Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01022384.1 Corchorus olitorius cultivar O-4 contig22417, 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: 56996
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Found at i:15 original size:2 final size:2
Alignment explanation
Indices: 9--48 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1 CTCTTCTT
9 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49 CTTTTTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:651 original size:35 final size:35
Alignment explanation
Indices: 521--1525 Score: 1079
Period size: 35 Copynumber: 28.7 Consensus size: 35
511 TCATTCCGAT
* * *
521 ATAAACTGAAGAAGGACCACCCTGGGTCAATTTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAA-CTGAA
* * * * * * * *
557 ATAAACTGAAGAATGATCACCCTCGATCATTCCGAC
1 ATAAACTGAAGAAAGACCGCCCTGGGTCA-ACTGAA
*
593 ATAAACTGAAGAAAAGACCACCCTGGGTCAACTGAA
1 ATAAACTGAAG-AAAGACCGCCCTGGGTCAACTGAA
**
629 ATAAACTGAAGAAAGACAACCCTGGGTCAACTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
*
664 ATAAACTGAAGGAAGACCGCCCTGGGTCAACTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
699 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
* * * *
734 ATTAACTGAAGAAAGATCG-CCTAGATCAACTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
* * ** *
768 ATAAACTGTAGAAAGACCACCCTAAGTCAACTAAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
* *
803 ATAAACTGAATAAAGCCCGCCCTGGGTCAACTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
* * *
838 ATAAACTGAAGAAAGACCACCCTGGATCAGCTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
* * * * *
873 ATAAACTGAATAAAGACCGCCTTGGATCAATCCGAC
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAA-CTGAA
** *
909 ATAAACTGAAGAAAGACAACCCTGGGTCAACAGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
* * *
944 ATAAACTAAAGGAAGACCGCCCTGGATCAACTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
979 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
1014 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
* ** *
1049 ATTAACTGAAGAAAGATTGCCCTGGATCAACTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
* * *
1084 TTAAACTGAACAAAGATCGCCCTGGGTCAACTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
*
1119 ATTAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
* * * *
1154 ATTAACTGAAGAAAGATCGCCTTGGATCAACTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
** *
1189 ATAAACTGAAGAAAGGTCGCCCTGGGTCAACTAAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
* * * * *
1224 ATAAACTGAAGAACGACCACCCTGGATCAATCCGAC
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAA-CTGAA
* * **
1260 ATACATTGAAGAAAGACCATCCTGGGTCAACTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
* * * * *
1295 ATAAATTGAAGGAATACCGTCCTGGGTCAACTAAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
*
1330 ATAAACTAAAGAAAGACCG-CCTGGGTCAACTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
* * * *
1364 ATAAACTGAAAGAGAGACCACCCTGTGCCAA-TCGAA
1 ATAAACTG-AAGAAAGACCGCCCTGGGTCAACT-GAA
* * * * **
1400 ATTAACTGAAGAAAGATCGCCCTGGATCATCCAAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
* * * *
1435 ATTACCTGAATAAAGACCACCCTGGGTC-A-TG--
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
* * * *
1466 ATTAACTAAAGAAAGACCGCCCTGGATCAATTGAA
1 ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
* * *
1501 ATAAACTGAATAATGATCGCCCTGG
1 ATAAACTGAAGAAAGACCGCCCTGG
1526 ATAAATTGAA
Statistics
Matches: 812, Mismatches: 144, Indels: 27
0.83 0.15 0.03
Matches are distributed among these distances:
31 23 0.03
32 1 0.00
33 2 0.00
34 49 0.06
35 598 0.74
36 125 0.15
37 14 0.02
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.18
Consensus pattern (35 bp):
ATAAACTGAAGAAAGACCGCCCTGGGTCAACTGAA
Found at i:22398 original size:18 final size:18
Alignment explanation
Indices: 22371--22416 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
22361 TTGAAATCTT
*
22371 AAAAAGAAAAAGAAAAAC
1 AAAAAGAAAAACAAAAAC
* **
22389 AAAAACAAAAACAAAATT
1 AAAAAGAAAAACAAAAAC
22407 AAAAAGAAAA
1 AAAAAGAAAA
22417 TTAGCATGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.83, C:0.07, G:0.07, T:0.04
Consensus pattern (18 bp):
AAAAAGAAAAACAAAAAC
Found at i:22416 original size:6 final size:6
Alignment explanation
Indices: 22371--22404 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
22361 TTGAAATCTT
* *
22371 AAAAAG AAAAAG AAAAAC AAAAAC AAAAAC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA
22405 TTAAAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:24885 original size:18 final size:18
Alignment explanation
Indices: 24862--24897 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24852 CACCCCAATC
24862 CTAAAACTAGAAGAAAAA
1 CTAAAACTAGAAGAAAAA
24880 CTAAAACTAGAAGAAAAA
1 CTAAAACTAGAAGAAAAA
24898 AAAGAAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.11
Consensus pattern (18 bp):
CTAAAACTAGAAGAAAAA
Found at i:34680 original size:16 final size:16
Alignment explanation
Indices: 34659--34695 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
34649 AACCCAAGTC
34659 TGAAACCCGACAGAGA
1 TGAAACCCGACAGAGA
34675 TGAAACCCGACAGAGA
1 TGAAACCCGACAGAGA
34691 TGAAA
1 TGAAA
34696 AAGAAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.24, T:0.08
Consensus pattern (16 bp):
TGAAACCCGACAGAGA
Found at i:35236 original size:11 final size:11
Alignment explanation
Indices: 35220--35245 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35210 ATCAATTTTA
35220 TCGCAAGTATG
1 TCGCAAGTATG
35231 TCGCAAGTATG
1 TCGCAAGTATG
35242 TCGC
1 TCGC
35246 TTATGCTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (11 bp):
TCGCAAGTATG
Found at i:35800 original size:23 final size:23
Alignment explanation
Indices: 35772--35818 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
35762 AATTAAATTG
*
35772 CATCAAAACAGTCACCACTAACC
1 CATCAAAACAGACACCACTAACC
35795 CATCAAAACAGACACCACTAACC
1 CATCAAAACAGACACCACTAACC
35818 C
1 C
35819 TCTTCCTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.40, G:0.04, T:0.11
Consensus pattern (23 bp):
CATCAAAACAGACACCACTAACC
Found at i:36152 original size:20 final size:20
Alignment explanation
Indices: 36122--36174 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 20
36112 ACAACACTTA
*
36122 GTTACTGAAAAAGTTATAACT
1 GTTA-TGAAAAAGTTATAACG
36143 GTTATGAAAAAAGTTATAACG
1 GTTATG-AAAAAGTTATAACG
36164 GTTATGAAAAA
1 GTTATGAAAAA
36175 ATTTATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (20 bp):
GTTATGAAAAAGTTATAACG
Found at i:36175 original size:21 final size:21
Alignment explanation
Indices: 36129--36181 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
36119 TTAGTTACTG
*
36129 AAAAAGTTATAACTGTTATGA
1 AAAAAGTTATAACGGTTATGA
36150 AAAAAGTTATAACGGTTATGA
1 AAAAAGTTATAACGGTTATGA
*
36171 AAAAATTTATA
1 AAAAAGTTATA
36182 TATGTATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.32
Consensus pattern (21 bp):
AAAAAGTTATAACGGTTATGA
Found at i:38293 original size:21 final size:21
Alignment explanation
Indices: 38269--38309 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38259 AATATCAAAG
*
38269 AAATAATATCAACAACAACTC
1 AAATAACATCAACAACAACTC
* *
38290 AAATACCATTAACAACAACT
1 AAATAACATCAACAACAACT
38310 TATTAACCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (21 bp):
AAATAACATCAACAACAACTC
Found at i:38518 original size:2 final size:2
Alignment explanation
Indices: 38511--38557 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
38501 GGTTTGTGAA
*
38511 AG AG AG AG AG AG CG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
38553 AG AG A
1 AG AG A
38558 AAATGATGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.02, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:39492 original size:22 final size:22
Alignment explanation
Indices: 39467--39688 Score: 145
Period size: 22 Copynumber: 10.1 Consensus size: 22
39457 AATCACAATG
* *
39467 TGAAAATTTAATAACCTCATTA
1 TGAAAATTTGATAACCTCACTA
* *
39489 TG-AAATTTCAATAACCTCCCTA
1 TGAAAATTT-GATAACCTCACTA
*
39511 TGAAAATTTGATAACCAT-ACTC
1 TGAAAATTTGATAACC-TCACTA
* * *
39533 TGAAATTTTGATAACCACAATA
1 TGAAAATTTGATAACCTCACTA
* * *
39555 TGAAATTTTGATAACCTCAGTG
1 TGAAAATTTGATAACCTCACTA
* * *
39577 TGAAATTTTGATAATCTCCCTA
1 TGAAAATTTGATAACCTCACTA
* *
39599 TGAAATTTTGATAATCAT-ACTA
1 TGAAAATTTGATAA-CCTCACTA
*
39621 T-AAAA-TTGGTAA-CTACACTA
1 TGAAAATTTGATAACCT-CACTA
* *
39641 TGAAAATTTTGATAACCACA-TCG
1 TGAAAA-TTTGATAACCTCACT-A
*
39664 TGAAATTTTGATAACCTGC-CTA
1 TGAAAATTTGATAACCT-CACTA
39686 TGA
1 TGA
39689 GAATGAAACT
Statistics
Matches: 158, Mismatches: 28, Indels: 28
0.74 0.13 0.13
Matches are distributed among these distances:
18 1 0.01
20 11 0.07
21 13 0.08
22 109 0.69
23 23 0.15
24 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (22 bp):
TGAAAATTTGATAACCTCACTA
Found at i:39517 original size:44 final size:44
Alignment explanation
Indices: 39467--39903 Score: 195
Period size: 44 Copynumber: 9.9 Consensus size: 44
39457 AATCACAATG
* * **
39467 TGAAAATTTAATAACCTCATTATGAAATTTCAATAACCTCCCTA
1 TGAAAATTTGATAACCTCACTATGAAATTTTGATAACCTCCCTA
* * **
39511 TGAAAATTTGATAACCAT-ACTCTGAAATTTTGATAACCACAATA
1 TGAAAATTTGATAACC-TCACTATGAAATTTTGATAACCTCCCTA
* * * *
39555 TGAAATTTTGATAACCTCAGTGTGAAATTTTGATAATCTCCCTA
1 TGAAAATTTGATAACCTCACTATGAAATTTTGATAACCTCCCTA
* * * * *
39599 TGAAATTTTGATAATCAT-ACTAT-AAA-ATTGGTAA-CTACACTA
1 TGAAAATTTGATAA-CCTCACTATGAAATTTTGATAACCT-CCCTA
* * *
39641 TGAAAATTTTGATAACCACA-TCGTGAAATTTTGATAACCTGCCTA
1 TGAAAA-TTTGATAACCTCACT-ATGAAATTTTGATAACCTCCCTA
* * * * *
39686 TGAGAATGAAACTGTGATATCCTCTCTATGTAATTTTGATAATCTCTCC-A
1 T--G-A--AAA-TTTGATAACCTCACTATGAAATTTTGATAACCTC-CCTA
* * * *
39736 T-AAAATTTTCATAACCTCCCTATGAAATTTTGTTAACGTCCCTA
1 TGAAAA-TTTGATAACCTCACTATGAAATTTTGATAACCTCCCTA
* * * * *
39780 GGAAATTTTAATAA--GCAC----AAATTTTGATAAATTCCCTACCTA
1 TGAAAATTTGATAACCTCACTATGAAATTTTGAT-AA---CCTCCCTA
* * * * * * * *
39822 GGAAATTTTGATAACCACAAC-ATAAAATTTCGATAACTTTCGTA
1 TGAAAATTTGATAACCTC-ACTATGAAATTTTGATAACCTCCCTA
* * *
39866 TG-AAATTTGTTAACCTCCCTAAGAAATTTTGATAACCT
1 TGAAAATTTGATAACCTCACTATGAAATTTTGATAACCT
39904 TTTTATGAAA
Statistics
Matches: 293, Mismatches: 70, Indels: 61
0.69 0.17 0.14
Matches are distributed among these distances:
38 9 0.03
39 2 0.01
41 2 0.01
42 39 0.13
43 42 0.14
44 133 0.45
45 18 0.06
46 3 0.01
47 3 0.01
48 10 0.03
50 29 0.10
51 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.35
Consensus pattern (44 bp):
TGAAAATTTGATAACCTCACTATGAAATTTTGATAACCTCCCTA
Found at i:39596 original size:88 final size:87
Alignment explanation
Indices: 39446--39688 Score: 283
Period size: 88 Copynumber: 2.8 Consensus size: 87
39436 CTCCAACCTA
* * * * * **
39446 GAAATATTGATAATCACAATGTGAAAATTTAATAACCTCATTATGAAATTTCAATAACCTCCCTA
1 GAAATATTGATAACCACAATATGAAATTTTGATAACCTCA-TGTGAAATTTTGATAACCTCCCTA
*
39511 TGAAAATTTGATAACCATACTCT
65 TGAAAATTTGATAACCATACTAT
* *
39534 GAAATTTTGATAACCACAATATGAAATTTTGATAACCTCAGTGTGAAATTTTGATAATCTCCCTA
1 GAAATATTGATAACCACAATATGAAATTTTGATAACCTCA-TGTGAAATTTTGATAACCTCCCTA
* *
39599 TGAAATTTTGATAATCATACTAT
65 TGAAAATTTGATAACCATACTAT
* * * * *
39622 -AAA-ATTGGTAACTACACTATGAAAATTTTGATAACCACATCGTGAAATTTTGATAACCTGCCT
1 GAAATATTGATAACCACAATATG-AAATTTTGATAACCTCAT-GTGAAATTTTGATAACCTCCCT
39685 ATGA
64 ATGA
39689 GAATGAAACT
Statistics
Matches: 133, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
86 15 0.11
87 43 0.32
88 75 0.56
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.34
Consensus pattern (87 bp):
GAAATATTGATAACCACAATATGAAATTTTGATAACCTCATGTGAAATTTTGATAACCTCCCTAT
GAAAATTTGATAACCATACTAT
Found at i:39732 original size:22 final size:22
Alignment explanation
Indices: 39691--39793 Score: 80
Period size: 22 Copynumber: 4.7 Consensus size: 22
39681 GCCTATGAGA
* * *
39691 ATGAAACTGTGATATCCTCTCT
1 ATGAAATTTTGATAACCTCTCT
* * *
39713 ATGTAATTTTGATAATCTCTCC
1 ATGAAATTTTGATAACCTCTCT
* * *
39735 ATAAAATTTTCATAACCTCCCT
1 ATGAAATTTTGATAACCTCTCT
* * *
39757 ATGAAATTTTGTTAACGTCCCT
1 ATGAAATTTTGATAACCTCTCT
* *
39779 AGGAAATTTTAATAA
1 ATGAAATTTTGATAA
39794 GCACAAATTT
Statistics
Matches: 62, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (22 bp):
ATGAAATTTTGATAACCTCTCT
Found at i:39871 original size:22 final size:21
Alignment explanation
Indices: 39846--39916 Score: 54
Period size: 22 Copynumber: 3.3 Consensus size: 21
39836 CCACAACATA
*
39846 AAATTTCGATAACTTTCGTATG
1 AAATTT-GATAACTTTCCTATG
* * * *
39868 AAATTTGTTAACCTCCCTAAG
1 AAATTTGATAACTTTCCTATG
*
39889 AAATTTTGATAACCTTT-TTATG
1 AAA-TTTGATAA-CTTTCCTATG
39911 AAATTT
1 AAATTT
39917 TTGGTAATCT
Statistics
Matches: 37, Mismatches: 10, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
21 16 0.43
22 19 0.51
23 2 0.05
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (21 bp):
AAATTTGATAACTTTCCTATG
Found at i:41011 original size:15 final size:18
Alignment explanation
Indices: 40972--41012 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 18
40962 ATTTAATTTA
40972 ATTAAATAAATATAAATT
1 ATTAAATAAATATAAATT
40990 ATT-AATAAA-A-AAATT
1 ATTAAATAAATATAAATT
41005 -TTAAATAA
1 ATTAAATAA
41013 TTTTGGGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.09
15 10 0.45
16 1 0.05
17 6 0.27
18 3 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTAAATAAATATAAATT
Found at i:49590 original size:24 final size:26
Alignment explanation
Indices: 49545--49593 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
49535 ACAATTTTTT
*
49545 TTTGTTATAATTATTTTAAAAATTTC
1 TTTGATATAATTATTTTAAAAATTTC
49571 TTTGATAT-ATTA-TTTAAAAATTT
1 TTTGATATAATTATTTTAAAAATTT
49594 TCTAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
26 7 0.32
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTGATATAATTATTTTAAAAATTTC
Found at i:49590 original size:25 final size:26
Alignment explanation
Indices: 49545--49596 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
49535 ACAATTTTTT
* *
49545 TTTGTTATAATTATTTTAAAAATTTC
1 TTTGATATAATTATTTAAAAAATTTC
*
49571 TTTGATAT-ATTATTTAAAAATTTTC
1 TTTGATATAATTATTTAAAAAATTTC
49596 T
1 T
49597 AACCAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (26 bp):
TTTGATATAATTATTTAAAAAATTTC
Done.