Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020935.1 Corchorus olitorius cultivar O-4 contig20968, 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: 6222
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34


Found at i:1430 original size:23 final size:22

Alignment explanation


    Indices: 1383--1503  Score: 120
    Period size: 23  Copynumber: 5.5  Consensus size: 22

       1373 ACCTATGAAT

                   *   *       ** 
       1383 TATGAAACTTTGATAACCTAAC
          1 TATGAAATTTTAATAACCTTTC

                                   
       1405 TATGAAATTTTAATAAACCTTTC
          1 TATGAAATTTTAAT-AACCTTTC

                                 * 
       1428 TATGAAATTTTAATAAACCTTCC
          1 TATGAAATTTTAAT-AACCTTTC

                        *         
       1451 TATGAAATTTT-GTAACCTTTC
          1 TATGAAATTTTAATAACCTTTC

                  *    *       *  
       1472 TATG-ATTTTTGATAACCTCTC
          1 TATGAAATTTTAATAACCTTTC

                 *     
       1493 TATGAGATTTT
          1 TATGAAATTTT

       1504 GTTAATTTCC


Statistics
Matches: 84,  Mismatches: 12, Indels: 6
        0.82            0.12        0.06

Matches are distributed among these distances:
  20    5  0.06
  21   23  0.27
  22   17  0.20
  23   39  0.46

ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43


Consensus pattern (22 bp):   
TATGAAATTTTAATAACCTTTC

Found at i:3027 original size:27 final size:27

Alignment explanation


    Indices: 2972--3029  Score: 75
    Period size: 27  Copynumber: 2.1  Consensus size: 27

       2962 CTAAATTTTT

                                        
       2972 TATTATTTTAATAATGAAATAATTAAAA
          1 TATTATTTTAATAATGAAAT-ATTAAAA

                                         
       3000 TATTA-TTTAATAATGACAAT-TTAGAAA
          1 TATTATTTTAATAATGA-AATATTA-AAA

               
       3027 TAT
          1 TAT

       3030 ATTCAAAAAA


Statistics
Matches: 28,  Mismatches: 0, Indels: 5
        0.85            0.00        0.15

Matches are distributed among these distances:
  26    3  0.11
  27   17  0.61
  28    8  0.29

ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43


Consensus pattern (27 bp):   
TATTATTTTAATAATGAAATATTAAAA
Done.