Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01003625.1 Kokia drynarioides strain JFW-HI SEQ_116518, 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, 618
Length: 1031
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Found at i:964 original size:429 final size:431
Alignment explanation
Indices: 1--1031 Score: 1870
Period size: 429 Copynumber: 2.4 Consensus size: 431
1 TAATCTTGTGACATACACTTAACAACCTGAACTAACATCATTAGAATATTATACAATAGTTTGCC
1 TAATCTTGTGACATACACTTAACAACCTGAACTAACATCATTAGAATATTATACAATAGTTTGCC
*
66 AAAATATTATTA-GGATGTCCACAACATTACAACCGATAAATTCAGGGCATCCTCAAAACAAGAC
66 AAAATATTATTAGGGATGTCCACAACATTACAACCAATAAATTCAGGGCATCCTCAAAACAAGAC
* *
130 TCATCCTAGGTACATGCCAATTCAAATAAAACAAAACTTAGTAACGTAGGAGTGCGGGATTGTCT
131 TCATCCTAGGTACATGCCAATTCAAATAAAACAAAACTCAGTAACGTAGGAGTACGGGATTGTCT
* * *
195 TTGGATGCTGAGTCGCAAATCTACAAAAGTACCTATCCCGTGCATGATAAACATTTGCACGCGTG
196 TTGGATGCTGAGTCGCAAATCTACAAAAGTACCTATCCCGTGCATGATAAACATTCGCACACATG
260 AGATTTACCCAGTGGTATTTCTATAACTAAACATTAAACAATATATATATATATATATATACAAA
261 AGATTTACCCAGTGGTATTTCTATAACTAAACATTAAAC---A-ATATATATATATATATACAAA
*
325 TTTTATATAGGTTATAATCTAATATTAATTCATAATAAGTTAAATACCATATTTGTCACTTTACA
322 TTTTATATAGGTTATAATCTAATATTAATTAATAATAAGTTAAATACCATATTTGTCACTTTACA
*
390 TATGAGCCATTATATTATCCATATATATATACCGAAACAAGTTAC
387 TATGAACCATTATATTATCCATATATATATACCGAAACAAGTTAC
*
435 TAATCTTGTGACATACACTTAACAACCTGAACTAACATCATTAGAATATTATACAATAGTTTGCT
1 TAATCTTGTGACATACACTTAACAACCTGAACTAACATCATTAGAATATTATACAATAGTTTGCC
500 AAAATATTATTAGGGATGTCCACAACATTACAACCAATAAATTCAGGGCATCCTCAAAACAAGAC
66 AAAATATTATTAGGGATGTCCACAACATTACAACCAATAAATTCAGGGCATCCTCAAAACAAGAC
*
565 TCATCCTAGGTACATGTCAATTCAAATAAAACAAAACTCAGTAACGTAGGAGTACGGGATTGTCT
131 TCATCCTAGGTACATGCCAATTCAAATAAAACAAAACTCAGTAACGTAGGAGTACGGGATTGTCT
** *
630 TTGGATGCTGAGTCGTGAATCTACAAAAGTACCTATCCTGTGCATGATAAACATTCGCACACATG
196 TTGGATGCTGAGTCGCAAATCTACAAAAGTACCTATCCCGTGCATGATAAACATTCGCACACATG
695 AGATTTACCCAGTGGTATTTCTATAACTAAACATTAAAC-A-ATATATATATATATACAAATTTT
261 AGATTTACCCAGTGGTATTTCTATAACTAAACATTAAACAATATATATATATATATACAAATTTT
*
758 ATATAGGTTATAATCTAATATTAATTAATATTAAGTTAAATACCATATTTGTCACTTTACATATG
326 ATATAGGTTATAATCTAATATTAATTAATAATAAGTTAAATACCATATTTGTCACTTTACATATG
823 AACCATTATATTATCCATATATATATACCGAAACAAGTTAC
391 AACCATTATATTATCCATATATATATACCGAAACAAGTTAC
*
864 TAATCTTGTGACGTACACTTAACAACCTGAACTAACATCATTAGAATATTATACAATAGTTTGCC
1 TAATCTTGTGACATACACTTAACAACCTGAACTAACATCATTAGAATATTATACAATAGTTTGCC
929 AAAATATTATTAGGGATGTCCACAACATTACAACCAATAAATTCAGGGCATCCTCAAAACAAGAC
66 AAAATATTATTAGGGATGTCCACAACATTACAACCAATAAATTCAGGGCATCCTCAAAACAAGAC
994 TCATCCTAGGTACATGCCAATTCAAATAAAACAAAACT
131 TCATCCTAGGTACATGCCAATTCAAATAAAACAAAACT
Statistics
Matches: 579, Mismatches: 17, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
429 291 0.50
430 1 0.00
434 76 0.13
435 211 0.36
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (431 bp):
TAATCTTGTGACATACACTTAACAACCTGAACTAACATCATTAGAATATTATACAATAGTTTGCC
AAAATATTATTAGGGATGTCCACAACATTACAACCAATAAATTCAGGGCATCCTCAAAACAAGAC
TCATCCTAGGTACATGCCAATTCAAATAAAACAAAACTCAGTAACGTAGGAGTACGGGATTGTCT
TTGGATGCTGAGTCGCAAATCTACAAAAGTACCTATCCCGTGCATGATAAACATTCGCACACATG
AGATTTACCCAGTGGTATTTCTATAACTAAACATTAAACAATATATATATATATATACAAATTTT
ATATAGGTTATAATCTAATATTAATTAATAATAAGTTAAATACCATATTTGTCACTTTACATATG
AACCATTATATTATCCATATATATATACCGAAACAAGTTAC
Done.