Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 319 of 356
Found at i:103176730 original size:44 final size:44
Alignment explanation
Indices: 103176682--103176824 Score: 134
Period size: 44 Copynumber: 3.3 Consensus size: 44
103176672 AGCCTTAACC
103176682 CCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCT
1 CCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCT
* * * * * * *
103176726 CCCTAAGTAGTAGTGG-AGCA-GATCG-AAGTGGT-GAG-CCTTAACC
1 CCCTAAGTAGTAG-GGTAACAGGCT-GAAAAT--TACAGATCTTATCT
103176769 CCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCT
1 CCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCT
* *
103176813 CCTTAAGCAGTA
1 CCCTAAGTAGTA
103176825 TGGAGCAGAT
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
42 3 0.04
43 29 0.39
44 39 0.53
45 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (44 bp):
CCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCT
Found at i:103176933 original size:73 final size:73
Alignment explanation
Indices: 103176800--103176943 Score: 236
Period size: 73 Copynumber: 2.0 Consensus size: 73
103176790 GCTGAAAATT
* ** *
103176800 ACAGATCTTATCTCCTTAAGCAGTATGGAGCAGATCGAAGATGGTGAGCCTTAACTCCCTAGGCA
1 ACAGATCTTATCTCCCTAAGCAGTATGGAGCAGATCGAAGACAGTGAGCCTTAACTCCCTAAGCA
103176865 GTAGGGTA
66 GTAGGGTA
103176873 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC-CCCTAAGC
1 ACAGATCTTATCTCCCTAAGCAGTA-TGGAGCAGATCGAAGACAGTGAGCCTTAACTCCCTAAGC
103176937 AGTAGGG
65 AGTAGGG
103176944 AAGCAGTAGT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
73 38 0.58
74 28 0.42
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (73 bp):
ACAGATCTTATCTCCCTAAGCAGTATGGAGCAGATCGAAGACAGTGAGCCTTAACTCCCTAAGCA
GTAGGGTA
Found at i:103176972 original size:54 final size:55
Alignment explanation
Indices: 103176890--103176998 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 55
103176880 TTATCTCCCT
103176890 AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAA-CCCCTAAGCAGTAGGG
1 AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGG
103176944 AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGG
1 AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGG
103176999 TAACAGGCTG
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 38 0.70
55 16 0.30
ACGTcount: A:0.33, C:0.21, G:0.31, T:0.15
Consensus pattern (55 bp):
AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGG
Found at i:103177032 original size:44 final size:44
Alignment explanation
Indices: 103176984--103177171 Score: 170
Period size: 44 Copynumber: 4.3 Consensus size: 44
103176974 AGCCTTAACC
*
103176984 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCT
* * ** * * *
103177028 CCCTAAGCAGTAGTGG-AGCA-GATCGAAGACGGT-GAG-CCTTATCC
1 CCCTAAGCAGTAG-GGAAACAGGCT-GAA-A-ATTACAGATCTTATCT
* * *
103177072 CCCTAAGCACTGGGGAAACAGGCTG-AAATTACAAATCTTATCT
1 CCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCT
* * *
103177115 CCCTAAGCACTAGGGAAACAAGCTGAAAATTATAGATCTTATCT
1 CCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCT
*
103177159 CCCTAAGTAGTAG
1 CCCTAAGCAGTAG
103177172 CAGAGCAGAT
Statistics
Matches: 112, Mismatches: 23, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 34 0.30
44 67 0.60
45 7 0.06
46 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCT
Found at i:103177093 original size:88 final size:87
Alignment explanation
Indices: 103176944--103177123 Score: 297
Period size: 88 Copynumber: 2.1 Consensus size: 87
103176934 AGCAGTAGGG
* *
103176944 AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG
1 AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCACTAGGGAAACAGGCTG
*
103177009 AAAATTACAGATCTTATCTCCCT
66 -AAATTACAAATCTTATCTCCCT
* * *
103177032 AAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATCCCCCTAAGCACTGGGGAAACAGGCTG
1 AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCACTAGGGAAACAGGCTG
103177097 AAATTACAAATCTTATCTCCCT
66 AAATTACAAATCTTATCTCCCT
103177119 AAGCA
1 AAGCA
103177124 CTAGGGAAAC
Statistics
Matches: 86, Mismatches: 6, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
87 26 0.30
88 60 0.70
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (87 bp):
AAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCACTAGGGAAACAGGCTG
AAATTACAAATCTTATCTCCCT
Found at i:103177119 original size:43 final size:44
Alignment explanation
Indices: 103177065--103177165 Score: 150
Period size: 43 Copynumber: 2.3 Consensus size: 44
103177055 GACGGTGAGC
* * *
103177065 CTTATCCCCCTAAGCACTGGGGAAACAGGCTG-AAATTACAAAT
1 CTTATCTCCCTAAGCACTAGGGAAACAAGCTGAAAATTACAAAT
* *
103177108 CTTATCTCCCTAAGCACTAGGGAAACAAGCTGAAAATTATAGAT
1 CTTATCTCCCTAAGCACTAGGGAAACAAGCTGAAAATTACAAAT
103177152 CTTATCTCCCTAAG
1 CTTATCTCCCTAAG
103177166 TAGTAGCAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
43 29 0.56
44 23 0.44
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (44 bp):
CTTATCTCCCTAAGCACTAGGGAAACAAGCTGAAAATTACAAAT
Found at i:103178656 original size:44 final size:45
Alignment explanation
Indices: 103178602--103178699 Score: 146
Period size: 44 Copynumber: 2.2 Consensus size: 45
103178592 GTTACAAGCT
* *
103178602 TTATCTCCCTAAGTAGTAGTGGAGCAGGCTGAAAATTA-CAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAAATTACCAGATC
* *
103178646 TTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAGATTACCAGATT
1 TTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAAATTACCAGATC
103178691 TTATC-CCCT
1 TTATCTCCCT
103178700 TTAAGTTTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 39 0.80
45 10 0.20
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (45 bp):
TTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAAATTACCAGATC
Found at i:103178882 original size:35 final size:35
Alignment explanation
Indices: 103178836--103178905 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
103178826 CAGCAGGTCC
103178836 AGGCAAAATTGGCCCTTTTATAGTCTTTGCACCAT
1 AGGCAAAATTGGCCCTTTTATAGTCTTTGCACCAT
103178871 AGGCAAAATTGGCCCTTTTATAGTCTTTGCACCAT
1 AGGCAAAATTGGCCCTTTTATAGTCTTTGCACCAT
103178906 TCTCGTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (35 bp):
AGGCAAAATTGGCCCTTTTATAGTCTTTGCACCAT
Found at i:103179745 original size:15 final size:14
Alignment explanation
Indices: 103179689--103179805 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
103179679 TTATTATGTT
*
103179689 TCTATTTGTATTTA
1 TCTATTTTTATTTA
*
103179703 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
103179717 TACTATTATTATTTA
1 T-CTATTTTTATTTA
103179732 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
103179747 TCTATTTATATTTC
1 TCTATTTTTATTTA
*
103179761 TACTATTATTATATT-
1 T-CTATTTTTAT-TTA
103179776 TCTATTTATTATATT-
1 TCTATTT-TTAT-TTA
* *
103179791 TTTATTTCTATTTA
1 TCTATTTTTATTTA
103179805 T
1 T
103179806 ATACTAATAT
Statistics
Matches: 82, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 4 0.05
14 24 0.29
15 37 0.45
16 4 0.05
17 7 0.09
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.65
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:103179758 original size:14 final size:15
Alignment explanation
Indices: 103179726--103179759 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
103179716 ATACTATTAT
*
103179726 TATTTATCTAATTTT
1 TATTTATCTAATTTA
103179741 TATTTATCT-ATTTA
1 TATTTATCTAATTTA
103179755 TATTT
1 TATTT
103179760 CTACTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATCTAATTTA
Found at i:103179758 original size:29 final size:29
Alignment explanation
Indices: 103179726--103179784 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
103179716 ATACTATTAT
*
103179726 TATTTAT-CTAATTTTTAT-TTATCTATTTA
1 TATTTATACT-ATTATTATATT-TCTATTTA
*
103179755 TATTTCTACTATTATTATATTTCTATTTA
1 TATTTATACTATTATTATATTTCTATTTA
103179784 T
1 T
103179785 TATATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTATACTATTATTATATTTCTATTTA
Found at i:103179774 original size:17 final size:15
Alignment explanation
Indices: 103179752--103179797 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
103179742 ATTTATCTAT
103179752 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
103179769 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
103179784 TTATATTTTTATTT
1 TTATATTTCTATTT
103179798 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:103179790 original size:23 final size:23
Alignment explanation
Indices: 103179764--103179830 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
103179754 ATATTTCTAC
103179764 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
103179787 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
103179809 CTAATATTAT-TTTC-A-TTATTA
1 -TATTATTATATTTCTATTTATTA
103179830 T
1 T
103179831 TTTTCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 8 0.21
24 6 0.15
25 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:103179841 original size:52 final size:54
Alignment explanation
Indices: 103179720--103179841 Score: 125
Period size: 52 Copynumber: 2.4 Consensus size: 54
103179710 ATTCTAATAC
* * *
103179720 TATTATTATTTATC-TA-ATTTTTATTTATCTATTTATATTTCTACTATTATTA
1 TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
* *
103179772 TATT-TCTA--TTTATTATATTTTTA-TT-TCTATTTATA-TACTAATATTATTT
1 TATTAT-TATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
103179821 TCATTATTATTTTTCTTATAT
1 T-ATTATTATTTTTCTTATAT
103179842 ATGTTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
49 12 0.21
50 17 0.30
51 6 0.11
52 22 0.39
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (54 bp):
TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
Found at i:103186786 original size:39 final size:39
Alignment explanation
Indices: 103186743--103186818 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
103186733 TAAACCTTTA
103186743 TAATTCTTAGGGATTCTTTTTATAAGAGTTAATAGATTT
1 TAATTCTTAGGGATTCTTTTTATAAGAGTTAATAGATTT
103186782 TAATTCTTAGGGATTCTTTTTATAAGAGTTAATAGAT
1 TAATTCTTAGGGATTCTTTTTATAAGAGTTAATAGAT
103186819 AGTAGTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (39 bp):
TAATTCTTAGGGATTCTTTTTATAAGAGTTAATAGATTT
Found at i:103186933 original size:23 final size:24
Alignment explanation
Indices: 103186888--103186934 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
103186878 AAATTTAATT
*
103186888 TTTAATGTTTATATTTTTTGTTAA
1 TTTAATGTTTATATTTTTAGTTAA
*
103186912 TTTAATTTTTA-ATTTTTAGTTAA
1 TTTAATGTTTATATTTTTAGTTAA
103186935 ACTTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (24 bp):
TTTAATGTTTATATTTTTAGTTAA
Found at i:103186940 original size:24 final size:23
Alignment explanation
Indices: 103186889--103186950 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
103186879 AATTTAATTT
* * *
103186889 TTAATGTTTATATTTTTTGTTAAT
1 TTAATTTTTA-ATTTTTAGTTAAC
103186913 TTAATTTTTAATTTTTAGTTAAAC
1 TTAATTTTTAATTTTTAGTT-AAC
* *
103186937 TTAAATTTGAATTT
1 TTAATTTTTAATTT
103186951 AATCTTTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 9 0.28
24 23 0.72
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (23 bp):
TTAATTTTTAATTTTTAGTTAAC
Found at i:103187164 original size:22 final size:22
Alignment explanation
Indices: 103187139--103187211 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
103187129 TGGAATGATT
103187139 ATAATTAATGTATTGAAAAGTA
1 ATAATTAATGTATTGAAAAGTA
* * * *
103187161 ATAATTCATCAATG-AATGGAATGATT
1 ATAA-T--T-AATGTATTGAAAAG-TA
103187187 ATAATTAATGTATTGAAAAGTA
1 ATAATTAATGTATTGAAAAGTA
103187209 ATA
1 ATA
103187212 CACAGATTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
22 12 0.32
23 8 0.22
25 8 0.22
26 9 0.24
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.36
Consensus pattern (22 bp):
ATAATTAATGTATTGAAAAGTA
Found at i:103187167 original size:48 final size:48
Alignment explanation
Indices: 103187113--103187211 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
103187103 TAGAGTTTTC
103187113 ATAATTCATCAATGAATGGAATGATTATAATTAATGTATTGAAAAGTA
1 ATAATTCATCAATGAATGGAATGATTATAATTAATGTATTGAAAAGTA
103187161 ATAATTCATCAATGAATGGAATGATTATAATTAATGTATTGAAAAGTA
1 ATAATTCATCAATGAATGGAATGATTATAATTAATGTATTGAAAAGTA
103187209 ATA
1 ATA
103187212 CACAGATTTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.35
Consensus pattern (48 bp):
ATAATTCATCAATGAATGGAATGATTATAATTAATGTATTGAAAAGTA
Found at i:103187190 original size:26 final size:26
Alignment explanation
Indices: 103187113--103187192 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
103187103 TAGAGTTTTC
103187113 ATAATTCATCAATGAATGGAATGATT
1 ATAATTCATCAATGAATGGAATGATT
* * * *
103187139 ATAA-T--T-AATGTATTGAA-AAGTA
1 ATAATTCATCAATGAATGGAATGA-TT
103187161 ATAATTCATCAATGAATGGAATGATT
1 ATAATTCATCAATGAATGGAATGATT
103187187 ATAATT
1 ATAATT
103187193 AATGTATTGA
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
21 1 0.03
22 14 0.35
23 2 0.05
25 2 0.05
26 20 0.50
27 1 0.03
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (26 bp):
ATAATTCATCAATGAATGGAATGATT
Found at i:103190238 original size:20 final size:20
Alignment explanation
Indices: 103190213--103190258 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
103190203 GTCGGAACAT
*
103190213 TTTCAACAACAATTATAGTG
1 TTTCAACAACAATTATAGTA
103190233 TTTCAACAACAATTATAGTA
1 TTTCAACAACAATTATAGTA
103190253 TTTCAA
1 TTTCAA
103190259 AAACTATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (20 bp):
TTTCAACAACAATTATAGTA
Found at i:103196269 original size:37 final size:37
Alignment explanation
Indices: 103196227--103196374 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
103196217 AGCTAAAGCT
*
103196227 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
* *
103196264 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
**
103196301 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
103196338 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
103196375 GCTAAAACTA
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (37 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
Found at i:103201982 original size:21 final size:21
Alignment explanation
Indices: 103201956--103201995 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
103201946 TACATTTGCC
103201956 AAACATTTAATGCTTAGTATA
1 AAACATTTAATGCTTAGTATA
103201977 AAACATTTAATGCTTAGTA
1 AAACATTTAATGCTTAGTA
103201996 ATTAATGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (21 bp):
AAACATTTAATGCTTAGTATA
Found at i:103202002 original size:14 final size:14
Alignment explanation
Indices: 103201983--103202011 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
103201973 TATAAAACAT
103201983 TTAATGCTTAGTAA
1 TTAATGCTTAGTAA
103201997 TTAATGCTTAGTAA
1 TTAATGCTTAGTAA
103202011 T
1 T
103202012 GACGGATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (14 bp):
TTAATGCTTAGTAA
Found at i:103210463 original size:46 final size:48
Alignment explanation
Indices: 103210364--103210681 Score: 256
Period size: 46 Copynumber: 6.7 Consensus size: 48
103210354 GGTTATTGTG
* * *
103210364 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA--CA
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
*
103210410 AGTGCTAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCCTCGAGATGTA
1 A--GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
103210458 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGATGT-
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTA
* * *
103210503 -G-TCAGTGTAA-ACCATGTTTGGGACATGGCATCGGCAC-AGATATGTGA
1 AGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-A
* * * * **
103210550 GAGCTAGTGTAAGACCATCTCTGGGACATGGCATCAGTCTTGATTTCG-A
1 -AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-GTA
* * *
103210599 TAG-TCAGTGTAAGACTATGTCTGGGACATGGCATC-GACTTGATGGATG--
1 -AGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA--GATGTA
*
103210647 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
103210682 ACATTATACC
Statistics
Matches: 227, Mismatches: 22, Indels: 44
0.77 0.08 0.15
Matches are distributed among these distances:
43 2 0.01
44 21 0.09
45 15 0.07
46 54 0.24
47 45 0.20
48 21 0.09
49 41 0.18
50 27 0.12
51 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
Found at i:103210555 original size:93 final size:94
Alignment explanation
Indices: 103210363--103210681 Score: 277
Period size: 96 Copynumber: 3.4 Consensus size: 94
103210353 GGGTTATTGT
103210363 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACAAGTGCTAGTGTAAGACAT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGAGACAAGTGCTAGTGTAAGACAT
*
103210428 GTCTGAGACATGCATCGGCCTCGAGATGTA
65 GTCTGAGACATGCATCGGCCTAGAGATGTA
* *
103210458 -AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-T-ACGAGATGTG-TCAGTGTAA-ACC
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGA-GACAAGTGCT-AGTGTAAGA-C
* * *
103210516 ATGTTTGGGACATGGCATCGGCAC-AGATATGTGA
63 ATGTCTGAGACAT-GCATCGGC-CTAGAGATGT-A
* * * **
103210550 GAGCTAGTGTAAGACCATCTCTGGGACATGGCATCAGTCTTGATTTCGATAGT-C-AGTGTAAGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATGA-GAC-A-AGTGCTAGTGTAAGA
* * * *
103210613 CTATGTCTGGGACATGGCATC-GACT--TGATGGA
62 C-ATGTCTGAGACAT-GCATCGGCCTAGAGATGTA
*
103210645 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
103210682 ACATTATACC
Statistics
Matches: 185, Mismatches: 20, Indels: 38
0.76 0.08 0.16
Matches are distributed among these distances:
89 3 0.02
90 26 0.14
91 14 0.08
92 10 0.05
93 27 0.15
94 26 0.14
95 7 0.04
96 38 0.21
97 2 0.01
98 10 0.05
99 20 0.11
100 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (94 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGAGACAAGTGCTAGTGTAAGACATG
TCTGAGACATGCATCGGCCTAGAGATGTA
Found at i:103213052 original size:24 final size:24
Alignment explanation
Indices: 103213016--103213079 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
103213006 TCCAGGCTGT
103213016 ATAATAGGAAGCTCAT-AAGAGCCA
1 ATAATAGGAAGCTC-TGAAGAGCCA
* *
103213040 ATAATGGGTAGCTCTGAAGAGCCA
1 ATAATAGGAAGCTCTGAAGAGCCA
* *
103213064 TTAATCGAGAAGCTCT
1 ATAATAG-GAAGCTCT
103213080 AGATAGCCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 1 0.03
24 25 0.76
25 7 0.21
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (24 bp):
ATAATAGGAAGCTCTGAAGAGCCA
Found at i:103213700 original size:5 final size:5
Alignment explanation
Indices: 103213671--103213709 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
103213661 TAAATTTAGC
* *
103213671 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
103213710 CATCCTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:103218596 original size:23 final size:23
Alignment explanation
Indices: 103218570--103218621 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
103218560 AATTAAAAAG
103218570 ATGAAAGCAT-TATAGCTATCATT
1 ATGAAAGCATAT-TAGCTATCATT
*
103218593 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTAGCTATCATT
103218616 ATGAAA
1 ATGAAA
103218622 CCAAGTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:103218684 original size:9 final size:9
Alignment explanation
Indices: 103218672--103218703 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
103218662 ACAAATATTA
103218672 AAAATAAAC
1 AAAATAAAC
103218681 AAAATAAAC
1 AAAATAAAC
103218690 AAAATAAAC
1 AAAATAAAC
103218699 AAAAT
1 AAAAT
103218704 GCACCAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAC
Found at i:103223057 original size:23 final size:23
Alignment explanation
Indices: 103223031--103223082 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
103223021 AATTAAAAAG
103223031 ATGAAAGCAT-TATAACTATCATT
1 ATGAAAGCATAT-TAACTATCATT
* *
103223054 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTAACTATCATT
103223077 ATGAAA
1 ATGAAA
103223083 CCAAGTTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTAACTATCATT
Found at i:103234426 original size:31 final size:30
Alignment explanation
Indices: 103234354--103234431 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
103234344 TTTGAACCAC
103234354 AATCAAAGTTTCATGTA-TATAATTGCATCA
1 AATCAAAG-TTCATGTATTATAATTGCATCA
*
103234384 AATTAAAGTTCATGTATTA-AATTGCA-CA
1 AATCAAAGTTCATGTATTATAATTGCATCA
103234412 TTGAATCAAAGTTCATGTAT
1 ---AATCAAAGTTCATGTAT
103234432 AATTTTGGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 2 0.05
29 15 0.36
30 9 0.21
31 16 0.38
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (30 bp):
AATCAAAGTTCATGTATTATAATTGCATCA
Found at i:103234435 original size:29 final size:27
Alignment explanation
Indices: 103234354--103234435 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 27
103234344 TTTGAACCAC
103234354 AATCAAAGTTTCATGTATATAATTGCATCA
1 AATCAAAG-TTCATG--TATAATTGCATCA
*
103234384 AATTAAAGTTCATGTATTAAATTGCA-CA
1 AATCAAAGTTCATGTA-T-AATTGCATCA
103234412 TTGAATCAAAGTTCATGTATAATT
1 ---AATCAAAGTTCATGTATAATT
103234436 TTGGGATTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
27 2 0.04
28 3 0.07
29 17 0.38
30 8 0.18
31 15 0.33
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (27 bp):
AATCAAAGTTCATGTATAATTGCATCA
Found at i:103239871 original size:15 final size:15
Alignment explanation
Indices: 103239851--103239884 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
103239841 AACTGCCTAC
*
103239851 AAAATATGATTTATT
1 AAAATATGATATATT
*
103239866 AAAATATTATATATT
1 AAAATATGATATATT
103239881 AAAA
1 AAAA
103239885 AACCCAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
AAAATATGATATATT
Found at i:103240892 original size:20 final size:20
Alignment explanation
Indices: 103240869--103240922 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
103240859 TTATAAATTT
*
103240869 ATTTAATAATAATCAAAATA
1 ATTTAATAATAATAAAAATA
*
103240889 ATTTATTGAATAA-AAAAATA
1 ATTTAAT-AATAATAAAAATA
*
103240909 ATATAA-AATAATAA
1 ATTTAATAATAATAA
103240923 GTAAATCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 5 0.18
19 2 0.07
20 16 0.57
21 5 0.18
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
ATTTAATAATAATAAAAATA
Found at i:103241083 original size:16 final size:16
Alignment explanation
Indices: 103241062--103241093 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
103241052 ACCCTTAGAC
103241062 TTGTCCATTACAAGAA
1 TTGTCCATTACAAGAA
103241078 TTGTCCATTACAAGAA
1 TTGTCCATTACAAGAA
103241094 AGCTTGAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (16 bp):
TTGTCCATTACAAGAA
Found at i:103249673 original size:12 final size:13
Alignment explanation
Indices: 103249654--103249691 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
103249644 CCTTACGTTT
103249654 CTTCTTTCTTTTC
1 CTTCTTTCTTTTC
*
103249667 CTT-TTTCTTTTT
1 CTTCTTTCTTTTC
103249679 CTTCCTTTCTTTT
1 CTT-CTTTCTTTT
103249692 TGTTTCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 11 0.50
13 3 0.14
14 8 0.36
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
CTTCTTTCTTTTC
Found at i:103249679 original size:25 final size:25
Alignment explanation
Indices: 103249651--103249722 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 25
103249641 AAGCCTTACG
103249651 TTTCTTCTTTCTTTTCCTTTTTC-TT
1 TTTCTTCTTTCTTTT-CTTTTTCATT
*
103249676 TTTCTTCCTTTCTTTT-TGTTTCATT
1 TTTCTT-CTTTCTTTTCTTTTTCATT
**
103249701 TGGCTTCTTTCTTTTTCTTTTT
1 TTTCTTCTTTC-TTTTCTTTTT
103249723 TTTATTACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 10 0.26
25 16 0.41
26 13 0.33
ACGTcount: A:0.01, C:0.21, G:0.04, T:0.74
Consensus pattern (25 bp):
TTTCTTCTTTCTTTTCTTTTTCATT
Found at i:103249786 original size:23 final size:22
Alignment explanation
Indices: 103249745--103249790 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
103249735 TTTATTATAA
103249745 TTATATAATATATACTTAAGATT
1 TTATATAATATATACTTAA-ATT
*
103249768 TTATATTATAATATA-TTAAATT
1 TTATATAAT-ATATACTTAAATT
103249790 T
1 T
103249791 ACAAATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TTATATAATATATACTTAAATT
Found at i:103250153 original size:21 final size:21
Alignment explanation
Indices: 103250129--103250170 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
103250119 GAAAAAATTC
103250129 GTCAGGCGATTACATGGGATA
1 GTCAGGCGATTACATGGGATA
103250150 GTCAGGCGATTACATGGGATA
1 GTCAGGCGATTACATGGGATA
103250171 ACCTGGTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (21 bp):
GTCAGGCGATTACATGGGATA
Found at i:103251767 original size:22 final size:22
Alignment explanation
Indices: 103251733--103251778 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
103251723 AATATTGAAA
103251733 TATATACTCTTAT-ATTAATATT
1 TATATACTCTTATAATTAA-ATT
* *
103251755 TATATATTTTTATAATTAAATT
1 TATATACTCTTATAATTAAATT
103251777 TA
1 TA
103251779 AATAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
TATATACTCTTATAATTAAATT
Found at i:103254740 original size:20 final size:18
Alignment explanation
Indices: 103254694--103254766 Score: 65
Period size: 20 Copynumber: 3.8 Consensus size: 18
103254684 TATTTTTTTA
* * *
103254694 AATTTTATATAAAATAAA
1 AATTTTTTAAAAAATAAT
*
103254712 AATATTTTTAAAATAATATT
1 AAT-TTTTTAAAA-AATAAT
*
103254732 TATTATTTTATAAAAATAAT
1 AATT-TTTTA-AAAAATAAT
103254752 AATTTTTTAAAAAAT
1 AATTTTTTAAAAAAT
103254767 TTCAAAACTA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
18 9 0.20
19 13 0.30
20 19 0.43
21 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTTTTTAAAAAATAAT
Found at i:103268860 original size:28 final size:26
Alignment explanation
Indices: 103268810--103268869 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 26
103268800 ACTAGCATTT
*
103268810 AATATATAAATGATATAAAATA-TAA
1 AATATATAAAAGATATAAAATATTAA
*
103268835 CAATATATAAAAGATTTAATACATATTAA
1 -AATATATAAAAGATATAA-A-ATATTAA
103268864 AATATA
1 AATATA
103268870 AAATAAGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 16 0.55
27 1 0.03
28 9 0.31
29 3 0.10
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (26 bp):
AATATATAAAAGATATAAAATATTAA
Found at i:103269072 original size:20 final size:20
Alignment explanation
Indices: 103269049--103269093 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
103269039 ATATAAAAAT
*
103269049 ATAATAAAATAAATAATATA
1 ATAATAAAATAAATAACATA
*
103269069 AT-A-AAAATATATAACATA
1 ATAATAAAATAAATAACATA
103269087 A-AATAAA
1 ATAATAAA
103269094 TTTTTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 15 0.71
19 4 0.19
20 2 0.10
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
ATAATAAAATAAATAACATA
Found at i:103269094 original size:18 final size:18
Alignment explanation
Indices: 103269049--103269087 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
103269039 ATATAAAAAT
*
103269049 ATAAT-AAAATAAATAAT
1 ATAATAAAAATAAATAAC
*
103269066 ATAATAAAAATATATAAC
1 ATAATAAAAATAAATAAC
103269084 ATAA
1 ATAA
103269088 AATAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAATAAAAATAAATAAC
Found at i:103271011 original size:175 final size:176
Alignment explanation
Indices: 103270819--103271195 Score: 582
Period size: 176 Copynumber: 2.1 Consensus size: 176
103270809 ACGTGAAATC
* *
103270819 CAAATCTGCTGTGTCTTCGATTTGCTCCTTGTGAACACAATG-ATG-CCAAATCATCTTGGATCT
1 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAA-GAATGCCCAAATCATCTTGGATCT
* * * *
103270882 GCTTCAGTA-AAATTATCTGAAGGTTAGATCTGCTATGT-CTCTGCTCTCGGTCGAAATGGAGAT
65 GCTTCAGTATAAA-CATCTGAAGGTTAGACCTGCTATGTAC-CTACTCTCCGTCGAAATGGAGAT
* *
103270945 GCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCAAAAGT
128 GCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCCAAAAGT
* *
103270994 CAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCCAAATCATCTTTGATCTG
1 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCCAAATCATCTTGGATCTG
103271059 CTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGAGATGCC
66 CTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGAGATGCC
* *
103271124 AGATCTGTTATCTTGGATCTGTTTTGATGTGAAAACATCTAAAAGT
131 AGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCCAAAAGT
*
103271170 CAGATCTGCTATGTCTTCGATTTGCT
1 CAAATCTGCTATGTCTTCGATTTGCT
103271196 TATCGTCGAA
Statistics
Matches: 184, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
174 1 0.01
175 40 0.22
176 139 0.76
177 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (176 bp):
CAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCCAAATCATCTTGGATCTG
CTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGAGATGCC
AGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCCAAAAGT
Found at i:103271222 original size:176 final size:175
Alignment explanation
Indices: 103270819--103271276 Score: 566
Period size: 176 Copynumber: 2.6 Consensus size: 175
103270809 ACGTGAAATC
* * * * *
103270819 CAAATCTGCTGTGTCTTCGATTTGCTCCTTGTGAACACAATG-ATGCCAAATCATCTTGGATCTG
1 CAAATCTGCTATGTCTTCGATTTGTTCATCGTAAACACAA-GAATGCCAAATCATCTTGGATCTG
* * *
103270883 CTTCAGTA-AAATTATCTGAAGGTTAGATCTGCTATGTCTCTGCTCTCGGTCGAAATGGAGATGC
65 CTTCAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTCTCTACTCTCCGTCGAAATGGAGATGC
* *
103270947 CAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCAAAAGT
129 CAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCCAAAAGT
* * *
103270994 CAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCCAAATCATCTTTGATCTG
1 CAAATCTGCTATGTCTTCGATTTGTTCATCGTAAACACAAGAATG-CCAAATCATCTTGGATCTG
*
103271059 CTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTAC-CTACTCTCCGTCGAAATGGAGATGC
65 CTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGT-CTCTACTCTCCGTCGAAATGGAGATGC
* *
103271123 CAGATCTGTTATCTTGGATCTGTTTTGATGTGAAAACATCTAAAAGT
129 CAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCCAAAAGT
* * * *
103271170 CAGATCTGCTATGTCTTCGATTTGCTT-ATCGTCGAAGATAGAGAA-GCCAAATCTTGTTATCTT
1 CAAATCTGCTATGTCTTCGATTTG-TTCATCGT-AAACACA-AGAATGCCAAATC-----ATCTT
* * *
103271233 GGATCTGCTTCAGTGTAAACATGTGAAGGTCAGATCTGCTATGT
58 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGT
103271277 TTTGGTCTGT
Statistics
Matches: 248, Mismatches: 23, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
174 1 0.00
175 40 0.16
176 148 0.60
177 11 0.04
178 4 0.02
181 44 0.18
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (175 bp):
CAAATCTGCTATGTCTTCGATTTGTTCATCGTAAACACAAGAATGCCAAATCATCTTGGATCTGC
TTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTCTCTACTCTCCGTCGAAATGGAGATGCCA
GATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCCAAAAGT
Found at i:103271265 original size:93 final size:93
Alignment explanation
Indices: 103271106--103271276 Score: 229
Period size: 93 Copynumber: 1.8 Consensus size: 93
103271096 ACCTACTCTC
* * * * *
103271106 CGTCGAAATGGAGATGCCAGATCTGTTATCTTGGATCTGTTTTGATGTGAAAACATCTAAAAGTC
1 CGTCGAAATAGAGAAGCCAAATCTGTTATCTTGGATCTGTCTTCATGTGAAAACATCTAAAAGTC
103271171 AGATCTGCTATGTCTTCGATTTGCTTAT
66 AGATCTGCTATGTCTTCGATTTGCTTAT
* * * *
103271199 CGTCGAAGATAGAGAAGCCAAATCTTGTTATCTTGGATCTG-CTTCA-GTGTAAACATGTGAAGG
1 CGTCGAA-ATAGAGAAGCCAAATC-TGTTATCTTGGATCTGTCTTCATGTGAAAACATCTAAAAG
103271262 TCAGATCTGCTATGT
64 TCAGATCTGCTATGT
103271277 TTTGGTCTGT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
93 35 0.52
94 16 0.24
95 16 0.24
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (93 bp):
CGTCGAAATAGAGAAGCCAAATCTGTTATCTTGGATCTGTCTTCATGTGAAAACATCTAAAAGTC
AGATCTGCTATGTCTTCGATTTGCTTAT
Found at i:103282678 original size:24 final size:23
Alignment explanation
Indices: 103282626--103282679 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
103282616 ACATATAAAT
* *
103282626 ACATATACAAAACAAATGTGATA
1 ACATATAAAAAAAAAATGTGATA
*
103282649 ATATATAAAAAAAATAATGT-AGTA
1 ACATATAAAAAAAA-AATGTGA-TA
103282673 ACATATA
1 ACATATA
103282680 TATATCAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (23 bp):
ACATATAAAAAAAAAATGTGATA
Found at i:103282995 original size:45 final size:43
Alignment explanation
Indices: 103282923--103283007 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 43
103282913 ATGAAATGTG
* * *
103282923 TATAATAATAATAATAATGTAAAAAATATTTTACATATAAAAA
1 TATAATAATAATAATAATATAAAAAATATATAACATATAAAAA
103282966 TATAATAA-AATAAATAATATAATAAAAATATATAACATATAA
1 TATAATAATAAT-AATAATAT-A-AAAAATATATAACATATAA
103283008 TAAAATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.08
43 15 0.42
44 1 0.03
45 17 0.47
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (43 bp):
TATAATAATAATAATAATATAAAAAATATATAACATATAAAAA
Found at i:103283022 original size:23 final size:20
Alignment explanation
Indices: 103282965--103283012 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
103282955 ACATATAAAA
*
103282965 ATATAAT-AAAATAAAT-A-
1 ATATAATAAAAATATATAAC
103282982 ATATAATAAAAATATATAAC
1 ATATAATAAAAATATATAAC
103283002 ATATAATAAAA
1 ATATAATAAAA
103283013 TTTATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 7 0.26
18 8 0.30
19 1 0.04
20 11 0.41
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
ATATAATAAAAATATATAAC
Found at i:103283025 original size:18 final size:17
Alignment explanation
Indices: 103282964--103283026 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 17
103282954 TACATATAAA
*
103282964 AATATAATAAAATAAAT
1 AATATAATAAAATATAT
103282981 AATATAATAAAAATATAT
1 AATATAAT-AAAATATAT
*
103282999 AACATATAATAAAATTTAT
1 -A-ATATAATAAAATATAT
103283018 ATATATAAT
1 A-ATATAAT
103283027 GTTACAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
17 8 0.20
18 16 0.40
19 9 0.22
20 7 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AATATAATAAAATATAT
Found at i:103287591 original size:54 final size:54
Alignment explanation
Indices: 103287484--103287608 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
103287474 TGGTCCACAT
* *
103287484 GGGCACAGAGAGTTACACAGCCTGACGACACGACTATGTGACCTTAAGCTACAC
1 GGGCACAGAGAGTTACACAGCCTGACGACACGACCATATGACCTTAAGCTACAC
* * * * * * *
103287538 GGTCACAGAGAGTTACACGGCCTGGCGACACGGCCGTATGACTTTATA-TTACAC
1 GGGCACAGAGAGTTACACAGCCTGACGACACGACCATATGACCTTA-AGCTACAC
*
103287592 GGGCACAGTGAGTTACA
1 GGGCACAGAGAGTTACA
103287609 TGGCTTACGT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 58 0.98
55 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (54 bp):
GGGCACAGAGAGTTACACAGCCTGACGACACGACCATATGACCTTAAGCTACAC
Found at i:103287643 original size:21 final size:21
Alignment explanation
Indices: 103287619--103287683 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
103287609 TGGCTTACGT
*
103287619 ACATGGGCATGTGAAGCAGTC
1 ACATGGGCATGTGAAGCAGCC
* * *
103287640 ACATAGGCGTGTGGAGCAGCC
1 ACATGGGCATGTGAAGCAGCC
* * *
103287661 ACACGGCCATGTCAAG-AGCC
1 ACATGGGCATGTGAAGCAGCC
103287681 ACA
1 ACA
103287684 CGGTGCGACA
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
20 7 0.21
21 27 0.79
ACGTcount: A:0.29, C:0.26, G:0.31, T:0.14
Consensus pattern (21 bp):
ACATGGGCATGTGAAGCAGCC
Found at i:103287735 original size:126 final size:126
Alignment explanation
Indices: 103287580--103287809 Score: 347
Period size: 126 Copynumber: 1.8 Consensus size: 126
103287570 GCCGTATGAC
* * * *
103287580 TTTATATTACACGGGCACAGTGAGTTACATGG-CTTACGTACATGGGCATGTGAAGCAGTCACAT
1 TTTATATTACACAGGCACAATGAGTTACATGGTC-TACGTACAAGGGCATGTGAAGCAATCACAT
*
103287644 -AGGCGTGTGGAGCAGCCACACGGCCATGTCAAGAGCCACACGGTGCGACATGGTCGCGTGAA
65 GA-GCGTGTGAAGCAGCCACACGGCCATGTCAAGAGCCACACGGTGCGACATGGTCGCGTGAA
* *
103287706 TTTATATTACACAGGCACAATGAGTTACATGGTCTATGTACAAGGGCATGTGAAGCAATTACATG
1 TTTATATTACACAGGCACAATGAGTTACATGGTCTACGTACAAGGGCATGTGAAGCAATCACATG
* *
103287771 AGCGTGTGAAGTAGCCACATGGCCATGTCAAGAGCCACA
66 AGCGTGTGAAGCAGCCACACGGCCATGTCAAGAGCCACA
103287810 TAGTTTGGGC
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
126 91 0.98
127 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (126 bp):
TTTATATTACACAGGCACAATGAGTTACATGGTCTACGTACAAGGGCATGTGAAGCAATCACATG
AGCGTGTGAAGCAGCCACACGGCCATGTCAAGAGCCACACGGTGCGACATGGTCGCGTGAA
Found at i:103288556 original size:21 final size:21
Alignment explanation
Indices: 103288527--103288568 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
103288517 AAACCTGGTA
103288527 AAAGCTATCAATACTTTTTGT
1 AAAGCTATCAATACTTTTTGT
*
103288548 AAAGGTATCAATACTTTTTGT
1 AAAGCTATCAATACTTTTTGT
103288569 GTAATTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (21 bp):
AAAGCTATCAATACTTTTTGT
Found at i:103298120 original size:34 final size:34
Alignment explanation
Indices: 103298081--103298145 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
103298071 AACTCCTCAA
*
103298081 CATAATCAATTCAAAATCTTTTTACTTGATTAAG
1 CATAATCAATTCAAAATCTTTTTACATGATTAAG
* *
103298115 CATAATCCATTCGAAATCTTTTTACATGATT
1 CATAATCAATTCAAAATCTTTTTACATGATT
103298146 CGATGGAGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (34 bp):
CATAATCAATTCAAAATCTTTTTACATGATTAAG
Found at i:103300057 original size:9 final size:8
Alignment explanation
Indices: 103300042--103300066 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
103300032 GAGGCCTTTT
103300042 GAAAAAAA
1 GAAAAAAA
103300050 GAAAAAAA
1 GAAAAAAA
103300058 GAAAAAAA
1 GAAAAAAA
103300066 G
1 G
103300067 GGCATGAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:103307807 original size:20 final size:20
Alignment explanation
Indices: 103307740--103307807 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
103307730 ATTGTGTATA
*
103307740 TATTATTATTACATTTATTT
1 TATTATTACTACATTTATTT
** *
103307760 TATTCCTACTATATTTATTTT
1 TATTATTACTACATTTA-TTT
* * *
103307781 TAATATTAGTACATATATTT
1 TATTATTACTACATTTATTT
103307801 TATTATT
1 TATTATT
103307808 CTTGCATGCA
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
20 22 0.61
21 14 0.39
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (20 bp):
TATTATTACTACATTTATTT
Found at i:103320250 original size:77 final size:76
Alignment explanation
Indices: 103320058--103320291 Score: 331
Period size: 77 Copynumber: 3.1 Consensus size: 76
103320048 TGATGTTTTT
* *
103320058 ATTTCTGTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAAACGCTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
103320123 G--TAATTTC-
66 GTATAATTTCA
* * *
103320131 ATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGG-CACGCTA
1 ATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTG
103320193 AGGTATAATTTCA
64 AGGTATAATTTCA
*
103320206 ATTTCTGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
103320271 GGTAT--TTTCA
65 GGTATAATTTCA
103320281 ATTTCTGTTTT
1 ATTTCTGTTTT
103320292 TTAATTTACA
Statistics
Matches: 143, Mismatches: 9, Indels: 17
0.85 0.05 0.10
Matches are distributed among these distances:
72 44 0.31
73 12 0.08
74 13 0.09
75 20 0.14
76 6 0.04
77 48 0.34
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.33
Consensus pattern (76 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTATAATTTCA
Found at i:103320356 original size:89 final size:90
Alignment explanation
Indices: 103320214--103320543 Score: 443
Period size: 89 Copynumber: 3.7 Consensus size: 90
103320204 CAATTTCTGC
*
103320214 TTTTC-AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
1 TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
103320278 TCAATTTCTGTTTTTTAATTTACAT
66 TCAATTTCTGTTTTTTAATTTACAT
* * *
103320303 TTTTC-AAAAAAATCAACTCATATTACGATAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTT
1 TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
* *
103320367 TCAATTTTTGTTTTTTTTAATTTATAT
66 TCAATTTCTG--TTTTTTAATTTACAT
* * * *
103320394 TTTTCAAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGAATTT
1 TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
*
103320459 TCAATTTCTGTTTTTCAAATTT-C-T
66 TCAATTTCTGTTTTT-TAATTTACAT
* * * * * *
103320483 ATTTTCAAAAAAAATCAATTCATACTGCGATAGGTGAGTTGAGCATCAAGACACACTGAGG
1 -TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
103320544 AAATTCCAAA
Statistics
Matches: 211, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
89 70 0.33
90 56 0.27
91 24 0.11
92 61 0.29
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (90 bp):
TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
TCAATTTCTGTTTTTTAATTTACAT
Found at i:103320542 original size:90 final size:90
Alignment explanation
Indices: 103320201--103320567 Score: 431
Period size: 89 Copynumber: 4.1 Consensus size: 90
103320191 TAAGGTATAA
** *
103320201 TTTC-AATTTCTGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
103320265 CGCTGAGGTATTTTCAATTTCTGTT
66 CGCTGAGGAATTTTCAATTTCTGTT
* * *
103320290 TTT-TAATTTAC-ATTTTTCAAAAAAATCAACTCATATTACGATAGGTGAGTTGAGCCTCAGGAC
1 TTTCAAATTT-CTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
103320353 ACGCTGA-GATATTTTCAATTTTTGTTT
65 ACGCTGAGGA-ATTTTCAATTTCTG-TT
** * * * *
103320380 TTTTTAATTTATATTTTTCAAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAGGGC
1 TTTCAAATTTCTATTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
103320445 ACGCTGAGGAATTTTCAATTTCTGTT
65 ACGCTGAGGAATTTTCAATTTCTGTT
* * * * *
103320471 TTTCAAATTTCTA-TTTTCAAAAAAAATCAATTCATACTGCGATAGGTGAGTTGAGCATCAAGAC
1 TTTCAAATTTCTATTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * *
103320535 ACACTGAGGAAATTCCAAATTT-TGTT
65 ACGCTGAGGAATTTTC-AATTTCTGTT
*
103320561 TGTCAAA
1 TTTCAAA
103320568 ATCAACTCAT
Statistics
Matches: 240, Mismatches: 29, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
88 1 0.00
89 75 0.31
90 72 0.30
91 30 0.12
92 60 0.25
93 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (90 bp):
TTTCAAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGAATTTTCAATTTCTGTT
Found at i:103322853 original size:14 final size:14
Alignment explanation
Indices: 103322834--103322891 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 14
103322824 TTTATTATTT
103322834 TTTATTTTTTTTTC
1 TTTATTTTTTTTTC
* *
103322848 TTTATTCGTTTTTGC
1 TTTATT-TTTTTTTC
*
103322863 TTTTATTTTTTTTTT
1 -TTTATTTTTTTTTC
103322878 TTTACGTTTTTTTT
1 TTTA--TTTTTTTT
103322892 ATATTATTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 10 0.29
15 11 0.31
16 14 0.40
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.81
Consensus pattern (14 bp):
TTTATTTTTTTTTC
Found at i:103322899 original size:30 final size:30
Alignment explanation
Indices: 103322833--103322888 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
103322823 TTTTATTATT
*
103322833 TTTTATTTTTTTTTCTTTATTCGTTTTTGC
1 TTTTATTTTTTTTTCTTTATACGTTTTTGC
103322863 TTTTATTTTTTTTT-TTT-TACGTTTTT
1 TTTTATTTTTTTTTCTTTATACGTTTTT
103322889 TTTATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 8 0.32
29 3 0.12
30 14 0.56
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.80
Consensus pattern (30 bp):
TTTTATTTTTTTTTCTTTATACGTTTTTGC
Found at i:103333264 original size:21 final size:21
Alignment explanation
Indices: 103333248--103333411 Score: 62
Period size: 21 Copynumber: 8.1 Consensus size: 21
103333238 CATTATTGTG
*
103333248 ATTAT-TATATATTTTATCAT
1 ATTATATATATATTTTATTAT
*
103333268 ATTATATATATATTATATTATT
1 ATTATATATATATTTTATTA-T
* *
103333290 ATGCATATTATATATATTATT-T
1 AT-TATA-TATATATTTTATTAT
* * * *
103333312 -TT-T-TTTTTTTTTTATTTT
1 ATTATATATATATTTTATTAT
*
103333330 ATT-T-TATATATTTT-TTTT
1 ATTATATATATATTTTATTAT
* * * *
103333348 TTTATTTATGTATTTTTTTAT
1 ATTATATATATATTTTATTAT
* *
103333369 ATTA-GTA-ATACTTT-TTAT
1 ATTATATATATATTTTATTAT
* *
103333387 TTTATATATATATTATTTTTAT
1 ATTATATATATATT-TTATTAT
103333409 ATT
1 ATT
103333412 TACATTCTTA
Statistics
Matches: 107, Mismatches: 24, Indels: 24
0.69 0.15 0.15
Matches are distributed among these distances:
17 9 0.08
18 14 0.13
19 19 0.18
20 20 0.19
21 21 0.20
22 10 0.09
23 3 0.03
24 11 0.10
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (21 bp):
ATTATATATATATTTTATTAT
Found at i:103333277 original size:19 final size:18
Alignment explanation
Indices: 103333248--103333309 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
103333238 CATTATTGTG
103333248 ATTATTATATATTTTATCAT
1 ATTA-TATATATTTTAT-AT
*
103333268 ATTATATATATATTATATT
1 ATTATATATATTTTATA-T
** *
103333287 ATTATGCATATTATATAT
1 ATTATATATATTTTATAT
103333305 ATTAT
1 ATTAT
103333310 TTTTTTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 7 0.19
19 25 0.69
20 4 0.11
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTATATATATTTTATAT
Found at i:103333283 original size:28 final size:28
Alignment explanation
Indices: 103333255--103333306 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
103333245 GTGATTATTA
103333255 TATATT-TTAT-CATATTATATATATAT
1 TATATTATTATGCATATTATATATATAT
103333281 TATATTATTATGCATATTATATATAT
1 TATATTATTATGCATATTATATATAT
103333307 TATTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 6 0.25
27 4 0.17
28 14 0.58
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (28 bp):
TATATTATTATGCATATTATATATATAT
Found at i:103333334 original size:20 final size:20
Alignment explanation
Indices: 103333311--103333368 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
103333301 ATATATTATT
*
103333311 TTTTTTTTTTTTTTATTTTA
1 TTTTTTATTTTTTTATTTTA
103333331 TTTTATATATTTTTTT-TTTTA
1 TTTT-T-TATTTTTTTATTTTA
*
103333352 TTTATGTATTTTTTTAT
1 TTT-TTTATTTTTTTAT
103333369 ATTAGTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 13 0.41
21 10 0.31
22 9 0.28
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.83
Consensus pattern (20 bp):
TTTTTTATTTTTTTATTTTA
Found at i:103333346 original size:30 final size:32
Alignment explanation
Indices: 103333310--103333370 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
103333300 TATATATTAT
*
103333310 TTTTTTTTTTTTTTTAT-T-TTATTTTATATA
1 TTTTTTTTTTTATTTATGTATTATTTTATATA
*
103333340 TTTTTTTTTTTATTTATGTATTTTTTTATAT
1 TTTTTTTTTTTATTTATGTATTATTTTATAT
103333371 TAGTAATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 16 0.59
31 1 0.04
32 10 0.37
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (32 bp):
TTTTTTTTTTTATTTATGTATTATTTTATATA
Found at i:103333362 original size:34 final size:33
Alignment explanation
Indices: 103333295--103333370 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 33
103333285 TTATTATGCA
* * *
103333295 TATTATATATATTATTTTTTTTTTTTTTTTATTT
1 TATTTTATATATTATTTTTTTTTTTTATGTA-TT
103333329 TATTTTATATATT-TTTTTTTTTATTTATGTATT
1 TATTTTATATATTATTTTTTTTT-TTTATGTATT
103333362 T-TTTTATAT
1 TATTTTATAT
103333371 TAGTAATACT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 8 0.21
33 12 0.32
34 18 0.47
ACGTcount: A:0.21, C:0.00, G:0.01, T:0.78
Consensus pattern (33 bp):
TATTTTATATATTATTTTTTTTTTTTATGTATT
Found at i:103333367 original size:16 final size:14
Alignment explanation
Indices: 103333306--103333368 Score: 58
Period size: 16 Copynumber: 4.3 Consensus size: 14
103333296 ATTATATATA
103333306 TTATTT-TTTTTTT
1 TTATTTATTTTTTT
*
103333319 TTTTTTATTTTATTT
1 TTATTTATTTT-TTT
103333334 TATATATT-TTTTTTT
1 T-TAT-TTATTTTTTT
103333349 TTATTTATGTATTTTT
1 TTATTTAT-T-TTTTT
103333365 TTAT
1 TTAT
103333369 ATTAGTAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
13 7 0.17
14 8 0.20
15 9 0.22
16 15 0.37
17 2 0.05
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.83
Consensus pattern (14 bp):
TTATTTATTTTTTT
Found at i:103345352 original size:77 final size:76
Alignment explanation
Indices: 103345159--103345393 Score: 331
Period size: 77 Copynumber: 3.1 Consensus size: 76
103345149 TGATGTTTTT
* *
103345159 ATTTCTGTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAAACGCTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
103345224 G--TAATTTCA
66 GTATAATTTCA
* * * *
103345233 TTTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGG-CACGCTA
1 ATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTG
103345295 AGGTATAATTTCA
64 AGGTATAATTTCA
*
103345308 ATTTCTGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
103345373 GGTAT--TTTCA
65 GGTATAATTTCA
103345383 ATTTCTGTTTT
1 ATTTCTGTTTT
103345394 TTAATTTACA
Statistics
Matches: 142, Mismatches: 11, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
73 44 0.31
74 15 0.11
75 29 0.20
76 6 0.04
77 48 0.34
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (76 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTATAATTTCA
Found at i:103345542 original size:90 final size:90
Alignment explanation
Indices: 103345316--103345642 Score: 453
Period size: 90 Copynumber: 3.6 Consensus size: 90
103345306 CAATTTCTGC
* *
103345316 TTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTT
*
103345381 CAATTTCTG-TTTTTTAATTTACAT
66 CAATTTCTGTTTTTTTAATTTATAT
* *
103345405 TTTTCAAAAAAATCAACTCATATTACGATAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTT
*
103345470 CAATTTTTGTTTTTTTAATTTATAT
66 CAATTTCTGTTTTTTTAATTTATAT
* * *
103345495 TTTTCAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGA-ATTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA-GATATTT
** *
103345559 TCAATTTCTGTTTTTCAAATTTCTA-
65 TCAATTTCTGTTTTTTTAATTTATAT
* * * * * *
103345584 TTTTCAAAAAAAATCAATTCATACTGCGATAGGTGAGTTGAGCATCAAGACACACTGAG
1 TTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
103345643 GAAATTCCAA
Statistics
Matches: 211, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
89 75 0.36
90 134 0.64
91 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (90 bp):
TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTT
CAATTTCTGTTTTTTTAATTTATAT
Found at i:103345643 original size:90 final size:90
Alignment explanation
Indices: 103345303--103345667 Score: 445
Period size: 90 Copynumber: 4.1 Consensus size: 90
103345293 TAAGGTATAA
** *
103345303 TTTC-AATTTCTGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
103345367 CGCTGAGGTATTTTCAATTTCTGTT
66 CGCTGAGGAATTTTCAATTTCTGTT
* * *
103345392 TTT-TAATTTAC-ATTTTTCAAAAAAATCAACTCATATTACGATAGGTGAGTTGAGCCTCAGGAC
1 TTTCAAATTT-CTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
103345455 ACGCTGA-GATATTTTCAATTTTTGTT
65 ACGCTGAGGA-ATTTTCAATTTCTGTT
** * * * *
103345481 TTTTTAATTTATATTTTTCAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAGGGCA
1 TTTCAAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
103345546 CGCTGAGGAATTTTCAATTTCTGTT
66 CGCTGAGGAATTTTCAATTTCTGTT
* * * * *
103345571 TTTCAAATTTCTA-TTTTCAAAAAAAATCAATTCATACTGCGATAGGTGAGTTGAGCATCAAGAC
1 TTTCAAATTTCTATTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * *
103345635 ACACTGAGGAAATTCCAAATTT-TGTT
65 ACGCTGAGGAATTTTC-AATTTCTGTT
*
103345661 TGTCAAA
1 TTTCAAA
103345668 AATCAACTCA
Statistics
Matches: 239, Mismatches: 29, Indels: 15
0.84 0.10 0.05
Matches are distributed among these distances:
88 1 0.00
89 85 0.36
90 146 0.61
91 7 0.03
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (90 bp):
TTTCAAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGAATTTTCAATTTCTGTT
Found at i:103350065 original size:38 final size:39
Alignment explanation
Indices: 103350013--103350166 Score: 204
Period size: 39 Copynumber: 4.0 Consensus size: 39
103350003 AAAGCTGATT
* * * * *
103350013 CCACTCCCCCATGCTACTTTGTTTTATTATTAATCAAAA
1 CCACTTCCCCATACTATTTTGTTTTATTGTTAATTAAAA
*
103350052 CCAC-TCCCCATGCTATTTTGTTTTATTGTTAATTAAAA
1 CCACTTCCCCATACTATTTTGTTTTATTGTTAATTAAAA
*
103350090 CTACTTCCCCATACTATTTTGTTTTATTGTTAATTAAAA
1 CCACTTCCCCATACTATTTTGTTTTATTGTTAATTAAAA
* * *
103350129 CTACTTCCTCATACCATTTTGTTTTATT-TTAATTAAAA
1 CCACTTCCCCATACTATTTTGTTTTATTGTTAATTAAAA
103350167 TCATACTTTA
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
38 43 0.41
39 63 0.59
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.45
Consensus pattern (39 bp):
CCACTTCCCCATACTATTTTGTTTTATTGTTAATTAAAA
Found at i:103350117 original size:77 final size:77
Alignment explanation
Indices: 103350019--103350166 Score: 208
Period size: 77 Copynumber: 1.9 Consensus size: 77
103350009 GATTCCACTC
* * *
103350019 CCCCATGCTACTTTGTTTTATTATTAATCAAAACCAC-TCCCCATGCTATTTTGTTTTATTGTTA
1 CCCCATACTACTTTGTTTTATTATTAATCAAAACCACTTCCCCATACCATTTTGTTTTATT-TTA
103350083 ATTAAAACTACTT
65 ATTAAAACTACTT
* * * * *
103350096 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTTCCTCATACCATTTTGTTTTATTTTAA
1 CCCCATACTACTTTGTTTTATTATTAATCAAAACCACTTCCCCATACCATTTTGTTTTATTTTAA
103350161 TTAAAA
66 TTAAAA
103350167 TCATACTTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
77 42 0.68
78 20 0.32
ACGTcount: A:0.28, C:0.20, G:0.05, T:0.47
Consensus pattern (77 bp):
CCCCATACTACTTTGTTTTATTATTAATCAAAACCACTTCCCCATACCATTTTGTTTTATTTTAA
TTAAAACTACTT
Found at i:103351305 original size:26 final size:25
Alignment explanation
Indices: 103351272--103351342 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 25
103351262 AGTTATATTT
103351272 TTTTATATACTATTCTATGTACATA
1 TTTTATATACTATTCTATGTACATA
*
103351297 TTTTCATAT-C-A-TCTTATGTATATA
1 TTTT-ATATACTATTC-TATGTACATA
* *
103351321 TTCTTAAATACTATTATATGTA
1 TT-TTATATACTATTCTATGTA
103351343 TATGTATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
23 2 0.05
24 15 0.41
25 8 0.22
26 11 0.30
27 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.52
Consensus pattern (25 bp):
TTTTATATACTATTCTATGTACATA
Found at i:103356953 original size:40 final size:40
Alignment explanation
Indices: 103356874--103357050 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
103356864 CGGATGATAA
* * *
103356874 CCGGACTAAGATCTGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * * *
103356914 CCGGGCTATGTCCTGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
103356954 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
103356994 CCGGGCTAAGACCCGAGGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
103357034 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
103357051 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 101 0.86
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:103359443 original size:30 final size:30
Alignment explanation
Indices: 103359407--103359465 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
103359397 CCTTAGAAAA
103359407 CTCGATCTTGAA-TTCCTTAAATCTTGAAGG
1 CTCGATCTT-AAGTTCCTTAAATCTTGAAGG
*
103359437 CTCGATCTTAAGTTCTTTAAATCTTGAAG
1 CTCGATCTTAAGTTCCTTAAATCTTGAAG
103359466 CAATATGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (30 bp):
CTCGATCTTAAGTTCCTTAAATCTTGAAGG
Found at i:103364159 original size:14 final size:14
Alignment explanation
Indices: 103364140--103364192 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
103364130 TAAAGAATTT
103364140 TTTTGAAAAATTAA
1 TTTTGAAAAATTAA
*
103364154 TTTTGAAAAATCTTAG
1 TTTTGAAAAA--TTAA
103364170 TGATTTGAGAAAATTAA
1 T--TTTGA-AAAATTAA
103364187 TTTTGA
1 TTTTGA
103364193 TCAAGCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 10 0.31
15 5 0.16
16 4 0.12
17 4 0.12
18 5 0.16
19 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.43
Consensus pattern (14 bp):
TTTTGAAAAATTAA
Found at i:103366809 original size:21 final size:21
Alignment explanation
Indices: 103366770--103366809 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
103366760 ACAAAATATC
*
103366770 TAACTTAAACCGATGATTTAG
1 TAACTTAAACCGATAATTTAG
103366791 TAACTTAAACACGA-AATTT
1 TAACTTAAAC-CGATAATTT
103366810 TGCATCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (21 bp):
TAACTTAAACCGATAATTTAG
Found at i:103378727 original size:156 final size:156
Alignment explanation
Indices: 103378445--103378911 Score: 832
Period size: 156 Copynumber: 3.0 Consensus size: 156
103378435 GAAGCAATAA
*
103378445 CTGAAAACTACTTGGAAATATTTGACCTACC---TTATCACATGAAGCAGTTCGAGAAAGAGAAT
1 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTTATCACATGAAGCAGTTCGAGAAAGAGAAT
*
103378507 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAATCTAAG
66 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
*
103378572 TTTACCTTTTCTTTTAAAGCATAAAG
131 TTTACCTTTTCTTTTAAAGCAGAAAG
103378598 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTTATCACATGAAGCAGTTCGAGAAAGAGAAT
1 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTTATCACATGAAGCAGTTCGAGAAAGAGAAT
* *
103378663 TGTCAGGGACCGATTCTTCTGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
66 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
103378728 TTTACCTTTTCTTTTAAAGCAGAAAG
131 TTTACCTTTTCTTTTAAAGCAGAAAG
*
103378754 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTCATCACATGAAGCAGTTCGAGAAAGAGAAT
1 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTTATCACATGAAGCAGTTCGAGAAAGAGAAT
* *
103378819 TATCAGGGACCGATTCTTCCGTATCATTTGGAGTACTTTTAATCTGTCAGATAACCCAAACTAAG
66 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
*
103378884 TTTATCTTTTCTTTTAAAGCAGAAAG
131 TTTACCTTTTCTTTTAAAGCAGAAAG
103378910 CT
1 CT
103378912 ACTAAGAGAA
Statistics
Matches: 300, Mismatches: 11, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
153 30 0.10
156 270 0.90
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (156 bp):
CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTTATCACATGAAGCAGTTCGAGAAAGAGAAT
TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
TTTACCTTTTCTTTTAAAGCAGAAAG
Found at i:103381396 original size:20 final size:20
Alignment explanation
Indices: 103381371--103381429 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
103381361 ACCTTTCCTC
*
103381371 TTTTTTATTTATTTTTTCTA
1 TTTTTTATTTATTTTTACTA
* *
103381391 TTTTTTGCTTT-TTTTTACTT
1 TTTTTT-ATTTATTTTTACTA
103381411 TTTTATGTATTTATTTTTA
1 TTTT-T-TATTTATTTTTA
103381430 GGTTATTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 17 0.55
21 7 0.23
22 7 0.23
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (20 bp):
TTTTTTATTTATTTTTACTA
Found at i:103396066 original size:9 final size:8
Alignment explanation
Indices: 103396052--103396106 Score: 65
Period size: 9 Copynumber: 6.2 Consensus size: 8
103396042 TTTGGTTAAA
103396052 AATTACCTG
1 AATTACC-G
103396061 AATTACCTG
1 AATTACC-G
103396070 AATTACCCG
1 AATTA-CCG
103396079 AATTAACCG
1 AATT-ACCG
103396088 AATTAACCG
1 AATT-ACCG
103396097 AATTACCG
1 AATTACCG
103396105 AA
1 AA
103396107 AAATACCCGA
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
8 6 0.14
9 35 0.80
10 3 0.07
ACGTcount: A:0.40, C:0.24, G:0.11, T:0.25
Consensus pattern (8 bp):
AATTACCG
Found at i:103396090 original size:27 final size:27
Alignment explanation
Indices: 103396052--103396103 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
103396042 TTTGGTTAAA
103396052 AATTACCTGAATT-ACCTGAATTACCCG
1 AATTACCTGAATTAACC-GAATTACCCG
103396079 AATTAACC-GAATTAACCGAATTACC
1 AATT-ACCTGAATTAACCGAATTACC
103396104 GAAAAATACC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (27 bp):
AATTACCTGAATTAACCGAATTACCCG
Found at i:103396767 original size:16 final size:18
Alignment explanation
Indices: 103396728--103396773 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 18
103396718 TGCAGCTTTA
*
103396728 GTAAAAAAAAAATCATAG
1 GTAAAAATAAAATCATAG
*
103396746 GCAAAAATAAAAT-A-AG
1 GTAAAAATAAAATCATAG
*
103396762 GTAAAATTAAAA
1 GTAAAAATAAAA
103396774 ACTCTTGCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 12 0.50
17 1 0.04
18 11 0.46
ACGTcount: A:0.67, C:0.04, G:0.11, T:0.17
Consensus pattern (18 bp):
GTAAAAATAAAATCATAG
Found at i:103397721 original size:14 final size:14
Alignment explanation
Indices: 103397698--103397731 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
103397688 TACAATATCC
103397698 AAATAATAACAATA
1 AAATAATAACAATA
*
103397712 AAATAGTAACAATA
1 AAATAATAACAATA
*
103397726 TAATAA
1 AAATAA
103397732 CTAAATGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:103400313 original size:53 final size:53
Alignment explanation
Indices: 103400225--103400370 Score: 204
Period size: 53 Copynumber: 2.7 Consensus size: 53
103400215 CTTACACGGT
* *
103400225 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
* *
103400280 TCACATTATACCGATGCCATAGCCTAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
**
103400333 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
103400371 AACGAGCACA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 75 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:103404418 original size:24 final size:24
Alignment explanation
Indices: 103404391--103404436 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
103404381 ATTGTATCGG
*
103404391 ATGAAGAGGAGGAAGATGAAGATT
1 ATGAAGAGGAGGAAGAAGAAGATT
* *
103404415 ATGAGGTGGAGGAAGAAGAAGA
1 ATGAAGAGGAGGAAGAAGAAGA
103404437 AGATGACGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.41, T:0.13
Consensus pattern (24 bp):
ATGAAGAGGAGGAAGAAGAAGATT
Found at i:103429005 original size:15 final size:16
Alignment explanation
Indices: 103428987--103429017 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
103428977 AATAAACAAT
103428987 TTAAATTTA-AATTTA
1 TTAAATTTATAATTTA
103429002 TTAAATTTATAATTTA
1 TTAAATTTATAATTTA
103429018 AAGTCTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAAATTTATAATTTA
Found at i:103429552 original size:19 final size:20
Alignment explanation
Indices: 103429518--103429562 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
103429508 TAAAAAATTT
*
103429518 AAAAATCAAAGTAATTT-TCA
1 AAAAATCAAAGAAATTTAT-A
103429538 AAAAATCAAA-AAATTTATA
1 AAAAATCAAAGAAATTTATA
103429557 AAAAAT
1 AAAAAT
103429563 TCAGAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAATCAAAGAAATTTATA
Found at i:103432826 original size:29 final size:29
Alignment explanation
Indices: 103432794--103432849 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
103432784 TCATTTTCAT
* *
103432794 TTTTTAATAAATGACCCAATATTTTTAAC
1 TTTTGAATAAATGACCCAATATGTTTAAC
** *
103432823 TTTTGCGTAAATGACCTAATATGTTTA
1 TTTTGAATAAATGACCCAATATGTTTA
103432850 TAGTTAATCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (29 bp):
TTTTGAATAAATGACCCAATATGTTTAAC
Found at i:103438506 original size:18 final size:18
Alignment explanation
Indices: 103438483--103438518 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
103438473 TGAAATCACT
*
103438483 TGCAAAAGCAATACTAAA
1 TGCAAAAGCAAGACTAAA
103438501 TGCAAAAGCAAGACTAAA
1 TGCAAAAGCAAGACTAAA
103438519 AAAATGCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.17, G:0.14, T:0.14
Consensus pattern (18 bp):
TGCAAAAGCAAGACTAAA
Found at i:103442650 original size:21 final size:21
Alignment explanation
Indices: 103442620--103442659 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
103442610 CCTAAGCGCA
*
103442620 ATTGGGTCATTGCGAGATGAC
1 ATTGGGTCATTACGAGATGAC
*
103442641 ATTGGTTCATTACGAGATG
1 ATTGGGTCATTACGAGATG
103442660 TAATGCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGGGTCATTACGAGATGAC
Found at i:103449110 original size:35 final size:35
Alignment explanation
Indices: 103449070--103449193 Score: 90
Period size: 40 Copynumber: 3.4 Consensus size: 35
103449060 TGAATGTTAG
*
103449070 CCCAGCTCTAGTTGGATAAACCAACAATGTTTGCA
1 CCCAGCGCTAGTTGGATAAACCAACAATGTTTGCA
* * * * ** *
103449105 CCCAGCGCTAGTCGGGTTAGCTGACGATATTGAATGTG-A
1 CCCAGCGCTAGTTGGATAAACCAAC-A-A-TG--TTTGCA
* *
103449144 GCCCAGCTCTAGTTGGATAAACCAA-AATCTTTGCA
1 -CCCAGCGCTAGTTGGATAAACCAACAATGTTTGCA
103449179 CCCAGCGCTAGTTGG
1 CCCAGCGCTAGTTGG
103449194 GTTAGTCGAT
Statistics
Matches: 64, Mismatches: 18, Indels: 15
0.66 0.19 0.15
Matches are distributed among these distances:
34 17 0.27
35 19 0.30
36 2 0.03
37 2 0.03
38 3 0.05
39 1 0.02
40 20 0.31
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (35 bp):
CCCAGCGCTAGTTGGATAAACCAACAATGTTTGCA
Found at i:103449147 original size:75 final size:74
Alignment explanation
Indices: 103449023--103449271 Score: 338
Period size: 75 Copynumber: 3.3 Consensus size: 74
103449013 TCGCAGAGGA
* * * * *
103449023 GTTTGCGCCCAGCACTAGTCGGGTTAGCCGGCGATATTGAATGTTAGCCCAGCTCTAGTTGGATA
1 GTTTGCACCCAGCGCTAGTCGGGTTAGCTGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATA
103449088 AACCAACAAT
66 AACCAA-AAT
103449098 GTTTGCACCCAGCGCTAGTCGGGTTAGCTGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATA
1 GTTTGCACCCAGCGCTAGTCGGGTTAGCTGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATA
103449163 AACCAAAAT
66 AACCAAAAT
* * * *
103449172 CTTTGCACCCAGCGCTAGTTGGGTTAG-TCGATGATATTGAATGTGAGCCCAACTCTAGTTGGAT
1 GTTTGCACCCAGCGCTAGTCGGGTTAGCT-GACGATATTGAATGTGAGCCCAGCTCTAGTTGGAT
**
103449236 AAACCAATGGT
65 AAACCAA-AAT
* *
103449247 GTTTGCGCCCAGTGCTAGTCAGGGT
1 GTTTGCACCCAGCGCTAGTC-GGGT
103449272 ATTTCGACGA
Statistics
Matches: 156, Mismatches: 15, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
73 1 0.01
74 68 0.44
75 83 0.53
76 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (74 bp):
GTTTGCACCCAGCGCTAGTCGGGTTAGCTGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATA
AACCAAAAT
Found at i:103449216 original size:74 final size:74
Alignment explanation
Indices: 103449024--103449242 Score: 332
Period size: 74 Copynumber: 2.9 Consensus size: 74
103449014 CGCAGAGGAG
* * * *
103449024 TTTGCGCCCAGCACTAGTCGGGTTAGCCGGCGATATTGAATGTTAGCCCAGCTCTAGTTGGATAA
1 TTTGCACCCAGCGCTAGTCGGGTTAG-CGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATAA
*
103449089 ACCAACAATG
65 ACCAACAATC
103449099 TTTGCACCCAGCGCTAGTCGGGTTAGCTGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATAA
1 TTTGCACCCAGCGCTAGTCGGGTTAGC-GACGATATTGAATGTGAGCCCAGCTCTAGTTGGATAA
103449164 ACCAA-AATC
65 ACCAACAATC
* * *
103449173 TTTGCACCCAGCGCTAGTTGGGTTAGTCGATGATATTGAATGTGAGCCCAACTCTAGTTGGATAA
1 TTTGCACCCAGCGCTAGTCGGGTTAG-CGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATAA
103449238 ACCAA
65 ACCAA
103449243 TGGTGTTTGC
Statistics
Matches: 134, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
74 69 0.51
75 65 0.49
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (74 bp):
TTTGCACCCAGCGCTAGTCGGGTTAGCGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATAAA
CCAACAATC
Found at i:103460214 original size:16 final size:16
Alignment explanation
Indices: 103460195--103460237 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
103460185 TAAAAATAAT
103460195 TTAAAATATAAATTTA
1 TTAAAATATAAATTTA
*
103460211 TTAATATATAAAAATTTA
1 TTAA-A-ATATAAATTTA
*
103460229 TTAATATAT
1 TTAAAATAT
103460238 GTAAAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 7 0.32
17 1 0.05
18 14 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATAAATTTA
Found at i:103460364 original size:20 final size:19
Alignment explanation
Indices: 103460320--103460356 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
103460310 TCCAAACACT
103460320 AGAAAAGTAAATCATTTTC
1 AGAAAAGTAAATCATTTTC
*
103460339 AAAAAAGTAAATCATTTT
1 AGAAAAGTAAATCATTTT
103460357 TCGGAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (19 bp):
AGAAAAGTAAATCATTTTC
Found at i:103462422 original size:55 final size:53
Alignment explanation
Indices: 103462335--103462490 Score: 188
Period size: 55 Copynumber: 2.9 Consensus size: 53
103462325 ACAAAAATAT
* * *
103462335 CAGTATTT-AAAAAAAGTTGGTTCTGGTCTGTCAATGGCCAGCACCAGAGTAC
1 CAGTATTTAAAAAAAAATTGGTGCTGGCCTGTCAATGGCCAGCACCAGAGTAC
* * * *
103462387 GAGTTTTTTAAAAAAAAATTTGGTGCTGGCCTGTCAATGGTCGGCACCAGAGTAC
1 CAG-TATTTAAAAAAAAA-TTGGTGCTGGCCTGTCAATGGCCAGCACCAGAGTAC
* * * *
103462442 CAGTATTTAAAAAAAAATTAGAGCTGGCTTGTTAATGGCCAGCACCAGA
1 CAGTATTTAAAAAAAAATTGGTGCTGGCCTGTCAATGGCCAGCACCAGA
103462491 CTTAGTATTA
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 30 0.35
54 20 0.23
55 34 0.40
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (53 bp):
CAGTATTTAAAAAAAAATTGGTGCTGGCCTGTCAATGGCCAGCACCAGAGTAC
Found at i:103463432 original size:22 final size:20
Alignment explanation
Indices: 103463380--103463432 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
103463370 TCATTTATTC
103463380 AAAAAAATAATTATTTTAAA
1 AAAAAAATAATTATTTTAAA
* **
103463400 GAAATTA-AATTATTATTAAA
1 AAAAAAATAATTATT-TTAAA
103463420 AAACAAAATAATT
1 AAA-AAAATAATT
103463433 TCATTATAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
19 7 0.29
20 11 0.46
21 2 0.08
22 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAAAATAATTATTTTAAA
Found at i:103465847 original size:25 final size:25
Alignment explanation
Indices: 103465806--103465866 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
103465796 CCATTTTTTT
*
103465806 TTCATTTTAATTTAATTTCATTTCAA
1 TTCA-TTTCATTTAATTTCATTTCAA
**
103465832 TT-ATTTCATTTCAATTTTTTTTCAA
1 TTCATTTCATTT-AATTTCATTTCAA
103465857 TTCATTTCAT
1 TTCATTTCAT
103465867 ATTATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 7 0.23
25 14 0.47
26 9 0.30
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (25 bp):
TTCATTTCATTTAATTTCATTTCAA
Found at i:103465860 original size:16 final size:16
Alignment explanation
Indices: 103465800--103465860 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
103465790 TTTCAACCAT
* *
103465800 TTTTTTTTCATTTTAA
1 TTTTATTTCATTTCAA
*
103465816 TTTAATTTCATTTCAA
1 TTTTATTTCATTTCAA
103465832 --TTATTTCATTTCAA
1 TTTTATTTCATTTCAA
* *
103465846 TTTTTTTTCAATTCA
1 TTTTATTTCATTTCA
103465861 TTTCATATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
14 13 0.35
16 24 0.65
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTATTTCATTTCAA
Found at i:103465890 original size:22 final size:24
Alignment explanation
Indices: 103465826--103465966 Score: 141
Period size: 24 Copynumber: 5.8 Consensus size: 24
103465816 TTTAATTTCA
103465826 TTTCAATT-ATTTCAT-TTCAATTTTT
1 TTTCAATTCATTTCATATT--A-TTTT
103465851 TTTCAATTCATTTCATATTATTTT
1 TTTCAATTCATTTCATATTATTTT
* *
103465875 TTTC-ATT-TTTTTATATTATTTT
1 TTTCAATTCATTTCATATTATTTT
103465897 TTTCAATTCATTTCATATTATTTT
1 TTTCAATTCATTTCATATTATTTT
*
103465921 TCTCATATT-ATTTTTTCATATTATTATT
1 TTTCA-ATTCA---TTTCATATTATT-TT
103465949 TTT-AATTCATTTCATATT
1 TTTCAATTCATTTCATATT
103465967 TTATCAAATT
Statistics
Matches: 100, Mismatches: 6, Indels: 21
0.79 0.05 0.17
Matches are distributed among these distances:
22 17 0.17
23 6 0.06
24 35 0.35
25 12 0.12
26 10 0.10
27 16 0.16
28 4 0.04
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTCAATTCATTTCATATTATTTT
Found at i:103465897 original size:13 final size:13
Alignment explanation
Indices: 103465861--103465950 Score: 72
Period size: 13 Copynumber: 7.2 Consensus size: 13
103465851 TTTCAATTCA
103465861 TTTCATATTATTT
1 TTTCATATTATTT
103465874 TTT--TCA-T-TTT
1 TTTCAT-ATTATTT
103465884 TTT-ATATTATTTT
1 TTTCATATTA-TTT
103465897 TTTCA-ATTCA---
1 TTTCATATT-ATTT
103465907 TTTCATATTATTT
1 TTTCATATTATTT
103465920 TTCTCATATTATTT
1 TT-TCATATTATTT
103465934 TTTCATATTATTAT
1 TTTCATATTATT-T
103465948 TTT
1 TTT
103465951 TAATTCATTT
Statistics
Matches: 64, Mismatches: 0, Indels: 25
0.72 0.00 0.28
Matches are distributed among these distances:
10 13 0.20
11 7 0.11
12 1 0.02
13 24 0.38
14 19 0.30
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTCATATTATTT
Found at i:103465897 original size:46 final size:50
Alignment explanation
Indices: 103465847--103465966 Score: 178
Period size: 46 Copynumber: 2.5 Consensus size: 50
103465837 TCATTTCAAT
*
103465847 TTTTTTTCAATTCATTTCATATTATTTTTTTC-A-T-TTTTTT-ATATTA
1 TTTTTTTCAATTCATTTCATATTATTTTTCTCAATTATTTTTTCATATTA
103465893 TTTTTTTCAATTCATTTCATATTATTTTTCTCATATTATTTTTTCATATTA
1 TTTTTTTCAATTCATTTCATATTATTTTTCTCA-ATTATTTTTTCATATTA
103465944 TTATTTTT-AATTCATTTCATATT
1 TT-TTTTTCAATTCATTTCATATT
103465967 TTATCAAATT
Statistics
Matches: 67, Mismatches: 1, Indels: 7
0.89 0.01 0.09
Matches are distributed among these distances:
46 31 0.46
48 1 0.01
49 1 0.01
50 6 0.09
51 23 0.34
52 5 0.07
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (50 bp):
TTTTTTTCAATTCATTTCATATTATTTTTCTCAATTATTTTTTCATATTA
Found at i:103466191 original size:44 final size:40
Alignment explanation
Indices: 103466136--103466218 Score: 105
Period size: 44 Copynumber: 2.0 Consensus size: 40
103466126 AAAAAATCTG
103466136 ATTTAAAAAATTTTAT-TTTCATTTTAGTATTTCTTTTCATTTAA
1 ATTTAAAAAATTTTATATTT-A-TTTA--ATTT-TTTTCATTTAA
*
103466180 ATTTATAAAATTTTATATTTATTTAATTTTTTTCATTTA
1 ATTTAAAAAATTTTATATTTATTTAATTTTTTTCATTTA
103466219 TTCCTTTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
40 10 0.27
41 4 0.11
43 4 0.11
44 16 0.43
45 3 0.08
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (40 bp):
ATTTAAAAAATTTTATATTTATTTAATTTTTTTCATTTAA
Found at i:103466463 original size:16 final size:15
Alignment explanation
Indices: 103466425--103466479 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 15
103466415 CTTGTTAAGG
*
103466425 TTTCTTTTCTTTTT-
1 TTTCATTTCTTTTTA
103466439 TTTCATTTCTTTTTA
1 TTTCATTTCTTTTTA
*
103466454 TTTGCATTTCATTTTAA
1 TTT-CATTTC-TTTTTA
*
103466471 TTTTATTTC
1 TTTCATTTC
103466480 ATTCCAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 13 0.37
15 3 0.09
16 11 0.31
17 8 0.23
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTCATTTCTTTTTA
Found at i:103466466 original size:5 final size:5
Alignment explanation
Indices: 103466439--103466538 Score: 74
Period size: 5 Copynumber: 18.6 Consensus size: 5
103466429 TTTTCTTTTT
* * * * *
103466439 TTTCA TTTCT TTTTA TTTGCA TTTCA TTTTAA TTTTA TTTCA TTCCAA
1 TTTCA TTTCA TTTCA TTT-CA TTTCA -TTTCA TTTCA TTTCA TTTC-A
* *
103466487 TTTCA TTTCA TTCCAA TTTCA TTTCCA TTCCCA TTTCCA TTTCA TTTCA
1 TTTCA TTTCA TTTC-A TTTCA TTT-CA TT-TCA TTT-CA TTTCA TTTCA
103466536 TTT
1 TTT
103466539 AAATTATATT
Statistics
Matches: 75, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
5 46 0.61
6 29 0.39
ACGTcount: A:0.20, C:0.21, G:0.01, T:0.58
Consensus pattern (5 bp):
TTTCA
Found at i:103466467 original size:11 final size:10
Alignment explanation
Indices: 103466439--103466538 Score: 74
Period size: 11 Copynumber: 9.3 Consensus size: 10
103466429 TTTTCTTTTT
*
103466439 TTTCATTTCT
1 TTTCATTTCA
*
103466449 TTTTATTTGCA
1 TTTCATTT-CA
*
103466460 TTTCATTTTAA
1 TTTCA-TTTCA
*
103466471 TTTTATTTCA
1 TTTCATTTCA
*
103466481 TTCCAATTTCA
1 TTTC-ATTTCA
*
103466492 TTTCATTCCAA
1 TTTCATTTC-A
103466503 TTTCATTTCCA
1 TTTCATTT-CA
*
103466514 TTCCCATTTCCA
1 TT-TCATTT-CA
103466526 TTTCATTTCA
1 TTTCATTTCA
103466536 TTT
1 TTT
103466539 AAATTATATT
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
10 22 0.31
11 35 0.49
12 14 0.20
ACGTcount: A:0.20, C:0.21, G:0.01, T:0.58
Consensus pattern (10 bp):
TTTCATTTCA
Found at i:103466480 original size:16 final size:16
Alignment explanation
Indices: 103466453--103466532 Score: 97
Period size: 16 Copynumber: 4.8 Consensus size: 16
103466443 ATTTCTTTTT
**
103466453 ATTTGCATTTCATTTTA
1 ATTT-CATTTCATTCCA
*
103466470 ATTTTATTTCATTCCA
1 ATTTCATTTCATTCCA
103466486 ATTTCATTTCATTCCA
1 ATTTCATTTCATTCCA
*
103466502 ATTTCATTTCCATTCCC
1 ATTTCATTT-CATTCCA
103466519 ATTTCCATTTCATT
1 ATTT-CATTTCATT
103466533 TCATTTAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
16 33 0.59
17 18 0.32
18 5 0.09
ACGTcount: A:0.23, C:0.23, G:0.01, T:0.54
Consensus pattern (16 bp):
ATTTCATTTCATTCCA
Found at i:103466563 original size:22 final size:21
Alignment explanation
Indices: 103466531--103466617 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
103466521 TTCCATTTCA
103466531 TTTC-ATTTAAATTATATTTTT
1 TTTCAATTTAAATT-TATTTTT
103466552 TTTCAATTTAAATTTATTTTT
1 TTTCAATTTAAATTTATTTTT
*
103466573 TTCTCAA-TT-CATTTATATTATT
1 TT-TCAATTTAAATTTAT-TT-TT
* *
103466595 TTTAAATTTAAATTTAATTTT
1 TTTCAATTTAAATTTATTTTT
103466616 TT
1 TT
103466618 CCTCATTTCA
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
20 6 0.11
21 24 0.43
22 21 0.38
23 5 0.09
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTCAATTTAAATTTATTTTT
Found at i:103466603 original size:43 final size:44
Alignment explanation
Indices: 103466542--103466631 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 44
103466532 TTCATTTAAA
* * *
103466542 TTATATTTTTTTTCAATTTAAATTT-ATTTTTTTCTCAATTCAT
1 TTATATTATTTTTAAATTTAAATTTAATTTTTTCCTCAATTCAT
*
103466585 TTATATTATTTTTAAATTTAAATTTAATTTTTTCCTCATTTCAT
1 TTATATTATTTTTAAATTTAAATTTAATTTTTTCCTCAATTCAT
103466629 TTA
1 TTA
103466632 AATTTCCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 23 0.55
44 19 0.45
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (44 bp):
TTATATTATTTTTAAATTTAAATTTAATTTTTTCCTCAATTCAT
Found at i:103466656 original size:48 final size:46
Alignment explanation
Indices: 103466528--103466661 Score: 139
Period size: 48 Copynumber: 2.9 Consensus size: 46
103466518 CATTTCCATT
* *
103466528 TCATTTCATTTAAATTATATTTTTTTTCAATTTAAATTT-ATTTTTTTC
1 TCATTTCATTTAAA-T-T-TTATTTTTCAATTTAAATTTAATTTTTTCC
* * *
103466576 TCAATTCATTT--ATATTATTTTTAAATTTAAATTTAATTTTTTCC
1 TCATTTCATTTAAATTTTATTTTTCAATTTAAATTTAATTTTTTCC
**
103466620 TCATTTCATTTAAATTTCCTATTTTTCAATGCAAATTTAATT
1 TCATTTCATTTAAATTT--TATTTTTCAATTTAAATTTAATT
103466662 GTCATTTCTT
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
43 18 0.25
44 18 0.25
45 1 0.01
46 4 0.06
48 30 0.42
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (46 bp):
TCATTTCATTTAAATTTTATTTTTCAATTTAAATTTAATTTTTTCC
Found at i:103466808 original size:76 final size:78
Alignment explanation
Indices: 103466727--103466902 Score: 250
Period size: 76 Copynumber: 2.3 Consensus size: 78
103466717 AAATTAAAAG
* *
103466727 TTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTT-AATTTTTTTCTCATTTCAT
1 TTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAAATTTTGTAC-CATTTCAT
**
103466791 TTC-AA-TGAATTT
65 TTCAAACAAAATTT
* * *
103466803 TTTTCCTCTTTTCATTTAAATTTATCTTTCTTTCAATTTTCATTTAAATTTTGTACCATTTCATT
1 TTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAAATTTTGTACCATTTCATT
103466868 TCAAACAAAATTT
66 TCAAACAAAATTT
*
103466881 TTTTTCTCATTTCATTTAAATT
1 TTTTCCTCATTTCATTTAAATT
103466903 ATCAACCTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
76 53 0.60
77 10 0.11
78 25 0.28
ACGTcount: A:0.26, C:0.15, G:0.01, T:0.58
Consensus pattern (78 bp):
TTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAAATTTTGTACCATTTCATT
TCAAACAAAATTT
Found at i:103474619 original size:45 final size:45
Alignment explanation
Indices: 103474533--103474618 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
103474523 TATTTTATGA
*
103474533 AAACAATTATTCATTAAAAATTTTAAAACTTGAAATTTTTTTCTT
1 AAACAATTATTCATTAAAAAATTTAAAACTTGAAATTTTTTTCTT
*
103474578 AAACAATTATTCATTAAAAAAATTT-AAA-TTTAAATTTTTTT
1 AAACAATTATTCATT-AAAAAATTTAAAACTTGAAATTTTTTT
103474619 TATTATCATG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
44 12 0.32
45 18 0.47
46 8 0.21
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (45 bp):
AAACAATTATTCATTAAAAAATTTAAAACTTGAAATTTTTTTCTT
Found at i:103479366 original size:14 final size:13
Alignment explanation
Indices: 103479340--103479365 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
103479330 AAGAGGAGTT
103479340 TTTTTAAATAAAA
1 TTTTTAAATAAAA
103479353 TTTTTAAATAAAA
1 TTTTTAAATAAAA
103479366 AAAATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTTTAAATAAAA
Found at i:103485533 original size:25 final size:24
Alignment explanation
Indices: 103485492--103485584 Score: 73
Period size: 25 Copynumber: 3.7 Consensus size: 24
103485482 AAAGTCATTC
*
103485492 AAAATAA-ATAAATAAAAGTTTCAAA
1 AAAATAATATATA-AAAAGTTT-AAA
**
103485517 AAAATAATATATAAAAAACTTAAA
1 AAAATAATATATAAAAAGTTTAAA
103485541 ATAAATAATA-ATAAAACAGTTTAAA
1 A-AAATAATATATAAAA-AGTTTAAA
* *
103485566 ATGAACAATATATATAAAA
1 A-AAATAATATATA-AAAA
103485585 AAACATATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
24 10 0.18
25 35 0.62
26 8 0.14
27 3 0.05
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (24 bp):
AAAATAATATATAAAAAGTTTAAA
Found at i:103485541 original size:21 final size:22
Alignment explanation
Indices: 103485517--103485557 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
103485507 AAGTTTCAAA
103485517 AAAAT-AATATATAA-AAAACTT
1 AAAATAAATA-ATAATAAAACTT
103485538 AAAATAAATAATAATAAAAC
1 AAAATAAATAATAATAAAAC
103485558 AGTTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAATAAATAATAATAAAACTT
Found at i:103485576 original size:50 final size:48
Alignment explanation
Indices: 103485449--103485585 Score: 145
Period size: 48 Copynumber: 2.8 Consensus size: 48
103485439 AAACAATTTA
* * **
103485449 AAATAAATAATAGTTTAAAATGAATAATTTATAAAAGTCATTCAAAAT
1 AAATAAATAAAAGTTTAAAATGAATAATATATAAAAAACATTCAAAAT
*
103485497 AAATAAATAAAAGTTTCAAAA-AAATAATATATAAAAAAC-TT-AAAAT
1 AAATAAATAAAAGTTT-AAAATGAATAATATATAAAAAACATTCAAAAT
*
103485543 AAATAATAATAAAACAGTTTAAAATGAACAATATATATAAAAA
1 AAAT-A-AAT-AAA-AGTTTAAAATGAATAATATATA-AAAAA
103485586 AACATATAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
46 9 0.12
47 3 0.04
48 32 0.43
49 11 0.15
50 15 0.20
51 5 0.07
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (48 bp):
AAATAAATAAAAGTTTAAAATGAATAATATATAAAAAACATTCAAAAT
Done.