Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011109.1 Kokia drynarioides strain JFW-HI SEQ_126082, 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, 944
Length: 1574
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.23
Warning! 60 characters in sequence are not A, C, G, or T
Found at i:880 original size:425 final size:415
Alignment explanation
Indices: 90--912 Score: 1556
Period size: 425 Copynumber: 2.0 Consensus size: 415
80 AGATGAATGG
90 AACAGTGGAAGCGGCAAATAAAAACATCAAGAAGATTATTACAAAAATGACAGAAACCTATAAAG
1 AACAGTGGAAGCGGCAAATAAAAACATCAAGAAGATTATTACAAAAATGACAGAAACCTATAAAG
155 ACTGGCATGAGAAATTACCATTCGCTCTCCTTGCTTATAGGACTTCAGTCAGAACGTCTATTGGG
66 ACTGGCATGAGAAATTACCATTCGCTCTCCTTGCTTATAGGACTTCAGTCAGAACGTCTATTGGG
220 ACAACGCCGTTCTCACTTATATATAGGATGAAAGCCATTTTACTCATCGAGATGGAGATTCCTTC
131 ACAACGCCGTTCTCACTTATATATAGGATGAAAGCCATTTTACTCATCGAGATGGAGATTCCTTC
285 TCTTCGAGTCTTGTCAGAGCTAAACTTAGATAAAGCAGAATGGATCCAAGCCAGATATGATCACT
196 TCTTCGAGTCTTGTCAGAGCTAAACTTAGATAAAGCAGAATGGATCCAAGCCAGATATGATCACT
350 TGAACTTGATCGAAGAAAAGAGGTTAAGAGCCATCCGTCATGGTTAGATGTACCAAAAGCGGATG
261 TGAACTTGATCGAAGAAAAGAGGTTAAGAGCCATCCGTCATGGTTAGATGTACCAAAAGCGGATG
415 ATGCGAGCATACAACAAAAAGGTTCGCCCTAGAGAATTTCACGAGGGAGATTTAGTCTTGAAGAA
326 ATGCGAGCATACAACAAAAAGGTTCGCCCTAGAGAATTTCACGAGGGAGATTTAGTCTTGAAGAA
480 GATACTCCCAATACACAAAGACTCT
391 GATACTCCCAATACACAAAGACTCT
505 NNNNNNNNNNAACAGTGGAAGCGGCAAATAAAAACATCAAGAAGATTATTACAAAAATGACAGAA
1 ----------AACAGTGGAAGCGGCAAATAAAAACATCAAGAAGATTATTACAAAAATGACAGAA
570 ACCTATAAAGACTGGCATGAGAAATTACCATTCGCTCTCCTTGCTTATAGGACTTCAGTCAGAAC
56 ACCTATAAAGACTGGCATGAGAAATTACCATTCGCTCTCCTTGCTTATAGGACTTCAGTCAGAAC
635 GTCTATTGGGACAACGCCGTTCTCACTTATATATAGGATGAAAGCCATTTTACTCATCGAGATGG
121 GTCTATTGGGACAACGCCGTTCTCACTTATATATAGGATGAAAGCCATTTTACTCATCGAGATGG
700 AGATTCCTTCTCTTCGAGTCTTGTCAGAGCTAAACTTAGATAAAGCAGAATGGATCCAAGCCAGA
186 AGATTCCTTCTCTTCGAGTCTTGTCAGAGCTAAACTTAGATAAAGCAGAATGGATCCAAGCCAGA
765 TATGATCACTTGAACTTGATCGAAGAAAAGAGGTTAAGAGCCATCCGTCATGGTTAGATGTACCA
251 TATGATCACTTGAACTTGATCGAAGAAAAGAGGTTAAGAGCCATCCGTCATGGTTAGATGTACCA
830 AAAGCGGATGATGCGAGCATACAACAAAAAGGTTCGCCCTAGAGAATTTCACGAGGGAGATTTAG
316 AAAGCGGATGATGCGAGCATACAACAAAAAGGTTCGCCCTAGAGAATTTCACGAGGGAGATTTAG
895 TCTTGAAGAAGATACTCC
381 TCTTGAAGAAGATACTCC
913 NNNNNNNNNN
Statistics
Matches: 398, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
425 398 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (415 bp):
AACAGTGGAAGCGGCAAATAAAAACATCAAGAAGATTATTACAAAAATGACAGAAACCTATAAAG
ACTGGCATGAGAAATTACCATTCGCTCTCCTTGCTTATAGGACTTCAGTCAGAACGTCTATTGGG
ACAACGCCGTTCTCACTTATATATAGGATGAAAGCCATTTTACTCATCGAGATGGAGATTCCTTC
TCTTCGAGTCTTGTCAGAGCTAAACTTAGATAAAGCAGAATGGATCCAAGCCAGATATGATCACT
TGAACTTGATCGAAGAAAAGAGGTTAAGAGCCATCCGTCATGGTTAGATGTACCAAAAGCGGATG
ATGCGAGCATACAACAAAAAGGTTCGCCCTAGAGAATTTCACGAGGGAGATTTAGTCTTGAAGAA
GATACTCCCAATACACAAAGACTCT
Done.