Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 91
Found at i:724773 original size:19 final size:19
Alignment explanation
Indices: 724727--724765 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
724717 TTAAAAACAT
724727 TACGATGCGAGCGTTACGC
1 TACGATGCGAGCGTTACGC
724746 TACGATGCGAGCGTTACGC
1 TACGATGCGAGCGTTACGC
724765 T
1 T
724766 GCGTTGCGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.23
Consensus pattern (19 bp):
TACGATGCGAGCGTTACGC
Found at i:728081 original size:41 final size:40
Alignment explanation
Indices: 728036--728495 Score: 454
Period size: 41 Copynumber: 11.2 Consensus size: 40
728026 TAAATACTCA
* * * *
728036 TACTTTAATGGCGTTTTTAATACAAACACCGATAAAGACTG
1 TACTTTAGTGGCGTTTTT-ATACAAACGCCGCTATAGACTG
* * *
728077 TACTTTAGCGACGTTTTTATACAAACACCGCTATAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT-G
* * *
728118 TATTTTAGTGGTGTTTTTATACAAACGCTGCTATAGACTTG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAC-TG
*
728159 TACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT-G
* * * *
728200 TTCTTTAGTGGCGTTTTTAATACAAACGCCGCTATATAGTCA
1 TACTTTAGTGGCGTTTTT-ATACAAACGCCGCTATAGACT-G
* * * * *
728242 TATTTTAGTGGCATTTTTATACAAACGCCACTAAAGACTCA
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT-G
* ** * * *
728283 TACTTTATTGGCGTTTTTATGTAAACGTCGCTAAAGACTCA
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT-G
*
728324 TACTTTAGTGGCGTTTTAATACAAACGCCGCTATAGACTTG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAC-TG
* *
728365 TCCTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTG
* * * * * *
728405 TAACTTTAGTGG-ATTTTTTTACAAACACCGCTGTACACTCA
1 T-ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT-G
* * *
728446 TGCTTTAGTGGCGTTTTTATACAAATGCCGTTATAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT-G
*
728487 TGCTTTAGT
1 TACTTTAGT
728496 TGGAGCCCCT
Statistics
Matches: 351, Mismatches: 60, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
40 53 0.15
41 262 0.75
42 36 0.10
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (40 bp):
TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTG
Found at i:728161 original size:82 final size:82
Alignment explanation
Indices: 728021--728495 Score: 506
Period size: 82 Copynumber: 5.8 Consensus size: 82
728011 AACCATTACA
* * * * *
728021 ACCGCTAAATACTCATACTTTAATGGCGTTTTTAATACAAACACCGATAAAGACT-GTACTTTAG
1 ACCGCTAAAGACTCATACTTTAGTGGCGTTTTT-ATACAAACGCCGCTATAGACTCGTACTTTAG
* *
728085 CGACGTTTTTATACAAAC
65 TGGCGTTTTTATACAAAC
* * * * * *
728103 ACCGCTATAGACTCGTATTTTAGTGGTGTTTTTATACAAACGCTGCTATAGACTTGTACTTTAGT
1 ACCGCTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGT
728168 GGCGTTTTTATACAAAC
66 GGCGTTTTTATACAAAC
* * * * * * *
728185 GCCGCTAAAGACTCGTTCTTTAGTGGCGTTTTTAATACAAACGCCGCTATATAGTCATATTTTAG
1 ACCGCTAAAGACTCATACTTTAGTGGCGTTTTT-ATACAAACGCCGCTATAGACTCGTACTTTAG
*
728250 TGGCATTTTTATACAAAC
65 TGGCGTTTTTATACAAAC
* * * ** * * *
728268 GCCACTAAAGACTCATACTTTATTGGCGTTTTTATGTAAACGTCGCTAAAGACTCATACTTTAGT
1 ACCGCTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGT
*
728333 GGCGTTTTAATACAAAC
66 GGCGTTTTTATACAAAC
* * ** *
728350 GCCGCTATAGACTTGTCCTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC-TAACTTTAG
1 ACCGCTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT-ACTTTAG
* *
728414 TGG-ATTTTTTTACAAAC
65 TGGCGTTTTTATACAAAC
** * * * * *
728431 ACCGCTGTACACTCATGCTTTAGTGGCGTTTTTATACAAATGCCGTTATAGACTCGTGCTTTAGT
1 ACCGCTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGT
728496 TGGAGCCCCT
Statistics
Matches: 330, Mismatches: 59, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
81 83 0.25
82 176 0.53
83 71 0.22
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (82 bp):
ACCGCTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGT
GGCGTTTTTATACAAAC
Found at i:730915 original size:2 final size:2
Alignment explanation
Indices: 730908--730955 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
730898 AACTATTACG
730908 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
730950 AT AT AT
1 AT AT AT
730956 GTAGAGAGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:732359 original size:43 final size:42
Alignment explanation
Indices: 732288--732489 Score: 191
Period size: 43 Copynumber: 4.8 Consensus size: 42
732278 AAGGTAATTA
* *
732288 GCGGCGTTT-T-T-CAATAACGCCGCTATAGATCTACTCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCACTATAGATCTAC-CTTTT
* *
732328 GCGGCGTTTGTATCCAAAAACGCCACAATAGATATATCCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCACTATAGATCTA-CCTTTT
* * *
732371 GCGACGTTTATATCCAAAAACACCAC--TAGATCTGACCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCACTATAGATCT-ACCTTTT
* * * *
732412 ACGGTGTTTGTATCCAAAAACGCCGCTATAGATATCGACCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCACTATAG--ATCTACCTTTT
* * *
732456 GAGGCGTTTGT-TCCAAAAACGCCGCTATAAATCT
1 GCGGCGTTTGTATCCAAAAACGCCACTATAGATCT
732490 TGATCTATAC
Statistics
Matches: 133, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
40 9 0.07
41 36 0.27
42 2 0.02
43 67 0.50
44 16 0.12
45 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
GCGGCGTTTGTATCCAAAAACGCCACTATAGATCTACCTTTT
Found at i:732471 original size:84 final size:84
Alignment explanation
Indices: 732313--732475 Score: 215
Period size: 84 Copynumber: 1.9 Consensus size: 84
732303 AACGCCGCTA
* *
732313 TAGATCTACTCTTTTGCGGCGTTTGTATCCAAAAACGCCACAATAGATATATCCTTTTGCGACGT
1 TAGATCTACTCTTTTACGGCGTTTGTATCCAAAAACGCCACAATAGATATATCCTTTTGAGACGT
732378 TTATATCCAAAAACACCAC
66 TTATATCCAAAAACACCAC
* * * *
732397 TAGATCTGAC-CTTTTACGGTGTTTGTATCCAAAAACGCCGCTATAGATATCGA-CCTTTTGAGG
1 TAGATCT-ACTCTTTTACGGCGTTTGTATCCAAAAACGCCACAATAGATAT--ATCCTTTTGAGA
*
732460 CGTTTGT-TCCAAAAAC
63 CGTTTATATCCAAAAAC
732476 GCCGCTATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
84 52 0.75
85 16 0.23
86 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (84 bp):
TAGATCTACTCTTTTACGGCGTTTGTATCCAAAAACGCCACAATAGATATATCCTTTTGAGACGT
TTATATCCAAAAACACCAC
Found at i:732922 original size:26 final size:26
Alignment explanation
Indices: 732873--732924 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
732863 ATTGGGAGAA
* *
732873 TATTTTATTTAAAAGTATTTTATTTT
1 TATTTTATTTAAAAATATTATATTTT
732899 TATTTTCATTTAAAAATA-TATATTTT
1 TATTTT-ATTTAAAAATATTATATTTT
732925 ATGTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (26 bp):
TATTTTATTTAAAAATATTATATTTT
Found at i:739646 original size:45 final size:41
Alignment explanation
Indices: 739595--739695 Score: 114
Period size: 42 Copynumber: 2.3 Consensus size: 41
739585 GCCGCTAAAG
*
739595 TTAGCGGCTTTTTCTGACAAAAAATGTCGCAATAGGTTTTG-TTAT
1 TTAGCGGCTTTTTC--A-AAAAAA-GTCGCAATAGGTGTTGATT-T
*
739640 TTAGCGGCGTTTGTCAAAAAAAGTCGCAATAGGTGTTGATTT
1 TTAGCGGC-TTTTTCAAAAAAAGTCGCAATAGGTGTTGATTT
*
739682 TTAGCGGCGTTTTC
1 TTAGCGGCTTTTTC
739696 CCTATAAACG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
41 4 0.08
42 24 0.48
43 8 0.16
44 1 0.02
45 8 0.16
46 5 0.10
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.38
Consensus pattern (41 bp):
TTAGCGGCTTTTTCAAAAAAAGTCGCAATAGGTGTTGATTT
Found at i:739666 original size:42 final size:42
Alignment explanation
Indices: 739612--739693 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
739602 CTTTTTCTGA
* *
739612 CAAAAAATGTCGCAATAGGTTTTG-TTATTTAGCGGCGTTTGT
1 CAAAAAAAGTCGCAATAGGTGTTGATT-TTTAGCGGCGTTTGT
739654 CAAAAAAAGTCGCAATAGGTGTTGATTTTTAGCGGCGTTT
1 CAAAAAAAGTCGCAATAGGTGTTGATTTTTAGCGGCGTTT
739694 TCCCTATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 35 0.95
43 2 0.05
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.35
Consensus pattern (42 bp):
CAAAAAAAGTCGCAATAGGTGTTGATTTTTAGCGGCGTTTGT
Found at i:739728 original size:43 final size:43
Alignment explanation
Indices: 739664--739956 Score: 132
Period size: 43 Copynumber: 7.1 Consensus size: 43
739654 CAAAAAAAGT
* ** *
739664 CGCAATAGGTGTTGATTTTTAGCGGCGTTTTCCCTATAAACGC
1 CGCAGTAGGTGTTGAGATTTAGCGGCGTTTTCCCTACAAACGC
* *
739707 CGCAGTAGGTGTTGAGATTTA-----G--TTACTTACAAACGC
1 CGCAGTAGGTGTTGAGATTTAGCGGCGTTTTCCCTACAAACGC
* * * * **
739743 CGCAGAAGGTTTTGATATTTTGCGGCG-TTT-CCT-CAAACAT
1 CGCAGTAGGTGTTGAGATTTAGCGGCGTTTTCCCTACAAACGC
* * * * *
739783 CGCAGAATGTGATGATG-TTTAACGGCGTTTTCCCCT-CAAACGT
1 CGCAGTAGGTGTTGA-GATTTAGCGGCGTTTT-CCCTACAAACGC
* * * * * *
739826 CGTAGTAGGTTTTTAGATTTAGCGGCGTTTGTATCGT--AAACGA
1 CGCAGTAGGTGTTGAGATTTAGCGGCGTTT-T-CCCTACAAACGC
* * * * ***
739869 CGCAATAAGTGTTGAAAATTAGCGGCGTTTTTATTGA-AAACGC
1 CGCAGTAGGTGTTGAGATTTAGCGGCGTTTTCCCT-ACAAACGC
* * *
739912 CGCAATAGGTGTTGAGATTTAACGGCG-TTTCCATACAAACGC
1 CGCAGTAGGTGTTGAGATTTAGCGGCGTTTTCCCTACAAACGC
739954 CGC
1 CGC
739957 TAAAATTCAA
Statistics
Matches: 187, Mismatches: 48, Indels: 31
0.70 0.18 0.12
Matches are distributed among these distances:
36 28 0.15
38 1 0.01
40 25 0.13
41 9 0.05
42 17 0.09
43 104 0.56
44 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
CGCAGTAGGTGTTGAGATTTAGCGGCGTTTTCCCTACAAACGC
Found at i:740358 original size:21 final size:20
Alignment explanation
Indices: 740308--740358 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
740298 ATTCTTCACA
*
740308 TCTCTGCTGATATGCTGCTTC
1 TCTCTG-TGCTATGCTGCTTC
740329 TCTCTGTGCTATCGCTGCTTC
1 TCTCTGTGCTAT-GCTGCTTC
740350 TCTCTGTGC
1 TCTCTGTGC
740359 CGCTGCTGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.06, C:0.31, G:0.20, T:0.43
Consensus pattern (20 bp):
TCTCTGTGCTATGCTGCTTC
Found at i:740366 original size:21 final size:21
Alignment explanation
Indices: 740320--740399 Score: 74
Period size: 21 Copynumber: 3.7 Consensus size: 21
740310 TCTGCTGATA
**
740320 TGCTGCTTCTCTCTGTG-CTA
1 TGCTGCTTCTCTCTGTGCCGC
740340 TCGCTGCTTCTCTCTGTGCCGC
1 T-GCTGCTTCTCTCTGTGCCGC
* *
740362 TGCTGCTGCTCTGGCTGCTTCCGC
1 TGCTGCTTCTCT--CTG-TGCCGC
740386 TGCTGC-TCTCTCTG
1 TGCTGCTTCTCTCTG
740400 CTTTCCTTGC
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.02
21 29 0.58
22 2 0.04
23 7 0.14
24 11 0.22
ACGTcount: A:0.01, C:0.36, G:0.24, T:0.39
Consensus pattern (21 bp):
TGCTGCTTCTCTCTGTGCCGC
Found at i:748886 original size:42 final size:42
Alignment explanation
Indices: 748572--749229 Score: 318
Period size: 42 Copynumber: 15.9 Consensus size: 42
748562 AAGACGACCT
* * * *
748572 TTAGCGGTGTTT-TTCTAAAAACGCCACTAAAGTAC-TAGTAT
1 TTAGCGGCGTTTGTGCTTAAAACGCCACTAAAGTACGT-GTAA
* * * *
748613 TTAGCGACGTTTATG-TTATAAAAGCCACTAAAGTACATGTAA
1 TTAGCGGCGTTTGTGCTTA-AAACGCCACTAAAGTACGTGTAA
* * * *
748655 TTAGCGACATTTGTG-TGTAAAACGCCA-TAAAAATACATGTAA
1 TTAGCGGCGTTTGTGCT-TAAAACGCCACT-AAAGTACGTGTAA
** *
748697 TTAGCGGCGTTTGTGCTTGCAACGCCACTAAAGTA--TG-ACCT
1 TTAGCGGCGTTTGTGCTTAAAACGCCACTAAAGTACGTGTA--A
* * * ** ** *
748738 TTAGCGGTGTTTGT-ATAAAAACATCACTAAAGTAC-AATAT
1 TTAGCGGCGTTTGTGCTTAAAACGCCACTAAAGTACGTGTAA
** * * * * * * * *
748778 TTCTCAGTGTTTAT-ATAAAAATGCAACTAGCTAGAGTTCGTGTAA
1 TTAGCGGCGTTTGTGCTTAAAACGC--C-A-CTAAAGTACGTGTAA
* * * *
748823 TTAGCGGCATTTTTGCATAAAACGCCACTAAAGAACGTGTAA
1 TTAGCGGCGTTTGTGCTTAAAACGCCACTAAAGTACGTGTAA
* * *
748865 TTAGCGGCGTTTGTGCTTAAAATGCCACTAAAGTAC-AGTAT
1 TTAGCGGCGTTTGTGCTTAAAACGCCACTAAAGTACGTGTAA
* * * * * * * *
748906 TTATCGACGTTTAT-ATAAAAACGCCATTATAGTGCGTGTAA
1 TTAGCGGCGTTTGTGCTTAAAACGCCACTAAAGTACGTGTAA
* * * * *
748947 TTCGCGGCGTTTGTACATAAAATGCCACGT-ATGTACGTGTAA
1 TTAGCGGCGTTTGTGCTTAAAACGCCAC-TAAAGTACGTGTAA
** * * *
748989 TTAGCGGATTTTGTGCATAAAACGCCATGTATA-TACGTGTAA
1 TTAGCGGCGTTTGTGCTTAAAACGCCA-CTAAAGTACGTGTAA
* * *
749031 TTAGCGGTGTTTGTGCTTAAAACGGCAC-ATA-TACGTGTAA
1 TTAGCGGCGTTTGTGCTTAAAACGCCACTAAAGTACGTGTAA
* * * * *
749071 TTAGCGGCATTTGT--ATAAAACGCCACGT-ATGTAC-AGTAT
1 TTAGCGGCGTTTGTGCTTAAAACGCCAC-TAAAGTACGTGTAA
** * * * * *
749110 TTATTGGCGTTTAT-ATAAAAACGCCACTATAGTGCGTGTAA
1 TTAGCGGCGTTTGTGCTTAAAACGCCACTAAAGTACGTGTAA
* * * * *
749151 TTAGCGGCGTTTATACGTT-AAACGCCACTGAAGTATGTGGAA
1 TTAGCGGCGTTTGTGC-TTAAAACGCCACTAAAGTACGTGTAA
*
749193 TTAGCGGCGTTTGTGCTTAAAATGCCACTAAAGTACG
1 TTAGCGGCGTTTGTGCTTAAAACGCCACTAAAGTACG
749230 ACCTTTAGCG
Statistics
Matches: 460, Mismatches: 126, Indels: 61
0.71 0.19 0.09
Matches are distributed among these distances:
38 10 0.02
39 15 0.03
40 89 0.19
41 70 0.15
42 243 0.53
43 9 0.02
44 8 0.02
45 10 0.02
46 6 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (42 bp):
TTAGCGGCGTTTGTGCTTAAAACGCCACTAAAGTACGTGTAA
Found at i:749197 original size:204 final size:207
Alignment explanation
Indices: 748816--749219 Score: 512
Period size: 204 Copynumber: 2.0 Consensus size: 207
748806 AGCTAGAGTT
* *
748816 CGTGTAATTAGCGGCATTTTTGCATAAAACGCCACTAAAGAACGTGTAATTAGCGGCGTTTGTGC
1 CGTGTAATTAGCGGCATTTGTGCATAAAACGCCACTAAAGAACGTGTAATTAGCGGCATTTGT-C
* * *
748881 TTAAAATGCCACTAAAGTACAGTATTTATCGACGTTTATATAAAAACGCCATTATAGTGCGTGTA
65 ATAAAACGCCACTAAAGTACAGTATTTATCGACGTTTATATAAAAACGCCACTATAGTGCGTGTA
* * * * * *
748946 ATTCGCGGCGTTTGTACATAAAATGCCACGTATGTACGTGTAATTAGCGGATTTTGTGCATAAAA
130 ATTAGCGGCGTTTATACATAAAACGCCACGTAAGTACGTGGAATTAGCGGAGTTTGTGCATAAAA
749011 CGCCATGTATATA
195 CGCCATGTATATA
** * * * *
749024 CGTGTAATTAGCGGTGTTTGTGCTTAAAACGGCAC-ATA-TACGTGTAATTAGCGGCATTTGT-A
1 CGTGTAATTAGCGGCATTTGTGCATAAAACGCCACTAAAGAACGTGTAATTAGCGGCATTTGTCA
* * *
749086 TAAAACGCCACGT-ATGTACAGTATTTATTGGCGTTTATATAAAAACGCCACTATAGTGCGTGTA
66 TAAAACGCCAC-TAAAGTACAGTATTTATCGACGTTTATATAAAAACGCCACTATAGTGCGTGTA
* * * * *
749150 ATTAGCGGCGTTTATACGTTAAACGCCAC-TGAAGTATGTGGAATTAGCGGCGTTTGTGCTTAAA
130 ATTAGCGGCGTTTATACATAAAACGCCACGT-AAGTACGTGGAATTAGCGGAGTTTGTGCATAAA
*
749214 ATGCCA
194 ACGCCA
749220 CTAAAGTACG
Statistics
Matches: 168, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
203 1 0.01
204 113 0.67
205 1 0.01
206 21 0.12
207 2 0.01
208 30 0.18
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (207 bp):
CGTGTAATTAGCGGCATTTGTGCATAAAACGCCACTAAAGAACGTGTAATTAGCGGCATTTGTCA
TAAAACGCCACTAAAGTACAGTATTTATCGACGTTTATATAAAAACGCCACTATAGTGCGTGTAA
TTAGCGGCGTTTATACATAAAACGCCACGTAAGTACGTGGAATTAGCGGAGTTTGTGCATAAAAC
GCCATGTATATA
Found at i:749326 original size:40 final size:42
Alignment explanation
Indices: 749248--749345 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 42
749238 CGGCGTTTGA
* **
749248 ATAAAAACACCACTAAAGTATAGAATTTAACGGTGTTTT-T-
1 ATAAAAACGCCACTAAAGTATAGAATTTAACGACGTTTTCTC
** **
749288 ATAAAAACGCCACTAAAGTATATTATTTTCCGACGTTTTCTC
1 ATAAAAACGCCACTAAAGTATAGAATTTAACGACGTTTTCTC
*
749330 AT-AAAACGCCGCTAAA
1 ATAAAAACGCCACTAAA
749346 ATCCCATTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
40 32 0.67
41 14 0.29
42 2 0.04
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (42 bp):
ATAAAAACGCCACTAAAGTATAGAATTTAACGACGTTTTCTC
Found at i:749833 original size:14 final size:14
Alignment explanation
Indices: 749818--749870 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 14
749808 ATTTAAAGTT
*
749818 AATAAAAATAAATT
1 AATAAAAATAAATA
*
749832 AAT-AAAATAACTA
1 AATAAAAATAAATA
*
749845 AATAAATATTAAATA
1 AATAAA-AATAAATA
*
749860 AATAATAATAA
1 AATAAAAATAA
749871 TGAGAAAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
13 11 0.35
14 9 0.29
15 11 0.35
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (14 bp):
AATAAAAATAAATA
Found at i:751948 original size:27 final size:27
Alignment explanation
Indices: 751896--751947 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
751886 AAAATACTTG
*
751896 ATGTACCTAAAAATATATAAATAAAAT
1 ATGTACCTAAAAAAATATAAATAAAAT
751923 ATGTACC-AAAAAAAT-TAAATCAAAA
1 ATGTACCTAAAAAAATATAAAT-AAAA
751948 AATAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
26 11 0.48
27 7 0.30
ACGTcount: A:0.62, C:0.10, G:0.04, T:0.25
Consensus pattern (27 bp):
ATGTACCTAAAAAAATATAAATAAAAT
Found at i:754672 original size:12 final size:13
Alignment explanation
Indices: 754655--754687 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
754645 CATAATTCTC
754655 AAATAAATAAA-T
1 AAATAAATAAAGT
754667 AAATAAATAAAGT
1 AAATAAATAAAGT
754680 AATATAAA
1 AA-ATAAA
754688 GAAGTATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 3 0.16
14 5 0.26
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
AAATAAATAAAGT
Found at i:754793 original size:13 final size:13
Alignment explanation
Indices: 754785--754825 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
754775 TAAAATTATG
754785 AAAATAAATGAAT
1 AAAATAAATGAAT
*
754798 AAAATAAATAAAT
1 AAAATAAATGAAT
*
754811 -AAAT-ATTGAAT
1 AAAATAAATGAAT
754822 AAAA
1 AAAA
754826 AATAATAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
11 5 0.21
12 7 0.29
13 12 0.50
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (13 bp):
AAAATAAATGAAT
Found at i:754856 original size:17 final size:15
Alignment explanation
Indices: 754823--754870 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 15
754813 ATATTGAATA
*
754823 AAAAATAATAATGAG
1 AAAAATAATAAAGAG
754838 AAAAATAAATAAAGTAG
1 AAAAAT-AATAAAG-AG
754855 AAAAATTTAATAAAGA
1 AAAAA--TAATAAAGA
754871 TGATATAGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 6 0.21
16 6 0.21
17 8 0.29
18 7 0.25
19 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (15 bp):
AAAAATAATAAAGAG
Found at i:754869 original size:18 final size:17
Alignment explanation
Indices: 754823--754860 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
754813 ATATTGAATA
*
754823 AAAAAT-AATAATG-AG
1 AAAAATAAATAAAGTAG
754838 AAAAATAAATAAAGTAG
1 AAAAATAAATAAAGTAG
754855 AAAAAT
1 AAAAAT
754861 TTAATAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 6 0.30
17 8 0.40
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (17 bp):
AAAAATAAATAAAGTAG
Found at i:757632 original size:29 final size:28
Alignment explanation
Indices: 757599--757663 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
757589 TTTTTATTAA
** *
757599 AAATTTATTTTCATTCCCTAAAATTTTAT
1 AAATTTAAGTTCA-TCCCTAAAATGTTAT
* *
757628 AAATTCAAGTTCATCCTTAAAATGTTAT
1 AAATTTAAGTTCATCCCTAAAATGTTAT
757656 AAATTTAA
1 AAATTTAA
757664 ATTCGTTCTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 20 0.67
29 10 0.33
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (28 bp):
AAATTTAAGTTCATCCCTAAAATGTTAT
Found at i:760443 original size:2 final size:2
Alignment explanation
Indices: 760436--760476 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
760426 GCTTATTTAG
760436 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
760475 TA
1 TA
760477 GTTTTTGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 33 0.92
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:760551 original size:38 final size:37
Alignment explanation
Indices: 760472--760817 Score: 211
Period size: 37 Copynumber: 9.3 Consensus size: 37
760462 TATTAATATA
* *
760472 ATATAGTTTTTGAAAATA-TTTTTGAAAA-ACAT-AT
1 ATATAGTTTTTGAAAACAGTTTTTGAAAACATATAAT
* *
760506 A-A-A-TTTTAGAAAACAGTTTTTGAAAGCATATAAT
1 ATATAGTTTTTGAAAACAGTTTTTGAAAACATATAAT
* * *
760540 ATATAGTTTTTAAAAAAAACCAGATTTTGAAAATATAT-AT
1 ATATAGTTTTT---GAAAA-CAGTTTTTGAAAACATATAAT
* *
760580 A-ATATGGTTTTGAAAACACGTTTTTGAAAACGTATAAT
1 ATATA-GTTTTTGAAAACA-GTTTTTGAAAACATATAAT
* *
760618 ATATAG-TTTTGAAAGCA-ATTTTGAAAACATATATAAT
1 ATATAGTTTTTGAAAACAGTTTTTGAAAAC--ATATAAT
* * *
760655 ATATAGTTTTTTAAAATA-TTTTTGAAAACGTATATAT
1 ATATAGTTTTTGAAAACAGTTTTTGAAAACATATA-AT
*
760692 AATATAGTTTTTGAAAAAATGTATTTTTGAAAACATATAATAT
1 -ATATAGTTTTTGAAAACA-G--TTTTTGAAAACATAT-A-AT
* ** * *
760735 ATATATATATATATTTTAAATA-TTTTTGAAAACATATAGT
1 ATATA-GT-T-T-TTGAAAACAGTTTTTGAAAACATATAAT
**
760775 ATATAGTTTTT-AAAATGGTTTTTG-AAA-ATATAAT
1 ATATAGTTTTTGAAAACAGTTTTTGAAAACATATAAT
760809 ATAT-GTTTT
1 ATATAGTTTT
760818 ATAGTTTTTA
Statistics
Matches: 249, Mismatches: 34, Indels: 59
0.73 0.10 0.17
Matches are distributed among these distances:
31 10 0.04
32 10 0.04
33 9 0.04
34 14 0.06
35 18 0.07
36 15 0.06
37 46 0.18
38 39 0.16
39 7 0.03
40 18 0.07
41 16 0.06
42 34 0.14
43 5 0.02
44 1 0.00
45 1 0.00
46 6 0.02
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (37 bp):
ATATAGTTTTTGAAAACAGTTTTTGAAAACATATAAT
Found at i:760578 original size:41 final size:39
Alignment explanation
Indices: 760515--760789 Score: 153
Period size: 42 Copynumber: 7.0 Consensus size: 39
760505 TAAATTTTAG
*
760515 AAAACAGTTTTTGAAAGCATATAATATATAGTTTTTAAAA
1 AAAACAGTTTTTGAAAACATATAATATATAGTTTTT-AAA
* * * *
760555 AAAACCAGATTTTGAAAATATAT-ATA-ATATGGTTTTGAA
1 AAAA-CAGTTTTTGAAAACATATAATATATA-GTTTTTAAA
* * *
760594 AACAC-GTTTTTGAAAACGTATAATATATAG-TTTT--G
1 AAAACAGTTTTTGAAAACATATAATATATAGTTTTTAAA
* * *
760629 AAAGCA-ATTTTGAAAACATATATAATATATAGTTTTT--T
1 AAAACAGTTTTTGAAAAC--ATATAATATATAGTTTTTAAA
* * *
760667 AAAATA-TTTTTGAAAACGTATATATAATATAGTTTTTGAA
1 AAAACAGTTTTTGAAAACATATA-AT-ATATAGTTTTTAAA
* **
760707 AAAA-TGTATTTTTGAAAACATATAATATATA-TATATATATATTT
1 AAAACAG--TTTTTGAAAACATATAATATATAGT-T-T-T-TA-AA
* * *
760751 TAAATA-TTTTTGAAAACATATAGTATATAGTTTTTAAA
1 AAAACAGTTTTTGAAAACATATAATATATAGTTTTTAAA
760789 A
1 A
760790 TGGTTTTTGA
Statistics
Matches: 182, Mismatches: 31, Indels: 46
0.70 0.12 0.18
Matches are distributed among these distances:
35 13 0.07
36 4 0.02
37 31 0.17
38 34 0.19
39 14 0.08
40 23 0.13
41 19 0.10
42 39 0.21
43 2 0.01
44 3 0.02
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.41
Consensus pattern (39 bp):
AAAACAGTTTTTGAAAACATATAATATATAGTTTTTAAA
Found at i:760605 original size:37 final size:37
Alignment explanation
Indices: 760564--760708 Score: 140
Period size: 38 Copynumber: 3.9 Consensus size: 37
760554 AAAAACCAGA
760564 TTTTGAAAA-TATATATAATAT-GGTTTTGAAAACACGT
1 TTTTGAAAACTATATATAATATAGGTTTTGAAAACA--T
* *
760601 TTTTGAAAACGTATA-AT-ATATA-GTTTTGAAAGCAA
1 TTTTGAAAAC-TATATATAATATAGGTTTTGAAAACAT
* * *
760636 TTTTGAAAAC-ATATATAATATATAGTTTTTTAAAATAT
1 TTTTGAAAACTATATAT-A-ATATAGGTTTTGAAAACAT
*
760674 TTTTGAAAACGTATATATAATATAGTTTTTGAAAA
1 TTTTGAAAAC-TATATATAATATAGGTTTTGAAAA
760709 AATGTATTTT
Statistics
Matches: 90, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
33 3 0.03
34 2 0.02
35 10 0.11
37 29 0.32
38 35 0.39
39 5 0.06
40 6 0.07
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (37 bp):
TTTTGAAAACTATATATAATATAGGTTTTGAAAACAT
Found at i:760786 original size:34 final size:33
Alignment explanation
Indices: 760735--760817 Score: 84
Period size: 34 Copynumber: 2.5 Consensus size: 33
760725 CATATAATAT
760735 ATATATATATA-TATTTT-AAAT-ATTTTTGAAAA
1 ATATATATATAGT-TTTTAAAATGATTTTTG-AAA
*
760767 CATATAGTATATAGTTTTTAAAATGGTTTTTGAAA
1 -ATATA-TATATAGTTTTTAAAATGATTTTTGAAA
760802 ATATA-ATATATGTTTT
1 ATATATATATA-GTTTT
760818 ATAGTTTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
32 5 0.11
33 10 0.23
34 15 0.34
35 8 0.18
36 6 0.14
ACGTcount: A:0.41, C:0.01, G:0.08, T:0.49
Consensus pattern (33 bp):
ATATATATATAGTTTTTAAAATGATTTTTGAAA
Found at i:760847 original size:27 final size:29
Alignment explanation
Indices: 760792--760847 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
760782 TTTTAAAATG
*
760792 GTTTTTGAAAATATAATATATGTTTTATA
1 GTTTTTGAAAATATAATATATGTTATATA
760821 GTTTTT-AAAATA-AATATA-GTATATATA
1 GTTTTTGAAAATATAATATATGT-TATATA
760848 TTATTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 2 0.08
27 11 0.44
28 6 0.24
29 6 0.24
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (29 bp):
GTTTTTGAAAATATAATATATGTTATATA
Found at i:760858 original size:13 final size:14
Alignment explanation
Indices: 760835--760895 Score: 51
Period size: 13 Copynumber: 4.6 Consensus size: 14
760825 TTAAAATAAA
*
760835 TATAGTATATATAT
1 TATATTATATATAT
760849 TAT-TTATATAT-T
1 TATATTATATATAT
760861 ATAGTATTAT-T-TAT
1 -TA-TATTATATATAT
*
760875 TAT-TTATATTTAT
1 TATATTATATATAT
760888 TATATTAT
1 TATATTAT
760896 TACTATATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
11 4 0.10
12 3 0.08
13 18 0.46
14 10 0.26
15 4 0.10
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
TATATTATATATAT
Found at i:760906 original size:13 final size:12
Alignment explanation
Indices: 760840--760905 Score: 59
Period size: 11 Copynumber: 5.6 Consensus size: 12
760830 ATAAATATAG
760840 TATATATATTAT
1 TATATATATTAT
760852 T-TATATATTA-
1 TATATATATTAT
760862 TAGTAT-TATTTAT
1 TA-TATATA-TTAT
*
760875 TATTTATATTTAT
1 TATATATA-TTAT
*
760888 TATAT-TATTAC
1 TATATATATTAT
760899 TATATAT
1 TATATAT
760906 TTTTTGATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
10 1 0.02
11 19 0.42
12 12 0.27
13 13 0.29
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (12 bp):
TATATATATTAT
Found at i:760906 original size:28 final size:27
Alignment explanation
Indices: 760835--760907 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 27
760825 TTAAAATAAA
*
760835 TATAGTA-TATATAT-TATTTATATAT
1 TATAGTATTATTTATATATTTATATAT
760860 TATAGTATTATTTAT-TATTTATAT-T
1 TATAGTATTATTTATATATTTATATAT
760885 TATTA-TATTATTACTATATATTT
1 TA-TAGTATTATT--TATATATTT
760908 TTTGATTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
25 17 0.40
26 17 0.40
27 3 0.07
28 5 0.12
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (27 bp):
TATAGTATTATTTATATATTTATATAT
Found at i:760916 original size:36 final size:32
Alignment explanation
Indices: 760849--760917 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 32
760839 GTATATATAT
*
760849 TATTTATATATTATAGTATTATTTATTATTTA
1 TATTTATATATTATACTATTATTTATTATTTA
*
760881 TATTTATTATATTATTACTATATATTTTTTGATTTA
1 TATTTA-TATATTA-TACTAT-TATTTATT-ATTTA
760917 T
1 T
760918 TCTTTAGGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 6 0.19
33 7 0.23
34 5 0.16
35 7 0.23
36 6 0.19
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (32 bp):
TATTTATATATTATACTATTATTTATTATTTA
Found at i:760917 original size:22 final size:20
Alignment explanation
Indices: 760835--760918 Score: 73
Period size: 22 Copynumber: 4.0 Consensus size: 20
760825 TTAAAATAAA
*
760835 TATAGTATATATATTATTTA-
1 TATA-TATATTTATTATTTAT
*
760855 TATAT-TATAGTATTATTTAT
1 TATATATAT-TTATTATTTAT
*
760875 TATTTATATTTATTATATTAT
1 TATATATATTTATTAT-TTAT
*
760896 TACTATATATTTTTTGATTTAT
1 TA-TATATATTTATT-ATTTAT
760918 T
1 T
760919 CTTTAGGTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
18 3 0.06
19 10 0.19
20 14 0.26
21 9 0.17
22 15 0.28
23 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (20 bp):
TATATATATTTATTATTTAT
Found at i:768960 original size:25 final size:25
Alignment explanation
Indices: 768930--768979 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
768920 TTATTGGGTC
768930 CCTCCT-AAGCATGAGTTTATTGTTA
1 CCTCCTGAAGCATGAG-TTATTGTTA
768955 CCTCCTGAAGCATGAGTTATTGTTA
1 CCTCCTGAAGCATGAGTTATTGTTA
768980 TACTTAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (25 bp):
CCTCCTGAAGCATGAGTTATTGTTA
Found at i:770604 original size:200 final size:198
Alignment explanation
Indices: 770172--770608 Score: 441
Period size: 200 Copynumber: 2.2 Consensus size: 198
770162 CCATTTACAG
* *
770172 CATAGCTCAAGGCGAG-AAAGACTATATGTCAAACAAAACTTTCGAGTTCGATTCCATTCAGCTC
1 CATAACTCAAGGCGAGAAAAG-CTATCTGTC-AACAAAACTTTCGAGTTCGATTCCATTCAGCTC
* ** * * * ** * **
770236 GAGGGCGTATCAACCACATGGTAGCAGTGATGAATTACTTTCTGGTTGGAGTTTAAGATGAGGTC
64 GAGGGCATATCAACCACATGGTAGCAGCAAGGAACTACTTACCAGTTGAAGTTTAAGATGAAATC
* * *
770301 TTTAAGTAAAAAAGAAACCTATGTTGATTGCGATTTAGCAACAAAAAACTATCTCCTAACCGAAT
129 TTTAAGCAAAAAAGAAACCTATGTTGATTGCAATTTAGCAACAAAAAACTACCTCCTAACCGAAT
770366 TTACAA
194 TTA-AA
* ** * * *
770372 CATAGCTCAAGGCGAGAAGGGTTATTTGTCAACGAAAACTTTCGAGTTCGATTCCATTTAGCTCG
1 CATAACTCAAGGCGAGAAAAGCTATCTGTCAAC-AAAACTTTCGAGTTCGATTCCATTCAGCTCG
* * * *
770437 ATGGCATATCAACCGCTTGGTAGCAGCAAGGAACTACTTACCAGTTGAATTTTAA-ATAGAAATC
65 AGGGCATATCAACCACATGGTAGCAGCAAGGAACTACTTACCAGTTGAAGTTTAAGAT-GAAATC
* * * ** * *
770501 TTTTAAGCCAATAAGAAGACCTATGTTGGTTGCAATTTAGCAACAAGGAACTACCT-CTCAGCCT
129 -TTTAAGCAAAAAAGAA-ACCTATGTTGATTGCAATTTAGCAACAAAAAACTACCTCCT-AACCG
*
770565 AATTT-AG
191 AATTTAAA
* * *
770572 CATAACTTAAGTCGAGAAAAGCTGTCTGTCAACAAAA
1 CATAACTCAAGGCGAGAAAAGCTATCTGTCAACAAAA
770609 AACTTTCCAG
Statistics
Matches: 192, Mismatches: 39, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
199 9 0.05
200 125 0.65
201 17 0.09
202 41 0.21
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (198 bp):
CATAACTCAAGGCGAGAAAAGCTATCTGTCAACAAAACTTTCGAGTTCGATTCCATTCAGCTCGA
GGGCATATCAACCACATGGTAGCAGCAAGGAACTACTTACCAGTTGAAGTTTAAGATGAAATCTT
TAAGCAAAAAAGAAACCTATGTTGATTGCAATTTAGCAACAAAAAACTACCTCCTAACCGAATTT
AAA
Found at i:771129 original size:60 final size:59
Alignment explanation
Indices: 771049--771167 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 59
771039 AAAAAATCAA
* *
771049 AAAATATATAATATGATTTTGAAAACACGTTTTTGAAAAC-ATATAATATATAGTTTTG
1 AAAACATATAATATGATTTTGAAAACACATTTTTGAAAACAATATAATATATAGTTTTG
* *
771107 AAAACATATAATATATAGTTTTGAAAATACATTTTTGAAAACATATATAATATATAGTTTT
1 AAAACATATAATAT-GA-TTTTGAAAACACATTTTTGAAAACA-ATATAATATATAGTTTT
771168 TTAAAATATT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
58 13 0.25
59 1 0.02
60 22 0.42
62 17 0.32
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.40
Consensus pattern (59 bp):
AAAACATATAATATGATTTTGAAAACACATTTTTGAAAACAATATAATATATAGTTTTG
Found at i:771138 original size:25 final size:23
Alignment explanation
Indices: 771079--771133 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
771069 GAAAACACGT
771079 TTTTGAAAACATATAATATATAG
1 TTTTGAAAACATATAATATATAG
771102 TTTTGAAAACATATAATATATAG
1 TTTTGAAAACATATAATATATAG
771125 TTTTGAAAA
1 TTTTGAAAA
771134 TACATTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (23 bp):
TTTTGAAAACATATAATATATAG
Found at i:771192 original size:38 final size:38
Alignment explanation
Indices: 771102--771212 Score: 149
Period size: 38 Copynumber: 2.9 Consensus size: 38
771092 TAATATATAG
771102 TTTTGAAAAC-ATATAATATATAG-TTTTGAAAATACAT
1 TTTTGAAAACTATATAATATATAGTTTTTGAAAATA-AT
*
771139 TTTTGAAAACATATATAATATATAGTTTTTTAAAAT-AT
1 TTTTGAAAAC-TATATAATATATAGTTTTTGAAAATAAT
771177 TTTTGAAAACGTATAT-ATAATATAGTTTTTGAAAAT
1 TTTTGAAAAC-TATATAAT-ATATAGTTTTTGAAAAT
771213 GTATAATATA
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
37 12 0.18
38 33 0.49
39 13 0.19
40 9 0.13
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (38 bp):
TTTTGAAAACTATATAATATATAGTTTTTGAAAATAAT
Found at i:771223 original size:24 final size:26
Alignment explanation
Indices: 771175--771230 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
771165 TTTTTAAAAT
771175 ATTTTTGAAAACGTATATATAATATA
1 ATTTTTGAAAACGTATATATAATATA
* *
771201 GTTTTTGAAAATGTATA-AT-ATATA
1 ATTTTTGAAAACGTATATATAATATA
771225 ATTTTT
1 ATTTTT
771231 TTAAATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 10 0.37
25 2 0.07
26 15 0.56
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (26 bp):
ATTTTTGAAAACGTATATATAATATA
Found at i:771244 original size:36 final size:36
Alignment explanation
Indices: 771202--771285 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 36
771192 TATAATATAG
** *
771202 TTTTTGAAAATGTATAATATATAATTTTTTTAAAT-A
1 TTTTTGAAAATACATAATATAT-AGTTTTTTAAATGA
* * *
771238 TTTTTGAAAACACATAGTATATAGTTTTTTAAATGG
1 TTTTTGAAAATACATAATATATAGTTTTTTAAATGA
771274 TTTTTGAAAATA
1 TTTTTGAAAATA
771286 TAATGTATGT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 11 0.28
36 29 0.73
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (36 bp):
TTTTTGAAAATACATAATATATAGTTTTTTAAATGA
Found at i:771279 original size:98 final size:96
Alignment explanation
Indices: 771077--771283 Score: 249
Period size: 98 Copynumber: 2.1 Consensus size: 96
771067 TTGAAAACAC
771077 GTTTTTGAAAACATATAATATATAGTTTTGAAAACATATAATATATAGTTTTGAAAATACATTTT
1 GTTTTTGAAAACATATAATATATAGTTTTGAAAACATATAATATATAGTTTTGAAAATA-ATTTT
*
771142 TGAAAACATATATAATATATAGTTTTTTAAAAT
65 TGAAAACA-ACATAATATATAGTTTTTTAAAAT
* * ** * **
771175 ATTTTTGAAAACGTATATATAATATAGTTTTTGAAAATGTATAATATATAATTTTTTTAAAT-AT
1 GTTTTTGAAAACATATA-AT-ATATAG-TTTTGAAAACATATAATATAT-AGTTTTGAAAATAAT
*
771239 TTTTGAAAAC-ACATAGTATATAGTTTTTT-AAAT
62 TTTTGAAAACAACATAATATATAGTTTTTTAAAAT
771272 GGTTTTTGAAAA
1 -GTTTTTGAAAA
771284 TATAATGTAT
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
97 4 0.04
98 42 0.45
99 2 0.02
100 18 0.19
101 19 0.20
102 9 0.10
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (96 bp):
GTTTTTGAAAACATATAATATATAGTTTTGAAAACATATAATATATAGTTTTGAAAATAATTTTT
GAAAACAACATAATATATAGTTTTTTAAAAT
Found at i:778377 original size:22 final size:21
Alignment explanation
Indices: 778302--778702 Score: 454
Period size: 22 Copynumber: 18.6 Consensus size: 21
778292 CTATTTTAAA
*
778302 ATTTATTTTAAAATATGAATG
1 ATTTATTTTAAAATATGATTG
778323 ATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATG-ATTG
778345 A-TTA-TTTAAAATATAGATTG
1 ATTTATTTTAAAATAT-GATTG
*
778365 ATTTATTTTAAAATATGAAGTG
1 ATTTATTTTAAAATATG-ATTG
***
778387 ATTTA-TTTAAAATATGAAAAA
1 ATTTATTTTAAAATATG-ATTG
*
778408 AATTATTTTAAAATAATGATTG
1 ATTTATTTTAAAAT-ATGATTG
778430 ATTTATTTT-AAATATAGATTG
1 ATTTATTTTAAAATAT-GATTG
***
778451 ATTTATTTTAAAATATGAAAA
1 ATTTATTTTAAAATATGATTG
* *
778472 ATTTATTTTTAAATCTTGATTG
1 ATTTATTTTAAAAT-ATGATTG
778494 ATTTATTTTAAAATATTGATTG
1 ATTTATTTTAAAATA-TGATTG
778516 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATAT-GATTG
***
778538 ATTTATTTTAAAATATGAAAAA
1 ATTTATTTTAAAATATG-ATTG
* *
778560 AATTATTTTAAAATTTGGATTG
1 ATTTATTTTAAAATAT-GATTG
* *
778582 ATTTATTTTAAAACATGGATTT
1 ATTTATTTTAAAATAT-GATTG
778604 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATAT-GATTG
778626 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATAT-GATTG
778648 ATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATG-ATTG
778670 ATTTATTTTAAAAT-TAGA-TG
1 ATTTATTTTAAAATAT-GATTG
778690 ATTTATTTTAAAA
1 ATTTATTTTAAAA
778703 AATTTTATTA
Statistics
Matches: 329, Mismatches: 35, Indels: 33
0.83 0.09 0.08
Matches are distributed among these distances:
20 32 0.10
21 80 0.24
22 213 0.65
23 4 0.01
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (21 bp):
ATTTATTTTAAAATATGATTG
Found at i:780185 original size:2 final size:2
Alignment explanation
Indices: 780178--780206 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
780168 AATAAACATT
780178 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
780207 TCTTTATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:780393 original size:24 final size:23
Alignment explanation
Indices: 780340--780397 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
780330 GTAAATTATG
780340 TATATATTATA-TTAAATATTTT
1 TATATATTATATTTAAATATTTT
* *
780362 TA-ATTATTATATCTTATATGTTTT
1 TATA-TATTATAT-TTAAATATTTT
780386 TATATATTATAT
1 TATATATTATAT
780398 GTGCATAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 9 0.30
24 19 0.63
25 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TATATATTATATTTAAATATTTT
Found at i:784399 original size:15 final size:16
Alignment explanation
Indices: 784373--784403 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
784363 ATACCATGCA
784373 TTTTGCATATGCATTT
1 TTTTGCATATGCATTT
784389 TTTTGCA-ATGCATTT
1 TTTTGCATATGCATTT
784404 AAGTTTTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.55
Consensus pattern (16 bp):
TTTTGCATATGCATTT
Found at i:784817 original size:10 final size:10
Alignment explanation
Indices: 784788--784835 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
784778 CCCATTTGTT
784788 TTTAATATTA
1 TTTAATATTA
784798 TTTTAATATTA
1 -TTTAATATTA
*
784809 TTTATTATTA
1 TTTAATATTA
*
784819 TATAATATTA
1 TTTAATATTA
*
784829 TTAAATA
1 TTTAATA
784836 ATTACAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 22 0.69
11 10 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTAATATTA
Found at i:786074 original size:20 final size:21
Alignment explanation
Indices: 786051--786096 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
786041 ATTAATCATT
*
786051 TTTATATAGTT-TTAATTTCA
1 TTTATATAGTTGTTAATTTAA
* *
786071 TTTATTTAGTTGTTGATTTAA
1 TTTATATAGTTGTTAATTTAA
786092 TTTAT
1 TTTAT
786097 GATGATTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (21 bp):
TTTATATAGTTGTTAATTTAA
Found at i:786953 original size:28 final size:29
Alignment explanation
Indices: 786872--786982 Score: 81
Period size: 28 Copynumber: 3.9 Consensus size: 29
786862 TAAAAATTCT
* *
786872 ATATTTA-ATTTATAATTCATTCTTTTCA-A
1 ATATTTATATATAT-ATT-ATTATTTTCATA
*
786901 A-ATTTTTATATATACTTATTATTTTCATA
1 ATATTTATATATATA-TTATTATTTTCATA
*
786930 ATATTTATATGTATATTATT-TTTT-AT-
1 ATATTTATATATATATTATTATTTTCATA
* * * *
786956 ATATTTTTATTTTTATTTTTATTTTCA
1 ATATTTATATATATATTATTATTTTCA
786983 AGTATAAGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
26 16 0.24
27 6 0.09
28 19 0.28
29 15 0.22
30 11 0.16
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (29 bp):
ATATTTATATATATATTATTATTTTCATA
Found at i:793872 original size:9 final size:9
Alignment explanation
Indices: 793858--793889 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
793848 AAATGGCAAT
793858 CATTCTTTA
1 CATTCTTTA
793867 CATTCTTTA
1 CATTCTTTA
*
793876 CATTTTTTA
1 CATTCTTTA
793885 CATTC
1 CATTC
793890 ATTATTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (9 bp):
CATTCTTTA
Found at i:797403 original size:17 final size:16
Alignment explanation
Indices: 797376--797422 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 16
797366 ATTATGCTTT
797376 AAGAAAAAAAAATGAAATA
1 AAGAAAAAAAAA--AAA-A
797395 AAGAAAAAAGAAAAAAA
1 AAGAAAAAA-AAAAAAA
797412 AAGAAAAAAAA
1 AAGAAAAAAAA
797423 GAGGGTCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 2 0.07
17 10 0.37
18 3 0.11
19 9 0.33
20 3 0.11
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (16 bp):
AAGAAAAAAAAAAAAA
Found at i:797413 original size:10 final size:10
Alignment explanation
Indices: 797398--797422 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
797388 TGAAATAAAG
797398 AAAAAAGAAA
1 AAAAAAGAAA
797408 AAAAAAGAAA
1 AAAAAAGAAA
797418 AAAAA
1 AAAAA
797423 GAGGGTCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:797797 original size:18 final size:18
Alignment explanation
Indices: 797772--797819 Score: 73
Period size: 17 Copynumber: 2.8 Consensus size: 18
797762 TATTTTCTCT
797772 AAATTCAATTTATTTTTG
1 AAATTCAATTTATTTTTG
*
797790 AGATTCAATTTA-TTTTG
1 AAATTCAATTTATTTTTG
797807 AAATTC-ATTTATT
1 AAATTCAATTTATT
797820 CTTTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 5 0.19
17 11 0.41
18 11 0.41
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.54
Consensus pattern (18 bp):
AAATTCAATTTATTTTTG
Found at i:797807 original size:17 final size:17
Alignment explanation
Indices: 797772--797819 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
797762 TATTTTCTCT
797772 AAATTCAATTTATTTTTG
1 AAATTCAATTTA-TTTTG
*
797790 AGATTCAATTTATTTTG
1 AAATTCAATTTATTTTG
797807 AAATTC-ATTTATT
1 AAATTCAATTTATT
797820 CTTTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.25
17 10 0.36
18 11 0.39
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.54
Consensus pattern (17 bp):
AAATTCAATTTATTTTG
Found at i:801043 original size:113 final size:113
Alignment explanation
Indices: 800826--801271 Score: 666
Period size: 113 Copynumber: 4.0 Consensus size: 113
800816 TAGCAAAGAT
* *
800826 TCAAATCCATCAC--AATGGATCAACATTTCCAGA-AAGAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTTGATGGATCAGCATTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTG
800888 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
* *
800937 CCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
801002 TGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTCCAACCTTTTTC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
* *
801050 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAATAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * ** * * *
801115 AGAAGGAAGAAGAAATTAATAATGAGAAGAATTTATTCAACTTTTTGT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
** * * *
801163 TTGAATTCATCATTTGATGGATCAGCATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
801228 AG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
801272 ATTTGATTCT
Statistics
Matches: 300, Mismatches: 32, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
111 12 0.04
112 36 0.12
113 250 0.83
114 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (113 bp):
TCAAATCCATCACTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
Found at i:801613 original size:11 final size:11
Alignment explanation
Indices: 801599--801623 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
801589 ACCCATTTGT
801599 TTTTAATATTA
1 TTTTAATATTA
801610 TTTTAATATTA
1 TTTTAATATTA
801621 TTT
1 TTT
801624 ATTATTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTAATATTA
Found at i:801629 original size:10 final size:10
Alignment explanation
Indices: 801600--801647 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
801590 CCCATTTGTT
801600 TTTAATATTA
1 TTTAATATTA
801610 TTTTAATATTA
1 -TTTAATATTA
*
801621 TTTATTATTA
1 TTTAATATTA
* *
801631 TATATTATTA
1 TTTAATATTA
*
801641 TTAAATA
1 TTTAATA
801648 ATTACAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 22 0.69
11 10 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTAATATTA
Found at i:810492 original size:2 final size:2
Alignment explanation
Indices: 810485--810512 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
810475 CTACACAATC
810485 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
810513 CAACATTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:811065 original size:14 final size:13
Alignment explanation
Indices: 811024--811066 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
811014 AATCATACCA
811024 AATTTCTTAATTC
1 AATTTCTTAATTC
* *
811037 AATTCTATTACTTC
1 AATT-TCTTAATTC
811051 ATATTTCTTAATTC
1 A-ATTTCTTAATTC
811065 AA
1 AA
811067 CTGATGACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
13 5 0.21
14 16 0.67
15 3 0.12
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (13 bp):
AATTTCTTAATTC
Found at i:817662 original size:34 final size:35
Alignment explanation
Indices: 817617--817684 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
817607 TTTTCAAAAA
*
817617 TGGTACCGATACTATCCTTAT-GGTATCGGTACCCT
1 TGGTACCGATACTA-CCTTATAGGTATCGATACCCT
*
817652 TGGTA-CGATACTACCTTCTAGGTATCGATACCC
1 TGGTACCGATACTACCTTATAGGTATCGATACCC
817685 CATGAATGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.32
Consensus pattern (35 bp):
TGGTACCGATACTACCTTATAGGTATCGATACCCT
Found at i:820940 original size:35 final size:36
Alignment explanation
Indices: 820882--820964 Score: 141
Period size: 35 Copynumber: 2.3 Consensus size: 36
820872 AGGTTCCTTC
*
820882 GAAGCAAGTCAATCTTAAGCCTTCACGGAAGAGTAGT
1 GAAGCAAATC-ATCTTAAGCCTTCACGGAAGAGTAGT
820919 GAAGCAAATCATCTT-AGCCTTCACGGAAGAGTAGT
1 GAAGCAAATCATCTTAAGCCTTCACGGAAGAGTAGT
820954 GAAGCAAATCA
1 GAAGCAAATCA
820965 GTCTCGAGTC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
35 31 0.69
36 5 0.11
37 9 0.20
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.20
Consensus pattern (36 bp):
GAAGCAAATCATCTTAAGCCTTCACGGAAGAGTAGT
Found at i:821235 original size:110 final size:111
Alignment explanation
Indices: 821015--821250 Score: 273
Period size: 110 Copynumber: 2.1 Consensus size: 111
821005 CATTTTCAGT
* *
821015 AGATTGTTCGAGT-TCTATACTCCCTGAAAGAATAGGGAGCGAACCCATTTTCATAAGATAGTTC
1 AGATTGTTCGAGTCTCTATACTCCCTGAAAGAATAGGGAGCAAACCCATTTTCAGAAGATAGTTC
* * ** **
821079 GAGTTCTATACTCCCTGAAAGAATAGGGAGCGGACCCGGTTGTCGA
66 AAGTCCTATACTCCCTGAAAGAATAGGGAGCAAACCCGCCTGTCGA
* * * ** **
821125 AGATTGTTCGAGTCT-TATATTCCTTGAAAGAATATGGAGCAAACTCGTTTTTC-GAAGATTTTT
1 AGATTGTTCGAGTCTCTATACTCCCTGAAAGAATAGGGAGCAAAC-CCATTTTCAGAAGATAGTT
821188 CAAGTCCTATACTCCCTGAAAGAATAGGGAGCAAACCCGCCCT-TCGA
65 CAAGTCCTATACTCCCTGAAAGAATAGGGAGCAAACCCG-CCTGTCGA
* *
821235 AGATTTTTCAAGTCTC
1 AGATTGTTCGAGTCTC
821251 ATTTATCCTG
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
110 97 0.92
111 8 0.08
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (111 bp):
AGATTGTTCGAGTCTCTATACTCCCTGAAAGAATAGGGAGCAAACCCATTTTCAGAAGATAGTTC
AAGTCCTATACTCCCTGAAAGAATAGGGAGCAAACCCGCCTGTCGA
Found at i:821248 original size:55 final size:54
Alignment explanation
Indices: 820979--821226 Score: 262
Period size: 55 Copynumber: 4.5 Consensus size: 54
820969 CGAGTCTGAT
* * * * * * *
820979 CTCCCTGAAGGTAGAGGAAGCAAACCCATTTTCAGTAGATTGTTCGAGTTCTATA
1 CTCCCTGAAAGAATAGGGAGCAAACCCGTTTTC-GAAGATTGTTCGAGTCCTATA
* * * * *
821034 CTCCCTGAAAGAATAGGGAGCGAACCCATTTTCATAAGATAGTTCGAGTTCTATA
1 CTCCCTGAAAGAATAGGGAGCAAACCCGTTTTC-GAAGATTGTTCGAGTCCTATA
** * *
821089 CTCCCTGAAAGAATAGGGAGCGGACCCGGTTGTCGAAGATTGTTCGAGTCTTATA
1 CTCCCTGAAAGAATAGGGAGCAAACCC-GTTTTCGAAGATTGTTCGAGTCCTATA
* * * * * *
821144 TTCCTTGAAAGAATATGGAGCAAACTCGTTTTTCGAAGATTTTTCAAGTCCTATA
1 CTCCCTGAAAGAATAGGGAGCAAACCCG-TTTTCGAAGATTGTTCGAGTCCTATA
821199 CTCCCTGAAAGAATAGGGAGCAAACCCG
1 CTCCCTGAAAGAATAGGGAGCAAACCCG
821227 CCCTTCGAAG
Statistics
Matches: 162, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
54 1 0.01
55 157 0.97
56 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (54 bp):
CTCCCTGAAAGAATAGGGAGCAAACCCGTTTTCGAAGATTGTTCGAGTCCTATA
Found at i:821261 original size:55 final size:54
Alignment explanation
Indices: 821037--821262 Score: 174
Period size: 55 Copynumber: 4.1 Consensus size: 54
821027 TTCTATACTC
* ** * ** *
821037 CCTGAAAGAATAGGGAGCGAACCCATTTTCATAAGATAGTTCGAGT-TC-TATACT
1 CCTGAAAGAATAGGGAGCAAACCCGCTTTC-GAAGATTTTTCAAGTCTCATATA-T
** * * * *
821091 CCCTGAAAGAATAGGGAGCGGACCCGGTTGTCGAAGATTGTTCGAGTCTTATAT-T
1 -CCTGAAAGAATAGGGAGCAAACCCGCTT-TCGAAGATTTTTCAAGTCTCATATAT
* * *
821146 CCTTGAAAGAATATGGAGCAAACTCGTTTTTCGAAGATTTTTCAAGTC-C-TATACT
1 CC-TGAAAGAATAGGGAGCAAACCCG-CTTTCGAAGATTTTTCAAGTCTCATATA-T
* *
821201 CCCTGAAAGAATAGGGAGCAAACCCGCCCTTCGAAGATTTTTCAAGTCTCATTTAT
1 -CCTGAAAGAATAGGGAGCAAACCCG-CTTTCGAAGATTTTTCAAGTCTCATATAT
821257 CCTGAA
1 CCTGAA
821263 GTAACAACGG
Statistics
Matches: 141, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
53 3 0.02
54 2 0.01
55 121 0.86
56 9 0.06
57 6 0.04
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (54 bp):
CCTGAAAGAATAGGGAGCAAACCCGCTTTCGAAGATTTTTCAAGTCTCATATAT
Found at i:823394 original size:13 final size:13
Alignment explanation
Indices: 823376--823405 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
823366 CTTAAAAAGA
*
823376 AAAATTGAAAGTT
1 AAAATTGAAAGGT
823389 AAAATTGAAAGGT
1 AAAATTGAAAGGT
823402 AAAA
1 AAAA
823406 CTCTGATCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (13 bp):
AAAATTGAAAGGT
Found at i:823879 original size:2 final size:2
Alignment explanation
Indices: 823874--823906 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
823864 GAAAAAAAAG
*
823874 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
823907 ATTAAACATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:826152 original size:99 final size:99
Alignment explanation
Indices: 826032--826214 Score: 278
Period size: 99 Copynumber: 1.8 Consensus size: 99
826022 TTGTTGACAG
* **
826032 TCAGCCGCCCCTTCGCTATGAAGTTGAGCTTGTGCTGTCTTGAGTCTAATATCCTTCGTTGTGAA
1 TCAGCCGCCCCTTCGCTATGAAGTTGAGCTTGTGCTGTCTTGAGTCCAATATCCTTCACTGTGAA
*
826097 GTTGAAATTGACTCTGAAAGTTGTTTGTTAATAA
66 GTTAAAATTGACTCTGAAAGTTGTTTGTTAATAA
* *
826131 TCAGCCGCCCCTTCG-TCATGAAGTTGAGCTTGTGTTGTCTTGGGTCCAATATCCTTCACTGTGA
1 TCAGCCGCCCCTTCGCT-ATGAAGTTGAGCTTGTGCTGTCTTGAGTCCAATATCCTTCACTGTGA
**
826195 AGTTAAAATTGGTTCTGAAA
65 AGTTAAAATTGACTCTGAAA
826215 TTGGGAAGCT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
98 1 0.01
99 74 0.99
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (99 bp):
TCAGCCGCCCCTTCGCTATGAAGTTGAGCTTGTGCTGTCTTGAGTCCAATATCCTTCACTGTGAA
GTTAAAATTGACTCTGAAAGTTGTTTGTTAATAA
Found at i:837810 original size:4 final size:4
Alignment explanation
Indices: 837801--837892 Score: 55
Period size: 4 Copynumber: 23.0 Consensus size: 4
837791 ACATATATAC
* * * * **
837801 ATAA ATAA AT-G ATAA ATAA A-ATG ATAA ATAA ATCA A-AG ATAA GGAA
1 ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA
* * *
837847 ATAA AAAA ATAA AAAGA AGAAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATA-A A-TAA ATAA ATAA ATAA ATAA ATAA ATAA
837893 GGTAAGGAAA
Statistics
Matches: 66, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
3 4 0.06
4 55 0.83
5 5 0.08
6 2 0.03
ACGTcount: A:0.72, C:0.01, G:0.08, T:0.20
Consensus pattern (4 bp):
ATAA
Found at i:838209 original size:55 final size:54
Alignment explanation
Indices: 838111--838221 Score: 134
Period size: 55 Copynumber: 2.0 Consensus size: 54
838101 AATAATAAAG
* * * *
838111 AAACAAAGAATATATATATATATACATATAATTAAACATGAGGAAAACCAAGAAA
1 AAACAAAGAATATATATATACATACATATAATTAAAAACGAGGAAAA-AAAGAAA
* **
838166 AAACAAAGAATATATATATACGTTTATAGTAA-TAAAAACGAGGAAAAAAAGAAA
1 AAACAAAGAATATATATATACATACATA-TAATTAAAAACGAGGAAAAAAAGAAA
838220 AA
1 AA
838222 TAATAATATA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 8 0.17
55 37 0.77
56 3 0.06
ACGTcount: A:0.61, C:0.07, G:0.11, T:0.21
Consensus pattern (54 bp):
AAACAAAGAATATATATATACATACATATAATTAAAAACGAGGAAAAAAAGAAA
Found at i:839349 original size:7 final size:7
Alignment explanation
Indices: 839337--839381 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
839327 AATGTTAATA
839337 AATATAT
1 AATATAT
839344 -A-ATAT
1 AATATAT
*
839349 AATTTAT
1 AATATAT
839356 AATATA-
1 AATATAT
839362 AATATAT
1 AATATAT
*
839369 ATTATAT
1 AATATAT
839376 AATATA
1 AATATA
839382 AGGACGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
5 4 0.13
6 8 0.26
7 19 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATATAT
Found at i:839358 original size:12 final size:12
Alignment explanation
Indices: 839332--839382 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
839322 AAAAGAATGT
839332 TAATA-AATATA
1 TAATATAATATA
*
839343 TAATATAATTTA
1 TAATATAATATA
839355 TAATATAA-ATA
1 TAATATAATATA
839366 T-ATAT--TATA
1 TAATATAATATA
839375 TAATATAA
1 TAATATAA
839383 GGACGAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
9 4 0.12
10 8 0.24
11 8 0.24
12 13 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATATAATATA
Found at i:839368 original size:20 final size:20
Alignment explanation
Indices: 839337--839382 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
839327 AATGTTAATA
839337 AATATATAATATA-ATT-TAT
1 AATATA-AATATATATTATAT
839356 AATATAAATATATATTATAT
1 AATATAAATATATATTATAT
839376 AATATAA
1 AATATAA
839383 GGACGAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.24
19 9 0.36
20 10 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATATAAATATATATTATAT
Found at i:839381 original size:25 final size:24
Alignment explanation
Indices: 839334--839382 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
839324 AAGAATGTTA
839334 ATAAATATATAATATAATTTATAAT
1 ATAAATATATAATATAA-TTATAAT
839359 ATAAATATATATTATATAA-TATAA
1 ATAAATATATA--ATATAATTATAA
839383 GGACGAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 16 0.73
27 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATAAATATATAATATAATTATAAT
Found at i:840192 original size:22 final size:22
Alignment explanation
Indices: 840167--840219 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
840157 TATTATTTAA
*
840167 AAATAAATAAAATAA-TAATTAT
1 AAAT-AATAAAATAATTAAATAT
*
840189 AAATATTAAAATAATTAAATAT
1 AAATAATAAAATAATTAAATAT
840211 AAATCAATA
1 AAAT-AATA
840220 TAGGGTAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 9 0.35
22 14 0.54
23 3 0.12
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
AAATAATAAAATAATTAAATAT
Found at i:840219 original size:18 final size:19
Alignment explanation
Indices: 840169--840219 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
840159 TTATTTAAAA
840169 ATAAATA-AAATAATAATT
1 ATAAATATAAATAATAATT
*
840187 ATAAATATTAA-AATAA-T
1 ATAAATATAAATAATAATT
840204 -TAAATATAAATCAATA
1 ATAAATATAAAT-AATA
840220 TAGGGTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 9 0.32
17 1 0.04
18 16 0.57
19 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAATATAAATAATAATT
Found at i:841245 original size:17 final size:17
Alignment explanation
Indices: 841223--841264 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
841213 AAACAATATT
841223 AAATAAAAACAT-CACTA
1 AAATAAAAACATGCA-TA
*
841240 AAAT-AAATCATGCATA
1 AAATAAAAACATGCATA
841256 AAATAAAAA
1 AAATAAAAA
841265 AAAAATCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.67, C:0.12, G:0.02, T:0.19
Consensus pattern (17 bp):
AAATAAAAACATGCATA
Found at i:842385 original size:18 final size:19
Alignment explanation
Indices: 842362--842398 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
842352 TTCAAATTAG
*
842362 TCTTCCAT-TTTATCCAAA
1 TCTTCCATATTGATCCAAA
842380 TCTTCCATATTGATCCAAA
1 TCTTCCATATTGATCCAAA
842399 ATTAGCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.41
Consensus pattern (19 bp):
TCTTCCATATTGATCCAAA
Found at i:843884 original size:12 final size:13
Alignment explanation
Indices: 843845--843884 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
843835 GATTGTCTTA
843845 GAGATTCAGATTTC
1 GAGATT-AGATTTC
*
843859 TAGATTAGATTTC
1 GAGATTAGATTTC
843872 GAGATTA-ATTTC
1 GAGATTAGATTTC
843884 G
1 G
843885 GATCGGGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 6 0.25
13 13 0.54
14 5 0.21
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (13 bp):
GAGATTAGATTTC
Found at i:844490 original size:22 final size:22
Alignment explanation
Indices: 844465--844510 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
844455 ATATATATAT
844465 ATATAAATAAATAAAAAAGTAA
1 ATATAAATAAATAAAAAAGTAA
* * * *
844487 ATATATATAATTAATAAATTAA
1 ATATAAATAAATAAAAAAGTAA
844509 AT
1 AT
844511 GACGAAAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
ATATAAATAAATAAAAAAGTAA
Found at i:844695 original size:15 final size:16
Alignment explanation
Indices: 844675--844712 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
844665 ATATATATAC
844675 ATATAATAAT-AATGA
1 ATATAATAATAAATGA
*
844690 ATATAAAAATAAATGA
1 ATATAATAATAAATGA
844706 ATA-AATA
1 ATATAATA
844713 TCCATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (16 bp):
ATATAATAATAAATGA
Found at i:846015 original size:105 final size:105
Alignment explanation
Indices: 845707--846320 Score: 943
Period size: 105 Copynumber: 5.9 Consensus size: 105
845697 GCATTGTTCC
* ** *
845707 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACA
* * * * *
845771 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
845813 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* *
845873 CAGCGGTCCCTTCATCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
845913 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
845978 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
846018 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
846083 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
846123 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
846188 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
846228 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAA
* * *
846293 CCAGCCGTCCCTTCGTTGTGAAGTTGAA
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAA
846321 TTTGACTCTA
Statistics
Matches: 474, Mismatches: 27, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
100 83 0.18
101 1 0.00
102 7 0.01
104 5 0.01
105 306 0.65
106 72 0.15
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:846788 original size:39 final size:39
Alignment explanation
Indices: 846734--846808 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
846724 TCAATGTTTA
*
846734 TGTTTCAAGAGAAACTATCTCAAGG-GAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
* *
846773 TGTTTCGAGGGAAACTATCTCAGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATT
846809 AATTTCAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 3 0.09
39 29 0.91
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
Found at i:846847 original size:105 final size:104
Alignment explanation
Indices: 846513--846831 Score: 500
Period size: 105 Copynumber: 3.1 Consensus size: 104
846503 TTTGTTAAAT
* ** * * *
846513 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGATAAAA--TTC-GTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* * *
846575 AAACTATCTCAAGCGATATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
846614 TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
*
846679 AAACTATCTCAAGAGAGAAAAAAAATCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAG-AAAAAATTCATTTCAAGGGAAA
846719 TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
846784 AAACTATCTCAGGAGAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
846823 TGTTTTCAA
1 TGTTTTCAA
846832 GAGAAACTGT
Statistics
Matches: 201, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
101 44 0.22
103 3 0.01
104 53 0.26
105 101 0.50
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:846987 original size:36 final size:36
Alignment explanation
Indices: 846954--847061 Score: 119
Period size: 36 Copynumber: 3.0 Consensus size: 36
846944 GTGAAAACGG
*
846954 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGACAAATCTTGTTTTAAGAAAAACAA
** * * * **
846990 TCTTGAGTGAAATAAATCTTCTTTCGAGAAAAACAA
1 TCTCAAGTGAGACAAATCTTGTTTTAAGAAAAACAA
*
847026 TCTCAAGTGAGACAAAGT-ATGTTTTAAGAAAAACAA
1 TCTCAAGTGAGACAAA-TCTTGTTTTAAGAAAAACAA
847062 ATTTGAGTGA
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
36 54 0.98
37 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
TCTCAAGTGAGACAAATCTTGTTTTAAGAAAAACAA
Found at i:847040 original size:72 final size:74
Alignment explanation
Indices: 846902--847076 Score: 207
Period size: 72 Copynumber: 2.4 Consensus size: 74
846892 TAAAATCTTC
** * **
846902 TTAA-AAAAACAGCCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCTCAAGCGAGA
1 TTAAGAAAAACAATCTTGAGTGAAAT-AAAT-CCTTCTTTCGAGTAAAAACAATCTCAAGCGAGA
*
846966 CAAA-TCTTGTT
64 CAAAGT-ATGTT
*
846977 TTAAGAAAAACAATCTTGAGTGAAATAAAT-CTTCTTTCGAG-AAAAACAATCTCAAGTGAGACA
1 TTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAATCTCAAGCGAGACA
847040 AAGTATGTT
66 AAGTATGTT
*
847049 TTAAGAAAAACAAAT-TTGAGTGAGATAA
1 TTAAGAAAAAC-AATCTTGAGTGAAATAA
847077 TCATCTGCAT
Statistics
Matches: 89, Mismatches: 8, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
72 47 0.53
73 15 0.17
75 8 0.09
76 19 0.21
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (74 bp):
TTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAATCTCAAGCGAGACA
AAGTATGTT
Found at i:848517 original size:183 final size:183
Alignment explanation
Indices: 848207--848743 Score: 968
Period size: 183 Copynumber: 2.9 Consensus size: 183
848197 ATCAGGTTTA
*
848207 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
**
848272 GCCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAATGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
848336 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
848390 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGAAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* *
848455 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGATTTCGAGTT
66 GCCAAGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
*
848520 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGATAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
* * *
848573 ACTAAAGGGTTCATCTTATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACATCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
848638 GCCAAGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
848703 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
848744 CGGATTTAAT
Statistics
Matches: 340, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
183 339 1.00
184 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:853676 original size:18 final size:17
Alignment explanation
Indices: 853653--853695 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
853643 ACATATATAC
853653 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
853671 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
853688 ATAA-AATA
1 ATAATAATA
853696 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:862157 original size:38 final size:38
Alignment explanation
Indices: 862083--862160 Score: 140
Period size: 39 Copynumber: 2.1 Consensus size: 38
862073 GAATTAACCC
862083 AGGTGATTAGTAGATCTAGATCCAGATATCGAAACACG
1 AGGTGATTAGTAGATCTAGATCCAGATATCGAAACACG
862121 AGGTGAATTAGTAGATCTAGATCCAGATATCG-AACACG
1 AGGTG-ATTAGTAGATCTAGATCCAGATATCGAAACACG
862159 AG
1 AG
862161 CATGAAGAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 13 0.33
39 26 0.67
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (38 bp):
AGGTGATTAGTAGATCTAGATCCAGATATCGAAACACG
Found at i:867379 original size:4 final size:5
Alignment explanation
Indices: 867293--867383 Score: 62
Period size: 5 Copynumber: 17.8 Consensus size: 5
867283 TGTTCTATTT
* * **
867293 TTTTA TTTCA TTTTA TTTTCG TTTTA TTTTTA TTTTAA TTTTA -GCTA
1 TTTTA TTTTA TTTTA TTTT-A TTTTA -TTTTA TTTT-A TTTTA TTTTA
* *
867340 GCTTTA TTTTCA TTCTA -TTTA TTTTA TTTTA TTTTA -TTTA TTTT
1 -TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
867384 CTCTGAACAG
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
4 9 0.13
5 38 0.57
6 20 0.30
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (5 bp):
TTTTA
Found at i:869077 original size:72 final size:73
Alignment explanation
Indices: 868989--869153 Score: 183
Period size: 73 Copynumber: 2.2 Consensus size: 73
868979 AATTAAACTC
*
868989 AAGTTAGGATAATATTTTAAACATTATAT-TTTATCTTT-GAATTTTAGTTTAAATAGGTTTTAG
1 AAGTTAGGATATTATTTT-AACATTATATCTTTAT-TTTAGAATTTTAGTTTAAATAGGTTTTAG
869052 TA-TTTAATT
64 TATTTTAATT
* * * * * *
869061 AAGTTAGGATATTATTTTTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATATGTTTTAGT
1 AAGTTAGGATATTATTTTAACATTATATCTTTATTTTA-GAATTTTAGTTTAAATAGGTTTTAGT
869126 ATTTTAATT
65 ATTTTAATT
* *
869135 AGGATTTAGAATATTATTT
1 A--AGTTAGGATATTATTT
869154 AGAATATTAT
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
71 10 0.13
72 21 0.27
73 25 0.32
74 8 0.10
76 14 0.18
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.55
Consensus pattern (73 bp):
AAGTTAGGATATTATTTTAACATTATATCTTTATTTTAGAATTTTAGTTTAAATAGGTTTTAGTA
TTTTAATT
Found at i:869113 original size:73 final size:69
Alignment explanation
Indices: 869029--869194 Score: 192
Period size: 73 Copynumber: 2.3 Consensus size: 69
869019 TTATCTTTGA
* ** *
869029 ATTTTAGTTTAAATAGGTTTTAGTA-TTTAATTA-AGTTAGGATATTATTTTTATATTTTATCTT
1 ATTTTAGTTTAAATA-GTTTTAGTATTTTAATTAGAGTTAGAATATTATTTAGA-ATATTA---T
869092 TGTTTTAGGT
61 T-TTTTAGGT
*
869102 ATTTTAGTTTAAATATGTTTTAGTATTTTAATTAGGATTTAGAATATTATTTAGAATATTATTTT
1 ATTTTAGTTTAAATA-GTTTTAGTATTTTAATTA-GAGTTAGAATATTATTTAGAATATTATTTT
869167 TTAGGT
64 TTAGGT
869173 ATTTTTAGTTTAAATAGTTTTA
1 A-TTTTAGTTTAAATAGTTTTA
869195 ATTAGAATTT
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
71 15 0.18
72 16 0.19
73 24 0.29
74 8 0.10
75 5 0.06
76 15 0.18
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.57
Consensus pattern (69 bp):
ATTTTAGTTTAAATAGTTTTAGTATTTTAATTAGAGTTAGAATATTATTTAGAATATTATTTTTT
AGGT
Found at i:869153 original size:12 final size:12
Alignment explanation
Indices: 869138--869165 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
869128 TTTAATTAGG
869138 ATTTAGAATATT
1 ATTTAGAATATT
869150 ATTTAGAATATT
1 ATTTAGAATATT
869162 ATTT
1 ATTT
869166 TTTAGGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (12 bp):
ATTTAGAATATT
Found at i:873151 original size:23 final size:23
Alignment explanation
Indices: 873119--873194 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
873109 AGCTTGGAAG
*
873119 TAACTTAAAGTAAGACATTCCAA
1 TAACTCAAAGTAAGACATTCCAA
873142 TAACTCAAAGTAAGACATTCCAA
1 TAACTCAAAGTAAGACATTCCAA
873165 TAACTCAAAGTAAGACATTCCAA
1 TAACTCAAAGTAAGACATTCCAA
873188 TAACTCA
1 TAACTCA
873195 CTAGTCTAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.24
Consensus pattern (23 bp):
TAACTCAAAGTAAGACATTCCAA
Found at i:877619 original size:17 final size:15
Alignment explanation
Indices: 877583--877611 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
877573 CCGAGTGACG
877583 TTTATTATATATACA
1 TTTATTATATATACA
877598 TTTATTATATATAC
1 TTTATTATATATAC
877612 GTTCTTATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTATTATATATACA
Found at i:877646 original size:14 final size:16
Alignment explanation
Indices: 877627--877658 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
877617 TATACATAAT
877627 AATATTA-TATTT-TA
1 AATATTATTATTTGTA
877641 AATATTATTATTTGTA
1 AATATTATTATTTGTA
877657 AA
1 AA
877659 GCTCGAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 5 0.31
16 4 0.25
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
AATATTATTATTTGTA
Found at i:877950 original size:14 final size:14
Alignment explanation
Indices: 877931--877957 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
877921 TGATTTCAGA
877931 AACCCTAGGGTATC
1 AACCCTAGGGTATC
877945 AACCCTAGGGTAT
1 AACCCTAGGGTAT
877958 ATTCCGGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (14 bp):
AACCCTAGGGTATC
Found at i:878835 original size:3 final size:3
Alignment explanation
Indices: 878827--878862 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
878817 TATTTTAGTC
878827 ATT ATT ATT ATT ATT ATT ATT ATT A-T ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
878863 TATTTATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:879599 original size:11 final size:11
Alignment explanation
Indices: 879583--879607 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
879573 GTAAATAATG
879583 ATTTTGTTTTA
1 ATTTTGTTTTA
879594 ATTTTGTTTTA
1 ATTTTGTTTTA
879605 ATT
1 ATT
879608 CTTTTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (11 bp):
ATTTTGTTTTA
Found at i:885412 original size:22 final size:22
Alignment explanation
Indices: 885381--885426 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
885371 ATTCTGCAAG
885381 GATGACAGATTCTCTTTTCAAA
1 GATGACAGATTCTCTTTTCAAA
*
885403 GATGATAGATTCTCTTTTCAAA
1 GATGACAGATTCTCTTTTCAAA
885425 GA
1 GA
885427 CCAAAGCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (22 bp):
GATGACAGATTCTCTTTTCAAA
Found at i:886035 original size:46 final size:46
Alignment explanation
Indices: 885979--886090 Score: 174
Period size: 46 Copynumber: 2.5 Consensus size: 46
885969 AAAATCTGAG
* * *
885979 CTCCAC-AAAAGAGTAGTGGAATGGATTTTTCAGCAAAGTATCAAA
1 CTCCACGAAAAGAGTAGTGGAACGGATTTTTCAACAAAGTATAAAA
886024 CTCCACGAAAAGAGTAGTGGAACGGATTTTTCAACAAAGTATAAAA
1 CTCCACGAAAAGAGTAGTGGAACGGATTTTTCAACAAAGTATAAAA
*
886070 CTCCACG-GAAGAGTAGTGGAA
1 CTCCACGAAAAGAGTAGTGGAA
886091 GCAAATTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 19 0.31
46 43 0.69
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.21
Consensus pattern (46 bp):
CTCCACGAAAAGAGTAGTGGAACGGATTTTTCAACAAAGTATAAAA
Found at i:886385 original size:51 final size:47
Alignment explanation
Indices: 886298--886419 Score: 129
Period size: 51 Copynumber: 2.5 Consensus size: 47
886288 TGAATCTGAA
* * *
886298 CTTCATGGAAGAGTAGTGAAACAGATTCAATTCAAGTCATCCAAGATCAAC
1 CTTCACGGAAGAGTAGTGAAGCAGAATCAATTCAAGTCATCC----TCAAC
* * *
886349 CTTCACGGAAGAGTAGTGAAGCA-AATCATTTGCAAGTCATTCTCAGC
1 CTTCACGGAAGAGTAGTGAAGCAGAATCAATT-CAAGTCATCCTCAAC
*
886396 CTTCACAGAAGAGTAGTGAAGCAG
1 CTTCACGGAAGAGTAGTGAAGCAG
886420 GAACACGATT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
47 26 0.42
50 6 0.10
51 30 0.48
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (47 bp):
CTTCACGGAAGAGTAGTGAAGCAGAATCAATTCAAGTCATCCTCAAC
Found at i:886610 original size:15 final size:15
Alignment explanation
Indices: 886590--886633 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
886580 TCCGAGTGAC
886590 ATTTATTATATATAA
1 ATTTATTATATATAA
*
886605 ATTTATTATATATAC
1 ATTTATTATATATAA
*
886620 A-TTGTTATATATAA
1 ATTTATTATATATAA
886634 TAATATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTTATTATATATAA
Found at i:886644 original size:15 final size:14
Alignment explanation
Indices: 886593--886657 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 14
886583 GAGTGACATT
*
886593 TATTATATATAAATT
1 TATTATATATAAA-A
* *
886608 TATTATATATACAT
1 TATTATATATAAAA
*
886622 TGTTATATATAATAA
1 TATTATATATAA-AA
*
886637 TATTATATTTTAAAA
1 TATTATA-TATAAAA
886652 TATTAT
1 TATTAT
886658 TTGTAAAGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
14 11 0.26
15 27 0.64
16 4 0.10
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (14 bp):
TATTATATATAAAA
Found at i:886728 original size:21 final size:22
Alignment explanation
Indices: 886686--886732 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
886676 GGTTACAAAG
*
886686 CAAGGCACACATGCCCAAGATTA
1 CAAGGCACACAGGCCC-AGATTA
*
886709 CAAGGCACACAGGCTC-GATTA
1 CAAGGCACACAGGCCCAGATTA
886730 CAA
1 CAA
886733 CCAAGCCCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
23 14 0.64
ACGTcount: A:0.38, C:0.30, G:0.19, T:0.13
Consensus pattern (22 bp):
CAAGGCACACAGGCCCAGATTA
Found at i:886984 original size:36 final size:36
Alignment explanation
Indices: 886937--887008 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
886927 TGATTCCAAA
*
886937 AACCCTAGGGCCTATTTCGGCCACTGCCTCTAATGC
1 AACCCTAGGGCCTATTTCGGCCACCGCCTCTAATGC
*
886973 AACCCTAGGGCCTATTTTGGCCACCGCCTCTAATGC
1 AACCCTAGGGCCTATTTCGGCCACCGCCTCTAATGC
887009 TCCAACCGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.19, C:0.36, G:0.19, T:0.25
Consensus pattern (36 bp):
AACCCTAGGGCCTATTTCGGCCACCGCCTCTAATGC
Found at i:887249 original size:21 final size:21
Alignment explanation
Indices: 887225--887271 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
887215 CCCAACAAAC
887225 AGCAACAGAGAGACAGAACGA
1 AGCAACAGAGAGACAGAACGA
* *
887246 AGCAATAGAGAGACATAACGA
1 AGCAACAGAGAGACAGAACGA
887267 AGCAA
1 AGCAA
887272 AAGCCACAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.53, C:0.17, G:0.26, T:0.04
Consensus pattern (21 bp):
AGCAACAGAGAGACAGAACGA
Found at i:888075 original size:56 final size:57
Alignment explanation
Indices: 888002--888115 Score: 139
Period size: 56 Copynumber: 2.0 Consensus size: 57
887992 ATTAGGTTAT
888002 TTAATTTTATTACTTTATATT-TTAATTATTA-ATAATTAGTATATTAT-AT-ATATTAA
1 TTAATTTTATTACTTTATATTATT-ATT-TTACATAATTAGTA-ATTATAATAATATTAA
* *
888058 TTAATGTTTA-TATTTTATATTATTATTTTACATAATTTGTAATTATAATAATATTAA
1 TTAAT-TTTATTACTTTATATTATTATTTTACATAATTAGTAATTATAATAATATTAA
888115 T
1 T
888116 AGCATTAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
55 8 0.16
56 29 0.57
57 14 0.27
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.57
Consensus pattern (57 bp):
TTAATTTTATTACTTTATATTATTATTTTACATAATTAGTAATTATAATAATATTAA
Found at i:888177 original size:21 final size:20
Alignment explanation
Indices: 888134--888179 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
888124 TAATATTATG
*
888134 TTAAATATTTAGTAAATATT
1 TTAAATATTTAGTAAATAGT
888154 TTAAATTATTT-GTAAATTAGT
1 TTAAA-TATTTAGTAAA-TAGT
888175 TTAAA
1 TTAAA
888180 GAACAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (20 bp):
TTAAATATTTAGTAAATAGT
Found at i:890538 original size:2 final size:2
Alignment explanation
Indices: 890531--890565 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
890521 ACTTGCAAGA
890531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
890566 ATTTTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:899235 original size:4 final size:4
Alignment explanation
Indices: 899226--899251 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
899216 GTATGTAAAT
899226 TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TT
899252 CCTTCCTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:919600 original size:26 final size:26
Alignment explanation
Indices: 919564--919655 Score: 175
Period size: 26 Copynumber: 3.5 Consensus size: 26
919554 TAAATTGAAG
*
919564 AATTATGACATATTGTTTAGCTTTAA
1 AATTATGACATATTGTTTAGCTTTGA
919590 AATTATGACATATTGTTTAGCTTTGA
1 AATTATGACATATTGTTTAGCTTTGA
919616 AATTATGACATATTGTTTAGCTTTGA
1 AATTATGACATATTGTTTAGCTTTGA
919642 AATTATGACATATT
1 AATTATGACATATT
919656 ACGTTCTTTT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 65 1.00
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.46
Consensus pattern (26 bp):
AATTATGACATATTGTTTAGCTTTGA
Found at i:922752 original size:25 final size:26
Alignment explanation
Indices: 922719--922780 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
922709 ATAACAAAGT
*
922719 AATATATAATAATATACGT-AAAATA
1 AATACATAATAATATACGTAAAAATA
* *
922744 GATACATAATAATATACTTAAAAATA
1 AATACATAATAATATACGTAAAAATA
*
922770 AATACGTAATA
1 AATACATAATA
922781 CATAAAACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
25 16 0.52
26 15 0.48
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.31
Consensus pattern (26 bp):
AATACATAATAATATACGTAAAAATA
Found at i:924588 original size:19 final size:20
Alignment explanation
Indices: 924563--924608 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
924553 AAAACACCTT
924563 GCCCGAAGGTCTTA-GGATG
1 GCCCGAAGGTCTTATGGATG
*
924582 TCCCGAAGGTCTTATGGATG
1 GCCCGAAGGTCTTATGGATG
924602 GCCCGAA
1 GCCCGAA
924609 AGACTTACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.22, C:0.24, G:0.33, T:0.22
Consensus pattern (20 bp):
GCCCGAAGGTCTTATGGATG
Found at i:924646 original size:42 final size:42
Alignment explanation
Indices: 924598--924698 Score: 150
Period size: 42 Copynumber: 2.4 Consensus size: 42
924588 AGGTCTTATG
* *
924598 GATGGCCCGAAAGACTTACACATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAAGACTTACACATCAAGATCGAAAGACTTACT
*
924640 GATGGCCC-AAAGGACTTACACATCAAGATCGAGAGACTTACT
1 GATGGCCCGAAA-GACTTACACATCAAGATCGAAAGACTTACT
*
924682 GATGGCCCGAAGGACTT
1 GATGGCCCGAAAGACTT
924699 CAGCTGATTC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
41 3 0.06
42 48 0.91
43 2 0.04
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.20
Consensus pattern (42 bp):
GATGGCCCGAAAGACTTACACATCAAGATCGAAAGACTTACT
Found at i:924794 original size:59 final size:60
Alignment explanation
Indices: 924701--924949 Score: 358
Period size: 59 Copynumber: 4.2 Consensus size: 60
924691 AAGGACTTCA
* *
924701 GCTGATTCGAAGTGTTGTGAATCGAGCAGTAGGAAATGTTAACCCCTATGGTGGGGCGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTATAGTGGGGCGTT
* * *
924761 GCTGATTCGTAGTG-TGTGAATCGAGCAATAGGAAATGTTAACCCCTCTATTGGGGCGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTATAGTGGGGCGTT
* *
924820 GCTGATTCGAAGTG-TGTGAATCGAGCAATAGGAAATGTTAACCCCTATGGTAGGGCGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTATAGTGGGGCGTT
* * * * * * *
924879 ACCGATTCGAAGTGTTGTGAATCAAGCAATATGAAATGTTAACCTCTCTAGTGGGGTGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTATAGTGGGGCGTT
924939 GCTGATTCGAA
1 GCTGATTCGAA
924950 CAAAGGAAAT
Statistics
Matches: 167, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
59 107 0.64
60 60 0.36
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (60 bp):
GCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTATAGTGGGGCGTT
Found at i:924934 original size:119 final size:119
Alignment explanation
Indices: 924701--924949 Score: 392
Period size: 119 Copynumber: 2.1 Consensus size: 119
924691 AAGGACTTCA
* * * *
924701 GCTGATTCGAAGTGTTGTGAATCGAGCAGTAGGAAATGTTAACCCCTATGGTGGGGCGTTGCTGA
1 GCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTATGGTAGGGCGTTACCGA
* * *
924766 TTCGTAGTGTGTGAATCGAGCAATAGGAAATGTTAACCCCTCTATTGGGGCGTT
66 TTCGAAGTGTGTGAATCAAGCAATAGGAAATGTTAACCCCTCTAGTGGGGCGTT
924820 GCTGATTCGAAGTG-TGTGAATCGAGCAATAGGAAATGTTAACCCCTATGGTAGGGCGTTACCGA
1 GCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTATGGTAGGGCGTTACCGA
* * *
924884 TTCGAAGTGTTGTGAATCAAGCAATATGAAATGTTAACCTCTCTAGTGGGGTGTT
66 TTCGAAGTG-TGTGAATCAAGCAATAGGAAATGTTAACCCCTCTAGTGGGGCGTT
924939 GCTGATTCGAA
1 GCTGATTCGAA
924950 CAAAGGAAAT
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
118 54 0.45
119 65 0.55
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (119 bp):
GCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTATGGTAGGGCGTTACCGA
TTCGAAGTGTGTGAATCAAGCAATAGGAAATGTTAACCCCTCTAGTGGGGCGTT
Found at i:925048 original size:22 final size:22
Alignment explanation
Indices: 925018--925092 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
925008 ATAGATGGCC
*
925018 CAAAGGACTTATACATCATGCT
1 CAAAAGACTTATACATCATGCT
* *
925040 CAAAAGAC-T-TAC-TGATAGCC
1 CAAAAGACTTATACATCAT-GCT
* *
925060 CGAAGGACTTATACATCATGCT
1 CAAAAGACTTATACATCATGCT
*
925082 CGAAAGACTTA
1 CAAAAGACTTA
925093 CTGATGGCCC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
19 3 0.07
20 11 0.27
21 2 0.05
22 22 0.54
23 3 0.07
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (22 bp):
CAAAAGACTTATACATCATGCT
Found at i:925066 original size:42 final size:42
Alignment explanation
Indices: 924974--925112 Score: 192
Period size: 42 Copynumber: 3.3 Consensus size: 42
924964 AAAACATCCT
* * * *
924974 GCCCGAAGGACTTAT-CTTCTTTCTCTAAAGACTTA-TAGATG
1 GCCCGAAGGACTTATACATCATGCTCAAAAGACTTACT-GATG
* *
925015 GCCCAAAGGACTTATACATCATGCTCAAAAGACTTACTGATA
1 GCCCGAAGGACTTATACATCATGCTCAAAAGACTTACTGATG
*
925057 GCCCGAAGGACTTATACATCATGCTCGAAAGACTTACTGATG
1 GCCCGAAGGACTTATACATCATGCTCAAAAGACTTACTGATG
925099 GCCCGAAGGACTTA
1 GCCCGAAGGACTTA
925113 CTTATCAAGA
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
41 14 0.16
42 72 0.83
43 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (42 bp):
GCCCGAAGGACTTATACATCATGCTCAAAAGACTTACTGATG
Found at i:925070 original size:20 final size:20
Alignment explanation
Indices: 925045--925114 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
925035 ATGCTCAAAA
925045 GACTTACTGATAGCCCGAAG
1 GACTTACTGATAGCCCGAAG
* * *
925065 GACTTA-TACATCATGCTCGAAA
1 GACTTACT-GAT-A-GCCCGAAG
*
925087 GACTTACTGATGGCCCGAAG
1 GACTTACTGATAGCCCGAAG
925107 GACTTACT
1 GACTTACT
925115 TATCAAGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 1 0.03
20 22 0.56
21 1 0.03
22 14 0.36
23 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (20 bp):
GACTTACTGATAGCCCGAAG
Found at i:925488 original size:54 final size:54
Alignment explanation
Indices: 925170--925632 Score: 455
Period size: 54 Copynumber: 8.6 Consensus size: 54
925160 GGAACCCCTA
* * * **
925170 AAAATTAGGCTTAGTTTCCTTTTAAAAACTCATTGAAAATCATCATCAAGAAACCCCTG
1 AAAATCAGACTTAGTTT-C-TTTAAAAACTCATT-TAAA--ATCATCAAGAAACTTCTG
* *
925229 AAAATCATGA-TTAGTTTC--TAAAAACTCATTTGAAAA-CATCAAGAAA-TCCCTAA
1 AAAATCA-GACTTAGTTTCTTTAAAAACTCATTT-AAAATCATCAAGAAACT-TCT-G
* * * * *
925282 AAAAT-AGGCTTAATTTCTTT-GAAATTCATTTGAAA-CATCAAGAAAC-TCTTG
1 AAAATCAGACTTAGTTTCTTTAAAAACTCATTTAAAATCATCAAGAAACTTC-TG
* * * * * ** *
925333 AAAATCAGGCTTAGCTTCTTT-CAAATTCATTTGAAAA-CATCTAGAAACCCCTA
1 AAAATCAGACTTAGTTTCTTTAAAAACTCATTT-AAAATCATCAAGAAACTTCTG
* * * * * *
925386 AAAATTAGGCTTAATTTCTTTGAAAATTCTTTTAAAAATCATCAAGAAACTTCTG
1 AAAATCAGACTTAGTTTCTTTAAAAACTCATTT-AAAATCATCAAGAAACTTCTG
* *
925441 AAAATCAAACTTAGTTTCTTT-AAAACTCATTTAAAAATCGTCAAGAAACTTCTG
1 AAAATCAGACTTAGTTTCTTTAAAAACTCATTT-AAAATCATCAAGAAACTTCTG
*
925495 AAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAATCATCAAGAAACTTCTG
1 AAAATCAGACTTAGTTTCTTTAAAAACTCATTTAAAATCATCAAGAAACTTCTG
*
925549 AAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAATCATCAAGAAACTTCTG
1 AAAATCAGACTTAGTTTCTTTAAAAACTCATTTAAAATCATCAAGAAACTTCTG
925603 AAAATCAGACTTAGTTTCTTTAAAAACTCA
1 AAAATCAGACTTAGTTTCTTTAAAAACTCA
925633 CTAGCTGGGT
Statistics
Matches: 350, Mismatches: 39, Indels: 35
0.83 0.09 0.08
Matches are distributed among these distances:
51 7 0.02
52 58 0.17
53 47 0.13
54 168 0.48
55 55 0.16
58 1 0.00
59 13 0.04
60 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (54 bp):
AAAATCAGACTTAGTTTCTTTAAAAACTCATTTAAAATCATCAAGAAACTTCTG
Found at i:925533 original size:108 final size:107
Alignment explanation
Indices: 925156--925632 Score: 502
Period size: 108 Copynumber: 4.4 Consensus size: 107
925146 TTCTTAGTTG
* * *
925156 TCAAGGAACCCCTAAAAATTAGGCTTAGTTTCCTTTTAAAAACTCA-TTGAAAATCATCATCAAG
1 TCAAGAAACTCCTAAAAATCAGGCTTAGTTT-C-TTTAAAAACTCATTTG--AA--ATCATCAAG
** *
925220 AAACCCCTGAAAATCATGA-TTAGTTTC-TAAAAACTCATTTGAAAACA
60 AAACTTCTGAAAATCA-GACTTAGTTTCTTTAAAACTCATTTGAAAACA
* * *
925267 TCAAGAAA-TCCCTAAAAAAT-AGGCTTAATTTCTTT-GAAATTCATTTGAAA-CATCAAGAAAC
1 TCAAGAAACT-CCT-AAAAATCAGGCTTAGTTTCTTTAAAAACTCATTTGAAATCATCAAGAAAC
* * * *
925328 -TCTTGAAAATCAGGCTTAGCTTCTTTCAAATTCATTTGAAAACA
64 TTC-TGAAAATCAGACTTAGTTTCTTTAAAACTCATTTGAAAACA
* * * * * * * *
925372 TCTAGAAACCCCTAAAAATTAGGCTTAATTTCTTTGAAAATTCTTTTAAAAATCATCAAGAAACT
1 TCAAGAAACTCCTAAAAATCAGGCTTAGTTTCTTTAAAAACTCATTT-GAAATCATCAAGAAACT
* * *
925437 TCTGAAAATCAAACTTAGTTTCTTTAAAACTCATTTAAAAATCG
65 TCTGAAAATCAGACTTAGTTTCTTTAAAACTCATTTGAAAA-CA
* * *
925481 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAATCATCAAGAAACTT
1 TCAAGAAACTCCTAAAAATCAGGCTTAGTTTCTTTAAAAACTCATTTGAAATCATCAAGAAACTT
*
925546 CTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAATCA
66 CTGAAAATCAGACTTAGTTTCTTT-AAAACTCATTTGAAAACA
* * *
925589 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCA
1 TCAAGAAACTCCTAAAAATCAGGCTTAGTTTCTTTAAAAACTCA
925633 CTAGCTGGGT
Statistics
Matches: 314, Mismatches: 38, Indels: 31
0.82 0.10 0.08
Matches are distributed among these distances:
103 2 0.01
104 33 0.11
105 43 0.14
106 9 0.03
107 5 0.02
108 135 0.43
109 60 0.19
110 1 0.00
111 20 0.06
112 6 0.02
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (107 bp):
TCAAGAAACTCCTAAAAATCAGGCTTAGTTTCTTTAAAAACTCATTTGAAATCATCAAGAAACTT
CTGAAAATCAGACTTAGTTTCTTTAAAACTCATTTGAAAACA
Done.