Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013808.1 Corchorus olitorius cultivar O-4 contig13841, 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: 36860
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32


Found at i:33506 original size:182 final size:179

Alignment explanation


    Indices: 33193--33556  Score: 633
    Period size: 182  Copynumber: 2.0  Consensus size: 179

      33183 CTTTTATCTG

                                 *                                           
      33193 AATTTACTAATTGAGTTTAGTGCCAATGGCATCCACATATTAAGGAAAGCGTTATCAAATCTTAT
          1 AATTTACTAATTGAGTTTAGTACCAATGG---CCACATATTAAGGAAAGCGTTATCAAATCTTAT

                                                                             
      33258 TAATTAGGTTCGAAACAAAACACTCATTTTTTTTTGGTGAAAAAAAAAACTCATTCAACATGTAA
         63 TAATTAGGTTCGAAACAAAACACTCATTTTTTTTTGGTGAAAAAAAAAACTCATTCAACATGTAA

                                                                
      33323 ATAGTAGGTTAATGTATGGGTATGGATAGTTGAACCTTTTAAATATACTAGT
        128 ATAGTAGGTTAATGTATGGGTATGGATAGTTGAACCTTTTAAATATACTAGT

                                                                             
      33375 AATTTACTAATTGAGTTTAGTACCAATGG-CACATATTAAGGAAAGCGTTATCAAATCTTATTAA
          1 AATTTACTAATTGAGTTTAGTACCAATGGCCACATATTAAGGAAAGCGTTATCAAATCTTATTAA

                                                                             
      33439 TTAGGTTCGAAACAAAACACTCA-TTTTTTTTGGTGAAAAAAAAAACCAAACTCATTCAACATGT
         66 TTAGGTTCGAAACAAAACACTCATTTTTTTTTGGTG---AAAAAAA--AAACTCATTCAACATGT

                                                                  
      33503 AAATAGTAGGTTAATGTATGGGTATGGATAGTTGAACCTTTTAAATATACTAGT
        126 AAATAGTAGGTTAATGTATGGGTATGGATAGTTGAACCTTTTAAATATACTAGT

      33557 CTTAGCTTTC


Statistics
Matches: 176,  Mismatches: 1, Indels: 10
        0.94            0.01        0.05

Matches are distributed among these distances:
 177   12  0.07
 178   58  0.33
 180    7  0.04
 182   99  0.56

ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34


Consensus pattern (179 bp):   
AATTTACTAATTGAGTTTAGTACCAATGGCCACATATTAAGGAAAGCGTTATCAAATCTTATTAA
TTAGGTTCGAAACAAAACACTCATTTTTTTTTGGTGAAAAAAAAAACTCATTCAACATGTAAATA
GTAGGTTAATGTATGGGTATGGATAGTTGAACCTTTTAAATATACTAGT

Found at i:35634 original size:13 final size:13

Alignment explanation


    Indices: 35618--35642  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

      35608 TATTAAAACC

                         
      35618 ATTAATAAAACAT
          1 ATTAATAAAACAT

                        
      35631 ATTAATAAAACA
          1 ATTAATAAAACA

      35643 GTAATAAAAT


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28


Consensus pattern (13 bp):   
ATTAATAAAACAT
Done.