Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 397 of 438
Found at i:123747512 original size:62 final size:61
Alignment explanation
Indices: 123747403--123747521 Score: 132
Period size: 62 Copynumber: 1.9 Consensus size: 61
123747393 CCTCTTTTTA
* ** **
123747403 AAATCTTTAGAATTAAAAATAAATTGAAAATATTTGTAAATGCTGAAGGTTAAATTTATTG
1 AAATCTTTAGAATTAAAAATAAAATGAAAATATTTGTAAACACTGAAGCCTAAATTTATTG
* * * *
123747464 AAATCTTTTAGACTTCAAACTAAAATGATAAAT-TTTGTAAACATTGAAGCCTAAATTT
1 AAATC-TTTAGAATTAAAAATAAAATGA-AAATATTTGTAAACACTGAAGCCTAAATTT
123747522 GGTGATTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
61 5 0.11
62 38 0.81
63 4 0.09
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (61 bp):
AAATCTTTAGAATTAAAAATAAAATGAAAATATTTGTAAACACTGAAGCCTAAATTTATTG
Found at i:123748915 original size:28 final size:28
Alignment explanation
Indices: 123748873--123748936 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
123748863 GTGCGGTAAT
* * *
123748873 CCACTAGAATTAGATAAACGTGGTTGAG
1 CCACCAGAATCAGATAAACGTGGTTGAA
**
123748901 CCACCAGAATCAGATAAGTGTGGTTGAA
1 CCACCAGAATCAGATAAACGTGGTTGAA
*
123748929 CCATCAGA
1 CCACCAGA
123748937 TAAGGTAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (28 bp):
CCACCAGAATCAGATAAACGTGGTTGAA
Found at i:123756103 original size:493 final size:486
Alignment explanation
Indices: 123755178--123756147 Score: 1360
Period size: 493 Copynumber: 2.0 Consensus size: 486
123755168 AAAACATATT
** *
123755178 AAACATGAAGTCAAAGCATTATTAGCATATTTGACATTTCAATACGCATTATCCATTTTAGCCTT
1 AAACATGAAGTCAAAGCATTACCAGCATATTTGACATTTCAATACGCATTATCAATTTTAGCCTT
* *
123755243 ATATAGGGAGGTTTTGGATTGAGAGTGAGAGCATACAAGCTGTCCGATCTTTGTGGTTGTAATTA
66 ATATAGGGAGGTTTTGGATTGAGAGTGAGAGCATACAAGCTGTACGATCTTTGTGATTGTAATTA
* *
123755308 TCCTTGGTGAACTTGGGTAGATTGGGTTGGTTAGCAAATCTGTAATGTGAAAAGTTTGTATAATG
131 TCCTTGGTGAACTTGAGTAGATTGGGTTGGCTAGCAAATCTGTAATGTGAAAAGTTTGTATAATG
* ** * * *
123755373 GACTTGTTATCTAGGTAAGGCCTTACAGAGGTAGATTGTTGAAACGAATTGCATCAACAAATTTT
196 AACTCATTATCTAGATAAGGCCTCACAGAGGTAGATTGTTGAAACGAATTGCATCAACAAATTCT
* * *
123755438 CGGTCTCTATCTTCGTTTATCTTGTTTTTATTCTTTTTCCGCAACTATCAAAACTCACATTGCAA
261 CGGTCTCCATCTTCGTTTATCTTATTTTTATTCTTTGTCCGCAACTATCAAAACTCACATTGCAA
* *
123755503 CATCAATAATGTCTACTAACTAAAATCGTCTATAACCAAACTTAATCAACCTTTCAGAATTAAAG
326 CATCAATAACGTCTACTAACTAAAATCGTCTATAACCAAACTTAATCAACCTTTCAAAATT--A-
* * *
123755568 GATAGGATTCTAATTATCAAATCAAAGTTTCTCAACAAAAAAACTTAGAATTGTTGACATTCTCC
388 GATAGGATACTAATTACCAAATCAAAGTTTCTCAAAAAAAAAACTTAGAATTGTTGACATTCTCC
*
123755633 TTCAATGTAAGTATTTGATGGAGTCAAATATACC
453 TTCAATCTAAGTATTTGATGGAGTCAAATATACC
* *
123755667 AAACATGCAGTCAAAGCATTACCAGCATATTTGACATGCATCTCAATACGTATTATCAATTTTAG
1 AAACATGAAGTCAAAGCATTACCAGCATATTTGACAT---T-TCAATACGCATTATCAATTTTAG
* * *
123755732 CTTTATATATGGAGGTTTTGGATTGAGAGTGAGAGTATACAAGCTGTACGATCTTTGTGATTGTA
62 CCTTATATAGGGAGGTTTTGGATTGAGAGTGAGAGCATACAAGCTGTACGATCTTTGTGATTGTA
* * * *
123755797 ATTATCCTTGGTGAGCTTTAGTAGATTGGGTTGGCTAGTAAATCTGTAATGTGAAAATTTTGTAT
127 ATTATCCTTGGTGAACTTGAGTAGATTGGGTTGGCTAGCAAATCTGTAATGTGAAAAGTTTGTAT
* * * * **
123755862 AATGAACTCATTATTTAGATAAAGTCC-CGCAGAGTTAGATTGTTGAATTGAATTGCATCAACAA
192 AATGAACTCATTATCTAGAT-AAGGCCTCACAGAGGTAGATTGTTGAAACGAATTGCATCAACAA
*
123755926 ATTCTCGGTCTCCATCTTCTTTTATCTTATTATTTTTATTCTCTTGT-CGCAACTATCAAAACTC
256 ATTCTCGGTCTCCATCTTCGTTTATC---TTATTTTTATTCT-TTGTCCGCAACTATCAAAACTC
* * * *
123755990 ACATTGCAACATCAATAACGTCTATTAACTAAAATTGTTTATAACCATGA-TTAATCAACCTTTC
317 ACATTGCAACATCAATAACGTCTACTAACTAAAATCGTCTATAACCA-AACTTAATCAACCTTTC
123756054 AAAATT-GA-A-G-TACTAATTACCAAATCAAAGTTTCTCAAAAAAAAAAAAAACTTAGAATTGT
381 AAAATTAGATAGGATACTAATTACCAAATCAAAGTTTCTC----AAAAAAAAAACTTAGAATTGT
123756115 TGACATTCTCCTTCAATCTAAGTATTTGATGGA
442 TGACATTCTCCTTCAATCTAAGTATTTGATGGA
123756148 AAGTTATGCC
Statistics
Matches: 425, Mismatches: 42, Indels: 24
0.87 0.09 0.05
Matches are distributed among these distances:
489 58 0.14
490 1 0.00
491 1 0.00
492 3 0.01
493 262 0.62
494 5 0.01
496 91 0.21
497 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (486 bp):
AAACATGAAGTCAAAGCATTACCAGCATATTTGACATTTCAATACGCATTATCAATTTTAGCCTT
ATATAGGGAGGTTTTGGATTGAGAGTGAGAGCATACAAGCTGTACGATCTTTGTGATTGTAATTA
TCCTTGGTGAACTTGAGTAGATTGGGTTGGCTAGCAAATCTGTAATGTGAAAAGTTTGTATAATG
AACTCATTATCTAGATAAGGCCTCACAGAGGTAGATTGTTGAAACGAATTGCATCAACAAATTCT
CGGTCTCCATCTTCGTTTATCTTATTTTTATTCTTTGTCCGCAACTATCAAAACTCACATTGCAA
CATCAATAACGTCTACTAACTAAAATCGTCTATAACCAAACTTAATCAACCTTTCAAAATTAGAT
AGGATACTAATTACCAAATCAAAGTTTCTCAAAAAAAAAACTTAGAATTGTTGACATTCTCCTTC
AATCTAAGTATTTGATGGAGTCAAATATACC
Found at i:123757022 original size:24 final size:24
Alignment explanation
Indices: 123756988--123757033 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
123756978 TATATGAAAT
* *
123756988 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
123757012 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
123757034 ATTTAATTAG
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:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:123757991 original size:31 final size:32
Alignment explanation
Indices: 123757943--123758019 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
123757933 TTAAAATATA
*
123757943 AAGATTGAATATTAAATTTGA-GAATAAGACG
1 AAGATTGAAAATTAAATTTGATGAATAAGACG
* *
123757974 AAGATT-AAAATTGAAATTTGATGCATAAGAAG
1 AAGATTGAAAATT-AAATTTGATGAATAAGACG
*
123758006 TAAAATTGAAAATT
1 -AAGATTGAAAATT
123758020 TATGATTTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
30 5 0.13
31 14 0.37
32 8 0.21
33 5 0.13
34 6 0.16
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.30
Consensus pattern (32 bp):
AAGATTGAAAATTAAATTTGATGAATAAGACG
Found at i:123758557 original size:2 final size:2
Alignment explanation
Indices: 123758550--123758585 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
123758540 TCAAAGTTTC
123758550 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
123758586 TTGAGCTACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123759156 original size:19 final size:18
Alignment explanation
Indices: 123759132--123759175 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
123759122 ATAAATCTCA
123759132 AAAAATT-AAAATCATATAT
1 AAAAATTGAAAAT-AT-TAT
*
123759151 AAAAATTGAAAATGTTAT
1 AAAAATTGAAAATATTAT
123759169 AAAAATT
1 AAAAATT
123759176 TTAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 10 0.43
19 8 0.35
20 5 0.22
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (18 bp):
AAAAATTGAAAATATTAT
Found at i:123759294 original size:10 final size:10
Alignment explanation
Indices: 123759279--123759311 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
123759269 AATTTTTTTA
123759279 TTTTTAAATT
1 TTTTTAAATT
123759289 TTTTT-AATT
1 TTTTTAAATT
123759298 TTTTTAGAATT
1 TTTTTA-AATT
123759309 TTT
1 TTT
123759312 ATAATATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 5 0.24
11 7 0.33
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:123759299 original size:16 final size:16
Alignment explanation
Indices: 123759269--123759299 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
123759259 AGAATTTAAT
*
123759269 AATTTTTTTATTTTTA
1 AATTTTTTTAATTTTA
123759285 AATTTTTTTAATTTT
1 AATTTTTTTAATTTT
123759300 TTTAGAATTT
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
AATTTTTTTAATTTTA
Found at i:123759308 original size:20 final size:19
Alignment explanation
Indices: 123759279--123759316 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
123759269 AATTTTTTTA
*
123759279 TTTTTAAATTTTTTTAATT
1 TTTTTAAATTTTTATAATT
123759298 TTTTTAGAATTTTTATAAT
1 TTTTTA-AATTTTTATAAT
123759317 ATTATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTTAAATTTTTATAATT
Found at i:123765146 original size:40 final size:39
Alignment explanation
Indices: 123765101--123765230 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
123765091 CGGAATATAA
123765101 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
123765141 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
123765181 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
123765221 CCGGATATAA
1 CCGGATATAA
123765231 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:123765245 original size:40 final size:40
Alignment explanation
Indices: 123765117--123765268 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
123765107 ATAACCATGT
* * *
123765117 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
123765157 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
123765197 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
123765237 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
123765269 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:123765251 original size:80 final size:80
Alignment explanation
Indices: 123765117--123765266 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
123765107 ATAACCATGT
*
123765117 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
123765181 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
123765197 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
123765260 CCCGGAT
64 CCCGGAT
123765267 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:123773150 original size:40 final size:39
Alignment explanation
Indices: 123773105--123773234 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
123773095 CGGAATATAA
123773105 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
123773145 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
123773185 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
123773225 CCGGATATAA
1 CCGGATATAA
123773235 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:123773249 original size:40 final size:40
Alignment explanation
Indices: 123773121--123773272 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
123773111 ATAACCATGT
* * *
123773121 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
123773161 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
123773201 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
123773241 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
123773273 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:123773255 original size:80 final size:80
Alignment explanation
Indices: 123773121--123773270 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
123773111 ATAACCATGT
*
123773121 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
123773185 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
123773201 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
123773264 CCCGGAT
64 CCCGGAT
123773271 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:123777173 original size:2 final size:2
Alignment explanation
Indices: 123777166--123777199 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
123777156 TTCGAGCCAA
123777166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
123777200 CAGGTTACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123780179 original size:28 final size:27
Alignment explanation
Indices: 123780147--123780273 Score: 143
Period size: 28 Copynumber: 4.6 Consensus size: 27
123780137 ATTTGATACC
123780147 GAGCACTAAGTGTGCGAAATCGGTCATT
1 GAGCACTAAGTGTGCGAAATCGGT-ATT
* * *
123780175 GAGCACTAAGTGTGC-AAGTTGGTTTT
1 GAGCACTAAGTGTGCGAAATCGGTATT
* *
123780201 AAGCACTAAGTGTGC-AAATTGG-ATTT
1 GAGCACTAAGTGTGCGAAATCGGTA-TT
123780227 CCGAGCACTAAGTGTGCGAAATCGGTTATT
1 --GAGCACTAAGTGTGCGAAATCGG-TATT
123780257 GAGCACTAAGTGTGCGA
1 GAGCACTAAGTGTGCGA
123780274 GAAAATTTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
26 24 0.28
27 6 0.07
28 46 0.54
29 6 0.07
30 2 0.02
31 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GAGCACTAAGTGTGCGAAATCGGTATT
Found at i:123780214 original size:54 final size:56
Alignment explanation
Indices: 123780148--123780273 Score: 154
Period size: 54 Copynumber: 2.3 Consensus size: 56
123780138 TTTGATACCG
* *
123780148 AGCACTAAGTGTGCGAAATCGG-TCATT-GAGCACTAAGTGTGC-AAGTTGGTT-TTA
1 AGCACTAAGTGTGCGAAATCGGAT--TTCGAGCACTAAGTGTGCGAAATCGGTTATTA
* *
123780202 AGCACTAAGTGTGC-AAATTGGATTTCCGAGCACTAAGTGTGCGAAATCGGTTATTG
1 AGCACTAAGTGTGCGAAATCGGATTT-CGAGCACTAAGTGTGCGAAATCGGTTATTA
123780258 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
123780274 GAAAATTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
52 2 0.03
53 6 0.10
54 30 0.48
55 7 0.11
56 16 0.26
57 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (56 bp):
AGCACTAAGTGTGCGAAATCGGATTTCGAGCACTAAGTGTGCGAAATCGGTTATTA
Found at i:123780249 original size:82 final size:81
Alignment explanation
Indices: 123780122--123780271 Score: 246
Period size: 82 Copynumber: 1.8 Consensus size: 81
123780112 TTTGAGAGAT
*
123780122 GCACTAAACGTGCAAATTTGATACCGAGCACTAAGTGTGCGAAATCGGTCATTGAGCACTAAGTG
1 GCACTAAACGTGCAAATTGGATACCGAGCACTAAGTGTGCGAAATCGGTCATTGAGCACTAAGTG
123780187 TGCAAGTTGGTTTTAA
66 TGCAAGTTGGTTTTAA
** * *
123780203 GCACTAAGTGTGCAAATTGGATTTCCGAGCACTAAGTGTGCGAAATCGGTTATTGAGCACTAAGT
1 GCACTAAACGTGCAAATTGGA-TACCGAGCACTAAGTGTGCGAAATCGGTCATTGAGCACTAAGT
123780268 GTGC
65 GTGC
123780272 GAGAAAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
81 18 0.29
82 45 0.71
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (81 bp):
GCACTAAACGTGCAAATTGGATACCGAGCACTAAGTGTGCGAAATCGGTCATTGAGCACTAAGTG
TGCAAGTTGGTTTTAA
Found at i:123784831 original size:8 final size:8
Alignment explanation
Indices: 123784818--123784855 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
123784808 CTTTGCCTAC
*
123784818 TTATTTTT
1 TTATTTTA
*
123784826 TTA-TTTG
1 TTATTTTA
123784833 TTATTTTA
1 TTATTTTA
123784841 TTATTTTA
1 TTATTTTA
123784849 TTATTTT
1 TTATTTT
123784856 CGGTACTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (8 bp):
TTATTTTA
Found at i:123800218 original size:40 final size:41
Alignment explanation
Indices: 123800167--123800268 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
123800157 GCAAAAATTG
* *
123800167 TAAAACACAGAGCAATAGCGGCGTTTTA-TGAAAAACGCCAC
1 TAAAA-ACAGAGCAATAGCGGCATTTTAGTAAAAAACGCCAC
*
123800208 TAAAAACAGAGCAATAGCCGCATTTTAGTAAAAAACGCCAC
1 TAAAAACAGAGCAATAGCGGCATTTTAGTAAAAAACGCCAC
*
123800249 TAAAAACAGAGCATTAGCGG
1 TAAAAACAGAGCAATAGCGG
123800269 TGCTTTTGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 20 0.36
41 35 0.64
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.17
Consensus pattern (41 bp):
TAAAAACAGAGCAATAGCGGCATTTTAGTAAAAAACGCCAC
Found at i:123800315 original size:41 final size:41
Alignment explanation
Indices: 123800239--123800456 Score: 339
Period size: 41 Copynumber: 5.3 Consensus size: 41
123800229 ATTTTAGTAA
* * * *
123800239 AAAACGCCACTAAA-AACAGAGCATTAGCGGTGCTTTTGGT
1 AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTGGT
123800279 AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTGGT
* *
123800320 AAAACGCCGCTAAAGACCCGAGCATTCGTGGCGCTTTTGGT
1 AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTGGT
* *
123800361 AAAACGCCGCTAAAGACCCGAGCATTCGTGGCGCTTTTGGT
1 AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTGGT
*
123800402 AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTAGT
1 AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTGGT
*
123800443 AAAACACCGCTAAA
1 AAAACGCCGCTAAA
123800457 AGTCATATAA
Statistics
Matches: 167, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
40 13 0.08
41 154 0.92
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTGGT
Found at i:123800885 original size:2 final size:2
Alignment explanation
Indices: 123800878--123800924 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
123800868 GTCCCTTGTA
123800878 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
123800920 AT AT A
1 AT AT A
123800925 GGGTTTATGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:123801442 original size:80 final size:82
Alignment explanation
Indices: 123801346--123801528 Score: 271
Period size: 81 Copynumber: 2.2 Consensus size: 82
123801336 CTGGCGTTTA
*
123801346 TTTAAAAAACGCCGCAAAAAACATAGCAG-TTAACAAAAACGGCGTCGTTTTAATTGGATATTTA
1 TTTAAAAAACGCCGCAAAAAACATAGCAGTTTAACAAAAACGGCATCGTTTTAATTGGATATTTA
*
123801410 GGAGAGTAGCGGCATTT
66 GGAGAGTACCGGCATTT
* *
123801427 TTTAAAAAA-GCCGCAAAAAACATAGCAGTTTAACGAAAACGGCATCGTTTTAATTGGATTTTTA
1 TTTAAAAAACGCCGCAAAAAACATAGCAGTTTAACAAAAACGGCATCGTTTTAATTGGATATTTA
* *
123801491 GGGGAGTACCGGCGTTT
66 GGAGAGTACCGGCATTT
* *
123801508 TTAAAAAAAACGCCACAAAAA
1 TT-TAAAAAACGCCGCAAAAA
123801529 GAAAAAAAGT
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
80 19 0.21
81 57 0.63
82 6 0.07
83 9 0.10
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (82 bp):
TTTAAAAAACGCCGCAAAAAACATAGCAGTTTAACAAAAACGGCATCGTTTTAATTGGATATTTA
GGAGAGTACCGGCATTT
Found at i:123802405 original size:14 final size:14
Alignment explanation
Indices: 123802386--123802419 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
123802376 TGGCATTTTT
123802386 AAAAAAAACGCCGC
1 AAAAAAAACGCCGC
123802400 AAAAAAAACGCCGC
1 AAAAAAAACGCCGC
123802414 AAAAAA
1 AAAAAA
123802420 CATAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.65, C:0.24, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAAACGCCGC
Found at i:123806935 original size:21 final size:21
Alignment explanation
Indices: 123806909--123806956 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
123806899 TCAACTTAGA
*
123806909 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
123806930 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
123806951 GCGGAG
1 GCGGAG
123806957 CAGAACAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.58, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:123807349 original size:43 final size:43
Alignment explanation
Indices: 123807250--123807380 Score: 230
Period size: 43 Copynumber: 3.1 Consensus size: 43
123807240 ACTGGGCAAA
*
123807250 TTAGCGGCGTTTTTTCTAAAAGCGCCGCTAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTTTAAAAGCGCCGCTAAAAGTCCTGGTCT
*
123807293 TTAGCGGCG-TTTTTTT-AAAGCACCGCTAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTTTAAAAGCGCCGCTAAAAGTCCTGGTCT
123807334 TTAGCGGCGTTTTTTTTAAAAGCGCCGCTAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTTTAAAAGCGCCGCTAAAAGTCCTGGTCT
123807377 TTAG
1 TTAG
123807381 AAGCGCTTTT
Statistics
Matches: 83, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
41 33 0.40
42 13 0.16
43 37 0.45
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTTTAAAAGCGCCGCTAAAAGTCCTGGTCT
Found at i:123808513 original size:60 final size:59
Alignment explanation
Indices: 123808389--123808528 Score: 149
Period size: 60 Copynumber: 2.3 Consensus size: 59
123808379 CAGTGTTAAC
* * * *
123808389 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATTT
1 TGGGCC-TAGCCCATATTAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATAT
* *
123808450 TGGGCCTAGCCCATATTAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATTAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATAT
* *
123808510 TGGGCCTTGGCCATATTAA
1 TGGGCCTAGCCCATATTAA
123808529 CACAGTTGGG
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
59 4 0.06
60 52 0.78
61 11 0.16
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (59 bp):
TGGGCCTAGCCCATATTAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:123810918 original size:3 final size:3
Alignment explanation
Indices: 123810910--123810964 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
123810900 ATTTAATTAC
123810910 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
123810958 TAA TAA T
1 TAA TAA T
123810965 TTCATAAACA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:123813260 original size:60 final size:59
Alignment explanation
Indices: 123813136--123813275 Score: 140
Period size: 60 Copynumber: 2.3 Consensus size: 59
123813126 CAGTGTTACC
* * * * *
123813136 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATATCCCCTTACAGTATCAGAGTATTT
1 TGGGCC-TAGCCCATATTAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATAT
* *
123813197 TGGGCCTAGCCCATATTAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATTAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATAT
* *
123813257 TGGGCCTTGGCCATATTAA
1 TGGGCCTAGCCCATATTAA
123813276 CACAGTTGGG
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
59 4 0.06
60 51 0.77
61 11 0.17
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (59 bp):
TGGGCCTAGCCCATATTAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:123813319 original size:19 final size:20
Alignment explanation
Indices: 123813277--123813319 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
123813267 CCATATTAAC
** *
123813277 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
123813297 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
123813316 ACAG
1 ACAG
123813320 CCTCATAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:123815658 original size:3 final size:3
Alignment explanation
Indices: 123815650--123815704 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
123815640 ATTTAATTAC
123815650 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
123815698 TAA TAA T
1 TAA TAA T
123815705 TTCATAAACA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:123821445 original size:16 final size:16
Alignment explanation
Indices: 123821424--123821457 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
123821414 CTATATATGC
*
123821424 AAAATATAAAAGACAT
1 AAAATACAAAAGACAT
123821440 AAAATACAAAAGACAT
1 AAAATACAAAAGACAT
123821456 AA
1 AA
123821458 TAATGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.15
Consensus pattern (16 bp):
AAAATACAAAAGACAT
Found at i:123823707 original size:2 final size:2
Alignment explanation
Indices: 123823702--123823736 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
123823692 TATACATATA
123823702 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
123823737 AAAACATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:123826977 original size:5 final size:5
Alignment explanation
Indices: 123826967--123826993 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
123826957 TGTTTTTTTA
123826967 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
123826994 CATAAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:123842714 original size:2 final size:2
Alignment explanation
Indices: 123842707--123842746 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
123842697 TGTTTCAAAC
123842707 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
123842747 GGTTAAGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123853333 original size:20 final size:20
Alignment explanation
Indices: 123853308--123853360 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
123853298 TATTTTGTAA
123853308 AAAGTATAGATACT-TGGTGC
1 AAAGTATAGATACTCT-GTGC
*
123853328 AAAGTATCGATACTCTGTGC
1 AAAGTATAGATACTCTGTGC
123853348 AAAGTATAGATAC
1 AAAGTATAGATAC
123853361 CTTGACCTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (20 bp):
AAAGTATAGATACTCTGTGC
Found at i:123857146 original size:30 final size:30
Alignment explanation
Indices: 123857112--123857168 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
123857102 AGGCACTTCT
123857112 ACACGGGT-GATCCACACGCCCGTGTGTGAC
1 ACACGGGTAGA-CCACACGCCCGTGTGTGAC
*
123857142 ACACGGGTAGACTACACGCCCGTGTGT
1 ACACGGGTAGACCACACGCCCGTGTGT
123857169 CATGCCCGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.21, C:0.32, G:0.30, T:0.18
Consensus pattern (30 bp):
ACACGGGTAGACCACACGCCCGTGTGTGAC
Found at i:123860752 original size:29 final size:29
Alignment explanation
Indices: 123860720--123860821 Score: 204
Period size: 29 Copynumber: 3.5 Consensus size: 29
123860710 CTTCGAGCTC
123860720 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
123860749 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
123860778 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
123860807 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
123860822 ATCTCGTCAC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:123860754 original size:58 final size:58
Alignment explanation
Indices: 123860692--123860821 Score: 199
Period size: 58 Copynumber: 2.2 Consensus size: 58
123860682 TTTAAGCCCA
* * *
123860692 CACACATAGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATG
1 CACACTTAGTGCCATACACTTCCAGCAT-GCACACTTAGTGCCATATATTTCCAGCATG
* *
123860750 CACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCATG
1 CACACTTAGTGCCATACACTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCATG
123860808 CACACTTAGTGCCA
1 CACACTTAGTGCCA
123860822 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
58 65 0.98
59 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.28
Consensus pattern (58 bp):
CACACTTAGTGCCATACACTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCATG
Found at i:123868372 original size:2 final size:2
Alignment explanation
Indices: 123868365--123868393 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
123868355 TTCGATCGAG
123868365 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
123868394 GAGTACGCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:123868461 original size:29 final size:29
Alignment explanation
Indices: 123868427--123868558 Score: 97
Period size: 29 Copynumber: 4.6 Consensus size: 29
123868417 TACTCGATTT
* * *
123868427 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
123868456 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
123868485 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
123868514 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
123868543 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
123868559 ATCTCGTCAC
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:123868519 original size:58 final size:59
Alignment explanation
Indices: 123868426--123868558 Score: 146
Period size: 58 Copynumber: 2.3 Consensus size: 59
123868416 ATACTCGATT
* * * *
123868426 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACATAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATACACTTCCAGCA
* * * * * *
123868484 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACATAGTGCCATACACTTCCAGCA
123868543 T-GCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
123868559 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 4 0.06
58 58 0.92
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATACACTTCCAGCA
Found at i:123887593 original size:39 final size:39
Alignment explanation
Indices: 123887539--123887618 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
123887529 ATTTACAAAC
123887539 CCATTTTACCAATTTAGGTCTTCGGATAGTGTGAACGAG
1 CCATTTTACCAATTTAGGTCTTCGGATAGTGTGAACGAG
123887578 CCATTTTACCAATTTAGGTCTTCGGATAGTGTGAACGAG
1 CCATTTTACCAATTTAGGTCTTCGGATAGTGTGAACGAG
123887617 CC
1 CC
123887619 TTCGACCTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (39 bp):
CCATTTTACCAATTTAGGTCTTCGGATAGTGTGAACGAG
Found at i:123907163 original size:13 final size:13
Alignment explanation
Indices: 123907145--123907182 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
123907135 GACCTGCCCG
*
123907145 TATTATTTTTTTA
1 TATTATTTTTTAA
123907158 TATTA-TTTTTAA
1 TATTATTTTTTAA
*
123907170 TATAATTTTTTAA
1 TATTATTTTTTAA
123907183 AAAAAACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTATTTTTTAA
Found at i:123907373 original size:11 final size:11
Alignment explanation
Indices: 123907357--123907382 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
123907347 AGAGTTATAC
123907357 AATATCCAAAT
1 AATATCCAAAT
123907368 AATATCCAAAT
1 AATATCCAAAT
123907379 AATA
1 AATA
123907383 ACAACAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (11 bp):
AATATCCAAAT
Found at i:123907464 original size:21 final size:21
Alignment explanation
Indices: 123907440--123907479 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
123907430 AAAAAACAAG
123907440 AAAATAGCAACAAAATAGTAA
1 AAAATAGCAACAAAATAGTAA
* *
123907461 AAAATAGCTAGAAAATAGT
1 AAAATAGCAACAAAATAGT
123907480 TTTTTTTTTT
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:0.62, C:0.07, G:0.12, T:0.17
Consensus pattern (21 bp):
AAAATAGCAACAAAATAGTAA
Found at i:123911766 original size:27 final size:28
Alignment explanation
Indices: 123911690--123911770 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
123911680 GGAATTGAGT
*
123911690 TGAATCAAGTATAACACACATAAAGCAC
1 TGAATCAAATATAACACACATAAAGCAC
* *
123911718 TGAATCAAATATAATACACATAAAGCAT
1 TGAATCAAATATAACACACATAAAGCAC
* * *
123911746 TGGATC-CATATAACACGCATAAAGC
1 TGAATCAAATATAACACACATAAAGC
123911771 GTTAGATCTC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 16 0.35
28 30 0.65
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.21
Consensus pattern (28 bp):
TGAATCAAATATAACACACATAAAGCAC
Found at i:123911778 original size:27 final size:27
Alignment explanation
Indices: 123911699--123911778 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
123911689 TTGAATCAAG
* *
123911699 TATAACACACATAAAGCACT-GAATCAAA
1 TATAACACACATAAAGCATTAG-ATC-CA
* *
123911727 TATAATACACATAAAGCATTGGATCCA
1 TATAACACACATAAAGCATTAGATCCA
* *
123911754 TATAACACGCATAAAGCGTTAGATC
1 TATAACACACATAAAGCATTAGATC
123911779 TCCCTCCTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 22 0.50
28 21 0.48
29 1 0.02
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (27 bp):
TATAACACACATAAAGCATTAGATCCA
Found at i:123914808 original size:15 final size:17
Alignment explanation
Indices: 123914788--123914827 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
123914778 CAAATATAAA
123914788 AAAATTATT-ATAA-TT
1 AAAATTATTCATAATTT
123914803 AAAATT-TTCATAATTT
1 AAAATTATTCATAATTT
123914819 AAAATTATT
1 AAAATTATT
123914828 TAAATCTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 10 0.45
16 8 0.36
17 2 0.09
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATTATTCATAATTT
Found at i:123919591 original size:2 final size:2
Alignment explanation
Indices: 123919584--123919621 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
123919574 TTAAAATGCT
*
123919584 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
123919622 ACTTGATAAA
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:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:123920193 original size:13 final size:14
Alignment explanation
Indices: 123920175--123920204 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
123920165 GGCTACATTG
123920175 TTTC-TTTCTTTTT
1 TTTCTTTTCTTTTT
123920188 TTTCTTTTCTTTTT
1 TTTCTTTTCTTTTT
123920202 TTT
1 TTT
123920205 ATGGTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTCTTTTCTTTTT
Found at i:123924397 original size:10 final size:10
Alignment explanation
Indices: 123924382--123924413 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
123924372 TAAATACATT
123924382 TAATTAAAGA
1 TAATTAAAGA
123924392 TAATTAAAGA
1 TAATTAAAGA
123924402 TAATTAAA-A
1 TAATTAAAGA
123924411 TAA
1 TAA
123924414 AATCTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:123924439 original size:27 final size:26
Alignment explanation
Indices: 123924409--123924471 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
123924399 AGATAATTAA
123924409 AATAAAATCTTAAAATTAAATAATCCT
1 AATAAAATCTTAAAATT-AATAATCCT
* * *
123924436 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCTTAAAATTAATAATCCT
123924463 AATATAAAT
1 AATA-AAAT
123924472 AAAATGGAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 19 0.63
28 11 0.37
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.40
Consensus pattern (26 bp):
AATAAAATCTTAAAATTAATAATCCT
Found at i:123924458 original size:15 final size:15
Alignment explanation
Indices: 123924438--123924467 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
123924428 ATAATCCTAA
*
123924438 TAATTATCTTAATAT
1 TAATTATCCTAATAT
123924453 TAATTATCCTAATAT
1 TAATTATCCTAATAT
123924468 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:123925881 original size:41 final size:41
Alignment explanation
Indices: 123925836--123925920 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
123925826 TTAAAACACA
*
123925836 TAGTCCTCGATGTGGAATAAATAAAATAGGAGAAAAAGGTG
1 TAGTCCTCGATATGGAATAAATAAAATAGGAGAAAAAGGTG
123925877 TAGTCCTCGATATGGAATAAATAAAATAGGAGAAAAAGGTG
1 TAGTCCTCGATATGGAATAAATAAAATAGGAGAAAAAGGTG
123925918 TAG
1 TAG
123925921 AGGAACTCCC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.45, C:0.07, G:0.26, T:0.22
Consensus pattern (41 bp):
TAGTCCTCGATATGGAATAAATAAAATAGGAGAAAAAGGTG
Found at i:123926099 original size:5 final size:5
Alignment explanation
Indices: 123926089--123926161 Score: 80
Period size: 5 Copynumber: 14.4 Consensus size: 5
123926079 TTAATATCTG
*
123926089 AATAA AATAA AAT-- AATAA GATAA AAT-A AATAAA AATAAA AATAAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AAT-AA AAT-AA
123926134 AATAA AATAA AATAA AATAAA AATAA AA
1 AATAA AATAA AATAA AAT-AA AATAA AA
123926162 ATTGGGTTAC
Statistics
Matches: 61, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
3 3 0.05
4 4 0.07
5 33 0.54
6 21 0.34
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:123926119 original size:27 final size:26
Alignment explanation
Indices: 123926089--123926163 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 26
123926079 TTAATATCTG
123926089 AATAAAATAAAATAATAAGATAAAAT-A
1 AATAAAATAAAATAA-AA-ATAAAATAA
123926116 AATAAAAATAAAAATAAAAATAAAATAA
1 AAT-AAAAT-AAAATAAAAATAAAATAA
123926144 AATAAAATAAAAATAAAAAT
1 AATAAAAT-AAAATAAAAAT
123926164 TGGGTTACCT
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
27 27 0.60
28 11 0.24
29 7 0.16
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.20
Consensus pattern (26 bp):
AATAAAATAAAATAAAAATAAAATAA
Found at i:123926126 original size:6 final size:6
Alignment explanation
Indices: 123926115--123926163 Score: 77
Period size: 6 Copynumber: 8.7 Consensus size: 6
123926105 AAGATAAAAT
123926115 AAATAA AAATAA AAATAA AAAT-A AAAT-A AAAT-A AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
123926160 AAAT
1 AAAT
123926164 TGGGTTACCT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 15 0.36
6 27 0.64
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:123929881 original size:20 final size:20
Alignment explanation
Indices: 123929843--123929890 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
123929833 TAAATTCTAA
* **
123929843 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
123929863 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
123929883 AAA-ATAAA
1 AAAGATAAA
123929891 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:123929915 original size:27 final size:26
Alignment explanation
Indices: 123929885--123929947 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
123929875 AGATAATTAA
123929885 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
123929912 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
123929939 AATATAAAT
1 AATA-AAAT
123929948 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:123929934 original size:15 final size:15
Alignment explanation
Indices: 123929914--123929943 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
123929904 ATAATCCTAA
*
123929914 TAATTATCTTAATAT
1 TAATTATCCTAATAT
123929929 TAATTATCCTAATAT
1 TAATTATCCTAATAT
123929944 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:123933781 original size:30 final size:30
Alignment explanation
Indices: 123933689--123933758 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
123933679 GGTGAATTAA
123933689 GTTGCTCACACAAGCTAACATTATATCAAG
1 GTTGCTCACACAAGCTAACATTATATCAAG
123933719 GTTGCTCACACAAGCTAACATTATATCAAG
1 GTTGCTCACACAAGCTAACATTATATCAAG
123933749 GTTGCTCACA
1 GTTGCTCACA
123933759 TAACCTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (30 bp):
GTTGCTCACACAAGCTAACATTATATCAAG
Found at i:123934337 original size:21 final size:19
Alignment explanation
Indices: 123934301--123934341 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
123934291 TTTTACTTTG
*
123934301 ATATTAAATCATGCAATTA
1 ATATTAAATCAAGCAATTA
123934320 ATATATAAATGCAAGCAATTA
1 ATAT-TAAAT-CAAGCAATTA
123934341 A
1 A
123934342 ATTTATCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
21 10 0.53
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (19 bp):
ATATTAAATCAAGCAATTA
Found at i:123937163 original size:32 final size:34
Alignment explanation
Indices: 123937127--123937191 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
123937117 TAACAGTGGT
*
123937127 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
123937159 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
123937192 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:123939070 original size:26 final size:26
Alignment explanation
Indices: 123939034--123939169 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
123939024 CATGATATTC
123939034 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
123939060 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
123939086 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
123939112 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
123939138 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
123939164 TTATCA
1 TTATCA
123939170 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:123951167 original size:14 final size:15
Alignment explanation
Indices: 123951148--123951179 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
123951138 TTCTTTCAAC
123951148 TTTTTTTC-TTCTTT
1 TTTTTTTCATTCTTT
123951162 TTTTTTTCATTCTTT
1 TTTTTTTCATTCTTT
123951177 TTT
1 TTT
123951180 GCTTCTCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTCATTCTTT
Found at i:123951169 original size:25 final size:27
Alignment explanation
Indices: 123951123--123951185 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
123951113 AGCAATTTAA
123951123 TTTTTTTCTT-TTATGTTCTTTCA-AC
1 TTTTTTTCTTCTTATGTTCTTTCATAC
* * *
123951148 TTTTTTTCTTCTT-TTTTTTTTCATTC
1 TTTTTTTCTTCTTATGTTCTTTCATAC
*
123951174 TTTTTTGCTTCT
1 TTTTTTTCTTCT
123951186 CCCTTTGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 18 0.56
26 14 0.44
ACGTcount: A:0.06, C:0.16, G:0.03, T:0.75
Consensus pattern (27 bp):
TTTTTTTCTTCTTATGTTCTTTCATAC
Found at i:123958958 original size:14 final size:13
Alignment explanation
Indices: 123958939--123959000 Score: 56
Period size: 14 Copynumber: 4.8 Consensus size: 13
123958929 AAAATTTTAA
123958939 AAATATAATAAAT
1 AAATATAATAAAT
* *
123958952 CAAATATATTTAA-
1 -AAATATAATAAAT
123958965 AAATATAA-AAAT
1 AAATATAATAAAT
*
123958977 AAATATTAAAAAAT
1 AAATA-TAATAAAT
*
123958991 AAAAATAATA
1 AAATATAATA
123959001 CTAAAGCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
11 2 0.05
12 12 0.31
13 7 0.18
14 18 0.46
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATATAATAAAT
Found at i:123958965 original size:26 final size:24
Alignment explanation
Indices: 123958924--123958998 Score: 88
Period size: 26 Copynumber: 3.2 Consensus size: 24
123958914 TTATTTCATT
*
123958924 AAATAAAAAT-TTTAAAAATATAA
1 AAATAAATATATTTAAAAATATAA
123958947 TAAATCAAATATATTTAAAAATATAA
1 -AAAT-AAATATATTTAAAAATATAA
123958973 AAAT-AA-ATA-TTAAAAA-ATAA
1 AAATAAATATATTTAAAAATATAA
123958993 AAATAA
1 AAATAA
123958999 TACTAAAGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
20 8 0.17
21 8 0.17
22 3 0.06
23 2 0.04
24 4 0.09
25 9 0.19
26 13 0.28
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (24 bp):
AAATAAATATATTTAAAAATATAA
Found at i:123977354 original size:40 final size:40
Alignment explanation
Indices: 123977297--123977401 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
123977287 ATTGAATGAT
* * * * *
123977297 ATCCGGACTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTAC
* * * **
123977337 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTAC
*
123977377 ATCCGGGCTAAGACCCAAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
123977402 CGTGCACGTG
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTAC
Found at i:123985376 original size:40 final size:40
Alignment explanation
Indices: 123985252--123985377 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 40
123985242 AAATTGAATG
* * * ***
123985252 ATATCCGGGCTAAG-CCCGAAGAC-ATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
* *
123985290 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
*
123985330 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTGGTT
123985370 ATATCCGG
1 ATATCCGG
123985378 TTGTATTCCG
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
38 13 0.18
39 12 0.17
40 47 0.65
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
Found at i:123994224 original size:118 final size:118
Alignment explanation
Indices: 123994008--123994224 Score: 299
Period size: 118 Copynumber: 1.8 Consensus size: 118
123993998 GAATTATGTG
** * * * * *
123994008 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGGATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATTGAATGATACCCGG
* * * **
123994073 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATGTTTGAGCCTTAGTAACGA
66 GCTAAGCCCCGAAGACAATTATGCTAGAAATTATGTTTGAGCCTTAGTAACGA
* *
123994126 AAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATTGAATGATATCCGG
1 AAATGAAATATGGATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATTGAATGATACCCGG
*
123994191 GCTAAGCCCCGAAGACAATTATGCTGGAAATTAT
66 GCTAAGCCCCGAAGACAATTATGCTAGAAATTAT
123994225 ATCCGGGTTA
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
118 84 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (118 bp):
AAATGAAATATGGATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATTGAATGATACCCGG
GCTAAGCCCCGAAGACAATTATGCTAGAAATTATGTTTGAGCCTTAGTAACGA
Found at i:123994309 original size:40 final size:40
Alignment explanation
Indices: 123994183--123994310 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
123994173 AAATTGAATG
* * * * ***
123994183 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
* *
123994223 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
*
123994263 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTGGTT
123994303 ATATCCGG
1 ATATCCGG
123994311 TTGTATTCCG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
39 4 0.05
40 69 0.95
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
Found at i:124002255 original size:40 final size:40
Alignment explanation
Indices: 124002131--124002256 Score: 127
Period size: 40 Copynumber: 3.2 Consensus size: 40
124002121 CAATTGAATG
* * * *
124002131 ATATCCGGGCTAAGTCCCGAAGAC-ATTATGCT-G-GAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-GTT
* *
124002169 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
*
124002209 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTGGTT
124002249 ATATCCGG
1 ATATCCGG
124002257 TTGTATTCCG
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
38 21 0.29
39 11 0.15
40 40 0.55
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
Found at i:124015111 original size:2 final size:2
Alignment explanation
Indices: 124015104--124015137 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
124015094 TTTGGAAGTG
*
124015104 TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
124015138 CATAAGTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:124015672 original size:27 final size:28
Alignment explanation
Indices: 124015616--124015685 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
124015606 AAATTTGTAC
*
124015616 AGCACTAAGTGTGCAAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
124015644 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
124015671 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
124015686 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 25 0.61
28 16 0.39
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:124015696 original size:27 final size:27
Alignment explanation
Indices: 124015616--124015697 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
124015606 AAATTTGTAC
* * * *
124015616 AGCACTAAGTGTGCAAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
* * *
124015644 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
124015671 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
124015698 GTTTTTGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.02
27 32 0.65
28 16 0.33
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:124033632 original size:30 final size:30
Alignment explanation
Indices: 124033556--124033638 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 30
124033546 TTAGTCTCGA
124033556 CATAT-ACTGGTCCGAAGCCTTTTCATAAAT
1 CATATAACTGG-CCGAAGCCTTTTCATAAAT
124033586 CATATAACTGGGCCGAAGCCTTTTCATAAAT
1 CATATAACT-GGCCGAAGCCTTTTCATAAAT
**
124033617 CATATCCCTGGCCGAAGCCTTT
1 CATATAACTGGCCGAAGCCTTT
124033639 ACTGTAAGCG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
30 18 0.37
31 29 0.59
32 2 0.04
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
CATATAACTGGCCGAAGCCTTTTCATAAAT
Found at i:124033896 original size:25 final size:25
Alignment explanation
Indices: 124033859--124033928 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
124033849 CTCTTTTAAT
*
124033859 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
124033884 AATTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
124033909 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
124033929 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:124034781 original size:27 final size:27
Alignment explanation
Indices: 124034718--124034795 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
124034708 GGACATATTC
*
124034718 GTCATTTTACCGTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
**
124034745 GTCACATTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCCTACAGGGG-TATTACG
* *
124034772 GTCTTTTTA-CCTATTAGGGGTATT
1 GTCATTTTACCCTA-CAGGGGTATT
124034796 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 5 0.12
27 35 0.85
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:124034866 original size:27 final size:27
Alignment explanation
Indices: 124034836--124034933 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
124034826 GTAAATCTAC
*
124034836 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCTATAATTTTGT
**
124034863 AAACCAATAGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* * * *
124034889 AGAAAGTCAATGGTATTTCTGTAATTTCGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
*
124034919 AAATCAAGGGTATTT
1 AAACCAAGGGTATTT
124034934 TGGTAATTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 33 0.56
28 6 0.10
29 18 0.31
30 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:124034939 original size:27 final size:27
Alignment explanation
Indices: 124034895--124035022 Score: 118
Period size: 27 Copynumber: 4.7 Consensus size: 27
124034885 TTTTAGAAAG
* **
124034895 TCAATGGTATTTCT-GTAATTTCGTAAA
1 TCAAGGGTATTT-TGGTAATTTCACAAA
*
124034922 TCAAGGGTATTTTGGTAATTTTACAAA
1 TCAAGGGTATTTTGGTAATTTCACAAA
** *
124034949 TTGAGGGTATTTCGGTAATTTCACAAA
1 TCAAGGGTATTTTGGTAATTTCACAAA
* *
124034976 -CCAGTGGTATTTTGGTAATTTTACAAA
1 TCAAG-GGTATTTTGGTAATTTCACAAA
*
124035003 -CTAGGGGTATTTTGGTAATT
1 TC-AAGGGTATTTTGGTAATT
124035023 CTACCCTATA
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.04
27 80 0.95
28 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
TCAAGGGTATTTTGGTAATTTCACAAA
Found at i:124034985 original size:54 final size:54
Alignment explanation
Indices: 124034900--124035022 Score: 160
Period size: 54 Copynumber: 2.3 Consensus size: 54
124034890 GAAAGTCAAT
* ** *
124034900 GGTATTTCTGTAATTTCGTAAATCAAGGGTATTTTGGTAATTTTACAAA-TTGAG
1 GGTATTTCGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACTAG-G
*
124034954 GGTATTTCGGTAATTTCACAAA-CCAGTGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTCGGTAATTTCACAAATCAAG-GGTATTTTGGTAATTTTACAAACTAGG
*
124035008 GGTATTTTGGTAATT
1 GGTATTTCGGTAATT
124035023 CTACCCTATA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 3 0.05
54 56 0.92
55 2 0.03
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
GGTATTTCGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACTAGG
Found at i:124035086 original size:27 final size:27
Alignment explanation
Indices: 124035044--124035143 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
124035034 GGGTATTTCA
*
124035044 GTAATTTCATAA-TCGAGGGTAAAATG
1 GTAATTTTATAAGTCGAGGGTAAAATG
* *
124035070 GTAATTTTGTAAGTCGAGGGTAAAATA
1 GTAATTTTATAAGTCGAGGGTAAAATG
* * * ***
124035097 GTGATTCTATAAATCGAGGGTACTTTG
1 GTAATTTTATAAGTCGAGGGTAAAATG
124035124 GTAATTTTATAAGTCGAGGG
1 GTAATTTTATAAGTCGAGGG
124035144 CATTTCTGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
26 10 0.17
27 49 0.83
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.34
Consensus pattern (27 bp):
GTAATTTTATAAGTCGAGGGTAAAATG
Found at i:124046525 original size:72 final size:72
Alignment explanation
Indices: 124046446--124046586 Score: 273
Period size: 72 Copynumber: 2.0 Consensus size: 72
124046436 ATGGGTTAGG
124046446 GACACGGGAGTGCGTGACCACACGGCCTGTCCACATGGGCGTGTGACCCCTGTTTATAGCAAAAA
1 GACACGGGAGTGCGTGACCACACGGCCTGTCCACATGGGCGTGTGACCCCTGTTTATAGCAAAAA
124046511 ATTTTCT
66 ATTTTCT
*
124046518 GACACGGGCGTGCGTGACCACACGGCCTGTCCACATGGGCGTGTGACCCCTGTTTATAGCAAAAA
1 GACACGGGAGTGCGTGACCACACGGCCTGTCCACATGGGCGTGTGACCCCTGTTTATAGCAAAAA
124046583 ATTT
66 ATTT
124046587 CTAAGTTTTG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Consensus pattern (72 bp):
GACACGGGAGTGCGTGACCACACGGCCTGTCCACATGGGCGTGTGACCCCTGTTTATAGCAAAAA
ATTTTCT
Found at i:124069859 original size:24 final size:23
Alignment explanation
Indices: 124069832--124069882 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
124069822 TAATGAAATT
*
124069832 TAAAGTGTAAAATTTTAAAA-AAAA
1 TAAAGGGTAAAA--TTAAAATAAAA
*
124069856 TAAAGGGTCAAATTAAAATAAAA
1 TAAAGGGTAAAATTAAAATAAAA
124069879 TAAA
1 TAAA
124069883 ATAAACAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 8 0.33
24 10 0.42
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (23 bp):
TAAAGGGTAAAATTAAAATAAAA
Found at i:124071148 original size:16 final size:17
Alignment explanation
Indices: 124071116--124071156 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
124071106 TTTTTATAAA
124071116 TATAAATATTATTATGT
1 TATAAATATTATTATGT
124071133 TATAAATATT-TTATGT
1 TATAAATATTATTATGT
*
124071149 TACAAATA
1 TATAAATA
124071157 GGCGAATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (17 bp):
TATAAATATTATTATGT
Found at i:124073789 original size:15 final size:15
Alignment explanation
Indices: 124073769--124073801 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
124073759 GCATTTTCAT
124073769 ACAACCAAAACATCC
1 ACAACCAAAACATCC
*
124073784 ACAACCAAGACATCC
1 ACAACCAAAACATCC
124073799 ACA
1 ACA
124073802 CATCATTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.39, G:0.03, T:0.06
Consensus pattern (15 bp):
ACAACCAAAACATCC
Found at i:124084034 original size:35 final size:35
Alignment explanation
Indices: 124083995--124084065 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
124083985 TTGAAAAAAA
*
124083995 TTCCTAAATACATCCAATATTTAAAAGAAATCATG
1 TTCCTAAATACATCAAATATTTAAAAGAAATCATG
124084030 TTCCTAAATACATCAAATATTTAAAAGAAATCATG
1 TTCCTAAATACATCAAATATTTAAAAGAAATCATG
124084065 T
1 T
124084066 CTTGGCGTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.32
Consensus pattern (35 bp):
TTCCTAAATACATCAAATATTTAAAAGAAATCATG
Found at i:124087918 original size:30 final size:29
Alignment explanation
Indices: 124087868--124087928 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
124087858 TTTGCAATTT
*
124087868 CATTTTATTTTAATATAATTTGGCCCTAA
1 CATTTTATTTTAATATAATTTAGCCCTAA
* *
124087897 CATTTTGATTTT-ATTTCAATTTAGTCCTAA
1 CATTTT-ATTTTAATAT-AATTTAGCCCTAA
124087927 CA
1 CA
124087929 GCTCCTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.49
Consensus pattern (29 bp):
CATTTTATTTTAATATAATTTAGCCCTAA
Found at i:124088234 original size:34 final size:36
Alignment explanation
Indices: 124088188--124088317 Score: 135
Period size: 34 Copynumber: 3.6 Consensus size: 36
124088178 TTCAAGTATA
*
124088188 TTTATATATTATAT-TATTTATTAATA-TATATTAT
1 TTTATATTTTATATATATTTATTAATATTATATTAT
124088222 TTTATATTTTATAT-TA-TTA-TATATATTATATTAT
1 TTTATATTTTATATATATTTATTA-ATATTATATTAT
* * * *
124088256 CTTATGTTTTAATATACATTATATATTATATTATATTAT
1 TTTATATTTT-ATATATATT-TAT-TAATATTATATTAT
124088295 TTTATATTTTATCATATATTTAT
1 TTTATATTTTAT-ATATATTTAT
124088318 ATCTTATTAC
Statistics
Matches: 79, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
32 2 0.03
33 6 0.08
34 31 0.39
35 4 0.05
36 1 0.01
37 1 0.01
38 7 0.09
39 26 0.33
40 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (36 bp):
TTTATATTTTATATATATTTATTAATATTATATTAT
Found at i:124088306 original size:17 final size:17
Alignment explanation
Indices: 124088188--124088324 Score: 98
Period size: 17 Copynumber: 7.7 Consensus size: 17
124088178 TTCAAGTATA
*
124088188 TTTATATATTATATTA-
1 TTTATATTTTATATTAT
* *
124088204 TTTATTAATATATATTAT
1 TTTA-TATTTTATATTAT
124088222 TTTATATTTTATATTAT
1 TTTATATTTTATATTAT
* *
124088239 TATATATATTATATTAT
1 TTTATATTTTATATTAT
* * *
124088256 CTTATGTTTTAATATACAT
1 TTTATATTTT-ATAT-TAT
*
124088275 TATATATTATATTATATTAT
1 T-T-TA-TATTTTATATTAT
124088295 TTTATATTTTATCA-TAT
1 TTTATATTTTAT-ATTAT
*
124088312 ATTTATATCTTAT
1 -TTTATATTTTAT
124088325 TACATATTAT
Statistics
Matches: 94, Mismatches: 18, Indels: 16
0.73 0.14 0.12
Matches are distributed among these distances:
16 4 0.04
17 51 0.54
18 22 0.23
19 3 0.03
20 4 0.04
21 6 0.06
22 4 0.04
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (17 bp):
TTTATATTTTATATTAT
Found at i:124088469 original size:17 final size:17
Alignment explanation
Indices: 124088444--124088492 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
124088434 TATTCTTTTA
* *
124088444 TATTTTATATGTTATTT
1 TATTATATATATTATTT
*
124088461 TATTATATATATTATAT
1 TATTATATATATTATTT
124088478 TATTA-ATATATTATT
1 TATTATATATATTATT
124088493 ACACTATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATTATATATATTATTT
Found at i:124100640 original size:44 final size:44
Alignment explanation
Indices: 124100592--124101020 Score: 637
Period size: 44 Copynumber: 9.8 Consensus size: 44
124100582 TGTTTATAAT
*
124100592 GAGCAGATCGAAGATAGCAGATTTGGCGTCTTTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* * *
124100636 GAGCAGATCGAAGATAGTAGATTTGGCATCTCTGCATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* *
124100680 GAGTAGATCGAAGA-CG-ACGAATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCA-G-ATTTGGCGTCTCTGTATTGTCAGA
*
124100724 GAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
*
124100768 GAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
*
124100812 GAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* * * * *
124100856 GAGCAGATTGAAGATAACGGATTTGGCATCTCTGTATTGACAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* *
124100900 GAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTCAAA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* * *
124100944 GAGCAAATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAAA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* *
124100988 AAGCAGATCGAAGATAGCATATTTGGCGTCTCT
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCT
124101021 CAAGGACATC
Statistics
Matches: 349, Mismatches: 32, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 343 0.98
45 2 0.01
46 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (44 bp):
GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
Found at i:124102535 original size:5 final size:5
Alignment explanation
Indices: 124102517--124102653 Score: 80
Period size: 5 Copynumber: 29.0 Consensus size: 5
124102507 TATTTTCAAG
* *
124102517 TATAT T-TA- TATAT TATAT TAT-T TAT-T AATA- TATAT TATTT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * * *
124102562 T-T-T TATAT TATTAT ATATAT TATAT TATCT TATGT TTTAA TATA- CAT-T
1 TATAT TATAT TA-TAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * *
124102610 ATATAT TATAT TATAT TATTT TATAT TTTAT CATA- TAT-T TATAT
1 -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
124102654 CTTATTACAT
Statistics
Matches: 101, Mismatches: 18, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
3 3 0.03
4 23 0.23
5 66 0.65
6 7 0.07
7 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:124102560 original size:10 final size:10
Alignment explanation
Indices: 124102482--124102636 Score: 81
Period size: 10 Copynumber: 14.8 Consensus size: 10
124102472 CATATAAAAA
124102482 TTTAT-TTAT
1 TTTATATTAT
124102491 TTGTATATTAT
1 TT-TATATTAT
124102502 TTT-T-TTAT
1 TTTATATTAT
124102510 TTTCA-AGTATAT
1 TTT-ATA-T-TAT
124102522 TTATATATTAT
1 TT-TATATTAT
*
124102533 ATTAT-TTAT
1 TTTATATTAT
124102542 TAATATATATTAT
1 T--T-TATATTAT
124102555 TTTATA-T-T
1 TTTATATTAT
124102563 TTTATATTAT
1 TTTATATTAT
124102573 TATATATATTAT
1 T-T-TATATTAT
* *
124102585 ATTATCTTATGT
1 TTTATATTA--T
*
124102597 TTTAATATACAT
1 TTT-ATAT-TAT
*
124102609 TATATATTAT
1 TTTATATTAT
*
124102619 ATTATATTAT
1 TTTATATTAT
124102629 TTTATATT
1 TTTATATT
124102637 TTATCATATA
Statistics
Matches: 113, Mismatches: 12, Indels: 41
0.68 0.07 0.25
Matches are distributed among these distances:
8 14 0.12
9 9 0.08
10 36 0.32
11 19 0.17
12 24 0.21
13 10 0.09
14 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTATATTAT
Found at i:124102589 original size:22 final size:22
Alignment explanation
Indices: 124102519--124102648 Score: 94
Period size: 22 Copynumber: 6.0 Consensus size: 22
124102509 TTTTCAAGTA
124102519 TATT-TATATATTATATTAT-T
1 TATTATATATATTATATTATAT
*
124102539 TATTAATATATATTATTTTATAT
1 TATT-ATATATATTATATTATAT
*
124102562 TTTTATAT-TATTATA-TATAT
1 TATTATATATATTATATTATAT
* * * *
124102582 TA-TAT-TATCTTATGTTTTAA
1 TATTATATATATTATATTATAT
*
124102602 TATACATTATATATTATATTATAT
1 TAT-TA-TATATATTATATTATAT
* *
124102626 TATTTTATATTTTATCA-TATAT
1 TATTATATATATTAT-ATTATAT
124102648 T
1 T
124102649 TATATCTTAT
Statistics
Matches: 84, Mismatches: 16, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
18 1 0.01
19 8 0.10
20 15 0.18
21 6 0.07
22 34 0.40
23 6 0.07
24 14 0.17
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (22 bp):
TATTATATATATTATATTATAT
Found at i:124102803 original size:17 final size:17
Alignment explanation
Indices: 124102790--124102826 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
124102780 TTTTATATGT
124102790 TATTT-TATTATATATA
1 TATTTATATTATATATA
124102806 TATTTATATTAT-TAATA
1 TATTTATATTATAT-ATA
124102823 TATT
1 TATT
124102827 ATTACACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTATATTATATATA
Found at i:124102829 original size:20 final size:20
Alignment explanation
Indices: 124102783--124102825 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
124102773 TTTTGTATTT
*
124102783 TATATGTTATTTTATTATATA
1 TATAT-TTATATTATTATATA
124102804 TATATTTATATTATTA-ATA
1 TATATTTATATTATTATATA
124102823 TAT
1 TAT
124102826 TATTACACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 10 0.48
21 5 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TATATTTATATTATTATATA
Found at i:124102929 original size:2 final size:2
Alignment explanation
Indices: 124102922--124102954 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
124102912 TTTATTATTT
124102922 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
124102955 CATCGTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:124110295 original size:35 final size:35
Alignment explanation
Indices: 124110239--124110308 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
124110229 ATTTTCTATA
* *
124110239 ACTTAGAATTTATTTTTAGTTTTTGTTTCC-TTTGT
1 ACTTAGAATTTATTTTCAGTTTAT-TTTCCATTTGT
* *
124110274 ACTTAGGATTTGTTTTCAGTTTATTTTCCATTTGT
1 ACTTAGAATTTATTTTCAGTTTATTTTCCATTTGT
124110309 GTTCTTCGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 5 0.17
35 25 0.83
ACGTcount: A:0.17, C:0.10, G:0.13, T:0.60
Consensus pattern (35 bp):
ACTTAGAATTTATTTTCAGTTTATTTTCCATTTGT
Found at i:124124904 original size:29 final size:28
Alignment explanation
Indices: 124124858--124124914 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
124124848 AGTTATACCT
*
124124858 ATTTGGCTTCGGGCCATGAATATCGGTTG
1 ATTTGGCTTCGGGCCATG-ATATCAGTTG
*
124124887 ATTTGGCTTCGGGTCATGATATCAGTTG
1 ATTTGGCTTCGGGCCATGATATCAGTTG
124124915 TTCGGATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.18, C:0.16, G:0.30, T:0.37
Consensus pattern (28 bp):
ATTTGGCTTCGGGCCATGATATCAGTTG
Found at i:124131767 original size:12 final size:13
Alignment explanation
Indices: 124131735--124131772 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
124131725 GTTTAAAAAC
124131735 TTTTATTTATTAT
1 TTTTATTTATTAT
124131748 TTTATATTT-TTAT
1 TTT-TATTTATTAT
124131761 TTTTATTCTATT
1 TTTTATT-TATT
124131773 TTAAGACTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.18
13 11 0.50
14 7 0.32
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTTATTAT
Found at i:124137553 original size:39 final size:39
Alignment explanation
Indices: 124137510--124137652 Score: 198
Period size: 39 Copynumber: 3.7 Consensus size: 39
124137500 CATATTCACT
* *
124137510 TTTAAGCATATATCACATTACACATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
124137549 TTTAAGCATATATCACAATACTTATATAATCACATGACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
124137588 TCTAAGCATATATCACAATACTCATATAATCACATTAA-A
1 TTTAAGCATATATCACAATACTCATATAATCACA-TAACA
* * *
124137627 TTCAAGCATATATCATAATACGCATA
1 TTTAAGCATATATCACAATACTCATA
124137653 ACATGTTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 90 0.98
40 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.31
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:124137563 original size:22 final size:22
Alignment explanation
Indices: 124137532--124137604 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
124137522 TCACATTACA
124137532 CATATAATCACATAACATTTAAG
1 CATAT-ATCACATAACATTTAAG
124137555 CATATATCACA-ATAC--TT-A-
1 CATATATCACATA-ACATTTAAG
* * *
124137573 TATA-ATCACATGACATCTAAG
1 CATATATCACATAACATTTAAG
124137594 CATATATCACA
1 CATATATCACA
124137605 ATACTCATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 15
0.67 0.07 0.26
Matches are distributed among these distances:
17 8 0.21
18 3 0.08
19 2 0.05
20 3 0.08
21 4 0.10
22 14 0.36
23 5 0.13
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (22 bp):
CATATATCACATAACATTTAAG
Found at i:124148703 original size:23 final size:23
Alignment explanation
Indices: 124148676--124148722 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
124148666 ATTATCGATA
124148676 AATACACATCATTTAT-CATATAT
1 AATACACA-CATTTATACATATAT
* *
124148699 AATACATACATTTATACATTTAT
1 AATACACACATTTATACATATAT
124148722 A
1 A
124148723 CTCAAATACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (23 bp):
AATACACACATTTATACATATAT
Found at i:124150247 original size:48 final size:47
Alignment explanation
Indices: 124150128--124150256 Score: 154
Period size: 47 Copynumber: 2.7 Consensus size: 47
124150118 AATCAATAAG
* * *
124150128 TACCTATACCATGGCCCGTAGCCAAAACAAGGTAACTTATCTCGGAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCGAAA
* *
124150175 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAA-TTCCTCTTTGAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTT-ATC-TCGAAA
* *
124150223 TACCTATA-CATTGGCCCGTTGCCAAATCATGGTA
1 TACCTATACCA-TGGCCCGTAGCCAAATCAAGGTA
124150257 TCGATCGCAC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
46 2 0.03
47 38 0.53
48 32 0.44
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCGAAA
Found at i:124155900 original size:43 final size:43
Alignment explanation
Indices: 124155852--124155959 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 43
124155842 TATCACAGAT
*
124155852 ATGGTCTTACATGTTATCACAT-ATCGATGCCAATGTCCCAAAC
1 ATGGTCTTACATGTAATCACATAAT-GATGCCAATGTCCCAAAC
* * * *
124155895 ATGGTCTTACACGAAATCATATAATGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAATGATGCCAATGTCCCAAAC
124155938 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
124155960 CTCGGTAATC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 54 0.96
44 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATAATGATGCCAATGTCCCAAAC
Found at i:124160647 original size:18 final size:19
Alignment explanation
Indices: 124160626--124160661 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
124160616 AATAAAGAAA
*
124160626 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
124160644 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
124160662 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:124162066 original size:59 final size:58
Alignment explanation
Indices: 124161965--124162096 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
124161955 AAAATTGTAC
124161965 AGCACTAAGTGTGCGAACTGAAAATATAAAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAAAGCACTAAGTGTGCGAGCTGAAAATATAT
* *
124162023 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATAAAGCACTAAGTGTGCGAGCTGAAAATATAT
124162082 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
124162097 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 23 0.32
59 48 0.68
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.23
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATAAAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:124162086 original size:88 final size:89
Alignment explanation
Indices: 124161935--124162096 Score: 254
Period size: 88 Copynumber: 1.8 Consensus size: 89
124161925 GACAAGATTG
* * *
124161935 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATAAAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATAAAGCACT
124162000 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * * *
124162024 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATAAAGCACT
124162088 AAGTGTGCG
66 AAGTGTGCG
124162097 GATTCACTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
88 51 0.77
89 15 0.23
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATAAAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:124162108 original size:29 final size:29
Alignment explanation
Indices: 124161965--124162096 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
124161955 AAAATTGTAC
* *
124161965 AGCACTAAGTGTGCGAACTGAAAATATAA
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
124161994 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
124162023 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
124162053 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
124162082 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
124162097 GATTCACTAT
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
29 71 0.71
30 29 0.29
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.23
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:124167575 original size:29 final size:29
Alignment explanation
Indices: 124167541--124167614 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
124167531 TAATCAGCCA
*
124167541 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATACA-TTTCAAACT
* *
124167570 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
*
124167599 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
124167615 ATCTCTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAACT
Found at i:124195362 original size:14 final size:14
Alignment explanation
Indices: 124195343--124195372 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
124195333 TGAGAGAAAC
124195343 AAAAAAAGAAAGAA
1 AAAAAAAGAAAGAA
*
124195357 AAAAAAAGGAAGAA
1 AAAAAAAGAAAGAA
124195371 AA
1 AA
124195373 GTGTTCATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAGAA
Found at i:124196764 original size:40 final size:40
Alignment explanation
Indices: 124196599--124196766 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
124196589 CAATTGAATG
* * **
124196599 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATT
* * * *
124196638 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT
*
124196679 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATT
* *
124196719 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATT
124196759 ATATCCGG
1 ATATCCGG
124196767 TTATATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
39 14 0.13
40 59 0.56
41 33 0.31
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
Found at i:124204064 original size:40 final size:40
Alignment explanation
Indices: 124203998--124204164 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
124203988 AAATTGAATG
* * *
124203998 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
124204037 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
124204077 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
124204117 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
124204157 ATATCCGG
1 ATATCCGG
124204165 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:124209262 original size:42 final size:42
Alignment explanation
Indices: 124209215--124209298 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
124209205 CAGTGGGACA
*
124209215 AAATCTTGGTTAAAAGAAAAGAGTAAAACACATTTTAAACTC
1 AAATCTTCGTTAAAAGAAAAGAGTAAAACACATTTTAAACTC
*
124209257 AAATCTTCGTTAAAAGAAAAGAGTAAAACATATTTTAAACTC
1 AAATCTTCGTTAAAAGAAAAGAGTAAAACACATTTTAAACTC
124209299 TCCCTAATGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.27
Consensus pattern (42 bp):
AAATCTTCGTTAAAAGAAAAGAGTAAAACACATTTTAAACTC
Found at i:124212600 original size:23 final size:23
Alignment explanation
Indices: 124212570--124212617 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
124212560 CCCCATCGAC
124212570 CAAATCTAGTGCTAACTGCGGTA
1 CAAATCTAGTGCTAACTGCGGTA
124212593 CAAATCTAGTGCTAACTGCGGTA
1 CAAATCTAGTGCTAACTGCGGTA
124212616 CA
1 CA
124212618 GACTCTGGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (23 bp):
CAAATCTAGTGCTAACTGCGGTA
Done.