Locus 16

Sequence ID	sy_aureus.tRNA
Location	832,927 – 832,995
Length	68
Max. P	0.997459

overview

Window 3

Location	832,927 – 832,995
Length	68
Sequences	6
Columns	68
Reading direction	forward
Mean pairwise identity	91.08
Mean single sequence MFE	-22.65
Consensus MFE	-23.19
Energy contribution	-22.22
Covariance contribution	-0.97
Combinations/Pair	1.33
Mean z-score	-1.53
Structure conservation index	1.02
SVM decision value	2.86
SVM RNA-class probability	0.997459
Prediction	RNA

Download alignment: ClustalW | MAF

>sy_aureus.tRNA 832927 68 + 2809430
GCGGAACUGGCAGACGCACAGGACUUAAAAUCCUGCGGUGAGUGAUCACCGUACCGGUUCGAUUCCGG
...(((((((........(((((.......)))))((((((....))))))..)))))))........ ( -25.50)
>sy_haemo.tRNA 184195 68 + 2685023
GCGGAACUGGCAGACGCACAGGACUUAAAAUCCUGCGGUGAGAGAUCACCGUACCGGUUCGAUUCCGG
...(((((((........(((((.......)))))((((((....))))))..)))))))........ ( -24.00)
>sy_sapro.tRNA 204581 68 + 2516583
GCGGAACUGGCAGACGCACAGGACUUAAAAUCCUGCGAUAAGUGAUUAUCGUACCGGUUCGAUUCCGG
...(((((((........(((((.......)))))((((((....))))))..)))))))........ ( -21.20)
>sp_agal.tRNA 21853 67 + 2160275
GCGGAACUGGCAGACGCACAGGACUUAAAAUCCUGCGAUGGUAAAC-AUCGUACCGGUUCGAUUCCGG
...(((((((........(((((.......)))))(((((.....)-))))..)))))))........ ( -20.90)
>sp_mutans.tRNA 22565 68 + 2030929
GCGGAACUGGCAGACGCACAGGACUUAAAAUCCUGCGAAGGGGAACUUUCGUACCGGUUCGAUUCCGG
...(((((((........(((((.......)))))((((((....))))))..)))))))........ ( -22.80)
>sp_pneumo.tRNA 249315 68 + 2038623
GCGGAACUGGCAGACGCACAGGACUUAAAAUCCUGCGAUUGGUAACGAUCGUACCGGUUCGAUUCCGG
...(((((((........(((((.......)))))((((((....))))))..)))))))........ ( -21.50)
>consensus
GCGGAACUGGCAGACGCACAGGACUUAAAAUCCUGCGAUGAGUAACCAUCGUACCGGUUCGAUUCCGG
...(((((((........(((((.......)))))((((((....))))))..)))))))........ (-23.19 = -22.22 +  -0.97)

alignment

secondary structure

dotplot

Window 4

Location	832,927 – 832,995
Length	68
Sequences	6
Columns	68
Reading direction	reverse
Mean pairwise identity	91.08
Mean single sequence MFE	-22.83
Consensus MFE	-20.15
Energy contribution	-19.43
Covariance contribution	-0.72
Combinations/Pair	1.09
Mean z-score	-1.95
Structure conservation index	0.88
SVM decision value	1.31
SVM RNA-class probability	0.940904
Prediction	RNA

Download alignment: ClustalW | MAF

>sy_aureus.tRNA 832927 68 - 2809430
CCGGAAUCGAACCGGUACGGUGAUCACUCACCGCAGGAUUUUAAGUCCUGUGCGUCUGCCAGUUCCGC
.((((((.(...(((.(((((((....)))))(((((((.....)))))))..))))).).)))))). ( -25.00)
>sy_haemo.tRNA 184195 68 - 2685023
CCGGAAUCGAACCGGUACGGUGAUCUCUCACCGCAGGAUUUUAAGUCCUGUGCGUCUGCCAGUUCCGC
.((((((.(...(((.(((((((....)))))(((((((.....)))))))..))))).).)))))). ( -25.00)
>sy_sapro.tRNA 204581 68 - 2516583
CCGGAAUCGAACCGGUACGAUAAUCACUUAUCGCAGGAUUUUAAGUCCUGUGCGUCUGCCAGUUCCGC
.((((((.(...(((.(((((((....)))))(((((((.....)))))))..))))).).)))))). ( -20.70)
>sp_agal.tRNA 21853 67 - 2160275
CCGGAAUCGAACCGGUACGAU-GUUUACCAUCGCAGGAUUUUAAGUCCUGUGCGUCUGCCAGUUCCGC
........((((.((((.(((-((........(((((((.....)))))))))))))))).))))... ( -22.10)
>sp_mutans.tRNA 22565 68 - 2030929
CCGGAAUCGAACCGGUACGAAAGUUCCCCUUCGCAGGAUUUUAAGUCCUGUGCGUCUGCCAGUUCCGC
.((((((.(((..((.((....)).))..)))(((((((.....)))))))..........)))))). ( -23.10)
>sp_pneumo.tRNA 249315 68 - 2038623
CCGGAAUCGAACCGGUACGAUCGUUACCAAUCGCAGGAUUUUAAGUCCUGUGCGUCUGCCAGUUCCGC
.((((((.(....(((((....).))))...((((((((.....)))))))).......).)))))). ( -21.10)
>consensus
CCGGAAUCGAACCGGUACGAUAAUCACCCAUCGCAGGAUUUUAAGUCCUGUGCGUCUGCCAGUUCCGC
.((((((.(...(((.(((((........)))(((((((.....)))))))..))))).).)))))). (-20.15 = -19.43 +  -0.72) 
# Strand winner: forward (0.89)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Fri Apr 7 15:51:13 2006