Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009897.1 Corchorus olitorius cultivar O-4 contig09929, 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: 11236
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35


Found at i:1374 original size:17 final size:17

Alignment explanation


    Indices: 1352--1384  Score: 57
    Period size: 17  Copynumber: 1.9  Consensus size: 17

       1342 TGTTGCCTCC

                       *     
       1352 AAATAATTCTATGCCTT
          1 AAATAATTCTACGCCTT

                            
       1369 AAATAATTCTACGCCT
          1 AAATAATTCTACGCCT

       1385 CTTGACAAAT


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   15  1.00

ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36


Consensus pattern (17 bp):   
AAATAATTCTACGCCTT

Found at i:2180 original size:2 final size:2

Alignment explanation


    Indices: 2175--2211  Score: 65
    Period size: 2  Copynumber: 18.5  Consensus size: 2

       2165 TCTCTCTCTC

                                       *                           
       2175 TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

       2212 CTCGTTTTAA


Statistics
Matches: 33,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   2   33  1.00

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (2 bp):   
TA

Found at i:9118 original size:14 final size:14

Alignment explanation


    Indices: 9099--9137  Score: 69
    Period size: 14  Copynumber: 2.8  Consensus size: 14

       9089 GCTAACTAAC

                   *      
       9099 ATACAATTATTCTA
          1 ATACAATGATTCTA

                          
       9113 ATACAATGATTCTA
          1 ATACAATGATTCTA

                       
       9127 ATACAATGATT
          1 ATACAATGATT

       9138 TCATCAATTA


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  14   24  1.00

ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38


Consensus pattern (14 bp):   
ATACAATGATTCTA
Done.