Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005093.1 Hibiscus syriacus cultivar Beakdansim tig00011452_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 82380
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Found at i:1819 original size:176 final size:185
Alignment explanation
Indices: 1525--2271 Score: 583
Period size: 176 Copynumber: 3.9 Consensus size: 185
1515 CTCATAAAAT
* * * * *
1525 CGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTAGGATCGACAC
1 CGGTTACATTGTTATGTTACCTATTACATTATAATTA-TGGTTTCGATGTTTTTGGGATCGACAC
* * * *
1590 TTTTTCTAAATGTATCGACATTTTTTCATGAACTTGTTTGGAAAATCTATTATGGACATAAAGTG
65 TTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATCTATTATGGACATAAAGTG
* * * *
1655 TCGATAC-AT-TAT-G-T-ATAC-TTTTTTTTA-ATAACTGGT-AT--ATTTAGAC
130 TCGACACAATGTATAGATCATACATTATGTATACATAACTGGTAATAAATTTAGAC
1701 CGGTTACATTGTTATGTTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACAC
1 CGGTTACATTGTTATGTTACCTATTACATTATAATTATG-GTTTCGATGTTTTTGGGATCGACAC
*
1766 TTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTG
65 TTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATCTATTATGGACATAAAGTG
* *** **
1831 TCGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAACCGGTATATTTA
130 TCGACAC-AATGTAT--AG-ATC-ATACATTATGTATACATAACTGGTAAT-A-----A-ATTTA
1896 GAC
183 GAC
*
1899 CGGTTACATTGTTATGTTACCTATTACATTATAATTACTGGTTTCGATGTTTTTGGGATCTACAC
1 CGGTTACATTGTTATGTTACCTATTACATTATAATTA-TGGTTTCGATGTTTTTGGGATCGACAC
*
1964 TTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGG-AAATAC-ATTCTGG--ATAACAT
65 TTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAAT-CTATTATGGACATAA-A-
* * * * ** **
2025 GTATCGACACAAATGAATAAAGTGTCGATACA-TATTGTAGACCTATTTTCTCATAAAATCGGTA
127 GTGTCGACAC-AATG--TATAG-ATC-ATACATTA-TGTATA-C-A-TAACTGGT--AA----TA
*
2089 AATTTAAAC
177 AATTTAGAC
* * * * *
2098 CGGTTACATTATAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGGATCGACAC
1 CGGTTACATTGTTATGTTACCTATTACATTATAATTA-TGGTTTCGATGTTTTTGGGATCGACAC
* * *
2163 TTGATATAAATGTATCAACACTTATTT-GTGAACTTTTTTTGGTTGGAAAATAC-ATTATGGACA
65 TTGTTATAAATGTATCGACACTT-TTTCGTGAAC-----TTGTTTGGAAAAT-CTATTATGGACA
* * *
2226 CAAAGTATCGACACAAATGTATAAAGTGCCGATACATTATGTATAC
123 TAAAGTGTCGACAC-AATGTATAGA-T--C-ATACATTATGTATAC
2272 CTCTTTTTCA
Statistics
Matches: 472, Mismatches: 47, Indels: 76
0.79 0.08 0.13
Matches are distributed among these distances:
175 1 0.00
176 124 0.26
178 2 0.00
179 3 0.01
182 1 0.00
184 1 0.00
186 4 0.01
187 6 0.01
188 3 0.01
189 2 0.00
195 4 0.01
196 3 0.01
197 40 0.08
198 111 0.24
199 97 0.21
200 9 0.02
202 2 0.00
203 4 0.01
204 8 0.02
205 40 0.08
206 4 0.01
207 3 0.01
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (185 bp):
CGGTTACATTGTTATGTTACCTATTACATTATAATTATGGTTTCGATGTTTTTGGGATCGACACT
TGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATCTATTATGGACATAAAGTGT
CGACACAATGTATAGATCATACATTATGTATACATAACTGGTAATAAATTTAGAC
Found at i:1919 original size:198 final size:197
Alignment explanation
Indices: 1647--2293 Score: 869
Period size: 198 Copynumber: 3.2 Consensus size: 197
1637 TATTATGGAC
*
1647 ATAAAGTGTCGATACATTATGTATA-CTTTTTTTTAATAACTGGTATATTTAGACCGGTTACATT
1 ATAAAGTGTCGATACATTATGTATACCTTTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
1711 GTTATGTTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
66 GTTATGTTACCTATTACATTATAATTATG-GTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
** *
1776 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACAAA
130 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATACATTATGGACATAAAGTATCGACACAAA
1841 TGT
195 TGT
*
1844 ATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
1 ATAAAGTGTCGATACATTATGTATACCTTTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
*
1909 GTTATGTTACCTATTACATTATAATTACTGGTTTCGATGTTTTTGGGATCTACACTTGTTATAAA
66 GTTATGTTACCTATTACATTATAATTA-TGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
*
1974 TGTATCGACACTTTTTCGTGAACTTGTTTGG-AAATACATTCTGG--ATAACATGTATCGACACA
130 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATACATTATGGACATAA-A-GTATCGACACA
*
2036 AATGA
193 AATGT
* * * * *
2041 ATAAAGTGTCGATACA-TATTGTAGACCTATTTTCTCATAA-AATCGGTAAATTTAAACCGGTTA
1 ATAAAGTGTCGATACATTA-TGTATACCT-TTTT-T-TTAATAACCGGTATATTTAGACCGGTTA
* * * * * *
2104 CATTATAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGGATCGACACTTGATA
62 CATTGTTATGTTACCTATTACATTATAATTA-TGGTTTCGATGTTTTTGGGATCGACACTTGTTA
* * *
2169 TAAATGTATCAACACTTATTT-GTGAACTTTTTTTGGTTGGAAAATACATTATGGACACAAAGTA
126 TAAATGTATCGACACTT-TTTCGTGAAC-----TTGTTTGGAAAATACATTATGGACATAAAGTA
2233 TCGACACAAATGT
185 TCGACACAAATGT
* * *
2246 ATAAAGTGCCGATACATTATGTATACC-TCTTTTTCATAAACCGGTATA
1 ATAAAGTGTCGATACATTATGTATACCTTTTTTTTAAT-AACCGGTATA
2294 ATTATGTTTG
Statistics
Matches: 397, Mismatches: 33, Indels: 34
0.86 0.07 0.07
Matches are distributed among these distances:
195 4 0.01
196 3 0.01
197 71 0.18
198 134 0.34
199 103 0.26
200 6 0.02
201 2 0.01
202 1 0.00
203 11 0.03
204 7 0.02
205 49 0.12
206 3 0.01
207 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (197 bp):
ATAAAGTGTCGATACATTATGTATACCTTTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
GTTATGTTACCTATTACATTATAATTATGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAAT
GTATCGACACTTTTTCGTGAACTTGTTTGGAAAATACATTATGGACATAAAGTATCGACACAAAT
GT
Found at i:7409 original size:15 final size:15
Alignment explanation
Indices: 7385--7434 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
7375 ATTTCCTCAA
*
7385 AAGAGCTGGGTTGAG
1 AAGAGATGGGTTGAG
*
7400 AAGAGGTGGGTTGAG
1 AAGAGATGGGTTGAG
7415 AAGAGATGGGTTGAG
1 AAGAGATGGGTTGAG
7430 AAGAG
1 AAGAG
7435 CCCCGATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.32, C:0.02, G:0.48, T:0.18
Consensus pattern (15 bp):
AAGAGATGGGTTGAG
Found at i:8318 original size:198 final size:198
Alignment explanation
Indices: 7980--8603 Score: 1149
Period size: 198 Copynumber: 3.2 Consensus size: 198
7970 TTTCTCATAA
*
7980 ACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGATCTCGATGTTTTTGGGATCGAT
1 ACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGAT
*
8045 ACTTGTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCTGGACACAAAGT
66 ACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCTGGACACAAAGT
* *
8110 ATCGACACAAATTTAACAAGTGTCAATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATT
131 ATCGACACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATT
8175 TAG
196 TAG
*
8178 ACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATTGAT
1 ACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGAT
*
8243 ACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTTTGGACACAAAGT
66 ACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCTGGACACAAAGT
* *
8308 ATCGACACAAATTCAACAAGTGTTGATACTTTATGTACACCTGTTTTCTCATAAATCGGTGTATT
131 ATCGACACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATT
8373 TAG
196 TAG
8376 ACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGAT
1 ACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGAT
8441 ACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCTGGACACAAAGT
66 ACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCTGGACACAAAGT
* *
8506 ATCGACACAAATTCAATAAGTGTCGATACTTTATGTACACTTGTTTTCTCATAAACCGGTGTATT
131 ATCGACACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATT
8571 TAG
196 TAG
*
8574 ATCGGTTAGATTCATAATTTACCTATTACA
1 ACCGGTTAGATTCATAATTTACCTATTACA
8604 CATTATAAAT
Statistics
Matches: 411, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
198 411 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (198 bp):
ACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGAT
ACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCTGGACACAAAGT
ATCGACACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATT
TAG
Found at i:8960 original size:19 final size:19
Alignment explanation
Indices: 8936--8985 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
8926 TTACATTCTC
*
8936 ATACAAAATTATAAATCGT
1 ATACAAAATTAAAAATCGT
*
8955 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
8974 ATACAAAATTAA
1 ATACAAAATTAA
8986 CCCTACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:10154 original size:17 final size:18
Alignment explanation
Indices: 10132--10168 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
10122 GAATCATTAG
10132 GATTAATAT-TTTTTCAT
1 GATTAATATATTTTTCAT
10149 GATTAATATATTTTTCAT
1 GATTAATATATTTTTCAT
10167 GA
1 GA
10169 AATATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.54
Consensus pattern (18 bp):
GATTAATATATTTTTCAT
Found at i:10493 original size:18 final size:18
Alignment explanation
Indices: 10470--10504 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10460 TTCTCCTCAT
10470 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
10488 TTCCTCCATCTTTTCTT
1 TTCCTCCATCTTTTCTT
10505 TTTCAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.37, G:0.00, T:0.57
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:11009 original size:14 final size:14
Alignment explanation
Indices: 10990--11017 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10980 TAAAATTTTT
10990 CTTAATATTATTTA
1 CTTAATATTATTTA
11004 CTTAATATTATTTA
1 CTTAATATTATTTA
11018 ATTTCATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
CTTAATATTATTTA
Found at i:11035 original size:23 final size:24
Alignment explanation
Indices: 10991--11035 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
10981 AAAATTTTTC
10991 TTAATATTATTTACTTAATATTAT
1 TTAATATTATTTACTTAATATTAT
11015 TTAAT-TTCATTTA-TTAATATT
1 TTAATATT-ATTTACTTAATATT
11036 TCTAGCTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
TTAATATTATTTACTTAATATTAT
Found at i:13431 original size:182 final size:181
Alignment explanation
Indices: 13088--13736 Score: 845
Period size: 182 Copynumber: 3.6 Consensus size: 181
13078 ATTAAAGTAC
* * * * * * *
13088 CGACATTTTCAACATAACCGGTAGCGCTTTACTGGTTTTATCATTTCGATACCAGTTTTGTCATA
1 CGACACTTTCAATATATCCAGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATA
* * * **
13153 TTTTTACCTATTATATTGTTATGGATCGATATATTTTCATAAAGTATCGACACTTTTTAGGATCT
66 TTTTTACCTGTTATATTGTTATGGATCGATACATTTT-ATAAAGTATCGACACTTTATAGGCGCT
* *
13218 ATAACTTCTTCTCTTTTAAATT-ACGAAAGTGTCAATACTTATATTAATTTAT
130 ATAACTTCTTCTCTTTTAAATTCA-AAAAGTGTCGATACTTATATTAATTTAT
** *
13270 CGACACTTTCAATATATCCAGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATA
1 CGACACTTTCAATATATCCAGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATA
* *
13335 TTCTTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTATAGGCGCT
66 TTTTTACCTGTTATATTGTTATGGATCGATACATTT-TATAAAGTATCGACACTTTATAGGCGCT
**
13400 ATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTATATTAACGTAT
130 ATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTATATTAATTTAT
* * *
13452 CGACACTTTCAATATATCCGGTAGCTCTTTACCGGTTTTATCATTTCGTGACCGGTTTTGTCATA
1 CGACACTTTCAATATATCCAGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATA
* * *
13517 CTTATACCTGTTATATTGTTATGGATCGATACGTTTTTATAAAGTATCGACACTTTATAGGCGCT
66 TTTTTACCTGTTATATTGTTATGGATCGATAC-ATTTTATAAAGTATCGACACTTTATAGGCGCT
* * *
13582 ATTACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTAT-TTAAATCTAAT
130 ATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTATATT-AAT-TTAT
* * * * * * * *
13635 CGATACTTTCGATATATCTAGTAGCGATTTATCGGTTTTATCATAAT-GAAACCGGTTTTATCAT
1 CGACACTTTCAATATATCCAGTAGCGCTTTACCGGTTTTATCAT-TTCGAGACCGGTTTTGTCAT
* * *
13699 ATTTTTACCTGTTATATTGTTGTGGAGCAATACATTTT
65 ATTTTTACCTGTTATATTGTTATGGATCGATACATTTT
13737 TCATTTGTAT
Statistics
Matches: 410, Mismatches: 51, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
181 2 0.00
182 321 0.78
183 86 0.21
184 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (181 bp):
CGACACTTTCAATATATCCAGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATA
TTTTTACCTGTTATATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTATAGGCGCTA
TAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTATATTAATTTAT
Found at i:14379 original size:21 final size:21
Alignment explanation
Indices: 14353--14405 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
14343 GTTTCCAGAT
14353 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAACATCGACTA
*
14374 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACATCGACTA
*
14395 TCGCAATGCGA
1 TCGCAACGCGA
14406 TTTTCCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:14425 original size:19 final size:20
Alignment explanation
Indices: 14401--14528 Score: 111
Period size: 19 Copynumber: 6.3 Consensus size: 20
14391 ACTATCGCAA
14401 TGCGATT-TTCCAAATTCGT
1 TGCGATTATTCCAAATTCGT
* *
14420 TGCGA-TAGTCCAAGTTCGCGT
1 TGCGATTATTCCAAATT--CGT
*
14441 TGCGATTTATTCCAAATTTGT
1 TGCGA-TTATTCCAAATTCGT
* *
14462 TGC-TTTATTACAAATTCGT
1 TGCGATTATTCCAAATTCGT
* *
14481 TGCGA-TAGTCCAAGTTCGCGT
1 TGCGATTATTCCAAATT--CGT
14502 TGCGATTTATTCCAAATTCGT
1 TGCGA-TTATTCCAAATTCGT
14523 TGCGAT
1 TGCGAT
14529 AGTCTAAAAT
Statistics
Matches: 85, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
18 1 0.01
19 36 0.42
20 1 0.01
21 29 0.34
23 18 0.21
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (20 bp):
TGCGATTATTCCAAATTCGT
Found at i:14506 original size:61 final size:61
Alignment explanation
Indices: 14411--14525 Score: 221
Period size: 61 Copynumber: 1.9 Consensus size: 61
14401 TGCGATTTTC
*
14411 CAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTTGTTGCTTTATTA
1 CAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCTTTATTA
14472 CAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGC
1 CAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGC
14526 GATAGTCTAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (61 bp):
CAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCTTTATTA
Found at i:15282 original size:6 final size:6
Alignment explanation
Indices: 15271--15295 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15261 TCGTCTCGTC
15271 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
15296 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:15408 original size:19 final size:19
Alignment explanation
Indices: 15384--15522 Score: 116
Period size: 19 Copynumber: 6.9 Consensus size: 19
15374 TCGTTGCGAT
*
15384 TTTGGACTATCGCAACGAA
1 TTTGGAATATCGCAACGAA
15403 TTTGGAATAAATCGCAACGCGAA
1 TTTGGAAT--ATCGCAA--CGAA
* *
15426 CTTGGACTATCGCAACGAA
1 TTTGGAATATCGCAACGAA
* ** *
15445 TTTGTAATAAAGCAACAAA
1 TTTGGAATATCGCAACGAA
15464 TTTGGAATAAATCGCAACGCGAA
1 TTTGGAAT--ATCGCAA--CGAA
* *
15487 CTTGGACTATCGCAACGAA
1 TTTGGAATATCGCAACGAA
*
15506 TTTGGAAAATCGCAACG
1 TTTGGAATATCGCAACG
15523 CGAACTTCGA
Statistics
Matches: 94, Mismatches: 18, Indels: 16
0.73 0.14 0.12
Matches are distributed among these distances:
19 49 0.52
21 26 0.28
23 19 0.20
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.23
Consensus pattern (19 bp):
TTTGGAATATCGCAACGAA
Found at i:15490 original size:61 final size:61
Alignment explanation
Indices: 15395--15509 Score: 221
Period size: 61 Copynumber: 1.9 Consensus size: 61
15385 TTGGACTATC
*
15395 GCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGTAATAAA
1 GCAACAAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGTAATAAA
15456 GCAACAAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTG
1 GCAACAAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTG
15510 GAAAATCGCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (61 bp):
GCAACAAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGTAATAAA
Found at i:15516 original size:40 final size:42
Alignment explanation
Indices: 15456--15541 Score: 140
Period size: 40 Copynumber: 2.1 Consensus size: 42
15446 TTGTAATAAA
*
15456 GCAACAAATTTGGAATAAATCGCAACGCGAACTTGGACTATC
1 GCAACAAATTTGGAATAAATCGCAACGCGAACTTCGACTATC
*
15498 GCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACTATC
1 GCAACAAATTTGGAATAAATCGCAACGCGAACTTCGACTATC
15538 GCAA
1 GCAA
15542 TGCGAATCGC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 29 0.69
41 1 0.02
42 12 0.29
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (42 bp):
GCAACAAATTTGGAATAAATCGCAACGCGAACTTCGACTATC
Found at i:15521 original size:61 final size:62
Alignment explanation
Indices: 15384--15521 Score: 219
Period size: 61 Copynumber: 2.3 Consensus size: 62
15374 TCGTTGCGAT
* *
15384 TTTGGACT-ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAA
1 TTTGGAATAATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAA
* *
15445 TTTGTAATAA-AGCAACAAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAA
1 TTTGGAATAATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAA
15506 TTTGGAA-AATCGCAAC
1 TTTGGAATAATCGCAAC
15522 GCGAACTTCG
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
60 2 0.03
61 66 0.96
62 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (62 bp):
TTTGGAATAATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAA
Found at i:15538 original size:21 final size:21
Alignment explanation
Indices: 15385--15547 Score: 99
Period size: 19 Copynumber: 8.0 Consensus size: 21
15375 CGTTGCGATT
*
15385 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
15404 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
15427 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* * ** * *
15446 TTGTAATAAAGCAA--CAAAT
1 TTGGACTATCGCAACGCGAAC
*
15465 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
15488 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
**
15507 TTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
15528 TTCGACTATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
15548 TCGCAGCACG
Statistics
Matches: 111, Mismatches: 23, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
19 46 0.41
21 46 0.41
23 19 0.17
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:15560 original size:33 final size:33
Alignment explanation
Indices: 15513--15581 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
15503 GAATTTGGAA
*
15513 AATCGCAACGCGAACTTCGACTATCGCAATGCG
1 AATCGCAACACGAACTTCGACTATCGCAATGCG
*
15546 AATCGCAGCACGAACTTCGACTATCGCAATGCG
1 AATCGCAACACGAACTTCGACTATCGCAATGCG
15579 AAT
1 AAT
15582 ATGTAAATCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (33 bp):
AATCGCAACACGAACTTCGACTATCGCAATGCG
Found at i:17001 original size:3 final size:3
Alignment explanation
Indices: 16993--17017 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16983 TAATTTATAC
16993 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
17018 AATCAACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:21283 original size:22 final size:21
Alignment explanation
Indices: 21239--21280 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21229 TTGTTGTATA
21239 ATTATATTTTTAATTTAAAAAT
1 ATTATATTTTT-ATTTAAAAAT
21261 ATTATAATTTTT-TTTAAAAA
1 ATTAT-ATTTTTATTTAAAAA
21281 ATAATGTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTATATTTTTATTTAAAAAT
Found at i:27300 original size:10 final size:10
Alignment explanation
Indices: 27269--27293 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27259 TATTTTTATT
27269 AATTTAAATA
1 AATTTAAATA
27279 AATTTAAATA
1 AATTTAAATA
27289 AATTT
1 AATTT
27294 TATTAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AATTTAAATA
Found at i:31787 original size:29 final size:29
Alignment explanation
Indices: 31753--31866 Score: 165
Period size: 29 Copynumber: 3.9 Consensus size: 29
31743 TCCCTAAGCA
*
31753 TAGGTCGCCATGCAATTCGGGCGACCTTG
1 TAGGTCGCCATGCAATCCGGGCGACCTTG
*
31782 TAGGTCGCCATGCAATCCTGGCGACCTTG
1 TAGGTCGCCATGCAATCCGGGCGACCTTG
* * *
31811 TAGGTCGCCATGCACTCCTGGCGACCTTA
1 TAGGTCGCCATGCAATCCGGGCGACCTTG
* *
31840 TAGGTCGTCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCAATCCGGGCGACCT
31867 ACCCTTGCTC
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 79 1.00
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGCAATCCGGGCGACCTTG
Found at i:31974 original size:14 final size:14
Alignment explanation
Indices: 31937--31977 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
31927 CACATAATTC
*
31937 GGTCGGATGCCCTT
1 GGTCGGATGGCCTT
31951 GGTCGGATGGCCTT
1 GGTCGGATGGCCTT
31965 GGTCGGATGGCCT
1 GGTCGGATGGCCT
31978 CGGATGCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.07, C:0.24, G:0.41, T:0.27
Consensus pattern (14 bp):
GGTCGGATGGCCTT
Found at i:31982 original size:10 final size:11
Alignment explanation
Indices: 31967--32015 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
31957 ATGGCCTTGG
31967 TCGGATGGC-C
1 TCGGATGGCTC
31977 TCGGAT-GCTC
1 TCGGATGGCTC
* *
31987 TCGCATAGCTTC
1 TCGGATGGC-TC
31999 TCGGATGGC-C
1 TCGGATGGCTC
32009 TCGGATG
1 TCGGATG
32016 CCCACCGTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 20 0.61
11 2 0.06
12 9 0.27
ACGTcount: A:0.12, C:0.29, G:0.33, T:0.27
Consensus pattern (11 bp):
TCGGATGGCTC
Found at i:32265 original size:34 final size:35
Alignment explanation
Indices: 32207--32290 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 35
32197 CTTTTGCCAA
* * * *
32207 TCCTTTCACTATATTATTCTTTTTTTTGTA-TCAT
1 TCCTTTCACTGTATTACTCCTTTTTTTATATTCAT
* *
32241 TCCTTTCACTGTATTGCTCCTTTTTTTATATTGAT
1 TCCTTTCACTGTATTACTCCTTTTTTTATATTCAT
*
32276 TTCTTT-ACTGTATTA
1 TCCTTTCACTGTATTA
32291 TTTCTTTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 33 0.80
35 8 0.20
ACGTcount: A:0.17, C:0.18, G:0.06, T:0.60
Consensus pattern (35 bp):
TCCTTTCACTGTATTACTCCTTTTTTTATATTCAT
Found at i:32299 original size:17 final size:17
Alignment explanation
Indices: 32269--32337 Score: 50
Period size: 17 Copynumber: 4.1 Consensus size: 17
32259 CCTTTTTTTA
32269 TATTGATTTC-TTTACTG
1 TATT-ATTTCTTTTACTG
* *
32286 TATTATTTCTTTTATTA
1 TATTATTTCTTTTACTG
* * * *
32303 CACTATTTCTCTTATTG
1 TATTATTTCTTTTACTG
* *
32320 TATTGTATCTTTTACTG
1 TATTATTTCTTTTACTG
32337 T
1 T
32338 TCTGTATCTG
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
16 5 0.13
17 34 0.87
ACGTcount: A:0.19, C:0.13, G:0.07, T:0.61
Consensus pattern (17 bp):
TATTATTTCTTTTACTG
Found at i:32673 original size:65 final size:65
Alignment explanation
Indices: 32529--32773 Score: 303
Period size: 65 Copynumber: 3.8 Consensus size: 65
32519 TATTATATAG
* * * * * * * **
32529 TCACTCCACCTTATGCACCACAAAGGTACACAAGTTTCGT-TAAATGATTTTTGTAGTATTCAAT
1 TCACTCCACCTCATGCACCACAAAGGTACACGAG--TCATATGAGTGATCTGTACAGTATTCAAT
32593 TA
64 TA
* * *
32595 TCACTCCACCTCATGCACCACAATGGTACATGAGTCATATGAGTGATTTGTACAGTATTCAATTA
1 TCACTCCACCTCATGCACCACAAAGGTACACGAGTCATATGAGTGATCTGTACAGTATTCAATTA
* * * * *
32660 GCACTCCAGCTCATGCACCACAAAGGTACACGAGTTATATGAGTGATCTGTGCAATATTCAATTA
1 TCACTCCACCTCATGCACCACAAAGGTACACGAGTCATATGAGTGATCTGTACAGTATTCAATTA
*
32725 TCACTCCACCTCATGTACCACAAAGGTACACGAGTCATATGAGTGATCT
1 TCACTCCACCTCATGCACCACAAAGGTACACGAGTCATATGAGTGATCT
32774 ATACTGGTGC
Statistics
Matches: 156, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
64 3 0.02
65 123 0.79
66 30 0.19
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (65 bp):
TCACTCCACCTCATGCACCACAAAGGTACACGAGTCATATGAGTGATCTGTACAGTATTCAATTA
Found at i:35113 original size:20 final size:21
Alignment explanation
Indices: 35069--35113 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
35059 ACATTATCCA
* **
35069 AAAATCAAAGAAAAAAGGACT
1 AAAATCAAAGAAAAAAGAAAG
35090 AAAAT-AAAGAAAAAAGAAAG
1 AAAATCAAAGAAAAAAGAAAG
35110 AAAA
1 AAAA
35114 CATACATTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.76, C:0.04, G:0.13, T:0.07
Consensus pattern (21 bp):
AAAATCAAAGAAAAAAGAAAG
Found at i:37756 original size:20 final size:20
Alignment explanation
Indices: 37731--37782 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
37721 AATTCGACTA
37731 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
37751 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
37771 TCGCATTGCGAT
1 TCGCATTGCGAT
37783 AGTCCAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:37800 original size:21 final size:21
Alignment explanation
Indices: 37769--37919 Score: 125
Period size: 21 Copynumber: 7.3 Consensus size: 21
37759 CGATTTACAT
*
37769 ATTCGCATTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCCAA
* **
37790 GTTCGCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATAGTCCAA
*
37811 ATT--CGTTGCGATAGTCGAA
1 ATTCGCGTTGCGATAGTCCAA
* *
37830 GTTCGCGTTGCGATTTATTCCAA
1 ATTCGCGTTGCGA--TAGTCCAA
*
37853 ATT--CGTTGCAATAGTCCAA
1 ATTCGCGTTGCGATAGTCCAA
* *
37872 GTTCGCGTTGCGATTTATTCCAA
1 ATTCGCGTTGCGA--TAGTCCAA
37895 ATT--CGTTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCCAA
*
37914 AATCGC
1 ATTCGC
37920 AACGACTGGC
Statistics
Matches: 100, Mismatches: 20, Indels: 20
0.71 0.14 0.14
Matches are distributed among these distances:
19 33 0.33
21 50 0.50
23 17 0.17
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (21 bp):
ATTCGCGTTGCGATAGTCCAA
Found at i:37852 original size:42 final size:42
Alignment explanation
Indices: 37776--37913 Score: 244
Period size: 42 Copynumber: 3.3 Consensus size: 42
37766 CATATTCGCA
37776 TTGCGATAGTCCAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
37816 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
37858 TTGCAATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
37900 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
37914 AATCGCAACG
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 26 0.28
41 2 0.02
42 64 0.70
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:38510 original size:6 final size:6
Alignment explanation
Indices: 38501--38549 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
38491 GCCGTCCGTC
38501 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
38549 T
1 T
38550 AATGGTAATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:38671 original size:19 final size:20
Alignment explanation
Indices: 38647--38701 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
38637 TCGTTGCGAT
38647 TTTGGACTATCGCAA-CGAA
1 TTTGGACTATCGCAACCGAA
**
38666 TTTGGAAAATCGCAACGCGAA
1 TTTGGACTATCGCAAC-CGAA
*
38687 CTTGGACTATCGCAA
1 TTTGGACTATCGCAA
38702 TGTGAATATG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 13 0.45
21 16 0.55
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (20 bp):
TTTGGACTATCGCAACCGAA
Found at i:38745 original size:21 final size:21
Alignment explanation
Indices: 38716--38768 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
38706 AATATGTAAA
*
38716 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
38737 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
38758 TCGAGTTGCGA
1 TCGCGTTGCGA
38769 ATCTGGAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:41376 original size:3 final size:3
Alignment explanation
Indices: 41368--41409 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
41358 CGAGGGCTAC
* *
41368 ATT ATT ATT ATT AGT ATT AGT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
41410 TGAAAAGTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:42553 original size:19 final size:19
Alignment explanation
Indices: 42529--42566 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
42519 ACATTCTAGG
42529 GCATTGTTTAGTAAGATAA
1 GCATTGTTTAGTAAGATAA
42548 GCATTGTTTAGTAAGATAA
1 GCATTGTTTAGTAAGATAA
42567 AGCACAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (19 bp):
GCATTGTTTAGTAAGATAA
Found at i:51556 original size:23 final size:23
Alignment explanation
Indices: 51530--51577 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
51520 ATAAAGTACA
*
51530 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
51553 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
51576 AT
1 AT
51578 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:52028 original size:23 final size:23
Alignment explanation
Indices: 51993--52042 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
51983 ACACTTTACA
*
51993 ATATAACCACTACCTATTACATT
1 ATATAACCACTACCTATTACATC
* *
52016 ATATAAGCGCTACCTATTACATC
1 ATATAACCACTACCTATTACATC
52039 ATAT
1 ATAT
52043 GTTTACCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAACCACTACCTATTACATC
Found at i:52445 original size:25 final size:25
Alignment explanation
Indices: 52388--52453 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
52378 CACTCAAAAG
*
52388 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*** *
52413 ACAAACATACTTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
52438 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
52454 TTAATGATAA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:55264 original size:183 final size:183
Alignment explanation
Indices: 54927--55264 Score: 561
Period size: 183 Copynumber: 1.8 Consensus size: 183
54917 AATTACCGAC
* *
54927 ACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTA
1 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
* * * *
54992 TAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATAT
66 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGATACAT
55057 TACAAAATTAACTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
131 TACAAAATTAACTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
55110 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
1 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
55175 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACC-GATAGCA
66 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGATA-CA
* * * **
55239 TTGCAAATTTACCTATTTTATTATAA
130 TTACAAAATTAACTATTACATTATAA
55265 TATGTTGAAA
Statistics
Matches: 143, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
182 3 0.02
183 140 0.98
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (183 bp):
ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGATACAT
TACAAAATTAACTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
Found at i:56739 original size:3 final size:3
Alignment explanation
Indices: 56731--56811 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
56721 ACTTGTTTGG
* * * **
56731 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
56779 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
56812 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:56748 original size:12 final size:12
Alignment explanation
Indices: 56735--56823 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
56725 GTTTGGATCA
* *
56735 TCATCTTCATCA
1 TCATCGTCATCT
* *
56747 TCATCATCATCA
1 TCATCGTCATCT
* *
56759 TCGTCATCATCT
1 TCATCGTCATCT
* *
56771 TCATCGCCAGCT
1 TCATCGTCATCT
*
56783 TCATCGTCATCA
1 TCATCGTCATCT
56795 TCATCGTCATCT
1 TCATCGTCATCT
*
56807 TCATCGTCAGCT
1 TCATCGTCATCT
56819 TCATC
1 TCATC
56824 TTTTGCAACC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:56754 original size:18 final size:18
Alignment explanation
Indices: 56735--56825 Score: 74
Period size: 18 Copynumber: 5.1 Consensus size: 18
56725 GTTTGGATCA
* *
56735 TCATCTTCATCATCATCA
1 TCATCATCATCATCATCT
*
56753 TCATCATCGTCATCATCT
1 TCATCATCATCATCATCT
** * * *
56771 TCATCGCCAGCTTCATCG
1 TCATCATCATCATCATCT
*
56789 TCATCATCATCGTCATCT
1 TCATCATCATCATCATCT
* * *
56807 TCATCGTCAGCTTCATCT
1 TCATCATCATCATCATCT
56825 T
1 T
56826 TTGCAACCGC
Statistics
Matches: 56, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (18 bp):
TCATCATCATCATCATCT
Found at i:56787 original size:36 final size:36
Alignment explanation
Indices: 56747--56823 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
56737 ATCTTCATCA
*
56747 TCATCATCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
* * *
56783 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
56819 TCATC
1 TCATC
56824 TTTTGCAACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:57371 original size:197 final size:198
Alignment explanation
Indices: 56841--57480 Score: 1201
Period size: 197 Copynumber: 3.2 Consensus size: 198
56831 ACCGCTTGGT
*
56841 TGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAA
1 TGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAA
56906 AATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGAT
66 AATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGAT
56971 CGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTATA
131 CGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACACAAACTATA
57036 TTAG
195 TTAG
*
57040 TGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAA
1 TGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAA
*
57105 AATTACATATTACATTATACTTTTGGGTTCAATGATTTTGGGATCGACACTTTTTATATATGGAT
66 AATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGAT
57170 CGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATAT
131 CGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATAT
57235 TAG
196 TAG
* *
57238 TGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATAATTATACC-GTTAGATTGAAA
1 TGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAA
57302 AATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGAT
66 AATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGAT
*
57367 CGACACTTTATGGGTGCACCCTGTTTTCCATTCATTATGGAAAAAAATATCGACACAAACTATAT
131 CGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATAT
57432 TAG
196 TAG
*
57435 TGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTTTAAT
1 TGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAAT
57481 GAATAAATTC
Statistics
Matches: 433, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
197 187 0.43
198 79 0.18
199 167 0.39
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (198 bp):
TGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAA
AATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGAT
CGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATAT
TAG
Found at i:58714 original size:17 final size:18
Alignment explanation
Indices: 58692--58734 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
58682 ATATATCCGG
58692 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
58709 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
58729 TATCAT
1 TATCAT
58735 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:58752 original size:20 final size:19
Alignment explanation
Indices: 58697--58743 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
58687 TCCGGTATCA
58697 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
58716 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
58737 TTTTACC
1 TTTTACC
58744 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:58903 original size:20 final size:20
Alignment explanation
Indices: 58876--58922 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
58866 TCCGGTAACG
58876 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
58895 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
58916 TTTTACC
1 TTTTACC
58923 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:59124 original size:182 final size:181
Alignment explanation
Indices: 58664--59134 Score: 696
Period size: 182 Copynumber: 2.6 Consensus size: 181
58654 CGTACTTACG
* * *
58664 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
58729 TATCATATTTTTACCTGTTATATCGTTGTGGATCGAT--ATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
58792 AGGCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* *
58843 AAAGTATCGACACTTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
58908 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
58973 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * * *
59025 AAAGTACCGACACTTTAAATGTATCTGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
59089 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
59135 AATTTGGATC
Statistics
Matches: 263, Mismatches: 25, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
179 96 0.37
181 69 0.26
182 97 0.37
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (181 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:59136 original size:181 final size:180
Alignment explanation
Indices: 58664--59136 Score: 689
Period size: 179 Copynumber: 2.6 Consensus size: 180
58654 CGTACTTACG
* * *
58664 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
58729 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATA-TTTTTTTAAAGTATCGACACATTATA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAAAAGTATCGACACATTATA
* *
58793 GGCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* *
58843 AAAGTATCGACACTTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
58908 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACA-TTTTTAAAAGTATCGACACATTAT
** *
58973 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * * *
59025 AAAGTACCGACACTTTAAATGTATCTGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
59089 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTAA
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAA
59137 TTTGGATCGA
Statistics
Matches: 264, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
179 97 0.37
181 74 0.28
182 92 0.35
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (180 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAAAAGTATCGACACATTATA
GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:59602 original size:229 final size:228
Alignment explanation
Indices: 59201--59680 Score: 888
Period size: 229 Copynumber: 2.1 Consensus size: 228
59191 ACCTACTTTT
59201 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
59266 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
66 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
*
59331 ATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
* *
59396 CAAATATAATAATAAATATGTTTTCAACAGTGAA
196 CAAAGATAATAATAAATATATTTTC-ACAGTGAA
59430 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
* *
59495 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
66 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
*
59560 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGATTTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
*
59625 TAAAGATAATAATAAATATATTTTCACAGTGAA
196 CAAAGATAATAATAAATATATTTTCACAGTGAA
59658 ATAAGTATGGACACTTTTATAAA
1 ATAAGTATGGACACTTTTATAAA
59681 GAGGATAGAT
Statistics
Matches: 244, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
228 31 0.13
229 213 0.87
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (228 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
CAAAGATAATAATAAATATATTTTCACAGTGAA
Found at i:60475 original size:15 final size:17
Alignment explanation
Indices: 60446--60483 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
60436 AAGGGTAAAT
60446 TATTTTTTCACCACTCA
1 TATTTTTTCACCACTCA
*
60463 -ATTTTTTC-TCACTCA
1 TATTTTTTCACCACTCA
60478 TATTTT
1 TATTTT
60484 GATAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTTTTCACCACTCA
Found at i:70700 original size:22 final size:22
Alignment explanation
Indices: 70672--70722 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
70662 CCTTCTTTTT
70672 TCGCCGGCAGTCACAGCCTCCA
1 TCGCCGGCAGTCACAGCCTCCA
*
70694 TCGCCGGCAGTCACAGCTTCCA
1 TCGCCGGCAGTCACAGCCTCCA
70716 TCGCCGG
1 TCGCCGG
70723 GCGCTAACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.16, C:0.43, G:0.25, T:0.16
Consensus pattern (22 bp):
TCGCCGGCAGTCACAGCCTCCA
Found at i:76583 original size:21 final size:21
Alignment explanation
Indices: 76559--76600 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
76549 TAAATTAAAT
*
76559 ATTAGATAGGATCAGTTTTTA
1 ATTAGATAGAATCAGTTTTTA
76580 ATTAGATAGAATCAGTTTTTA
1 ATTAGATAGAATCAGTTTTTA
76601 TTCTATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.43
Consensus pattern (21 bp):
ATTAGATAGAATCAGTTTTTA
Found at i:76637 original size:20 final size:21
Alignment explanation
Indices: 76612--76651 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
76602 TCTATTAGTT
*
76612 ATTAGATAGGATCA-TTTTTA
1 ATTAGATAGAATCAGTTTTTA
76632 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTT
76652 TATTCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (21 bp):
ATTAGATAGAATCAGTTTTTA
Found at i:76640 original size:52 final size:53
Alignment explanation
Indices: 76558--76684 Score: 229
Period size: 53 Copynumber: 2.4 Consensus size: 53
76548 CTAAATTAAA
76558 TATTAGATAGGATCAGTTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
1 TATTAGATAGGATCA-TTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
76611 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
*
76664 TATTAGATAGAATCATTTTTA
1 TATTAGATAGGATCATTTTTA
76685 TTATGTTGCT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
52 21 0.29
53 51 0.71
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (53 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
Found at i:81308 original size:19 final size:20
Alignment explanation
Indices: 81284--81321 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
81274 TATTATAGTT
*
81284 ATTAGATAGGATCA-TTTTA
1 ATTAGATAGAATCAGTTTTA
81303 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
81322 TTATTCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:81309 original size:48 final size:52
Alignment explanation
Indices: 81237--81354 Score: 174
Period size: 52 Copynumber: 2.3 Consensus size: 52
81227 AAATATTAGA
*
81237 TAGATAGGATCAGTTTTAATTAGATCGAATCAG-TTTTTA-T-TA-TAGTTAT
1 TAGATAGGATCA-TTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGTTAT
81286 TAGATAGGATCATTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGTTAT
1 TAGATAGGATCATTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGTTAT
81338 TAGAT-GGAATCATTTTA
1 TAGATAGG-ATCATTTTA
81355 TTCTGTTGCT
Statistics
Matches: 63, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
48 19 0.30
49 18 0.29
50 1 0.02
51 4 0.06
52 21 0.33
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (52 bp):
TAGATAGGATCATTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGTTAT
Done.