Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003506.1 Hibiscus syriacus cultivar Beakdansim tig00007413_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: 74365
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:6947 original size:5 final size:5
Alignment explanation
Indices: 6937--7146 Score: 313
Period size: 5 Copynumber: 41.6 Consensus size: 5
6927 ATTTTCTAAT
6937 ATATA ATATA ATATA ATATA ATAT- ATATA ATATA ATAT- ATATA ATAT-
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
*
6984 ATAATA TATATA ATATA ATATA ATAT- ATATA ATATA ATATA AGATA ATATA
1 AT-ATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
7035 ATATA ATATA ATATA ATATA ATATA ATATA ATATAA ATAATA ATATA AT-TA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATAT-A AT-ATA ATATA ATATA
7086 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAATA TATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA -ATATA ATATA
7138 ATATCA ATA
1 ATAT-A ATA
7147 CCATGCATTC
Statistics
Matches: 191, Mismatches: 2, Indels: 23
0.88 0.01 0.11
Matches are distributed among these distances:
4 18 0.09
5 148 0.77
6 19 0.10
7 6 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:21121 original size:2 final size:2
Alignment explanation
Indices: 21114--21142 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21104 TTCAAACATT
21114 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21143 GAGATATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23367 original size:31 final size:31
Alignment explanation
Indices: 23332--23396 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
23322 TCCCTTAAGT
23332 AATGTCAGATGTTCGAATCATGATATGTT-CG
1 AATGTCAGATGTTCGAATCATGATAT-TTGCG
* *
23363 AATGTCAGATGTTTGAATTATGATATTTGCG
1 AATGTCAGATGTTCGAATCATGATATTTGCG
23394 AAT
1 AAT
23397 TGGGGTGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (31 bp):
AATGTCAGATGTTCGAATCATGATATTTGCG
Found at i:31700 original size:3 final size:3
Alignment explanation
Indices: 31692--31840 Score: 235
Period size: 3 Copynumber: 49.7 Consensus size: 3
31682 TTAATATATT
* * *
31692 TAA TAA TAA TAG TAA AAA TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
31740 TAA TAT TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
31788 TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
31836 TAA TA
1 TAA TA
31841 TGGATAAAAA
Statistics
Matches: 132, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 132 1.00
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:32352 original size:113 final size:113
Alignment explanation
Indices: 32131--32807 Score: 1275
Period size: 113 Copynumber: 6.0 Consensus size: 113
32121 AGATAATATC
* * *
32131 AAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTT
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
32195 TCATTCATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATT-ATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
32244 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
32309 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
32357 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
32422 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
32470 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
32535 TCATTATGAACTTTCTCTGGTAATGTTGATTCATCAAATGATGAATTT
66 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
*
32583 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
32648 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
32696 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
32761 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATT
66 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATT
32808 CAAAATCTTT
Statistics
Matches: 554, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
113 492 0.89
114 62 0.11
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (113 bp):
AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
Found at i:33604 original size:133 final size:134
Alignment explanation
Indices: 33366--33740 Score: 700
Period size: 133 Copynumber: 2.8 Consensus size: 134
33356 TACACTTCTT
*
33366 CAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAATCAGATCAGATAACTC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAATCAGATCAGATAACTC
33431 AAAGAACACTTCCAGAAGAATGCTATTGATGAATTCATCTTTCAAATTCAATGCTT-GTTCTGTT
66 AAAGAACACTTCCAGAAGAATGCTATTGATGAATTCATCTTTCAAATTCAATGCTTGGTTCTGTT
33495 CAAC
131 CAAC
33499 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAATCAGATCAGATAACTC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAATCAGATCAGATAACTC
33564 AAAGAACACTTCCAGAAGAATGCTATTGATGAATTCATCTTTCAAATTCAATGCTTGGTTCTGTT
66 AAAGAACACTTCCAGAAGAATGCTATTGATGAATTCATCTTTCAAATTCAATGCTTGGTTCTGTT
33629 CAAC
131 CAAC
*
33633 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTTTGTCTAATCAGATCAGATAACTC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAATCAGATCAGATAACTC
* *
33698 AAAGAACACTTCCAGAAG-ATGCTATTGGTAAATTCATCTTTCA
66 AAAGAACACTTCCAGAAGAATGCTATTGATGAATTCATCTTTCA
33741 TTTAATGTTT
Statistics
Matches: 237, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
133 143 0.60
134 94 0.40
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.29
Consensus pattern (134 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAATCAGATCAGATAACTC
AAAGAACACTTCCAGAAGAATGCTATTGATGAATTCATCTTTCAAATTCAATGCTTGGTTCTGTT
CAAC
Found at i:34513 original size:16 final size:17
Alignment explanation
Indices: 34475--34519 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
34465 ATGTTAAAAG
*
34475 AATAAATTGAATTTCAAA
1 AATAAATTGAATCTC-AA
34493 AATAAATTGAATCTC-A
1 AATAAATTGAATCTCAA
34509 AATAAATTGAA
1 AATAAATTGAA
34520 CTTGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (17 bp):
AATAAATTGAATCTCAA
Found at i:34869 original size:12 final size:12
Alignment explanation
Indices: 34852--34915 Score: 76
Period size: 12 Copynumber: 5.1 Consensus size: 12
34842 ACCCCCTTTC
*
34852 TTTTCTTCTCTT
1 TTTTCTTTTCTT
34864 TTTTCTACTTTCTAT
1 TTTTCT--TTTCT-T
34879 TTTT-TTTTCTT
1 TTTTCTTTTCTT
34890 TTTTCTTTTCTTT
1 TTTTCTTTTC-TT
34903 TTTTCTTTTCTT
1 TTTTCTTTTCTT
34915 T
1 T
34916 ATTTTATTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
11 5 0.11
12 19 0.41
13 12 0.26
14 5 0.11
15 5 0.11
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:34898 original size:16 final size:16
Alignment explanation
Indices: 34848--34937 Score: 56
Period size: 17 Copynumber: 5.2 Consensus size: 16
34838 CTTGACCCCC
34848 TTTCTTTTCTTCTCTTTT
1 TTTCTTTT-TTCT-TTTT
*
34866 TTCTACTTTCTAT-TTTTT
1 TT-T-CTTT-TTTCTTTTT
34884 TTTCTTTTTTCTTTTCT
1 TTTCTTTTTTCTTTT-T
* *
34901 TTTTTTCTTTTCTTTAT
1 TTTCTT-TTTTCTTTTT
* *
34918 TTTATTTTTCCTTTATT
1 TTTCTTTTTTCTTT-TT
34935 TTT
1 TTT
34938 TCTTCAAGCA
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
15 2 0.03
16 15 0.26
17 17 0.29
18 16 0.28
19 2 0.03
20 5 0.09
21 1 0.02
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTTTTTTCTTTTT
Found at i:34911 original size:19 final size:18
Alignment explanation
Indices: 34848--34915 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 18
34838 CTTGACCCCC
*
34848 TTTCTTTTCTTCTC-TTT
1 TTTCTTTTCTTTTCTTTT
34865 TTTCTACTTTCTATTT-TTTT
1 TTTCT--TTTCT-TTTCTTTT
*
34885 TTCTTTTTTCTTTTCTTTT
1 TT-TCTTTTCTTTTCTTTT
34904 TTTCTTTTCTTT
1 TTTCTTTTCTTT
34916 ATTTTATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
17 5 0.12
18 12 0.29
19 16 0.38
20 7 0.17
21 2 0.05
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCTTTTCTTTTCTTTT
Found at i:45556 original size:13 final size:15
Alignment explanation
Indices: 45534--45570 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
45524 TTTGACATAA
45534 AAAT-AAATAC-TG-
1 AAATAAAATACTTGC
45546 AAATAAAATACTTGC
1 AAATAAAATACTTGC
45561 AAATAAAATA
1 AAATAAAATA
45571 AAACATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 2 0.09
15 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (15 bp):
AAATAAAATACTTGC
Found at i:47664 original size:3 final size:3
Alignment explanation
Indices: 47656--47784 Score: 199
Period size: 3 Copynumber: 43.7 Consensus size: 3
47646 TTAATATATT
* *
47656 TAA TAA TAA TAG TAA -AA TAA TAA TAA T-A TAA TAA AAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
47702 TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
47750 TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
47785 TGGATAAAAA
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
2 4 0.04
3 110 0.96
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:52161 original size:3 final size:3
Alignment explanation
Indices: 52153--52208 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
52143 ATATATATAT
52153 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
52201 ATA ATA AT
1 ATA ATA AT
52209 TTGATTGAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:58175 original size:17 final size:18
Alignment explanation
Indices: 58135--58180 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
58125 CATCTAGGTA
58135 TAAAAAATATTTTATGAT
1 TAAAAAATATTTTATGAT
58153 TAAAAAATATTTTATGAT
1 TAAAAAATATTTTATGAT
58171 TAAAAAATAT
1 TAAAAAATAT
58181 ACAAATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (18 bp):
TAAAAAATATTTTATGAT
Found at i:58307 original size:27 final size:26
Alignment explanation
Indices: 58277--58332 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
58267 TAAACTTAAG
58277 TAAGAATCTAA-ATAAAAATATGTATTT
1 TAAGAATCTAATATAAAAATA--TATTT
* * *
58304 TAAGTATTTAATTTAAAAATATATTT
1 TAAGAATCTAATATAAAAATATATTT
58330 TAA
1 TAA
58333 AAAATGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 8 0.32
27 9 0.36
28 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (26 bp):
TAAGAATCTAATATAAAAATATATTT
Found at i:65267 original size:31 final size:31
Alignment explanation
Indices: 65198--65267 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 31
65188 TTTTTATAAG
* **
65198 TTATAAAATGATCATTAAATTTATTGAATTA
1 TTATAAAATGATCATTAAATATATTGAACAA
*
65229 TTTTAAAATGATCATTACAATA-ATAT-AACAA
1 TTATAAAATGATCATTA-AATATAT-TGAACAA
65260 TTATAAAA
1 TTATAAAA
65268 ATTTAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (31 bp):
TTATAAAATGATCATTAAATATATTGAACAA
Found at i:65295 original size:31 final size:30
Alignment explanation
Indices: 65260--65345 Score: 102
Period size: 30 Copynumber: 2.8 Consensus size: 30
65250 AATATAACAA
*
65260 TTATAAAAATTTAATAAATTTAATAATAATT
1 TTATAAAAATTTGATAAATTTAATAAT-ATT
* * *
65291 TTATAAAAA-ATGATAAATTAAATGACTATT
1 TTATAAAAATTTGATAAATTTAAT-AATATT
*
65321 TTATAAATATTTGATAAATTTAATA
1 TTATAAAAATTTGATAAATTTAATA
65346 GTTTTTTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
30 23 0.50
31 23 0.50
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (30 bp):
TTATAAAAATTTGATAAATTTAATAATATT
Found at i:65411 original size:18 final size:19
Alignment explanation
Indices: 65377--65415 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
65367 AAAAGACAAA
*
65377 TAATTATTTGAATGTAATT
1 TAATGATTTGAATGTAATT
65396 TAATGATTTG-ATGTAATT
1 TAATGATTTGAATGTAATT
65414 TA
1 TA
65416 CACAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (19 bp):
TAATGATTTGAATGTAATT
Found at i:66934 original size:21 final size:22
Alignment explanation
Indices: 66899--66941 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
66889 AAGTAAGAAT
*
66899 TTTTTTATTTTTTTATTAAATA
1 TTTTTTATTTCTTTATTAAATA
*
66921 TTTTTTA-TTCTTTATTTAATA
1 TTTTTTATTTCTTTATTAAATA
66942 ATAATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTTTATTTCTTTATTAAATA
Found at i:68984 original size:13 final size:13
Alignment explanation
Indices: 68968--68992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68958 ATGTAAAAAC
68968 TATATTTAAATTA
1 TATATTTAAATTA
68981 TATATTTAAATT
1 TATATTTAAATT
68993 TTAAATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATTTAAATTA
Found at i:72199 original size:55 final size:55
Alignment explanation
Indices: 72138--72246 Score: 218
Period size: 55 Copynumber: 2.0 Consensus size: 55
72128 AGTTTTGATT
72138 ATCTGTTGTAATTTTTCTAATCCATTAAATATTTCAAATAAAATTCAAAGTGTTG
1 ATCTGTTGTAATTTTTCTAATCCATTAAATATTTCAAATAAAATTCAAAGTGTTG
72193 ATCTGTTGTAATTTTTCTAATCCATTAAATATTTCAAATAAAATTCAAAGTGTT
1 ATCTGTTGTAATTTTTCTAATCCATTAAATATTTCAAATAAAATTCAAAGTGTT
72247 ATATATTTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (55 bp):
ATCTGTTGTAATTTTTCTAATCCATTAAATATTTCAAATAAAATTCAAAGTGTTG
Found at i:73043 original size:47 final size:46
Alignment explanation
Indices: 72950--73059 Score: 134
Period size: 47 Copynumber: 2.3 Consensus size: 46
72940 CACAAAGGGG
* *
72950 TATAGCGCGGGGCAAGGGCCGCGCCTTACCTTTAATTCTGATTTATA
1 TATAGCGCGGGGCAAGGGACGCGCCATACCTTTAA-TCTGATTTATA
*
72997 TATAGCGCGGGGCAGGGGACGCGCCATACCTTTAA-CTGATAATTATA
1 TATAGCGCGGGGCAAGGGACGCGCCATACCTTTAATCTGAT--TTATA
*
73044 TA-AGGCGCGGTGCAAG
1 TATA-GCGCGGGGCAAG
73060 TACCTCTCCT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
45 5 0.09
46 1 0.02
47 49 0.89
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (46 bp):
TATAGCGCGGGGCAAGGGACGCGCCATACCTTTAATCTGATTTATA
Done.