Locus 1554

Sequence ID 2L_DroMel_CAF1
Location 4,174,421 – 4,174,540
Length 119
Max. P 0.524741
window2509

overview

Window 9

Location 4,174,421 – 4,174,540
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.99
Mean single sequence MFE -38.26
Consensus MFE -33.90
Energy contribution -33.82
Covariance contribution -0.08
Combinations/Pair 1.09
Mean z-score -1.16
Structure conservation index 0.89
SVM decision value -0.02
SVM RNA-class probability 0.524741
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4174421 119 + 22407834
AGAAAUGCUAAGUAGAUCGUCCGUAAGUCGGAUGCCCGGAAUAGGACAGCAGAUAGGGUGUUUUCCACC-AGCAACAGUGGGGAGGCUGUGGGCGUGUCAAAGCUCAUUACUUGUUGUCA
.......(((....(..((((((.....))))))..)....)))((((((((....(((.((..((((.-.......))))..)))))((((((........))))))...)))))))). ( -34.70)
>DroSec_CAF1 8957 120 + 1
AGAAAUGCUAAGUAGAUCGUCCGUAAGUCGGAUGCCCGGAAUAGGACAGCAGAUAGCGGGUUUUCCACCCGGCAACAGUGGGGAGGCGGUGGGCGUGUCAAAGCUCAUUACUUGUUGUCA
.....((((..(.....)((((.....((((....))))....))))))))((((((((((...((.(((.((....)).))).)).(((((((........))))))))))))))))). ( -42.20)
>DroSim_CAF1 9426 120 + 1
AGAAAUGCUAAGUAGAUCGUCCGUAAGUCGGAUGCCCGGAAUAGGACAGCAGAUAGGGGGUUUUCCACCCGGCAACAGUGGGGAGGCGGUGGGCGUGUCAAAGCUCAUUACUUGUUGUCA
.......(((....(..((((((.....))))))..)....)))((((((((......(.((..((((..(....).))))..)).)(((((((........)))))))..)))))))). ( -38.90)
>DroEre_CAF1 9468 119 + 1
AGAAAUGCUAAGUAGAUCGUCCGUAAGUAGGAUGCCCAGAAUAGGACAGCAGAUAGGGGGUUCCCCACG-AGCAACAGUGGGGAGGCGGUGGGCGUGUCAAAGCUCAUUACUUGUUGUCA
.......(((.......(((((.......))))).......)))((((((((......(.((((((((.-.......)))))))).)(((((((........)))))))..)))))))). ( -40.74)
>DroYak_CAF1 9386 119 + 1
AGAAAUGCUAAGUAGAUCGUCCGUAAGUCGGAUGCCCAGAAUAGGACAGCAGAUAGGGGGUUUUCCAAG-AGCAAAAGUGGGAAGGCGGUGGGCGUGUCAAAGCUCAUUACUUGUUGUCA
.......(((.......((((((.....)))))).......)))((((((((.......(((((((...-.((....)).)))))))(((((((........)))))))..)))))))). ( -34.74)
>consensus
AGAAAUGCUAAGUAGAUCGUCCGUAAGUCGGAUGCCCGGAAUAGGACAGCAGAUAGGGGGUUUUCCACC_AGCAACAGUGGGGAGGCGGUGGGCGUGUCAAAGCUCAUUACUUGUUGUCA
.......(((....(..((((((.....))))))..)....)))((((((((........((((((((.........))))))))(..((((((........))))))..))))))))). (-33.90 = -33.82 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:21 2006