Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000599.1 Hibiscus syriacus cultivar Beakdansim tig00001165_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: 68299
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:3669 original size:3 final size:3
Alignment explanation
Indices: 3661--3712 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
3651 ATATTAATTA
*
3661 ATT ATT ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3709 ATT A
1 ATT A
3713 AATATATTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:3720 original size:12 final size:10
Alignment explanation
Indices: 3652--3722 Score: 73
Period size: 9 Copynumber: 7.6 Consensus size: 10
3642 TTTTTACCCA
3652 TATTAATTAAT
1 TATTAATT-AT
3663 TATT-ATTAT
1 TATTAATTAT
3672 TATT-ATTAT
1 TATTAATTAT
*
3681 AATT-ATTAT
1 TATTAATTAT
3690 TATT-ATTAT
1 TATTAATTAT
3699 TATT-ATTAT
1 TATTAATTAT
*
3708 TATTAAATA-
1 TATTAATTAT
3717 TATTAA
1 TATTAA
3723 ATACATATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
9 46 0.82
10 6 0.11
11 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TATTAATTAT
Found at i:4149 original size:11 final size:11
Alignment explanation
Indices: 4133--4157 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4123 ACCCGAACTT
4133 GAAAAAAAAAA
1 GAAAAAAAAAA
4144 GAAAAAAAAAA
1 GAAAAAAAAAA
4155 GAA
1 GAA
4158 GAAGACAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:5108 original size:26 final size:26
Alignment explanation
Indices: 5079--5132 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
5069 TTAAATGTTG
*
5079 TTAAATATATAATAATAATATTTATT
1 TTAAATAAATAATAATAATATTTATT
* **
5105 TTAAATAAATTATTTTAATATTTATT
1 TTAAATAAATAATAATAATATTTATT
5131 TT
1 TT
5133 TCAGTATCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TTAAATAAATAATAATAATATTTATT
Found at i:5111 original size:13 final size:12
Alignment explanation
Indices: 5094--5132 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
5084 TATATAATAA
5094 TAATATTTATTT
1 TAATATTTATTT
*
5106 TAAATAAATTATTT
1 T-AAT-ATTTATTT
5120 TAATATTTATTT
1 TAATATTTATTT
5132 T
1 T
5133 TCAGTATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 9 0.39
13 6 0.26
14 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TAATATTTATTT
Found at i:17729 original size:83 final size:83
Alignment explanation
Indices: 17590--18065 Score: 857
Period size: 83 Copynumber: 5.7 Consensus size: 83
17580 CATTAAATGA
17590 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGA
*
17655 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTAG
17673 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGA
*
17738 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTAG
17756 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGA
17821 ACCAATCATTGAATTTAG
66 ACCAATCATTGAATTTAG
* *
17839 AAGATGAATTTGCCAATAGCATCTTCTGGAATTGTTCTTTGAGTTATCTGATCTG-GTTGGACAG
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGG-CAG
17903 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTTAG
*
17922 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT-AGTTGGACAG
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGG-CAG
17986 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTTAG
* *
18005 AAGATGAATTTGCCAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGG
18066 TAGGAACTAC
Statistics
Matches: 383, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
82 4 0.01
83 375 0.98
84 4 0.01
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (83 bp):
AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGA
ACCAATCATTGAATTTAG
Found at i:19122 original size:112 final size:112
Alignment explanation
Indices: 18814--19536 Score: 1123
Period size: 112 Copynumber: 6.5 Consensus size: 112
18804 TGGATTGACA
18814 TTTT-CAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
** * * *
18878 AGAATTTGTTCAACCTTTTGTCTGAATTCATTACTTGATGGATTATT
66 AGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCATC
18925 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
1 TTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
* *
18990 AAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCATC
65 AAGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCATC
19038 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
19103 AGAATTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGATCATC
66 AGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCATC
19150 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
** ***
19215 AGAA-TTCATCAACCTTTTGTTTGAATTCATCACTTGATGGATCATC
66 AGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCATC
*
19261 TTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
1 TTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
** *** *
19326 AAGAA-TTCATCAACCTTTTGTTTGAATTCATCAATTGATGGATCATC
65 AAGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCATC
*
19373 TTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGA
1 TTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAGTTCATAATGA
** * * *
19437 GAAGAGCTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAAC
64 GAAGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCATC
*
19486 ATTTT-CAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGA
1 -TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
19537 CAACTTTTTG
Statistics
Matches: 580, Mismatches: 25, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
111 51 0.09
112 378 0.65
113 147 0.25
114 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (112 bp):
TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCATC
Found at i:19880 original size:3 final size:3
Alignment explanation
Indices: 19872--19913 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
19862 ATATTAATTA
19872 ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
19914 AATATATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:19895 original size:20 final size:20
Alignment explanation
Indices: 19863--19911 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
19853 TTTTTACCCA
19863 TATTAATTA-ATTATTATTAT
1 TATT-ATTATATTATTATTAT
19883 TATTATTATATTATTATTAT
1 TATTATTATATTATTATTAT
19903 TATTATTAT
1 TATTATTAT
19912 TAAATATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTATTATATTATTATTAT
Found at i:21334 original size:13 final size:13
Alignment explanation
Indices: 21318--21357 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
21308 ATATAATAAA
21318 TAAATATTTATTT
1 TAAATATTTATTT
*
21331 TAAATAAATTATTT
1 TAAAT-ATTTATTT
21345 T-AATATTTATTT
1 TAAATATTTATTT
21357 T
1 T
21358 TCAGTATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:23569 original size:14 final size:13
Alignment explanation
Indices: 23532--23571 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
23522 TCATATTTAT
23532 AAAATTATAAAAA
1 AAAATTATAAAAA
23545 AAAATTATAAATAA
1 AAAATTATAAA-AA
23559 AAATATT-TAAAAA
1 AAA-ATTATAAAAA
23572 TAATAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 13 0.52
14 9 0.36
15 3 0.12
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATTATAAAAA
Found at i:25008 original size:41 final size:40
Alignment explanation
Indices: 24977--25056 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 40
24967 CAAATTCGCG
*
24977 CTGC-ATTTCGCGTTGTGATAGTTGAAAATCGCATTGCGA
1 CTGCTATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGA
* * *
25016 TTTTCTATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGA
1 -CTGCTATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGA
25057 TAGTCTACAG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 2 0.06
41 33 0.94
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.36
Consensus pattern (40 bp):
CTGCTATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGA
Found at i:25051 original size:21 final size:21
Alignment explanation
Indices: 24984--25060 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
24974 GCGCTGCATT
*
24984 TCGCGTTGTGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
25005 TCGCATTGCGAT-TTTCTATT
1 TCGCGTTGCGATAGTTGAAAA
25025 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
25046 TCGCGTTGCGATAGT
1 TCGCGTTGCGATAGT
25061 CTACAGTGTC
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
20 14 0.33
21 28 0.67
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:25059 original size:62 final size:62
Alignment explanation
Indices: 24984--25101 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 62
24974 GCGCTGCATT
* * *
24984 TCGCGTTGTGATAGT-TGAAAATCG-CATTGCGATTTTCTATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTCT-AAAAT-GTCATTACGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
* * *
25046 TCGCGTTGCGATAGTCTACAGTGTCGTTACGATTTTCCATTTCGCGTTGCGATAGT
1 TCGCGTTGCGATAGTCTAAAATGTCATTACGATTTTCCATTTCGCGTTGCGATAGT
25102 CTACAGTGTC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
61 1 0.02
62 46 0.96
63 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (62 bp):
TCGCGTTGCGATAGTCTAAAATGTCATTACGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
Found at i:25073 original size:21 final size:21
Alignment explanation
Indices: 25049--25201 Score: 94
Period size: 21 Copynumber: 7.4 Consensus size: 21
25039 TTGAAAATCG
25049 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTACAGTGT
* * * *
25070 CGTTACGAT--TTTCCA-TTT
1 CGTTGCGATAGTCTACAGTGT
25088 CGCGTTGCGATAGTCTACAGTGT
1 --CGTTGCGATAGTCTACAGTGT
*
25111 CGTTGCGATTA-TC--CA-TTT
1 CGTTGCGA-TAGTCTACAGTGT
25129 CGCGTTGCGATAGTCTACAGTGT
1 --CGTTGCGATAGTCTACAGTGT
*
25152 CGTTGCGATTA-TC--CA-TTT
1 CGTTGCGA-TAGTCTACAGTGT
*
25170 CGCGTTGCGATAGTGTACAGTGT
1 --CGTTGCGATAGTCTACAGTGT
25193 CGTTGCGAT
1 CGTTGCGAT
25202 TTTCCATTTC
Statistics
Matches: 100, Mismatches: 13, Indels: 38
0.66 0.09 0.25
Matches are distributed among these distances:
18 6 0.06
19 12 0.12
20 27 0.27
21 37 0.37
22 12 0.12
23 6 0.06
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (21 bp):
CGTTGCGATAGTCTACAGTGT
Found at i:25091 original size:41 final size:41
Alignment explanation
Indices: 25046--25220 Score: 314
Period size: 41 Copynumber: 4.3 Consensus size: 41
25036 TAGTTGAAAA
* *
25046 TCGCGTTGCGATAGTCTACAGTGTCGTTACGATTTTCCATT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTATCCATT
25087 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTATCCATT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTATCCATT
25128 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTATCCATT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTATCCATT
* *
25169 TCGCGTTGCGATAGTGTACAGTGTCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTATCCATT
25210 TCGCGTTGCGA
1 TCGCGTTGCGA
25221 CCACGACCAC
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 130 1.00
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTATCCATT
Found at i:25246 original size:5 final size:5
Alignment explanation
Indices: 25218--25268 Score: 75
Period size: 5 Copynumber: 9.6 Consensus size: 5
25208 TTTCGCGTTG
25218 CGACC ACGACC ACGACC ACGACC CGACC CGACC CGACC CGACC CGACC
1 CGACC -CGACC -CGACC -CGACC CGACC CGACC CGACC CGACC CGACC
25266 CGA
1 CGA
25269 GACGAGACGA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 28 0.62
6 17 0.38
ACGTcount: A:0.25, C:0.55, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:25782 original size:6 final size:6
Alignment explanation
Indices: 25766--25839 Score: 141
Period size: 6 Copynumber: 12.5 Consensus size: 6
25756 TCTCGTCTCG
25766 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
25813 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
25840 AATACGTGTC
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 5 0.07
6 63 0.93
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:25993 original size:41 final size:41
Alignment explanation
Indices: 25942--26224 Score: 274
Period size: 41 Copynumber: 6.9 Consensus size: 41
25932 GCGACGAATT
25942 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAA
* * *
25983 TGGAAAATCGCAACGACACTGTACACTATCGCAATGCGAGA
1 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAA
* * **
26024 TGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATT
1 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAA
** * * ** * *
26065 TTCAACTATCGCAACG-CGAAATG--GAAAATCGCAA--TGACAC
1 TGGAA-AATCGCAACGAC--ACTGTAGACTATCGCAACGCGA-AA
* * * *
26105 TGTACACTATCGCAACG-CGATTTTCA-ACTATCGCAACGCGAAA
1 TGGA-A-AATCGCAACGAC-ACTGT-AGACTATCGCAACGCGAAA
26148 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAA
26189 TGGAAAATCGCAACGACACTGTAGACTATCGCAACG
1 TGGAAAATCGCAACGACACTGTAGACTATCGCAACG
26225 ACACTGTAGA
Statistics
Matches: 199, Mismatches: 31, Indels: 24
0.78 0.12 0.09
Matches are distributed among these distances:
39 2 0.01
40 5 0.03
41 165 0.83
42 18 0.09
43 7 0.04
44 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (41 bp):
TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAA
Found at i:26056 original size:62 final size:62
Alignment explanation
Indices: 26007--26273 Score: 351
Period size: 62 Copynumber: 4.3 Consensus size: 62
25997 GACACTGTAC
* *
26007 ACTATCGCAATGCGAGATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTTCA
26069 ACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTTCA
* * ** **
26131 ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTTCA
* * ** * *
26193 A-AATCGCAA--CGACACTGTAGACTATCGCAACGACACTGTAGACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGA-AATG--GAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTTCA
*
26255 ACTATCGCAACGTGAAATG
1 ACTATCGCAACGCGAAATG
26274 CAACGCGAAT
Statistics
Matches: 180, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
59 3 0.02
60 3 0.02
61 7 0.04
62 155 0.86
63 7 0.04
64 3 0.02
65 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (62 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTTCA
Found at i:26088 original size:103 final size:102
Alignment explanation
Indices: 25942--26224 Score: 358
Period size: 103 Copynumber: 2.8 Consensus size: 102
25932 GCGACGAATT
25942 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAC
1 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAC
* * * *
26007 ACTATCGCAATGCGAGATGGAA-AATCGCAATG-ACAC
66 ACTATCGCAACGCGAGATGCAACAATCGCAACGCA-AA
* * * * *
26043 TGTACACTATCGCAACG-CGATTTTCA-ACTATCGCAACGCGAAATGGAAAATCGCAATGACACT
1 TGGA-A-AATCGCAACGAC-ACTGT-AGACTATCGCAACGCGAAATGGAAAATCGCAACGACACT
** * *
26106 GTACACTATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
62 GTACACTATCGCAACGCGAGATGCAACAATCGCAACGC-AAA
*
26148 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
1 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAC
26213 ACTATCGCAACG
66 ACTATCGCAACG
26225 ACACTGTAGA
Statistics
Matches: 154, Mismatches: 19, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
101 3 0.02
102 3 0.02
103 132 0.86
104 11 0.07
105 4 0.03
106 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (102 bp):
TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAC
ACTATCGCAACGCGAGATGCAACAATCGCAACGCAAA
Found at i:26159 original size:20 final size:20
Alignment explanation
Indices: 26134--26203 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
26124 ATTTTCAACT
26134 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
26154 ATCGCAA--CGACACTGTAGACT
1 ATCGCAACGCGA-AATG--GAAA
26175 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
26195 ATCGCAACG
1 ATCGCAACG
26204 ACACTGTAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 18 0.46
21 9 0.23
22 3 0.08
23 3 0.08
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.13
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:26277 original size:21 final size:21
Alignment explanation
Indices: 26048--26277 Score: 86
Period size: 21 Copynumber: 11.1 Consensus size: 21
26038 GACACTGTAC
** *
26048 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
26069 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * * *
26090 A-AATCGCAA--TGACACTGTA
1 ACTATCGCAACGCGA-AATGCA
** *
26109 CACTATCGCAACGCGATTTTCA
1 -ACTATCGCAACGCGAAATGCA
*
26131 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * *
26152 A-AATCGCAA--CGACACTGTA
1 ACTATCGCAACGCGA-AATGCA
*
26171 GACTATCGCAACGCGAAATGGA
1 -ACTATCGCAACGCGAAATGCA
* * *
26193 A-AATCGCAA--CGACACTGTA
1 ACTATCGCAACGCGA-AATGCA
* *
26212 GACTATCGCAA--CGACACTGTA
1 -ACTATCGCAACGCGA-AATGCA
** *
26233 GACTATCGCAACGCGATTTTCA
1 -ACTATCGCAACGCGAAATGCA
*
26255 ACTATCGCAACGTGAAATGCA
1 ACTATCGCAACGCGAAATGCA
26276 AC
1 AC
26278 GCGAATTTGC
Statistics
Matches: 158, Mismatches: 36, Indels: 30
0.71 0.16 0.13
Matches are distributed among these distances:
18 8 0.05
19 12 0.08
20 24 0.15
21 98 0.62
22 8 0.05
23 8 0.05
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:31281 original size:22 final size:24
Alignment explanation
Indices: 31237--31283 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
31227 CGTTCTTTAA
31237 TATTAATTATGTATAATGATATTT
1 TATTAATTATGTATAATGATATTT
* *
31261 TATT-ATTAT-TATCATTATATTT
1 TATTAATTATGTATAATGATATTT
31283 T
1 T
31284 TCTATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
23 5 0.24
24 4 0.19
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (24 bp):
TATTAATTATGTATAATGATATTT
Found at i:33320 original size:197 final size:198
Alignment explanation
Indices: 32767--33463 Score: 845
Period size: 197 Copynumber: 3.5 Consensus size: 198
32757 ACCTAAATAT
* * *
32767 GTGTCGATACATTTTCTAAAAGTATCGACCCAAAAAACATCGAAACCAATAATTATAATGTAATA
1 GTGTCGATACATTTT-TAAAAATATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * *
32832 GGTAAATTAACAATGTAACCGGTGTAAATATACCGG-TTAAT-TAGAAAACAGGTAAACATAATG
65 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGT-GAAAATATGT-CACATAATG
* * *
32895 TATCGACACTTGTTTAATTTGTGTCGATACTTATTGTCCAAAATGAATGCCCAAACGGGGTGTAC
128 TATCGACACTTATTTAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAC-GGGTGAAC
32960 GCATAAA
192 GCATAAA
* * *
32967 GTGTCGATACAATTATTAAAAGTATCGATCCCAATAAA-ATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATAC-ATTTTTAAAAATATCGAT-CCAAAAAACATCGAAACCGATAATTATAATGTAAT
* * *
33031 ATGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAAT-TGGTCATCATAAA
64 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGTGAAAATAT-GTCA-CATAAT
* * * * *
33095 GTATCGATACTTATTAAATTTGTGTCGATA-TATTTTGTCCATAATGAATG-CCAGACGGGTGCA
127 GTATCGACACTTATTTAATTTGTGTCGATACT-TTTTGTCCAAAATGAATGCCCAAACGGGTGAA
*
33158 CTCATAAA
191 CGCATAAA
* *
33166 GTATCGATACATTTTTAAAAATATCGATCCAAAAAACATCGAAACCCATAATTATAATGTAA-AG
1 GTGTCGATACATTTTTAAAAATATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAG
* ** * ** * *
33230 GTAATTTTGTAATATAACCGGTATATTTATACCGGTTTTATGTGAGAATATGTCTACATAATGTG
66 GTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGTGAAAATATGTC-ACATAATGTA
* * * *
33295 TCAACACTT-TTTAATGTTATGTCGATACTTTTT-TCCAGAATGAATGCCCAAAAGGGTGAACGC
130 TCGACACTTATTTAAT-TTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAACGGGTGAACGC
*
33358 ATATA
194 ATAAA
*
33363 GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTTTAAAAA-TATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATA
* *
33428 GGTAAATTTGCAATGTTACCGGTATAAATATACCGG
65 GGTAAATTTACAATGTAACCGGTATAAATATACCGG
33464 CTTACTTATA
Statistics
Matches: 426, Mismatches: 56, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
196 17 0.04
197 115 0.27
198 83 0.19
199 53 0.12
200 88 0.21
201 70 0.16
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (198 bp):
GTGTCGATACATTTTTAAAAATATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGTGAAAATATGTCACATAATGTAT
CGACACTTATTTAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAACGGGTGAACGCAT
AAA
Found at i:33530 original size:23 final size:23
Alignment explanation
Indices: 33484--33531 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
33474 AAATATGTCA
*
33484 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTAATACATT
* * *
33507 ATATAAGCGTTATCTAATATATT
1 ATATAAGCGCTACCTAATACATT
33530 AT
1 AT
33532 TGTATTTGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATACATT
Found at i:33590 original size:87 final size:87
Alignment explanation
Indices: 33484--33646 Score: 254
Period size: 87 Copynumber: 1.9 Consensus size: 87
33474 AAATATGTCA
* * * *
33484 ATATAAGCGCTACCTATTACATTATATAAGCGTTATCTAATATATTATTGTATTTGATAATATTT
1 ATATAAGCGCCACCTATTACATTATATAAGCGTTACCTAATATATTATTGTACTTAATAATATTT
33549 CCGGTTAAATACCTATTTTATT
66 CCGGTTAAATACCTATTTTATT
* *
33571 ATATAAGTGCCACCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTAATAATATTT
1 ATATAAGCGCCACCTATTACATTATATAAGCGTTACCTAATATATTATTGTACTTAATAATATTT
**
33636 CTTGTTAAATA
66 CCGGTTAAATA
33647 ATATAACATA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (87 bp):
ATATAAGCGCCACCTATTACATTATATAAGCGTTACCTAATATATTATTGTACTTAATAATATTT
CCGGTTAAATACCTATTTTATT
Found at i:33608 original size:23 final size:23
Alignment explanation
Indices: 33558--33609 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
33548 TCCGGTTAAA
** *
33558 TACCTATTTTATTATATAAGTGC
1 TACCTATTACATTATATAAGCGC
* *
33581 CACCTATTACATTATATAAGCGT
1 TACCTATTACATTATATAAGCGC
33604 TACCTA
1 TACCTA
33610 ATATGTTATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (23 bp):
TACCTATTACATTATATAAGCGC
Found at i:34263 original size:23 final size:23
Alignment explanation
Indices: 34237--34285 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
34227 TAACTCTACT
* * *
34237 TTTATAACATATTTTCTTTTATC
1 TTTATAACACATTTTCCTCTATC
*
34260 TTTATGACACATTTTCCTCTATC
1 TTTATAACACATTTTCCTCTATC
34283 TTT
1 TTT
34286 TCGCACATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.18, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTATAACACATTTTCCTCTATC
Found at i:39943 original size:35 final size:33
Alignment explanation
Indices: 39904--39972 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
39894 GTTAATGACT
* *
39904 GTTAATATCGAGTAGTGATTGATTTGTTACAAATC
1 GTTAATATCGA--AGTGACTAATTTGTTACAAATC
*
39939 GTTAATGTCGAAGTGACTAATTTGTTACAAATC
1 GTTAATATCGAAGTGACTAATTTGTTACAAATC
39972 G
1 G
39973 ACAATGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 21 0.68
35 10 0.32
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (33 bp):
GTTAATATCGAAGTGACTAATTTGTTACAAATC
Found at i:39994 original size:31 final size:33
Alignment explanation
Indices: 39917--39996 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
39907 AATATCGAGT
* **
39917 AGTGATTGATTTGTTACAAATCGTTAATGTCGA
1 AGTGATTAATTTGTTACAAATCGACAATGTCGA
* *
39950 AGTGACTAATTTGTTACAAATCGACAATGT-TA
1 AGTGATTAATTTGTTACAAATCGACAATGTCGA
39982 A-TGATTAATTTGTTA
1 AGTGATTAATTTGTTA
39997 TTTTTGAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 13 0.32
32 2 0.05
33 26 0.63
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (33 bp):
AGTGATTAATTTGTTACAAATCGACAATGTCGA
Found at i:41146 original size:17 final size:17
Alignment explanation
Indices: 41106--41151 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
41096 TTTTAATATT
*
41106 ATATATTTAATTTATTTA
1 ATAT-TTTACTTTATTTA
41124 AGTATTTTACTTTATTTA
1 A-TATTTTACTTTATTTA
*
41142 ATATTATACT
1 ATATTTTACT
41152 AATATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.32
18 14 0.56
19 3 0.12
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
ATATTTTACTTTATTTA
Found at i:48264 original size:12 final size:12
Alignment explanation
Indices: 48247--48281 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
48237 AAAGTTGGAG
48247 GGAGAAGGAAGT
1 GGAGAAGGAAGT
48259 GGAGAAGGAAGT
1 GGAGAAGGAAGT
*
48271 GAAGAAGGAAG
1 GGAGAAGGAAG
48282 GGAAGAAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.49, T:0.06
Consensus pattern (12 bp):
GGAGAAGGAAGT
Found at i:48288 original size:12 final size:11
Alignment explanation
Indices: 48245--48284 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
48235 AGAAAGTTGG
48245 AGGGAGAAGGA
1 AGGGAGAAGGA
48256 AGTGGAGAAGGA
1 AG-GGAGAAGGA
*
48268 AGTGAAGAAGGA
1 AG-GGAGAAGGA
48280 AGGGA
1 AGGGA
48285 AGAAAGGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 4 0.15
12 22 0.85
ACGTcount: A:0.45, C:0.00, G:0.50, T:0.05
Consensus pattern (11 bp):
AGGGAGAAGGA
Found at i:51383 original size:17 final size:18
Alignment explanation
Indices: 51363--51396 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51353 GTTTTTTTAT
51363 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
51380 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
51397 TCGAAACCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:51715 original size:15 final size:15
Alignment explanation
Indices: 51695--51745 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
51685 CACTCATAAC
51695 TTGTTTCAGTTAAGA
1 TTGTTTCAGTTAAGA
* *
51710 TTGTTTCA-ATAA-C
1 TTGTTTCAGTTAAGA
*
51723 TTGTTTCAGTTGAGA
1 TTGTTTCAGTTAAGA
51738 TTGTTTCA
1 TTGTTTCA
51746 ATAACTTGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
13 8 0.28
14 5 0.17
15 16 0.55
ACGTcount: A:0.24, C:0.10, G:0.18, T:0.49
Consensus pattern (15 bp):
TTGTTTCAGTTAAGA
Found at i:51730 original size:28 final size:28
Alignment explanation
Indices: 51690--51760 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
51680 AACTTCACTC
51690 ATAACTTGTTTCAGTTAAGATTGTTTCA
1 ATAACTTGTTTCAGTTAAGATTGTTTCA
*
51718 ATAACTTGTTTCAGTTGAGATTGTTTCA
1 ATAACTTGTTTCAGTTAAGATTGTTTCA
*
51746 ATAACTTGATTCAGT
1 ATAACTTGTTTCAGT
51761 CGAATTGTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (28 bp):
ATAACTTGTTTCAGTTAAGATTGTTTCA
Found at i:52297 original size:17 final size:17
Alignment explanation
Indices: 52275--52320 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
52265 ATAGTAAAAA
*
52275 AATTTGTCGGCGATACG
1 AATTTGTCGACGATACG
52292 AATTTGTCGACGATACG
1 AATTTGTCGACGATACG
52309 AATTTGTCGACG
1 AATTTGTCGACG
52321 GAGGTGTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (17 bp):
AATTTGTCGACGATACG
Found at i:61177 original size:23 final size:23
Alignment explanation
Indices: 61150--61207 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 23
61140 ACTTTGAAAA
61150 TGGTTTTCAAAGTTT-TCAAA-GTT
1 TGGTTTTCAAAGTTTGT-AAATG-T
61173 TGG-TTTCAAAGTTTGGTAAATGT
1 TGGTTTTCAAAGTTT-GTAAATGT
61196 TGGTTTTCAAAG
1 TGGTTTTCAAAG
61208 GTAGGCACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 11 0.35
23 10 0.32
24 10 0.32
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (23 bp):
TGGTTTTCAAAGTTTGTAAATGT
Found at i:61181 original size:13 final size:13
Alignment explanation
Indices: 61163--61189 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61153 TTTTCAAAGT
61163 TTTCAAAGTTTGG
1 TTTCAAAGTTTGG
61176 TTTCAAAGTTTGG
1 TTTCAAAGTTTGG
61189 T
1 T
61190 AAATGTTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.48
Consensus pattern (13 bp):
TTTCAAAGTTTGG
Found at i:64837 original size:20 final size:19
Alignment explanation
Indices: 64769--64857 Score: 81
Period size: 21 Copynumber: 4.5 Consensus size: 19
64759 TTAAAATAAT
64769 AATAAATTTAATATTTTAA
1 AATAAATTTAATATTTTAA
* *
64788 AATAAAATTCAATATGTATAAA
1 AAT-AAATTTAATAT-T-TTAA
64810 AATAAATTTAATATCTTTAA
1 AATAAATTTAATAT-TTTAA
* *
64830 AATGAATTTTAA-ATTTAAA
1 AAT-AAATTTAATATTTTAA
*
64849 AATCAATTT
1 AATAAATTT
64858 CACCAAATTC
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
18 4 0.07
19 10 0.18
20 18 0.32
21 19 0.33
22 6 0.11
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (19 bp):
AATAAATTTAATATTTTAA
Found at i:65678 original size:14 final size:15
Alignment explanation
Indices: 65659--65695 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
65649 TAATGTAATT
65659 AATATTTTAT-TTTA
1 AATATTTTATCTTTA
*
65673 AATATTTTATCTTTG
1 AATATTTTATCTTTA
65688 AAT-TTTTA
1 AATATTTTA
65696 ACTAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
AATATTTTATCTTTA
Done.