Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001361.1 Kokia drynarioides strain JFW-HI SEQ_112818, 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: 12345
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32


Found at i:1493 original size:15 final size:15

Alignment explanation


    Indices: 1473--1513  Score: 55
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       1463 TGTTAAATTT

                           
       1473 ATAATTAAACAAAAA
          1 ATAATTAAACAAAAA

                      *    
       1488 ATAATTAAACTAAAA
          1 ATAATTAAACAAAAA

            *     *    
       1503 GTAATTGAACA
          1 ATAATTAAACA

       1514 TTTAAATACA


Statistics
Matches: 22,  Mismatches: 4, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  15   22  1.00

ACGTcount: A:0.63, C:0.07, G:0.05, T:0.24


Consensus pattern (15 bp):   
ATAATTAAACAAAAA

Found at i:1684 original size:23 final size:24

Alignment explanation


    Indices: 1639--1684  Score: 76
    Period size: 24  Copynumber: 2.0  Consensus size: 24

       1629 TTTGACAAGT

                                    
       1639 TTAGGTACCAAATTGAGAAAAAAA
          1 TTAGGTACCAAATTGAGAAAAAAA

                   *               
       1663 TTAGGTATCAAATT-AGAAAAAA
          1 TTAGGTACCAAATTGAGAAAAAA

       1685 GTATGAACTT


Statistics
Matches: 21,  Mismatches: 1, Indels: 1
        0.91            0.04        0.04

Matches are distributed among these distances:
  23    8  0.38
  24   13  0.62

ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24


Consensus pattern (24 bp):   
TTAGGTACCAAATTGAGAAAAAAA

Found at i:3368 original size:16 final size:17

Alignment explanation


    Indices: 3338--3371  Score: 52
    Period size: 16  Copynumber: 2.1  Consensus size: 17

       3328 ACATACACAT

                             
       3338 ATTAATAATTAAAATAC
          1 ATTAATAATTAAAATAC

                      *      
       3355 ATTAA-AATTTAAATAC
          1 ATTAATAATTAAAATAC

             
       3371 A
          1 A

       3372 ATCATGCCAT


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  16   11  0.69
  17    5  0.31

ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35


Consensus pattern (17 bp):   
ATTAATAATTAAAATAC
Done.