Locus 6034

Sequence ID 3R_DroMel_CAF1
Location 15,901,036 – 15,901,131
Length 95
Max. P 0.971934
window9844

overview

Window 4

Location 15,901,036 – 15,901,131
Length 95
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 81.69
Mean single sequence MFE -42.86
Consensus MFE -27.73
Energy contribution -29.73
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -2.63
Structure conservation index 0.65
SVM decision value 1.68
SVM RNA-class probability 0.971934
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15901036 95 + 27905053
GUAGCUGGG---------------------AGCUGGGAGCUACCAGCUUCCUGCCUAACUAGCAGACGAGCAGAUUGAGCCUGGUUCCUGGUUGACUCGGGAUCGGGCAAUUUGAU
...((.(((---------------------((((((......))))))))).))................((((((..((((((((((.((....)).)))))))))))))))).. ( -40.60)
>DroSec_CAF1 8327 109 + 1
GUAGCUGGGAGCUGGUAACUGGUAACUGGGAGCUGGGAGCUACCAGCUUCCUGCCUAACUAGCAGACGAGCAGAUUGAGCCUG-------GUUGUCUCGGGAUCGGGCACUUUGAU
...(((.(..((((((....((((...(((((((((......)))))))))))))..))))))...).))).......(((((-------(((.......))))))))........ ( -44.90)
>DroSim_CAF1 8376 116 + 1
GUAGCUGGGAGCUGGUAACUGGUAACUGGGAGCUGGGAGCUACCAGCUUCCUGCCUAACUAGCAGACGAGCAGAUUGAGCCUGGUUCCUGGUUGACUCGGGAUCGGGCAAUUUGAU
...(((.(..((((((....((((...(((((((((......)))))))))))))..))))))...).))).......((((((((((.((....)).))))))))))........ ( -52.60)
>DroEre_CAF1 7958 102 + 1
GUAGCUGGGAACUGGU--------------AGCUGGUAGCUGGGAGCUUCCUGCCUAACUAGCAGCAGAGCAGAUUGAGCCUGGGUCCUGGUUGACUCGGGAUCGGGCAAUUUGAU
((.(((((.....(((--------------((..(((........)))..)))))...))))).))....((((((..((((((.((((((.....)))))))))))))))))).. ( -36.30)
>DroYak_CAF1 9198 95 + 1
GUAGCU-------GGU--------------AGCUGGGAGCUACGAGCUUCCUGCCUAACUAGCAGCAGAGCAGAUUGAGCCUGGGUCCUGGUUGACUCGGGAUCGGGCAAUUUGAU
((.(((-------(((--------------.((.((((((.....)))))).))...)))))).))....((((((..((((((.((((((.....)))))))))))))))))).. ( -39.90)
>consensus
GUAGCUGGGA_CUGGU______________AGCUGGGAGCUACCAGCUUCCUGCCUAACUAGCAGACGAGCAGAUUGAGCCUGGGUCCUGGUUGACUCGGGAUCGGGCAAUUUGAU
...(((((.......................((.((((((.....)))))).))....))))).......((((((..((((((.((((((.....)))))))))))))))))).. (-27.73 = -29.73 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:57 2006