Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: NTFQ01000188.1 Kokia drynarioides strain JFW-HI SEQ_110871, 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: 29038 ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33 Found at i:2716 original size:33 final size:33 Alignment explanation
Indices: 2674--2736 Score: 126 Period size: 33 Copynumber: 1.9 Consensus size: 33 2664 GAAAGAAGTA 2674 AGAGTACAAAAGATGGAGATAAAAACTAAATCC 1 AGAGTACAAAAGATGGAGATAAAAACTAAATCC 2707 AGAGTACAAAAGATGGAGATAAAAACTAAA 1 AGAGTACAAAAGATGGAGATAAAAACTAAA 2737 CCCTAAAAAA Statistics Matches: 30, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 33 30 1.00 ACGTcount: A:0.57, C:0.10, G:0.19, T:0.14 Consensus pattern (33 bp): AGAGTACAAAAGATGGAGATAAAAACTAAATCC Found at i:16898 original size:17 final size:16 Alignment explanation
Indices: 16858--16898 Score: 55 Period size: 17 Copynumber: 2.4 Consensus size: 16 16848 TTGTCTTTCT 16858 TGCAATGTAAACGTCC 1 TGCAATGTAAACGTCC * 16874 TCGTAATGTAAACGTTCC 1 T-GCAATGTAAACG-TCC 16892 TGCAATG 1 TGCAATG 16899 CCACATAACT Statistics Matches: 21, Mismatches: 2, Indels: 3 0.81 0.08 0.12 Matches are distributed among these distances: 16 1 0.05 17 16 0.76 18 4 0.19 ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29 Consensus pattern (16 bp): TGCAATGTAAACGTCC Found at i:16992 original size:16 final size:16 Alignment explanation
Indices: 16971--17004 Score: 59 Period size: 16 Copynumber: 2.1 Consensus size: 16 16961 CTATGCATGC * 16971 AAAATATAAAAGACAT 1 AAAATACAAAAGACAT 16987 AAAATACAAAAGACAT 1 AAAATACAAAAGACAT 17003 AA 1 AA 17005 TAGTGAACTG Statistics Matches: 17, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 16 17 1.00 ACGTcount: A:0.71, C:0.09, G:0.06, T:0.15 Consensus pattern (16 bp): AAAATACAAAAGACAT Done.