Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021467.1 Corchorus olitorius cultivar O-4 contig21500, 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: 11114
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32


Found at i:7 original size:2 final size:2

Alignment explanation


    Indices: 1--27  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

                                                    
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA T

         28 TAAAGCTTGT


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   25  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:2924 original size:41 final size:41

Alignment explanation


    Indices: 2861--2942  Score: 137
    Period size: 41  Copynumber: 2.0  Consensus size: 41

       2851 ACTTGACCCT

                             *                       
       2861 CCTAATAATTAAGGAAATAAATTAAATTCAAGTTTAGCCCC
          1 CCTAATAATTAAGGAAAGAAATTAAATTCAAGTTTAGCCCC

                          *               *          
       2902 CCTAATAATTAAGGTAAGAAATTAAATTCAGGTTTAGCCCC
          1 CCTAATAATTAAGGAAAGAAATTAAATTCAAGTTTAGCCCC

       2943 TAGTTATAAA


Statistics
Matches: 38,  Mismatches: 3, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  41   38  1.00

ACGTcount: A:0.41, C:0.17, G:0.12, T:0.29


Consensus pattern (41 bp):   
CCTAATAATTAAGGAAAGAAATTAAATTCAAGTTTAGCCCC

Found at i:7656 original size:30 final size:31

Alignment explanation


    Indices: 7620--7690  Score: 121
    Period size: 30  Copynumber: 2.4  Consensus size: 31

       7610 ATTGAATTGT

                                           
       7620 TCAAATCCT-TTGGTTTGAACCTAAGCCTTA
          1 TCAAATCCTGTTGGTTTGAACCTAAGCCTTA

                                           
       7650 TCAAAT-CTGTTGGTTTGAACCTAAGCCTTA
          1 TCAAATCCTGTTGGTTTGAACCTAAGCCTTA

                        
       7680 TCAAAT-CTGTT
          1 TCAAATCCTGTT

       7691 ACTAGTTCAA


Statistics
Matches: 40,  Mismatches: 0, Indels: 2
        0.95            0.00        0.05

Matches are distributed among these distances:
  29    2  0.05
  30   38  0.95

ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38


Consensus pattern (31 bp):   
TCAAATCCTGTTGGTTTGAACCTAAGCCTTA
Done.