Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013206.1 Corchorus olitorius cultivar O-4 contig13239, 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: 3203
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35


Found at i:1642 original size:10 final size:10

Alignment explanation


    Indices: 1629--1653  Score: 50
    Period size: 10  Copynumber: 2.5  Consensus size: 10

       1619 ACATTAATAC

                      
       1629 TAATTGATTT
          1 TAATTGATTT

                      
       1639 TAATTGATTT
          1 TAATTGATTT

                 
       1649 TAATT
          1 TAATT

       1654 TGATCAATAT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   15  1.00

ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60


Consensus pattern (10 bp):   
TAATTGATTT

Found at i:1741 original size:4 final size:4

Alignment explanation


    Indices: 1732--1770  Score: 78
    Period size: 4  Copynumber: 9.8  Consensus size: 4

       1722 AAGATATTCA

                                                            
       1732 AATC AATC AATC AATC AATC AATC AATC AATC AATC AAT
          1 AATC AATC AATC AATC AATC AATC AATC AATC AATC AAT

       1771 TTAATATCAT


Statistics
Matches: 35,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   4   35  1.00

ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26


Consensus pattern (4 bp):   
AATC

Found at i:1825 original size:85 final size:85

Alignment explanation


    Indices: 1667--1835  Score: 284
    Period size: 87  Copynumber: 1.9  Consensus size: 85

       1657 TCAATATTCA

                                                                  *          
       1667 AATCAATCAATCAATCAATTTAATATCATTAGTACTAATTGATTCTAATTGGATTAAGATATTCA
          1 AATCAATCAATCAATCAATTTAATATCATTAGTACTAATTGATTCTAATTGGATCAAGATATTCA

                                
       1732 AATCAATCAATCAATCAATC
         66 AATCAATCAATCAATCAATC

                                                                       *     
       1752 AATCAATCAATCAATCAATTTAATATCATTTTAGTACTAATTGATTCTAATTGGATCAAAATCTA
          1 AATCAATCAATCAATCAATTTAATATCA--TTAGTACTAATTGATTCTAATTGGATCAAGA--TA

                               
       1817 TTCAAATCAATCAATCAAT
         62 TTCAAATCAATCAATCAAT

       1836 TTAATATATA


Statistics
Matches: 78,  Mismatches: 2, Indels: 4
        0.93            0.02        0.05

Matches are distributed among these distances:
  85   28  0.36
  87   29  0.37
  89   21  0.27

ACGTcount: A:0.43, C:0.15, G:0.05, T:0.36


Consensus pattern (85 bp):   
AATCAATCAATCAATCAATTTAATATCATTAGTACTAATTGATTCTAATTGGATCAAGATATTCA
AATCAATCAATCAATCAATC
Done.