Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 336 of 378
Found at i:102002906 original size:21 final size:21
Alignment explanation
Indices: 102002874--102002913 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
102002864 AAGCTACACC
*
102002874 CATGATTAATTTTATTTATCT
1 CATGATTAATTTTAATTATCT
102002895 CATG-TTACATTTTAATTAT
1 CATGATTA-ATTTTAATTAT
102002914 TTATAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.30, C:0.10, G:0.05, T:0.55
Consensus pattern (21 bp):
CATGATTAATTTTAATTATCT
Found at i:102008809 original size:15 final size:15
Alignment explanation
Indices: 102008789--102008845 Score: 69
Period size: 15 Copynumber: 3.5 Consensus size: 15
102008779 ATTCAATATT
102008789 AATATTTTAATAATA
1 AATATTTTAATAATA
102008804 AATATTTATTATAATAATA
1 AATA--T-TT-TAATAATA
*
102008823 AATATATTAATAATA
1 AATATTTTAATAATA
102008838 AATATTTT
1 AATATTTT
102008846 GCAGTATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 19 0.53
16 1 0.03
17 2 0.06
18 2 0.06
19 12 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:102008818 original size:19 final size:18
Alignment explanation
Indices: 102008794--102008844 Score: 72
Period size: 15 Copynumber: 2.9 Consensus size: 18
102008784 ATATTAATAT
102008794 TTTAATAATAAATATTTA
1 TTTAATAATAAATATTTA
102008812 TTATAATAATAAATA--TA
1 TT-TAATAATAAATATTTA
102008829 -TTAATAATAAATATTT
1 TTTAATAATAAATATTT
102008845 TGCAGTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 3 0.10
18 2 0.07
19 12 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAATAATAAATATTTA
Found at i:102014156 original size:39 final size:39
Alignment explanation
Indices: 102014112--102014232 Score: 161
Period size: 39 Copynumber: 3.1 Consensus size: 39
102014102 AATTATATTA
* * *
102014112 CCAGCACAAAACCTGCGGGACTTTAGCCTGGATACATCT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATCT
* * * *
102014151 GCAGCACGAAGCCTACGGGACTTTAGCCCGGATTCATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATCT
* *
102014190 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATCT
102014229 CCAG
1 CCAG
102014233 TGTCTTGCAT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATCT
Found at i:102021995 original size:22 final size:22
Alignment explanation
Indices: 102021952--102021991 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
102021942 TAGATGTGTA
102021952 TTTATAGTATTTTTAATAAATT
1 TTTATAGTATTTTTAATAAATT
102021974 TTTATA-T-TTTTTAATAAA
1 TTTATAGTATTTTTAATAAA
102021992 AATTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 1 0.06
22 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (22 bp):
TTTATAGTATTTTTAATAAATT
Found at i:102022396 original size:21 final size:21
Alignment explanation
Indices: 102022372--102022412 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
102022362 ATTTAATAAC
102022372 TAAAATATTATAATAAAAAAT
1 TAAAATATTATAATAAAAAAT
102022393 TAAAATATTATAATAAAAAA
1 TAAAATATTATAATAAAAAA
102022413 AACTTTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAATATTATAATAAAAAAT
Found at i:102022931 original size:55 final size:56
Alignment explanation
Indices: 102022847--102022958 Score: 217
Period size: 55 Copynumber: 2.0 Consensus size: 56
102022837 AACAAACATG
102022847 AAAGATGAAATTTCTTATTTGATTAAGAGTTAATATGGTTGAAAAT-ACTCAACTT
1 AAAGATGAAATTTCTTATTTGATTAAGAGTTAATATGGTTGAAAATAACTCAACTT
102022902 AAAGATGAAATTTCTTATTTGATTAAGAGTTAATATGGTTGAAAATAACTCAACTT
1 AAAGATGAAATTTCTTATTTGATTAAGAGTTAATATGGTTGAAAATAACTCAACTT
102022958 A
1 A
102022959 CAAAAGTTCC
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 46 0.82
56 10 0.18
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (56 bp):
AAAGATGAAATTTCTTATTTGATTAAGAGTTAATATGGTTGAAAATAACTCAACTT
Found at i:102028807 original size:21 final size:21
Alignment explanation
Indices: 102028777--102028820 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
102028767 GCGATTGAAA
*
102028777 TTTTTGTTTTT-ATTTTTATT
1 TTTTTGTTTTTAATTTATATT
102028797 TTTTGTGTTTTTAATTTATATT
1 TTTT-TGTTTTTAATTTATATT
102028819 TT
1 TT
102028821 AATAGATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 7 0.33
22 10 0.48
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTTGTTTTTAATTTATATT
Found at i:102042909 original size:38 final size:38
Alignment explanation
Indices: 102042858--102042973 Score: 232
Period size: 38 Copynumber: 3.1 Consensus size: 38
102042848 CTCTAAAAAA
102042858 GTTCTACACGGGTAGACACACGGGCATGTGTCTAGGCC
1 GTTCTACACGGGTAGACACACGGGCATGTGTCTAGGCC
102042896 GTTCTACACGGGTAGACACACGGGCATGTGTCTAGGCC
1 GTTCTACACGGGTAGACACACGGGCATGTGTCTAGGCC
102042934 GTTCTACACGGGTAGACACACGGGCATGTGTCTAGGCC
1 GTTCTACACGGGTAGACACACGGGCATGTGTCTAGGCC
102042972 GT
1 GT
102042974 GTGTGACACA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 78 1.00
ACGTcount: A:0.21, C:0.26, G:0.32, T:0.22
Consensus pattern (38 bp):
GTTCTACACGGGTAGACACACGGGCATGTGTCTAGGCC
Found at i:102047183 original size:37 final size:37
Alignment explanation
Indices: 102047121--102047229 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
102047111 AGCTCAGACG
* * * *
102047121 AAATCTCCACAAGAAGTTATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
102047158 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
102047195 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
102047230 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:102047497 original size:100 final size:96
Alignment explanation
Indices: 102047375--102047560 Score: 302
Period size: 100 Copynumber: 1.9 Consensus size: 96
102047365 GCACATCGCC
*
102047375 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACA
102047440 TT-GACCATTCGGCTTTACCACATATGCATATCTCA
62 TTAG-CCATTCGGCTTTACCACATATGCATATCTCA
*
102047475 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
102047540 CCATTCGGCTTTACCACATAT
66 CCATTCGGCTTTACCACATAT
102047561 ATGCATGTTC
Statistics
Matches: 83, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
96 36 0.43
97 1 0.01
100 46 0.55
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATGCATATCTCA
Found at i:102047501 original size:48 final size:48
Alignment explanation
Indices: 102047375--102047561 Score: 295
Period size: 48 Copynumber: 3.8 Consensus size: 48
102047365 GCACATCGCC
*
102047375 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
102047427 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
102047475 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
102047523 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
102047562 TGCATGTTCA
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
48 84 0.66
49 1 0.01
51 1 0.01
52 42 0.33
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:102047624 original size:47 final size:47
Alignment explanation
Indices: 102047483--102047724 Score: 265
Period size: 47 Copynumber: 5.1 Consensus size: 47
102047473 CATACATATT
* * * *
102047483 TCACATTAGCCATTCGGCTTTACCACATATA--CATATCTCATACATAT-T
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGT-TC--ACAT-TCA
* * *
102047531 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * * *
102047578 CCACATTAGCCATTCGTCCTTATCACACATATCCATGCTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
102047625 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
102047672 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
102047719 TCACAT
1 TCACAT
102047725 AAAATCCTAA
Statistics
Matches: 170, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
46 1 0.01
47 132 0.78
48 31 0.18
49 2 0.01
50 4 0.02
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:102047651 original size:22 final size:22
Alignment explanation
Indices: 102047624--102047695 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
102047614 GCTCACATTC
102047624 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
102047646 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
102047670 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
102047693 ATC
1 ATC
102047696 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:102051898 original size:40 final size:40
Alignment explanation
Indices: 102051866--102052337 Score: 863
Period size: 40 Copynumber: 11.8 Consensus size: 40
102051856 CCAGTATGAT
* * * *
102051866 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
102051906 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
102051946 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
102051986 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
102052026 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
102052066 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
102052106 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
102052146 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
102052186 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
102052226 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
102052266 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
102052306 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
102052338 CTCAATTCTC
Statistics
Matches: 421, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 421 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:102053669 original size:37 final size:37
Alignment explanation
Indices: 102053606--102053677 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
102053596 AGCTCAGACG
* *
102053606 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCAGGTCTTACCCGGACA
*
102053643 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCAGGTCTTACCCGGA
102053678 ATATATTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCAGGTCTTACCCGGACA
Found at i:102055166 original size:39 final size:39
Alignment explanation
Indices: 102055123--102055248 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
102055113 GGACTTTAGC
* * *
102055123 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
** *
102055162 CCGGATATAATTCCAGCACATAGCCTATGGACCTTAAAT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
*
102055201 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
*
102055240 CTGGATATA
1 CCGGATATA
102055249 CATCACTGAA
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
Found at i:102060908 original size:59 final size:59
Alignment explanation
Indices: 102060821--102060959 Score: 167
Period size: 59 Copynumber: 2.3 Consensus size: 59
102060811 CAGTGTTAAC
* *
102060821 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-TTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATTAATATCAATCTGGGCCATAGCCCATTACAAG--TCGAGA-TATAT
* *
102060881 TGGGCCTAGCCCATATTAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATTAATATCAATCTGGGCCATAGCCC-ATTACAAGTCGAGATATAT
*
102060941 TGGGCCTTGCCCATATTAA
1 TGGGCCTAGCCCATATTAA
102060960 CATAGTTGGG
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
59 30 0.43
60 30 0.43
61 7 0.10
62 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (59 bp):
TGGGCCTAGCCCATATTAATATCAATCTGGGCCATAGCCCATTACAAGTCGAGATATAT
Found at i:102063284 original size:12 final size:12
Alignment explanation
Indices: 102063269--102063293 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
102063259 ACAGCAAATA
102063269 ATAAAAATTTTC
1 ATAAAAATTTTC
102063281 ATAAAAATTTTC
1 ATAAAAATTTTC
102063293 A
1 A
102063294 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:102069087 original size:23 final size:24
Alignment explanation
Indices: 102069051--102069100 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
102069041 CAAAAAAAGT
102069051 AAAAGAAATCCAAATA-CAACAGAA
1 AAAAGAAATCCAAA-AGCAACAGAA
* *
102069075 AAAAGCAAT-CAAAAGCAATAGAA
1 AAAAGAAATCCAAAAGCAACAGAA
102069098 AAA
1 AAA
102069101 TAGGAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 1 0.04
23 14 0.61
24 8 0.35
ACGTcount: A:0.68, C:0.14, G:0.10, T:0.08
Consensus pattern (24 bp):
AAAAGAAATCCAAAAGCAACAGAA
Found at i:102074296 original size:12 final size:12
Alignment explanation
Indices: 102074279--102074386 Score: 50
Period size: 12 Copynumber: 9.1 Consensus size: 12
102074269 TTTTTCCTTG
102074279 TATATTATTTAT
1 TATATTATTTAT
102074291 TATATTA-TTA-
1 TATATTATTTAT
*
102074301 TAAATTA--T-T
1 TATATTATTTAT
*
102074310 TATATTATGTTACC
1 TATATTAT-TTA-T
*
102074324 TATATTTTATTAT
1 TATATTAT-TTAT
102074337 ATATATTATTT-T
1 -TATATTATTTAT
*
102074349 ATATATTACTTAT
1 -TATATTATTTAT
* *
102074362 CATATTGTTTA-
1 TATATTATTTAT
*
102074373 TATTATTATATAT
1 TA-TATTATTTAT
102074386 T
1 T
102074387 TCGTTTATAA
Statistics
Matches: 72, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
9 7 0.10
10 6 0.08
11 4 0.06
12 34 0.47
13 4 0.06
14 17 0.24
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:102074361 original size:16 final size:17
Alignment explanation
Indices: 102074288--102074354 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 17
102074278 GTATATTATT
*
102074288 TATTATATTATTATA-A
1 TATTATTTTATTATATA
*
102074304 -ATTATTTATATTATGT-
1 TATTATTT-TATTATATA
102074320 TACCTATATTTTATTATATA
1 TA--T-TATTTTATTATATA
102074340 TATTATTTTA-TATAT
1 TATTATTTTATTATAT
102074355 TACTTATCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
15 6 0.15
16 11 0.27
17 8 0.20
18 1 0.02
19 8 0.20
20 7 0.17
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (17 bp):
TATTATTTTATTATATA
Found at i:102074367 original size:21 final size:18
Alignment explanation
Indices: 102074279--102074387 Score: 78
Period size: 19 Copynumber: 5.5 Consensus size: 18
102074269 TTTTTCCTTG
102074279 TATATTATTTATTATATTAT
1 TATA-TATTT-TTATATTAT
*
102074299 TATAAATTATTTATATTAT
1 TATATATT-TTTATATTAT
*
102074318 GT-TACCTATATTT-TATTAT
1 -TATA--TATTTTTATATTAT
102074337 ATATATTATTTTATATATTACT
1 -TATA-TATTTT-TATATTA-T
102074359 TATCATATTGTTTATATTAT
1 TAT-ATATT-TTTATATTAT
102074379 TATATATTT
1 TATATATTT
102074388 CGTTTATAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
18 1 0.01
19 31 0.42
20 16 0.22
21 21 0.29
22 4 0.05
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (18 bp):
TATATATTTTTATATTAT
Found at i:102074392 original size:21 final size:21
Alignment explanation
Indices: 102074350--102074395 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
102074340 TATTATTTTA
102074350 TATATTACTTATCATATTGTT
1 TATATTACTTATCATATTGTT
102074371 TATATTA-TTAT-ATATTTCGTT
1 TATATTACTTATCATA-TT-GTT
102074392 TATA
1 TATA
102074396 AATTTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.13
20 6 0.26
21 14 0.61
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (21 bp):
TATATTACTTATCATATTGTT
Found at i:102078459 original size:32 final size:32
Alignment explanation
Indices: 102078423--102078483 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
102078413 AAAGAGAGTA
102078423 AGAGAAAGAAAACCTGGAAGCAACACATCCTT
1 AGAGAAAGAAAACCTGGAAGCAACACATCCTT
102078455 AGAGAAAGAAAACCTGGAAGCAACACATC
1 AGAGAAAGAAAACCTGGAAGCAACACATC
102078484 TTTACGGTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.49, C:0.21, G:0.20, T:0.10
Consensus pattern (32 bp):
AGAGAAAGAAAACCTGGAAGCAACACATCCTT
Found at i:102086829 original size:220 final size:220
Alignment explanation
Indices: 102086442--102087010 Score: 845
Period size: 220 Copynumber: 2.6 Consensus size: 220
102086432 TAGGCTAAAG
* * * * *
102086442 CATAGCAGATCTGACCTTCAGGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGTATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* * * *
102086507 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATATCCATATTCGACGGAGAGTAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGAAGAGCAGATCGAAG
* * *
102086572 ACATAGTAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGCACATCCAAGATGATTTGGCATCCTT
*
102086637 GCGTTTACAAGGAGCAGATCGAAGA
196 GCGTTTAAAAGGAGCAGATCGAAGA
102086662 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* *
102086727 TTGTCAGAGAACAAATCGAAGAAACATATTTGGCATCTCCATATTCAACGAAGAGCAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGAAGAGCAGATCGAAG
* ** *
102086792 ACATAGCAGATCTAACCTTCGGATGTTTTTGCATCGAAGCACATCCAAGATGATTTGGCATCTTT
131 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGCACATCCAAGATGATTTGGCATCCTT
**
102086857 GCGTTTAAAAGGAGCTTATCGAAGA
196 GCGTTTAAAAGGAGCAGATCGAAGA
* *
102086882 CGTAGCAGATTTGGCTTTCACGTGTTTACACTGAAGC-GAATCTAAGATGATTTGGCATCTCTGT
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAG-ATCTAAGATGATTTGGCATCTCTGT
* * * ** *
102086946 ATTGTCAG-GAAACAAATTGAAGAAGCAAATTTGGCGTCTCTGTGTTCGACGAAGAGCAGATCGA
65 ATTGTCAGAG-AACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGAAGAGCAGATCGA
102087010 A
129 A
102087011 ATATCAGCAT
Statistics
Matches: 317, Mismatches: 30, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
219 2 0.01
220 315 0.99
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
TTGTCAGAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGAAGAGCAGATCGAAG
ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGCACATCCAAGATGATTTGGCATCCTT
GCGTTTAAAAGGAGCAGATCGAAGA
Found at i:102088795 original size:12 final size:12
Alignment explanation
Indices: 102088778--102088886 Score: 59
Period size: 12 Copynumber: 9.1 Consensus size: 12
102088768 TTTTTCTTTG
102088778 TATATTATTTAT
1 TATATTATTTAT
102088790 TATATTA-TTA-
1 TATATTATTTAT
*
102088800 TAAATTA-TTA-
1 TATATTATTTAT
*
102088810 TATATTATGTTACC
1 TATATTAT-TTA-T
*
102088824 TATATTTTATTAT
1 TATATTAT-TTAT
102088837 ATATATTATTT-T
1 -TATATTATTTAT
*
102088849 ATATATTACTTAT
1 -TATATTATTTAT
* *
102088862 CATATTGTTTA-
1 TATATTATTTAT
*
102088873 TATTATTATATAT
1 TA-TATTATTTAT
102088886 T
1 T
102088887 TTGTTTATAA
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
10 15 0.20
11 4 0.05
12 36 0.47
13 4 0.05
14 17 0.22
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:102088853 original size:26 final size:28
Alignment explanation
Indices: 102088803--102088855 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
102088793 ATTATTATAA
102088803 ATTATTATATATTATGTTACCTATATTTT
1 ATTATTATATATTATGTTA-CTATATTTT
*
102088832 ATTA-TATATATTATTTTA-TATATT
1 ATTATTATATATTATGTTACTATATT
102088856 ACTTATCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
28 13 0.57
29 4 0.17
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (28 bp):
ATTATTATATATTATGTTACTATATTTT
Found at i:102088866 original size:28 final size:27
Alignment explanation
Indices: 102088808--102088866 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
102088798 TATAAATTAT
*
102088808 TATATATTATGTTACCTATATTTTATTA
1 TATATATTATGTTA-CTATATTTTATCA
*
102088836 TATATATTATTTTA-TATATTACTTATCA
1 TATATATTATGTTACTATATT--TTATCA
102088864 TAT
1 TAT
102088867 TGTTTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 6 0.22
28 21 0.78
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.58
Consensus pattern (27 bp):
TATATATTATGTTACTATATTTTATCA
Found at i:102088867 original size:21 final size:18
Alignment explanation
Indices: 102088778--102088888 Score: 73
Period size: 20 Copynumber: 5.6 Consensus size: 18
102088768 TTTTTCTTTG
102088778 TATATTATTTATTATATTAT
1 TATA-TATTT-TTATATTAT
*
102088798 TATAAATTATTATATATTAT
1 TATATATT-TT-TATATTAT
*
102088818 GT-TACCTATATTT-TATTAT
1 -TATA--TATTTTTATATTAT
102088837 ATATATTATTTTATATATTACT
1 -TATA-TATTTT-TATATTA-T
102088859 TATCATATTGTTTATATTAT
1 TAT-ATATT-TTTATATTAT
102088879 TATATATTTT
1 TATATATTTT
102088889 GTTTATAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
18 2 0.03
19 21 0.28
20 23 0.31
21 22 0.30
22 6 0.08
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (18 bp):
TATATATTTTTATATTAT
Found at i:102088890 original size:21 final size:21
Alignment explanation
Indices: 102088831--102088895 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
102088821 ACCTATATTT
102088831 TATTA-TATATATTATT-TTATA
1 TATTATTATATATT-TTGTT-TA
102088852 TATTACTTATCATA--TTGTTTA
1 TATTA-TTAT-ATATTTTGTTTA
102088873 TATTATTATATATTTTGTTTA
1 TATTATTATATATTTTGTTTA
102088894 TA
1 TA
102088896 AATTTTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
19 3 0.08
20 4 0.11
21 23 0.61
22 2 0.05
23 3 0.08
24 3 0.08
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (21 bp):
TATTATTATATATTTTGTTTA
Found at i:102090694 original size:14 final size:14
Alignment explanation
Indices: 102090672--102090710 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
102090662 AAAAAGTTAA
*
102090672 TTAAATTATTTTAT
1 TTAATTTATTTTAT
*
102090686 TTAATTTATATTAT
1 TTAATTTATTTTAT
102090700 TTAATTATATT
1 TTAATT-TATT
102090711 GTACATTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTAATTTATTTTAT
Found at i:102096266 original size:14 final size:14
Alignment explanation
Indices: 102096228--102096270 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
102096218 CAAAATGTAC
102096228 AATATAATTAAA-T
1 AATATAATTAAATT
102096241 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
102096256 AA-ATAATTTAATT
1 AATATAATTAAATT
102096269 AA
1 AA
102096271 CTGTTTACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:102100963 original size:30 final size:29
Alignment explanation
Indices: 102100916--102100979 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
102100906 ACTTATTTTA
*
102100916 TTGTTAATTTTTTATTATTTTAAAGACAT
1 TTGTTAATTTTTTATTATTTTAAAAACAT
*
102100945 TTGTTAATTTTGTTATTATTTTAAAAATAT
1 TTGTTAATTTT-TTATTATTTTAAAAACAT
102100975 TTGTT
1 TTGTT
102100980 TGTTAAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.61
Consensus pattern (29 bp):
TTGTTAATTTTTTATTATTTTAAAAACAT
Found at i:102100990 original size:30 final size:30
Alignment explanation
Indices: 102100927--102100991 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
102100917 TGTTAATTTT
* **
102100927 TTATTATTTTAAAGACATTTGTTAATTTTG
1 TTATTATTTTAAAAACATTTGTTAATTAAG
* **
102100957 TTATTATTTTAAAAATATTTGTTTGTTAAG
1 TTATTATTTTAAAAACATTTGTTAATTAAG
102100987 TTATT
1 TTATT
102100992 TAAGTATACA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58
Consensus pattern (30 bp):
TTATTATTTTAAAAACATTTGTTAATTAAG
Found at i:102104626 original size:2 final size:2
Alignment explanation
Indices: 102104619--102104648 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
102104609 ATAGGAAACA
102104619 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102104649 CAATTAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102106937 original size:2 final size:2
Alignment explanation
Indices: 102106930--102106993 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
102106920 TTATACATCG
102106930 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
102106972 CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA
102106994 TATATCACTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:102107675 original size:43 final size:42
Alignment explanation
Indices: 102107583--102107698 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 42
102107573 TATCACATAT
* * *
102107583 CAATGCCACTGTCTTAGACAGGGTCTTACACGAAATCGATTAA
1 CAATGCCAATGTCTCAGACAAGGTCTTACACGAAATC-ATTAA
* * **
102107626 CGATGCCAATGTCTCAGACATGGTCTTACACGTGATC-TTAATA
1 CAATGCCAATGTCTCAGACAAGGTCTTACACGAAATCATT-A-A
102107669 CAATGCCAATGTC-CTAGACAAGGTCTTACA
1 CAATGCCAATGTCTC-AGACAAGGTCTTACA
102107699 TGTAATAACA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
41 2 0.03
42 2 0.03
43 58 0.94
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
CAATGCCAATGTCTCAGACAAGGTCTTACACGAAATCATTAA
Found at i:102114093 original size:47 final size:47
Alignment explanation
Indices: 102113984--102114158 Score: 191
Period size: 47 Copynumber: 3.7 Consensus size: 47
102113974 TTATGAGAGC
* * * *
102113984 CAGTGTAAGACCATGTCTGGGACCTAGTATCGAC-ATTGAGACGAGAG
1 CAGTGTAAGACCATGTCTGGGACATAGCATCGACTA-TGAGATGATAG
102114031 CTAGTGTAAGA-CATGTCTGGGACAT-GCATC-AGCTATGAGATGATAG
1 C-AGTGTAAGACCATGTCTGGGACATAGCATCGA-CTATGAGATGATAG
*
102114077 TCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGAT-ATGAG
1 -CAGTGTAAGACCATGTCTGGGACATAGCATCGACTATGAGATGAT-AG
* *
102114124 CCAGTGTAAGACCGTGTCTAGGACATAGCATCGAC
1 -CAGTGTAAGACCATGTCTGGGACATAGCATCGAC
102114159 ACTTTACCCA
Statistics
Matches: 112, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
45 1 0.01
46 25 0.22
47 69 0.62
48 16 0.14
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATAGCATCGACTATGAGATGATAG
Found at i:102114097 original size:94 final size:95
Alignment explanation
Indices: 102113984--102114155 Score: 242
Period size: 94 Copynumber: 1.8 Consensus size: 95
102113974 TTATGAGAGC
* * *
102113984 CAGTGTAAGACCATGTCTGGGACCTAGTATCGACATTGAGACGA-GAGCTAGTGTAAGA-CATGT
1 CAGTGTAAGACCATGTCTGGGACATAGCATCGAC-TTGAGA-GATGAGCCAGTGTAAGACCATGT
*
102114047 CTGGGACAT-GCATCAGCTATGAGATGATAGT
64 CTAGGACATAGCATCAGCTATGAGATGATAGT
* * *
102114078 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCCAGTGTAAGACCGTGTCT
1 CAGTGTAAGACCATGTCTGGGACATAGCATCGACTTGAGAGATGAGCCAGTGTAAGACCATGTCT
102114143 AGGACATAGCATC
66 AGGACATAGCATC
102114156 GACACTTTAC
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
92 1 0.01
93 19 0.28
94 43 0.63
95 5 0.07
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (95 bp):
CAGTGTAAGACCATGTCTGGGACATAGCATCGACTTGAGAGATGAGCCAGTGTAAGACCATGTCT
AGGACATAGCATCAGCTATGAGATGATAGT
Found at i:102120376 original size:19 final size:19
Alignment explanation
Indices: 102120340--102120378 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
102120330 TTTTCATCAT
* *
102120340 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
102120359 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
102120378 A
1 A
102120379 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:102120882 original size:55 final size:56
Alignment explanation
Indices: 102120817--102120931 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
102120807 AGCATGGCTG
* *
102120817 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
102120873 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
102120928 CCAG
1 CCAG
102120932 GACGTTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:102120894 original size:27 final size:27
Alignment explanation
Indices: 102120842--102120931 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
102120832 GTGACAGAGT
102120842 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
102120871 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
102120898 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
102120926 CACCAG
1 CACCAG
102120932 GACGTTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:102121084 original size:28 final size:28
Alignment explanation
Indices: 102121037--102121101 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
102121027 AAATTAACCC
*
102121037 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
102121065 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
102121093 TAGGGGTAT
1 TAGGGGTAT
102121102 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:102129234 original size:16 final size:16
Alignment explanation
Indices: 102129213--102129243 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
102129203 ATATTTACTT
102129213 AAAATAATCAAATAAA
1 AAAATAATCAAATAAA
*
102129229 AAAATAATGAAATAA
1 AAAATAATCAAATAA
102129244 GTAAAATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAATAATCAAATAAA
Found at i:102138371 original size:16 final size:15
Alignment explanation
Indices: 102138346--102138375 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
102138336 TAATAATAAG
102138346 TAAAAAGTAAGGAAC
1 TAAAAAGTAAGGAAC
102138361 TAAATAAGTAAGGAA
1 TAAA-AAGTAAGGAA
102138376 TTATAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.60, C:0.03, G:0.20, T:0.17
Consensus pattern (15 bp):
TAAAAAGTAAGGAAC
Found at i:102145137 original size:5 final size:6
Alignment explanation
Indices: 102145118--102145147 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
102145108 ACTAAAATTT
102145118 AAATAA AAATAA AAATAA AAAT-A AAATAA A
1 AAATAA AAATAA AAATAA AAATAA AAATAA A
102145148 GGGACTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:102146782 original size:3 final size:3
Alignment explanation
Indices: 102146774--102146807 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
102146764 TCTAGTATAG
102146774 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
102146808 TATTATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:102146812 original size:3 final size:3
Alignment explanation
Indices: 102146806--102146839 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
102146796 AATAATAATA
102146806 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
102146840 AGAGGGGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:102147339 original size:20 final size:20
Alignment explanation
Indices: 102147298--102147339 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
102147288 TCGCTTCTCC
* *
102147298 CATGCCCGTGTGGTATACCA
1 CATGCCCGTGTGCTATAACA
102147318 CATGCCCGTGTGTCTA-AACA
1 CATGCCCGTGTG-CTATAACA
102147338 CA
1 CA
102147340 CAGCCGTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (20 bp):
CATGCCCGTGTGCTATAACA
Found at i:102151233 original size:16 final size:17
Alignment explanation
Indices: 102151209--102151242 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
102151199 TAATAACAAG
*
102151209 ATTCGTCTTAGGT-TTT
1 ATTCCTCTTAGGTATTT
102151225 ATTCCTCTTAGGTATTT
1 ATTCCTCTTAGGTATTT
102151242 A
1 A
102151243 GGGGTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.53
Consensus pattern (17 bp):
ATTCCTCTTAGGTATTT
Found at i:102153339 original size:16 final size:17
Alignment explanation
Indices: 102153303--102153341 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
102153293 TTTTAAAAGG
102153303 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
102153320 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
102153337 AAAAC
1 AAAAC
102153342 TTAATAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.62, C:0.13, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:102160796 original size:46 final size:45
Alignment explanation
Indices: 102160740--102160912 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 45
102160730 GTTATTGTTG
*
102160740 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGACATAA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATC-GACTCGAGACAT-A
* * * *
102160786 GCCAGTGTAAGA-CATGTCTAGGACATGCATCAACTACGAGATGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGACT-CGAGA-CATA
* * * * *
102160832 GTTAGTGTAAGATCATGTCTGAGACATGGCATCGACTTGAGATATGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGACTCGAGACAT-A
*
102160879 GCTAGTGTAAGACCGTGTCTGGGACATGACATCG
1 GCTAGTGTAAGACCATGTCTGGGACATG-CATCG
102160913 GCACCTTACC
Statistics
Matches: 105, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
45 2 0.02
46 48 0.46
47 47 0.45
48 8 0.08
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGACTCGAGACATA
Found at i:102160874 original size:47 final size:45
Alignment explanation
Indices: 102160740--102160912 Score: 170
Period size: 47 Copynumber: 3.7 Consensus size: 45
102160730 GTTATTGTTG
* * *
102160740 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATAA
1 GCTAGTGTAAGACATGTCTGAGACATGCATC-GACTCGAGATATAA
* *
102160786 GCCAGTGTAAGACATGTCT-AGGACATGCATCAACTACGAGATGAT-A
1 GCTAGTGTAAGACATGTCTGA-GACATGCATCGACT-CGAGAT-ATAA
* * *
102160832 GTTAGTGTAAGATCATGTCTGAGACATGGCATCGACTTGAGATATGA
1 GCTAGTGTAAGA-CATGTCTGAGACAT-GCATCGACTCGAGATATAA
* *
102160879 GCTAGTGTAAGACCGTGTCTGGGACATGACATCG
1 GCTAGTGTAAGA-CATGTCTGAGACATG-CATCG
102160913 GCACCTTACC
Statistics
Matches: 106, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
45 2 0.02
46 47 0.44
47 48 0.45
48 9 0.08
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGAGACATGCATCGACTCGAGATATAA
Found at i:102166992 original size:9 final size:8
Alignment explanation
Indices: 102166966--102166991 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
102166956 GCAAACGTTA
102166966 TTCTTTTT
1 TTCTTTTT
102166974 TTCTTTTT
1 TTCTTTTT
102166982 TTCTTTTT
1 TTCTTTTT
102166990 TT
1 TT
102166992 TAGCTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTCTTTTT
Found at i:102167541 original size:15 final size:16
Alignment explanation
Indices: 102167511--102167543 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
102167501 TATGTGTATC
102167511 TTTTTTAAAATATTTA
1 TTTTTTAAAATATTTA
*
102167527 TTTTTTAATAT-TTTA
1 TTTTTTAAAATATTTA
102167542 TT
1 TT
102167544 ATAGTCCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTAAAATATTTA
Found at i:102167726 original size:20 final size:20
Alignment explanation
Indices: 102167701--102167740 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
102167691 TGAATTAGTT
102167701 TTTGGTACACTGACAGTGTA
1 TTTGGTACACTGACAGTGTA
102167721 TTTGGTACACTGACAGTGTA
1 TTTGGTACACTGACAGTGTA
102167741 CTTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (20 bp):
TTTGGTACACTGACAGTGTA
Found at i:102176361 original size:22 final size:22
Alignment explanation
Indices: 102176309--102176355 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
102176299 CTAGAAGACT
102176309 TCAAATTTGAAGGTAAAAAAGA
1 TCAAATTTGAAGGTAAAAAAGA
102176331 TCAAATTTGAAGGTAAAAAAGA
1 TCAAATTTGAAGGTAAAAAAGA
102176353 TCA
1 TCA
102176356 TGTTTGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.23
Consensus pattern (22 bp):
TCAAATTTGAAGGTAAAAAAGA
Found at i:102182265 original size:25 final size:26
Alignment explanation
Indices: 102182231--102182281 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
102182221 TTTTCTCACC
*
102182231 CAATTTTA-CCTTACTCAAATTTTGA
1 CAATTTTACCCTTACTAAAATTTTGA
*
102182256 CAATTTTACCCTTAGTAAAATTTTGA
1 CAATTTTACCCTTACTAAAATTTTGA
102182282 TGATTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.43
Consensus pattern (26 bp):
CAATTTTACCCTTACTAAAATTTTGA
Found at i:102183856 original size:26 final size:26
Alignment explanation
Indices: 102183820--102183871 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
102183810 GTGTGGAGTA
102183820 TTCTGTAACAGAGTATTCGGTGAAGC
1 TTCTGTAACAGAGTATTCGGTGAAGC
102183846 TTCTGTAACAGAGTATTCGGTGAAGC
1 TTCTGTAACAGAGTATTCGGTGAAGC
102183872 CCGTGTGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (26 bp):
TTCTGTAACAGAGTATTCGGTGAAGC
Found at i:102183901 original size:38 final size:38
Alignment explanation
Indices: 102183859--102183932 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
102183849 TGTAACAGAG
* * * *
102183859 TATTCGGTGAAGCCCGTGTGGAGTATTTTGTAATGACA
1 TATTCGGTAAAGCCCATGTGGAGTATTCTATAATGACA
* *
102183897 TATTCGGTAAAGCTCATGTGGCGTATTCTATAATGA
1 TATTCGGTAAAGCCCATGTGGAGTATTCTATAATGA
102183933 TATTGTAGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (38 bp):
TATTCGGTAAAGCCCATGTGGAGTATTCTATAATGACA
Found at i:102184803 original size:180 final size:180
Alignment explanation
Indices: 102184491--102184856 Score: 567
Period size: 180 Copynumber: 2.0 Consensus size: 180
102184481 TAGCTAGAGC
*
102184491 TACGGAACTCCAAATTAAGATCTGTTAATTTTCCCAAAAACCAAACTCACATATATTCTTACCAT
1 TACGGAACTCCAAATTAAGAACTGTTAATTTTCCCAAAAACCAAACTCACATATATTCTTACCAT
*
102184556 AAAATTTTTAGAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAAGTTACTCCTATTTC
66 AAAATTTTTAGAATTTTTGGTTTAGCCAATTAGTACAATTTATTCATTAAAGTTACTCCTATTTC
* *
102184621 ACTAT-TCAACAATTCCGACCTCTCTTCAGTAAAAATTATTTATCTCATGG
131 ACTGTCT-AACAATTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGG
* * *
102184671 TACGGGACTCCAAATTAAGAACTGTTAATTTTCCCAAAAACTAGACTCACATATATTCTTACCAT
1 TACGGAACTCCAAATTAAGAACTGTTAATTTTCCCAAAAACCAAACTCACATATATTCTTACCAT
* *
102184736 AAAATTTTTAGAATTTTTGGTTTATCCAATTAGTACAATTTATTCATTAAA-TATAC-CCATGTT
66 AAAATTTTTAGAATTTTTGGTTTAGCCAATTAGTACAATTTATTCATTAAAGT-TACTCC-TATT
* * * *
102184799 TCACTGTCTGACAGTTCCGATCTTTCTTCACTAAAAATTATTTATCTCATGG
129 TCACTGTCTAACAATTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGG
102184851 TACGGA
1 TACGGA
102184857 TCGGATGCTA
Statistics
Matches: 169, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
179 3 0.02
180 165 0.98
181 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.38
Consensus pattern (180 bp):
TACGGAACTCCAAATTAAGAACTGTTAATTTTCCCAAAAACCAAACTCACATATATTCTTACCAT
AAAATTTTTAGAATTTTTGGTTTAGCCAATTAGTACAATTTATTCATTAAAGTTACTCCTATTTC
ACTGTCTAACAATTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGG
Found at i:102185500 original size:50 final size:50
Alignment explanation
Indices: 102185437--102185879 Score: 390
Period size: 50 Copynumber: 8.8 Consensus size: 50
102185427 CGAAGCTCTT
* * * **
102185437 TGGTACGCATAGTAGCCTGCATTTAGTACTACACATACGACCTATCAATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
* * * *
102185487 TGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
* * * * * ** *
102185537 TGATACACGTAGTAGTCTACATTTAGTACTACACACGTGATCAAAGTTAA-C
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATC
* * *
102185588 -GAGTACGCGTAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATC
1 TG-GTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
* * * * * *
102185638 TAGTATATGTAGTAGCCTGCACTTAGTACTACACATGTAACCTAACCATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
* * * * * *
102185688 TGATACACATAGTAGCCCGCACTTAGTACTACACATGTGATCTAAACTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT-ATCAATC
* * * * ** *
102185739 GGGTACGCATAGTAGCCTGCACTTAGCACTACACATGCAACCTAACAATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
* *
102185789 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTA--AAAC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
* * *
102185837 TGTCTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 TG--GT--ACACGTAGTAGCCTGCACTTAGTACTACACATGTG
102185880 TTCTCACAAT
Statistics
Matches: 317, Mismatches: 66, Indels: 18
0.79 0.16 0.04
Matches are distributed among these distances:
48 5 0.02
49 3 0.01
50 199 0.63
51 76 0.24
52 34 0.11
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
Found at i:102185714 original size:151 final size:151
Alignment explanation
Indices: 102185439--102185875 Score: 588
Period size: 151 Copynumber: 2.9 Consensus size: 151
102185429 AAGCTCTTTG
* *
102185439 GTACGCATAGTAGCCTGCATTTAGTACTACACATACGACCTATCAATCTGGTACATGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCC
* * * * * *
102185504 TGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGTCTACATTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTAC
*
102185569 ACACGTGATC-AAAGTTAACGA
131 ACACGTGATCTAAA-CTAACGA
* * * *
102185590 GTACGCGTAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTAGTATATGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCC
* * *
102185655 TGCACTTAGTACTACACATGTAACCTAACCATCTGATACACATAGTAGCCCGCACTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTAC
* * *
102185720 ACATGTGATCTAAACTATCGG
131 ACACGTGATCTAAACTAACGA
* * * *
102185741 GTACGCATAGTAGCCTGCACTTAGCACTACACATGCAACCTAACAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCC
** * * *
102185806 TGCACTTAGTACTACACACGTGACCTAAAACTGTCTTAAACACATAGTAGCCTGCACATAGTACT
66 TGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACATAGTAGCCTGCACTTAGTACT
102185871 ACACA
129 ACACA
102185876 TGTGTTCTCA
Statistics
Matches: 248, Mismatches: 35, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
151 209 0.84
152 3 0.01
153 36 0.15
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (151 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCC
TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTAC
ACACGTGATCTAAACTAACGA
Found at i:102185760 original size:101 final size:101
Alignment explanation
Indices: 102185437--102185878 Score: 406
Period size: 101 Copynumber: 4.4 Consensus size: 101
102185427 CGAAGCTCTT
* * *** * * *
102185437 TGGTACGCATAGTAGCCTGCATTTAGTACTACACATACGACCTATCAATCTGGTACATGTAGTAG
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTAACCTAACAATCTGATACACGTAGTAG
* * *
102185502 CCTGCACTTAGTACTACACACGTGA-CTTATCCATC
66 CCTGCACTTAGTACTACACACGTGACCTAAACTATC
* * * * * * * * * * *
102185537 TGATACACGTAGTAGTCTACATTTAGTACTACACACGTGATCAAAGTTAA-C-GAGTACGCGTAG
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTAACCTAA--CAATCTGA-TACACGTAG
* * * * *
102185600 TAGCCTACACTTAGTACTACACATGCGACCT-ATCAATC
63 TAGCCTGCACTTAGTACTACACACGTGACCTAAACTATC
* * ** * *
102185638 TAGTATATGTAGTAGCCTGCACTTAGTACTACACATGTAACCTAACCATCTGATACACATAGTAG
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTAACCTAACAATCTGATACACGTAGTAG
* * *
102185703 CCCGCACTTAGTACTACACATGTGATCTAAACTATC
66 CCTGCACTTAGTACTACACACGTGACCTAAACTATC
* * * * *
102185739 GGGTACGCATAGTAGCCTGCACTTAGCACTACACATGCAACCTAACAATCTGGTACACGTAGTAG
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTAACCTAACAATCTGATACACGTAGTAG
*
102185804 CCTGCACTTAGTACTACACACGTGACCTAAAACTGTC
66 CCTGCACTTAGTACTACACACGTGACCT-AAACTATC
*** *
102185841 TTAAACACATAGTAGCCTGCACATAGTACTACACATGT
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGT
102185879 GTTCTCACAA
Statistics
Matches: 271, Mismatches: 63, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
99 1 0.00
100 70 0.26
101 159 0.59
102 41 0.15
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (101 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTAACCTAACAATCTGATACACGTAGTAG
CCTGCACTTAGTACTACACACGTGACCTAAACTATC
Found at i:102187968 original size:50 final size:50
Alignment explanation
Indices: 102187895--102188000 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
102187885 AGATTTGCCG
*
102187895 AAAGTAAATTTCATATGGGTAGTCTTCTGAGAAATGTATCTGTTTTTGGT
1 AAAGGAAATTTCATATGGGTAGTCTTCTGAGAAATGTATCTGTTTTTGGT
102187945 AAAGGAAATTTCATATGGGTAGTCTTCTGAGAAATGTATCTGTTTTTGGT
1 AAAGGAAATTTCATATGGGTAGTCTTCTGAGAAATGTATCTGTTTTTGGT
102187995 AAAGGA
1 AAAGGA
102188001 TATAAGATTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.39
Consensus pattern (50 bp):
AAAGGAAATTTCATATGGGTAGTCTTCTGAGAAATGTATCTGTTTTTGGT
Found at i:102188794 original size:30 final size:32
Alignment explanation
Indices: 102188739--102188801 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
102188729 ATTGCAGCAG
* * *
102188739 TTCCTACTTTTCCCTTTTATTTTCTCTGGTTC
1 TTCCTACTTTTCCCTTTCATCTTCTCTGATTC
102188771 TTCCTAC-TTT-CCTTTCATCTTCTCTGATTC
1 TTCCTACTTTTCCCTTTCATCTTCTCTGATTC
102188801 T
1 T
102188802 AAAATTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 18 0.64
31 3 0.11
32 7 0.25
ACGTcount: A:0.08, C:0.30, G:0.05, T:0.57
Consensus pattern (32 bp):
TTCCTACTTTTCCCTTTCATCTTCTCTGATTC
Found at i:102202427 original size:28 final size:27
Alignment explanation
Indices: 102202388--102202445 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
102202378 TCAGCTTGAA
*
102202388 TAATTATTACATGAT-TTTAATGTGTTT
1 TAATTATTACAT-ATCTTTAATATGTTT
102202415 TAATCTATTACATATCTTTAATATGTTT
1 TAAT-TATTACATATCTTTAATATGTTT
102202443 TAA
1 TAA
102202446 CCGAATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (27 bp):
TAATTATTACATATCTTTAATATGTTT
Found at i:102202633 original size:46 final size:46
Alignment explanation
Indices: 102202573--102202706 Score: 171
Period size: 46 Copynumber: 2.9 Consensus size: 46
102202563 ATGGGATAGT
* * * *
102202573 ATTAAAGGAGCTGCTGAAGCATTAAGGCAAAGCATGCATGGACGGC
1 ATTAAATGATCTGCTGAAGCATTAAAGCAAAGCATGCATGGACGAC
* *
102202619 ATTAAATGATCTGCTGAAGCATTAAAGCAAAACATGCATGGATGAC
1 ATTAAATGATCTGCTGAAGCATTAAAGCAAAGCATGCATGGACGAC
* * *
102202665 ATTAAATGAGT-TGCTGAAGCGTTAAAGAAAAGCATGCTTGGA
1 ATTAAATGA-TCTGCTGAAGCATTAAAGCAAAGCATGCATGGA
102202707 TCAACAATAA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 76 0.99
47 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
ATTAAATGATCTGCTGAAGCATTAAAGCAAAGCATGCATGGACGAC
Found at i:102206835 original size:19 final size:20
Alignment explanation
Indices: 102206806--102206848 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
102206796 ATTGCTGCAA
102206806 CAAACAACACCTTCAAGTAG
1 CAAACAACACCTTCAAGTAG
102206826 CAAA-AACACCTTCAAGTAG
1 CAAACAACACCTTCAAGTAG
102206845 CAAA
1 CAAA
102206849 GAGAGTGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.49, C:0.28, G:0.09, T:0.14
Consensus pattern (20 bp):
CAAACAACACCTTCAAGTAG
Found at i:102208069 original size:22 final size:21
Alignment explanation
Indices: 102208044--102208085 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
102208034 TGAACTAGCT
*
102208044 AGGAAGTTTCAAGGAAGCTTTA
1 AGGAAATTTCAAGGAA-CTTTA
*
102208066 AGGAAATTTCATGGAACTTT
1 AGGAAATTTCAAGGAACTTT
102208086 CAGCTCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.31
Consensus pattern (21 bp):
AGGAAATTTCAAGGAACTTTA
Found at i:102216308 original size:6 final size:6
Alignment explanation
Indices: 102216297--102216334 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
102216287 TGTATAAGTC
102216297 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
102216335 CTACTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:102219881 original size:30 final size:30
Alignment explanation
Indices: 102219847--102219910 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
102219837 AAAAAGTTGG
* *
102219847 AATTTAGTGCTTGTACTTTT-ACTTTTTAA
1 AATTTAGTGATTGTACTTTTCAATTTTTAA
*
102219876 CAATTTAGTTATTGTACTTTTCAATTTTTAA
1 -AATTTAGTGATTGTACTTTTCAATTTTTAA
102219907 AATT
1 AATT
102219911 CATGTCCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.28, C:0.09, G:0.08, T:0.55
Consensus pattern (30 bp):
AATTTAGTGATTGTACTTTTCAATTTTTAA
Found at i:102226618 original size:25 final size:27
Alignment explanation
Indices: 102226581--102226634 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
102226571 TCAAACATGC
102226581 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
102226607 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
102226633 AT
1 AT
102226635 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:102228155 original size:26 final size:26
Alignment explanation
Indices: 102228117--102228226 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
102228107 CATGAAATTC
*
102228117 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
102228143 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
102228169 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
* *
102228195 TTATCATTGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
102228221 TTATCA
1 TTATCA
102228227 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:102229209 original size:25 final size:25
Alignment explanation
Indices: 102229162--102229209 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
102229152 GTCTAAAAGT
*
102229162 TGTTATATAATATAAATATGTGTAC
1 TGTTATATAATATAAATAGGTGTAC
*
102229187 TGTTATATACAT-TATATAGGTGT
1 TGTTATATA-ATATAAATAGGTGT
102229210 TTATGGGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (25 bp):
TGTTATATAATATAAATAGGTGTAC
Found at i:102232191 original size:31 final size:31
Alignment explanation
Indices: 102232156--102232214 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
102232146 TATAATTTCG
* *
102232156 TTATTGAATTATTTAAAATTTTTTATTTAAA
1 TTATTGAACTATTTAAAAATTTTTATTTAAA
102232187 TTATTGAACTATTTAAAAATTTTTATTT
1 TTATTGAACTATTTAAAAATTTTTATTT
102232215 GTCATTGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (31 bp):
TTATTGAACTATTTAAAAATTTTTATTTAAA
Found at i:102233144 original size:4 final size:4
Alignment explanation
Indices: 102233135--102233163 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
102233125 AGCAAACGTG
102233135 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
102233164 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:102233991 original size:47 final size:47
Alignment explanation
Indices: 102233927--102234037 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
102233917 GACATTGAGT
*
102233927 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
102233974 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
102234021 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
102234038 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:102241241 original size:47 final size:47
Alignment explanation
Indices: 102241177--102241287 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
102241167 GACATTGAGT
*
102241177 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
102241224 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
102241271 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
102241288 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:102245203 original size:16 final size:16
Alignment explanation
Indices: 102245182--102245228 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
102245172 TTTTGTATAT
102245182 TTAATAATATAATAAA
1 TTAATAATATAATAAA
102245198 TTAATAATATAAT---
1 TTAATAATATAATAAA
*
102245211 TTAATAATTTAATAAA
1 TTAATAATATAATAAA
102245227 TT
1 TT
102245229 TTTTAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 12 0.44
16 15 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAATAATATAATAAA
Found at i:102245210 original size:21 final size:21
Alignment explanation
Indices: 102245185--102245225 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
102245175 TGTATATTTA
102245185 ATAATATAATAAATTAATAAT
1 ATAATATAATAAATTAATAAT
* *
102245206 ATAATTTAATAATTTAATAA
1 ATAATATAATAAATTAATAA
102245226 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAATATAATAAATTAATAAT
Found at i:102245217 original size:8 final size:8
Alignment explanation
Indices: 102245180--102245225 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
102245170 AATTTTGTAT
102245180 ATTTAATA
1 ATTTAATA
*
102245188 ATATAATA
1 ATTTAATA
*
102245196 AATTAATA
1 ATTTAATA
102245204 A--T-ATA
1 ATTTAATA
102245209 ATTTAATA
1 ATTTAATA
102245217 ATTTAATA
1 ATTTAATA
102245225 A
1 A
102245226 ATTTTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
5 4 0.12
6 1 0.03
7 1 0.03
8 26 0.81
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATTTAATA
Found at i:102245223 original size:13 final size:13
Alignment explanation
Indices: 102245180--102245223 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
102245170 AATTTTGTAT
102245180 ATTTAATAATATA
1 ATTTAATAATATA
102245193 ATAAATTAATAATATA
1 AT---TTAATAATATA
*
102245209 ATTTAATAATTTA
1 ATTTAATAATATA
102245222 AT
1 AT
102245224 AAATTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 14 0.52
16 13 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTAATAATATA
Found at i:102245408 original size:22 final size:23
Alignment explanation
Indices: 102245356--102245402 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
102245346 TCTTTTAAAA
102245356 AAATATTTTATAGTATAAAATAT
1 AAATATTTTATAGTATAAAATAT
*
102245379 AAATATTTTA-ATTATATAAATAT
1 AAATATTTTATAGTATA-AAATAT
102245402 A
1 A
102245403 TTATTTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AAATATTTTATAGTATAAAATAT
Found at i:102247157 original size:3 final size:3
Alignment explanation
Indices: 102247149--102247186 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
102247139 CAATATTTTT
102247149 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
102247187 TTTGTTCCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:102249766 original size:23 final size:23
Alignment explanation
Indices: 102249735--102249778 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
102249725 ATCAAATATT
*
102249735 TATATTAAAAGTATTATTATAAA
1 TATAATAAAAGTATTATTATAAA
* *
102249758 TATAATAAATGTTTTATTATA
1 TATAATAAAAGTATTATTATA
102249779 TTAAAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
TATAATAAAAGTATTATTATAAA
Found at i:102249798 original size:35 final size:34
Alignment explanation
Indices: 102249755--102249823 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 34
102249745 GTATTATTAT
*
102249755 AAATATAATAAATGTTTTATTATATTAAAAATAA
1 AAATATAATAAATATTTTATTATATTAAAAATAA
* *
102249789 AAATAATAATAAATATTTTATTGTATTAAATATAA
1 AAAT-ATAATAAATATTTTATTATATTAAAAATAA
102249824 TTTTTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 4 0.13
35 27 0.87
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (34 bp):
AAATATAATAAATATTTTATTATATTAAAAATAA
Found at i:102250301 original size:22 final size:22
Alignment explanation
Indices: 102250275--102250321 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
102250265 TAATATACTA
102250275 TAAATTAAATTTATTCTAAATT
1 TAAATTAAATTTATTCTAAATT
**
102250297 TAAATTTGATTTATTCTAAATT
1 TAAATTAAATTTATTCTAAATT
102250319 TAA
1 TAA
102250322 GACAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
TAAATTAAATTTATTCTAAATT
Found at i:102250330 original size:22 final size:22
Alignment explanation
Indices: 102250275--102250331 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
102250265 TAATATACTA
*
102250275 TAAATTAAATTTATTCTAAATT
1 TAAATCAAATTTATTCTAAATT
***
102250297 TAAATTTGATTTATTCTAAATT
1 TAAATCAAATTTATTCTAAATT
102250319 TAAGA-CAAATTTA
1 TAA-ATCAAATTTA
102250332 GTGGATTATC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATCAAATTTATTCTAAATT
Found at i:102252745 original size:18 final size:18
Alignment explanation
Indices: 102252718--102252830 Score: 131
Period size: 17 Copynumber: 6.3 Consensus size: 18
102252708 AAGATTGTGT
*
102252718 ATCATGTCTAAGATTGCA
1 ATCATATCTAAGATTGCA
*
102252736 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCA
*
102252753 ATCATATTTAAGATTGCA
1 ATCATATCTAAGATTGCA
*
102252771 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCA
*
102252788 ATCATATCTAAGATTCCA
1 ATCATATCTAAGATTGCA
**
102252806 TATCGCATCTAAGATTGCA
1 -ATCATATCTAAGATTGCA
102252825 TATCAT
1 -ATCAT
102252831 TGAAGATTAT
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
17 30 0.38
18 30 0.38
19 19 0.24
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (18 bp):
ATCATATCTAAGATTGCA
Found at i:102252758 original size:17 final size:17
Alignment explanation
Indices: 102252705--102252802 Score: 124
Period size: 17 Copynumber: 5.5 Consensus size: 17
102252695 AATCATATCT
*
102252705 TCTAAGATTGTGTATCATG
1 TCTAAGA-T-TGTATCATA
*
102252724 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
102252742 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
* *
102252759 TTTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
102252777 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
102252794 TCTAAGATT
1 TCTAAGATT
102252803 CCATATCGCA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
17 32 0.46
18 31 0.44
19 7 0.10
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (17 bp):
TCTAAGATTGTATCATA
Found at i:102252765 original size:35 final size:35
Alignment explanation
Indices: 102252705--102252822 Score: 164
Period size: 35 Copynumber: 3.3 Consensus size: 35
102252695 AATCATATCT
*
102252705 TCTAAGATTGTGTATCATGTCTAAGATTGCAATCATA
1 TCTAAGA-T-TGTATCATATCTAAGATTGCAATCATA
*
102252742 TCTAAGATTGTATCATATTTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* **
102252777 TCTAAGATTGTATCATATCTAAGATTCCATATCGCA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
102252813 TCTAAGATTG
1 TCTAAGATTG
102252823 CATATCATTG
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
35 52 0.70
36 15 0.20
37 7 0.09
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:102253687 original size:207 final size:207
Alignment explanation
Indices: 102253221--102254348 Score: 1970
Period size: 207 Copynumber: 5.5 Consensus size: 207
102253211 AAATCTGCTT
* * *
102253221 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
102253286 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * * *
102253351 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCTGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
* *
102253415 GGAGATGTCAAA
196 GGAGACGCCAAA
* *
102253427 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAATGTAAACGC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
102253492 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTTCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
102253557 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
102253622 GGAGACGCCAAA
196 GGAGACGCCAAA
102253634 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
102253699 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACTATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
102253764 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCTGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
102253829 GGAGATGCCAAA
196 GGAGACGCCAAA
*
102253841 CTTCGATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
102253906 GTGAAAGCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
102253971 GGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTGTCTGCCTTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
102254036 GGAGACGCCAAA
196 GGAGACGCCAAA
*
102254048 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
102254113 GTGAAAGTCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
102254178 GGATCTTGCTTTAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
102254243 GGAGACGCCAAA
196 GGAGACGCCAAA
*
102254255 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
102254320 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
102254349 CTGCTCTCCG
Statistics
Matches: 876, Mismatches: 45, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
206 126 0.14
207 750 0.86
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:102254392 original size:44 final size:43
Alignment explanation
Indices: 102254341--102254423 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
102254331 ATCAGCTATG
* * *
102254341 TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTT
1 TCTTCGATCTGCTCTCCGAC-AATATAGAGACGCCAAATCTGTT
* * *
102254385 TCTTCGATTTGTTCTCTGACAATATAGAGACGCCAAATC
1 TCTTCGATCTGCTCTCCGACAATATAGAGACGCCAAATC
102254424 ATCTTGGATC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 17 0.52
44 16 0.48
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (43 bp):
TCTTCGATCTGCTCTCCGACAATATAGAGACGCCAAATCTGTT
Found at i:102254470 original size:131 final size:120
Alignment explanation
Indices: 102254165--102254470 Score: 339
Period size: 131 Copynumber: 2.5 Consensus size: 120
102254155 GCACAAGGAT
* **
102254165 GCCAAACCATCTTGGATCTTGCTTTAGTATAAACA-TCTGAAGGCCAGATCTGCTATGTGTCTGC
1 GCCAAATCATCTTGGATCTTGCTTTAGCGTAAACACT-TGAAGGCCAGATCTGCTATGTGTCTGC
*
102254229 CCTCCGTCGAATATGGAGACGCCAAACTTTGATTTGTTCTCTGACAATACAGAGAT
65 CCTCCGTCGAATATGGAGACGCCAAACTTTGATTTGTTCTCTGACAATACAGAGAC
* * * * * * *
102254285 GCCAAATCATCTTAGA-CTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGAT
1 GCCAAATCATCTTGGATCTTGCTTTAGCGTAAACACTTGAAGGCCAGATCTGCTATG---T-G-T
* * *
102254349 CTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATATAGAG
61 CTGCCCTCCGTCGAATATGGAGACGCCAAA-C----T-TT-GATTTGTTCTCTGACAATACAGAG
102254414 AC
119 AC
*
102254416 GCCAAATCATCTTGGATC-TGCTTTAGCGTGAACACTTGAAGGCCAGATCTGCTAT
1 GCCAAATCATCTTGGATCTTGCTTTAGCGTAAACACTTGAAGGCCAGATCTGCTAT
102254471 ACTTTAACCT
Statistics
Matches: 150, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
119 31 0.21
120 14 0.09
122 1 0.01
123 1 0.01
124 29 0.19
125 1 0.01
129 1 0.01
130 2 0.01
131 69 0.46
132 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (120 bp):
GCCAAATCATCTTGGATCTTGCTTTAGCGTAAACACTTGAAGGCCAGATCTGCTATGTGTCTGCC
CTCCGTCGAATATGGAGACGCCAAACTTTGATTTGTTCTCTGACAATACAGAGAC
Found at i:102254574 original size:84 final size:86
Alignment explanation
Indices: 102254477--102254681 Score: 292
Period size: 87 Copynumber: 2.4 Consensus size: 86
102254467 CTATACTTTA
* *
102254477 ACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TC-T-TCGATCTGCTCCACTACTGCTTAG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCAGTCGTCTCGATCTACTCCACTACTGCTTAG
102254539 GGAGATAAGATCCGCAATTTT
66 GGAGATAAGATCCGCAATTTT
* * *
102254560 GACCTGTTACCCTACTGCTTAGGGGATTAAGGTG-AGTCGTCGTTGATCTATTCCACTACTGCTT
1 -ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCAGTCGTC-TCGATCTACTCCACTACTGCTT
* *
102254624 AGGGAGATAAGATCTGTAATTTT
64 AGGGAGATAAGATCCGCAATTTT
102254647 AGCCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
1 A-CCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
102254682 TGAATTTTGT
Statistics
Matches: 107, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
83 1 0.01
84 33 0.31
85 1 0.01
86 1 0.01
87 71 0.66
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (86 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCAGTCGTCTCGATCTACTCCACTACTGCTTAG
GGAGATAAGATCCGCAATTTT
Found at i:102254670 original size:43 final size:43
Alignment explanation
Indices: 102254528--102254670 Score: 139
Period size: 43 Copynumber: 3.3 Consensus size: 43
102254518 ATCTGCTCCA
* *
102254528 CTACTGCTTAGGGAGATAAGATCCGCAATTTTGACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCAGTAATTTTGACCTGTTACC
* * ** * * *
102254571 CTACTGCTTAGGG-GATTAAGGTGAGTCGTCGTTGATCTATT-CC
1 CTACTGCTTAGGGAGA-TAAGATCAGTAAT-TTTGACCTGTTACC
*
102254614 ACTACTGCTTAGGGAGATAAGATCTGTAATTTT-AGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCAGTAATTTTGA-CCTGTTACC
102254658 CTACTGCTTAGGG
1 CTACTGCTTAGGG
102254671 GATTAAGGCG
Statistics
Matches: 77, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
42 3 0.04
43 41 0.53
44 31 0.40
45 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCAGTAATTTTGACCTGTTACC
Found at i:102255626 original size:7 final size:7
Alignment explanation
Indices: 102255624--102255677 Score: 67
Period size: 7 Copynumber: 7.9 Consensus size: 7
102255614 TTTTTTCTCT
102255624 TTTTTTC
1 TTTTTTC
102255631 TTTTTTC
1 TTTTTTC
*
102255638 TTTTCTC
1 TTTTTTC
102255645 TCTTTTTC
1 T-TTTTTC
102255653 TTTTTT-
1 TTTTTTC
*
102255659 TTTTCT-
1 TTTTTTC
102255665 TTTTTTC
1 TTTTTTC
102255672 TTTTTT
1 TTTTTT
102255678 GAAATAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 10 0.24
7 25 0.61
8 6 0.15
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:102255677 original size:8 final size:8
Alignment explanation
Indices: 102255608--102255677 Score: 79
Period size: 8 Copynumber: 8.5 Consensus size: 8
102255598 GGCCTCTCCA
*
102255608 TTTTTATT
1 TTTTTCTT
102255616 TTTTCTCTT
1 TTTT-TCTT
102255625 TTTTTC-T
1 TTTTTCTT
102255632 TTTTTCTT
1 TTTTTCTT
*
102255640 TTCTCTCTT
1 TT-TTTCTT
*
102255649 TTTCTTTTT
1 TTT-TTCTT
102255658 TTTTTCTT
1 TTTTTCTT
102255666 TTTTTCTT
1 TTTTTCTT
102255674 TTTT
1 TTTT
102255678 GAAATAAAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
7 7 0.13
8 26 0.49
9 20 0.38
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:102259669 original size:48 final size:49
Alignment explanation
Indices: 102259615--102259707 Score: 179
Period size: 49 Copynumber: 1.9 Consensus size: 49
102259605 TAATGGTAGA
102259615 AGTGTCCCTCAGTACT-CCACGCTCACCTTGAATTGTTCATCTATTGGT
1 AGTGTCCCTCAGTACTCCCACGCTCACCTTGAATTGTTCATCTATTGGT
102259663 AGTGTCCCTCAGTACTCCCACGCTCACCTTGAATTGTTCATCTAT
1 AGTGTCCCTCAGTACTCCCACGCTCACCTTGAATTGTTCATCTAT
102259708 CTTCATGTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 16 0.36
49 28 0.64
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.34
Consensus pattern (49 bp):
AGTGTCCCTCAGTACTCCCACGCTCACCTTGAATTGTTCATCTATTGGT
Found at i:102261483 original size:35 final size:35
Alignment explanation
Indices: 102261425--102261542 Score: 182
Period size: 35 Copynumber: 3.3 Consensus size: 35
102261415 AATCATATCT
102261425 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
102261462 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* * *
102261497 TCTAAGATTGTATCATATTTAAGATTCCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
102261533 TCTAAGATTG
1 TCTAAGATTG
102261543 CATATCATTG
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
35 52 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:102264061 original size:17 final size:17
Alignment explanation
Indices: 102264039--102264074 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
102264029 TCCATTTAGC
102264039 CTTCACTTGTTATTTGA
1 CTTCACTTGTTATTTGA
102264056 CTTCACTTGTTATTTGA
1 CTTCACTTGTTATTTGA
102264073 CT
1 CT
102264075 CTAAATCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.19, G:0.11, T:0.53
Consensus pattern (17 bp):
CTTCACTTGTTATTTGA
Found at i:102266773 original size:22 final size:23
Alignment explanation
Indices: 102266748--102266799 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
102266738 TATAAAACCT
102266748 AATAAAAA-TAAG-CTTAAAGAAA
1 AATAAAAAGT-AGTCTTAAAGAAA
**
102266770 AATAAAAAGTAGTCTTAAATTAA
1 AATAAAAAGTAGTCTTAAAGAAA
102266793 AATAAAA
1 AATAAAA
102266800 GTAAAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.23
Consensus pattern (23 bp):
AATAAAAAGTAGTCTTAAAGAAA
Found at i:102268506 original size:35 final size:35
Alignment explanation
Indices: 102268462--102268628 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
102268452 TCCTCATTGA
** *
102268462 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
102268497 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
* *
102268537 AATACCATTCCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
102268572 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
102268607 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
102268629 CTTTGCCATG
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
35 86 0.75
39 3 0.03
40 26 0.23
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:102268550 original size:75 final size:74
Alignment explanation
Indices: 102268458--102268628 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 74
102268448 GTTTTCCTCA
** * * **
102268458 TTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACT
1 TTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAACT
102268522 CAGTATGGAT
65 CAGTATGGAT
* *
102268532 TTGATAATACCATTCCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAACT
1 TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
102268597 CAGTATGGA-
65 CAGTATGGAT
102268606 -TG--ATACCATACCTACATTTCACA
1 TTGAAATACCATACCTACATTTCACA
102268629 CTTTGCCATG
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
70 20 0.23
73 2 0.02
74 7 0.08
75 57 0.66
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTC
AGTATGGAT
Found at i:102277822 original size:20 final size:18
Alignment explanation
Indices: 102277797--102277841 Score: 72
Period size: 20 Copynumber: 2.4 Consensus size: 18
102277787 CACGATTAGC
102277797 AGGGAAAGAAAGAAAGAAAA
1 AGGGAAAGAAA-AAAG-AAA
102277817 AGGGAAAGAAAAAAGAAA
1 AGGGAAAGAAAAAAGAAA
102277835 AGGGAAA
1 AGGGAAA
102277842 ATTTGGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 10 0.40
19 4 0.16
20 11 0.44
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
AGGGAAAGAAAAAAGAAA
Found at i:102278898 original size:12 final size:12
Alignment explanation
Indices: 102278881--102278925 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
102278871 CACAATTAGC
102278881 AAGGAAAGAA-AG
1 AAGGAAA-AAGAG
102278893 AAGGAAAAAGAG
1 AAGGAAAAAGAG
*
102278905 AAGGAAAAAGAA
1 AAGGAAAAAGAG
102278917 AAGGAAAAA
1 AAGGAAAAA
102278926 TTAGGGTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 2 0.06
12 29 0.94
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
AAGGAAAAAGAG
Found at i:102279801 original size:6 final size:6
Alignment explanation
Indices: 102279792--102279817 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
102279782 CCTGACTATG
102279792 ACTGTT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT AC
102279818 CCTACGATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
ACTGTT
Found at i:102282395 original size:59 final size:59
Alignment explanation
Indices: 102282284--102282402 Score: 143
Period size: 59 Copynumber: 2.0 Consensus size: 59
102282274 TATTTCATCA
* * *
102282284 TTATTCTTTTCCACCACATGCACTTCATTAATGCCTTGGCCCGCCCCTTTTTTTTATTG
1 TTATTCCTTTCCACCACAAGCACTTCATTAATGCCATGGCCCGCCCCTTTTTTTTATTG
* *
102282343 TTATTCCTTTCCACCACAAGCCCTTCA-T-ATGACCATGGCCCAGCACTCTTTTTCTTTATT
1 TTATTCCTTTCCACCACAAGCACTTCATTAATG-CCATGGCCC-GC-CCCTTTTT-TTTATT
102282403 CTTTTCCACC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
57 3 0.06
58 9 0.18
59 26 0.51
60 7 0.14
61 6 0.12
ACGTcount: A:0.18, C:0.32, G:0.09, T:0.41
Consensus pattern (59 bp):
TTATTCCTTTCCACCACAAGCACTTCATTAATGCCATGGCCCGCCCCTTTTTTTTATTG
Found at i:102285110 original size:21 final size:22
Alignment explanation
Indices: 102285084--102285127 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
102285074 TTCAATTTAC
102285084 ACAAAAAGTATCAATA-CTTTT
1 ACAAAAAGTATCAATACCTTTT
*
102285105 ACAAAAATTATCAATACCTTTT
1 ACAAAAAGTATCAATACCTTTT
102285127 A
1 A
102285128 TCAAGTATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (22 bp):
ACAAAAAGTATCAATACCTTTT
Found at i:102286171 original size:21 final size:22
Alignment explanation
Indices: 102286142--102286183 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
102286132 GATTATGACG
*
102286142 ATGCTATTTTA-TAAAACATTT
1 ATGCAATTTTATTAAAACATTT
102286163 ATGCAATTTTATTTAAAACAT
1 ATGCAATTTTA-TTAAAACAT
102286184 CCTACTCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (22 bp):
ATGCAATTTTATTAAAACATTT
Found at i:102286324 original size:47 final size:47
Alignment explanation
Indices: 102286270--102286429 Score: 257
Period size: 47 Copynumber: 3.4 Consensus size: 47
102286260 GTCACAATAA
*
102286270 TGCAGATAAACTGCCACTTAATAATATTGTGGACAAACCACCACTTT
1 TGCAGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTT
* *
102286317 TGTAGATAAACTGCCACTTAATAAAATTGTGGACAAGCCACCACTTT
1 TGCAGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTT
* * *
102286364 TGCAGATAAACTGCCACTTTATAATATTGTGGACAAGTCACGACTTT
1 TGCAGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTT
*
102286411 TGCAGATAAACTTCCACTT
1 TGCAGATAAACTGCCACTT
102286430 CTTCCTCTTT
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 104 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (47 bp):
TGCAGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTT
Found at i:102286631 original size:2 final size:2
Alignment explanation
Indices: 102286619--102286656 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
102286609 ACATACATAC
*
102286619 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102286657 CAATATTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102293791 original size:16 final size:16
Alignment explanation
Indices: 102293772--102293802 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
102293762 ATACATACCT
102293772 TATTTCATAATACTCG
1 TATTTCATAATACTCG
102293788 TATTTCATAATACTC
1 TATTTCATAATACTC
102293803 ATATAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.45
Consensus pattern (16 bp):
TATTTCATAATACTCG
Found at i:102296556 original size:62 final size:62
Alignment explanation
Indices: 102296480--102296606 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
102296470 TGCCTAAGGT
102296480 TCAACTCCTTTTGAGTAAGGAGGTACTTAAGGCTCTTGTGATCAATACAGATGATACACCTC
1 TCAACTCCTTTTGAGTAAGGAGGTACTTAAGGCTCTTGTGATCAATACAGATGATACACCTC
102296542 TCAACTCCTTTTGAGTAAGGAGGTACTTAAGGCTCTTGTGATCAATACAGATGATACACCTC
1 TCAACTCCTTTTGAGTAAGGAGGTACTTAAGGCTCTTGTGATCAATACAGATGATACACCTC
102296604 TCA
1 TCA
102296607 CCATACAGAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (62 bp):
TCAACTCCTTTTGAGTAAGGAGGTACTTAAGGCTCTTGTGATCAATACAGATGATACACCTC
Found at i:102302770 original size:23 final size:23
Alignment explanation
Indices: 102302744--102302788 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
102302734 TGGGTATGTA
*
102302744 ATGACGTTATCTT-ACAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
102302767 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
102302789 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:102303060 original size:42 final size:42
Alignment explanation
Indices: 102302974--102303060 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
102302964 GCACATATGT
* * * * *
102302974 GCTAAACAGAAACCCGTAAGGGTTAAACGGAAGCTCAGAGGA
1 GCTAAACAGAAACCCATAACGGTTAAACGAAAGCTCAAAAGA
*
102303016 GCTAAAC-GAAAACCCATAACGGTTAAACTAAAGCTCAAAAGA
1 GCTAAACAG-AAACCCATAACGGTTAAACGAAAGCTCAAAAGA
102303058 GCT
1 GCT
102303061 GAATTGAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.03
42 37 0.97
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.14
Consensus pattern (42 bp):
GCTAAACAGAAACCCATAACGGTTAAACGAAAGCTCAAAAGA
Found at i:102306792 original size:27 final size:27
Alignment explanation
Indices: 102306752--102306803 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
102306742 ACAATTCATT
102306752 TTAATTATATTAAAA-AATAATTTAAC
1 TTAATTATATTAAAATAATAATTTAAC
102306778 TTAATTTATATTAAAATAATAATTTA
1 TTAA-TTATATTAAAATAATAATTTA
102306804 GTTTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 4 0.17
27 11 0.46
28 9 0.38
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
TTAATTATATTAAAATAATAATTTAAC
Found at i:102310249 original size:18 final size:18
Alignment explanation
Indices: 102310218--102310260 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
102310208 TTACATACAA
* *
102310218 TTTATTTATTTTAAATAT
1 TTTATATATATTAAATAT
*
102310236 TTTATATATATTAATTAT
1 TTTATATATATTAAATAT
102310254 TTT-TATA
1 TTTATATA
102310261 AACATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATATATATTAAATAT
Done.