Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01000629.1 Kokia drynarioides strain JFW-HI SEQ_111589, 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: 1708
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Found at i:1427 original size:197 final size:197
Alignment explanation
Indices: 1087--1490 Score: 632
Period size: 197 Copynumber: 2.0 Consensus size: 197
1077 ACCACACCGC
* * *
1087 CATTACCAATAGACTCCTCGTCACCTTACGAACCTAACCCTTCTTTCTCCTTCTTCTTTAACGTT
1 CATT-CCAATAGACTCCTCGTCACCTTACAAACCTAACCCTTCCTTCTCCTTCTCCTTTAACGTT
* *
1152 GCTATTCGTGAGAGCCAGTGCTAGAACAAACTTGTTTCACTTCTTTTTAGCCACACTCCGTCACG
65 GCTATTCGTGAGAACCAGTGCTAGAACAAACTTGTTTCACTTCGTTTTAGCCACACTCCGTCACG
*
1217 AACTTTGCTCCTTACCTCTAATCTTGAT-GTGGGTATGTGAAAAGGATCATTTTCTTCCGTTTTT
130 AACTTCGCTCCTTACCTCTAATCTTG-TCGTGGGTATGTGAAAAGGATCATTTTCTTCCGTTTTT
1281 GTGT
194 GTGT
*
1285 CATTCCAATAGACTCCTCGTCACCTTGCAAACCTAACCCTTCCTTCTCCTTCTCCTTTAACGTTG
1 CATTCCAATAGACTCCTCGTCACCTTACAAACCTAACCCTTCCTTCTCCTTCTCCTTTAACGTTG
* ** * * * *
1350 TTATTCGTGAGAATTAGTGCTAGAACCAATTTGTTTCACTTCGTTTTCGCCACACTCTGTCAC-A
66 CTATTCGTGAGAACCAGTGCTAGAACAAACTTGTTTCACTTCGTTTTAGCCACACTCCGTCACGA
*
1414 AGCTTCGCTCCTTACCTCTAATCTTGTCGTGGGTATGTGAAAAGGATCATTTTCTTTCGTTTTTG
131 A-CTTCGCTCCTTACCTCTAATCTTGTCGTGGGTATGTGAAAAGGATCATTTTCTTCCGTTTTTG
1479 TGT
195 TGT
1482 CATTCCAAT
1 CATTCCAAT
1491 GAGCTTGTGC
Statistics
Matches: 189, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
196 3 0.02
197 182 0.96
198 4 0.02
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (197 bp):
CATTCCAATAGACTCCTCGTCACCTTACAAACCTAACCCTTCCTTCTCCTTCTCCTTTAACGTTG
CTATTCGTGAGAACCAGTGCTAGAACAAACTTGTTTCACTTCGTTTTAGCCACACTCCGTCACGA
ACTTCGCTCCTTACCTCTAATCTTGTCGTGGGTATGTGAAAAGGATCATTTTCTTCCGTTTTTGT
GT
Done.