:50433395 original size:22 final size:23
Alignment explanation
Indices: 50433323--50433405 Score: 98
Period size: 22 Copynumber: 3.7 Consensus size: 23
50433313 CTTAATATAT
* *
50433323 TTTTAAAATTATCATCAATATTA
1 TTTTAAATTTATCATAAATATTA
* *
50433346 TTTT-AATTTATAATATATTATTA
1 TTTTAAATTTATCATA-AATATTA
*
50433369 TTTTAAATTTATCATAAACA-TA
1 TTTTAAATTTATCATAAATATTA
50433391 TTTTAAATTTATCAT
1 TTTTAAATTTATCAT
50433406 GTATTTTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
22 25 0.49
23 16 0.31
24 10 0.20
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTAAATTTATCATAAATATTA
Found at i:50433735 original size:24 final size:24
Alignment explanation
Indices: 50433707--50433752 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
50433697 GTTTAAATTC
*
50433707 TCTTTTAAATATGTTTATATATCT
1 TCTTTTAAATATATTTATATATCT
*
50433731 TCTTTTAAATCTATTTATATAT
1 TCTTTTAAATATATTTATATAT
50433753 ATAATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (24 bp):
TCTTTTAAATATATTTATATATCT
Found at i:50440568 original size:30 final size:30
Alignment explanation
Indices: 50440534--50440596 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
50440524 AGTTATTTTA
*
50440534 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTAATATTTTAAAGACAT
*
50440564 TTGTTAATTTTGTTAATATTTTAGAGACAT
1 TTGTTAATTTTGTTAATATTTTAAAGACAT
50440594 TTG
1 TTG
50440597 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTAATATTTTAAAGACAT
Found at i:50440747 original size:12 final size:11
Alignment explanation
Indices: 50440719--50440752 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
50440709 ATATATATTT
50440719 TAAAA-TAATA
1 TAAAATTAATA
50440729 TAAAATTAATA
1 TAAAATTAATA
50440740 TCAAAATTAATA
1 T-AAAATTAATA
50440752 T
1 T
50440753 GGGTGGGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.23
11 6 0.27
12 11 0.50
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAATTAATA
Found at i:50441646 original size:24 final size:25
Alignment explanation
Indices: 50441614--50441666 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
50441604 ATAAGTACCT
* *
50441614 CAAATCCAAAACAACAT-TTCATGC
1 CAAAACCAAAACAACATATACATGC
**
50441638 CAAAACCAAAATGACATATACATGC
1 CAAAACCAAAACAACATATACATGC
50441663 CAAA
1 CAAA
50441667 CTTATCAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.51, C:0.26, G:0.06, T:0.17
Consensus pattern (25 bp):
CAAAACCAAAACAACATATACATGC
Found at i:50443132 original size:137 final size:138
Alignment explanation
Indices: 50442885--50443159 Score: 358
Period size: 137 Copynumber: 2.0 Consensus size: 138
50442875 AGCTGTAAAA
* *
50442885 TGGGTCTACTCATACAAGCTGTCGGTCGAAATGTAAGCTAAACGATGTTGCTCACACAAGCTATC
1 TGGGTCTACTCACACAAGCTGTCAGTCGAAATGTAAGCTAAACGATGTTGCTCACACAAGCTATC
* * * **
50442950 GAGTATACGCAACTAATGCTAGACCTCAGCCGTCGGCAGGACATTCAAGACCAGCACCCGAAACA
66 AAGTATACGCAACTAATGCCAGAACTCAGCCACCGGCAGGACATTCAAGACCAGCACCCGAAACA
50443015 TGGTAACC
131 TGGTAACC
* * * * * *
50443023 TGGGTCTGCTCACACAAGTTGTCAGTCGGAATGT-AGCTACACGGTGTTGCTCACACAAGCTGTC
1 TGGGTCTACTCACACAAGCTGTCAGTCGAAATGTAAGCTAAACGATGTTGCTCACACAAGCTATC
* * * *
50443087 AAGTAT-CTGCAAC-ATATGCCAGAACTTAGCCACCGGTAGGACATTCAAGACTAGCACCCGAAG
66 AAGTATAC-GCAACTA-ATGCCAGAACTCAGCCACCGGCAGGACATTCAAGACCAGCACCCGAAA
50443150 CATGGTAACC
129 CATGGTAACC
50443160 CTAATGACAT
Statistics
Matches: 118, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
136 2 0.02
137 87 0.74
138 29 0.25
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.21
Consensus pattern (138 bp):
TGGGTCTACTCACACAAGCTGTCAGTCGAAATGTAAGCTAAACGATGTTGCTCACACAAGCTATC
AAGTATACGCAACTAATGCCAGAACTCAGCCACCGGCAGGACATTCAAGACCAGCACCCGAAACA
TGGTAACC
Found at i:50446891 original size:31 final size:32
Alignment explanation
Indices: 50446832--50446891 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
50446822 AACTACTTCA
* *
50446832 ACTCTTTTTTAAAAGATTGATAGTCAAATTTG
1 ACTCTTTTTTAAAAGATTAATAGCCAAATTTG
* *
50446864 ACTC-TTTTTAAAAGGTTAATGGCCAAAT
1 ACTCTTTTTTAAAAGATTAATAGCCAAAT
50446892 CTAGCTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 20 0.83
32 4 0.17
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (32 bp):
ACTCTTTTTTAAAAGATTAATAGCCAAATTTG
Found at i:50465815 original size:21 final size:21
Alignment explanation
Indices: 50465773--50465817 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50465763 TACACGTATG
* ** *
50465773 GTATAACTCTTTTTCTTTTTT
1 GTATAACTCTTGTTAATATTT
50465794 GTATAACTCTTGTTAATATTT
1 GTATAACTCTTGTTAATATTT
50465815 GTA
1 GTA
50465818 ATTAAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.58
Consensus pattern (21 bp):
GTATAACTCTTGTTAATATTT
Found at i:50468542 original size:19 final size:18
Alignment explanation
Indices: 50468520--50468560 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
50468510 TAAATTTGAT
*
50468520 TAAAATTAATAAACAAAAG
1 TAAAATCAATAAA-AAAAG
*
50468539 TAAACTCAATAAAAAAAG
1 TAAAATCAATAAAAAAAG
50468557 TAAA
1 TAAA
50468561 CTAAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (18 bp):
TAAAATCAATAAAAAAAG
Found at i:50468557 original size:18 final size:19
Alignment explanation
Indices: 50468527--50468562 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
50468517 GATTAAAATT
50468527 AATAAACAAAAGTAAACTC
1 AATAAACAAAAGTAAACTC
50468546 AATAAA-AAAAGTAAACT
1 AATAAACAAAAGTAAACT
50468563 AAAATAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.67, C:0.11, G:0.06, T:0.17
Consensus pattern (19 bp):
AATAAACAAAAGTAAACTC
Found at i:50478338 original size:6 final size:6
Alignment explanation
Indices: 50478329--50478385 Score: 60
Period size: 6 Copynumber: 9.2 Consensus size: 6
50478319 AATTATAATT
* * * *
50478329 TTTTTA TTTTATT TTTTTA TTTTTA TTTTGA TTTTGA TTTATTA TTTATA
1 TTTTTA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA
50478379 TTTTTA T
1 TTTTTA T
50478386 GCTTTAAGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
6 33 0.77
7 10 0.23
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:50478344 original size:13 final size:13
Alignment explanation
Indices: 50478326--50478383 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
50478316 CCAAATTATA
50478326 ATTTTTTTATTTT
1 ATTTTTTTATTTT
50478339 ATTTTTTTATTTT
1 ATTTTTTTATTTT
* *
50478352 -TATTTTGATTTT
1 ATTTTTTTATTTT
*
50478364 GA-TTTATTATTTAT
1 -ATTTTTTTATTT-T
50478378 ATTTTT
1 ATTTTT
50478384 ATGCTTTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
12 10 0.29
13 21 0.60
14 4 0.11
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (13 bp):
ATTTTTTTATTTT
Found at i:50478353 original size:19 final size:21
Alignment explanation
Indices: 50478329--50478377 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 21
50478319 AATTATAATT
50478329 TTTTTATTTT-ATTTT-TTTA
1 TTTTTATTTTGATTTTATTTA
50478348 TTTTTATTTTGATTTTGATTTA
1 TTTTTATTTTGATTTT-ATTTA
50478370 TTATTTAT
1 TT-TTTAT
50478378 ATTTTTATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.38
20 5 0.19
22 6 0.23
23 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTTATTTTGATTTTATTTA
Found at i:50479447 original size:4 final size:4
Alignment explanation
Indices: 50479420--50479473 Score: 51
Period size: 4 Copynumber: 13.5 Consensus size: 4
50479410 CCAAATAAGT
*
50479420 AATA AAT- AATAA AATA AAGT- AATA AATA AAGTA AAGA AA-A AATA AATA
1 AATA AATA AAT-A AATA AA-TA AATA AATA AA-TA AATA AATA AATA AATA
50479468 AATA AA
1 AATA AA
50479474 AATTAGGTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
3 7 0.16
4 28 0.65
5 8 0.19
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:50499818 original size:48 final size:48
Alignment explanation
Indices: 50499739--50499832 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
50499729 AGGGAATTCT
* *
50499739 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
50499787 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
50499833 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:50500237 original size:5 final size:5
Alignment explanation
Indices: 50500229--50500253 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
50500219 CATTACATTT
50500229 TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA
50500254 AATCTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:50509240 original size:20 final size:20
Alignment explanation
Indices: 50509215--50509264 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
50509205 TGGCTTAAAA
50509215 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
50509235 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
50509252 GTGGTAGTGGATT
1 TTGGTAGTGGATT
50509265 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:50513383 original size:144 final size:146
Alignment explanation
Indices: 50513186--50513578 Score: 569
Period size: 156 Copynumber: 2.6 Consensus size: 146
50513176 AAAGCTTGCC
* *
50513186 AATTTCTTTTGGG-ATAGAACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGAT
1 AATTTC-TTGGGGAATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGAT
* * *
50513250 AAACTACCAATACAAGAAGGGATTGAACCGGTCAA-TTT-GTTTTGGGAGAGGTCCAAAAAAGTT
65 AAACTACCAATACAAGAAGGGATTGAACCAGTCAATTTTGGTTTTGGGAGAGGTACAAAAAAGTC
50513313 AAATTTGCTAGATTACA
130 AAATTTGCTAGATTACA
50513330 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGATA
1 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGATA
50513395 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGCTTTCGGAGAGGTTTTGGGAGAGGTAC
66 AACTACCAATACAAGAAGGGATTGAACCAGTCAA--T--TTT------GGTTTTGGGAGAGGTAC
**
50513460 AATGAAGTCAAATTTGCTAGATTACA
121 AAAAAAGTCAAATTTGCTAGATTACA
*
50513486 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAACCAAGGGC-TAAGTCCTGCATCTTTGAT
1 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAACCAA-GGCTTAAGTCCAGCATCTTTGAT
*
50513550 AAACTACCAACACAAGAAGGGATTGAACC
65 AAACTACCAATACAAGAAGGGATTGAACC
50513579 TTGAAGTTGG
Statistics
Matches: 226, Mismatches: 9, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
143 5 0.02
144 90 0.40
149 3 0.01
156 125 0.55
157 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (146 bp):
AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGATA
AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTTGGTTTTGGGAGAGGTACAAAAAAGTCA
AATTTGCTAGATTACA
Found at i:50513843 original size:144 final size:144
Alignment explanation
Indices: 50513652--50514090 Score: 727
Period size: 144 Copynumber: 3.0 Consensus size: 144
50513642 TATTGAATCG
* * * * * * *
50513652 ACAAGTCTATTGTTGTAGAGACCCAAAAAAGTCAGATTTCTTAAATATCCAATTTCTAATGGGAT
1 ACAATTCTATTCTTGGAGAGACTCAAATAAGTCAAATTTCTCAAATATCCAATTTCTAATGGGAT
*
50513717 AGATCCATTGATTTGGTTCCCCGAAAGGCTCAGAGATTGGAGACTGGTTAATTGACCCAAAGCAG
66 AGATCCATTGATTTGGTTCCCCGAAAGGATCAGAGATTGGAGACTGGTTAATTGACCCAAAGCAG
*
50513782 AAGGGATTCGACCA
131 AAGGGATTGGACCA
*
50513796 ACAATTCTATTCTTGGAGAGACTCAAATAAGTCAAATTTCTCAAATATCCAATTTCGAATGGGAT
1 ACAATTCTATTCTTGGAGAGACTCAAATAAGTCAAATTTCTCAAATATCCAATTTCTAATGGGAT
*
50513861 AGATCCATTGATTTGGTTCCCCCAAAGGATCAGAGATTGGAGACTGGTTAATTGACCCAAAGCAG
66 AGATCCATTGATTTGGTTCCCCGAAAGGATCAGAGATTGGAGACTGGTTAATTGACCCAAAGCAG
50513926 AAGGGATTGGACCA
131 AAGGGATTGGACCA
* *
50513940 ACAATTCCATTGC-TGGAGAGACTCAAATCAGTCAAATTTCTCAAATATCCAATTTCTAATGGGA
1 ACAATTCTATT-CTTGGAGAGACTCAAATAAGTCAAATTTCTCAAATATCCAATTTCTAATGGGA
* *
50514004 TAGATCCATTGATTCGGTTCCACGAAAGGATCAGAGATTGGAGACTGGTTAATTGACCCAAAGCA
65 TAGATCCATTGATTTGGTTCCCCGAAAGGATCAGAGATTGGAGACTGGTTAATTGACCCAAAGCA
50514069 GAAGGGATTGGACCA
130 GAAGGGATTGGACCA
50514084 ACAATTC
1 ACAATTC
50514091 CACATTGACT
Statistics
Matches: 277, Mismatches: 17, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
144 276 1.00
145 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (144 bp):
ACAATTCTATTCTTGGAGAGACTCAAATAAGTCAAATTTCTCAAATATCCAATTTCTAATGGGAT
AGATCCATTGATTTGGTTCCCCGAAAGGATCAGAGATTGGAGACTGGTTAATTGACCCAAAGCAG
AAGGGATTGGACCA
Found at i:50516766 original size:19 final size:18
Alignment explanation
Indices: 50516737--50516786 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
50516727 GAATATTTTT
* *
50516737 AAAAATGTAAAAGTTATA
1 AAAAATATAAAAATTATA
*
50516755 AAAAATTATAAAAATTATT
1 AAAAA-TATAAAAATTATA
*
50516774 ACAAATATAAAAA
1 AAAAATATAAAAA
50516787 AATAAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (18 bp):
AAAAATATAAAAATTATA
Found at i:50519512 original size:98 final size:97
Alignment explanation
Indices: 50519274--50519471 Score: 297
Period size: 98 Copynumber: 2.0 Consensus size: 97
50519264 GTACAATAAA
* * * *
50519274 ACTTGAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGTACGATC
1 ACTTTAAAAGAACATCCAC-TATCCAAGAATCAAGAAATCACACCCAATACGTTAGGGCACGATC
*
50519339 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
65 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
* * *
50519372 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCAC-TATCCAAGAATCAAGAAATCACACCCAATACGTTAGGGCACGATC
50519437 CCTTTAAAAATCCCAAACTCGGAATATTTCCTTT
65 CCTTT-AAAATCCCAAACTCGGAATATTTCCTTT
50519471 A
1 A
50519472 TGATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
98 67 0.71
99 28 0.29
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (97 bp):
ACTTTAAAAGAACATCCACTATCCAAGAATCAAGAAATCACACCCAATACGTTAGGGCACGATCC
CTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:50520653 original size:22 final size:21
Alignment explanation
Indices: 50520627--50520751 Score: 86
Period size: 19 Copynumber: 6.1 Consensus size: 21
50520617 GATTAAAGGG
*
50520627 TATCTCTAAGATTTCAAAATCA
1 TATCTCTAAGATTGC-AAATCA
*
50520649 TATCTTCTAAGATTGCATATCA
1 TATC-TCTAAGATTGCAAATCA
** *
50520671 TA--TCTAAGATTATACATCA
1 TATCTCTAAGATTGCAAATCA
*
50520690 TA--TCTAAGATTGCATATCA
1 TATCTCTAAGATTGCAAATCA
50520709 TA--TCTAAGATTGCATATATCA
1 TATCTCTAAGATTGCA-A-ATCA
* *
50520730 TA--TCTAGGATTGCATATCA
1 TATCTCTAAGATTGCAAATCA
50520749 TAT
1 TAT
50520752 ATAAGATTGC
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
19 50 0.57
21 17 0.19
22 11 0.12
23 10 0.11
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (21 bp):
TATCTCTAAGATTGCAAATCA
Found at i:50520678 original size:19 final size:19
Alignment explanation
Indices: 50520654--50520766 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
50520644 AATCATATCT
50520654 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
50520673 TCTAAGATTATACATCATA
1 TCTAAGATTGCATATCATA
50520692 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
50520711 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
50520732 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
50520751 TATAAGATTGCATATC
1 TCTAAGATTGCATATC
50520767 CTCAAAAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
19 65 0.78
21 18 0.22
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:50520741 original size:40 final size:40
Alignment explanation
Indices: 50520654--50520765 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
50520644 AATCATATCT
*
50520654 TCTAAGATTGCATATCATATCTAAGATT--ATACATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
50520692 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
* *
50520732 TCTAGGATTGCATATCATATATAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
50520766 CCTCAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 28 0.41
40 41 0.59
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:50522790 original size:166 final size:166
Alignment explanation
Indices: 50522515--50522836 Score: 459
Period size: 166 Copynumber: 1.9 Consensus size: 166
50522505 AAATTAATTA
* * * *
50522515 AAAAAGACATATCAATAGTTAAAGTAGGGCTTAAAGGTATTTTTGATCGTTGAACTTTTTCAAAA
1 AAAAAGAAATATCAATAGTTAAAGAAGGGCTTAAAGGTATTTTTGATCCTCGAACTTTTTCAAAA
* * *
50522580 AAAATCAATTAAGCCCTTGCAGACTTTTTGCACCCAACTGAG-CCCTTAATCTAACAAAACTGAC
66 AAAATCAATTAAGCCCCTACAGACTTTTTGCACCCAACTGAGCCCCTGAA-CTAACAAAACTGAC
* *
50522644 AAAATAGGCCTTTTAACTAATGTTGACTGATTCTTAG
130 AAAATAGGCCCTTTAACTAATATTGACTGATTCTTAG
* * *
50522681 AAAAAGAAATATCAATAGTTAAAGAAGGGTTTAATGGTATTTTTGGTCCTCGAACTTTTTCAAAA
1 AAAAAGAAATATCAATAGTTAAAGAAGGGCTTAAAGGTATTTTTGATCCTCGAACTTTTTCAAAA
* * *
50522746 AAAATCAATTAAGCCCCTAC-GAACTTTTTGCACCCAATTGAGCCCCTGAACTAACAAAATTGGC
66 AAAATCAATTAAGCCCCTACAG-ACTTTTTGCACCCAACTGAGCCCCTGAACTAACAAAACTGAC
* *
50522810 CAAATAGGCCCTTTGACTAATATTGAC
130 AAAATAGGCCCTTTAACTAATATTGAC
50522837 CGTTACAACA
Statistics
Matches: 137, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
165 1 0.01
166 130 0.95
167 6 0.04
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (166 bp):
AAAAAGAAATATCAATAGTTAAAGAAGGGCTTAAAGGTATTTTTGATCCTCGAACTTTTTCAAAA
AAAATCAATTAAGCCCCTACAGACTTTTTGCACCCAACTGAGCCCCTGAACTAACAAAACTGACA
AAATAGGCCCTTTAACTAATATTGACTGATTCTTAG
Found at i:50524419 original size:13 final size:12
Alignment explanation
Indices: 50524390--50524426 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
50524380 ATTCAAAAGA
*
50524390 TAAAAGCTTGAT
1 TAAAAACTTGAT
50524402 TAAAAACTTGAT
1 TAAAAACTTGAT
50524414 TGAAAAACTTGAT
1 T-AAAAACTTGAT
50524427 GATTAAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (12 bp):
TAAAAACTTGAT
Found at i:50526527 original size:80 final size:80
Alignment explanation
Indices: 50526394--50526553 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
50526384 TCTACTCTTT
*
50526394 TCGTCCAATCCATGTCCACAGCGTTCACTTCATCCCTTAGGTTGCAGAACAAACTCCCTTTTTCC
1 TCGTCCAATCCATGTCCACAGCATTCACTTCATCCCTTAGGTTGCAGAACAAACTCCCTTTTTCC
50526459 ATGTATTCATAGATC
66 ATGTATTCATAGATC
*
50526474 TCGTCCAATCCATTTCCACAGCATTCACTTCATCCCTTAGGTTGCAGAACAAACTCCCTTTTTCC
1 TCGTCCAATCCATGTCCACAGCATTCACTTCATCCCTTAGGTTGCAGAACAAACTCCCTTTTTCC
50526539 ATGTATTCATAGATC
66 ATGTATTCATAGATC
50526554 AAAAACATGG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.33
Consensus pattern (80 bp):
TCGTCCAATCCATGTCCACAGCATTCACTTCATCCCTTAGGTTGCAGAACAAACTCCCTTTTTCC
ATGTATTCATAGATC
Found at i:50527875 original size:144 final size:144
Alignment explanation
Indices: 50527180--50527848 Score: 1232
Period size: 144 Copynumber: 4.6 Consensus size: 144
50527170 AAAGCTTGCC
* *
50527180 AATTTCTTTTGGG-ATAGAACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGAT
1 AATTTC-TTGGGGAATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGAT
*
50527244 AAACTACCAATACAAGAAGGGATTGAACCGGTCAATTTGTTTTGGGAGAGGTACAATGAAGTCAA
65 AAACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAATGAAGTCAA
50527309 ATTTGCTAGATTACA
130 ATTTGCTAGATTACA
50527324 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGATA
1 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGATA
* * ** *
50527389 AACTACCAATACAAGAAGGGATTGAACCGGTCAATTTGTTTTGGGAGAGGTCCAAAAAAGTTAAA
66 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAATGAAGTCAAA
50527454 TTTGCTAGATTACA
131 TTTGCTAGATTACA
50527468 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGATA
1 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGATA
50527533 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAATGAAGTCAAA
66 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAATGAAGTCAAA
50527598 TTTGCTAGATTACA
131 TTTGCTAGATTACA
50527612 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGATA
1 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGATA
50527677 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAATGAAGTCAAA
66 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAATGAAGTCAAA
50527742 TTTGCTAGATTACA
131 TTTGCTAGATTACA
*
50527756 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCTGCATCTTTGATA
1 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGATA
*
50527821 AACTACCAACACAAGAAGGGATTGAACC
66 AACTACCAATACAAGAAGGGATTGAACC
50527849 TTGAAGTTGG
Statistics
Matches: 511, Mismatches: 13, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
143 5 0.01
144 506 0.99
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (144 bp):
AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGATA
AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAATGAAGTCAAA
TTTGCTAGATTACA
Found at i:50530747 original size:19 final size:18
Alignment explanation
Indices: 50530718--50530767 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
50530708 GAATATTTTT
* *
50530718 AAAAATGTAAAAGTTATA
1 AAAAATATAAAAATTATA
*
50530736 AAAAATTATAAAAATTATT
1 AAAAA-TATAAAAATTATA
*
50530755 ACAAATATAAAAA
1 AAAAATATAAAAA
50530768 ATAAAATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (18 bp):
AAAAATATAAAAATTATA
Found at i:50533494 original size:98 final size:97
Alignment explanation
Indices: 50533256--50533453 Score: 297
Period size: 98 Copynumber: 2.0 Consensus size: 97
50533246 GTACAATAAA
* * * *
50533256 ACTTGAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGTACGATC
1 ACTTTAAAAGAACATCCAC-TATCCAAGAATCAAGAAATCACACCCAATACGTTAGGGCACGATC
*
50533321 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
65 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
* * *
50533354 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCAC-TATCCAAGAATCAAGAAATCACACCCAATACGTTAGGGCACGATC
50533419 CCTTTAAAAATCCCAAACTCGGAATATTTCCTTT
65 CCTTT-AAAATCCCAAACTCGGAATATTTCCTTT
50533453 A
1 A
50533454 TGATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
98 67 0.71
99 28 0.29
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (97 bp):
ACTTTAAAAGAACATCCACTATCCAAGAATCAAGAAATCACACCCAATACGTTAGGGCACGATCC
CTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:50534633 original size:22 final size:21
Alignment explanation
Indices: 50534607--50534731 Score: 86
Period size: 19 Copynumber: 6.1 Consensus size: 21
50534597 GATTAAAGGG
*
50534607 TATCTCTAAGATTTCAAAATCA
1 TATCTCTAAGATTGC-AAATCA
*
50534629 TATCTTCTAAGATTGCATATCA
1 TATC-TCTAAGATTGCAAATCA
** *
50534651 TA--TCTAAGATTATACATCA
1 TATCTCTAAGATTGCAAATCA
*
50534670 TA--TCTAAGATTGCATATCA
1 TATCTCTAAGATTGCAAATCA
50534689 TA--TCTAAGATTGCATATATCA
1 TATCTCTAAGATTGCA-A-ATCA
* *
50534710 TA--TCTAGGATTGCATATCA
1 TATCTCTAAGATTGCAAATCA
50534729 TAT
1 TAT
50534732 ATAAGATTGC
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
19 50 0.57
21 17 0.19
22 11 0.12
23 10 0.11
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (21 bp):
TATCTCTAAGATTGCAAATCA
Found at i:50534658 original size:19 final size:19
Alignment explanation
Indices: 50534634--50534746 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
50534624 AATCATATCT
50534634 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
50534653 TCTAAGATTATACATCATA
1 TCTAAGATTGCATATCATA
50534672 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
50534691 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
50534712 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
50534731 TATAAGATTGCATATC
1 TCTAAGATTGCATATC
50534747 CTCAAAAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
19 65 0.78
21 18 0.22
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:50534721 original size:40 final size:40
Alignment explanation
Indices: 50534634--50534745 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
50534624 AATCATATCT
*
50534634 TCTAAGATTGCATATCATATCTAAGATT--ATACATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
50534672 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
* *
50534712 TCTAGGATTGCATATCATATATAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
50534746 CCTCAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 28 0.41
40 41 0.59
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:50536770 original size:166 final size:166
Alignment explanation
Indices: 50536495--50536816 Score: 459
Period size: 166 Copynumber: 1.9 Consensus size: 166
50536485 AAATTAATTA
* * * *
50536495 AAAAAGACATATCAATAGTTAAAGTAGGGCTTAAAGGTATTTTTGATCGTTGAACTTTTTCAAAA
1 AAAAAGAAATATCAATAGTTAAAGAAGGGCTTAAAGGTATTTTTGATCCTCGAACTTTTTCAAAA
* * *
50536560 AAAATCAATTAAGCCCTTGCAGACTTTTTGCACCCAACTGAG-CCCTTAATCTAACAAAACTGAC
66 AAAATCAATTAAGCCCCTACAGACTTTTTGCACCCAACTGAGCCCCTGAA-CTAACAAAACTGAC
* *
50536624 AAAATAGGCCTTTTAACTAATGTTGACTGATTCTTAG
130 AAAATAGGCCCTTTAACTAATATTGACTGATTCTTAG
* * *
50536661 AAAAAGAAATATCAATAGTTAAAGAAGGGTTTAATGGTATTTTTGGTCCTCGAACTTTTTCAAAA
1 AAAAAGAAATATCAATAGTTAAAGAAGGGCTTAAAGGTATTTTTGATCCTCGAACTTTTTCAAAA
* * *
50536726 AAAATCAATTAAGCCCCTAC-GAACTTTTTGCACCCAATTGAGCCCCTGAACTAACAAAATTGGC
66 AAAATCAATTAAGCCCCTACAG-ACTTTTTGCACCCAACTGAGCCCCTGAACTAACAAAACTGAC
* *
50536790 CAAATAGGCCCTTTGACTAATATTGAC
130 AAAATAGGCCCTTTAACTAATATTGAC
50536817 CGTTACAACA
Statistics
Matches: 137, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
165 1 0.01
166 130 0.95
167 6 0.04
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (166 bp):
AAAAAGAAATATCAATAGTTAAAGAAGGGCTTAAAGGTATTTTTGATCCTCGAACTTTTTCAAAA
AAAATCAATTAAGCCCCTACAGACTTTTTGCACCCAACTGAGCCCCTGAACTAACAAAACTGACA
AAATAGGCCCTTTAACTAATATTGACTGATTCTTAG
Found at i:50538399 original size:13 final size:12
Alignment explanation
Indices: 50538370--50538406 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
50538360 ATTCAAAAGA
*
50538370 TAAAAGCTTGAT
1 TAAAAACTTGAT
50538382 TAAAAACTTGAT
1 TAAAAACTTGAT
50538394 TGAAAAACTTGAT
1 T-AAAAACTTGAT
50538407 GATTAAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (12 bp):
TAAAAACTTGAT
Found at i:50551151 original size:9 final size:9
Alignment explanation
Indices: 50551137--50551168 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
50551127 AACTTGGTGC
50551137 ATTTTGTTT
1 ATTTTGTTT
50551146 ATTTTGTTT
1 ATTTTGTTT
50551155 ATTTTGTTT
1 ATTTTGTTT
50551164 ATTTT
1 ATTTT
50551169 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:50552488 original size:19 final size:19
Alignment explanation
Indices: 50552442--50552489 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
50552432 GTATATATTT
50552442 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
50552460 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
50552479 TAAGTTTTATT
1 TAAATTTTATT
50552490 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:50552564 original size:42 final size:43
Alignment explanation
Indices: 50552499--50552593 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 43
50552489 TCATATTCTA
50552499 GAAA-TATTTTTATTTTATCTTTTAGTAGTTTACTAAAATAAG
1 GAAACTATTTTTATTTTATCTTTTAGTAGTTTACTAAAATAAG
* * *
50552541 GAAACTATTTTT-TTTTATGTTTTAGTAGTTTATTAGAATAAG
1 GAAACTATTTTTATTTTATCTTTTAGTAGTTTACTAAAATAAG
*
50552583 GGAACTATTTT
1 GAAACTATTTT
50552594 CCCAATTAGG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 41 0.85
43 7 0.15
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.51
Consensus pattern (43 bp):
GAAACTATTTTTATTTTATCTTTTAGTAGTTTACTAAAATAAG
Found at i:50556176 original size:121 final size:121
Alignment explanation
Indices: 50555962--50556202 Score: 473
Period size: 121 Copynumber: 2.0 Consensus size: 121
50555952 ATGAATATCC
50555962 TTTATGTTTTAATTACTAATCGAGGCAATATATCGATTTAACATTAAGTCGTAAATCTCATCGCT
1 TTTATGTTTTAATTACTAATCGAGGCAATATATCGATTTAACATTAAGTCGTAAATCTCATCGCT
50556027 ATGTTGGATGGAATTTGTCGACTCATGTTAAAATGGTATATCCTTCTCAAAAATCT
66 ATGTTGGATGGAATTTGTCGACTCATGTTAAAATGGTATATCCTTCTCAAAAATCT
50556083 TTTATGTTTTAATTACTAATCGAGGCAATATATCGATTTAACATTAAGTCGTAAATCTCATCGCT
1 TTTATGTTTTAATTACTAATCGAGGCAATATATCGATTTAACATTAAGTCGTAAATCTCATCGCT
*
50556148 ATGTTGGATGGAATTTGTCGGCTCATGTTAAAATGGTATATCCTTCTCAAAAATC
66 ATGTTGGATGGAATTTGTCGACTCATGTTAAAATGGTATATCCTTCTCAAAAATC
50556203 AAAAATTGAA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 119 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (121 bp):
TTTATGTTTTAATTACTAATCGAGGCAATATATCGATTTAACATTAAGTCGTAAATCTCATCGCT
ATGTTGGATGGAATTTGTCGACTCATGTTAAAATGGTATATCCTTCTCAAAAATCT
Found at i:50567993 original size:69 final size:71
Alignment explanation
Indices: 50567816--50567993 Score: 200
Period size: 73 Copynumber: 2.5 Consensus size: 71
50567806 CTTTCCAAGG
* * * *
50567816 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCTT
1 AAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGCCGAGGTATTTTAAGT-CTT
*
50567881 TTGTTTCA
65 ATGTTT-A
** * * *
50567889 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTACTTTT-AGT-TT
1 AAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGCCGAGGTA-TTTTAAGTCTT
50567952 ATGTTT-
65 ATGTTTA
* *
50567958 TAAATTGACTCATATTGCGAGAAGTGAGTTAAGCCT
1 AAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
50567994 TTTAATTTTT
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
69 30 0.34
71 7 0.08
73 47 0.53
74 4 0.05
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (71 bp):
AAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGCCGAGGTATTTTAAGTCTTA
TGTTTA
Found at i:50568190 original size:75 final size:74
Alignment explanation
Indices: 50568011--50568854 Score: 836
Period size: 75 Copynumber: 11.0 Consensus size: 74
50568001 TTTGTTTTTC
* * * *
50568011 AAAATCAACTCATATTGCAAGAGGAGAGTTTAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* *
50568076 GTTGTCAAA
66 GTTTTCAAG
* **
50568085 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
50568150 GCTTTTCAAG
66 G-TTTTCAAG
* **
50568160 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
50568225 GCTTTTCAAG
66 G-TTTTCAAG
* **
50568235 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
50568300 GCTTTTCAAG
66 G-TTTTCAAG
* ** *
50568310 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* *
50568375 GTTCAATTTATG
66 GTT---TTCAAG
* *
50568387 TTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 -------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
* **
50568452 AATTTTTGTTTTTTTA-
59 AATTTCTG-TTTTCAAG
* * * * *
50568468 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCCGAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
** *
50568533 ACTTTCAAA
66 GTTTTCAAG
* * * * *
50568542 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACG-TGTTGAGTCACTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG-AG-GT-ATTTTCAAT
* *
50568605 TTCTGTTTTTATGTCTG
62 TTCTGTTTTCA----AG
* * *
50568622 TTTTCTAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAA
1 -----AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
50568687 TTTCTGTTTTTCAATTTTTG
61 TTTCTG-TTTTCAA-----G
** *
50568707 TTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 ------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
50568772 ATTTCTGTTTTC---
60 ATTTCTGTTTTCAAG
* * * *
50568784 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCCATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
50568849 GTTTTC
66 GTTTTC
50568855 GTCATTATGT
Statistics
Matches: 666, Mismatches: 69, Indels: 73
0.82 0.09 0.09
Matches are distributed among these distances:
71 64 0.10
73 7 0.01
74 157 0.24
75 223 0.33
76 15 0.02
77 4 0.01
82 3 0.00
83 13 0.02
84 66 0.10
85 45 0.07
86 69 0.10
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTCAAG
Found at i:50568531 original size:159 final size:157
Alignment explanation
Indices: 50568235--50569288 Score: 984
Period size: 159 Copynumber: 6.7 Consensus size: 157
50568225 GCTTTTCAAG
** * ** *
50568235 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
** * ***
50568300 GCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATT
66 G-TTTTTTA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATT
*
50568365 TTCAATTCCTG-TTCAATTTATGTTTTTCA
129 TTCAATTTCTGTTTC-ATTTATGTTTTTCA
* ** *
50568394 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
50568459 GTTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCCGAGGTATTT
66 G-TTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTT
* *
50568524 TCAAATTCTACTTTCA---A--------A
130 TCAATTTCT-GTTTCATTTATGTTTTTCA
* * * * *
50568542 AAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCT-TGGCTCACG-TGTTGAGTCACTTTCAA
1 AAAATCAACTCATATTGCGAGAA-ATGAGTTGAGCCTCAGG-ACACGCTG-AG-GT-AATTTCAA
** *
50568604 TTTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGAC
61 TTTC--------TGT-T-TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * *
50568669 ATGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGTTTTTC-
116 ACGCCGAGGTATTTTCAATTTCTG--TTTC-ATTTATGTTTTTCA
50568713 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
50568778 G--TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTT
66 GTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTT
* * *
50568841 CCATTTCTGTTTTCGTCATTATGTTTTTGA
131 CAATTTCTG-TTTCAT--TTATGTTTTTCA
*
50568871 AAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTGCAATTTC
1 AA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * * *
50568936 TG--TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCGCACCGAGGTATTT
65 TGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTT
* * *
50568999 TCCATTTCTGTTTTCGTCATTATGTTTTTGA
130 TCAATTTCTG-TTTCAT--TTATGTTTTTCA
* * * **
50569030 AAGAATCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACACATTGAGGTAATTTCAATTTC
1 AA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * ** * **
50569095 TG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
65 TGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTT
50569159 TCAATTTCTG---C--------TTTTCA
130 TCAATTTCTGTTTCATTTATGTTTTTCA
* * *
50569176 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*** * * *
50569241 GTTGTCAAAAAAATCAACTCATATTACGAAAAGTGAGTTGAGCCTCAG
66 GTT-TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
50569289 TTCACATGTT
Statistics
Matches: 767, Mismatches: 87, Indels: 94
0.81 0.09 0.10
Matches are distributed among these distances:
145 56 0.07
146 8 0.01
147 41 0.05
148 38 0.05
149 2 0.00
150 10 0.01
155 1 0.00
156 7 0.01
157 74 0.10
158 61 0.08
159 344 0.45
160 66 0.09
161 3 0.00
169 11 0.01
170 2 0.00
171 37 0.05
172 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (157 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTT
CAATTTCTGTTTCATTTATGTTTTTCA
Found at i:50568699 original size:14 final size:14
Alignment explanation
Indices: 50568680--50568714 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
50568670 TGCTGAGGTA
50568680 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
50568694 TTTTCAATTTTTGT
1 TTTTCAATTTCTGT
50568708 TTTTCAA
1 TTTTCAA
50568715 AATCAACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:50568709 original size:85 final size:84
Alignment explanation
Indices: 50568542--50568782 Score: 283
Period size: 86 Copynumber: 2.8 Consensus size: 84
50568532 TACTTTCAAA
* * * *
50568542 AAAATCAACTCATATTGCGAA-AGGTGAGTTGAGCCT-TGGCTCACGTGTTGA-GTCACTTTCAA
1 AAAATCAACTCATATTGC-AAGAGGTGAGTTGAGCCTCAGG---ACATGCTGAGGT-AATTTCAA
50568604 TTTCTGTTTTTATGTCTG-TTTTC
61 TTTCTGTTTTTATGTCTGTTTTTC
* *
50568627 TAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
* *
50568692 GTTTTTCAATTTTTGTTTTTC
66 GTTTTT--ATGTCTGTTTTTC
* ** *
50568713 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
50568778 GTTTT
66 GTTTT
50568783 CAAAATCAAC
Statistics
Matches: 137, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
83 25 0.18
84 4 0.03
85 37 0.27
86 71 0.52
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (84 bp):
AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
GTTTTTATGTCTGTTTTTC
Found at i:50568729 original size:86 final size:83
Alignment explanation
Indices: 50568542--50569100 Score: 330
Period size: 71 Copynumber: 6.8 Consensus size: 83
50568532 TACTTTCAAA
* * * *
50568542 AAAATCAACTCATATTGCGAA-AGGTGAGTTGAGCCT-TGGCTCACGTGTTGA-GTCACTTTCAA
1 AAAATCAACTCATATTGC-AAGAGGTGAGTTGAGCCTCAGG---ACATGCTGAGGT-AATTTCAA
50568604 TTTCTGTTTTTATGTCTGTTTTC
61 TTTCTGTTTTTATGTCTGTTTTC
* *
50568627 TAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
* *
50568692 GTTTTTCAATTTTTGTTTTTC
66 GTTTTT--ATGTCTG-TTTTC
* ** *
50568713 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA-----
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
50568773 -----T-T-TCTGTTTTC
66 GTTTTTATGTCTGTTTTC
* * ** * * *
50568784 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCCATTTCT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
* *
50568849 GTTTTCGTCAT-TATGTTTTTGA
66 GTTTT--T-ATGTCTG-TTTT-C
* ** * *
50568871 AAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTGCAA----
1 AA-AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTC
50568932 ------T-T-TCTGTTTTC
65 TGTTTTTATGTCTGTTTTC
* * *** * * *
50568943 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCGCACCGAGGTATTTTCCATTTCT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
* *
50569008 GTTTTCGTCAT-TATGTTTTTGA
66 GTTTT--T-ATGTCTG-TTTT-C
* ** * * * ***
50569030 AAGAATCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACACATTGAGGTAATTTCAATTTC
1 AA-AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTC
50569095 TGTTTT
65 TGTTTT
50569101 CAAAATTCAA
Statistics
Matches: 379, Mismatches: 55, Indels: 77
0.74 0.11 0.15
Matches are distributed among these distances:
71 107 0.28
72 5 0.01
73 5 0.01
74 4 0.01
76 2 0.01
83 27 0.07
84 4 0.01
85 45 0.12
86 69 0.18
87 4 0.01
88 107 0.28
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (83 bp):
AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
GTTTTTATGTCTGTTTTC
Found at i:50568880 original size:245 final size:244
Alignment explanation
Indices: 50568448--50568941 Score: 599
Period size: 245 Copynumber: 2.0 Consensus size: 244
50568438 GCTGAGGTAA
** * * *
50568448 TTTCAATTTTTGTTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCATG
1 TTTCAATTTTTG-TTTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG
*
50568513 CCGAGGTATTTTCAAATTCTACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
65 CCGAGGTAATTTCAAATTCTACTTTC--AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
* ** * *
50568578 TGGCTCACGTGTTGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATT
128 AGGCTCACCCGTAGAGTCACTTTCAATTTCTGTTTTTATGTATGTTTTCTAAATCAACTCATATT
** * * *
50568643 GCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTCTGTT
193 GCAAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTGCAATTTCTGTT
*
50568695 TTTCAATTTTTG-TTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTTTGTTTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
* * ** *
50568759 TGAGGTAATTTCAATTTCTGTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
66 CGAGGTAATTTCAAATTCTACTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-AG
* *
50568823 G-TCACACCG-AG-GT-ATTTTCCATTTCTGTTTTCGTCAT-TATGTTTT-TGAAAGAATCAACT
130 GCTCAC-CCGTAGAGTCACTTTCAATTTCTGTTTT--T-ATGTATGTTTTCT---A-AATCAACT
*
50568882 CATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTGCAATTTCTGTT
187 CATATTGCAAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTGCAATTTCTGTT
50568940 TT
1 TT
50568942 CAAAATCAAC
Statistics
Matches: 213, Mismatches: 25, Indels: 20
0.83 0.10 0.08
Matches are distributed among these distances:
240 16 0.08
241 3 0.01
242 48 0.23
243 5 0.02
244 1 0.00
245 128 0.60
247 12 0.06
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (244 bp):
TTTCAATTTTTGTTTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
CGAGGTAATTTCAAATTCTACTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTAGG
CTCACCCGTAGAGTCACTTTCAATTTCTGTTTTTATGTATGTTTTCTAAATCAACTCATATTGCA
AGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTGCAATTTCTGTT
Found at i:50569186 original size:549 final size:518
Alignment explanation
Indices: 50567997--50569287 Score: 1210
Period size: 549 Copynumber: 2.4 Consensus size: 518
50567987 TAAGCCTTTT
* * * * *
50567997 AATTTTTGTTTTTCAAAATCAACTCATATTGCAAGAGGA-GAGTTTAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAATCAACTCATATTGCGAGA-AATGAGTTGAGCCTCAGGACACGTTGAG
* *
50568061 GTAATTTCAATTTCTG-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
64 GTAATTTCAATTTCTGCTTTTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
** * **
50568125 ACACATTGAGGTATTTTCAATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTT
126 ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAGAAAATCAACTCATATTGCGAGAAATGAGTT
* *
50568190 GAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGA
191 GAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGCTTTTC-A-AAAATCAACTCATATTGCGA
**
50568255 GAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGCTTTTCAAGAAAATCAACT
254 GAGGTGAGTTGAGCCTCAAGACACACCGAGGTATTTTCAATTTCTGCTTTTCAAGAAAATCAACT
** *
50568320 CATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTCCTGTTCAATTTA
319 CATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGG----TTCAATT-CTG-TCAATTTA
* * *
50568385 TGTTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
378 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTAATT
** * * ** * **
50568450 TCAATTTTTGTTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCC
443 TCAATTTTTGTTTTTTTAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACACACC
*
50568515 GAGGTATTTTC
508 GAGGTAATTTC
* ** * * *
50568526 AAATTCTACTTTCAAAAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCT-TGGCTCACGTG
1 AATTTCTGTTTTC---AAAATCAACTCATATTGCGAGAA-ATGAGTTGAGCCTCAGG-ACAC--G
* * *
50568589 TTGA-GTCACTTTCAATTTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCAAGAGGTG
59 TTGAGGT-AATTTCAATTTC--------TG-C--TTTTCAAAATCAACTCATATTGCGAGAGGTG
*
50568653 AGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGTTTTTCAAAAT
112 AGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA-----G------AAAAT
* *
50568718 CAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTT
166 CAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGCTTT
* * *
50568782 TC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCCATT
231 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACCGAGGTATTTTCAATT
* *
50568846 TCTGTTTTCGTCATTATGTTTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
296 TCTGCTTT--TCA--A-------G-AA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
* *
50568911 GACACGCTGAGG-T-AA-T-TG-CAATTTCTG-TTTTC-AAAATCAACTCATATTGCGAGAGGTG
348 GACACACTGAGGTTCAATTCTGTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTG
* * * *
50568969 AGTTGAGCCTCAGGTCGCACCGAGGTATTTTCCATTTCTGTTTTCGTCATTATGTTTTTGAAAGA
413 AGTTGAGCCTCAGGACACACCGAGGTAATTT-CA---AT-TTTT-G----T-T-TTTTT-AAA-A
**
50569034 ATCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACACATTGAGGTAATTTC
464 ATCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACACACCGAGGTAATTTC
*
50569089 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGTTGAGG
* ** *
50569154 TATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACA
65 TAATTTCAATTTCTGCTTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * * * *
50569219 CGCTGAGGTAATTTCAATTTTTG-TTGTCAAAAAAATCAACTCATATTACGA-AAAGTGAGTTGA
129 CGCTGAGGTATTTTCAATTTCTGTTTTTCAAGAAAATCAACTCATATTGCGAGAAA-TGAGTTGA
50569282 GCCTCA
193 GCCTCA
50569288 GTTCACATGT
Statistics
Matches: 621, Mismatches: 76, Indels: 122
0.76 0.09 0.15
Matches are distributed among these distances:
528 4 0.01
529 5 0.01
530 3 0.00
531 32 0.05
532 2 0.00
533 15 0.02
536 3 0.00
537 33 0.05
541 2 0.00
542 67 0.11
545 4 0.01
547 1 0.00
548 14 0.02
549 170 0.27
550 8 0.01
551 13 0.02
552 5 0.01
553 64 0.10
554 4 0.01
555 2 0.00
556 2 0.00
557 1 0.00
559 17 0.03
560 8 0.01
561 38 0.06
562 50 0.08
563 54 0.09
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (518 bp):
AATTTCTGTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGTTGAGGT
AATTTCAATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCAATTTCTGTTTTTCAAGAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
TCAAGACACACTGAGGTAATTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
GTTGAGCCTCAAGACACACCGAGGTATTTTCAATTTCTGCTTTTCAAGAAAATCAACTCATATTG
CGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTTCAATTCTGTCAATTTATGTTTTTCAAAAA
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTAATTTCAATTTTTGTTT
TTTTAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACACACCGAGGTAATTTC
Found at i:50569206 original size:73 final size:72
Alignment explanation
Indices: 50569035--50569287 Score: 364
Period size: 73 Copynumber: 3.5 Consensus size: 72
50569025 TTTGAAAGAA
* * *
50569035 TCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
50569100 TCAAAAT
66 TCAAAAT
*
50569107 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
50569172 TTCAAAAT
65 TTCAAAAT
* * * * *
50569180 TCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTTTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
50569245 TCAAAAAAA
66 TC--AAAAT
*
50569254 TCAACTCATATTACGA-AAAGTGAGTTGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
50569288 GTTCACATGT
Statistics
Matches: 164, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
72 62 0.38
73 70 0.43
74 32 0.20
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAT
Found at i:50570340 original size:9 final size:9
Alignment explanation
Indices: 50570326--50570355 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
50570316 TATATAGTGC
50570326 AAAATATAA
1 AAAATATAA
50570335 AAAATAT-A
1 AAAATATAA
50570343 AAAATATAA
1 AAAATATAA
50570352 AAAA
1 AAAA
50570356 AAATTACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAATATAA
Found at i:50577731 original size:40 final size:40
Alignment explanation
Indices: 50577664--50577739 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
50577654 CGACTATGCT
*
50577664 TGGCACTAAGTGTGCAGTTTAATATAGCTTCGGCTACAAA
1 TGGCACTAAGTGTGCAGTTGAATATAGCTTCGGCTACAAA
*
50577704 TGGCACTAAGTGTGCGAGTTGGA-ATAGCTTCGGCTA
1 TGGCACTAAGTGTGC-AGTTGAATATAGCTTCGGCTA
50577740 TATACGATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 28 0.85
41 5 0.15
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (40 bp):
TGGCACTAAGTGTGCAGTTGAATATAGCTTCGGCTACAAA
Found at i:50583603 original size:7 final size:7
Alignment explanation
Indices: 50583591--50583639 Score: 53
Period size: 7 Copynumber: 6.6 Consensus size: 7
50583581 TAATGTTATT
50583591 TTTAAAA
1 TTTAAAA
50583598 TTTAAAA
1 TTTAAAA
*
50583605 TTTAAATTT
1 TTTAAA--A
50583614 TATTAAAA
1 T-TTAAAA
50583622 TTTAAAA
1 TTTAAAA
*
50583629 TTTAAAT
1 TTTAAAA
50583636 TTTA
1 TTTA
50583640 TTCTTTCTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 29 0.81
8 1 0.03
9 1 0.03
10 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (7 bp):
TTTAAAA
Found at i:50583621 original size:17 final size:17
Alignment explanation
Indices: 50583599--50583632 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50583589 TTTTTAAAAT
*
50583599 TTAAAATTTAAATTTTA
1 TTAAAATTTAAAATTTA
50583616 TTAAAATTTAAAATTTA
1 TTAAAATTTAAAATTTA
50583633 AATTTTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAATTTAAAATTTA
Found at i:50583624 original size:24 final size:24
Alignment explanation
Indices: 50583592--50583641 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
50583582 AATGTTATTT
50583592 TTAAAATTTAAAATTTAAATTTTA
1 TTAAAATTTAAAATTTAAATTTTA
50583616 TTAAAATTTAAAATTTAAATTTTA
1 TTAAAATTTAAAATTTAAATTTTA
50583640 TT
1 TT
50583642 CTTTCTCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TTAAAATTTAAAATTTAAATTTTA
Found at i:50584439 original size:6 final size:6
Alignment explanation
Indices: 50584428--50584463 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
50584418 CAAGTTGAAT
50584428 GGAGTA GGAGTA GGAGTA GGAGTA GGAGTA GGAGTA
1 GGAGTA GGAGTA GGAGTA GGAGTA GGAGTA GGAGTA
50584464 AAAAAACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.50, T:0.17
Consensus pattern (6 bp):
GGAGTA
Found at i:50586255 original size:64 final size:64
Alignment explanation
Indices: 50586177--50586304 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
50586167 CGTTAAAGCG
50586177 CATTATTTTCCTATTTAAGAGTTGATGAAGACCTATGAGTAAATTTAAACGACAGAATATTCAA
1 CATTATTTTCCTATTTAAGAGTTGATGAAGACCTATGAGTAAATTTAAACGACAGAATATTCAA
* * *
50586241 CATTATTTTTCTATTTAAGAGTTGATGAAGACCTATGAGTAAATTTAAACGATAGGATATTCAA
1 CATTATTTTCCTATTTAAGAGTTGATGAAGACCTATGAGTAAATTTAAACGACAGAATATTCAA
50586305 TAATGAGGTA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (64 bp):
CATTATTTTCCTATTTAAGAGTTGATGAAGACCTATGAGTAAATTTAAACGACAGAATATTCAA
Found at i:50589840 original size:126 final size:128
Alignment explanation
Indices: 50589593--50589904 Score: 409
Period size: 126 Copynumber: 2.5 Consensus size: 128
50589583 GCCAAACAGT
* * * * * *
50589593 AAATCGAAACCCAACACGATTGCGCACGATTTATCGAACT-TCTAAATACTG-AATATTGCCTCA
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCTCCAAATAC-GAAATATTGCCTCA
* *
50589656 TTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGAATATTCCGCATTTTAATCGAATG-AA
65 TTTTAATTTAAGAAAACATAGACGAAATTTCAAAAGGAATATTCCGCATTTTAATCGAATGAAA
* *
50589719 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCTCCAAATTCGAAATATTGCCTCGT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCTCCAAATACGAAATATTGCCTCAT
* ** * *
50589784 TTTAATTTAAGAAAGCATAGACGAAATTTCAAAAGG-ATATTTTGTATTTTAGTCGAATGCAAAA
66 TTTAATTTAAGAAAACATAGACGAAATTTCAAAAGGAATATTCCGCATTTTAATCGAATG--AAA
* *
50589848 AAATCGAAACCCAGCACGATTGGGCATGATCTCTCAAACTC-CCAAACACGAAATATT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCTCCAAATACGAAATATT
50589905 TCCTTATGTT
Statistics
Matches: 163, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
126 55 0.34
127 52 0.32
128 14 0.09
129 42 0.26
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.27
Consensus pattern (128 bp):
AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCTCCAAATACGAAATATTGCCTCAT
TTTAATTTAAGAAAACATAGACGAAATTTCAAAAGGAATATTCCGCATTTTAATCGAATGAAA
Found at i:50592018 original size:40 final size:38
Alignment explanation
Indices: 50591974--50592203 Score: 95
Period size: 40 Copynumber: 5.6 Consensus size: 38
50591964 CGTCTTCGAT
*
50591974 CTGTTCCACTACTGTTTAGGGGAGATATGTATTTTCCAGC
1 CTGTTCC-CTACTGCTTAGGGGAGATATGTATTTTCCA-C
* * ** *
50592014 CTGTTACCCTACTGCTTAGGGG-GTTAAGGCTTGATGTCTTTGAT
1 CTGTT-CCCTACTGCTTAGGGGAGAT-ATG--T-AT-T-TTCCAC
* * *
50592058 CTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCATC
1 CTGTTCC-CTACTGCTTAGGGGAGATATGTATTTTCCA-C
* * * * * *
50592098 CTGCTACCCTACTGCTTAGGGG-GTTAAGGCTTGCTGTATTCGAT
1 CTG-TTCCCTACTGCTTAGGGGAGAT-A----TG-TATTTTCCAC
** *
50592142 CTGTTCCACTACTATTTAGGGGAGATCTGTATTTTCCAGC
1 CTGTTCC-CTACTGCTTAGGGGAGATATGTATTTTCCA-C
50592182 CTGTTACCCTACTGCTTAGGGG
1 CTGTT-CCCTACTGCTTAGGGG
50592204 GTTAAGGCTT
Statistics
Matches: 135, Mismatches: 34, Indels: 42
0.64 0.16 0.20
Matches are distributed among these distances:
39 13 0.10
40 56 0.41
41 8 0.06
42 2 0.01
43 7 0.05
44 36 0.27
45 13 0.10
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (38 bp):
CTGTTCCCTACTGCTTAGGGGAGATATGTATTTTCCAC
Found at i:50592060 original size:84 final size:84
Alignment explanation
Indices: 50591965--50592298 Score: 560
Period size: 84 Copynumber: 4.0 Consensus size: 84
50591955 ATAGGAACCC
* *
50591965 GTCTTCGATCTGTTCCACTACTGTTTAGGGGAGATATGTATTTTCCAGCCTGTTACCCTACTGCT
1 GTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCT
*
50592030 TAGGGGGTTAAGGCTTGAT
66 TAGGGGGTTAAGGCTTGCT
* * *
50592049 GTCTTTGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCATCCTGCTACCCTACTGCT
1 GTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCT
50592114 TAGGGGGTTAAGGCTTGCT
66 TAGGGGGTTAAGGCTTGCT
* * *
50592133 GTATTCGATCTGTTCCACTACTATTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCT
1 GTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCT
50592198 TAGGGGGTTAAGGCTTGCT
66 TAGGGGGTTAAGGCTTGCT
* *
50592217 GTCTTCGATTTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTATTACCCTACTGCT
1 GTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCT
*
50592282 TGGGGGGTTAAGGCTTG
66 TAGGGGGTTAAGGCTTG
50592299 TGAATTCACC
Statistics
Matches: 232, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 232 1.00
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (84 bp):
GTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCT
TAGGGGGTTAAGGCTTGCT
Found at i:50592469 original size:64 final size:64
Alignment explanation
Indices: 50592366--50592493 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
50592356 TGCTGTATCT
* *
50592366 ATGCTTATGCCAAATAACTAGGATGCTATAATCGCAATGAATCAAATGCTCCTAACTAGATGTA
1 ATGCTTATGCCAAATAACTAGGATGCTATAATCGAAATGAATCAAATGCCCCTAACTAGATGTA
* * *
50592430 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCCCCTAACTAGATGTA
1 ATGCTTATGCCAAATAACTAGGATGCTATAATCGAAATGAATCAAATGCCCCTAACTAGATGTA
50592494 TCATGAATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (64 bp):
ATGCTTATGCCAAATAACTAGGATGCTATAATCGAAATGAATCAAATGCCCCTAACTAGATGTA
Found at i:50602395 original size:126 final size:126
Alignment explanation
Indices: 50602249--50602601 Score: 302
Period size: 126 Copynumber: 2.8 Consensus size: 126
50602239 TTCATGCATT
* ** **
50602249 TGAAATTTCAAAAAGGATATTTGGCTA-TTTGGCCAAACGGTAAATCGAAACCCAGCACGATTGC
1 TGAAATTTC-AAAAGGATATTTCGC-ACTTTAACCAAACGAAAAATCGAAACCCAGCACGATTGC
* * * *
50602313 GCACGATTTATCGAACT-TCCAAATACTG-AATATTGCCTCATTTTAATTTAGGAAAACAT-GAA
64 GCACGATCTATCAAACTCCCCAAATAC-GAAATATTGCCTCATTTTAATTTAAGAAAACATAG-A
* * * * *
50602375 TGAAATTTCAAAAGGAATATTCCGCACTTTAATCGAATGAAAAATCGAAACCCAGCACGATTGGG
1 TGAAATTTCAAAAGG-ATATTTCGCACTTTAACCAAACGAAAAATCGAAACCCAGCACGATTGCG
* * * ** *
50602440 CATGATCTCTCAAACTCCCCAAATTCGAAATATTGCCTTGTTTTAATTTAAGAAAGCATAGA
65 CACGATCTATCAAACTCCCCAAATACGAAATATTGCCTCATTTTAATTTAAGAAAACATAGA
* * * * * * * *
50602502 CGAAATTTCAAAAGGATATTTTGTATTTTAGTCGAATGCAAAAAAATCGAAACCCAGCACGATTG
1 TGAAATTTCAAAAGGATATTTCGCACTTTA-ACCAA-AC-GAAAAATCGAAACCCAGCACGATTG
* * * * *
50602567 GGCATGATCTCTCAAACT-CCCAAACATGAAATATT
63 CGCACGATCTATCAAACTCCCCAAATACGAAATATT
50602602 TCCTTATGTT
Statistics
Matches: 184, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
125 7 0.04
126 70 0.38
127 50 0.27
128 15 0.08
129 42 0.23
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (126 bp):
TGAAATTTCAAAAGGATATTTCGCACTTTAACCAAACGAAAAATCGAAACCCAGCACGATTGCGC
ACGATCTATCAAACTCCCCAAATACGAAATATTGCCTCATTTTAATTTAAGAAAACATAGA
Found at i:50602513 original size:127 final size:127
Alignment explanation
Indices: 50602290--50602587 Score: 370
Period size: 126 Copynumber: 2.3 Consensus size: 127
50602280 GCCAAACGGT
* * * * * *
50602290 AAATCGAAACCCAGCACGATTGCGCACGATTTATCGAACT-TCCAAATACTGAATATTGCCTCAT
1 AAATCGAAACCCAGCACGATTGGGCATGATCTCTCAAACTCCCCAAATACTGAATATTGCCTCAT
* *
50602354 TTTAATTTAGGAAAACATGAATGAAATTTCAAAAGGAATATTCCGCACTTTAATCGAATG-AA
66 TTTAATTTAAGAAAACATGAACGAAATTTCAAAAGG-ATATTCCGCACTTTAATCGAATGAAA
* **
50602416 AAATCGAAACCCAGCACGATTGGGCATGATCTCTCAAACTCCCCAAATTC-GAAATATTGCCTTG
1 AAATCGAAACCCAGCACGATTGGGCATGATCTCTCAAACTCCCCAAATACTG-AATATTGCCTCA
* ** * * *
50602480 TTTTAATTTAAGAAAGCAT-AGACGAAATTTCAAAAGGATATTTTGTATTTTAGTCGAATGCAAA
65 TTTTAATTTAAGAAAACATGA-ACGAAATTTCAAAAGGATATTCCGCACTTTAATCGAATG--AA
50602544 A
127 A
50602545 AAATCGAAACCCAGCACGATTGGGCATGATCTCTCAAACTCCC
1 AAATCGAAACCCAGCACGATTGGGCATGATCTCTCAAACTCCC
50602588 AAACATGAAA
Statistics
Matches: 149, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
126 55 0.37
127 49 0.33
129 45 0.30
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.27
Consensus pattern (127 bp):
AAATCGAAACCCAGCACGATTGGGCATGATCTCTCAAACTCCCCAAATACTGAATATTGCCTCAT
TTTAATTTAAGAAAACATGAACGAAATTTCAAAAGGATATTCCGCACTTTAATCGAATGAAA
Found at i:50608350 original size:10 final size:11
Alignment explanation
Indices: 50608331--50608361 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
50608321 TTTGCCTGAG
50608331 ATGTGAATTGA
1 ATGTGAATTGA
50608342 ATG-GAATTGA
1 ATGTGAATTGA
50608352 ATGTGAATTG
1 ATGTGAATTG
50608362 TATTAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (11 bp):
ATGTGAATTGA
Found at i:50608370 original size:21 final size:21
Alignment explanation
Indices: 50608331--50608372 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50608321 TTTGCCTGAG
*
50608331 ATGTGAATTGAATGGAATTGA
1 ATGTGAATTGAATGAAATTGA
* *
50608352 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGAATGAAATTGA
50608373 GTAAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (21 bp):
ATGTGAATTGAATGAAATTGA
Found at i:50608765 original size:24 final size:25
Alignment explanation
Indices: 50608713--50608759 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
50608703 TAACCCTCTT
* *
50608713 GAGCTTCCCATTATATGGTTCTTGC
1 GAGCTTCCCATTATATAGCTCTTGC
50608738 GAGCTTCCCATTA-ATAGCTCTT
1 GAGCTTCCCATTATATAGCTCTT
50608760 CGGAGCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (25 bp):
GAGCTTCCCATTATATAGCTCTTGC
Found at i:50610575 original size:39 final size:39
Alignment explanation
Indices: 50610484--50610606 Score: 124
Period size: 39 Copynumber: 3.2 Consensus size: 39
50610474 GAATTTAAAC
* * * * *
50610484 CCGG-TATAATACCAGCTCGAAGCCTGCGAGA-CTTTAGC
1 CCGGATATAATTCCAGCACGTAGCCTGC-AGACCTTAAGT
* *
50610522 CCGGACATATTTCCAGCACGTAGCCTGCAGACCTTAAGT
1 CCGGATATAATTCCAGCACGTAGCCTGCAGACCTTAAGT
* * * *
50610561 CGGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACGTAGCCTGCAGACCTTAAGT
50610600 CCGGATA
1 CCGGATA
50610607 CACATCAAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
38 7 0.10
39 62 0.90
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACGTAGCCTGCAGACCTTAAGT
Found at i:50616418 original size:39 final size:39
Alignment explanation
Indices: 50616369--50616508 Score: 124
Period size: 39 Copynumber: 3.6 Consensus size: 39
50616359 TAAACCCAGT
* *
50616369 ATAATACCAGCTCGAAGCCTGCGAGACTTT-AGCCCGGAC
1 ATAATTCCAGCACGAAGCCTGCG-GACTTTAAGCCCGGAC
* * *
50616408 ATATTTCCAGCACGTAGCCTGCGGACTTTAAGCCCGGAT
1 ATAATTCCAGCACGAAGCCTGCGGACTTTAAGCCCGGAC
* ** * * *
50616447 ATAATTCCAGCAC-ATAGCCTGTGGACCCTAAGTCTGGAT
1 ATAATTCCAGCACGA-AGCCTGCGGACTTTAAGCCCGGAC
*
50616486 ATAATTCTAGCAC-ATAGCCTGCG
1 ATAATTCCAGCACGA-AGCCTGCG
50616509 AACCCTAAGT
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
38 6 0.07
39 79 0.93
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
ATAATTCCAGCACGAAGCCTGCGGACTTTAAGCCCGGAC
Found at i:50616514 original size:39 final size:39
Alignment explanation
Indices: 50616402--50616525 Score: 149
Period size: 39 Copynumber: 3.2 Consensus size: 39
50616392 AGACTTTAGC
* * * ** *
50616402 CCGGACATATTTCCAGCACGTAGCCTGCGGACTTTAAGC
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
50616441 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* * *
50616480 CTGGATATAATTCTAGCACATAGCCTGCGAACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
50616519 CCAGATA
1 CCGGATA
50616526 CACATCAAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:50619655 original size:23 final size:23
Alignment explanation
Indices: 50619570--50619656 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
50619560 CCTGATCAGT
*
50619570 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
50619592 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
*
50619612 ATACGACACACAAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
* *
50619635 ATACGACACATAAAGTTCCTGA
1 ATACGACACACAAAGTGCCTGA
50619657 TCGATAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.61
22 1 0.02
23 19 0.35
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:50620052 original size:15 final size:15
Alignment explanation
Indices: 50620027--50620084 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
50620017 TCATATATAT
50620027 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
50620043 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
50620058 AATAATTTCAATCAA
1 TATAAATTCAATCAA
50620073 TATAAATTCAAT
1 TATAAATTCAAT
50620085 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:50621353 original size:5 final size:5
Alignment explanation
Indices: 50621340--50621376 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
50621330 TTCTTTAGTT
50621340 TATATA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA T
50621377 TAAAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:50627513 original size:33 final size:33
Alignment explanation
Indices: 50627473--50627562 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 33
50627463 GAGGTGTACA
50627473 TTCCTTTTCAAGTGGTACACACAAAGTATACCT
1 TTCCTTTTCAAGTGGTACACACAAAGTATACCT
*
50627506 TTCCTTTTCATA-TGGTATACACAAAGTATACCT
1 TTCCTTTTCA-AGTGGTACACACAAAGTATACCT
** *
50627539 AACCTTTCCAAGT-GTACACACAAA
1 TTCCTTTTCAAGTGGTACACACAAA
50627563 TTGTACATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
32 11 0.22
33 38 0.76
34 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.32
Consensus pattern (33 bp):
TTCCTTTTCAAGTGGTACACACAAAGTATACCT
Found at i:50627574 original size:32 final size:33
Alignment explanation
Indices: 50627475--50627588 Score: 97
Period size: 33 Copynumber: 3.5 Consensus size: 33
50627465 GGTGTACATT
* * * **
50627475 CCTTTTCAAGTGGTACACACAAAGTATACCTTT
1 CCTTTCCAAGTTGTACACACAAAGTATACATAA
* * * *
50627508 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTCCA-AGTTGTACACACAAAGTATACATAA
* *
50627541 CCTTTCCAAG-TGTACACACAAATTGTACATAA
1 CCTTTCCAAGTTGTACACACAAAGTATACATAA
*
50627573 CCTTTTCAAGTTGTAC
1 CCTTTCCAAGTTGTAC
50627589 CACTGGGTAC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
32 27 0.40
33 40 0.59
34 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (33 bp):
CCTTTCCAAGTTGTACACACAAAGTATACATAA
Found at i:50629832 original size:16 final size:17
Alignment explanation
Indices: 50629811--50629842 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
50629801 ATATTTAGTC
50629811 ATATAATAAAT-TATTA
1 ATATAATAAATATATTA
50629827 ATATAATAAATATATT
1 ATATAATAAATATATT
50629843 TTATTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATAAATATATTA
Found at i:50629847 original size:22 final size:21
Alignment explanation
Indices: 50629821--50629864 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
50629811 ATATAATAAA
50629821 TTATTAATATAATAAATATATT
1 TTATTAATATAATAAAT-TATT
* *
50629843 TTATTATTTTAATAAATTATT
1 TTATTAATATAATAAATTATT
50629864 T
1 T
50629865 AATATTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTATTAATATAATAAATTATT
Found at i:50629895 original size:13 final size:14
Alignment explanation
Indices: 50629879--50629920 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
50629869 TTTCAATTTT
50629879 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
50629892 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
50629907 ATTTTAAATAATAT
1 ATTTT-AATAATAT
50629921 TATTCAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:50629905 original size:16 final size:16
Alignment explanation
Indices: 50629883--50629919 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
50629873 AATTTTATTT
50629883 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
50629900 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
50629915 TAATA
1 TAATA
50629920 TTATTCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:50629972 original size:15 final size:15
Alignment explanation
Indices: 50629952--50630008 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
50629942 ATTCAATATT
50629952 AATATTTTAATAATA
1 AATATTTTAATAATA
*
50629967 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
50629986 AATATATTAATAATA
1 AATATTTTAATAATA
50630001 AATATTTT
1 AATATTTT
50630009 TAGTATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 18 0.53
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:50633564 original size:50 final size:50
Alignment explanation
Indices: 50633489--50633588 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
50633479 GTCAACATTG
50633489 GTGCATGGGCAAAATCAATGAATTCCAAGCAACAGGGGTCATTAGTTTAA
1 GTGCATGGGCAAAATCAATGAATTCCAAGCAACAGGGGTCATTAGTTTAA
50633539 GTGCATGGGCAAAATCAATGAATTCCAAGCAACAGGGGTCATTAGTTTAA
1 GTGCATGGGCAAAATCAATGAATTCCAAGCAACAGGGGTCATTAGTTTAA
50633589 CTTTAAATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (50 bp):
GTGCATGGGCAAAATCAATGAATTCCAAGCAACAGGGGTCATTAGTTTAA
Found at i:50635569 original size:23 final size:22
Alignment explanation
Indices: 50635538--50635580 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
50635528 AGAAGAAAGG
*
50635538 AAAACAAAGGGAGAAAAAAATGA
1 AAAACAAA-GGAAAAAAAAATGA
*
50635561 AAAATAAAGGAAAAAAAAAT
1 AAAACAAAGGAAAAAAAAAT
50635581 ATGTGGATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.07
Consensus pattern (22 bp):
AAAACAAAGGAAAAAAAAATGA
Found at i:50636131 original size:14 final size:14
Alignment explanation
Indices: 50636112--50636140 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
50636102 GATTTAGTCA
50636112 TAATTTTTAAAAAT
1 TAATTTTTAAAAAT
50636126 TAATTTTTAAAAAT
1 TAATTTTTAAAAAT
50636140 T
1 T
50636141 TTTAAATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTTTTAAAAAT
Found at i:50636227 original size:6 final size:6
Alignment explanation
Indices: 50636216--50636240 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50636206 AAATAATTTT
50636216 ATATTA ATATTA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA A
50636241 ATAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:50640961 original size:33 final size:34
Alignment explanation
Indices: 50640894--50640964 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
50640884 TAAAAAAATT
* *
50640894 ATTTTTGTTAAATTAAATTTTGAATTGGGTTTTA
1 ATTTTTGTCAAATTAAATTTGGAATTGGGTTTTA
*
50640928 ATTTTTG-CAAATTATATTTGGATATTGGG-TTTA
1 ATTTTTGTCAAATTAAATTTGGA-ATTGGGTTTTA
50640961 ATTT
1 ATTT
50640965 GTATTTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 20 0.61
34 13 0.39
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.55
Consensus pattern (34 bp):
ATTTTTGTCAAATTAAATTTGGAATTGGGTTTTA
Found at i:50642419 original size:6 final size:6
Alignment explanation
Indices: 50642410--50642440 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
50642400 TCTACTCTCG
*
50642410 TCTGCC TCTGCC TCTGCC TCTGCC TTTGCC T
1 TCTGCC TCTGCC TCTGCC TCTGCC TCTGCC T
50642441 GCTCTGGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.45, G:0.16, T:0.39
Consensus pattern (6 bp):
TCTGCC
Found at i:50647689 original size:22 final size:23
Alignment explanation
Indices: 50647664--50647709 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
50647654 CAACCAAATC
*
50647664 AATTCA-ACATATTTTTAAGATA
1 AATTCATACATATTTATAAGATA
*
50647686 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
50647709 A
1 A
50647710 CGTCATCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:50647715 original size:23 final size:23
Alignment explanation
Indices: 50647671--50647715 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
50647661 ATCAATTCAA
* *
50647671 CATATTTTTAAGATAAATTCATG
1 CATATTTATAAGATAAAGTCATG
*
50647694 CATATTTATAAGATAACGTCAT
1 CATATTTATAAGATAAAGTCAT
50647716 CACATATCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
CATATTTATAAGATAAAGTCATG
Found at i:50647841 original size:12 final size:12
Alignment explanation
Indices: 50647824--50647849 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50647814 AAAACAGGGC
50647824 TTTAGCGGCGTT
1 TTTAGCGGCGTT
50647836 TTTAGCGGCGTT
1 TTTAGCGGCGTT
50647848 TT
1 TT
50647850 ATAAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:50647977 original size:41 final size:41
Alignment explanation
Indices: 50647881--50648245 Score: 525
Period size: 41 Copynumber: 8.9 Consensus size: 41
50647871 TATAAAACAT
* * *
50647881 AGAGCAATAGCGACGTTTTTGGTAAAACACCGCTAAAAA-C
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
**
50647921 AGAGCAATAATGGCGCTTTTGGTAAAACGCCGCTAAAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
*
50647962 AGAGCAATAGCGGCGCTTTTGGTAAAACGTCGCTAAAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
*
50648003 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCACTAAAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* *
50648044 AAAGCAATAGCGGCGCTTTTGGTAAAACACCGCTAAAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* * * *
50648085 AGAACATTAGCGGCACTTTTGGTAAAACGCCGCTAGAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* * * *
50648126 AGAGTATTAGCGGCGCTTTTGGTAAAACGCAGTTAAAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* * *
50648167 AGAGCATTAGCGGCGCTTTTGGTAAAACACCGCTAAAAACT
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* *
50648208 GGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
50648246 GTCATATAAC
Statistics
Matches: 292, Mismatches: 32, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
40 34 0.12
41 258 0.88
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (41 bp):
AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
Found at i:50648333 original size:23 final size:22
Alignment explanation
Indices: 50648286--50648333 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
50648276 AAAAAATCAT
* *
50648286 AAACACTAATCTATAATCCTTA
1 AAACACTAAACTATAAACCTTA
*
50648308 AAACACTAAACTCCTAAACCTTA
1 AAACACTAAACT-ATAAACCTTA
50648331 AAA
1 AAA
50648334 AATCTTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (22 bp):
AAACACTAAACTATAAACCTTA
Found at i:50648552 original size:22 final size:22
Alignment explanation
Indices: 50648527--50648569 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
50648517 GAGTTATTAT
50648527 TTTAAGGTTTATGGA-TTATGGG
1 TTTAAGGTTTAT-GATTTATGGG
*
50648549 TTTAGGGTTTATGATTTATGG
1 TTTAAGGTTTATGATTTATGG
50648570 TTATGTAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (22 bp):
TTTAAGGTTTATGATTTATGGG
Found at i:50648974 original size:15 final size:14
Alignment explanation
Indices: 50648948--50649004 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 14
50648938 AATTCTTCAA
50648948 AAAAATTGAAAAATT
1 AAAAATT-AAAAATT
50648963 GAAAAATTAAAAATT
1 -AAAAATTAAAAATT
50648978 AAAAATTAAAAACTT
1 AAAAATTAAAAA-TT
50648993 AAAAACTTAAAA
1 AAAAA-TTAAAA
50649005 TTTTAATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
14 12 0.31
15 14 0.36
16 13 0.33
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (14 bp):
AAAAATTAAAAATT
Found at i:50648981 original size:6 final size:7
Alignment explanation
Indices: 50648948--50649004 Score: 78
Period size: 8 Copynumber: 7.6 Consensus size: 7
50648938 AATTCTTCAA
50648948 AAAAATT
1 AAAAATT
50648955 GAAAAATT
1 -AAAAATT
50648963 GAAAAATT
1 -AAAAATT
50648971 AAAAATT
1 AAAAATT
50648978 AAAAATT
1 AAAAATT
50648985 AAAAACTT
1 AAAAA-TT
50648993 AAAAACTT
1 AAAAA-TT
50649001 AAAA
1 AAAA
50649005 TTTTAATATT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.40
8 29 0.60
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:50649006 original size:22 final size:22
Alignment explanation
Indices: 50648949--50648997 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
50648939 ATTCTTCAAA
50648949 AAAATTGAAAAATTGAAAAATTA
1 AAAATTGAAAAATT-AAAAATTA
50648972 AAAATT-AAAAATTAAAAACTTA
1 AAAATTGAAAAATTAAAAA-TTA
50648994 AAAA
1 AAAA
50648998 CTTAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 5 0.20
22 14 0.56
23 6 0.24
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (22 bp):
AAAATTGAAAAATTAAAAATTA
Found at i:50651708 original size:17 final size:18
Alignment explanation
Indices: 50651686--50651723 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
50651676 CTTGATCCTC
50651686 TGTTAAATGTAATTAA-A
1 TGTTAAATGTAATTAATA
50651703 TGTTAAATGTAATTAATA
1 TGTTAAATGTAATTAATA
50651721 TGT
1 TGT
50651724 ATTACAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (18 bp):
TGTTAAATGTAATTAATA
Found at i:50651734 original size:16 final size:15
Alignment explanation
Indices: 50651713--50651742 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
50651703 TGTTAAATGT
50651713 AATTAATATGTATTAC
1 AATTAATATG-ATTAC
50651729 AATTAATATGATTA
1 AATTAATATGATTA
50651743 ACTTAATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (15 bp):
AATTAATATGATTAC
Found at i:50659646 original size:36 final size:36
Alignment explanation
Indices: 50659597--50659665 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
50659587 AAAATTATTA
50659597 TACTAAAAAATCACACTAAGTTCAATTCCCAGGTTC
1 TACTAAAAAATCACACTAAGTTCAATTCCCAGGTTC
* *
50659633 TACTAAAACATCACACTATGTTCAATTCCCAGG
1 TACTAAAAAATCACACTAAGTTCAATTCCCAGG
50659666 AAAGAGTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.38, C:0.26, G:0.09, T:0.28
Consensus pattern (36 bp):
TACTAAAAAATCACACTAAGTTCAATTCCCAGGTTC
Found at i:50673218 original size:30 final size:30
Alignment explanation
Indices: 50673174--50673230 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
50673164 ACGGCCATGA
* * *
50673174 CACACGGGCGTGTGGTCTGCCCGTGTGCCT
1 CACACGAGCATGTGGTCTACCCGTGTGCCT
*
50673204 CACACGAGCATGTGGTTTACCCGTGTG
1 CACACGAGCATGTGGTCTACCCGTGTG
50673231 GAAGTGCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.12, C:0.30, G:0.33, T:0.25
Consensus pattern (30 bp):
CACACGAGCATGTGGTCTACCCGTGTGCCT
Found at i:50676507 original size:21 final size:21
Alignment explanation
Indices: 50676464--50676507 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
50676454 ATGGAAAAGA
* *
50676464 AAACTAACAAAATATGAATCT
1 AAACTAACAAAATATAAAACT
**
50676485 AAACTAACAGTATATAAAACT
1 AAACTAACAAAATATAAAACT
50676506 AA
1 AA
50676508 TTAGCAACAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.23
Consensus pattern (21 bp):
AAACTAACAAAATATAAAACT
Found at i:50700091 original size:64 final size:64
Alignment explanation
Indices: 50699977--50700102 Score: 157
Period size: 64 Copynumber: 2.0 Consensus size: 64
50699967 TCGTAGTCCA
* * *
50699977 CTGCACAAGGGAGAACTAAAATGGTGAGCAGTTTCATTAATGGCGAGGAGAAAACCATAGTCTG
1 CTGCACAAGGGAGAACTAAAATGGCGAGCAGCTTCATTAATGGAGAGGAGAAAACCATAGTCTG
* * * *
50700041 CTGCACAAGGGAGATCTAAAATGGCGAGTCA-CTTCATTGATAGTAG-GGAGATAACCATAGTC
1 CTGCACAAGGGAGAACTAAAATGGCGAG-CAGCTTCATTAAT-GGAGAGGAGAAAACCATAGTC
50700103 CACTACATAG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
64 49 0.92
65 4 0.08
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (64 bp):
CTGCACAAGGGAGAACTAAAATGGCGAGCAGCTTCATTAATGGAGAGGAGAAAACCATAGTCTG
Found at i:50704180 original size:3 final size:3
Alignment explanation
Indices: 50704172--50704200 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
50704162 AAGCAGTTGA
50704172 GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
50704201 AAGAGAGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:50729071 original size:39 final size:39
Alignment explanation
Indices: 50729017--50729239 Score: 324
Period size: 39 Copynumber: 5.7 Consensus size: 39
50729007 TAATGGAGAA
*
50729017 TTATATTCGGGCTAAGTCCC-AATGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAA-GGCATTCGTGCTGGTG
* *
50729056 TTATATCTGGGCTAAGTCCCGAAAGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
50729095 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
50729134 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
50729173 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
50729212 TTATATCCGGGCTTAAAGTCCCGCAGGC
1 TTATATCCGGGC-T-AAGTCCCGAAGGC
50729240 TTTGTGGTGG
Statistics
Matches: 171, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 142 0.83
40 29 0.17
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:50732936 original size:16 final size:18
Alignment explanation
Indices: 50732915--50732951 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
50732905 TGAGGGAAAG
*
50732915 AAAGAAGGA-AAAAG-GA
1 AAAGAAAGAGAAAAGAGA
50732931 AAAGAAAGAGAAAAGAGA
1 AAAGAAAGAGAAAAGAGA
50732949 AAA
1 AAA
50732952 TTAGCGCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 5 0.28
18 5 0.28
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAGAAAAGAGA
Found at i:50735142 original size:21 final size:21
Alignment explanation
Indices: 50735118--50735162 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
50735108 AAATGTTAGT
50735118 GTATAAGTCCGATAATACCTC
1 GTATAAGTCCGATAATACCTC
* *
50735139 GTATAAGTCTGGTAATACCTC
1 GTATAAGTCCGATAATACCTC
50735160 GTA
1 GTA
50735163 ACCCTATTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (21 bp):
GTATAAGTCCGATAATACCTC
Found at i:50746870 original size:20 final size:18
Alignment explanation
Indices: 50746845--50746881 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
50746835 ATTACTAAGT
50746845 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
50746865 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
50746882 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:50748779 original size:43 final size:43
Alignment explanation
Indices: 50748715--50748909 Score: 284
Period size: 43 Copynumber: 4.5 Consensus size: 43
50748705 AAGTTTAGTT
* *
50748715 TAATGTAA-TGGCACTAAGTGTGTGATATAATTATAGCTTCGGC
1 TAAT-TAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
50748758 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* *
50748801 TAATTAACTGGCACTAAGTGTGCGATACAATTATAGCTTCGGT
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* * * *
50748844 TAATTAATTGGCACTAAGTGTGCGAAACCATTATAACTTCGGT
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
**
50748887 TAATTAATTATCACTAAGTGTGC
1 TAATTAATTGGCACTAAGTGTGC
50748910 AAGTTTGTTG
Statistics
Matches: 141, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
42 3 0.02
43 138 0.98
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (43 bp):
TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
Found at i:50749141 original size:45 final size:45
Alignment explanation
Indices: 50749077--50749199 Score: 148
Period size: 45 Copynumber: 2.8 Consensus size: 45
50749067 GGGGAAATAT
* *
50749077 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGTCGGTGAGAT-A
1 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
*
50749121 CTATTCGGGCTTTCAAGCCTAGCAGGCTATAATGCCGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
* *
50749167 TA-TCGGGC-CTCGAGCCTAGCAGGCGA-AATGCCG
1 TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCG
50749200 ATGATTTGAG
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
42 7 0.10
43 15 0.21
44 10 0.14
45 37 0.53
46 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
Found at i:50757442 original size:14 final size:14
Alignment explanation
Indices: 50757423--50757453 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
50757413 ACAATATTAT
50757423 TATTCTAGATTAGA
1 TATTCTAGATTAGA
50757437 TATTCTAGATTAGA
1 TATTCTAGATTAGA
50757451 TAT
1 TAT
50757454 CCTTTTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (14 bp):
TATTCTAGATTAGA
Found at i:50758736 original size:30 final size:30
Alignment explanation
Indices: 50758702--50758760 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
50758692 TCCGAGCCTT
50758702 GGGGC-AAAAGTATAAATATGTAAAAGTTTA
1 GGGGCTAAAA-TATAAATATGTAAAAGTTTA
* *
50758732 GGGGCTAAAATATAATTTTGTAAAAGTTT
1 GGGGCTAAAATATAAATATGTAAAAGTTT
50758761 GAGTCAAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.32
Consensus pattern (30 bp):
GGGGCTAAAATATAAATATGTAAAAGTTTA
Found at i:50774503 original size:91 final size:91
Alignment explanation
Indices: 50774348--50774517 Score: 277
Period size: 91 Copynumber: 1.9 Consensus size: 91
50774338 GTCGATCTAA
* * *
50774348 TCTAATCTTTAAGATAAATTGTTTAAAATGAATTGATATTGACTTTTATACTTGCACAATATTAG
1 TCTAATCTTCAAGACAAATTGTTTAAAATGAATTGATATTGACTTTTATACTTGCACAACATTAG
50774413 CATCCTTCAAAACTCAAAGATTTTGT
66 CATCCTTCAAAACTCAAAGATTTTGT
* * * *
50774439 TCTAATCTTCAAGACAAATTGTTTCAAATGAATTGATATTGGCTTTTATACTTTCATAACATTAG
1 TCTAATCTTCAAGACAAATTGTTTAAAATGAATTGATATTGACTTTTATACTTGCACAACATTAG
50774504 CATCCTTCAAAACT
66 CATCCTTCAAAACT
50774518 TAACAAGTTA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.40
Consensus pattern (91 bp):
TCTAATCTTCAAGACAAATTGTTTAAAATGAATTGATATTGACTTTTATACTTGCACAACATTAG
CATCCTTCAAAACTCAAAGATTTTGT
Found at i:50775672 original size:2 final size:2
Alignment explanation
Indices: 50775665--50775742 Score: 52
Period size: 2 Copynumber: 43.5 Consensus size: 2
50775655 ATTCTAGTTA
*
50775665 AT AT AT AT AT -T AT AT AT AT GT A- AGT A- AT GAT -T AT -T AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT -AT AT AT AT AT AT
50775703 AT -T AT AT -T AT AT -T AT AT -T AT AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50775740 AT A
1 AT A
50775743 ACAAAAGAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 26
0.69 0.02 0.29
Matches are distributed among these distances:
1 11 0.18
2 47 0.77
3 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (2 bp):
AT
Found at i:50775712 original size:5 final size:5
Alignment explanation
Indices: 50775696--50775741 Score: 65
Period size: 5 Copynumber: 8.6 Consensus size: 5
50775686 AAGTAATGAT
50775696 TATTA TTATTA TATTA TATTA TATTA TATTA TATATA TATATA TAT
1 TATTA -TATTA TATTA TATTA TATTA TATTA TAT-TA TAT-TA TAT
50775742 AACAAAAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 23 0.59
6 16 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:50775742 original size:10 final size:10
Alignment explanation
Indices: 50775665--50775742 Score: 52
Period size: 9 Copynumber: 8.7 Consensus size: 10
50775655 ATTCTAGTTA
50775665 ATATATATAT
1 ATATATATAT
50775675 -TATATATAT
1 ATATATATAT
*
50775684 GTA-AGTA-AT
1 ATATA-TATAT
50775693 GAT-TAT-TAT
1 -ATATATATAT
50775702 -TAT-TATAT
1 ATATATATAT
50775710 -TATAT-TAT
1 ATATATATAT
50775718 AT-TATAT-T
1 ATATATATAT
50775726 ATATATATAT
1 ATATATATAT
50775736 ATATATA
1 ATATATA
50775743 ACAAAAGAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 24
0.69 0.01 0.30
Matches are distributed among these distances:
7 2 0.04
8 16 0.29
9 23 0.42
10 14 0.25
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (10 bp):
ATATATATAT
Found at i:50776033 original size:13 final size:13
Alignment explanation
Indices: 50776015--50776046 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
50776005 TTTCCAGCAA
50776015 TTATGAATTTATT
1 TTATGAATTTATT
50776028 TTATGAATTTATT
1 TTATGAATTTATT
*
50776041 TGATGA
1 TTATGA
50776047 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:50776260 original size:50 final size:50
Alignment explanation
Indices: 50776140--50776381 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
50776130 CATTGGGTAA
* * *
50776140 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
50776196 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
50776246 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
50776296 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
50776346 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
50776382 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 89 0.54
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:50776327 original size:100 final size:104
Alignment explanation
Indices: 50776144--50776389 Score: 349
Period size: 100 Copynumber: 2.4 Consensus size: 104
50776134 GGGTAAAGAG
*
50776144 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCCCTGT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCCCTAT
* *
50776209 AAGACCATGTCTGGGACATGGCATGGGCACCGA-GACGAG-AG
63 AAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAAC
* * * *
50776250 GTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTATAAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
50776312 ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
66 ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
*
50776351 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
50776390 GTTATTATCA
Statistics
Matches: 127, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.40
101 38 0.30
105 2 0.02
106 35 0.28
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.22
Consensus pattern (104 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
Found at i:50778618 original size:7 final size:7
Alignment explanation
Indices: 50778606--50778633 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
50778596 TTTGTTTGAT
50778606 TGCCAAA
1 TGCCAAA
50778613 TGCCAAA
1 TGCCAAA
50778620 TGCCAAA
1 TGCCAAA
50778627 TGCCAAA
1 TGCCAAA
50778634 GAAGCCCCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.29, G:0.14, T:0.14
Consensus pattern (7 bp):
TGCCAAA
Found at i:50788341 original size:13 final size:12
Alignment explanation
Indices: 50788307--50788342 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
50788297 GCTTTCTGTT
*
50788307 TTCTTTTCTTTG
1 TTCTTTTCTTTA
50788319 TTCTTTTCTTTA
1 TTCTTTTCTTTA
50788331 TTCTATTTCTTT
1 TTCT-TTTCTTT
50788343 TATTTGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.75
Consensus pattern (12 bp):
TTCTTTTCTTTA
Found at i:50789592 original size:20 final size:20
Alignment explanation
Indices: 50789545--50789585 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
50789535 AAAAGCAGGG
50789545 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAGAAAGAAAGGAGA
50789565 AAAGAAAG-AAGAAA-GAGA
1 AAAGAAAGAAAGAAAGGAGA
50789583 AAA
1 AAA
50789586 TTGAAAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.33
19 6 0.29
20 8 0.38
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (20 bp):
AAAGAAAGAAAGAAAGGAGA
Found at i:50790915 original size:21 final size:19
Alignment explanation
Indices: 50790876--50790915 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
50790866 TGAACATGTG
*
50790876 TTTATTGTGAAATTGAATA
1 TTTATTGTGAAAATGAATA
50790895 TTTATTAGTGAAAAATGAATA
1 TTTATT-GTG-AAAATGAATA
50790916 GAATTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (19 bp):
TTTATTGTGAAAATGAATA
Done.