Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002733.1 Kokia drynarioides strain JFW-HI SEQ_115037, 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, 954

Length: 1591
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38


Found at i:103 original size:3 final size:3

Alignment explanation


    Indices: 35--84  Score: 73
    Period size: 3  Copynumber: 16.7  Consensus size: 3

         25 TTTATTTCAT

                            *       **                                     
         35 TTA TTA TTA TTA ATA TTA AAA TTA TTA TTA TTA TTA TTA TTA TTA TTA
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA

              
         83 TT
          1 TT

         85 TAATGCTATA


Statistics
Matches: 41,  Mismatches: 6, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
   3   41  1.00

ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62


Consensus pattern (3 bp):   
TTA

Found at i:1332 original size:209 final size:207

Alignment explanation


    Indices: 925--1591  Score: 913
    Period size: 209  Copynumber: 3.2  Consensus size: 207

        915 GGTGTTATTT

                             *           *        *      *                   
        925 ATTTGGTCTACTTCTCAATATCTCATCAGCAAGATGACTGCATCACTTGTTTTGATCCACTTCTA
          1 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATC-TTTGTTTTGATCCACTTCTA

               *        *     *     *                                    *   
        990 TGTGTCTCATCAAGAAGAAGGATCTAGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTT
         65 TGTATCTCATCAGGAAGACGGATCCAGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGATTT

                   *        *                                    *       *   
       1055 ATTGCTTTGACCTGCTTTTAGTATCTCATTAGGAAGCTGGGGTTCGAAGATTCGCTCACATTGAG
        130 ATTGCTTCGACCTGCTCTTAGTATCTCATTAGGAAGCTGGGGTTCGAAGATTCACTCACATCGAG

                     *    
       1120 CTTTGGCTTAATTG
        195 CTTT-GCTTCATTG

                         * *                   *                           * 
       1134 ATTTGGTCTACTTATTAGTATCTCATCAGGAAGATAACCGCATCTTTGTTTTGATCCACTTCTCT
          1 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCTTTGTTTTGATCCACTTCTAT

                                               *       *              * *    
       1199 GTATCTCATCAGGAAGACGGATCCAGTTCACTTCTTTGTATCTAATCAGGAAGGTAACAGTTTTA
         66 GTATCTCATCAGGAAGACGGATCCAGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGATTTA

                        *                * **   *        *                   
       1264 TTGCTTCGACCTACATCTTAGTATCTCATAAAAAAGATGGGGTTCAAAGATTCACTCACATCGAG
        131 TTGCTTCGACCTGC-TCTTAGTATCTCATTAGGAAGCTGGGGTTCGAAGATTCACTCACATCGAG

                          
       1329 CTTTCGCTTCATTG
        195 CTTT-GCTTCATTG

                                                         * *               * 
       1343 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCTCTATTTTGATCCACTTCTTT
          1 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCTTTGTTTTGATCCACTTCTAT

                                    *                                        
       1408 GTATCTCATCAGGAAGACGGATCCGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGATTTA
         66 GTATCTCATCAGGAAGACGGATCCAGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGATTTA

                     *        *                              *            *  
       1473 TTGCTTCGATCTGCTTCTCAGTATCTCATTAGGAAGCTGGGGTTCGAAGTTTCACTCACATCAAG
        131 TTGCTTCGACCTGC-TCTTAGTATCTCATTAGGAAGCTGGGGTTCGAAGATTCACTCACATCGAG

                 *      *
       1538 CTTTGTTTCATTA
        195 CTTTGCTTCATTG

             *     *                                  
       1551 AGTTGGTGTACTTCTCTA-TATCTCATCAGGAAGATGACCGC
          1 ATTTGGTCTACTTCTC-AGTATCTCATCAGGAAGATGACCGC


Statistics
Matches: 402,  Mismatches: 54, Indels: 5
        0.87            0.12        0.01

Matches are distributed among these distances:
 208  132  0.33
 209  270  0.67

ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36


Consensus pattern (207 bp):   
ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCTTTGTTTTGATCCACTTCTAT
GTATCTCATCAGGAAGACGGATCCAGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGATTTA
TTGCTTCGACCTGCTCTTAGTATCTCATTAGGAAGCTGGGGTTCGAAGATTCACTCACATCGAGC
TTTGCTTCATTG

Found at i:1497 original size:85 final size:85

Alignment explanation


    Indices: 1352--1508  Score: 194
    Period size: 85  Copynumber: 1.8  Consensus size: 85

       1342 GATTTGGTCT

                                      *                           **         
       1352 ACTTCTCAGTATCTCATCAGGAAGATGACCGCATCTCTATTTTGATCCACTTCTTTGTATCTCAT
          1 ACTTCTCAGTATCTCATCAGGAAGATAACCGCATCTCTATTTTGATCCACTTCTCAGTATCTCAT

                                
       1417 CAGGAAGACGGATCCGGTTC
         66 CAGGAAGACGGATCCGGTTC

                   *                *                         **             
       1437 ACTTCTCTGTATCTCATCAGGAAGGTAACCG-AT-T-TATTGCTTCGATCTGCTTCTCAGTATCT
          1 ACTTCTCAGTATCTCATCAGGAAGATAACCGCATCTCTATT--TT-GATCCACTTCTCAGTATCT

               *      
       1499 CATTAGGAAG
         63 CATCAGGAAG

       1509 CTGGGGTTCG


Statistics
Matches: 61,  Mismatches: 8, Indels: 6
        0.81            0.11        0.08

Matches are distributed among these distances:
  82    4  0.07
  83    1  0.02
  84    4  0.07
  85   52  0.85

ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34


Consensus pattern (85 bp):   
ACTTCTCAGTATCTCATCAGGAAGATAACCGCATCTCTATTTTGATCCACTTCTCAGTATCTCAT
CAGGAAGACGGATCCGGTTC
Done.