Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023076.1 Corchorus olitorius cultivar O-4 contig23109, 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: 15345
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


Found at i:1009 original size:3 final size:3

Alignment explanation


    Indices: 937--992  Score: 64
    Period size: 3  Copynumber: 19.0  Consensus size: 3

        927 TATAGTATAT

                                                           *             
        937 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GA-A CACA A-A ATA ATA
          1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -ATA ATA ATA ATA

                           
        982 AT- ATA ATA ATA
          1 ATA ATA ATA ATA

        993 GAATTTATTT


Statistics
Matches: 48,  Mismatches: 1, Indels: 8
        0.84            0.02        0.14

Matches are distributed among these distances:
   2    4  0.08
   3   42  0.88
   4    2  0.04

ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29


Consensus pattern (3 bp):   
ATA

Found at i:3305 original size:27 final size:25

Alignment explanation


    Indices: 3247--3312  Score: 73
    Period size: 24  Copynumber: 2.6  Consensus size: 25

       3237 GTTACTAGTG

                                    *
       3247 ATAATAATACTATACTTTTTTTTTG
          1 ATAATAATACTATACTTTTTTTTTC

               *                        
       3272 A-AGTAATACTAGTA-TTACTTTTTTTC
          1 ATAATAATACTA-TACTT--TTTTTTTC

                           
       3298 ATAATAATACTATAC
          1 ATAATAATACTATAC

       3313 ATAACTATAA


Statistics
Matches: 33,  Mismatches: 3, Indels: 8
        0.75            0.07        0.18

Matches are distributed among these distances:
  24   11  0.33
  25    3  0.09
  26   10  0.30
  27    9  0.27

ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48


Consensus pattern (25 bp):   
ATAATAATACTATACTTTTTTTTTC

Found at i:12657 original size:3 final size:3

Alignment explanation


    Indices: 12651--12676  Score: 52
    Period size: 3  Copynumber: 8.7  Consensus size: 3

      12641 ATTTTCTTCT

                                              
      12651 TCA TCA TCA TCA TCA TCA TCA TCA TC
          1 TCA TCA TCA TCA TCA TCA TCA TCA TC

      12677 TAATTAATCA


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   23  1.00

ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35


Consensus pattern (3 bp):   
TCA

Done.