Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024428.1 Corchorus olitorius cultivar O-4 contig24461, 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: 2740
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34


Found at i:1355 original size:16 final size:16

Alignment explanation


    Indices: 1334--1364  Score: 53
    Period size: 16  Copynumber: 1.9  Consensus size: 16

       1324 TCCTCCTCTC

                    *       
       1334 TACAATTATTAATAAT
          1 TACAATTAATAATAAT

                           
       1350 TACAATTAATAATAA
          1 TACAATTAATAATAA

       1365 CAATAGAATA


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  16   14  1.00

ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39


Consensus pattern (16 bp):   
TACAATTAATAATAAT

Found at i:1551 original size:16 final size:15

Alignment explanation


    Indices: 1524--1567  Score: 54
    Period size: 15  Copynumber: 2.9  Consensus size: 15

       1514 ATTATTGATT

                           
       1524 AATTAATAATTAATG
          1 AATTAATAATTAATG

                            *
       1539 AATTAACTAATTAATTT
          1 AATTAA-TAATTAA-TG

                         
       1556 AA-TAATAATTAA
          1 AATTAATAATTAA

       1568 ACCTATTAAT


Statistics
Matches: 26,  Mismatches: 1, Indels: 4
        0.84            0.03        0.13

Matches are distributed among these distances:
  15   13  0.50
  16   10  0.38
  17    3  0.12

ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41


Consensus pattern (15 bp):   
AATTAATAATTAATG

Found at i:1636 original size:21 final size:22

Alignment explanation


    Indices: 1591--1639  Score: 75
    Period size: 21  Copynumber: 2.3  Consensus size: 22

       1581 TCTTCAATTT

                                  
       1591 TTAATAAAATCATAATTAATAA
          1 TTAATAAAATCATAATTAATAA

                                   
       1613 TTAATAAAA-CAT-ATTAATATA
          1 TTAATAAAATCATAATTAATA-A

                  
       1634 TTAATA
          1 TTAATA

       1640 CTTAATAATC


Statistics
Matches: 26,  Mismatches: 0, Indels: 3
        0.90            0.00        0.10

Matches are distributed among these distances:
  20    7  0.27
  21   10  0.38
  22    9  0.35

ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39


Consensus pattern (22 bp):   
TTAATAAAATCATAATTAATAA
Done.