Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 130 of 130
Found at i:26551429 original size:7 final size:7
Alignment explanation
Indices: 26551397--26551438 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
26551387 ATATATATAT
26551397 TAATAAA
1 TAATAAA
*
26551404 TAGT-AA
1 TAATAAA
26551410 TAATAAA
1 TAATAAA
26551417 TAAATAAA
1 T-AATAAA
26551425 TAATAAA
1 TAATAAA
26551432 TACATAA
1 TA-ATAA
26551439 GATACAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
6 5 0.17
7 14 0.47
8 11 0.37
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (7 bp):
TAATAAA
Found at i:26551481 original size:7 final size:7
Alignment explanation
Indices: 26551469--26551522 Score: 69
Period size: 7 Copynumber: 8.0 Consensus size: 7
26551459 TATATATCTT
26551469 TATAAAA
1 TATAAAA
26551476 TATAAAA
1 TATAAAA
26551483 TA-AAAA
1 TATAAAA
26551489 TA-AAAA
1 TATAAAA
26551495 TAATAAAA
1 T-ATAAAA
26551503 TATAAAA
1 TATAAAA
*
26551510 TACAAAA
1 TATAAAA
26551517 TA-AAAA
1 TATAAAA
26551523 GCAAAATTGG
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
6 15 0.34
7 24 0.55
8 5 0.11
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (7 bp):
TATAAAA
Found at i:26551500 original size:27 final size:28
Alignment explanation
Indices: 26551470--26551522 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
26551460 ATATATCTTT
26551470 ATAAAATATAAAATA-AAAATAAAAATA
1 ATAAAATATAAAATACAAAATAAAAATA
26551497 ATAAAATATAAAATACAAAATAAAAA
1 ATAAAATATAAAATACAAAATAAAAA
26551523 GCAAAATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (28 bp):
ATAAAATATAAAATACAAAATAAAAATA
Found at i:26551507 original size:22 final size:22
Alignment explanation
Indices: 26551474--26551519 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
26551464 ATCTTTATAA
26551474 AATATAAAATAAAAATA-AAAAT
1 AATATAAAAT-AAAATACAAAAT
26551496 AATA-AAATATAAAATACAAAAT
1 AATATAAA-ATAAAATACAAAAT
26551518 AA
1 AA
26551520 AAAGCAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (22 bp):
AATATAAAATAAAATACAAAAT
Found at i:26551522 original size:69 final size:71
Alignment explanation
Indices: 26551387--26551523 Score: 165
Period size: 69 Copynumber: 2.0 Consensus size: 71
26551377 AAAAATAAAG
* * *
26551387 ATATATATATTAATAAATAGTAATAATAAATAAATAAATAATAAATACATAAGATACAAAGGAAA
1 ATATATATATTAATAAATAGTAATAATAAATAAAAAAATAATAAATACATAAAATACAAAAGAAA
26551452 AAGTAT
66 AAGTAT
* * * *
26551458 ATATATATCTTTATAAAATA-TAA-AATAAA-AATAAAAATAATAAA-ATATAAAATACAAAATA
1 ATATATATATTAAT-AAATAGTAATAATAAATAA-AAAAATAATAAATACATAAAATACAAAAGA
26551519 AAAAG
64 AAAAG
26551524 CAAAATTGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
69 20 0.35
70 17 0.30
71 15 0.26
72 5 0.09
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (71 bp):
ATATATATATTAATAAATAGTAATAATAAATAAAAAAATAATAAATACATAAAATACAAAAGAAA
AAGTAT
Done.