Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009753.1 Corchorus olitorius cultivar O-4 contig09785, 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: 3589
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35


Found at i:1403 original size:42 final size:43

Alignment explanation


    Indices: 1352--1445  Score: 122
    Period size: 45  Copynumber: 2.2  Consensus size: 43

       1342 AGTGTGTTAC

                                                       *
       1352 CTAA-ATTCTA-CTCCATCTCTAGG-TAATTCATCAAAATAAAG
          1 CTAATATTCTACCTCCATCTCT-GGATAATTCATCAAAATAAAA

                                                         
       1393 CTAATATTCTACTCCTCCATCTCTGGATAATTCATCAAAATAAAA
          1 CTAATATTCTA--CCTCCATCTCTGGATAATTCATCAAAATAAAA

            *       
       1438 TTAATATT
          1 CTAATATT

       1446 AATTGTTGTT


Statistics
Matches: 46,  Mismatches: 2, Indels: 6
        0.85            0.04        0.11

Matches are distributed among these distances:
  41    4  0.09
  42    6  0.13
  44    2  0.04
  45   34  0.74

ACGTcount: A:0.38, C:0.21, G:0.05, T:0.35


Consensus pattern (43 bp):   
CTAATATTCTACCTCCATCTCTGGATAATTCATCAAAATAAAA

Found at i:2413 original size:51 final size:51

Alignment explanation


    Indices: 2337--2440  Score: 190
    Period size: 51  Copynumber: 2.0  Consensus size: 51

       2327 GAGGCACCAC

                   *                        *                  
       2337 ATTAATCTTCAATTTGGCCTTTAAGTAATTTCCATAGTCACTAAAAATAAT
          1 ATTAATCCTCAATTTGGCCTTTAAGTAATTTCAATAGTCACTAAAAATAAT

                                                               
       2388 ATTAATCCTCAATTTGGCCTTTAAGTAATTTCAATAGTCACTAAAAATAAT
          1 ATTAATCCTCAATTTGGCCTTTAAGTAATTTCAATAGTCACTAAAAATAAT

              
       2439 AT
          1 AT

       2441 ATAGTATATA


Statistics
Matches: 51,  Mismatches: 2, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  51   51  1.00

ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38


Consensus pattern (51 bp):   
ATTAATCCTCAATTTGGCCTTTAAGTAATTTCAATAGTCACTAAAAATAAT
Done.