Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000665.1 Kokia drynarioides strain JFW-HI SEQ_111652, 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: 4127
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35


Found at i:1265 original size:30 final size:31

Alignment explanation


    Indices: 1226--1287  Score: 90
    Period size: 30  Copynumber: 2.0  Consensus size: 31

       1216 TTAATATAAC

                       *      *        *   
       1226 ATTTGGTACCTGAACTTGGCATTTTTTTTTA
          1 ATTTGGTACCTAAACTTGACATTTTTTCTTA

                                           
       1257 ATTT-GTACCTAAACTTGACATTTTTTCTTA
          1 ATTTGGTACCTAAACTTGACATTTTTTCTTA

             
       1287 A
          1 A

       1288 GTTGATACTT


Statistics
Matches: 28,  Mismatches: 3, Indels: 1
        0.88            0.09        0.03

Matches are distributed among these distances:
  30   24  0.86
  31    4  0.14

ACGTcount: A:0.24, C:0.15, G:0.11, T:0.50


Consensus pattern (31 bp):   
ATTTGGTACCTAAACTTGACATTTTTTCTTA

Found at i:1339 original size:58 final size:58

Alignment explanation


    Indices: 1255--1365  Score: 136
    Period size: 58  Copynumber: 1.9  Consensus size: 58

       1245 CATTTTTTTT

                      *                  *           *                
       1255 TAATTTGTACCTAAACTTGACATTTTTTCTTAAGTTGATACTTAAT-TTTTTTAGCTC
          1 TAATTTGTACATAAACTTGACATTTTTTCCTAAGTTGATACATAATCTTTTTTAGCTC

                         *                     *   *               
       1312 TAATTTGGTACATGAACTTGATC-TTTTTTCCTAATTTGGTACATAATCTTTTTT
          1 TAATTT-GTACATAAACTTGA-CATTTTTTCCTAAGTTGATACATAATCTTTTTT

       1366 TTATTTAATT


Statistics
Matches: 45,  Mismatches: 6, Indels: 4
        0.82            0.11        0.07

Matches are distributed among these distances:
  57    6  0.13
  58   32  0.71
  59    7  0.16

ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51


Consensus pattern (58 bp):   
TAATTTGTACATAAACTTGACATTTTTTCCTAAGTTGATACATAATCTTTTTTAGCTC
Done.