Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01024319.1 Corchorus olitorius cultivar O-4 contig24352, 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: 66843
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:3551 original size:12 final size:12
Alignment explanation
Indices: 3509--3557 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
3499 AGAAGATTAA
* *
3509 TTATGATGATAA
1 TTATGATGTTAT
3521 TTA-GAT-TTA-
1 TTATGATGTTAT
3530 TTATGATGTTAT
1 TTATGATGTTAT
3542 TTATGATGTTAT
1 TTATGATGTTAT
3554 TTAT
1 TTAT
3558 TAGGTTATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
9 3 0.09
10 5 0.15
11 6 0.18
12 19 0.58
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (12 bp):
TTATGATGTTAT
Found at i:7559 original size:36 final size:36
Alignment explanation
Indices: 7450--7561 Score: 94
Period size: 36 Copynumber: 3.2 Consensus size: 36
7440 CTACTAAATT
* *
7450 TTTTAAGTACGAAAAGGTGTGAAAGCTAGTTATATG
1 TTTTAAGAACAAAAAGGTGTGAAAGCTAGTTATATG
** * *
7486 TTTTAAGAACTAACCA--T-T---A-CTAGTACTAAATT
1 TTTTAAGAAC-AAAAAGGTGTGAAAGCTAGT--TATATG
7518 TTTTAAGAACAAAAAGGTGTGAAAGCTAGTTATATG
1 TTTTAAGAACAAAAAGGTGTGAAAGCTAGTTATATG
7554 TTTTAAGA
1 TTTTAAGA
7562 GCTAAACATT
Statistics
Matches: 56, Mismatches: 10, Indels: 20
0.65 0.12 0.23
Matches are distributed among these distances:
30 5 0.09
31 4 0.07
32 14 0.25
33 1 0.02
34 2 0.04
35 1 0.02
36 21 0.38
37 3 0.05
38 5 0.09
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (36 bp):
TTTTAAGAACAAAAAGGTGTGAAAGCTAGTTATATG
Found at i:7607 original size:68 final size:66
Alignment explanation
Indices: 7407--7599 Score: 253
Period size: 68 Copynumber: 2.9 Consensus size: 66
7397 CCACAATTAT
* * * * * *
7407 AAGCTAATTATATGTTTGAAGAACTAATCTTTACTACTA-AATTTTTTAAGTACGAAAAGGTGTG
1 AAGCTAGTTATATGTTTTAAGAACTAAACATTACTACTATAATTTTTTAAGAACAAAAAGGTGTG
7471 A
66 A
* *
7472 AAGCTAGTTATATGTTTTAAGAACTAACCATTACTAGTACTAAATTTTTTAAGAACAAAAAGGTG
1 AAGCTAGTTATATGTTTTAAGAACTAAACATTACTACTA-T-AATTTTTTAAGAACAAAAAGGTG
7537 TGA
64 TGA
* * *
7540 AAGCTAGTTATATGTTTTAAGAGCTAAACATTGCTACTATAGTTTTGTTAAGAACAAAAA
1 AAGCTAGTTATATGTTTTAAGAACTAAACATTACTACTATAATTTT-TTAAGAACAAAAA
7600 AGATGTGATT
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
65 34 0.30
66 5 0.04
67 14 0.12
68 59 0.53
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (66 bp):
AAGCTAGTTATATGTTTTAAGAACTAAACATTACTACTATAATTTTTTAAGAACAAAAAGGTGTG
A
Found at i:14540 original size:66 final size:66
Alignment explanation
Indices: 14434--14567 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 66
14424 GTGCGCCTTT
*
14434 AACAGATGATGCTGAAGAGGATCAAAAACAGGTACCTGGAGGTCTGAAAGAGAAGGCCTCGGCAA
1 AACAGATGATGCTGAAGAGGATCAAAAACAGGTACCTGGAGGTCCGAAAGAGAAGGCCTCGGCAA
14499 A
66 A
*
14500 AACAGATGATGCTGACGAGGATCAAAAACAGGTACCTGGAGGTCCGAAAGAGAAGGCCTCGGCAA
1 AACAGATGATGCTGAAGAGGATCAAAAACAGGTACCTGGAGGTCCGAAAGAGAAGGCCTCGGCAA
14565 A
66 A
14566 AA
1 AA
14568 AGAGGAAATC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.40, C:0.18, G:0.30, T:0.13
Consensus pattern (66 bp):
AACAGATGATGCTGAAGAGGATCAAAAACAGGTACCTGGAGGTCCGAAAGAGAAGGCCTCGGCAA
A
Found at i:15391 original size:115 final size:115
Alignment explanation
Indices: 15266--15485 Score: 404
Period size: 115 Copynumber: 1.9 Consensus size: 115
15256 GTTTGGCAGA
* *
15266 CTGTTTCTGTTTTCAAAAATTTTGGAAACAAAAGCAGTGTTTTGGAAATAAGTGGAAGCAAGAAT
1 CTGTTTCTGTTTTCAAAAAATTTGGAAACAAAAGCAGTGTTTTGGAAAAAAGTGGAAGCAAGAAT
15331 TTTGTGTTTTCATGTTTTTCCAAAACACTTCCAAAACACACAGAAGCATG
66 TTTGTGTTTTCATGTTTTTCCAAAACACTTCCAAAACACACAGAAGCATG
*
15381 CTGTTTCTGTTTTCAAAAAATTTGGAAACAGAAGCAGTGTTTTGGAAAAAAGTGGAAGCAAGAAT
1 CTGTTTCTGTTTTCAAAAAATTTGGAAACAAAAGCAGTGTTTTGGAAAAAAGTGGAAGCAAGAAT
*
15446 TTTGTGTTTTCATGTTTTTCCAAAACACTTTCAAAACACA
66 TTTGTGTTTTCATGTTTTTCCAAAACACTTCCAAAACACA
15486 GAAGCACAAT
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 101 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (115 bp):
CTGTTTCTGTTTTCAAAAAATTTGGAAACAAAAGCAGTGTTTTGGAAAAAAGTGGAAGCAAGAAT
TTTGTGTTTTCATGTTTTTCCAAAACACTTCCAAAACACACAGAAGCATG
Found at i:15633 original size:11 final size:11
Alignment explanation
Indices: 15609--15643 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
15599 TTGACAGCGC
15609 AACAAAAACAA
1 AACAAAAACAA
* *
15620 AACGAAAACGA
1 AACAAAAACAA
15631 AACAAAAACAA
1 AACAAAAACAA
15642 AA
1 AA
15644 AACAGAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.77, C:0.17, G:0.06, T:0.00
Consensus pattern (11 bp):
AACAAAAACAA
Found at i:19438 original size:13 final size:13
Alignment explanation
Indices: 19420--19445 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19410 TAGTACATCA
19420 ATTTTTTATTTTT
1 ATTTTTTATTTTT
19433 ATTTTTTATTTTT
1 ATTTTTTATTTTT
19446 TGGCCATAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
ATTTTTTATTTTT
Found at i:27680 original size:17 final size:17
Alignment explanation
Indices: 27658--27691 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27648 AATATCAAAC
27658 GCATACTTAGCTACACT
1 GCATACTTAGCTACACT
27675 GCATACTTAGCTACACT
1 GCATACTTAGCTACACT
27692 ACGAGCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (17 bp):
GCATACTTAGCTACACT
Found at i:37657 original size:37 final size:37
Alignment explanation
Indices: 37616--37686 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
37606 ACATAATTAT
* *
37616 TCATAAAGTTATGTCTATTTGGAAAGACATGTATTGA
1 TCATAAAGTTATGTCTATATGAAAAGACATGTATTGA
37653 TCATAAAGTTATGTCTATATGAAAAGACATGTAT
1 TCATAAAGTTATGTCTATATGAAAAGACATGTAT
37687 ATTGATCAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (37 bp):
TCATAAAGTTATGTCTATATGAAAAGACATGTATTGA
Found at i:38944 original size:15 final size:15
Alignment explanation
Indices: 38934--38963 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
38924 GTGTGATTTC
38934 ACCTAGTGTGAGTGT
1 ACCTAGTGTGAGTGT
38949 ACCTAGTGTGAGTGT
1 ACCTAGTGTGAGTGT
38964 GTTGGTTTCT
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:0.20, C:0.13, G:0.33, T:0.33
Consensus pattern (15 bp):
ACCTAGTGTGAGTGT
Found at i:40225 original size:37 final size:37
Alignment explanation
Indices: 40184--40254 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
40174 ACATGATTAT
*
40184 TCATAAAGTTATGTCTATTTGGAAAA-ACATGTATTGA
1 TCATAAAGTTATGTCTATAT-GAAAAGACATGTATTGA
40221 TCATAAAGTTATGTCTATATGAAAAGACATGTAT
1 TCATAAAGTTATGTCTATATGAAAAGACATGTAT
40255 GTTGATCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 5 0.16
37 27 0.84
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.37
Consensus pattern (37 bp):
TCATAAAGTTATGTCTATATGAAAAGACATGTATTGA
Found at i:40979 original size:15 final size:15
Alignment explanation
Indices: 40956--40987 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
40946 CAAATTTTCA
40956 ATGGACCAAGATTGT
1 ATGGACCAAGATTGT
*
40971 ATGGCCCAAGATTGT
1 ATGGACCAAGATTGT
40986 AT
1 AT
40988 ATTATAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (15 bp):
ATGGACCAAGATTGT
Found at i:41286 original size:31 final size:32
Alignment explanation
Indices: 41247--41322 Score: 104
Period size: 31 Copynumber: 2.4 Consensus size: 32
41237 CGTAATGAGT
**
41247 AATGAAGAAAATATA-AATTTGAACAAAAAAAG
1 AATGAAGAAAATATAGAAAATGAA-AAAAAAAG
41279 AA-GAAGAAAATATAGAAAATGAAAAAAAAAG
1 AATGAAGAAAATATAGAAAATGAAAAAAAAAG
41310 AATGAA-AAAATAT
1 AATGAAGAAAATAT
41323 TTTAAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
31 29 0.73
32 11 0.28
ACGTcount: A:0.70, C:0.01, G:0.13, T:0.16
Consensus pattern (32 bp):
AATGAAGAAAATATAGAAAATGAAAAAAAAAG
Found at i:45522 original size:14 final size:14
Alignment explanation
Indices: 45500--45529 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45490 TATTAATACG
45500 TTTAATAAATGATT
1 TTTAATAAATGATT
*
45514 TTTATTAAATGATT
1 TTTAATAAATGATT
45528 TT
1 TT
45530 AGGTGCATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
TTTAATAAATGATT
Found at i:47508 original size:20 final size:20
Alignment explanation
Indices: 47483--47535 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
47473 CCTCTCACAA
47483 GTTTCTAGCCGTTGGAGCTC
1 GTTTCTAGCCGTTGGAGCTC
47503 GTTTCTAGCCGTTGGAGCTC
1 GTTTCTAGCCGTTGGAGCTC
*
47523 TTTTCTAGCCGTT
1 GTTTCTAGCCGTT
47536 ATAGCACTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.09, C:0.25, G:0.26, T:0.40
Consensus pattern (20 bp):
GTTTCTAGCCGTTGGAGCTC
Found at i:51388 original size:54 final size:54
Alignment explanation
Indices: 51306--51410 Score: 210
Period size: 54 Copynumber: 1.9 Consensus size: 54
51296 GTTTGATCCT
51306 TTTGATGGGTCCTTGAGGGTTAGTCAAAACATGGGAACCTTTAGGTACCCATAC
1 TTTGATGGGTCCTTGAGGGTTAGTCAAAACATGGGAACCTTTAGGTACCCATAC
51360 TTTGATGGGTCCTTGAGGGTTAGTCAAAACATGGGAACCTTTAGGTACCCA
1 TTTGATGGGTCCTTGAGGGTTAGTCAAAACATGGGAACCTTTAGGTACCCA
51411 AATCATCTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (54 bp):
TTTGATGGGTCCTTGAGGGTTAGTCAAAACATGGGAACCTTTAGGTACCCATAC
Found at i:52986 original size:20 final size:20
Alignment explanation
Indices: 52945--52987 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
52935 CTCTCACAAG
* *
52945 TTTCTAGCCGTTGGAGCTCT
1 TTTCTAGCCGTTAGAGCACT
*
52965 TTTCTAGCCGTTATAGCACT
1 TTTCTAGCCGTTAGAGCACT
52985 TTT
1 TTT
52988 TCCACTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (20 bp):
TTTCTAGCCGTTAGAGCACT
Found at i:54405 original size:131 final size:133
Alignment explanation
Indices: 54266--54530 Score: 378
Period size: 132 Copynumber: 2.0 Consensus size: 133
54256 CATTGTTTAA
* *
54266 ACTTTTATAGTTTTATTCAATTAAAAACTCTA-TTTTTATGTAATTAAATCTAATATCCTTATAA
1 ACTTTTATAGTTTTACTCAACTAAAAACTCTATTTTTTATGTAATTAAATCTAATATCCTTATAA
* * * *
54330 CTA-TTTAGTTTTTA-CAATTTTACTATTTTAATT-AAAAAACTTATATATATTAGAAATTTTT-
66 CTATTTTA-TTTTTATC-ATTTTAATAGTTTAATTAAAAAAACTTAGATATAATAG-AATTTTTA
54391 AAATAT
128 AAATAT
* * *
54397 ACTTTTATAGTTTTACTCAACTAAAAACTCTATTTTTTATTTAATTAAATCTAATATTCTTATAC
1 ACTTTTATAGTTTTACTCAACTAAAAACTCTATTTTTTATGTAATTAAATCTAATATCCTTATAA
*
54462 CTATTTTATTTTTATCATTTTAATAGTTTAGTTAAAAAAACTTAGATATAATAGAATTTTTAAAA
66 CTATTTTATTTTTATCATTTTAATAGTTTAATTAAAAAAACTTAGATATAATAGAATTTTTAAAA
54527 TAT
131 TAT
54530 A
1 A
54531 TTTCTTAAAT
Statistics
Matches: 119, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
131 30 0.25
132 59 0.50
133 30 0.25
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.49
Consensus pattern (133 bp):
ACTTTTATAGTTTTACTCAACTAAAAACTCTATTTTTTATGTAATTAAATCTAATATCCTTATAA
CTATTTTATTTTTATCATTTTAATAGTTTAATTAAAAAAACTTAGATATAATAGAATTTTTAAAA
TAT
Found at i:56465 original size:15 final size:15
Alignment explanation
Indices: 56445--56477 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
56435 CCCAAAACAA
56445 AAAATTTAGGGTAAG
1 AAAATTTAGGGTAAG
56460 AAAATTTAGGGTAAG
1 AAAATTTAGGGTAAG
56475 AAA
1 AAA
56478 GTTACTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (15 bp):
AAAATTTAGGGTAAG
Found at i:59130 original size:11 final size:11
Alignment explanation
Indices: 59113--59240 Score: 70
Period size: 11 Copynumber: 12.2 Consensus size: 11
59103 CATATTTATG
59113 ATATATAAAAA
1 ATATATAAAAA
* *
59124 ATTTATATAAA
1 ATATATAAAAA
59135 ATATAT--AAA
1 ATATATAAAAA
** **
59144 ATATATTTATG
1 ATATATAAAAA
*
59155 ATATATATAAA
1 ATATATAAAAA
* *
59166 ATATGTATAAA
1 ATATATAAAAA
59177 ATATAT--AAA
1 ATATATAAAAA
59186 ATATAT--AAA
1 ATATATAAAAA
*
59195 ATATATAAAAT
1 ATATATAAAAA
* ** *
59206 ATATTTATGAT
1 ATATATAAAAA
*
59217 ATATATAAAAT
1 ATATATAAAAA
*
59228 ATATATAATAA
1 ATATATAAAAA
59239 AT
1 AT
59241 TATTTTTATT
Statistics
Matches: 94, Mismatches: 19, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
9 27 0.29
11 67 0.71
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
ATATATAAAAA
Found at i:59141 original size:9 final size:9
Alignment explanation
Indices: 59127--59237 Score: 105
Period size: 9 Copynumber: 11.2 Consensus size: 9
59117 ATAAAAAATT
59127 TATATAAAA
1 TATATAAAA
59136 TATATAAAA
1 TATATAAAA
*
59145 TATATTTATGATA
1 TATA--TA--AAA
59158 TATATAAAA
1 TATATAAAA
59167 TATGTATAAAA
1 TA--TATAAAA
59178 TATATAAAA
1 TATATAAAA
59187 TATATAAAA
1 TATATAAAA
59196 TATATAAAA
1 TATATAAAA
*
59205 TATATTTATGATA
1 TATA--TA--AAA
59218 TATATAAAA
1 TATATAAAA
*
59227 TATATATAA
1 TATATAAAA
59236 TA
1 TA
59238 AATTATTTTT
Statistics
Matches: 87, Mismatches: 5, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
9 58 0.67
11 17 0.20
13 12 0.14
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.40
Consensus pattern (9 bp):
TATATAAAA
Found at i:59251 original size:9 final size:9
Alignment explanation
Indices: 59239--59281 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
59229 TATATAATAA
59239 ATTATTTTT
1 ATTATTTTT
*
59248 ATTAGTTTT
1 ATTATTTTT
*
59257 ATTATTATAT
1 ATTATT-TTT
59267 ATTATTTTT
1 ATTATTTTT
59276 ATTATT
1 ATTATT
59282 AAAAACCGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (9 bp):
ATTATTTTT
Found at i:60412 original size:1 final size:1
Alignment explanation
Indices: 60373--60405 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
60363 CCTTCTTAAG
60373 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
60406 CCTTTTTAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:60782 original size:18 final size:18
Alignment explanation
Indices: 60738--60782 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
60728 AACAATACAA
60738 ATAAAAAAATATAATAAT
1 ATAAAAAAATATAATAAT
* *
60756 ATGAAAAAATTTCAAT-AT
1 ATAAAAAAATAT-AATAAT
60774 ATAAAAAAA
1 ATAAAAAAA
60783 AACGAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
ATAAAAAAATATAATAAT
Found at i:65293 original size:21 final size:21
Alignment explanation
Indices: 65254--65302 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
65244 TCAATGCTTT
**
65254 AGGAATGCAAGAGGGATTTCAA
1 AGGAA-GCAAGAGCCATTTCAA
*
65276 AGGAAGCAAGAGCCATTTCCA
1 AGGAAGCAAGAGCCATTTCAA
65297 A-GAAGC
1 AGGAAGC
65303 TACAATTCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 5 0.21
21 14 0.58
22 5 0.21
ACGTcount: A:0.41, C:0.16, G:0.29, T:0.14
Consensus pattern (21 bp):
AGGAAGCAAGAGCCATTTCAA
Done.