Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001431.1 Corchorus olitorius cultivar O-4 contig01431, 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, 641

Length: 1069
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.35


Found at i:510 original size:33 final size:33

Alignment explanation


    Indices: 468--669  Score: 203
    Period size: 33  Copynumber: 6.1  Consensus size: 33

        458 CTGAACCTAA

                           **       *        
        468 TTTGAGTGTTGTTTGCAATGACACGAAATCTGT
          1 TTTGAGTGTTGTTTGTGATGACACTAAATCTGT

                         *       *      *  **
        501 TTTGAGTGTTGTTAGTGATGATACTAAACCTAA
          1 TTTGAGTGTTGTTTGTGATGACACTAAATCTGT

                           *                 
        534 TTTGAGTGTTGTTTGCGATGACACTAAATCTGT
          1 TTTGAGTGTTGTTTGTGATGACACTAAATCTGT

             *            *       *      *  **
        567 TCT-AGATGTTGTTAGTGATGATACTAAAACTAA
          1 TTTGAG-TGTTGTTTGTGATGACACTAAATCTGT

                *                            
        600 TTTGTGTGTTGTTTGTGATGACACTAAATCTGT
          1 TTTGAGTGTTGTTTGTGATGACACTAAATCTGT

                                  *            
        633 TTT-AGGTGTTGTTTGTGATGAAAC-AAATTCTGT
          1 TTTGA-GTGTTGTTTGTGATGACACTAAA-TCTGT

                
        666 TTTG
          1 TTTG

        670 GATGCTAATT


Statistics
Matches: 134,  Mismatches: 30, Indels: 9
        0.77            0.17        0.05

Matches are distributed among these distances:
  32    5  0.04
  33  128  0.96
  34    1  0.01

ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43


Consensus pattern (33 bp):   
TTTGAGTGTTGTTTGTGATGACACTAAATCTGT

Found at i:567 original size:66 final size:65

Alignment explanation


    Indices: 461--653  Score: 296
    Period size: 66  Copynumber: 2.9  Consensus size: 65

        451 AGTAATTCTG

                                   *       *                                 
        461 AACCTAATTTGAGTGTTGTTTGCAATGACACGAAATCTGTTTTGAGTGTTGTTAGTGATGATACT
          1 AACCTAATTTGAGTGTTGTTTGCGATGACACTAAATCTGTTTT-AGTGTTGTTAGTGATGATACT

             
        526 A
         65 A

                                                     *                       
        527 AACCTAATTTGAGTGTTGTTTGCGATGACACTAAATCTGTTCTAGATGTTGTTAGTGATGATACT
          1 AACCTAATTTGAGTGTTGTTTGCGATGACACTAAATCTGTTTTAG-TGTTGTTAGTGATGATACT

             
        592 A
         65 A

              *        *          *                              *       
        593 AAACTAATTTGTGTGTTGTTTGTGATGACACTAAATCTGTTTTAGGTGTTGTTTGTGATGA
          1 AACCTAATTTGAGTGTTGTTTGCGATGACACTAAATCTGTTTTA-GTGTTGTTAGTGATGA

        654 AACAAATTCT


Statistics
Matches: 117,  Mismatches: 8, Indels: 4
        0.91            0.06        0.03

Matches are distributed among these distances:
  65    2  0.02
  66  114  0.97
  67    1  0.01

ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41


Consensus pattern (65 bp):   
AACCTAATTTGAGTGTTGTTTGCGATGACACTAAATCTGTTTTAGTGTTGTTAGTGATGATACTA

Done.