Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013527.1 Corchorus olitorius cultivar O-4 contig13560, 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: 9820
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35


Found at i:2382 original size:19 final size:18

Alignment explanation


    Indices: 2358--2397  Score: 53
    Period size: 18  Copynumber: 2.2  Consensus size: 18

       2348 TTGAATATTT

                    *          
       2358 ATTGAAGATAATTTGAAGA
          1 ATTGAAGACAA-TTGAAGA

                     *        
       2377 ATTGAAGACCATTGAAGA
          1 ATTGAAGACAATTGAAGA

               
       2395 ATT
          1 ATT

       2398 ATCTCAAGAG


Statistics
Matches: 19,  Mismatches: 2, Indels: 1
        0.86            0.09        0.05

Matches are distributed among these distances:
  18   10  0.53
  19    9  0.47

ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30


Consensus pattern (18 bp):   
ATTGAAGACAATTGAAGA

Found at i:7333 original size:32 final size:32

Alignment explanation


    Indices: 7292--7437  Score: 136
    Period size: 32  Copynumber: 4.6  Consensus size: 32

       7282 TATTAAATTG

                           *                
       7292 AATGAGGACAAATTTCCAATGCATTAATTGCA
          1 AATGAGGACAAATTTACAATGCATTAATTGCA

                *                         * 
       7324 AATGGGGACAAATTTACAATGCATTAATTGTA
          1 AATGAGGACAAATTTACAATGCATTAATTGCA

               *           *     *       *  
       7356 AATAAGGACAAATTTGCAATGTATTAATTTCA
          1 AATGAGGACAAATTTACAATGCATTAATTGCA

                        *   *    *          * 
       7388 AAT-AGAGACAATTTTGCAATTCATTTAA--GTA
          1 AATGAG-GACAAATTTACAATGCA-TTAATTGCA

            *    *             
       7419 TATGAAGACAAATTTACAA
          1 AATGAGGACAAATTTACAA

       7438 ACTAATCATT


Statistics
Matches: 93,  Mismatches: 18, Indels: 7
        0.79            0.15        0.06

Matches are distributed among these distances:
  31   16  0.17
  32   73  0.78
  33    4  0.04

ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32


Consensus pattern (32 bp):   
AATGAGGACAAATTTACAATGCATTAATTGCA
Done.