Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01016134.1 Corchorus capsularis cultivar CVL-1 contig16155, 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: 4603
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36


Found at i:1505 original size:9 final size:9

Alignment explanation


    Indices: 1491--1525  Score: 63
    Period size: 9  Copynumber: 4.0  Consensus size: 9

       1481 AGTCAACATA

                     
       1491 GATTTTTTT
          1 GATTTTTTT

                     
       1500 GATTTTTTT
          1 GATTTTTTT

                     
       1509 GA-TTTTTT
          1 GATTTTTTT

                     
       1517 GATTTTTTT
          1 GATTTTTTT

       1526 TTTTAGGATA


Statistics
Matches: 25,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   8    8  0.32
   9   17  0.68

ACGTcount: A:0.11, C:0.00, G:0.11, T:0.77


Consensus pattern (9 bp):   
GATTTTTTT

Found at i:1514 original size:7 final size:8

Alignment explanation


    Indices: 1494--1524  Score: 53
    Period size: 8  Copynumber: 3.8  Consensus size: 8

       1484 CAACATAGAT

                    
       1494 TTTTTTGA
          1 TTTTTTGA

                     
       1502 TTTTTTTGA
          1 -TTTTTTGA

                    
       1511 TTTTTTGA
          1 TTTTTTGA

                  
       1519 TTTTTT
          1 TTTTTT

       1525 TTTTTAGGAT


Statistics
Matches: 22,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
   8   14  0.64
   9    8  0.36

ACGTcount: A:0.10, C:0.00, G:0.10, T:0.81


Consensus pattern (8 bp):   
TTTTTTGA

Found at i:3251 original size:24 final size:22

Alignment explanation


    Indices: 3223--3272  Score: 64
    Period size: 22  Copynumber: 2.2  Consensus size: 22

       3213 TAGTTCAATC

                            *       
       3223 TCTTAATATCTAAAAATATCCTAA
          1 TCTT-ATA-CTAAAAAAATCCTAA

                   *              
       3247 TCTTATAGTAAAAAAATCCTAA
          1 TCTTATACTAAAAAAATCCTAA

                
       3269 TCTT
          1 TCTT

       3273 TTTACAAAAA


Statistics
Matches: 24,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  22   17  0.71
  23    3  0.12
  24    4  0.17

ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38


Consensus pattern (22 bp):   
TCTTATACTAAAAAAATCCTAA
Done.