Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019466.1 Corchorus olitorius cultivar O-4 contig19499, 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: 1819
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33


Found at i:284 original size:3 final size:3

Alignment explanation


    Indices: 270--330  Score: 113
    Period size: 3  Copynumber: 20.3  Consensus size: 3

        260 TTGCTTTCTC

                     *                                                     
        270 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA

                             
        318 TTA TTA TTA TTA T
          1 TTA TTA TTA TTA T

        331 AAAATCAGAA


Statistics
Matches: 56,  Mismatches: 2, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
   3   56  1.00

ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66


Consensus pattern (3 bp):   
TTA

Found at i:1247 original size:9 final size:9

Alignment explanation


    Indices: 1230--1278  Score: 80
    Period size: 9  Copynumber: 5.3  Consensus size: 9

       1220 CCGGTGGTGG

                *    
       1230 TTGGGGTTC
          1 TTGGTGTTC

                     
       1239 TTGGTGTTC
          1 TTGGTGTTC

                     
       1248 TTGGTGTTC
          1 TTGGTGTTC

                     
       1257 TTGGTGTTC
          1 TTGGTGTTC

                      
       1266 TTGAGTGTTC
          1 TTG-GTGTTC

               
       1276 TTG
          1 TTG

       1279 AGAAAAAGGG


Statistics
Matches: 38,  Mismatches: 1, Indels: 1
        0.95            0.03        0.03

Matches are distributed among these distances:
   9   29  0.76
  10    9  0.24

ACGTcount: A:0.02, C:0.10, G:0.35, T:0.53


Consensus pattern (9 bp):   
TTGGTGTTC

Done.