Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023581.1 Corchorus olitorius cultivar O-4 contig23614, 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: 7760
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32


Found at i:6294 original size:8 final size:8

Alignment explanation


    Indices: 6273--6319  Score: 53
    Period size: 8  Copynumber: 5.9  Consensus size: 8

       6263 TAATTTTCTG

                  * 
       6273 ATTTTTCC
          1 ATTTTTTC

                     
       6281 ATTTTTTTC
          1 A-TTTTTTC

                    
       6290 ATTTTTTC
          1 ATTTTTTC

                     
       6298 -TTTTCTTC
          1 ATTTT-TTC

                    
       6306 -TTTTTTC
          1 ATTTTTTC

                   
       6313 ATTTTTT
          1 ATTTTTT

       6320 TTCTTCAAAC


Statistics
Matches: 35,  Mismatches: 1, Indels: 6
        0.83            0.02        0.14

Matches are distributed among these distances:
   7    7  0.20
   8   21  0.60
   9    7  0.20

ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77


Consensus pattern (8 bp):   
ATTTTTTC

Found at i:6301 original size:23 final size:23

Alignment explanation


    Indices: 6275--6319  Score: 65
    Period size: 23  Copynumber: 2.0  Consensus size: 23

       6265 ATTTTCTGAT

                                    
       6275 TTTTCCAT-TTTTTTCATTTTTTC
          1 TTTT-CATCTTTTTTCATTTTTTC

                 *                
       6298 TTTTCTTCTTTTTTCATTTTTT
          1 TTTTCATCTTTTTTCATTTTTT

       6320 TTCTTCAAAC


Statistics
Matches: 20,  Mismatches: 1, Indels: 2
        0.87            0.04        0.09

Matches are distributed among these distances:
  22    2  0.10
  23   18  0.90

ACGTcount: A:0.07, C:0.16, G:0.00, T:0.78


Consensus pattern (23 bp):   
TTTTCATCTTTTTTCATTTTTTC

Found at i:7035 original size:14 final size:14

Alignment explanation


    Indices: 7016--7043  Score: 56
    Period size: 14  Copynumber: 2.0  Consensus size: 14

       7006 CTAAACCCTC

                          
       7016 CTAAAAATCGAATA
          1 CTAAAAATCGAATA

                          
       7030 CTAAAAATCGAATA
          1 CTAAAAATCGAATA

       7044 GCAAGCCCCA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   14  1.00

ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21


Consensus pattern (14 bp):   
CTAAAAATCGAATA
Done.