Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002861.1 Corchorus olitorius cultivar O-4 contig02863, 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, 759

Length: 1266
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36


Found at i:1188 original size:23 final size:23

Alignment explanation


    Indices: 1160--1203  Score: 63
    Period size: 23  Copynumber: 1.9  Consensus size: 23

       1150 TTTAATATTC

                                    
       1160 TAATTATAGAT-TTAATCTATTTA
          1 TAATTATAGATATTAAT-TATTTA

                    *            
       1183 TAATTATATATATTAATTATT
          1 TAATTATAGATATTAATTATT

       1204 AATTCTATAT


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  23   14  0.74
  24    5  0.26

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


Consensus pattern (23 bp):   
TAATTATAGATATTAATTATTTA

Found at i:1212 original size:20 final size:21

Alignment explanation


    Indices: 1174--1224  Score: 61
    Period size: 20  Copynumber: 2.5  Consensus size: 21

       1164 TATAGATTTA

                 *               
       1174 ATCTATTTA-TAATTATATAT
          1 ATCTAATTATTAATTATATAT

                           *     
       1194 AT-TAATTATTAATTCTATAT
          1 ATCTAATTATTAATTATATAT

            *          
       1214 TTCTAATTATT
          1 ATCTAATTATT

       1225 TCTATATTTC


Statistics
Matches: 26,  Mismatches: 3, Indels: 3
        0.81            0.09        0.09

Matches are distributed among these distances:
  19    5  0.19
  20   13  0.50
  21    8  0.31

ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57


Consensus pattern (21 bp):   
ATCTAATTATTAATTATATAT

Found at i:1243 original size:17 final size:18

Alignment explanation


    Indices: 1201--1246  Score: 67
    Period size: 18  Copynumber: 2.6  Consensus size: 18

       1191 TATATTAATT

                *           * 
       1201 ATTAATTCTATATTTCTA
          1 ATTATTTCTATATTTCGA

                              
       1219 ATTATTTCTATATTTCGA
          1 ATTATTTCTATATTTCGA

                       
       1237 A-TATTTCTAT
          1 ATTATTTCTAT

       1247 TTCATTTATT


Statistics
Matches: 26,  Mismatches: 2, Indels: 1
        0.90            0.07        0.03

Matches are distributed among these distances:
  17    9  0.35
  18   17  0.65

ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57


Consensus pattern (18 bp):   
ATTATTTCTATATTTCGA
Done.