Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000907.1 Kokia drynarioides strain JFW-HI SEQ_112040, 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: 3235
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.33


Found at i:1290 original size:48 final size:48

Alignment explanation


    Indices: 1160--1301  Score: 194
    Period size: 48  Copynumber: 2.9  Consensus size: 48

       1150 GCAAGGCATT

                *           *    *      *     *     *       
       1160 AACAGAGATGCATTTATCAAATAAAACATTTAATAATGCAGATTACTA
          1 AACAAAGATGCATTTAACAAACAAAACACTTAATGATGCAAATTACTA

                                        *                *  
       1208 AACAAAGATGCATTTAACAAACAAAACAGTTAATGATGCAAATTATTA
          1 AACAAAGATGCATTTAACAAACAAAACACTTAATGATGCAAATTACTA

                                                *         
       1256 AACAAAGATGCATTTAACAAACAAAACACTTAATGAAGCATAATTA
          1 AACAAAGATGCATTTAACAAACAAAACACTTAATGATGCA-AATTA

       1302 AACAACTTTA


Statistics
Matches: 84,  Mismatches: 9, Indels: 1
        0.89            0.10        0.01

Matches are distributed among these distances:
  48   79  0.94
  49    5  0.06

ACGTcount: A:0.51, C:0.13, G:0.10, T:0.25


Consensus pattern (48 bp):   
AACAAAGATGCATTTAACAAACAAAACACTTAATGATGCAAATTACTA

Found at i:1412 original size:31 final size:32

Alignment explanation


    Indices: 1362--1429  Score: 86
    Period size: 31  Copynumber: 2.2  Consensus size: 32

       1352 CAAAAACACA

                *     *   *                  
       1362 ACTTTATGCATGACTTAATT-AA-ATGCAAAAC
          1 ACTTAATGCAAGACATAATTAAAGATGC-AAAC

                                            
       1393 ACTTAATGCAAGACATAATTAAAGATGCAAAC
          1 ACTTAATGCAAGACATAATTAAAGATGCAAAC

                 
       1425 ACTTA
          1 ACTTA

       1430 CTAAACTAAA


Statistics
Matches: 32,  Mismatches: 3, Indels: 3
        0.84            0.08        0.08

Matches are distributed among these distances:
  31   17  0.53
  32   11  0.34
  33    4  0.12

ACGTcount: A:0.46, C:0.16, G:0.10, T:0.28


Consensus pattern (32 bp):   
ACTTAATGCAAGACATAATTAAAGATGCAAAC
Done.