Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006990.1 Hibiscus syriacus cultivar Beakdansim tig00018027_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: 140281
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:8229 original size:22 final size:21
Alignment explanation
Indices: 8196--8236 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
8186 CAATTCCTTT
8196 ATCTTTTATTATCTTGTTTTA
1 ATCTTTTATTATCTTGTTTTA
8217 ATCTTATTATTATCTTGTTT
1 ATCTT-TTATTATCTTGTTT
8237 CAGCACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.20, C:0.10, G:0.05, T:0.66
Consensus pattern (21 bp):
ATCTTTTATTATCTTGTTTTA
Found at i:17329 original size:22 final size:23
Alignment explanation
Indices: 17304--17346 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
17294 CAATTCCTTT
*
17304 ATCTT-TTATTTATCTTGTTTTA
1 ATCTTATTACTTATCTTGTTTTA
17326 ATCTTATTACTTATCTTGTTT
1 ATCTTATTACTTATCTTGTTT
17347 CCAGTACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.65
Consensus pattern (23 bp):
ATCTTATTACTTATCTTGTTTTA
Found at i:25165 original size:30 final size:31
Alignment explanation
Indices: 25107--25166 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
25097 AACCATTCAT
* *
25107 AACTTTTCCAAAATTTTCAAATTGGTCCCCC
1 AACTTTTCCAAAATTTACAAAATGGTCCCCC
25138 AACTTTT-CAAACA-TTACAAAATGGTCCCC
1 AACTTTTCCAAA-ATTTACAAAATGGTCCCC
25167 AAATTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.32
Consensus pattern (31 bp):
AACTTTTCCAAAATTTACAAAATGGTCCCCC
Found at i:31573 original size:36 final size:36
Alignment explanation
Indices: 31531--31606 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
31521 TTATAGCTAA
*
31531 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
31567 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
31603 AAAA
1 AAAA
31607 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:36097 original size:15 final size:15
Alignment explanation
Indices: 36079--36108 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
36069 CCACGGTGCT
36079 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
36094 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
36109 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:36570 original size:36 final size:36
Alignment explanation
Indices: 36528--36603 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
36518 TTATAGCTAA
*
36528 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
36564 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
36600 AAAA
1 AAAA
36604 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:37177 original size:18 final size:18
Alignment explanation
Indices: 37126--37168 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
37116 AAATGATGGT
*
37126 GTGATATGATAACAAATG
1 GTGATGTGATAACAAATG
37144 GTGATGTGATAACAAATG
1 GTGATGTGATAACAAATG
37162 GTGATGT
1 GTGATGT
37169 TGTGGCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.05, G:0.28, T:0.30
Consensus pattern (18 bp):
GTGATGTGATAACAAATG
Found at i:41101 original size:44 final size:45
Alignment explanation
Indices: 40984--41108 Score: 189
Period size: 45 Copynumber: 2.8 Consensus size: 45
40974 TATCAATATT
40984 TTACCATTTATTAACCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTATT--CCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* * *
41031 TTACCATTTATTCCGTGAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
*
41076 TTTCCA-TTATTCCATAAGCTCGTAAGCTTATTT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTT
41109 GCATGGTTAC
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
44 25 0.35
45 35 0.49
47 12 0.17
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.40
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:41270 original size:39 final size:40
Alignment explanation
Indices: 41213--41293 Score: 137
Period size: 39 Copynumber: 2.0 Consensus size: 40
41203 ACCGTAGTGC
*
41213 TACATATAAGGTCGTGCCCACCATAT-CACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
*
41252 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
41292 TA
1 TA
41294 TAAACCTGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 25 0.64
40 14 0.36
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
Found at i:58168 original size:59 final size:59
Alignment explanation
Indices: 58076--58204 Score: 186
Period size: 59 Copynumber: 2.2 Consensus size: 59
58066 CGTAGTGCTA
* **
58076 TCCCGAATATGACACATAAGGTCGTGCCCACCATCTGTACAAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACAAGGTATCCTTAAGTACAG
* * ** *
58135 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACAAGGTATCCTTAAGTACAG
58194 TCCCGAATATG
1 TCCCGAATATG
58205 CAGCCTGCTG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACAAGGTATCCTTAAGTACAG
Found at i:58927 original size:30 final size:29
Alignment explanation
Indices: 58893--58955 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
58883 AATCCCTCCA
* * *
58893 TTTTCCAAAATTTACGAATTGATCTCCAAC
1 TTTT-CAAAACTTACGAAATGATCCCCAAC
* *
58923 TTTTCTAAACTTACGAAATGATCCCCAAT
1 TTTTCAAAACTTACGAAATGATCCCCAAC
58952 TTTT
1 TTTT
58956 GTAAGACTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (29 bp):
TTTTCAAAACTTACGAAATGATCCCCAAC
Found at i:58937 original size:29 final size:30
Alignment explanation
Indices: 58904--58964 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
58894 TTTCCAAAAT
* *
58904 TTACGAATTGATCTCCAACTTTTCTAA-AC
1 TTACGAAATGATCCCCAACTTTTCTAAGAC
* *
58933 TTACGAAATGATCCCCAATTTTTGTAAGAC
1 TTACGAAATGATCCCCAACTTTTCTAAGAC
58963 TT
1 TT
58965 GTATAATACT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (30 bp):
TTACGAAATGATCCCCAACTTTTCTAAGAC
Found at i:67306 original size:20 final size:20
Alignment explanation
Indices: 67281--67318 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
67271 TGCATAACCG
*
67281 AACCGGGTTAACCTGACCCA
1 AACCGGGTTAACCAGACCCA
*
67301 AACCGGTTTAACCAGACC
1 AACCGGGTTAACCAGACC
67319 TGAATCATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.34, G:0.18, T:0.16
Consensus pattern (20 bp):
AACCGGGTTAACCAGACCCA
Found at i:71120 original size:25 final size:25
Alignment explanation
Indices: 71091--71144 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
71081 CGAGTTTATT
* *
71091 ATTATTATTA-ATATTATTATAAGTA
1 ATTATTAGTATATA-TATAATAAGTA
*
71116 ATTATTAGTATATATATAATATGTA
1 ATTATTAGTATATATATAATAAGTA
71141 ATTA
1 ATTA
71145 AATAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (25 bp):
ATTATTAGTATATATATAATAAGTA
Found at i:74658 original size:23 final size:22
Alignment explanation
Indices: 74632--74675 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
74622 GTACTAATCC
*
74632 ATTTTGGTTTTATGTCCATTTGT
1 ATTTTGGATTTAT-TCCATTTGT
*
74655 ATTTTGGATTTATTGCATTTG
1 ATTTTGGATTTATTCCATTTG
74676 CATCTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.16, C:0.07, G:0.18, T:0.59
Consensus pattern (22 bp):
ATTTTGGATTTATTCCATTTGT
Found at i:74864 original size:55 final size:55
Alignment explanation
Indices: 74798--74939 Score: 167
Period size: 55 Copynumber: 2.6 Consensus size: 55
74788 GCATTTAAAT
* * * * * *
74798 GATTCATGAAGAAGGACATCTGATGAACGAAGAAATTTGAACCTGATTGAAGAAG
1 GATTCATGAAGAAGGACATCTGATGAATGAAGAAATATGAAACTAATTAAAGAAC
* * *
74853 GATTCATGAAGAAGGACATCCGATGAATGATGAAATATGAAACTAATTAAAGACC
1 GATTCATGAAGAAGGACATCTGATGAATGAAGAAATATGAAACTAATTAAAGAAC
* * * *
74908 TATCCATGAAGAAAGACATCTGACGAATGAAG
1 GATTCATGAAGAAGGACATCTGATGAATGAAG
74940 TTTGAAGTCG
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 72 1.00
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.21
Consensus pattern (55 bp):
GATTCATGAAGAAGGACATCTGATGAATGAAGAAATATGAAACTAATTAAAGAAC
Found at i:79180 original size:125 final size:125
Alignment explanation
Indices: 78949--79173 Score: 344
Period size: 125 Copynumber: 1.8 Consensus size: 125
78939 CATTCAAGTG
* *
78949 AAGATAACGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGG
1 AAGATAACGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATACAGACCAAGAAGG
*
79014 CATGAAGAATGAGCCTTACAATTTGAGGTGCTGGGATATTTTAAAGGCCCGTACCAATAT
66 CATGAAGAATAAGCCTTACAATTTGAGGTGCTGGGATATTTTAAAGGCCCGTACCAATAT
* * * *
79074 AAGATAATGTTGGGGCATGACTGAACCCACTTCATGTTGAGATGACAAGATACATACCAAGAAGG
1 AAGATAACGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATACAGACCAAGAAGG
* * *
79139 CCTTG-GGAATAAGCCTTACAATTTGAGGTGTTGGG
66 -CATGAAGAATAAGCCTTACAATTTGAGGTGCTGGG
79174 TCATTTTGAG
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
125 86 0.97
126 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (125 bp):
AAGATAACGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATACAGACCAAGAAGG
CATGAAGAATAAGCCTTACAATTTGAGGTGCTGGGATATTTTAAAGGCCCGTACCAATAT
Found at i:79193 original size:125 final size:125
Alignment explanation
Indices: 78949--79210 Score: 341
Period size: 125 Copynumber: 2.1 Consensus size: 125
78939 CATTCAAGTG
* * *
78949 AAGATAACGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGG
1 AAGATAATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATACAGACCAAGAAGG
* *
79014 CATGAAGAATGAGCCTTACAATTTGAGGTGCTGGGATATTTTAAAGGCCCGTACCA-ATAT
66 CATGAAGAATAAGCCTTACAATTTGAGGTGCTGGGATATTTTAAAGGCACGTACCAGA-AT
* * *
79074 AAGATAATGTTGGGGCATGACTGAACCCACTTCATGTTGAGATGACAAGATACATACCAAGAAGG
1 AAGATAATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATACAGACCAAGAAGG
* * * * * *
79139 CCTTG-GGAATAAGCCTTACAATTTGAGGTGTTGGG-TCATTTTGAGGGCATGTACCAGAAT
66 -CATGAAGAATAAGCCTTACAATTTGAGGTGCTGGGAT-ATTTTAAAGGCACGTACCAGAAT
*
79199 AAGATGATGTTG
1 AAGATAATGTTG
79211 CAACACTAAT
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
124 1 0.01
125 114 0.96
126 4 0.03
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (125 bp):
AAGATAATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATACAGACCAAGAAGG
CATGAAGAATAAGCCTTACAATTTGAGGTGCTGGGATATTTTAAAGGCACGTACCAGAAT
Found at i:80538 original size:37 final size:37
Alignment explanation
Indices: 80470--80623 Score: 211
Period size: 37 Copynumber: 4.1 Consensus size: 37
80460 AAGATATTGG
* * *
80470 AGCAAAGTCAATCTTAAGCCTTCACCGAAGAGTAGTGA
1 AGCAAA-TTAATCCTAAGCCTTCACCAAAGAGTAGTGA
*
80508 ATCAAATTAATCCTAAGCCTTCACCAAAGAGTAGTGA
1 AGCAAATTAATCCTAAGCCTTCACCAAAGAGTAGTGA
* * *
80545 AGCAAGTCAATCTTAAGCCTTCACCAAAGAGTAGTGA
1 AGCAAATTAATCCTAAGCCTTCACCAAAGAGTAGTGA
*
80582 AGCAAATCT-ATTCTAAGCCTTCACCAAAGAGTAGTGA
1 AGCAAAT-TAATCCTAAGCCTTCACCAAAGAGTAGTGA
80619 AGCAA
1 AGCAA
80624 TCCATTTTAA
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
37 98 0.95
38 5 0.05
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (37 bp):
AGCAAATTAATCCTAAGCCTTCACCAAAGAGTAGTGA
Found at i:80559 original size:74 final size:74
Alignment explanation
Indices: 80474--80639 Score: 264
Period size: 74 Copynumber: 2.3 Consensus size: 74
80464 TATTGGAGCA
* *
80474 AAGTCAATCTTAAGCCTTCACCGAAGAGTAGTGAATCAAAT-TAATCCTAAGCCTTCACCAAAGA
1 AAGTCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCT-ATCCTAAGCCTTCACCAAAGA
80538 GTAGTGAAGC
65 GTAGTGAAGC
*
80548 AAGTCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCTATTCTAAGCCTTCACCAAAGAG
1 AAGTCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCTATCCTAAGCCTTCACCAAAGAG
80613 TAGTGAAGC
66 TAGTGAAGC
* *
80622 AA-TCCATTTTAAGCCTTC
1 AAGTCAATCTTAAGCCTTC
80640 TTAGAAGAGT
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
73 14 0.16
74 71 0.83
75 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (74 bp):
AAGTCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCTATCCTAAGCCTTCACCAAAGAG
TAGTGAAGC
Found at i:81091 original size:54 final size:54
Alignment explanation
Indices: 81017--81527 Score: 573
Period size: 54 Copynumber: 9.5 Consensus size: 54
81007 TTCAAGTTTC
** *
81017 ATACTCCCTAAAGACGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTTT
1 ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCT
** * * * *
81071 ATACTCCCTAAAGAAAGAGGGAGCGAACCTATTTG-CGGAGATCATTTGAGTTCT
1 ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGAT-GTTCGAGTTCT
* * *
81125 ATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAAAAGATGTTCGAGTTCC
1 ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCT
* * * * * *
81179 ATACTCCCTAAAAAAAGAGGGAGCGGACCTGTTTG-CGGAGATCGTTCGAGTTTT
1 ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGAT-GTTCGAGTTCT
* * * * *
81233 ATACTCCCTAAAGAAGGAGTGA-CGAACCCTTTTGAAGAAGATGTTTGAGTTCC
1 ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCT
* * ** * * *
81286 GTACTCCTTAAAGAAAGAGGGAGCGAACCTATTTG-TGGAGATTGTTCGGGTTCT
1 ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TGTTCGAGTTCT
* * *
81340 ATACTCCCTAAAGAAGGATGGAGCGAACCCGTTTGAAGAAGATGTTCGAGATCT
1 ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCT
* * *
81394 ATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAAAAGATGTTCGAGTTCC
1 ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCT
* *
81448 ATACTCCCTAAAGAAGGAGGGAGCGAACTCGTTTGAAGAAGATGTTCGAG-TCTT
1 ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTC-T
* * * *
81502 ATACTCTCTGAAGGAATAGGGAGCGA
1 ATACTCCCTAAAGAAAGAGGGAGCGA
81528 CATGATTGTT
Statistics
Matches: 378, Mismatches: 71, Indels: 16
0.81 0.15 0.03
Matches are distributed among these distances:
53 50 0.13
54 320 0.85
55 8 0.02
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (54 bp):
ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCT
Found at i:81214 original size:108 final size:108
Alignment explanation
Indices: 81017--81498 Score: 662
Period size: 108 Copynumber: 4.5 Consensus size: 108
81007 TTCAAGTTTC
* **
81017 ATACTCCCTAAAGACGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTTTATACTCCCTAA
1 ATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATACTCCCTAA
* *
81082 AGAAAGAGGGAGCGAACCTATTTGCGGAGATCATTTGAGTTCT
66 AGAAAGAGGGAGCGAACCTATTTGCGGAGATCGTTCGAGTTCT
* * *
81125 ATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAAAAGATGTTCGAGTTCCATACTCCCTAA
1 ATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATACTCCCTAA
* * * *
81190 AAAAAGAGGGAGCGGACCTGTTTGCGGAGATCGTTCGAGTTTT
66 AGAAAGAGGGAGCGAACCTATTTGCGGAGATCGTTCGAGTTCT
* * * * *
81233 ATACTCCCTAAAGAAGGAGTGA-CGAACCCTTTTGAAGAAGATGTTTGAGTTCCGTACTCCTTAA
1 ATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATACTCCCTAA
* * *
81297 AGAAAGAGGGAGCGAACCTATTTGTGGAGATTGTTCGGGTTCT
66 AGAAAGAGGGAGCGAACCTATTTGCGGAGATCGTTCGAGTTCT
* * *
81340 ATACTCCCTAAAGAAGGATGGAGCGAACCCGTTTGAAGAAGATGTTCGAGATCTATACTCCCTAA
1 ATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATACTCCCTAA
* ** *** *
81405 AGAAGGAGGGAGCGAACCCGTTTGAAAAAGAT-GTTCGAGTTCC
66 AGAAAGAGGGAGCGAACCTATTTG-CGGAGATCGTTCGAGTTCT
*
81448 ATACTCCCTAAAGAAGGAGGGAGCGAACTCGTTTGAAGAAGATGTTCGAGT
1 ATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGT
81499 CTTATACTCT
Statistics
Matches: 326, Mismatches: 46, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
107 93 0.29
108 229 0.70
109 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (108 bp):
ATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATACTCCCTAA
AGAAAGAGGGAGCGAACCTATTTGCGGAGATCGTTCGAGTTCT
Found at i:81416 original size:215 final size:216
Alignment explanation
Indices: 81005--81498 Score: 695
Period size: 215 Copynumber: 2.3 Consensus size: 216
80995 CAAAAAATAT
* * *
81005 TGTTCAAGTTTCATACTCCCTAAAGACGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTT
1 TGTTCGAGTTTCATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTC
* *
81070 TATACTCCCTAAAGAAAGAGGGAGCGAACCTATTTGCGGAGATCATTTGAGTTCTATACTCCCTA
66 CATACTCCCTAAAGAAAGAGGGAGCGAACCTATTTGCGGAGATCATTCGAGTTCTATACTCCCTA
* *
81135 GAGAAAGAGGGAGCGAACCCGTTTGAAAAAGATGTTCGAGTTCCATACTCCCTAAAAAAAGAGGG
131 AAGAAAGAGGGAGCGAACCCGTTTGAAAAAGATGTTCGAGATCCATACTCCCTAAAAAAAGAGGG
* * ***
81200 AGCGGACCTGTTTG-CGGAGA
196 AGCGAACCCGTTTGAAAAAGA
* * * *
81220 TCGTTCGAGTTTTATACTCCCTAAAGAAGGAGTGA-CGAACCCTTTTGAAGAAGATGTTTGAGTT
1 T-GTTCGAGTTTCATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTT
* * * ** *
81284 CCGTACTCCTTAAAGAAAGAGGGAGCGAACCTATTTGTGGAGATTGTTCGGGTTCTATACTCCCT
65 CCATACTCCCTAAAGAAAGAGGGAGCGAACCTATTTGCGGAGATCATTCGAGTTCTATACTCCCT
* * * * * *
81349 AAAGAAGGATGGAGCGAACCCGTTTGAAGAAGATGTTCGAGATCTATACTCCCTAAAGAAGGAGG
130 AAAGAAAGAGGGAGCGAACCCGTTTGAAAAAGATGTTCGAGATCCATACTCCCTAAAAAAAGAGG
81414 GAGCGAACCCGTTTGAAAAAGA
195 GAGCGAACCCGTTTGAAAAAGA
* *
81436 TGTTCGAGTTCCATACTCCCTAAAGAAGGAGGGAGCGAACTCGTTTGAAGAAGATGTTCGAGT
1 TGTTCGAGTTTCATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGT
81499 CTTATACTCT
Statistics
Matches: 242, Mismatches: 34, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
215 184 0.76
216 58 0.24
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (216 bp):
TGTTCGAGTTTCATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTC
CATACTCCCTAAAGAAAGAGGGAGCGAACCTATTTGCGGAGATCATTCGAGTTCTATACTCCCTA
AAGAAAGAGGGAGCGAACCCGTTTGAAAAAGATGTTCGAGATCCATACTCCCTAAAAAAAGAGGG
AGCGAACCCGTTTGAAAAAGA
Found at i:81550 original size:108 final size:109
Alignment explanation
Indices: 81003--81747 Score: 584
Period size: 108 Copynumber: 6.9 Consensus size: 109
80993 AGCAAAAAAT
* *
81003 ATTGTTCAAGTT-TCATACTCCCTAAAGACGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
1 ATTGTTCGAGTTCT-ATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * *
81067 TTTTATACTCCCTAAAGAAAGAGGGAGCGAACCT-ATT-TGCGGAG
65 TCTTATACTCCCTAAAGAAAGAGGGAGCGAACCTGATTGT-TGAAG
** * * * *
81111 ATCATTTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAAAAGATGTTCGAGT
1 ATTGTTCGAGTTCTATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGT
* * * * * *
81176 -TCCATACTCCCTAAAAAAAGAGGGAGCGGACCTGTTTG-CGGAG
66 CT-TATACTCCCTAAAGAAAGAGGGAGCGAACCTGATTGTTGAAG
* * * * *
81219 ATCGTTCGAGTTTTATACTCCCTAAAGAAGGAGTGA-CGAACCCTTTTGAAGAAGATGTTTGAGT
1 ATTGTTCGAGTTCTATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGT
** * *
81283 -TCCGTACTCCTTAAAGAAAGAGGGAGCGAACCT-ATT-TGTGGAG
66 CT-TATACTCCCTAAAGAAAGAGGGAGCGAACCTGATTGT-TGAAG
* *
81326 ATTGTTCGGGTTCTATACTCCCTAAAGAAGGATGGAGCGAACCCGTTTGAAGAAGATGTTCGAGA
1 ATTGTTCGAGTTCTATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG-
* * * ***
81391 TC-TATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAAAAG
65 TCTTATACTCCCTAAAGAAAGAGGGAGCGAACCTGATTGTTGAAG
* *
81435 A-TGTTCGAGTTCCATACTCCCTAAAGAAGGAGGGAGCGAACTCGTTTGAAGAAGATGTTCGAGT
1 ATTGTTCGAGTTCTATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGT
* * * * *
81499 CTTATACTCTCTGAAGGAATAGGGAGCG-ACATGATTGTTGAAG
66 CTTATACTCCCTAAAGAAAGAGGGAGCGAACCTGATTGTTGAAG
* * * * * * * *
81542 ATTATTCGAG-TCTTATATTCTCTGAAGGAA-TAGGGAGC-AGACGCGATT-ATTGAAGATTGTT
1 ATTGTTCGAGTTC-TATACTCCCT-AAAGAAGGAGGGAGCGA-ACCCGTTTGA-AGAAGA-TGTT
* ** * *
81603 CGAGTCTTAAACTCTATGAAGAAATAGGGAGCAGATA-C-GATTGTTGAAG
61 CGAGTCTTATACTCCCTAAAGAAAGAGGGAGC-GA-ACCTGATTGTTGAAG
* * ** * * * *
81652 A-TGTTTGAG-TCTTATACTCTCTGAAAG-ACTAGGGAGC-AGACACGATT-ATTGAAGATATTC
1 ATTGTTCGAGTTC-TATACTCCCT-AAAGAAGGAGGGAGCGA-ACCCGTTTGA-AGAAGATGTTC
*
81712 GAGT-TCTATACTTCCTAAAAGAAAGAGGGAGCGAAC
62 GAGTCT-TATACTCCCT-AAAGAAAGAGGGAGCGAAC
81748 TTGTCCCCAG
Statistics
Matches: 528, Mismatches: 84, Indels: 50
0.80 0.13 0.08
Matches are distributed among these distances:
106 2 0.00
107 108 0.20
108 297 0.56
109 107 0.20
110 13 0.02
112 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (109 bp):
ATTGTTCGAGTTCTATACTCCCTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGT
CTTATACTCCCTAAAGAAAGAGGGAGCGAACCTGATTGTTGAAG
Found at i:81623 original size:55 final size:54
Alignment explanation
Indices: 81485--81723 Score: 311
Period size: 54 Copynumber: 4.4 Consensus size: 54
81475 CTCGTTTGAA
* *
81485 GAAGATGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGC-GACATGATTGTT
1 GAAGATGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTATT
* * *
81538 GAAGATTATTCGAGTCTTATATTCTCTGAAGGAATAGGGAGCAGACGCGATTATT
1 GAAGA-TGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTATT
* * * * *
81593 GAAGATTGTTCGAGTCTTAAACTCTATGAAGAAATAGGGAGCAGATACGATTGTT
1 GAAGA-TGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTATT
* * *
81648 GAAGATGTTTGAGTCTTATACTCTCTGAAAGACTAGGGAGCAGACACGATTATT
1 GAAGATGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTATT
*
81702 GAAGATATTCGAGT-TCTATACT
1 GAAGATGTTCGAGTCT-TATACT
81724 TCCTAAAAGA
Statistics
Matches: 160, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
53 6 0.04
54 93 0.58
55 61 0.38
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (54 bp):
GAAGATGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTATT
Found at i:81630 original size:109 final size:108
Alignment explanation
Indices: 81485--81715 Score: 331
Period size: 109 Copynumber: 2.1 Consensus size: 108
81475 CTCGTTTGAA
* * * *
81485 GAAGATGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGC-GACATGATTGTTGAAGAT-TATT
1 GAAGATGTTCGAGTCTTAAACTCTATGAAGAAATAGGGAGCAGACACGATTGTTGAAGATGT-TT
* * *
81548 CGAGTCTTATATTCTCTGAAGGAATAGGGAGCAGACGCGATTATT
65 -GAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACACGATTATT
*
81593 GAAGATTGTTCGAGTCTTAAACTCTATGAAGAAATAGGGAGCAGATACGATTGTTGAAGATGTTT
1 GAAGA-TGTTCGAGTCTTAAACTCTATGAAGAAATAGGGAGCAGACACGATTGTTGAAGATGTTT
*
81658 GAGTCTTATACTCTCTGAAAGACTAGGGAGCAGACACGATTATT
65 GAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACACGATTATT
*
81702 GAAGATATTCGAGT
1 GAAGATGTTCGAGT
81716 TCTATACTTC
Statistics
Matches: 110, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
108 13 0.12
109 78 0.71
110 18 0.16
111 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (108 bp):
GAAGATGTTCGAGTCTTAAACTCTATGAAGAAATAGGGAGCAGACACGATTGTTGAAGATGTTTG
AGTCTTATACTCTCTGAAAGAATAGGGAGCAGACACGATTATT
Found at i:81734 original size:109 final size:109
Alignment explanation
Indices: 81492--81745 Score: 302
Period size: 109 Copynumber: 2.3 Consensus size: 109
81482 GAAGAAGATG
* * * * *
81492 TTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGACATGATTGTTGAAGATTATTCGAGTCTTA
1 TTCGAGTCTTAAACTCTATAAAGAAATAGGGAGCGACACGATTGTTGAAGATTATTCGAGTCTTA
* * * *
81557 TATTCTCTGAAGGAATAGGGAGCAGACGCGATTATTGAAGATTG
66 TACTCTCTGAAAGAATAGGGAGCAGACACGATTATTGAAGATTA
* *
81601 TTCGAGTCTTAAACTCTATGAAGAAATAGGGAGCAGATACGATTGTTGAAGATGT-TT-GAGTCT
1 TTCGAGTCTTAAACTCTATAAAGAAATAGGGAGC-GACACGATTGTTGAAGAT-TATTCGAGTCT
*
81664 TATACTCTCTGAAAGACTAGGGAGCAGACACGATTATTGAAGA-TA
64 TATACTCTCTGAAAGAATAGGGAGCAGACACGATTATTGAAGATTA
* *
81709 TTCGAGT-TCTATACTTCCTA-AAAGAAAGAGGGAGCGA
1 TTCGAGTCT-TAAAC-T-CTATAAAGAAATAGGGAGCGA
81746 ACTTGTCCCC
Statistics
Matches: 127, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
107 1 0.01
108 14 0.11
109 90 0.71
110 21 0.17
111 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (109 bp):
TTCGAGTCTTAAACTCTATAAAGAAATAGGGAGCGACACGATTGTTGAAGATTATTCGAGTCTTA
TACTCTCTGAAAGAATAGGGAGCAGACACGATTATTGAAGATTA
Found at i:82061 original size:24 final size:22
Alignment explanation
Indices: 82012--82062 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
82002 TATTATTATT
*
82012 ATTAATATTATTATAAGTAATT
1 ATTAATATTATTATAAGTAATA
82034 ATTAATATATATATATAA-TAAGTA
1 ATTAATAT-TAT-TATAAGTAA-TA
82058 ATTAA
1 ATTAA
82063 ATAAATAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 8 0.32
23 6 0.24
24 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (22 bp):
ATTAATATTATTATAAGTAATA
Found at i:83175 original size:92 final size:92
Alignment explanation
Indices: 83079--83251 Score: 240
Period size: 95 Copynumber: 1.8 Consensus size: 92
83069 AAATTTCGAA
* * * *
83079 TCGATTAACAGTTAAAGAAAAAATAA-TTTATTTTATTCGGTTAATAATTTTTAAATAAATTTCG
1 TCGATTAACAGTTAAAGAAAAAA-AAGTTGATTTGATTCGGTTAATAATTTTCAAATAAAATTCG
83143 ATTCGATTAACGGTCAAATAATTTCTGT
65 ATTCGATTAACGGTCAAATAATTTCTGT
** *
83171 TCGATTAATGGTTAAAGAAAAAAAAGCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAAATT
1 TCGATTAACAGTTAAAGAAAAAAAA---GTTGATTTGATTCGGTTAATAATTTTCAAATAAAATT
83236 CGATTCGATTAACGGT
63 CGATTCGATTAACGGT
83252 TAAAGAAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
91 2 0.03
92 21 0.30
95 47 0.67
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (92 bp):
TCGATTAACAGTTAAAGAAAAAAAAGTTGATTTGATTCGGTTAATAATTTTCAAATAAAATTCGA
TTCGATTAACGGTCAAATAATTTCTGT
Found at i:83284 original size:161 final size:160
Alignment explanation
Indices: 82995--83540 Score: 530
Period size: 161 Copynumber: 3.5 Consensus size: 160
82985 TTATATGGTT
* * * * * *
82995 AAATAAATTTCAGCTCTATTAATGGTTACAAGAAAAAAATTCGGTTAATTCGTTTCGTTTAATAA
1 AAAT-AATTTCAGTTCGATTAAT-GTTA-AAGAAAAAAAATCGGTTAATTTGGTTCGGTTAATAA
* *
83060 TTTTCAAATAAATTTCGAATCGATTAACAGTTAAAGAAAAAATAATTTATTTTATTCGGTTAATA
63 TTTTCAAATAAAATTCGATTCGATTAACAGTTAAAGAAAAAATAATTTATTTTATTCGGTTAATA
* *
83125 ATTTTTAAATAAATTTCGATTCGATTAACGGTC
128 ATTTTCAAATAAATTTCGGTTCGATTAACGGTC
* * *
83158 AAATAATTTCTGTTCGATTAATGGTTAAAGAAAAAAAAGCGGTTGATTTGGTTCGGTTAATAATT
1 AAATAATTTCAGTTCGATTAAT-GTTAAAGAAAAAAAATCGGTTAATTTGGTTCGGTTAATAATT
* *
83223 TTCAAATAAAATTCGATTCGATTAACGGTTAAAGAAAAAATAATTTATTTTATTTGGTTAATAAT
65 TTCAAATAAAATTCGATTCGATTAACAGTTAAAGAAAAAATAATTTATTTTATTCGGTTAATAAT
* * * *
83288 TTTCAAATAAATTTTGGTTTGATTAATGGTT
130 TTTCAAATAAATTTCGGTTCGATTAACGGTC
* *** * * * **** * * * **
83319 AAAGAA-AAAAATTCGGTTAATATT-TTTCAAATAAA-----T--TTTGATTC-G--ATTAATGG
1 AAATAATTTCAGTTCGATTAATGTTAAAGAAAAAAAATCGGTTAATTTGGTTCGGTTAATAATTT
* * * ** * *
83372 TCAAAT-AATTTCGGTTCGATTAA-TGTTAAAGAAAAAAATCGGTTAATTTGATTCGGTTAATAA
66 TCAAATAAAATTCGATTCGATTAACAGTTAAAG-AAAAAAT-AATTTATTTTATTCGGTTAATAA
83435 TTTTCAAATAAATTTCGGTTCGATTAACGGTC
129 TTTTCAAATAAATTTCGGTTCGATTAACGGTC
* *
83467 AAATAATTTCGGTTCGATTAATGTTAAAG-AAAAAAATCGGTTAATTTGG-TCGATTAATAATTT
1 AAATAATTTCAGTTCGATTAATGTTAAAGAAAAAAAATCGGTTAATTTGGTTCGGTTAATAATTT
83530 TCAAATAAAAT
66 TCAAATAAAAT
83541 ATTTTTTCTT
Statistics
Matches: 302, Mismatches: 66, Indels: 34
0.75 0.16 0.08
Matches are distributed among these distances:
146 7 0.02
147 22 0.07
148 62 0.21
149 17 0.06
150 1 0.00
151 7 0.02
153 1 0.00
154 1 0.00
155 2 0.01
156 4 0.01
158 17 0.06
159 5 0.02
160 9 0.03
161 123 0.41
162 20 0.07
163 4 0.01
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (160 bp):
AAATAATTTCAGTTCGATTAATGTTAAAGAAAAAAAATCGGTTAATTTGGTTCGGTTAATAATTT
TCAAATAAAATTCGATTCGATTAACAGTTAAAGAAAAAATAATTTATTTTATTCGGTTAATAATT
TTCAAATAAATTTCGGTTCGATTAACGGTC
Found at i:83343 original size:66 final size:66
Alignment explanation
Indices: 83156--83343 Score: 186
Period size: 66 Copynumber: 2.8 Consensus size: 66
83146 CGATTAACGG
** *
83156 TCAAAT-AATTTCT-GTTCGATTAATGGTTAAAGAAAAAAAAGCGGTTGATTTGGTTCGGTTAAT
1 TCAAATAAATTT-TGGTTCGATTAATGGTTAAAGAAAAAAATTCGGTT-ATAT--TTCGGTTAAT
83219 AATTT
62 AATTT
* * * * ** *
83224 TCAAATAAAATTCGATTCGATTAACGGTTAAAGAAAAAATAATT-TATTTTATTT-GGTTAATAA
1 TCAAATAAATTTTGGTTCGATTAATGGTTAAAG-AAAAA-AATTCGGTTATATTTCGGTTAATAA
83287 TTT
64 TTT
*
83290 TCAAATAAATTTTGGTTTGATTAATGGTTAAAGAAAAAAATTCGGTTAATATTT
1 TCAAATAAATTTTGGTTCGATTAATGGTTAAAGAAAAAAATTCGGTT-ATATTT
83344 TTCAAATAAA
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
64 4 0.04
65 7 0.07
66 45 0.47
67 2 0.02
68 6 0.06
69 23 0.24
70 7 0.07
71 2 0.02
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (66 bp):
TCAAATAAATTTTGGTTCGATTAATGGTTAAAGAAAAAAATTCGGTTATATTTCGGTTAATAATT
T
Found at i:83389 original size:26 final size:27
Alignment explanation
Indices: 83345--83396 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
83335 TTAATATTTT
*
83345 TCAAATAAATTTTGATTCGATTAATGG
1 TCAAATAAATTTCGATTCGATTAATGG
*
83372 TCAAAT-AATTTCGGTTCGATTAATG
1 TCAAATAAATTTCGATTCGATTAATG
83397 TTAAAGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (27 bp):
TCAAATAAATTTCGATTCGATTAATGG
Found at i:83441 original size:93 final size:93
Alignment explanation
Indices: 83329--83538 Score: 359
Period size: 93 Copynumber: 2.3 Consensus size: 93
83319 AAAGAAAAAA
* * *
83329 ATTCGGTTAATATTTTTCAAATAAATTTTGATTCGATTAATGGTCAAATAATTTCGGTTCGATTA
1 ATTCGGTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTA
83394 ATGTTAAAGAAAAAAATCGGTTAATTTG
66 ATGTTAAAGAAAAAAATCGGTTAATTTG
*
83422 ATTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTA
1 ATTCGGTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTA
83487 ATGTTAAAGAAAAAAATCGGTTAATTTG
66 ATGTTAAAGAAAAAAATCGGTTAATTTG
* *
83515 -GTCGATTAATAATTTTCAAATAAA
1 ATTCGGTTAATAATTTTCAAATAAA
83539 ATATTTTTTC
Statistics
Matches: 111, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 22 0.20
93 89 0.80
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.39
Consensus pattern (93 bp):
ATTCGGTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTA
ATGTTAAAGAAAAAAATCGGTTAATTTG
Found at i:98150 original size:15 final size:15
Alignment explanation
Indices: 98129--98167 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
98119 ATGATGAATT
98129 ATGTTTTGCTTATGA
1 ATGTTTTGCTTATGA
* *
98144 TTGTTTTGCTTATTA
1 ATGTTTTGCTTATGA
98159 ATGTTTTGC
1 ATGTTTTGC
98168 GTACTGTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.15, C:0.08, G:0.18, T:0.59
Consensus pattern (15 bp):
ATGTTTTGCTTATGA
Found at i:106303 original size:32 final size:32
Alignment explanation
Indices: 106241--106343 Score: 143
Period size: 32 Copynumber: 3.2 Consensus size: 32
106231 TTTAGCATAT
* * * *
106241 GAGCCAACATAAGGGAGAACCTTGGGGCCTTA
1 GAGCCTACCTAAGGGAGTACCTTGGAGCCTTA
* * *
106273 GAGCTTACCTAATGTAGTACCTTGGAGCCTTA
1 GAGCCTACCTAAGGGAGTACCTTGGAGCCTTA
106305 GAGCCTACCTAAGGGAGTACCTTGGAGCCTTA
1 GAGCCTACCTAAGGGAGTACCTTGGAGCCTTA
106337 GAGCCTA
1 GAGCCTA
106344 ACTTAGGGCC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (32 bp):
GAGCCTACCTAAGGGAGTACCTTGGAGCCTTA
Found at i:110612 original size:89 final size:90
Alignment explanation
Indices: 110448--110613 Score: 289
Period size: 90 Copynumber: 1.9 Consensus size: 90
110438 ATTTCATTTC
* *
110448 AATTAATTAAATATAGATTTAATCAATTTGAAATAATAAAATTCCTAATATGATTAGGGTAACTT
1 AATTAATTAAATATAGATTTAATCAATTTGAAATAATAAAATCCCTAATATGATTAGGGTAACCT
110513 GGATATAAAAGGATTATTAAATTCA
66 GGATATAAAAGGATTATTAAATTCA
*
110538 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGATTAGGGTAACCT
1 AATTAATTAAATATAGATTTAATCAATTTGAAATAATAAAATCCCTAATATGATTAGGGTAACCT
*
110602 GGCTATAAAAGG
66 GGATATAAAAGG
110614 GTGTGTTAGG
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 32 0.44
90 40 0.56
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (90 bp):
AATTAATTAAATATAGATTTAATCAATTTGAAATAATAAAATCCCTAATATGATTAGGGTAACCT
GGATATAAAAGGATTATTAAATTCA
Found at i:117310 original size:89 final size:88
Alignment explanation
Indices: 117204--117365 Score: 254
Period size: 89 Copynumber: 1.8 Consensus size: 88
117194 TCATTTCAAT
*
117204 TAATTAAATATAAATTT-AATCAATTTGAAATAATAAAATCCCTAATATGATTAGAGTAGCTTGG
1 TAATTAAATATAAATTTAAAT-AATTTGAAATAATAAAA-CCCTAATATGATTAGAGTAACTTGG
117268 ATATAAAAGGATTATTAAATTCCAA
64 ATATAAAAGGATTATTAAATTCCAA
* * * *
117293 TAATTAAATATAGATTTAAATAATTTGAAATAATAAAACCCTAATATGCTTAGGGTAACTTGGCT
1 TAATTAAATATAAATTTAAATAATTTGAAATAATAAAACCCTAATATGATTAGAGTAACTTGGAT
117358 ATAAAAGG
66 ATAAAAGG
117366 GTGTGTTAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
88 31 0.46
89 33 0.49
90 3 0.04
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (88 bp):
TAATTAAATATAAATTTAAATAATTTGAAATAATAAAACCCTAATATGATTAGAGTAACTTGGAT
ATAAAAGGATTATTAAATTCCAA
Found at i:118848 original size:20 final size:22
Alignment explanation
Indices: 118801--118854 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
118791 TCAAACCATT
*
118801 TAAATTGTAAACAATTTATAAA
1 TAAATTGTACACAATTTATAAA
118823 TAAATTGTACA-AATTTA-AAGA
1 TAAATTGTACACAATTTATAA-A
118844 T-AATT-TACACA
1 TAAATTGTACACA
118855 TTAAAACATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 4 0.14
20 7 0.24
21 8 0.28
22 10 0.34
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.35
Consensus pattern (22 bp):
TAAATTGTACACAATTTATAAA
Found at i:122673 original size:166 final size:166
Alignment explanation
Indices: 122380--123204 Score: 1399
Period size: 166 Copynumber: 5.0 Consensus size: 166
122370 TAATCTTAAC
* *
122380 TTTTTTCCATACATTGACCAAAAACTAAATTTGTATTTTTCATCTCAAATTTTCTTCATTCCGAA
1 TTTTTTCCATACATTGACCAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATT-CAAA
* *
122445 A-TAACATGGGGCTTACCAAGCCAATGTCTGCGTATTGACTGCTCTAAATGCAGGAA-TAAAAGA
65 ACTAACAT-GGGCTTACCAGGCCAATGTCTGCGTATTGACTGCTCTAGATGCAGGAATTAAAAGA
*
122508 AAAAAGTCTCTTTCATCCATTATTTGTATTAGCCTTAT
129 AAAAAGTCTCTTTCATCCATTATTTTTATTAGCCTTAT
122546 TTTTTTCCATACATTGACCAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATTCAAAA
1 TTTTTTCCATACATTGACCAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATTCAAAA
*
122611 CTAACATGGGCTTACCAGGCCAATGCCTGCGTATTGACTGCTCTAGATGCAGGAATTAAAAGAAA
66 CTAACATGGGCTTACCAGGCCAATGTCTGCGTATTGACTGCTCTAGATGCAGGAATTAAAAGAAA
*
122676 AAAGTCTCTTTCATCCATTATTTGTATTAGCCTTAT
131 AAAGTCTCTTTCATCCATTATTTTTATTAGCCTTAT
* *
122712 TTTTTTCCATACATTGACAAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATTCAATA
1 TTTTTTCCATACATTGACCAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATTCAAAA
*
122777 CTAGCATGGGCTTACCAGGCCAATGTCTGCGTATTGACTGCTCTAGATGCAGGAATTAAAAGAAA
66 CTAACATGGGCTTACCAGGCCAATGTCTGCGTATTGACTGCTCTAGATGCAGGAATTAAAAGAAA
*
122842 AAAGTCTCTTTCATTCATTATTTTTATTAGCCTTAAT
131 AAAGTCTCTTTCATCCATTATTTTTATTAGCCTT-AT
*
122879 TTTTTTCCATACATTGACCAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATTCCGAA
1 TTTTTTCCATACATTGACCAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATT-CAAA
* * * *
122944 A-TAACACGGGGCTTACCAGGCCAATGTCTACGTATTGACTGCTTTAGATTCAGGAATTAAAAGA
65 ACTAACA-TGGGCTTACCAGGCCAATGTCTGCGTATTGACTGCTCTAGATGCAGGAATTAAAAGA
*
123008 AAAAAGTCTCTTTCATCCATTATTTTTATTAGCCTTAA
129 AAAAAGTCTCTTTCATCCATTATTTTTATTAGCCTTAT
123046 TTTTTTCCATACATTGACCAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATTCAAAA
1 TTTTTTCCATACATTGACCAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATTCAAAA
*
123111 CTAACATGGGCTTACCAGGCCAATGTCTGCGTATTGACTGCTCTAGATGCAGAAATT-AAA-AAA
66 CTAACATGGGCTTACCAGGCCAATGTCTGCGTATTGACTGCTCTAGATGCAGGAATTAAAAGAAA
*
123174 AAAGTTTCTTTCATCCATTATTTTTATTAGC
131 AAAGTCTCTTTCATCCATTATTTTTATTAGC
123205 GAATGGAAAT
Statistics
Matches: 625, Mismatches: 28, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
164 33 0.05
165 52 0.08
166 318 0.51
167 131 0.21
168 91 0.15
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (166 bp):
TTTTTTCCATACATTGACCAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATTCAAAA
CTAACATGGGCTTACCAGGCCAATGTCTGCGTATTGACTGCTCTAGATGCAGGAATTAAAAGAAA
AAAGTCTCTTTCATCCATTATTTTTATTAGCCTTAT
Found at i:123061 original size:334 final size:331
Alignment explanation
Indices: 122374--123204 Score: 1393
Period size: 334 Copynumber: 2.5 Consensus size: 331
122364 TAATATTAAT
*
122374 CTTAACTTTTTTCCATACATTGACCAAAAACTAAATTTGTATTTTTCATCTCAAATTTTCTTCAT
1 CTTAA-TTTTTTCCATACATTGACCAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCAT
* *
122439 TCCGAAA-TAACATGGGGCTTACCAAGCCAATGTCTGCGTATTGACTGCTCTAAATGCAGGAA-T
65 T-C-AAACTAACAT-GGGCTTACCAGGCCAATGTCTGCGTATTGACTGCTCTAGATGCAGGAATT
*
122502 AAAAGAAAAAAGTCTCTTTCATCCATTATTTGTATTAGCCTTATTTTTTTCCATACATTGACCAA
127 AAAAGAAAAAAGTCTCTTTCATCCATTATTTTTATTAGCCTTATTTTTTTCCATACATTGACCAA
*
122567 AAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATTCAAAACTAACATGGGCTTACCAGGCC
192 AAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATTCAAAACTAACAGGGGCTTACCAGGCC
*
122632 AATGCCTGCGTATTGACTGCTCTAGATGCAGGAATTAAAAGAAAAAAGTCTCTTTCATCCATTAT
257 AATGCCTACGTATTGACTGCTCTAGATGCAGGAATTAAAAGAAAAAAGTCTCTTTCATCCATTAT
122697 TTGTATTAGC
322 TTGTATTAGC
* *
122707 CTTATTTTTTTCCATACATTGACAAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATT
1 CTTAATTTTTTCCATACATTGACCAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATT
*
122772 CAATACTAGCATGGGCTTACCAGGCCAATGTCTGCGTATTGACTGCTCTAGATGCAGGAATTAAA
66 CAA-ACTAACATGGGCTTACCAGGCCAATGTCTGCGTATTGACTGCTCTAGATGCAGGAATTAAA
*
122837 AGAAAAAAGTCTCTTTCATTCATTATTTTTATTAGCCTTAATTTTTTTCCATACATTGACCAAAA
130 AGAAAAAAGTCTCTTTCATCCATTATTTTTATTAGCCTT-ATTTTTTTCCATACATTGACCAAAA
*
122902 ACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATTCCGAAA-TAACACGGGGCTTACCAGGCC
194 ACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATT-CAAAACTAACA-GGGGCTTACCAGGCC
* * *
122966 AATGTCTACGTATTGACTGCTTTAGATTCAGGAATTAAAAGAAAAAAGTCTCTTTCATCCATTAT
257 AATGCCTACGTATTGACTGCTCTAGATGCAGGAATTAAAAGAAAAAAGTCTCTTTCATCCATTAT
*
123031 TTTTATTAGC
322 TTGTATTAGC
123041 CTTAATTTTTTCCATACATTGACCAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATT
1 CTTAATTTTTTCCATACATTGACCAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATT
*
123106 CAAAACTAACATGGGCTTACCAGGCCAATGTCTGCGTATTGACTGCTCTAGATGCAGAAATT-AA
66 C-AAACTAACATGGGCTTACCAGGCCAATGTCTGCGTATTGACTGCTCTAGATGCAGGAATTAAA
*
123170 A-AAAAAAGTTTCTTTCATCCATTATTTTTATTAGC
130 AGAAAAAAGTCTCTTTCATCCATTATTTTTATTAGC
123205 GAATGGAAAT
Statistics
Matches: 470, Mismatches: 21, Indels: 15
0.93 0.04 0.03
Matches are distributed among these distances:
330 2 0.00
331 48 0.10
332 136 0.29
333 74 0.16
334 208 0.44
335 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (331 bp):
CTTAATTTTTTCCATACATTGACCAAAAACTAAGTTTGTATTTTTCATCTCAAATTTTCTTCATT
CAAACTAACATGGGCTTACCAGGCCAATGTCTGCGTATTGACTGCTCTAGATGCAGGAATTAAAA
GAAAAAAGTCTCTTTCATCCATTATTTTTATTAGCCTTATTTTTTTCCATACATTGACCAAAAAC
TAAGTTTGTATTTTTCATCTCAAATTTTCTTCATTCAAAACTAACAGGGGCTTACCAGGCCAATG
CCTACGTATTGACTGCTCTAGATGCAGGAATTAAAAGAAAAAAGTCTCTTTCATCCATTATTTGT
ATTAGC
Found at i:126052 original size:32 final size:31
Alignment explanation
Indices: 125970--126053 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 31
125960 ATAGGACACA
*
125970 ACCTAAGGGAGTACCTTCGGGCCTTCGAGCCT
1 ACCTAAGGGAGTACCTT-GGGCCTTAGAGCCT
* * *
126002 ACCCAAGGCAGTACCTTGGAGTCTTAGAGCCT
1 ACCTAAGGGAGTACCTTGG-GCCTTAGAGCCT
* *
126034 ACCTAAGGGACTATCTTGGG
1 ACCTAAGGGAGTACCTTGGG
126054 ACCTAAGGGA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
31 3 0.07
32 40 0.93
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Consensus pattern (31 bp):
ACCTAAGGGAGTACCTTGGGCCTTAGAGCCT
Found at i:126059 original size:20 final size:20
Alignment explanation
Indices: 126034--126080 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
126024 CTTAGAGCCT
*
126034 ACCTAAGGGACTATCTTGGG
1 ACCTAAGGGACTACCTTGGG
126054 ACCTAAGGGACTACCTTGGG
1 ACCTAAGGGACTACCTTGGG
*
126074 GCCTAAG
1 ACCTAAG
126081 AGCCTACCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (20 bp):
ACCTAAGGGACTACCTTGGG
Found at i:126087 original size:20 final size:20
Alignment explanation
Indices: 126034--126088 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
126024 CTTAGAGCCT
* *
126034 ACCTAAGGGACTATCTTGGG
1 ACCTAAGAGACTACCTTGGG
*
126054 ACCTAAGGGACTACCTTGGG
1 ACCTAAGAGACTACCTTGGG
* *
126074 GCCTAAGAGCCTACC
1 ACCTAAGAGACTACC
126089 CAAGGGTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.20
Consensus pattern (20 bp):
ACCTAAGAGACTACCTTGGG
Found at i:133087 original size:32 final size:32
Alignment explanation
Indices: 133046--133151 Score: 108
Period size: 32 Copynumber: 3.3 Consensus size: 32
133036 GTATGCTATT
133046 TTCAGATAATGCACAACAGTGTCAGTGTCGTA
1 TTCAGATAATGCACAACAGTGTCAGTGTCGTA
* * * * * *
133078 TTCAGATAATGCAAAACAATGTCAATATTGCA
1 TTCAGATAATGCACAACAGTGTCAGTGTCGTA
* *
133110 TTCATATAATACACGAA-AGTGTCAAG-GTCGTA
1 TTCAGATAATGCAC-AACAGTGTC-AGTGTCGTA
133142 TTCAGATAAT
1 TTCAGATAAT
133152 CCATAGCAAT
Statistics
Matches: 57, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
32 54 0.95
33 3 0.05
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (32 bp):
TTCAGATAATGCACAACAGTGTCAGTGTCGTA
Found at i:137563 original size:14 final size:14
Alignment explanation
Indices: 137544--137573 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
137534 ATATTATGTA
137544 TTATAAATTTTAAG
1 TTATAAATTTTAAG
137558 TTATAAATTTTAAG
1 TTATAAATTTTAAG
137572 TT
1 TT
137574 TTTATGTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (14 bp):
TTATAAATTTTAAG
Found at i:138601 original size:25 final size:25
Alignment explanation
Indices: 138564--138616 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
138554 TATGTACACC
* *
138564 TAAATAATTTTTTTTAATTTTTATT
1 TAAATAATTTTTTATAATATTTATT
*
138589 TAAA-AATTATTTTATGATATTTATT
1 TAAATAATT-TTTTATAATATTTATT
138614 TAA
1 TAA
138617 TACAATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TAAATAATTTTTTATAATATTTATT
Found at i:138656 original size:21 final size:21
Alignment explanation
Indices: 138630--138671 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
138620 AATAATTAAT
*
138630 ATTATTTATTATAAAAAATTA
1 ATTATTAATTATAAAAAATTA
* *
138651 ATTATTAATTTTAAAATATTA
1 ATTATTAATTATAAAAAATTA
138672 TAATAATTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTATTAATTATAAAAAATTA
Found at i:139687 original size:3 final size:3
Alignment explanation
Indices: 139679--139723 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
139669 TGATTCTAGA
139679 ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT A-T ATT ATT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
139724 TTAGTATGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 6 0.15
3 33 0.85
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:139697 original size:11 final size:11
Alignment explanation
Indices: 139681--139723 Score: 59
Period size: 11 Copynumber: 3.6 Consensus size: 11
139671 ATTCTAGAAT
139681 TATTATTATTA
1 TATTATTATTA
139692 TATTATTATTA
1 TATTATTATTA
139703 TTATTATATTATTA
1 -TA-T-TATTATTA
139717 TATTATT
1 TATTATT
139724 TTAGTATGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 15 0.52
12 3 0.10
13 3 0.10
14 8 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTATTATTA
Found at i:139701 original size:17 final size:17
Alignment explanation
Indices: 139679--139723 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
139669 TGATTCTAGA
139679 ATTATTATTATTATATT
1 ATTATTATTATTATATT
139696 ATTATTATTATTATATT
1 ATTATTATTATTATATT
139713 ATTA-TATTATT
1 ATTATTATTATT
139724 TTAGTATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTATTATTATTATATT
Done.