Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 187 of 313
Found at i:57696312 original size:88 final size:87
Alignment explanation
Indices: 57696203--57696491 Score: 255
Period size: 88 Copynumber: 3.3 Consensus size: 87
57696193 TTGTAGATTT
* * * * *
57696203 TATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGAGGGCAAATCTTATCTTCCCAAGGTAGTAAGG
1 TATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGACGGCAAATCTTATCTTCCCAAGATAGT-AGG
*
57696268 AAGCAGATTTAAGCCACTAGTCC
65 AAGCAGATTTAAGCCACCAGTCC
* ** * * * * **
57696291 TATCTCCCTAAGCAGCAGTGGAGTATG-TTGAAGATAGTAGATCTTGT-TT-TCTTGTACTAGTA
1 TATCTCCCTAAGCAGCAGTGGAGTA-GATCGAAGACGGCAAATCTTATCTTCCCAAG-A-TAGTA
* ** *
57696353 GTGAAGTAGATCGAAAG-CACCA-ACC
63 G-GAAGCAGAT-TTAAGCCACCAGTCC
* *
57696378 TTATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCCGAGATAGTAGG
1 -TATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGACGGCAAATCTTATCTTCCCAAGATAGTAGG
*
57696443 AAGCAGATTTAAGCTACCAGTCC
65 AAGCAGATTTAAGCCACCAGTCC
* * *
57696466 TATCTCCCTGAGTAACAGTGGAGTAG
1 TATCTCCCTAAGCAGCAGTGGAGTAG
57696492 GTTGAAGATT
Statistics
Matches: 154, Mismatches: 36, Indels: 23
0.72 0.17 0.11
Matches are distributed among these distances:
86 5 0.03
87 42 0.27
88 98 0.64
89 7 0.05
90 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (87 bp):
TATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGACGGCAAATCTTATCTTCCCAAGATAGTAGGA
AGCAGATTTAAGCCACCAGTCC
Found at i:57696554 original size:44 final size:44
Alignment explanation
Indices: 57696377--57696556 Score: 118
Period size: 44 Copynumber: 4.1 Consensus size: 44
57696367 AAGCACCAAC
57696377 CTTATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGACGGCGAAT
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGACGGCGAAT
* * * ** ** * *
57696421 CTTATCTTCCC-GAG-A-TAGTAGGAAGCAGATTTAAG-CTACCAGT
1 CTTATC-TCCCTAAGCAGCAGT-GG-AGTAGATCGAAGACGGCGAAT
* * * * * * ** *
57696464 CCTATCTCCCTGAGTAACAGTGGAGTAGGTTGAAGATTG-TAGAT
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGACGGCGA-AT
*
57696508 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAAT
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGACGGCGAAT
57696552 CTTAT
1 CTTAT
57696557 TTTTCAAAGA
Statistics
Matches: 99, Mismatches: 28, Indels: 18
0.68 0.19 0.12
Matches are distributed among these distances:
42 7 0.07
43 25 0.25
44 59 0.60
45 8 0.08
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGACGGCGAAT
Found at i:57696639 original size:131 final size:131
Alignment explanation
Indices: 57696377--57696646 Score: 391
Period size: 131 Copynumber: 2.1 Consensus size: 131
57696367 AAGCACCAAC
**
57696377 CTTATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCCGAGATAGTAG
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCAAAGATAGTAG
* * * ***
57696442 GAAGCAGATTTAAGCTACCAGTCCTATCTCCCTGAGTAACAGTGGAGTAGGTTGAAGATTGTAGA
66 GAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGTAACAGTGGAGTAGGTTGAAAATCACAGA
57696507 T
131 T
* * *
57696508 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTATTTTTCAAAGATAGTAG
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCAAAGATAGTAG
**
57696573 GAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAAGTGGCAGTGGAGT-GGATT-AAAATCACA
66 GAAGCAGATTTAAGCCACCAATCCTATCTCCCTG-AGTAACAGTGGAGTAGG-TTGAAAATCACA
57696636 GAT
129 GAT
57696639 CTTATCTC
1 CTTATCTC
57696647 TCTGAAGTTG
Statistics
Matches: 124, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
131 110 0.89
132 14 0.11
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (131 bp):
CTTATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCAAAGATAGTAG
GAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGTAACAGTGGAGTAGGTTGAAAATCACAGA
T
Found at i:57696671 original size:44 final size:44
Alignment explanation
Indices: 57696597--57696957 Score: 175
Period size: 44 Copynumber: 8.5 Consensus size: 44
57696587 CCACCAATCC
* * **
57696597 TATCTCCCTGAAGTGGCAGTGGAGTGGATTAAAATCACAGATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATCACAGATCT
* *
57696641 TATCTCTCTGAAGTTGCAGTAGAGCAGATT-ACATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATCACAGATCT
** * * ** *
57696682 TATCTCCCT-AAGCAGTAGTGGAGCAGACAGAAGAAATCA-A-TTC-
1 TATCTCCCTGAAGTTGCAGTAGAGCAG--ATTA-AAATCACAGATCT
* * * *
57696725 TATCTCCCTGACGTTGCAGTGGAGCAAATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATCACAGATCT
* * * * *
57696769 TATCTCTCAGAATTTGCAGTAGAGCAGA-TCACATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATCACAGATCT
* * * *
57696810 TATCTCCCTAAACAGTAGTGGAGCAGA-CAGA--AGAAAT--CA-ATCC
1 TATCTCCCT-GA-AGT--TGCAGTAGAGCAGATTA-AAATCACAGATCT
* * * * *
57696853 TATCTCCCCGACGTTGCAGTAGAGCGGATTAAAACCATAGATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATCACAGATCT
* * * ***
57696897 TATCTCTCTGAAGTTGTAGTAGAGTAGA-TCGCATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATCACAGATCT
*
57696938 TATCTCCCTAAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGT
57696958 GGAGTAGACT
Statistics
Matches: 231, Mismatches: 64, Indels: 47
0.68 0.19 0.14
Matches are distributed among these distances:
39 7 0.03
40 16 0.07
41 51 0.22
42 15 0.06
43 37 0.16
44 98 0.42
45 7 0.03
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATCACAGATCT
Found at i:57696744 original size:128 final size:128
Alignment explanation
Indices: 57696591--57697016 Score: 584
Period size: 128 Copynumber: 3.3 Consensus size: 128
57696581 TTTAAGCCAC
* * *
57696591 CAATCCTATCTCCCTGAAGTGGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
*
57696656 GCAGTAGAGCAGATTACATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
66 GCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
* * ** * *
57696719 CAATTCTATCTCCCTGACGTTGCAGTGGAGCAAATTAAAACCACAGATCTTATCTCTCAGAATTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
*
57696784 GCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTAAACAGTAGTGGAGCAGACAGAAGAAAT
66 GCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
* * * *
57696847 CAATCCTATCTCCCCGACGTTGCAGTAGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * * ** * * * **
57696912 GTAGTAGAGTAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAGCTA-
66 GCAGTAGAGCAGATCACATCCAGTCTTATCTCCCT-AAGCAGTAGTGGAGCAGACAGAAGAAAT
* *
57696975 CTAATCCTATCTCCCTAAAGTTGCAGTGGAGAGGATTAAAAC
1 C-AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
57697017 GATGAATCCT
Statistics
Matches: 261, Mismatches: 35, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
128 207 0.79
129 54 0.21
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (128 bp):
CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
GCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
Found at i:57697025 original size:44 final size:44
Alignment explanation
Indices: 57696938--57697028 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
57696928 CATCCAGTCT
* * *
57696938 TATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAGCTACTAATCC
1 TATCTCCCTAAAGTTGCAGTGGAGTAGACTAAAACGACTAATCC
*
57696982 TATCTCCCTAAAGTTGCAGTGGAG-AGGATTAAAACGA-TGAATCC
1 TATCTCCCTAAAGTTGCAGTGGAGTA-GACTAAAACGACT-AATCC
57697026 TAT
1 TAT
57697029 ACCTTTGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
TATCTCCCTAAAGTTGCAGTGGAGTAGACTAAAACGACTAATCC
Found at i:57697850 original size:4 final size:4
Alignment explanation
Indices: 57697841--57697880 Score: 62
Period size: 4 Copynumber: 9.8 Consensus size: 4
57697831 GCTTCTTGTT
*
57697841 TTTA TTTA TTTA CTTA TTTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTT
57697881 TTACATACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 30 0.91
5 3 0.09
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:57697862 original size:17 final size:17
Alignment explanation
Indices: 57697840--57697880 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
57697830 TGCTTCTTGT
57697840 TTTTATTTATTTACTTA
1 TTTTATTTATTTACTTA
*
57697857 TTTTATTTATTTATTTA
1 TTTTATTTATTTACTTA
57697874 -TTTATTT
1 TTTTATTT
57697881 TTACATACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTATTTACTTA
Found at i:57697866 original size:21 final size:21
Alignment explanation
Indices: 57697841--57697881 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
57697831 GCTTCTTGTT
57697841 TTTATTTATTTACTTATTTTA
1 TTTATTTATTTACTTATTTTA
*
57697862 TTTATTTATTTATTTATTTT
1 TTTATTTATTTACTTATTTT
57697882 TACATACCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTATTTATTTACTTATTTTA
Found at i:57699024 original size:16 final size:15
Alignment explanation
Indices: 57699000--57699029 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57698990 CTTATATTTT
57699000 TTATTTTATTTATTG
1 TTATTTTATTTATTG
57699015 TTATTATTATTTATT
1 TTATT-TTATTTATT
57699030 TATTTACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (15 bp):
TTATTTTATTTATTG
Found at i:57699846 original size:16 final size:16
Alignment explanation
Indices: 57699825--57699860 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
57699815 TTTGGTTCGC
57699825 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
57699841 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
57699857 TGTA
1 TGTA
57699861 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:57700117 original size:18 final size:17
Alignment explanation
Indices: 57700096--57700130 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57700086 TTATTATTAA
*
57700096 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
57700114 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
57700131 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:57700244 original size:14 final size:15
Alignment explanation
Indices: 57700195--57700246 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
57700185 GTAAAATATA
57700195 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
57700210 TATTAAATATATTAT
1 AATTAAATATATTAT
57700225 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
57700238 AATTTAATA
1 AATTAAATA
57700247 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:57700364 original size:14 final size:15
Alignment explanation
Indices: 57700315--57700366 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
57700305 GTAAAATATA
57700315 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
57700330 TATTAAATATATTAT
1 AATTAAATATATTAT
57700345 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
57700358 AATTTAATA
1 AATTAAATA
57700367 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:57700502 original size:120 final size:120
Alignment explanation
Indices: 57700079--57700491 Score: 733
Period size: 120 Copynumber: 3.4 Consensus size: 120
57700069 ATCATATTTA
*
57700079 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
57700144 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
57700199 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
57700264 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
57700319 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
57700384 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAAA-TT
* * *
57700439 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
57700492 TAAAATAATT
Statistics
Matches: 285, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
119 7 0.02
120 276 0.97
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:57700578 original size:24 final size:25
Alignment explanation
Indices: 57700532--57700579 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
57700522 TATGAATTTG
57700532 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
57700558 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
57700580 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:57700583 original size:92 final size:92
Alignment explanation
Indices: 57700487--57700696 Score: 232
Period size: 92 Copynumber: 2.3 Consensus size: 92
57700477 TGATTTAATA
* * *
57700487 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
57700549 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
57700579 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
57700644 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* *
57700669 ATAATTTCATAAAATTCTTAATAATAAA
1 A-AATTTCAAAAAATTCATAATAATAAA
57700697 ATGTTCTTAT
Statistics
Matches: 102, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
90 2 0.02
91 30 0.29
92 62 0.61
93 8 0.08
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:57700704 original size:92 final size:92
Alignment explanation
Indices: 57700522--57700715 Score: 268
Period size: 92 Copynumber: 2.1 Consensus size: 92
57700512 AATTATATTT
* * * *
57700522 TATGAATTTGTATAATTTAAAATAATAATTATTACATATAATTTAATAATTAATATTAAATTTCA
1 TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTTAATAATGAATATTAAATTTCA
* *
57700587 TAAAATTCTTGATAATAAATTTTCTTA
66 TAAAATTCTTAATAATAAATGTTCTTA
*
57700614 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAGTG-ATA-TATAATTT
1 TATGAATTTATACAATTTAAAATAA-TAATTATTAAATATAATTTAATAATGAATATTA-AATTT
57700676 CATAAAATTCTTAATAATAAAATGTTCTTA
64 CATAAAATTCTTAATAAT-AAATGTTCTTA
*
57700706 TATCAATTTA
1 TATGAATTTA
57700716 CTAAAATCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
90 2 0.02
91 25 0.27
92 61 0.67
93 3 0.03
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTTAATAATGAATATTAAATTTCA
TAAAATTCTTAATAATAAATGTTCTTA
Found at i:57708373 original size:24 final size:24
Alignment explanation
Indices: 57708346--57708393 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
57708336 TATTGGAAGA
57708346 TACATTTTAATATTTTATTAAATG
1 TACATTTTAATATTTTATTAAATG
57708370 TACATTTTAATATTTTATTAAATG
1 TACATTTTAATATTTTATTAAATG
57708394 GATTTATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
TACATTTTAATATTTTATTAAATG
Found at i:57708550 original size:21 final size:21
Alignment explanation
Indices: 57708526--57708578 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
57708516 CATTGTTTCT
*
57708526 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
57708547 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
*
57708568 AATCTTACCGC
1 AATCTCACCGC
57708579 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:57708667 original size:21 final size:21
Alignment explanation
Indices: 57708641--57708696 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
57708631 AATAGCGGTG
*
57708641 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
57708662 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
57708683 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
57708697 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:57713334 original size:690 final size:689
Alignment explanation
Indices: 57711992--57713370 Score: 2722
Period size: 690 Copynumber: 2.0 Consensus size: 689
57711982 AATGGATGAA
57711992 AACCATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCATGGTAAACAATAACAAGGATATA
1 AACCATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCATGGTAAACAATAACAAGGATATA
57712057 GAAAGGATAATTGATTATGACTATCTTTTCTAAATGAATAAAGGCATTTTTAGAGACATTAAACT
66 GAAAGGATAATTGATTATGACTATCTTTTCTAAATGAATAAAGGCATTTTTAGAGACATTAAACT
57712122 ACCTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCGCTGCAGACATTAAAATCAAAAAAG
131 ACCTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCGCTGCAGACATTAAAATCAAAAAAG
57712187 GGAAACATTAGGATAAATAAAGAAGAGACAAGAATCACTAGCAGATTCAAGGAGCAACCATCGTT
196 GGAAACATTAGGATAAATAAAGAAGAGACAAGAATCACTAGCAGATTCAAGGAGCAACCATCGTT
57712252 GTGTTGCTTGAAGCGAAATCAAAAATGGGAAACATTAGGATAAATAAGCAATAAGCTGCTTAGCT
261 GTGTTGCTTGAAGCGAAATCAAAAATGGGAAACATTAGGATAAATAAGCAATAAGCTGCTTAGCT
57712317 CCAGTGTAAAATTGCACTTGATGCTGACAAACCACTTCAGATTCTCTAGAATTTGGATTAAAACA
326 CCAGTGTAAAATTGCACTTGATGCTGACAAACCACTTCAGATTCTCTAGAATTTGGATTAAAACA
57712382 ATAGTACGAACAGGTTTCTACCAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTTTTCTTAGC
391 ATAGTACGAACAGGTTTCTACCAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTTTTCTTAGC
57712447 AACACTAGTCATTAAATTTTTACTTTAGTCTCAAAAAAAGCATGCAATTAATCACTCAAGGTTAT
456 AACACTAGTCATTAAATTTTTACTTTAGTCTCAAAAAAAGCATGCAATTAATCACTCAAGGTTAT
57712512 GGCATCAATCTCATAGTTTCTGAAGGCCGAGACTGTAAAACTACTCATAATATCAAATCATCCTA
521 GGCATCAATCTCATAGTTTCTGAAGGCCGAGACTGTAAAACTACTCATAATATCAAATCATCCTA
57712577 ACCCCTTTTCTTTTAAAAAGGGTAAGCTTTTGCTACATTCTTATTAGAAAATATGAAAACAAGAC
586 ACCCCTTTTCTTTTAAAAAGGGTAAGCTTTTGCTACATTCTTATTAGAAAATATGAAAACAAGAC
57712642 ATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTAC
651 ATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTAC
* **
57712681 AACCATAATATGAACACTAAAGGAAAAAATTCTCAAAGATCCATGGTAAACAATAACGGGGATAT
1 AACCATAAGATGAACACTAAA-GAAAAAATTCTCAAAGATCCATGGTAAACAATAACAAGGATAT
57712746 AGAAAGGATAATTGATTATGACTATCTTTTCTAAATGAATAAAGGCATTTTTAGAGACATTAAAC
65 AGAAAGGATAATTGATTATGACTATCTTTTCTAAATGAATAAAGGCATTTTTAGAGACATTAAAC
57712811 TACCTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCGCTGCAGACATTAAAATCAAAAAA
130 TACCTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCGCTGCAGACATTAAAATCAAAAAA
57712876 GGGAAACATTAGGATAAATAAAGAAGAGACAAGAATCACTAGCAGATTCAAGGAGCAACCATCGT
195 GGGAAACATTAGGATAAATAAAGAAGAGACAAGAATCACTAGCAGATTCAAGGAGCAACCATCGT
57712941 TGTGTTGCTTGAAGCGAAATCAAAAATGGGAAACATTAGGATAAATAAGCAATAAGCTGCTTAGC
260 TGTGTTGCTTGAAGCGAAATCAAAAATGGGAAACATTAGGATAAATAAGCAATAAGCTGCTTAGC
57713006 TCCAGTGTAAAATTGCACTTGATGCTGACAAACCACTTCAGATTCTCTAGAATTTGGATTAAAAC
325 TCCAGTGTAAAATTGCACTTGATGCTGACAAACCACTTCAGATTCTCTAGAATTTGGATTAAAAC
57713071 AATAGTACGAACAGGTTTCTACCAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTTTTCTTAG
390 AATAGTACGAACAGGTTTCTACCAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTTTTCTTAG
57713136 CAACACTAGTCATTAAATTTTTACTTTAGTCTCAAAAAAAGCATGCAATTAATCACTCAAGGTTA
455 CAACACTAGTCATTAAATTTTTACTTTAGTCTCAAAAAAAGCATGCAATTAATCACTCAAGGTTA
57713201 TGGCATCAATCTCATAGTTTCTGAAGGCCGAGACTGTAAAACTACTCATAATATCAAATCATCCT
520 TGGCATCAATCTCATAGTTTCTGAAGGCCGAGACTGTAAAACTACTCATAATATCAAATCATCCT
57713266 AACCCCTTTTCTTTTAAAAAGGGTAAGCTTTTGCTACATTCTTATTAGAAAATATGAAAACAAGA
585 AACCCCTTTTCTTTTAAAAAGGGTAAGCTTTTGCTACATTCTTATTAGAAAATATGAAAACAAGA
57713331 CATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTAC
650 CATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTAC
57713371 GTGGTCTAAA
Statistics
Matches: 686, Mismatches: 3, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
689 20 0.03
690 666 0.97
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (689 bp):
AACCATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCATGGTAAACAATAACAAGGATATA
GAAAGGATAATTGATTATGACTATCTTTTCTAAATGAATAAAGGCATTTTTAGAGACATTAAACT
ACCTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCGCTGCAGACATTAAAATCAAAAAAG
GGAAACATTAGGATAAATAAAGAAGAGACAAGAATCACTAGCAGATTCAAGGAGCAACCATCGTT
GTGTTGCTTGAAGCGAAATCAAAAATGGGAAACATTAGGATAAATAAGCAATAAGCTGCTTAGCT
CCAGTGTAAAATTGCACTTGATGCTGACAAACCACTTCAGATTCTCTAGAATTTGGATTAAAACA
ATAGTACGAACAGGTTTCTACCAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTTTTCTTAGC
AACACTAGTCATTAAATTTTTACTTTAGTCTCAAAAAAAGCATGCAATTAATCACTCAAGGTTAT
GGCATCAATCTCATAGTTTCTGAAGGCCGAGACTGTAAAACTACTCATAATATCAAATCATCCTA
ACCCCTTTTCTTTTAAAAAGGGTAAGCTTTTGCTACATTCTTATTAGAAAATATGAAAACAAGAC
ATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTAC
Found at i:57714261 original size:946 final size:947
Alignment explanation
Indices: 57712683--57714853 Score: 4238
Period size: 946 Copynumber: 2.3 Consensus size: 947
57712673 CTTGTTACAA
* * * *
57712683 CCATAATATGAACACTAAAGGAAAAAATTCTCAAAGATCCATGGTAAACAATAACGGGGATATAG
1 CCATAAGATGAACACTAAA-GAAAAAATTCTCAAAGATCCACGGTCAACAATAACGAGGATATAG
*
57712748 AAAGGATAATTGATTATGACTATCTTTTCTAAATGAATAAAGGCATTTTTAGAGACATTAAACTA
65 AAAGGATAATTGATTATGACTATCTTTTCAAAATGAATAAAGGCATTTTTAGAGACATTAAACTA
* *
57712813 CCTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCGCTGCAGACATTAAAAT-CAAAAAAG
130 CCTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCACTGCAGACATTAAAATAAAAAAAAG
57712877 GGAAACATTAGGATAAATAAAGAAGAGACAAGAATCACTAGCAGATTCAAGGAGCAACCATCGTT
195 GGAAACATTAGGATAAATAAAGAAGAGACAAGAATCACTAGCAGATTCAAGGAGCAACCATCGTT
57712942 GTGTTGCTTGAAGCGAAATCAAAAATGGGAAACATTAGGATAAATAAGCAATAAGCTGCTTAGCT
260 GTGTTGCTTGAAGCGAAATCAAAAATGGGAAACATTAGGATAAATAAGCAATAAGCTGCTTAGCT
57713007 CCAGTGTAAAATTGCACTTGATGCTGACAAACCACTTCAGATTCTCTAGAATTTGGATTAAAACA
325 CCAGTGTAAAATTGCACTTGATGCTGACAAACCACTTCAGATTCTCTAGAATTTGGATTAAAACA
57713072 ATAGTACGAACAGGTTTCTACCAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTTTTCTTAGC
390 ATAGTACGAACAGGTTTCTACCAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTTTTCTTAGC
57713137 AACACTAGTCATTAAATTTTTACTTTAGTCTCAAAAAAAGCATGCAATTAATCACTCAAGGTTAT
455 AACACTAGTCATTAAATTTTTACTTTAGTCTCAAAAAAAGCATGCAATTAATCACTCAAGGTTAT
57713202 GGCATCAATCTCATAGTTTCTGAAGGCCGAGACTGTAAAACTACTCATAATATCAAATCATCCTA
520 GGCATCAATCTCATAGTTTCTGAAGGCCGAGACTGTAAAACTACTCATAATATCAAATCATCCTA
57713267 ACCCCTTTTCTTTTAAAAAGGGTAAGCTTTTGCTACATTCTTATTAGAAAATATGAAAACAAGAC
585 ACCCCTTTTCTTTTAAAAAGGGTAAGCTTTTGCTACATTCTTATTAGAAAATATGAAAACAAGAC
57713332 ATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTACGTGGTCTAAAGCATTCCCTATACACC
650 ATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTACGTGGTCTAAAGCATTCCCTATACACC
57713397 AGTAAATGTGTTTAATGGATATTCTATTATCTGTATAACTAATTATTTAAGATGGTAGTAATTTC
715 AGTAAATGTGTTTAATGGATATTCTATTATCTGTATAACTAATTATTTAAGATGGTAGTAATTTC
57713462 AACTAATATACGATGCAGTGCAAGAATAAACAAGTTGAGTTTACAAGTAGGCAATATTAGCCCAT
780 AACTAATATACGATGCAGTGCAAGAATAAACAAGTTGAGTTTACAAGTAGGCAATATTAGCCCAT
57713527 ACTTTTGACACATTTCATAAATCTAGGTTTAAACAGTAAATTGAAATGTAGACAAAGCAAAAAAA
845 ACTTTTGACACATTTCATAAATCTAGGTTTAAACAGTAAATTGAAATGTAGACAAAGCAAAAAAA
57713592 TGTTATCAAATCAACAAAATCAGAACAAAGGATGAAAG
910 TGTTATCAAATCAACAAAATCAGAACAAAGGATGAAAG
57713630 CCATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCACGGTCAACAATAACGAGGATATAGA
1 CCATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCACGGTCAACAATAACGAGGATATAGA
57713695 AAGGATAATTGATTATGACTATCTTTTCAAAATGAATAAAGGCATTTTTAGAGACATTAAACTAC
66 AAGGATAATTGATTATGACTATCTTTTCAAAATGAATAAAGGCATTTTTAGAGACATTAAACTAC
57713760 CTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCACTGCAGACATTAAAATAAAAAAAAGG
131 CTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCACTGCAGACATTAAAATAAAAAAAAGG
57713825 GAAACATTAGGATAAATAAAGAAGAGACAAGAATCACTAGCAGATTCAAGGAGCAACCATCGTTG
196 GAAACATTAGGATAAATAAAGAAGAGACAAGAATCACTAGCAGATTCAAGGAGCAACCATCGTTG
57713890 TGTTGCTTGAAGCGAAATCAAAAATGGGAAACATTAGGATAAATAAGCAATAAGCTGCTTAGCTC
261 TGTTGCTTGAAGCGAAATCAAAAATGGGAAACATTAGGATAAATAAGCAATAAGCTGCTTAGCTC
57713955 CAGTGTAAAATTGCACTTGATGCTGACAAACCACTTCAGATTCTCTAGAATTTGGATTAAAACAA
326 CAGTGTAAAATTGCACTTGATGCTGACAAACCACTTCAGATTCTCTAGAATTTGGATTAAAACAA
57714020 TAGTACGAACAGGTTTCTACCAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTTTTCTTAGCA
391 TAGTACGAACAGGTTTCTACCAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTTTTCTTAGCA
*
57714085 ACACTAGTCATTAAATTTTTACTTTAGTCT-AAAAAAAGCATGCATTTAATCACTCAAGGTTATG
456 ACACTAGTCATTAAATTTTTACTTTAGTCTCAAAAAAAGCATGCAATTAATCACTCAAGGTTATG
57714149 GCATCAATCTCATAGTTTCTGAAGGCCGAGACTGTAAAACTACTCATAATATCAAATCATCCTAA
521 GCATCAATCTCATAGTTTCTGAAGGCCGAGACTGTAAAACTACTCATAATATCAAATCATCCTAA
57714214 CCCCTTTTCTTTTAAAAAGGGTAAGCTTTTGCTACATTCTTATTAGAAAATATGAAAACAAGACA
586 CCCCTTTTCTTTTAAAAAGGGTAAGCTTTTGCTACATTCTTATTAGAAAATATGAAAACAAGACA
57714279 TAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTACGTGGTCTAAAGCATTCCCTATACACCA
651 TAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTACGTGGTCTAAAGCATTCCCTATACACCA
57714344 GTAAATGTGTTTAATGGATATTCTATTATCTGTATAACTAATTATTTAAGATGGTAGTAATTTCA
716 GTAAATGTGTTTAATGGATATTCTATTATCTGTATAACTAATTATTTAAGATGGTAGTAATTTCA
57714409 ACTAATATACGATGCAGTGCAAGAATAAACAAGTTGAGTTTACAAGTAGGCAATATTAGCCCATA
781 ACTAATATACGATGCAGTGCAAGAATAAACAAGTTGAGTTTACAAGTAGGCAATATTAGCCCATA
57714474 CTTTTGACACATTTCATAAATCTAGGTTTAAACAGTAAATTGAAATGTAGACAAAGCAAAAAAAT
846 CTTTTGACACATTTCATAAATCTAGGTTTAAACAGTAAATTGAAATGTAGACAAAGCAAAAAAAT
57714539 GTTATCAAATCAACAAAATCAGAACAAAGGATGAAAG
911 GTTATCAAATCAACAAAATCAGAACAAAGGATGAAAG
57714576 CCATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCACGGTCAACAATAACGAGGATATAGA
1 CCATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCACGGTCAACAATAACGAGGATATAGA
57714641 AAGGATAATTGATTATGACTATCTTTTCAAAATGAATAAAGGCATTTTTAGAGACATTAAACTAC
66 AAGGATAATTGATTATGACTATCTTTTCAAAATGAATAAAGGCATTTTTAGAGACATTAAACTAC
57714706 CTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCACTGCAGACATTAAAATAAAAAAAAGG
131 CTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCACTGCAGACATTAAAATAAAAAAAAGG
57714771 GAAACATTAGGATAAATAAAGAAGAGACAAGAATCACTAGCAGATTCAAGGAGCAACCATCGTTG
196 GAAACATTAGGATAAATAAAGAAGAGACAAGAATCACTAGCAGATTCAAGGAGCAACCATCGTTG
*
57714836 TGCTGCTTGAAGCGAAAT
261 TGTTGCTTGAAGCGAAAT
57714854 TAAATGAGAG
Statistics
Matches: 1214, Mismatches: 9, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
946 898 0.74
947 316 0.26
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (947 bp):
CCATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCACGGTCAACAATAACGAGGATATAGA
AAGGATAATTGATTATGACTATCTTTTCAAAATGAATAAAGGCATTTTTAGAGACATTAAACTAC
CTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCACTGCAGACATTAAAATAAAAAAAAGG
GAAACATTAGGATAAATAAAGAAGAGACAAGAATCACTAGCAGATTCAAGGAGCAACCATCGTTG
TGTTGCTTGAAGCGAAATCAAAAATGGGAAACATTAGGATAAATAAGCAATAAGCTGCTTAGCTC
CAGTGTAAAATTGCACTTGATGCTGACAAACCACTTCAGATTCTCTAGAATTTGGATTAAAACAA
TAGTACGAACAGGTTTCTACCAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTTTTCTTAGCA
ACACTAGTCATTAAATTTTTACTTTAGTCTCAAAAAAAGCATGCAATTAATCACTCAAGGTTATG
GCATCAATCTCATAGTTTCTGAAGGCCGAGACTGTAAAACTACTCATAATATCAAATCATCCTAA
CCCCTTTTCTTTTAAAAAGGGTAAGCTTTTGCTACATTCTTATTAGAAAATATGAAAACAAGACA
TAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTACGTGGTCTAAAGCATTCCCTATACACCA
GTAAATGTGTTTAATGGATATTCTATTATCTGTATAACTAATTATTTAAGATGGTAGTAATTTCA
ACTAATATACGATGCAGTGCAAGAATAAACAAGTTGAGTTTACAAGTAGGCAATATTAGCCCATA
CTTTTGACACATTTCATAAATCTAGGTTTAAACAGTAAATTGAAATGTAGACAAAGCAAAAAAAT
GTTATCAAATCAACAAAATCAGAACAAAGGATGAAAG
Found at i:57715183 original size:33 final size:34
Alignment explanation
Indices: 57715115--57715183 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 34
57715105 CAATAATCAC
* *
57715115 TGTTTTAGTTCTCAAATATGAAAAACAAAATGGT
1 TGTTTTAGTTCCCAAATATGAAAAACAAAAAGGT
*
57715149 TGTTTT-GTTCCCAAATTTG-AAAACAAATAAGGT
1 TGTTTTAGTTCCCAAATATGAAAAACAAA-AAGGT
57715182 TG
1 TG
57715184 GAAAGAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 8 0.26
33 17 0.55
34 6 0.19
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (34 bp):
TGTTTTAGTTCCCAAATATGAAAAACAAAAAGGT
Found at i:57717578 original size:20 final size:20
Alignment explanation
Indices: 57717553--57717600 Score: 80
Period size: 19 Copynumber: 2.4 Consensus size: 20
57717543 TTCGTTTAGT
57717553 TATTTATTTATTATTTTGAA
1 TATTTATTTATTATTTTGAA
57717573 TATTTA-TTATTATTTTGAA
1 TATTTATTTATTATTTTGAA
57717592 TAATTTATT
1 T-ATTTATT
57717601 ATTTGTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.54
20 11 0.42
21 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TATTTATTTATTATTTTGAA
Found at i:57717582 original size:23 final size:24
Alignment explanation
Indices: 57717556--57717635 Score: 82
Period size: 23 Copynumber: 3.6 Consensus size: 24
57717546 GTTTAGTTAT
57717556 TTATTTATTATTTTGAAT-A--T-
1 TTATTTATTATTTTGAATAATTTA
57717576 TTA-TTATTATTTTGAATAATTTA
1 TTATTTATTATTTTGAATAATTTA
* *
57717599 TTATTTGTT-TTTTTAATAATTTA
1 TTATTTATTATTTTGAATAATTTA
* *
57717622 TTCTTTGTTATTTT
1 TTATTTATTATTTT
57717636 CTTTGTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
19 14 0.27
20 4 0.08
22 1 0.02
23 24 0.47
24 8 0.16
ACGTcount: A:0.26, C:0.01, G:0.05, T:0.68
Consensus pattern (24 bp):
TTATTTATTATTTTGAATAATTTA
Found at i:57717601 original size:20 final size:19
Alignment explanation
Indices: 57717553--57717603 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 19
57717543 TTCGTTTAGT
57717553 TATTTATTTATTATTTTGAA
1 TATTTA-TTATTATTTTGAA
57717573 TATTTATTATTATTTTGAA
1 TATTTATTATTATTTTGAA
57717592 TAATTTATTATT
1 T-ATTTATTATT
57717604 TGTTTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (19 bp):
TATTTATTATTATTTTGAA
Found at i:57717877 original size:49 final size:48
Alignment explanation
Indices: 57717819--57717924 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
57717809 TATGGTCATA
* * * **
57717819 GGTTGAAGTATAACTAGGGCTCCCAGTTGACGGTGGTTATGCAATCACG
1 GGTTCAAGTATAACCA-GGCCCCCAACTGACGGTGGTTATGCAATCACG
* * * *
57717868 TGTTCAAGTATAACCAGGCCCCCAACTGGCGGTGGTTATGCGATTACG
1 GGTTCAAGTATAACCAGGCCCCCAACTGACGGTGGTTATGCAATCACG
57717916 GGTTCAAGT
1 GGTTCAAGT
57717925 TTCATGTCAC
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
48 34 0.72
49 13 0.28
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (48 bp):
GGTTCAAGTATAACCAGGCCCCCAACTGACGGTGGTTATGCAATCACG
Found at i:57719863 original size:28 final size:27
Alignment explanation
Indices: 57719817--57719877 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
57719807 TCTGCTCGAA
*
57719817 TATATTATGTTATAAAATATTATATTAAT
1 TATA-TATGTTATAAAATAATATA-TAAT
*
57719846 TATATATGTTA-AATAATAATATATATT
1 TATATATGTTATAA-AATAATATATAAT
57719873 TATAT
1 TATAT
57719878 TAAATCATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 10 0.34
28 15 0.52
29 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (27 bp):
TATATATGTTATAAAATAATATATAAT
Found at i:57722887 original size:8 final size:8
Alignment explanation
Indices: 57722874--57722903 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
57722864 GTTCATCATT
57722874 ATGAATTG
1 ATGAATTG
57722882 ATGAATTG
1 ATGAATTG
57722890 ATGAATTG
1 ATGAATTG
57722898 AT-AATT
1 ATGAATT
57722904 AATTAAGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.18
8 18 0.82
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (8 bp):
ATGAATTG
Found at i:57724361 original size:20 final size:21
Alignment explanation
Indices: 57724318--57724362 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
57724308 TTTAAATACG
* *
57724318 TATTTCATTTTTATAAATTAT
1 TATTACATTTCTATAAATTAT
*
57724339 TATTACATTTCTA-AAATTTT
1 TATTACATTTCTATAAATTAT
57724359 TATT
1 TATT
57724363 TAAAGTTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTACATTTCTATAAATTAT
Found at i:57726119 original size:44 final size:44
Alignment explanation
Indices: 57726069--57726158 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
57726059 ACTTAGAGGG
57726069 ATTTGGGCTAACATTCCTGTTGATTTGAGTTCCTTGAGAAGATC
1 ATTTGGGCTAACATTCCTGTTGATTTGAGTTCCTTGAGAAGATC
57726113 ATTTGGGCTAACATTCCTGTTGATTTGAGTTCCTTGAGAAGATC
1 ATTTGGGCTAACATTCCTGTTGATTTGAGTTCCTTGAGAAGATC
57726157 AT
1 AT
57726159 CTTTTAACCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (44 bp):
ATTTGGGCTAACATTCCTGTTGATTTGAGTTCCTTGAGAAGATC
Found at i:57734487 original size:22 final size:23
Alignment explanation
Indices: 57734457--57734510 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
57734447 TTGTATTAGT
* *
57734457 TTACCAAATTAAAC-TTAAAATA
1 TTACTAAATTAAACATTAAAAAA
* *
57734479 TTACTAAATTTATCATTAAAAAA
1 TTACTAAATTAAACATTAAAAAA
57734502 TTA-TAAATT
1 TTACTAAATT
57734511 TTATAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (23 bp):
TTACTAAATTAAACATTAAAAAA
Found at i:57734769 original size:14 final size:16
Alignment explanation
Indices: 57734738--57734769 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
57734728 TTTTCTGAAA
57734738 ATAATTTTCCAGATGT
1 ATAATTTTCCAGATGT
57734754 ATAA-TTTCCA-ATGT
1 ATAATTTTCCAGATGT
57734768 AT
1 AT
57734770 CCATTGTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 6 0.38
16 4 0.25
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (16 bp):
ATAATTTTCCAGATGT
Found at i:57744276 original size:54 final size:53
Alignment explanation
Indices: 57744212--57744335 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 53
57744202 CGTGTTTTAA
* * *
57744212 ACCGCGTAACTCACTGAGTTAGGTTACACA-GCCGTGTCGCAAGCCGTGTGCCAG
1 ACCGTGTAACTCACTGACTTA--TAACACACGCCGTGTCGCAAGCCGTGTGCCAG
* * * *
57744266 ACCGTGTAACTCTCTGACTTATAACACACTGCCGTGTCGCAGGCTGTGTGCTAG
1 ACCGTGTAACTCACTGACTTATAACACAC-GCCGTGTCGCAAGCCGTGTGCCAG
* *
57744320 ACTGTGTAAGTCACTG
1 ACCGTGTAACTCACTG
57744336 TATTGAAATA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
52 6 0.10
54 52 0.90
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.25
Consensus pattern (53 bp):
ACCGTGTAACTCACTGACTTATAACACACGCCGTGTCGCAAGCCGTGTGCCAG
Found at i:57746162 original size:17 final size:18
Alignment explanation
Indices: 57746131--57746166 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
57746121 CAAAAATCAC
57746131 TTAACAACACAAGTTTAT
1 TTAACAACACAAGTTTAT
57746149 TTAACAAC-CAAGTTTAT
1 TTAACAACACAAGTTTAT
57746166 T
1 T
57746167 AATATATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (18 bp):
TTAACAACACAAGTTTAT
Found at i:57747181 original size:17 final size:18
Alignment explanation
Indices: 57747150--57747185 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
57747140 CAAAAATCAC
57747150 TTAACAACACAAGTTTAT
1 TTAACAACACAAGTTTAT
57747168 TTAACAAC-CAAGTTTAT
1 TTAACAACACAAGTTTAT
57747185 T
1 T
57747186 AATATATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (18 bp):
TTAACAACACAAGTTTAT
Found at i:57753790 original size:23 final size:23
Alignment explanation
Indices: 57753763--57753860 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
57753753 AGTGTTATTG
57753763 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
57753786 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
57753809 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
57753831 ACCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
57753854 ATCAGTG
1 ATCAGTG
57753861 TGGTACTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:57753829 original size:45 final size:45
Alignment explanation
Indices: 57753765--57753853 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
57753755 TGTTATTGAT
**
57753765 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATC
1 CAGTGGTAGCTTCGGCTACATACCAGTGGTAGCTTCGGCTACATC
57753810 CAGTGGTAGCTTCGGCTACATACCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATACCAGTGGTAGCTTCGGCTACAT
57753854 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATACCAGTGGTAGCTTCGGCTACATC
Found at i:57762170 original size:17 final size:18
Alignment explanation
Indices: 57762140--57762173 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
57762130 CAAAAATCAC
57762140 TTAACAACACAAGTTTAT
1 TTAACAACACAAGTTTAT
57762158 TTAACAA-ACAAGTTTA
1 TTAACAACACAAGTTTA
57762174 ATAATCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (18 bp):
TTAACAACACAAGTTTAT
Found at i:57771200 original size:9 final size:9
Alignment explanation
Indices: 57771186--57771225 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
57771176 TAAGTTATTA
57771186 AAACTAATT
1 AAACTAATT
57771195 AAACTAGATT
1 AAACTA-ATT
*
57771205 AAATTAATT
1 AAACTAATT
57771214 AAACTAAGTT
1 AAACTAA-TT
57771224 AA
1 AA
57771226 TTAAGGCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 15 0.56
10 12 0.44
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (9 bp):
AAACTAATT
Found at i:57771225 original size:19 final size:18
Alignment explanation
Indices: 57771190--57771229 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
57771180 TTATTAAAAC
57771190 TAATTAAACTAGATTAAAT
1 TAATTAAACTAGATT-AAT
57771209 TAATTAAACTA-AGTTAAT
1 TAATTAAACTAGA-TTAAT
57771227 TAA
1 TAA
57771230 GGCATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (18 bp):
TAATTAAACTAGATTAAT
Found at i:57773789 original size:79 final size:81
Alignment explanation
Indices: 57773653--57773837 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
57773643 TTGAATGATG
*
57773653 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
57773717 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
57773732 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
57773794 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
57773812 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57773838 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:57773851 original size:40 final size:40
Alignment explanation
Indices: 57773654--57773837 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
57773644 TGAATGATGT
* * * *
57773654 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
57773694 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
57773734 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
57773772 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
57773813 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
57773838 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:57773859 original size:79 final size:79
Alignment explanation
Indices: 57773706--57773870 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
57773696 GGACTAAGAT
* **
57773706 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
57773771 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
57773785 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
57773848 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
57773864 CCGAAGG
1 CCGAAGG
57773871 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:57781727 original size:39 final size:40
Alignment explanation
Indices: 57781632--57781854 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
57781622 TTGAATGATG
*
57781632 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
57781670 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
57781711 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
57781750 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
57781789 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
57781828 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
57781855 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:57781818 original size:79 final size:81
Alignment explanation
Indices: 57781632--57781854 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
57781622 TTGAATGATG
* * *
57781632 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
57781693 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
57781711 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
57781773 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
57781789 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
57781853 TG
66 TG
57781855 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:57781876 original size:79 final size:79
Alignment explanation
Indices: 57781632--57781887 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
57781622 TTGAATGATG
* * * *
57781632 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
57781693 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
57781711 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
57781775 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
57781789 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
57781853 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
57781869 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
57781888 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:57791605 original size:27 final size:27
Alignment explanation
Indices: 57791570--57791690 Score: 95
Period size: 27 Copynumber: 4.5 Consensus size: 27
57791560 ATAGTTCACC
*
57791570 GGGACAGTAAACACGTGATAGTTCGTT
1 GGGATAGTAAACACGTGATAGTTCGTT
* * *
57791597 AGGATAGTAAATACAG-GATAG-TCTGCT
1 GGGATAGTAAACAC-GTGATAGTTC-GTT
* * *
57791624 GGGATAGTAAACACGGGGTAGTTCGTC
1 GGGATAGTAAACACGTGATAGTTCGTT
* * * *
57791651 GGG-TCAATAAACACATGGTAGTTCATT
1 GGGAT-AGTAAACACGTGATAGTTCGTT
57791678 GGGATAGTAAACA
1 GGGATAGTAAACA
57791691 TGGGGTAGTT
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
26 4 0.05
27 65 0.89
28 4 0.05
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (27 bp):
GGGATAGTAAACACGTGATAGTTCGTT
Found at i:57791697 original size:27 final size:27
Alignment explanation
Indices: 57791561--57791719 Score: 90
Period size: 27 Copynumber: 5.9 Consensus size: 27
57791551 CAATCAATGA
** * * *
57791561 TAGTTCACCGGGACAGTAAACACGTGA
1 TAGTTCATTGGGATAGTAAACACGGGG
* * * * *
57791588 TAGTTCGTTAGGATAGTAAATACAGGA
1 TAGTTCATTGGGATAGTAAACACGGGG
57791615 TAG-TC-TGCTGGGATAGTAAACACGGGG
1 TAGTTCAT--TGGGATAGTAAACACGGGG
* * * **
57791642 TAGTTCGTCGGG-TCAATAAACACATGG
1 TAGTTCATTGGGAT-AGTAAACACGGGG
*
57791669 TAGTTCATTGGGATAGTAAACATGGGG
1 TAGTTCATTGGGATAGTAAACACGGGG
* ** *
57791696 TAGTTTATCAGGATAGAAAACACG
1 TAGTTCATTGGGATAGTAAACACG
57791720 AAAATTTCGT
Statistics
Matches: 99, Mismatches: 27, Indels: 12
0.72 0.20 0.09
Matches are distributed among these distances:
25 1 0.01
26 3 0.03
27 91 0.92
28 3 0.03
29 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (27 bp):
TAGTTCATTGGGATAGTAAACACGGGG
Found at i:57805897 original size:50 final size:50
Alignment explanation
Indices: 57805714--57805898 Score: 262
Period size: 50 Copynumber: 3.7 Consensus size: 50
57805704 GATTATAACA
* * * * * *
57805714 TGCCAAAGCCATGTCCCAAACAAGGTCTTACATGAGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAT-CTCTCATCTCGG
* * ** *
57805765 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
57805815 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
57805865 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
57805899 AGGCCTCTTT
Statistics
Matches: 119, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 89 0.75
51 30 0.25
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
Found at i:57808240 original size:51 final size:50
Alignment explanation
Indices: 57808161--57808295 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
57808151 GATAATAACA
* * ** *
57808161 TGCCAAAGCCATGTCCCAGACAAGGTCTTACATGGGATGTTCTTATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATATCGG
* * * ** *
57808212 TGCCCATGCCATGTCCCAGACATTGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
57808262 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
57808296 ATACCTCTTT
Statistics
Matches: 69, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
50 38 0.55
51 31 0.45
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:57809449 original size:25 final size:25
Alignment explanation
Indices: 57809408--57809476 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
57809398 CCTTCTCTTG
*
57809408 TATTTATTT-TGTTTTATTTATTTAT
1 TATTTATTTAT-TATTATTTATTTAT
* *
57809433 T-TATTATTTCTTATTATTTGTTTAT
1 TAT-TTATTTATTATTATTTATTTAT
*
57809458 TATTTGTTTATTATTATTT
1 TATTTATTTATTATTATTT
57809477 GTTATCATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
24 1 0.03
25 34 0.92
26 2 0.05
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.74
Consensus pattern (25 bp):
TATTTATTTATTATTATTTATTTAT
Found at i:57809460 original size:14 final size:13
Alignment explanation
Indices: 57809443--57809479 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
57809433 TTATTATTTC
57809443 TTATTATTTG--T
1 TTATTATTTGTTT
57809454 TTATTATTTGTTT
1 TTATTATTTGTTT
57809467 ATTATTATTTGTT
1 -TTATTATTTGTT
57809480 ATCATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 10 0.43
13 1 0.04
14 12 0.52
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (13 bp):
TTATTATTTGTTT
Found at i:57809477 original size:25 final size:25
Alignment explanation
Indices: 57809421--57809479 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
57809411 TTATTTTGTT
* *
57809421 TTATTTATTTATTTATTATTTCTTA
1 TTATTTGTTTATTTATTATTTATTA
*
57809446 TTATTTGTTTA-TTATTTGTTTATTA
1 TTATTTGTTTATTTA-TTATTTATTA
57809471 TTATTTGTT
1 TTATTTGTT
57809480 ATCATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 3 0.10
25 27 0.90
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (25 bp):
TTATTTGTTTATTTATTATTTATTA
Found at i:57809734 original size:25 final size:25
Alignment explanation
Indices: 57809687--57809734 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
57809677 CTATTCTTGC
* **
57809687 TATTACTGATTATTCTTTTTTATTT
1 TATTACTGATTATTATTGGTTATTT
*
57809712 TATTACTGTTTATTATTGGTTAT
1 TATTACTGATTATTATTGGTTAT
57809735 ATTTCTTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.21, C:0.06, G:0.08, T:0.65
Consensus pattern (25 bp):
TATTACTGATTATTATTGGTTATTT
Found at i:57811138 original size:6 final size:6
Alignment explanation
Indices: 57811129--57811161 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
57811119 TTTATTTTCT
*
57811129 TTTTAG TTTTAT TTTTAG TTTTAG TTTT-G TTTT
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTT
57811162 TATTTTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (6 bp):
TTTTAG
Found at i:57811143 original size:12 final size:12
Alignment explanation
Indices: 57811119--57811167 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
57811109 ATTGAGTTTA
*
57811119 TTTA-TTTTCTT
1 TTTAGTTTTATT
57811130 TTTAGTTTTATT
1 TTTAGTTTTATT
*
57811142 TTTAGTTTTAGT
1 TTTAGTTTTATT
57811154 TTT-GTTTTTATT
1 TTTAG-TTTTATT
57811166 TT
1 TT
57811168 ATGTTTATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
11 5 0.15
12 28 0.85
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.78
Consensus pattern (12 bp):
TTTAGTTTTATT
Found at i:57811150 original size:18 final size:17
Alignment explanation
Indices: 57811119--57811182 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
57811109 ATTGAGTTTA
57811119 TTTATTTTCT-TTTTAGT
1 TTTATTTT-TATTTTAGT
57811136 TTTATTTTTAGTTTTAGT
1 TTTATTTTTA-TTTTAGT
*
57811154 TTTGTTTTTATTTTA-T
1 TTTATTTTTATTTTAGT
*
57811170 GTTTATGTTTATT
1 -TTTATTTTTATT
57811183 GATATTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
16 2 0.05
17 23 0.56
18 16 0.39
ACGTcount: A:0.14, C:0.02, G:0.09, T:0.75
Consensus pattern (17 bp):
TTTATTTTTATTTTAGT
Found at i:57811228 original size:47 final size:47
Alignment explanation
Indices: 57811138--57811229 Score: 109
Period size: 47 Copynumber: 2.0 Consensus size: 47
57811128 TTTTTAGTTT
* * *
57811138 TATTTTTAGTTTTAGTTTTGTTTTTATTTTATGTTTATGTTTATTGA
1 TATTTTTAGTTTTAGTTTTGTTTTTATCTTAGGCTTATGTTTATTGA
57811185 TATTTTTAGTTGTT-GTTATTGTTATTT-TCTTAGGCTTAT-TTTATT
1 TATTTTTAGTT-TTAGTT-TTGTT-TTTATCTTAGGCTTATGTTTATT
57811230 TCTTATCTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
47 20 0.51
48 16 0.41
49 3 0.08
ACGTcount: A:0.16, C:0.02, G:0.13, T:0.68
Consensus pattern (47 bp):
TATTTTTAGTTTTAGTTTTGTTTTTATCTTAGGCTTATGTTTATTGA
Found at i:57815456 original size:3 final size:3
Alignment explanation
Indices: 57815429--57815470 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
57815419 TTTTATTAAT
* *
57815429 TTA TTAA TTA TT- TTA TTA CTA TTA TTA TTA TTG TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
57815471 GTATATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:57815748 original size:32 final size:30
Alignment explanation
Indices: 57815708--57815770 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 30
57815698 ATGATTCTAC
*
57815708 TTTATATATATATAATTTATATTTAATTATT
1 TTTATATATATATAATTTATA-TTAAGTATT
* *
57815739 TTTAGTATATATGTTATTTATATTAAGTATT
1 TTTA-TATATATATAATTTATATTAAGTATT
57815770 T
1 T
57815771 CATTTCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (30 bp):
TTTATATATATATAATTTATATTAAGTATT
Found at i:57815767 original size:22 final size:21
Alignment explanation
Indices: 57815725--57815768 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
57815715 ATATATAATT
* *
57815725 TATATTTAATTATTTTTAGTA
1 TATATTTAATTATATTAAGTA
*
57815746 TATATGTTATTTATATTAAGTA
1 TATAT-TTAATTATATTAAGTA
57815768 T
1 T
57815769 TTCATTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (21 bp):
TATATTTAATTATATTAAGTA
Found at i:57815958 original size:12 final size:12
Alignment explanation
Indices: 57815943--57815968 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57815933 GTATACTTTC
57815943 ATATATATGTAT
1 ATATATATGTAT
57815955 ATATATATGTAT
1 ATATATATGTAT
57815967 AT
1 AT
57815969 TATTGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:57819376 original size:49 final size:49
Alignment explanation
Indices: 57819319--57819422 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
57819309 TCATGTGTTA
* * * * *
57819319 TAATTTTATATAGTGTTGAGCTTTTGATTCATGATATTGAACTTATTTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
*
57819368 TAATTTTATAAAGTGTTCACCTTTTGATTCATGGTATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
57819417 TAATTT
1 TAATTT
57819423 GTTTTTTTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.52
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:57820967 original size:120 final size:120
Alignment explanation
Indices: 57820822--57821137 Score: 562
Period size: 120 Copynumber: 2.6 Consensus size: 120
57820812 ATACATTATT
* * *
57820822 TTTATAGTATTACATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTA
1 TTTATAGCATTATATATTATTATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTA
*
57820887 TAAAATTATATATTTTTATT-AACTTATATTTAATAATAATTATGTTAAATTATAA
66 TTAAATTATATATTTTTATTCAA-TTATATTTAATAATAATTATGTTAAATTATAA
57820942 TTTATAGCATTATATATTATTATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTA
1 TTTATAGCATTATATATTATTATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTA
* *
57821007 TTAAATTATATCTTTTTATTCAATTATCTTTAATAATAATTATGTTAAATTATAA
66 TTAAATTATATATTTTTATTCAATTATATTTAATAATAATTATGTTAAATTATAA
57821062 TTTATAGCATTATATATTATTATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTA
1 TTTATAGCATTATATATTATTATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTA
57821127 TTAAATTATAT
66 TTAAATTATAT
57821138 TTAATAATAA
Statistics
Matches: 189, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
120 187 0.99
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
TTTATAGCATTATATATTATTATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTA
TTAAATTATATATTTTTATTCAATTATATTTAATAATAATTATGTTAAATTATAA
Found at i:57821084 original size:51 final size:50
Alignment explanation
Indices: 57821029--57821182 Score: 120
Period size: 51 Copynumber: 3.0 Consensus size: 50
57821019 TTTTTATTCA
*
57821029 ATTATCTTTAATAATAATTATGTTAAATTATAATTTATAGCATTATATATT
1 ATTAT-TTTAATAATAATTATGTTAAATTATAATTTATAGAATTATATATT
* * * *
57821080 ATTATTTTAGT-A-AATTCATATAAGAATATTTAATATTA-AGAATT-T-TATT
1 ATTATTTTAATAATAATT-ATGTTA-AAT-TATAAT-TTATAGAATTATATATT
* * * *
57821129 AAATTATATTTAATAATAACTATGATAAATTATATTTTATAGTATTATATATT
1 --ATTAT-TTTAATAATAATTATGTTAAATTATAATTTATAGAATTATATATT
57821182 A
1 A
57821183 CGATTTTAGT
Statistics
Matches: 78, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
48 4 0.05
49 9 0.12
50 12 0.15
51 30 0.38
52 12 0.15
53 8 0.10
54 3 0.04
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (50 bp):
ATTATTTTAATAATAATTATGTTAAATTATAATTTATAGAATTATATATT
Found at i:57821245 original size:16 final size:16
Alignment explanation
Indices: 57821224--57821257 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
57821214 ATATTAAGAA
57821224 TTTTATAAAATTATAT
1 TTTTATAAAATTATAT
*
57821240 TTTTATTAAATTATAT
1 TTTTATAAAATTATAT
57821256 TT
1 TT
57821258 AATAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTATAAAATTATAT
Found at i:57821267 original size:16 final size:16
Alignment explanation
Indices: 57821248--57821364 Score: 60
Period size: 16 Copynumber: 7.2 Consensus size: 16
57821238 ATTTTTATTA
57821248 AATTATATTTAATAAT
1 AATTATATTTAATAAT
* *
57821264 AATTATGTTAAATTATAT
1 AATTATATTTAA-TA-AT
** *
57821282 AAGAATATTTAATATT
1 AATTATATTTAATAAT
* *
57821298 AA-GA-ATTTTATAA-
1 AATTATATTTAATAAT
** *
57821311 AATTATATATTTTTATT
1 AATTATAT-TTAATAAT
57821328 AAATTATATTTAATAAT
1 -AATTATATTTAATAAT
* * *
57821345 AATTATGTTAAATTAT
1 AATTATATTTAATAAT
57821361 AATT
1 AATT
57821365 TATAGCATTA
Statistics
Matches: 75, Mismatches: 19, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
13 2 0.03
14 8 0.11
15 3 0.04
16 35 0.47
17 9 0.12
18 18 0.24
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTATATTTAATAAT
Found at i:57821291 original size:79 final size:81
Alignment explanation
Indices: 57821192--57821601 Score: 316
Period size: 81 Copynumber: 5.1 Consensus size: 81
57821182 ACGATTTTAG
57821192 TAAATTCATATAACAATATTTAATATTAAGAATTTTATAAAA-T-TATATTTTTATTAAATTATA
1 TAAATT-ATATAACAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
57821255 TTTAATAATAATTATGT
65 TTTAATAATAATTATGT
*
57821272 TAAATTATATAAGAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATAT
1 TAAATTATATAACAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATAT
57821337 TTAATAATAATTATGT
66 TTAATAATAATTATGT
*** * * ****
57821353 TAAATTATA-ATTTATAGCATTATATATTATG-ATTTTAGT-AAATTCATATAAGAATATTTAAT
1 TAAATTATATAACAATA--TTTA-ATATTAAGAATTTTA-TAAAATT-ATATATTTTTA-TTAA-
* * * *
57821415 ATTAAGAATTTTATTA-AATTATAT
59 ATT-A-TATTTAATAATAATTATGT
*** * * * * * *
57821439 TTTTTTAT-TAA-ATTATATTTAATAAT-A-ACTATGAT-AAATTATAT-TTTATAGT--ATTAT
1 TAAATTATATAACA--ATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTAT
* *
57821496 ATATT-ATGAT-TTTA-G-
64 AT-TTAATAATAATTATGT
*
57821511 TAAATTCATATAAGAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
1 TAAATT-ATATAACAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
* *
57821576 TTTAATAATAGTTAAGT
65 TTTAATAATAATTATGT
57821593 TAAATTATA
1 TAAATTATA
57821602 ATTTATAGCA
Statistics
Matches: 256, Mismatches: 44, Indels: 59
0.71 0.12 0.16
Matches are distributed among these distances:
72 3 0.01
73 13 0.05
74 12 0.05
75 9 0.04
76 12 0.05
77 6 0.02
78 2 0.01
79 46 0.18
80 17 0.07
81 54 0.21
82 26 0.10
83 18 0.07
84 8 0.03
85 6 0.02
86 14 0.05
87 10 0.04
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (81 bp):
TAAATTATATAACAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATAT
TTAATAATAATTATGT
Found at i:57821359 original size:199 final size:200
Alignment explanation
Indices: 57821122--57821482 Score: 625
Period size: 199 Copynumber: 1.8 Consensus size: 200
57821112 ATATTAAGAA
* *
57821122 TTTTATTAAATTATATTTAATAATAACTATGATAAATTATATTTTATAGTATTATATATTACGAT
1 TTTTATTAAATTATATTTAATAATAACTATGATAAATTATAATTTATAGCATTATATATTACGAT
57821187 TTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTATAAAATTATA-TTTTTATTAAAT
66 TTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTATAAAATTATATTTTTTATTAAAT
* *
57821251 TATATTTAATAATAATTATGTTAAATTATATAAGAATATTTAATATTAAGAATTTTATAAAATTA
131 TATATTTAATAATAACTATGATAAATTATATAAGAATATTTAATATTAAGAATTTTATAAAATTA
57821316 TATAT
196 TATAT
* * *
57821321 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATAATTTATAGCATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAACTATGATAAATTATAATTTATAGCATTATATATTACGAT
* *
57821386 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATTTTTTTATTAAA
66 TTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTATAAAATTATA-TTTTTTATTAAA
57821451 TTATATTTAATAATAACTATGATAAATTATAT
130 TTATATTTAATAATAACTATGATAAATTATAT
57821483 TTTATAGTAT
Statistics
Matches: 151, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
199 110 0.73
201 41 0.27
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (200 bp):
TTTTATTAAATTATATTTAATAATAACTATGATAAATTATAATTTATAGCATTATATATTACGAT
TTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTATAAAATTATATTTTTTATTAAAT
TATATTTAATAATAACTATGATAAATTATATAAGAATATTTAATATTAAGAATTTTATAAAATTA
TATAT
Found at i:57821413 original size:120 final size:120
Alignment explanation
Indices: 57821272--57821655 Score: 689
Period size: 120 Copynumber: 3.2 Consensus size: 120
57821262 ATAATTATGT
57821272 TAAATT-ATATAAGAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
1 TAAATTCATATAAGAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
57821336 TTTAATAATAATTATGTTAAATTATAATTTATAGCATTATATATTATGATTTTAG
66 TTTAATAATAATTATGTTAAATTATAATTTATAGCATTATATATTATGATTTTAG
* *
57821391 TAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATTTTTTTATTAAATTATA
1 TAAATTCATATAAGAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
* * * *
57821456 TTTAATAATAACTATGATAAATTATATTTTATAGTATTATATATTATGATTTTAG
66 TTTAATAATAATTATGTTAAATTATAATTTATAGCATTATATATTATGATTTTAG
57821511 TAAATTCATATAAGAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
1 TAAATTCATATAAGAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
* *
57821576 TTTAATAATAGTTAAGTTAAATTATAATTTATAGCATTATATATTATGATTTTAG
66 TTTAATAATAATTATGTTAAATTATAATTTATAGCATTATATATTATGATTTTAG
57821631 TAAATTCATATAAGAATATTTAATA
1 TAAATTCATATAAGAATATTTAATA
57821656 ATAATTATGT
Statistics
Matches: 250, Mismatches: 14, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
119 6 0.02
120 244 0.98
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TAAATTCATATAAGAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
TTTAATAATAATTATGTTAAATTATAATTTATAGCATTATATATTATGATTTTAG
Found at i:57821444 original size:18 final size:18
Alignment explanation
Indices: 57821423--57821458 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
57821413 ATATTAAGAA
57821423 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
57821441 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
57821459 AATAATAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:57821692 original size:73 final size:73
Alignment explanation
Indices: 57821573--57821728 Score: 285
Period size: 73 Copynumber: 2.1 Consensus size: 73
57821563 TTATTAAATT
*
57821573 ATATTTAATAATAGTTAAGTTAAATTATAATTTATAGCATTATATATTATGATTTTAGTAAATTC
1 ATATTTAATAATAATTAAGTTAAATTATAATTTATAGCATTATATATTATGATTTTAGTAAATTC
*
57821638 ATATAAGA
66 ATATAACA
*
57821646 ATATTTAATAATAATTATGTTAAATTATAATTTATAGCATTATATATTATGATTTTAGTAAATTC
1 ATATTTAATAATAATTAAGTTAAATTATAATTTATAGCATTATATATTATGATTTTAGTAAATTC
57821711 ATATAACA
66 ATATAACA
57821719 ATATTTAATA
1 ATATTTAATA
57821729 TTAAGAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 80 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (73 bp):
ATATTTAATAATAATTAAGTTAAATTATAATTTATAGCATTATATATTATGATTTTAGTAAATTC
ATATAACA
Found at i:57821946 original size:16 final size:16
Alignment explanation
Indices: 57821927--57821973 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
57821917 CCTATTACGC
57821927 CTCTATTCCATTACAA
1 CTCTATTCCATTACAA
*
57821943 CTCTATTCCATTACAC
1 CTCTATTCCATTACAA
*
57821959 CTCCATTCCATTACA
1 CTCTATTCCATTACA
57821974 GCGAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.28, C:0.36, G:0.00, T:0.36
Consensus pattern (16 bp):
CTCTATTCCATTACAA
Found at i:57826361 original size:7 final size:7
Alignment explanation
Indices: 57826351--57826399 Score: 57
Period size: 7 Copynumber: 7.1 Consensus size: 7
57826341 TTTTAAAATA
57826351 CATTTCC
1 CATTTCC
57826358 CATTTCCC
1 CATTT-CC
*
57826366 CA--CCC
1 CATTTCC
57826371 CATTTCC
1 CATTTCC
57826378 CATTTCC
1 CATTTCC
*
57826385 CATTTCT
1 CATTTCC
57826392 CATTTCC
1 CATTTCC
57826399 C
1 C
57826400 TAAGCCCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 4 0.11
7 27 0.77
8 4 0.11
ACGTcount: A:0.14, C:0.47, G:0.00, T:0.39
Consensus pattern (7 bp):
CATTTCC
Found at i:57828805 original size:23 final size:23
Alignment explanation
Indices: 57828776--57828822 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
57828766 TACTGTAGCT
57828776 TTTCTTTCCTTGCAATTAAGTAC
1 TTTCTTTCCTTGCAATTAAGTAC
57828799 TTTCTTTCCTTGCAATTAAGTAC
1 TTTCTTTCCTTGCAATTAAGTAC
57828822 T
1 T
57828823 CAAGTTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.49
Consensus pattern (23 bp):
TTTCTTTCCTTGCAATTAAGTAC
Found at i:57829150 original size:15 final size:15
Alignment explanation
Indices: 57829125--57829159 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
57829115 AACTCTATTT
*
57829125 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
57829139 TAATTAATATTAAGA
1 TAATTAATATTAAGA
57829154 TAATTA
1 TAATTA
57829160 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:57832302 original size:9 final size:9
Alignment explanation
Indices: 57832278--57832311 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
57832268 ATATAACAAT
*
57832278 TAATTATATT
1 TAATT-TATG
57832288 TAATTTATG
1 TAATTTATG
57832297 TAATTTATG
1 TAATTTATG
57832306 TAATTT
1 TAATTT
57832312 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 18 0.78
10 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (9 bp):
TAATTTATG
Found at i:57833866 original size:37 final size:35
Alignment explanation
Indices: 57833773--57833866 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 35
57833763 GTCTCCAAAT
*
57833773 TCACATTTCAATTCAATTTCACTTTTTCACTTTCAA
1 TCACAATTCAATTCAA-TTCACTTTTTCACTTTCAA
*
57833809 TCACAATTCAATTCAAAATTCACTTTTTCCATTTTCAA
1 TCACAATTCAATTC--AATTCACTTTTT-CACTTTCAA
*
57833847 GTCA-ATATTCATTTCAATTC
1 -TCACA-ATTCAATTCAATTC
57833867 CACACATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
36 13 0.26
37 15 0.30
38 11 0.22
39 11 0.22
ACGTcount: A:0.31, C:0.23, G:0.01, T:0.45
Consensus pattern (35 bp):
TCACAATTCAATTCAATTCACTTTTTCACTTTCAA
Found at i:57834565 original size:6 final size:6
Alignment explanation
Indices: 57834549--57834594 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
57834539 TAAACCCTAG
*
57834549 TTTTTC CTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
57834595 CTTCTTTCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:57834566 original size:12 final size:12
Alignment explanation
Indices: 57834549--57834606 Score: 82
Period size: 12 Copynumber: 4.8 Consensus size: 12
57834539 TAAACCCTAG
57834549 TTTTTCCTTTTC
1 TTTTTCCTTTTC
*
57834561 TTTTTCTTTTTC
1 TTTTTCCTTTTC
*
57834573 TTTTTCTTTTTC
1 TTTTTCCTTTTC
57834585 TTTTT-CTTTTC
1 TTTTTCCTTTTC
57834596 TTCTTTCCTTT
1 TT-TTTCCTTT
57834607 CTCCCTGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
11 7 0.17
12 31 0.74
13 4 0.10
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:57834570 original size:18 final size:18
Alignment explanation
Indices: 57834549--57834602 Score: 83
Period size: 18 Copynumber: 3.0 Consensus size: 18
57834539 TAAACCCTAG
57834549 TTTTTCCTTTTCTTTTTC
1 TTTTTCCTTTTCTTTTTC
*
57834567 TTTTTCTTTTTCTTTTTC
1 TTTTTCCTTTTCTTTTTC
57834585 TTTTT-CTTTTCTTCTTTC
1 TTTTTCCTTTTCTT-TTTC
57834603 CTTTCTCCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.21
18 26 0.79
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTCCTTTTCTTTTTC
Found at i:57834685 original size:17 final size:18
Alignment explanation
Indices: 57834663--57834697 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
57834653 TCTTTTTTTT
*
57834663 TTCTTTTA-GTTTCTTTA
1 TTCTTTTATGTTTATTTA
57834680 TTCTTTTATGTTTATTTA
1 TTCTTTTATGTTTATTTA
57834698 CTTTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.09, G:0.06, T:0.71
Consensus pattern (18 bp):
TTCTTTTATGTTTATTTA
Found at i:57834693 original size:23 final size:21
Alignment explanation
Indices: 57834651--57834710 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 21
57834641 CCTTCATTTC
* *
57834651 TTTCTTT-TTTTTTTCTTTTA
1 TTTCTTTATTATTTTATTTTA
*
57834671 GTTTCTTTATTCTTTTATGTTTA
1 -TTTCTTTATTATTTTAT-TTTA
57834694 TTTACTTTATTATTTTA
1 TTT-CTTTATTATTTTA
57834711 ATGATAGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 7 0.21
22 10 0.30
23 16 0.48
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.75
Consensus pattern (21 bp):
TTTCTTTATTATTTTATTTTA
Found at i:57835473 original size:25 final size:24
Alignment explanation
Indices: 57835422--57835479 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
57835412 ATTTGGAAAT
*
57835422 CACATTCATAATATGTATTTATGA
1 CACATTCATAATATGTATTTATAA
*
57835446 CACATTCATAAAATAT-TATTTGTAA
1 CACATTCAT--AATATGTATTTATAA
57835471 CACATTCAT
1 CACATTCAT
57835480 TATGCTTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 9 0.30
25 16 0.53
26 5 0.17
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (24 bp):
CACATTCATAATATGTATTTATAA
Found at i:57835599 original size:11 final size:11
Alignment explanation
Indices: 57835585--57835612 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
57835575 AATTTTTTTC
57835585 ATTTTAATAAT
1 ATTTTAATAAT
57835596 ATTTTAATAAT
1 ATTTTAATAAT
57835607 ATTTTA
1 ATTTTA
57835613 TTACTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTTAATAAT
Found at i:57839468 original size:22 final size:24
Alignment explanation
Indices: 57839440--57839486 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
57839430 AAAAAAACAC
57839440 ATTTT-AAAAAA-TATATTTTAAA
1 ATTTTAAAAAAATTATATTTTAAA
*
57839462 ATTTTAAAAAAATTATGTTTTAAA
1 ATTTTAAAAAAATTATATTTTAAA
57839486 A
1 A
57839487 ATAAAAGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 6 0.27
24 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTTTAAAAAAATTATATTTTAAA
Found at i:57844223 original size:6 final size:6
Alignment explanation
Indices: 57844212--57844281 Score: 131
Period size: 6 Copynumber: 11.7 Consensus size: 6
57844202 TTTGTCTAAT
*
57844212 TATATG TATATG TCTATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
57844260 TATATG TATATG TATATG TATA
1 TATATG TATATG TATATG TATA
57844282 CGGCGCGATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:57845666 original size:61 final size:61
Alignment explanation
Indices: 57845578--57845712 Score: 189
Period size: 61 Copynumber: 2.2 Consensus size: 61
57845568 ATTAGAATTA
* * * * * *
57845578 ATCACATTAATATTAAATTAATGAAATATTTTCTAGATAAATATTATATTAAATTTAATAT
1 ATCATATTAATATTAAACTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATAT
* *
57845639 ATCATATTAATGTTAAACTAATAAAATACTATCTAGATCAATATTAAATTAAATTTAATAT
1 ATCATATTAATATTAAACTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATAT
*
57845700 CTCATATTAATAT
1 ATCATATTAATAT
57845713 CTAGAAAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (61 bp):
ATCATATTAATATTAAACTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATAT
Found at i:57850770 original size:7 final size:7
Alignment explanation
Indices: 57850758--57850792 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
57850748 CCAACTACAT
57850758 CTAATGA
1 CTAATGA
57850765 CTAATGA
1 CTAATGA
57850772 CTAATGA
1 CTAATGA
57850779 CTAATGA
1 CTAATGA
57850786 CTAATGA
1 CTAATGA
57850793 GGAAGAGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (7 bp):
CTAATGA
Found at i:57857658 original size:59 final size:59
Alignment explanation
Indices: 57857544--57857662 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
57857534 TTTTAGAAAA
*
57857544 CATTTAGATTGTATTTAAAAATAATATTTTACTATTAAAATATTAAGAATTTTAGTTTT
1 CATTTAGATTGTATTTAAAAATAATATCTTACTATTAAAATATTAAGAATTTTAGTTTT
*
57857603 CATTTAGATTGTATTTAAAAATAATATCTTAGTATTAAAATATTAAGAATTTTAGTTTT
1 CATTTAGATTGTATTTAAAAATAATATCTTACTATTAAAATATTAAGAATTTTAGTTTT
57857662 C
1 C
57857663 TCTATTTATT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (59 bp):
CATTTAGATTGTATTTAAAAATAATATCTTACTATTAAAATATTAAGAATTTTAGTTTT
Found at i:57857844 original size:8 final size:9
Alignment explanation
Indices: 57857829--57857853 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57857819 ACATATTTGC
57857829 TAATTTTTT
1 TAATTTTTT
57857838 TAATTTTTT
1 TAATTTTTT
57857847 TAATTTT
1 TAATTTT
57857854 ATATATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TAATTTTTT
Found at i:57858178 original size:112 final size:113
Alignment explanation
Indices: 57858037--57858281 Score: 384
Period size: 112 Copynumber: 2.2 Consensus size: 113
57858027 GTTGATCCAA
* ***
57858037 GCAGCCTAATTTTTTTACACATGGTATACTCATTTTGTTGACATGTGACAATTATTTATACAACC
1 GCAGCCTAATTTTTTGACACATAACATACTCATTTTGTTGACATGTGACAATTATTTATACAACC
* *
57858102 AATTTCTATATTATATATTACAAGGTCTCAGTCTC-CAGCTAATGTGG
66 AATTTATATATTATATATTACAAGGTCTCAGACTCTCAGCTAATGTGG
* *
57858149 GCAGCCTAAATTTTTGACACATAACATACTCATTTTGTTGACATGTGTCAATTATTTATACAACC
1 GCAGCCTAATTTTTTGACACATAACATACTCATTTTGTTGACATGTGACAATTATTTATACAACC
* *
57858214 AATTTATATATTATATATTACAAGGTCTTAGACTCTTAGCTAATGTGG
66 AATTTATATATTATATATTACAAGGTCTCAGACTCTCAGCTAATGTGG
*
57858262 ACAGCCTAATTTTTTGACAC
1 GCAGCCTAATTTTTTGACAC
57858282 GTGGTATATT
Statistics
Matches: 120, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
112 91 0.76
113 29 0.24
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.39
Consensus pattern (113 bp):
GCAGCCTAATTTTTTGACACATAACATACTCATTTTGTTGACATGTGACAATTATTTATACAACC
AATTTATATATTATATATTACAAGGTCTCAGACTCTCAGCTAATGTGG
Found at i:57858714 original size:67 final size:67
Alignment explanation
Indices: 57858633--57858773 Score: 201
Period size: 67 Copynumber: 2.1 Consensus size: 67
57858623 CACATTATTG
* * * *
57858633 GATAATACTTTCATAGCTCACTTTCAATATTTTCATTAAAAAAATAACTTTACTCTTACATTGAC
1 GATAATACTTTCATAGCTCACTTTCAATATTTTCATCAAAAAAATAACTTTAATCTCACATCGAC
57858698 TA
66 TA
* ** *
57858700 GATAATACTTTCATAGCTCACTTTCACTATTTTCATCAAAAAGTTAATTTTAATCTCACATCGAC
1 GATAATACTTTCATAGCTCACTTTCAATATTTTCATCAAAAAAATAACTTTAATCTCACATCGAC
57858765 TA
66 TA
*
57858767 GAGAATA
1 GATAATA
57858774 AGTTCACTTC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.38
Consensus pattern (67 bp):
GATAATACTTTCATAGCTCACTTTCAATATTTTCATCAAAAAAATAACTTTAATCTCACATCGAC
TA
Found at i:57858922 original size:26 final size:26
Alignment explanation
Indices: 57858892--57858944 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
57858882 CCTAGCTTGG
57858892 CCAGAAAAATGGGCCTAAAATTTTGC
1 CCAGAAAAATGGGCCTAAAATTTTGC
*
57858918 CCAGAAAAATGGGCCTAGAATTTTGC
1 CCAGAAAAATGGGCCTAAAATTTTGC
57858944 C
1 C
57858945 TAAGATTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (26 bp):
CCAGAAAAATGGGCCTAAAATTTTGC
Found at i:57859807 original size:6 final size:6
Alignment explanation
Indices: 57859796--57859824 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
57859786 TTATAAAAAG
57859796 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
57859825 CAAATACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TTAAAT
Found at i:57860225 original size:20 final size:18
Alignment explanation
Indices: 57860172--57860221 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
57860162 TTTTGTAGGG
57860172 TTTTAAGTTTTTTATATT
1 TTTTAAGTTTTTTATATT
57860190 TTTTAAGTTTATTATATATT
1 TTTTAAGTTT-TT-TATATT
*
57860210 CTTT-AGTTTTTT
1 TTTTAAGTTTTTT
57860222 TATAACATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.03
18 12 0.41
19 7 0.24
20 9 0.31
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (18 bp):
TTTTAAGTTTTTTATATT
Found at i:57862476 original size:15 final size:15
Alignment explanation
Indices: 57862456--57862569 Score: 87
Period size: 15 Copynumber: 8.0 Consensus size: 15
57862446 CATACTTAAG
57862456 TAGGGTTTGCACATA
1 TAGGGTTTGCACATA
*
57862471 TAGGGTTTGCTCATA
1 TAGGGTTTGCACATA
*
57862486 T-GGGTTTACACATA
1 TAGGGTTTGCACATA
*
57862500 CAGGGTTTGCACATA
1 TAGGGTTTGCACATA
**
57862515 T--GG-TT-CACACC
1 TAGGGTTTGCACATA
* *
57862526 TAGGGTTCGCACAAA
1 TAGGGTTTGCACATA
* *
57862541 CAGGGTTCGCAC-TA
1 TAGGGTTTGCACATA
* *
57862555 AAGGGTTCGCACATA
1 TAGGGTTTGCACATA
57862570 GTTTGTATAA
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
11 5 0.06
12 2 0.03
13 4 0.05
14 24 0.30
15 44 0.56
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (15 bp):
TAGGGTTTGCACATA
Found at i:57862504 original size:29 final size:29
Alignment explanation
Indices: 57862458--57862517 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
57862448 TACTTAAGTA
* * *
57862458 GGGTTTGCACATATAGGGTTTGCTCATAT
1 GGGTTTACACATACAGGGTTTGCACATAT
57862487 GGGTTTACACATACAGGGTTTGCACATAT
1 GGGTTTACACATACAGGGTTTGCACATAT
57862516 GG
1 GG
57862518 TTCACACCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (29 bp):
GGGTTTACACATACAGGGTTTGCACATAT
Found at i:57862622 original size:22 final size:22
Alignment explanation
Indices: 57862587--57862690 Score: 66
Period size: 22 Copynumber: 4.6 Consensus size: 22
57862577 TAATCAACAA
**
57862587 ATAAGGTTCACATATACCACAT
1 ATAAGGTTTGCATATACCACAT
* * * *
57862609 GTAGGGTTTGCATAAACAACAT
1 ATAAGGTTTGCATATACCACAT
* ** *
57862631 ATAAAGTTTGCAT-TATTTAAAT
1 ATAAGGTTTGCATATA-CCACAT
* *
57862653 AGTTAGGGTTCGCATATACCACAT
1 A--TAAGGTTTGCATATACCACAT
57862677 ATAAGGTTTGCATA
1 ATAAGGTTTGCATA
57862691 AATAATATAT
Statistics
Matches: 57, Mismatches: 21, Indels: 8
0.66 0.24 0.09
Matches are distributed among these distances:
21 1 0.02
22 41 0.72
24 13 0.23
25 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (22 bp):
ATAAGGTTTGCATATACCACAT
Found at i:57862669 original size:68 final size:66
Alignment explanation
Indices: 57862591--57862734 Score: 173
Period size: 68 Copynumber: 2.2 Consensus size: 66
57862581 CAACAAATAA
* * * *
57862591 GGTTCACATATACCACATGTAGGGTTTGCATAAACAACATATAAAGTTTGCATTATTT-AAATAG
1 GGTTCGCATATACCACATATAAGGTTTGCATAAACAACATATAAAGTTCGCA-TATTTAAAATA-
57862655 TTAG
64 -TAG
* * **
57862659 GGTTCGCATATACCACATATAAGGTTTGCATAAATAATATATAGGGTTCGCATATTTAAAATATA
1 GGTTCGCATATACCACATATAAGGTTTGCATAAACAACATATAAAGTTCGCATATTTAAAATATA
57862724 G
66 G
*
57862725 GGTTTGCATA
1 GGTTCGCATA
57862735 AATAACCTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
66 12 0.18
67 5 0.08
68 49 0.74
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (66 bp):
GGTTCGCATATACCACATATAAGGTTTGCATAAACAACATATAAAGTTCGCATATTTAAAATATA
G
Found at i:57862723 original size:44 final size:44
Alignment explanation
Indices: 57862610--57862739 Score: 127
Period size: 44 Copynumber: 2.9 Consensus size: 44
57862600 ATACCACATG
* * * * **
57862610 TAGGGTTTGCATAAACAACATATAAAGTTTGCATTATTTAA-ATA
1 TAGGGTTCGCATATACAAAATATAAGGTTTGCA-TAAATAATATA
* *
57862654 GTTAGGGTTCGCATATACCACATATAAGGTTTGCATAAATAATATA
1 --TAGGGTTCGCATATACAAAATATAAGGTTTGCATAAATAATATA
** *
57862700 TAGGGTTCGCATATTTAAAATATAGGGTTTGCATAAATAA
1 TAGGGTTCGCATATACAAAATATAAGGTTTGCATAAATAA
57862740 CCTATAAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
44 35 0.49
45 5 0.07
46 32 0.44
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (44 bp):
TAGGGTTCGCATATACAAAATATAAGGTTTGCATAAATAATATA
Found at i:57862745 original size:22 final size:22
Alignment explanation
Indices: 57862610--57862739 Score: 89
Period size: 22 Copynumber: 5.8 Consensus size: 22
57862600 ATACCACATG
* *
57862610 TAGGGTTTGCATAAACAACATA
1 TAGGGTTTGCATAAATAAAATA
** * * *
57862632 TAAAGTTTGCATTATTTAAATA
1 TAGGGTTTGCATAAATAAAATA
* * ** *
57862654 GTTAGGGTTCGCATATACCACATA
1 --TAGGGTTTGCATAAATAAAATA
* *
57862678 TAAGGTTTGCATAAATAATATA
1 TAGGGTTTGCATAAATAAAATA
* **
57862700 TAGGGTTCGCATATTTAAAATA
1 TAGGGTTTGCATAAATAAAATA
57862722 TAGGGTTTGCATAAATAA
1 TAGGGTTTGCATAAATAA
57862740 CCTATAAGAT
Statistics
Matches: 76, Mismatches: 30, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
22 63 0.83
24 13 0.17
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (22 bp):
TAGGGTTTGCATAAATAAAATA
Found at i:57876907 original size:13 final size:13
Alignment explanation
Indices: 57876889--57876935 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
57876879 TACTGCTTTT
57876889 GAAAAGTGTCGTG
1 GAAAAGTGTCGTG
* *
57876902 GAAAAGTG-CTTTT
1 GAAAAGTGTC-GTG
*
57876915 GAAAAGTGTTGTG
1 GAAAAGTGTCGTG
57876928 GAAAAGTG
1 GAAAAGTG
57876936 CTTTTCAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
12 1 0.04
13 26 0.96
ACGTcount: A:0.34, C:0.04, G:0.34, T:0.28
Consensus pattern (13 bp):
GAAAAGTGTCGTG
Found at i:57876947 original size:26 final size:26
Alignment explanation
Indices: 57876882--57876940 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
57876872 GGCTCTTTAC
57876882 TGCTTTTGAAAAGTGTCGTGGAAAAG
1 TGCTTTTGAAAAGTGTCGTGGAAAAG
*
57876908 TGCTTTTGAAAAGTGTTGTGGAAAAG
1 TGCTTTTGAAAAGTGTCGTGGAAAAG
57876934 TGCTTTT
1 TGCTTTT
57876941 CAGAAGTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (26 bp):
TGCTTTTGAAAAGTGTCGTGGAAAAG
Found at i:57876958 original size:26 final size:26
Alignment explanation
Indices: 57876882--57876948 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
57876872 GGCTCTTTAC
* * *
57876882 TGCTTTTGAAAAGTGTCGTGGAAAAG
1 TGCTTTTCAAAAGTATTGTGGAAAAG
* *
57876908 TGCTTTTGAAAAGTGTTGTGGAAAAG
1 TGCTTTTCAAAAGTATTGTGGAAAAG
*
57876934 TGCTTTTCAGAAGTA
1 TGCTTTTCAAAAGTA
57876949 ATTTTGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.34
Consensus pattern (26 bp):
TGCTTTTCAAAAGTATTGTGGAAAAG
Found at i:57877241 original size:21 final size:19
Alignment explanation
Indices: 57877185--57877245 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
57877175 TAATTATTTA
57877185 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
57877204 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
57877223 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
57877244 TT
1 TT
57877246 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:57879101 original size:72 final size:72
Alignment explanation
Indices: 57879011--57879322 Score: 493
Period size: 72 Copynumber: 4.3 Consensus size: 72
57879001 AAAATCACAT
* * * *
57879011 ATAAACAACTATTGATAAAACTA-ATTTAGTA-AAAAATAAGTAGAATATAAATTCAATATCTAA
1 ATAAACAACTATTGATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAAATTCAATATCCAA
*
57879074 AGACCAAAC
64 AAACCAAAC
* *
57879083 ATAAACAACTTTTAATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
57879148 ACCAAAC
66 ACCAAAC
*
57879155 ATAAACAACCATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
57879220 ACCAAAC
66 ACCAAAC
*
57879227 ATAAACAACCATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
57879292 ACCAAAC
66 ACCAAAC
* *
57879299 ATAAATAACTGTTGATAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
57879323 TTTAGCATTG
Statistics
Matches: 225, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
71 1 0.00
72 223 0.99
73 1 0.00
ACGTcount: A:0.55, C:0.15, G:0.06, T:0.23
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:57879772 original size:18 final size:18
Alignment explanation
Indices: 57879751--57879834 Score: 150
Period size: 18 Copynumber: 4.7 Consensus size: 18
57879741 TCCATCAATT
*
57879751 TGAACACCATTTGAAATG
1 TGAACATCATTTGAAATG
57879769 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
57879787 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
57879805 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
57879823 TGAACATCATTT
1 TGAACATCATTT
57879835 CTCATATTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:57880776 original size:43 final size:43
Alignment explanation
Indices: 57880723--57880854 Score: 210
Period size: 43 Copynumber: 3.1 Consensus size: 43
57880713 TTTTATAACT
*
57880723 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
57880766 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTGTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
57880809 AAATGCCGCTGAAGACCATGACCTTTAACGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
57880852 AAA
1 AAA
57880855 ACTTCTCCCA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:57880891 original size:57 final size:57
Alignment explanation
Indices: 57880803--57880911 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
57880793 GCGGCGCTTG
* * *
57880803 TCCCACAAATGCCGCTGAAGACCATGACCTTTAACGACGCTTTTCCCACAAAACTTC
1 TCCCACAAACGCCGCTAAACACCATGACCTTTAACGACGCTTTTCCCACAAAACTTC
* *
57880860 TCCCACAAACGCCGCTAAACACTATGACCTTTAGCGACGCTTTTCCCACAAA
1 TCCCACAAACGCCGCTAAACACCATGACCTTTAACGACGCTTTTCCCACAAA
57880912 CGCCGCTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.30, C:0.36, G:0.12, T:0.22
Consensus pattern (57 bp):
TCCCACAAACGCCGCTAAACACCATGACCTTTAACGACGCTTTTCCCACAAAACTTC
Found at i:57880921 original size:43 final size:42
Alignment explanation
Indices: 57880860--57880965 Score: 140
Period size: 43 Copynumber: 2.5 Consensus size: 42
57880850 ACAAAACTTC
* *
57880860 TCCCACAAACGCCGCTAAACACTATGACCTTTAGCGACGCTTT
1 TCCCACAAACGCCGCTAAAAAC-ATAACCTTTAGCGACGCTTT
* *
57880903 TCCCACAAACGCCGCTAAAAAACATAATCTTTAGCGGCGCTTT
1 TCCCACAAACGCCGCT-AAAAACATAACCTTTAGCGACGCTTT
**
57880946 TATCACAAACGCCGCTAAAA
1 TCCCACAAACGCCGCTAAAA
57880966 GTACAATTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 4 0.07
43 47 0.84
44 5 0.09
ACGTcount: A:0.33, C:0.32, G:0.13, T:0.22
Consensus pattern (42 bp):
TCCCACAAACGCCGCTAAAAACATAACCTTTAGCGACGCTTT
Found at i:57880935 original size:100 final size:100
Alignment explanation
Indices: 57880760--57880946 Score: 266
Period size: 100 Copynumber: 1.9 Consensus size: 100
57880750 GCGGCGCTTT
* * * * * *
57880760 TCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTGTCCCACAAATGCCGCTGAAGAC
1 TCCCACAAACGCCGCTAAACACCATGACCTTTAGCGACGCTTGTCCCACAAACGCCGCTAAAAAA
*
57880825 CATGACCTTTAACGACGCTTTTCCCACAAAACTTC
66 CATAACCTTTAACGACGCTTTTCCCACAAAACTTC
* *
57880860 TCCCACAAACGCCGCTAAACACTATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAAAA
1 TCCCACAAACGCCGCTAAACACCATGACCTTTAGCGACGCTTGTCCCACAAACGCCGCTAAAAAA
* * *
57880925 CATAATCTTTAGCGGCGCTTTT
66 CATAACCTTTAACGACGCTTTT
57880947 ATCACAAACG
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 75 1.00
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.22
Consensus pattern (100 bp):
TCCCACAAACGCCGCTAAACACCATGACCTTTAGCGACGCTTGTCCCACAAACGCCGCTAAAAAA
CATAACCTTTAACGACGCTTTTCCCACAAAACTTC
Found at i:57887556 original size:18 final size:18
Alignment explanation
Indices: 57887533--57887580 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
57887523 TTTTCTTTTT
*
57887533 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
57887551 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
57887569 TGAACATCATTT
1 TGAACATCATTT
57887581 CTCATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:57888522 original size:43 final size:43
Alignment explanation
Indices: 57888469--57888600 Score: 210
Period size: 43 Copynumber: 3.1 Consensus size: 43
57888459 TTTTATAACT
*
57888469 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
57888512 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTGTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
57888555 AAATGCCGCTGAAGACCATGACCTTTAACGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
57888598 AAA
1 AAA
57888601 ACTTCTCCCA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:57888637 original size:57 final size:57
Alignment explanation
Indices: 57888549--57888657 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
57888539 GCGGCGCTTG
* * *
57888549 TCCCACAAATGCCGCTGAAGACCATGACCTTTAACGACGCTTTTCCCACAAAACTTC
1 TCCCACAAACGCCGCTAAACACCATGACCTTTAACGACGCTTTTCCCACAAAACTTC
* *
57888606 TCCCACAAACGCCGCTAAACACTATGACCTTTAGCGACGCTTTTCCCACAAA
1 TCCCACAAACGCCGCTAAACACCATGACCTTTAACGACGCTTTTCCCACAAA
57888658 CGCCGCTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.30, C:0.36, G:0.12, T:0.22
Consensus pattern (57 bp):
TCCCACAAACGCCGCTAAACACCATGACCTTTAACGACGCTTTTCCCACAAAACTTC
Found at i:57888667 original size:43 final size:42
Alignment explanation
Indices: 57888606--57888711 Score: 140
Period size: 43 Copynumber: 2.5 Consensus size: 42
57888596 ACAAAACTTC
* *
57888606 TCCCACAAACGCCGCTAAACACTATGACCTTTAGCGACGCTTT
1 TCCCACAAACGCCGCTAAAAAC-ATAACCTTTAGCGACGCTTT
* *
57888649 TCCCACAAACGCCGCTAAAAAACATAATCTTTAGCGGCGCTTT
1 TCCCACAAACGCCGCT-AAAAACATAACCTTTAGCGACGCTTT
**
57888692 TATCACAAACGCCGCTAAAA
1 TCCCACAAACGCCGCTAAAA
57888712 GTACAATTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 4 0.07
43 47 0.84
44 5 0.09
ACGTcount: A:0.33, C:0.32, G:0.13, T:0.22
Consensus pattern (42 bp):
TCCCACAAACGCCGCTAAAAACATAACCTTTAGCGACGCTTT
Found at i:57888681 original size:100 final size:100
Alignment explanation
Indices: 57888506--57888692 Score: 266
Period size: 100 Copynumber: 1.9 Consensus size: 100
57888496 GCGGCGCTTT
* * * * * *
57888506 TCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTGTCCCACAAATGCCGCTGAAGAC
1 TCCCACAAACGCCGCTAAACACCATGACCTTTAGCGACGCTTGTCCCACAAACGCCGCTAAAAAA
*
57888571 CATGACCTTTAACGACGCTTTTCCCACAAAACTTC
66 CATAACCTTTAACGACGCTTTTCCCACAAAACTTC
* *
57888606 TCCCACAAACGCCGCTAAACACTATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAAAA
1 TCCCACAAACGCCGCTAAACACCATGACCTTTAGCGACGCTTGTCCCACAAACGCCGCTAAAAAA
* * *
57888671 CATAATCTTTAGCGGCGCTTTT
66 CATAACCTTTAACGACGCTTTT
57888693 ATCACAAACG
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 75 1.00
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.22
Consensus pattern (100 bp):
TCCCACAAACGCCGCTAAACACCATGACCTTTAGCGACGCTTGTCCCACAAACGCCGCTAAAAAA
CATAACCTTTAACGACGCTTTTCCCACAAAACTTC
Found at i:57891744 original size:24 final size:24
Alignment explanation
Indices: 57891712--57891771 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
57891702 CGTTGAAGGC
57891712 AGAAATAGATAACTTAAACAAATT
1 AGAAATAGATAACTTAAACAAATT
* *
57891736 AGAAATAGATAAATTAAACAACTT
1 AGAAATAGATAACTTAAACAAATT
57891760 AG-AATAGATAAC
1 AGAAATAGATAAC
57891772 AGTAGTCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 9 0.27
24 24 0.73
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.23
Consensus pattern (24 bp):
AGAAATAGATAACTTAAACAAATT
Done.