Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013363.1 Corchorus olitorius cultivar O-4 contig13396, 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: 2836
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.34


Found at i:640 original size:33 final size:33

Alignment explanation


    Indices: 598--731  Score: 121
    Period size: 33  Copynumber: 4.1  Consensus size: 33

        588 CAGATTTGAG

                      *                       
        598 TGTTGTTTGCAATGACA-TGAAATCTGTTTTAGA
          1 TGTTGTTTGCGATGACACT-AAATCTGTTTTAGA

                           *      *  **      
        631 TGTTGTTTGCGATGATACTAAACCTAATTT-GA
          1 TGTTGTTTGCGATGACACTAAATCTGTTTTAGA

                 *    *                      *
        663 GTGTTATTTGTGATGACACTAAATCTGTTTTAGG
          1 -TGTTGTTTGCGATGACACTAAATCTGTTTTAGA

                     *     *               *  
        697 TGTTGTTTGTGATGAAAC-AAATTCTGTTTTGGA
          1 TGTTGTTTGCGATGACACTAAA-TCTGTTTTAGA

              
        730 TG
          1 TG

        732 CTAATTGTGA


Statistics
Matches: 81,  Mismatches: 16, Indels: 8
        0.77            0.15        0.08

Matches are distributed among these distances:
  32    5  0.06
  33   74  0.91
  34    2  0.02

ACGTcount: A:0.25, C:0.09, G:0.22, T:0.43


Consensus pattern (33 bp):   
TGTTGTTTGCGATGACACTAAATCTGTTTTAGA

Found at i:740 original size:66 final size:66

Alignment explanation


    Indices: 609--759  Score: 157
    Period size: 66  Copynumber: 2.3  Consensus size: 66

        599 GTTGTTTGCA

                                                  *                   *  *   
        609 ATGACA-TGAAATCTGTTTTAGATGTTGTTTGCGATGATACTAAACCTAATTTGAGTGTTATTTG
          1 ATGACACT-AAATCTGTTTTAGATGTTGTTTGCGATGAAACTAAACCTAATTTGAGTGCTAATTG

              
        673 TG
         65 TG

                                 *         *             *  **               
        675 ATGACACTAAATCTGTTTTAGGTGTTGTTTGTGATGAAAC-AAATTCTGTTTTG-GATGCTAATT
          1 ATGACACTAAATCTGTTTTAGATGTTGTTTGCGATGAAACTAAA-CCTAATTTGAG-TGCTAATT

               
        738 GTG
         64 GTG

                 *              
        741 ATGAAAAC-AAATCTGTTTT
          1 ATG-ACACTAAATCTGTTTT

        760 GGTTGATCAT


Statistics
Matches: 72,  Mismatches: 9, Indels: 8
        0.81            0.10        0.09

Matches are distributed among these distances:
  65    4  0.06
  66   64  0.89
  67    4  0.06

ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42


Consensus pattern (66 bp):   
ATGACACTAAATCTGTTTTAGATGTTGTTTGCGATGAAACTAAACCTAATTTGAGTGCTAATTGT
G
Done.