Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015229.1 Corchorus olitorius cultivar O-4 contig15262, 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: 23967
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31


Found at i:1507 original size:19 final size:18

Alignment explanation


    Indices: 1474--1509  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       1464 TTGAAATTAT

                              
       1474 TCTTCAATGGTCTTCAAA
          1 TCTTCAATGGTCTTCAAA

                     *        
       1492 TCTTCAAATTGTCTTCAA
          1 TCTTC-AATGGTCTTCAA

       1510 TAAATCTTCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    5  0.31
  19   11  0.69

ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42


Consensus pattern (18 bp):   
TCTTCAATGGTCTTCAAA

Found at i:6725 original size:30 final size:30

Alignment explanation


    Indices: 6691--6748  Score: 82
    Period size: 30  Copynumber: 1.9  Consensus size: 30

       6681 AATTCTTGCT

                                 *         
       6691 TCTTGAAATAATTCTTCAA-TGATCTTCATA
          1 TCTTGAAATAA-TCTTCAATTAATCTTCATA

                     *                  
       6721 TCTTGAAATTATCTTCAATTAATCTTCA
          1 TCTTGAAATAATCTTCAATTAATCTTCA

       6749 ATCACGAACT


Statistics
Matches: 25,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  29    7  0.28
  30   18  0.72

ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45


Consensus pattern (30 bp):   
TCTTGAAATAATCTTCAATTAATCTTCATA

Found at i:13708 original size:22 final size:21

Alignment explanation


    Indices: 13677--13717  Score: 55
    Period size: 21  Copynumber: 1.9  Consensus size: 21

      13667 TTGGAGAAAA

                       *          
      13677 TTAGGGTTATTTTATTTTTAGT
          1 TTAGGGTTA-TATATTTTTAGT

                 *             
      13699 TTAGGTTTATATATTTTTA
          1 TTAGGGTTATATATTTTTA

      13718 AGTTAAAAAT


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  21    9  0.53
  22    8  0.47

ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63


Consensus pattern (21 bp):   
TTAGGGTTATATATTTTTAGT
Done.