Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006669.1 Corchorus olitorius cultivar O-4 contig06694, 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: 1960
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40


Found at i:872 original size:24 final size:24

Alignment explanation


    Indices: 844--894  Score: 66
    Period size: 24  Copynumber: 2.1  Consensus size: 24

        834 GATTTTTACG

                                  * 
        844 TTAAACATATTATCATTATAATTA
          1 TTAAACATATTATCATTATAATAA

                  * *    *          
        868 TTAAACTTCTTATTATTATAATAA
          1 TTAAACATATTATCATTATAATAA

               
        892 TTA
          1 TTA

        895 TTAGTAGTAG


Statistics
Matches: 23,  Mismatches: 4, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  24   23  1.00

ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49


Consensus pattern (24 bp):   
TTAAACATATTATCATTATAATAA

Found at i:1030 original size:15 final size:15

Alignment explanation


    Indices: 1012--1040  Score: 58
    Period size: 15  Copynumber: 1.9  Consensus size: 15

       1002 ATTATTTCAT

                           
       1012 GAATCAAGACTTACC
          1 GAATCAAGACTTACC

                          
       1027 GAATCAAGACTTAC
          1 GAATCAAGACTTAC

       1041 TTTGATGTAT


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21


Consensus pattern (15 bp):   
GAATCAAGACTTACC

Found at i:1116 original size:3 final size:3

Alignment explanation


    Indices: 1102--1143  Score: 66
    Period size: 3  Copynumber: 14.0  Consensus size: 3

       1092 TATACTTCTT

                  *                             *                  
       1102 ATA ATT ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA
          1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA

       1144 GTAAAATTAT


Statistics
Matches: 35,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
   3   35  1.00

ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36


Consensus pattern (3 bp):   
ATA
Done.