Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014455.1 Corchorus olitorius cultivar O-4 contig14488, 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: 3470
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37


Found at i:6 original size:1 final size:1

Alignment explanation


    Indices: 1--25  Score: 50
    Period size: 1  Copynumber: 25.0  Consensus size: 1

                                     
          1 TTTTTTTTTTTTTTTTTTTTTTTTT
          1 TTTTTTTTTTTTTTTTTTTTTTTTT

         26 ACGTATCAAG


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   24  1.00

ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00


Consensus pattern (1 bp):   
T

Found at i:1471 original size:46 final size:46

Alignment explanation


    Indices: 1397--1488  Score: 130
    Period size: 46  Copynumber: 2.0  Consensus size: 46

       1387 TCCTGTATTA

                               *   *         *            
       1397 CACGATTATCCAACTCAATTTTACCTAGAAAATGTGCTAATACATT
          1 CACGATTATCCAACTCAATCTTAACTAGAAAATATGCTAATACATT

                      * *                *                
       1443 CACGATTATCGAGCTCAATCTTAACTAGAGAATATGCTAATACATT
          1 CACGATTATCCAACTCAATCTTAACTAGAAAATATGCTAATACATT

       1489 GGTTTCCTAT


Statistics
Matches: 40,  Mismatches: 6, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  46   40  1.00

ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32


Consensus pattern (46 bp):   
CACGATTATCCAACTCAATCTTAACTAGAAAATATGCTAATACATT

Found at i:2480 original size:28 final size:28

Alignment explanation


    Indices: 2439--2496  Score: 98
    Period size: 28  Copynumber: 2.1  Consensus size: 28

       2429 AATTATCATA

                    *                   
       2439 ATTTCATAGTTGTGTAAGTTCTAGTATT
          1 ATTTCATAATTGTGTAAGTTCTAGTATT

                *                       
       2467 ATTTGATAATTGTGTAAGTTCTAGTATT
          1 ATTTCATAATTGTGTAAGTTCTAGTATT

              
       2495 AT
          1 AT

       2497 CTTAGAGAGG


Statistics
Matches: 28,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  28   28  1.00

ACGTcount: A:0.28, C:0.05, G:0.17, T:0.50


Consensus pattern (28 bp):   
ATTTCATAATTGTGTAAGTTCTAGTATT
Done.