Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01007309.1 Corchorus capsularis cultivar CVL-1 contig07330, 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: 41329
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:3448 original size:19 final size:18
Alignment explanation
Indices: 3415--3450 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
3405 TTGAAATAAT
3415 TCTTCAATGATCTTCAAA
1 TCTTCAATGATCTTCAAA
*
3433 TCTTCAAATTATCTTCAA
1 TCTTC-AATGATCTTCAA
3451 GAAATCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (18 bp):
TCTTCAATGATCTTCAAA
Found at i:4449 original size:17 final size:18
Alignment explanation
Indices: 4429--4462 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4419 GAAGCTCCAA
4429 TTCTAGATTG-GCTAAGT
1 TTCTAGATTGTGCTAAGT
*
4446 TTCTTGATTGTGCTAAG
1 TTCTAGATTGTGCTAAG
4463 GTTGAAGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.44
Consensus pattern (18 bp):
TTCTAGATTGTGCTAAGT
Found at i:7732 original size:16 final size:16
Alignment explanation
Indices: 7711--7742 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7701 CAGGTCTTTT
7711 CTCTCCATATTGTTGA
1 CTCTCCATATTGTTGA
7727 CTCTCCATATTGTTGA
1 CTCTCCATATTGTTGA
7743 AGCTGGCCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (16 bp):
CTCTCCATATTGTTGA
Found at i:10742 original size:15 final size:14
Alignment explanation
Indices: 10722--10756 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
10712 GTTCTTTATC
10722 TTTTTTTTAATCTTT
1 TTTTTTTTAAT-TTT
10737 TTTTTTTTAATTTT
1 TTTTTTTTAATTTT
10751 TATTTT
1 T-TTTT
10757 GATAGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTTAATTTT
Found at i:19260 original size:98 final size:98
Alignment explanation
Indices: 19085--19277 Score: 273
Period size: 98 Copynumber: 2.0 Consensus size: 98
19075 CCCATAAGTT
* * * *
19085 TTAATGTGATGAACTAAAAGAAGACTAACTCAGTTGGAAAATTTACATACATATCAATTAAGTTT
1 TTAATGTGATGAACTAAAAGAAGACTAACTCAGTTGGAAAATTTACATACAGACCAATTAACTAT
*
19150 AGATGTATTATGTGCCTTCCAACATTGAGAGTG
66 AGATGTATTATGTACCTTCCAACATTGAGAGTG
** *
19183 TTAATGTGATGAGTTAAAAGAAGACTAACTCAGTTGGAAAA-TTACATGCAGACCAATTAACTAT
1 TTAATGTGATGAACTAAAAGAAGACTAACTCAGTTGGAAAATTTACATACAGACCAATTAACTAT
*
19247 AGATTCGTA-TATGTACCTTCCAACTTTGAGA
66 AGA-T-GTATTATGTACCTTCCAACATTGAGA
19278 ATTTGGCTCA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
97 21 0.25
98 60 0.71
99 3 0.04
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (98 bp):
TTAATGTGATGAACTAAAAGAAGACTAACTCAGTTGGAAAATTTACATACAGACCAATTAACTAT
AGATGTATTATGTACCTTCCAACATTGAGAGTG
Found at i:19460 original size:2 final size:2
Alignment explanation
Indices: 19455--19479 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19445 TCCTAGTTGT
19455 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
19480 TCTTTTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:31959 original size:28 final size:28
Alignment explanation
Indices: 31910--31963 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
31900 GTTTGTAGGG
* *
31910 GAAAAAACTATTTCAATTTTTTTTAATA
1 GAAAAAACAATTTCAATATTTTTTAATA
**
31938 GAAAAAACAATTTTTATATTTTTTAA
1 GAAAAAACAATTTCAATATTTTTTAA
31964 AATAAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (28 bp):
GAAAAAACAATTTCAATATTTTTTAATA
Found at i:32510 original size:59 final size:60
Alignment explanation
Indices: 32447--32565 Score: 170
Period size: 62 Copynumber: 2.0 Consensus size: 60
32437 GAAATGAAAT
* *
32447 CAAATTTTGAACTTTGTTTTTCG-AATGGAATGCTGAAATGCA-TGTTTTGAATTTTGATG
1 CAAATTTTGAACTTTGGTTTTCGAAATGGAATGCTGAAATG-AGAGTTTTGAATTTTGATG
*
32506 CAAATTTTGAACTTTGGTTTTCGAATAATGGAATGCTGAAGTGAGAGTTTTGAATTTTGA
1 CAAATTTTGAACTTTGGTTTTCG-A-AATGGAATGCTGAAATGAGAGTTTTGAATTTTGA
32566 ACTATGAGAT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
59 22 0.42
61 1 0.02
62 30 0.57
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (60 bp):
CAAATTTTGAACTTTGGTTTTCGAAATGGAATGCTGAAATGAGAGTTTTGAATTTTGATG
Found at i:32652 original size:40 final size:41
Alignment explanation
Indices: 32608--32695 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 41
32598 GAATAATGAA
*
32608 TTTCGAATTTTGAAA-AGAAATGCAAATTTTG-AGTTTTGAG
1 TTTCGAATTTTGAAATA-AAATGCAAATTTTGAACTTTTGAG
* *
32648 TTTCGAGTTTTGAAATAAAATGCAAATTTTGAACTTTTGAT
1 TTTCGAATTTTGAAATAAAATGCAAATTTTGAACTTTTGAG
32689 TTTCGAA
1 TTTCGAA
32696 GACTTCTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
40 28 0.67
41 14 0.33
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (41 bp):
TTTCGAATTTTGAAATAAAATGCAAATTTTGAACTTTTGAG
Found at i:32888 original size:37 final size:36
Alignment explanation
Indices: 32844--34407 Score: 1427
Period size: 37 Copynumber: 42.2 Consensus size: 36
32834 GCACCTTAAG
* * *
32844 GATTTGATAAGAAATCTTAAA-AGGGATCTTGAACAA
1 GATTTGATAAGAAA-CCTAAACAGGAATCTTAAACAA
* * * *
32880 GATTTTGATGAGACACCTAAACAGGGACCTTAAACAA
1 GA-TTTGATAAGAAACCTAAACAGGAATCTTAAACAA
*
32917 GGATTTAATAAGAAACCTAAACAGGAATCTTAAACAA
1 -GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * * * *
32954 GATTTTCATGAGACACCTAAACAGGGACCTTAAACAA
1 GA-TTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * * *
32991 GGATTTGTTGAGAAACCTAAACATGAATCTTAAAAAAA
1 -GATTTGATAAGAAACCTAAACAGGAATCTT-AAACAA
* * * *
33029 GACTTTGATGAGACACCTAAACAGGGACCTTAAACAAA
1 GA-TTTGATAAGAAACCTAAACAGGAATCTTAAAC-AA
* * *
33067 GATTTCATTAGAAACCTAAATAGGAATCTTAAACAA
1 GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * * *
33103 GATTTTGATGAGACACCTAAACACGAACCTTAAACAA
1 GA-TTTGATAAGAAACCTAAACAGGAATCTTAAACAA
*
33140 GGATTTCATAAGAAACCTAAACAGGAATCTTAAACAA
1 -GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * * *
33177 GATTTTGATGAGACACCTAAACAGGGACCTTAAACAA
1 GA-TTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* *
33214 GGATTTAATAAGAAACCTAAACAGGAATCTTAAAAAA
1 -GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * * * * *
33251 GATTTTCATGAGACACCTAAACGGGGACCTTAAACAA
1 GA-TTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * * *
33288 GGATTTGTTAAGAAACCTAAATATGAATCTTAAATAA
1 -GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * * * *
33325 GATTTTGATGAGACACCTAAATAGGGACCTTAAACAA
1 GA-TTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * *
33362 GGATTTGATAAGAAAACTAAATAGGAATCTCAAACAA
1 -GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * * * *
33399 GATTTTGATGAGACACCTAAACAGGGACCGTAAACAA
1 GA-TTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * *
33436 GGATTTGATGAGACACCTAAACA-GAGACCTTAAACAA
1 -GATTTGATAAGAAACCTAAACAGGA-ATCTTAAACAA
* *
33473 GGATTTGATAAGAAACCTAAACAGAAATCTTAAATAA
1 -GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * *
33510 GATTTTGATGAGACACCTAAACAGGGA-CTTTAAACAA
1 GA-TTTGATAAGAAACCTAAACAGGAATC-TTAAACAA
33547 GGATTTGATAAAGAAACCTAAACAGGAATCTTAAACAA
1 -GATTTGAT-AAGAAACCTAAACAGGAATCTTAAACAA
* * *
33585 GATTT-TTAATGAAACACCTAAACAGGGACCTTAAACAA
1 GATTTGATAA-G-AA-ACCTAAACAGGAATCTTAAACAA
* *
33623 GGATTTCATAAGAAACCTAAACACGAATCTTAAACAA
1 -GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * * * *
33660 GATTTGGATGAGACACCTAAACAGGGACCTCAAACAA
1 GATTT-GATAAGAAACCTAAACAGGAATCTTAAACAA
* * *
33697 GGATTTCAAAAGAAACCTAAACAGGAATCTTAAATAA
1 -GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* *
33734 GATTTTGATGAGACACCTAAACAGGAA-CATTAAACAA
1 GA-TTTGATAAGAAACCTAAACAGGAATC-TTAAACAA
* *
33771 GAATTTAATAAGAAACCTAAACAGGAATTTTAAACAA
1 G-ATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * * * * *
33808 GATTTTCATGAGACATCTAAACAGGGACCTTAAACAA
1 GA-TTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* *
33845 GGATTTGTTAAGAAACCTAAACATGAATCTTAAACAA
1 -GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* ** * *
33882 GATTTTGATGAGTCACCTAAACAGGGACCTTAAACAA
1 GA-TTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * *
33919 GGATTTCATTAGAAACTTAAACAGGAATCTTAAACAA
1 -GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * * * *
33956 GATTTTGATGAGACACCTAAACAGGGACCTCAAACAA
1 GA-TTTGATAAGAAACCTAAACAGGAATCTTAAACAA
*
33993 GGATTTAATAAGAAA-CTAAACAGGAATCTTAAACAA
1 -GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
*
34029 GGATTTGATAAGAAACATAAACAGGAATCTTAAACAA
1 -GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * * *
34066 GATTTTGATGAGACACCTAAACAGGAACCTTAAACAGG
1 GA-TTTGATAAGAAACCTAAACAGGAATCTTAAACA-A
34104 GATTTGATAAAGAAACCTAAAC-GAGAATCTTAAACAA
1 GATTTGAT-AAGAAACCTAAACAG-GAATCTTAAACAA
* *
34141 GATTTTGATAA-AACACCTAAACAGGGACCTTAAACAA
1 GA-TTTGATAAGAA-ACCTAAACAGGAATCTTAAACAA
* * *
34178 GAATGTGATAAGAAAGCTAAATAGGAATCTTAAACAA
1 G-ATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * * *
34215 GATTTTGATGAGACACTTAAACAGGGATCTTAAACAA
1 GA-TTTGATAAGAAACCTAAACAGGAATCTTAAACAA
34252 GGATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
1 -GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * * *
34289 GATTTTGATGAGACACCTAAACAGGGACCTTAAACAA
1 GA-TTTGATAAGAAACCTAAACAGGAATCTTAAACAA
*
34326 GGATTTGATAAGAAACCTAAACAGGAATCTTAAATAA
1 -GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
* * * *
34363 GATTTTGATGAA-ACACCTAAACGGGGACCTTAAACAA
1 GA-TTTGAT-AAGAAACCTAAACAGGAATCTTAAACAA
34400 GGATTTGA
1 -GATTTGA
34408 CGAGACTGAA
Statistics
Matches: 1244, Mismatches: 225, Indels: 117
0.78 0.14 0.07
Matches are distributed among these distances:
35 2 0.00
36 81 0.07
37 1002 0.81
38 149 0.12
39 7 0.01
40 3 0.00
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.23
Consensus pattern (36 bp):
GATTTGATAAGAAACCTAAACAGGAATCTTAAACAA
Found at i:32953 original size:74 final size:74
Alignment explanation
Indices: 32841--34407 Score: 1664
Period size: 74 Copynumber: 21.1 Consensus size: 74
32831 CAGGCACCTT
* * *
32841 AAGGATTTGATAAGAAATCTTAAA-AGGGATCTTGAACAAGATTTTGATGAGACACCTAAACAGG
1 AAGGATTTGATAAGAAA-CCTAAACAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACAGG
32905 GACCTTAAAC
65 GACCTTAAAC
* *
32915 AAGGATTTAATAAGAAACCTAAACAGGAATCTTAAACAAGATTTTCATGAGACACCTAAACAGGG
1 AAGGATTTGATAAGAAACCTAAACAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACAGGG
32980 ACCTTAAAC
66 ACCTTAAAC
* * * * *
32989 AAGGATTTGTTGAGAAACCTAAACATGAATCTTAAAAAAAGACTTTGATGAGACACCTAAACAGG
1 AAGGATTTGATAAGAAACCTAAACAGGAATCTT-AAACAAGATTTTGATGAGACACCTAAACAGG
33054 GACCTTAAAC
65 GACCTTAAAC
* * * * * *
33064 AAAGATTTCATTAGAAACCTAAATAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACACGA
1 AAGGATTTGATAAGAAACCTAAACAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACAGGG
33129 ACCTTAAAC
66 ACCTTAAAC
*
33138 AAGGATTTCATAAGAAACCTAAACAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACAGGG
1 AAGGATTTGATAAGAAACCTAAACAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACAGGG
33203 ACCTTAAAC
66 ACCTTAAAC
* * * *
33212 AAGGATTTAATAAGAAACCTAAACAGGAATCTTAAAAAAGATTTTCATGAGACACCTAAACGGGG
1 AAGGATTTGATAAGAAACCTAAACAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACAGGG
33277 ACCTTAAAC
66 ACCTTAAAC
* * * * *
33286 AAGGATTTGTTAAGAAACCTAAATATGAATCTTAAATAAGATTTTGATGAGACACCTAAATAGGG
1 AAGGATTTGATAAGAAACCTAAACAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACAGGG
33351 ACCTTAAAC
66 ACCTTAAAC
* * *
33360 AAGGATTTGATAAGAAAACTAAATAGGAATCTCAAACAAGATTTTGATGAGACACCTAAACAGGG
1 AAGGATTTGATAAGAAACCTAAACAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACAGGG
*
33425 ACCGTAAAC
66 ACCTTAAAC
* * * * *
33434 AAGGATTTGATGAGACACCTAAACA-GAGACCTTAAACAAGGA-TTTGATAAGAAACCTAAACAG
1 AAGGATTTGATAAGAAACCTAAACAGGA-ATCTTAAACAA-GATTTTGATGAGACACCTAAACAG
** * *
33497 AAATCTTAAAT
64 GGACCTTAAAC
* * * * *
33508 AA-GATTTTGATGAGACACCTAAACAGGGA-CTTTAAACAAGGA-TTTGATAAAGAAACCTAAAC
1 AAGGA-TTTGATAAGAAACCTAAACAGGAATC-TTAAACAA-GATTTTGAT-GAGACACCTAAAC
* *
33570 AGGAATCTTAAAC
62 AGGGACCTTAAAC
* * * * * *
33583 AA-GATTT-TTAATGAAACACCTAAACAGGGACCTTAAACAAGGA-TTTCATAAGAAACCTAAAC
1 AAGGATTTGATAA-G-AA-ACCTAAACAGGAATCTTAAACAA-GATTTTGATGAGACACCTAAAC
* * *
33645 ACGAATCTTAAAC
62 AGGGACCTTAAAC
* * * * * * ** *
33658 AA-GATTTGGATGAGACACCTAAACAGGGACCTCAAACAAGGA-TTTCAAAAGAAACCTAAACAG
1 AAGGATTT-GATAAGAAACCTAAACAGGAATCTTAAACAA-GATTTTGATGAGACACCTAAACAG
* * *
33721 GAATCTTAAAT
64 GGACCTTAAAC
* * * * * *
33732 AA-GATTTTGATGAGACACCTAAACAGGAA-CATTAAACAAGAATTTAATAAGAAACCTAAACAG
1 AAGGA-TTTGATAAGAAACCTAAACAGGAATC-TTAAACAAGATTTTGATGAGACACCTAAACAG
* **
33795 GAATTTTAAAC
64 GGACCTTAAAC
* * * * * * * * * *
33806 AA-GATTTTCATGAGACATCTAAACAGGGACCTTAAACAAGGA-TTTGTTAAGAAACCTAAACAT
1 AAGGA-TTTGATAAGAAACCTAAACAGGAATCTTAAACAA-GATTTTGATGAGACACCTAAACAG
* *
33869 GAATCTTAAAC
64 GGACCTTAAAC
* ** * * * * * *
33880 AA-GATTTTGATGAGTCACCTAAACAGGGACCTTAAACAAGGA-TTTCATTAGAAACTTAAACAG
1 AAGGA-TTTGATAAGAAACCTAAACAGGAATCTTAAACAA-GATTTTGATGAGACACCTAAACAG
* *
33943 GAATCTTAAAC
64 GGACCTTAAAC
* * * * * * * *
33954 AA-GATTTTGATGAGACACCTAAACAGGGACCTCAAACAAGGA-TTTAATAAGA-AACTAAACAG
1 AAGGA-TTTGATAAGAAACCTAAACAGGAATCTTAAACAA-GATTTTGATGAGACACCTAAACAG
* *
34016 GAATCTTAAAC
64 GGACCTTAAAC
* *
34027 AAGGATTTGATAAGAAACATAAACAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACAGGA
1 AAGGATTTGATAAGAAACCTAAACAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACAGGG
34092 ACCTTAAAC
66 ACCTTAAAC
* * *
34101 AGGGATTTGATAAAGAAACCTAAAC-GAGAATCTTAAACAAGATTTTGATAAAACACCTAAACAG
1 AAGGATTTGAT-AAGAAACCTAAACAG-GAATCTTAAACAAGATTTTGATGAGACACCTAAACAG
34165 GGACCTTAAAC
64 GGACCTTAAAC
* * * * *
34176 AAGAATGTGATAAGAAAGCTAAATAGGAATCTTAAACAAGATTTTGATGAGACACTTAAACAGGG
1 AAGGATTTGATAAGAAACCTAAACAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACAGGG
*
34241 ATCTTAAAC
66 ACCTTAAAC
34250 AAGGATTTGATAAGAAACCTAAACAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACAGGG
1 AAGGATTTGATAAGAAACCTAAACAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACAGGG
34315 ACCTTAAAC
66 ACCTTAAAC
* * *
34324 AAGGATTTGATAAGAAACCTAAACAGGAATCTTAAATAAGATTTTGATGAAACACCTAAACGGGG
1 AAGGATTTGATAAGAAACCTAAACAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACAGGG
34389 ACCTTAAAC
66 ACCTTAAAC
34398 AAGGATTTGA
1 AAGGATTTGA
34408 CGAGACTGAA
Statistics
Matches: 1334, Mismatches: 134, Indels: 50
0.88 0.09 0.03
Matches are distributed among these distances:
72 2 0.00
73 72 0.05
74 1025 0.77
75 202 0.15
76 30 0.02
77 3 0.00
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.23
Consensus pattern (74 bp):
AAGGATTTGATAAGAAACCTAAACAGGAATCTTAAACAAGATTTTGATGAGACACCTAAACAGGG
ACCTTAAAC
Found at i:36301 original size:15 final size:16
Alignment explanation
Indices: 36281--36310 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36271 TTTTTTCCTC
36281 TTTTTTTT-CAACTTT
1 TTTTTTTTGCAACTTT
36296 TTTTTTTTGCAACTT
1 TTTTTTTTGCAACTT
36311 CTCCCATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTTTTTGCAACTTT
Done.