Locus 6330

Sequence ID 3R_DroMel_CAF1
Location 16,569,495 – 16,569,592
Length 97
Max. P 0.701124
window10322

overview

Window 2

Location 16,569,495 – 16,569,592
Length 97
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 86.36
Mean single sequence MFE -28.38
Consensus MFE -21.02
Energy contribution -21.90
Covariance contribution 0.88
Combinations/Pair 1.14
Mean z-score -1.79
Structure conservation index 0.74
SVM decision value 0.35
SVM RNA-class probability 0.701124
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16569495 97 + 27905053
GCAGCUCAAAGUCAACUGACUGGGAGCUGGAAAAACAGACAAUGCAUGUUGCUCAGGGGAUUUACCCAGAAGCUUAUGAUCGAUA---GAGCUUAGCAGG
.((((((..((((....))))..))))))...................(((((..(((......)))..((((((..........---))))))))))). ( -30.30)
>DroSec_CAF1 125801 97 + 1
GCAGCUCAAAGUCAACUGACUGGGAGCUGGAAAAGCAGACAAUGCAUGUUGCACAGGGGAUUUGCCCAGAAGCUUGUGAUAGAUA---GAGCUUAGCAGG
.((((((..((((....))))..)))))).....(((.....)))...((((...(((......)))..((((((..........---)))))).)))). ( -32.50)
>DroSim_CAF1 130148 97 + 1
GCAGCUCAAAGUCAACUGACUGGGAGCUGGAAAAGCAGACAAUGCAUGUUGCACAGGGGAUUUGCCCAGAAGCUUGUGAUAGAUA---GAGCUUAGCAGG
.((((((..((((....))))..)))))).....(((.....)))...((((...(((......)))..((((((..........---)))))).)))). ( -32.50)
>DroEre_CAF1 129354 99 + 1
ACUGCUCUAAGUCAACUGACUGGGAACUGGAA-AACAGACAAUGCACGUUGCAUAGGCGAUCUAUCCAGAAGCUUAUGAUCGAUAUGAGAGCUUAGCUGG
...(((((.((((....)))).....(((...-..)))........((...(((((((..(((....))).)))))))..)).....)))))........ ( -24.30)
>DroYak_CAF1 124905 99 + 1
AGCGCUCAAAGUCAACUGACUGGGAGCUGAAA-AACACACAAAGCACAUUGCACAGGGGAUUUAUCCAGAGGCUUAUGAUCGAUAUGAGAACUUUGCUGG
...((((..((((....))))..)))).....-..........((.....)).(((.(((....)))((((.((((((.....))))))..)))).))). ( -22.30)
>consensus
GCAGCUCAAAGUCAACUGACUGGGAGCUGGAAAAACAGACAAUGCAUGUUGCACAGGGGAUUUACCCAGAAGCUUAUGAUCGAUA___GAGCUUAGCAGG
.((((((..((((....))))..)))))).............(((..........(((......)))..((((((.............)))))).))).. (-21.02 = -21.90 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:49 2006