Locus 7842

Sequence ID X_DroMel_CAF1
Location 19,541,315 – 19,541,409
Length 94
Max. P 0.516532
window12858

overview

Window 8

Location 19,541,315 – 19,541,409
Length 94
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 80.84
Mean single sequence MFE -32.57
Consensus MFE -21.80
Energy contribution -20.72
Covariance contribution -1.08
Combinations/Pair 1.41
Mean z-score -1.30
Structure conservation index 0.67
SVM decision value -0.03
SVM RNA-class probability 0.516532
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19541315 94 + 22224390
AGCAGUCGGACAGGAUGUCCGUGUCGACGAUCACAUCGGGGUGCAGUAUAUUCGCAUCCAUGCCCGGCGAAUAGUAGUUCUGCGCUCUGUGCAA-------
.(((((((.(((((....)).)))))))........((((((((((..(((((((...........)))))))......)))))))))))))..------- ( -35.60)
>DroVir_CAF1 8774 97 + 1
UGCAGUCGGACAGAUUGUCCGUAUCCACAAUCACAUCCGGAUGCAGUAUAUUCUGAUCUAUGCUCGGCGAGUAGAAGUUUUGCGCGCUGCA----AGGAGA
((((..((((..((((((........))))))...))))..))))...........(((.(((..((((.(((((...))))).)))))))----.))).. ( -29.10)
>DroPse_CAF1 7461 96 + 1
UGCAGUCGGACAGAUUGUCCGUGUCCACGAUCACAUCCGGAUGCAGGAUGUUCUGGUCCAUGCCCGGCGAGUAAUAGUUCUGUGUCCUGCAAGAGA-----
(((((.((((..((((((........))))))...))))((((((((((...((.(((.......))).)).....))))))))))))))).....----- ( -30.80)
>DroEre_CAF1 6802 94 + 1
AGCAGUCGGACAGGAUGUCCGUAUCGACGAUCACGUCGGGGUGCAGUAUAUUCGGAUCCAUACUCGGCGAAUAAUAGUUCUGCGCCCUGUGCAC-------
.(((..(((((.....)))))...(((((....)))))((((((((..((((((...((......))))))))......))))))))..)))..------- ( -35.70)
>DroYak_CAF1 6831 94 + 1
AGCAGUCUGAUAGGAUGUCCGUGUCGACGAUCACAUCGGGGUGCAGUAUAUUCGGAUCCAUGCCCGGCGAAUAGUAGUUCUGCGCCCUGUGCAA-------
.((((((.((((((....)).)))))))........((((((((((..((((((...((......))))))))......)))))))))))))..------- ( -34.70)
>DroPer_CAF1 7499 96 + 1
UGCAGUCGGACAGAUUGUCCGUGUCCACGAUCACAUCCGGAUGCAGUAUGUUCUGGUCCAUGCCCGGCGAGUAAUAGUUCUGUGUCCUGCAAGAGA-----
(((((.((((..((((((........))))))...))))(((((((..((((((.(((.......))).)).))))...)))))))))))).....----- ( -29.50)
>consensus
AGCAGUCGGACAGAAUGUCCGUGUCCACGAUCACAUCCGGAUGCAGUAUAUUCGGAUCCAUGCCCGGCGAAUAAUAGUUCUGCGCCCUGCACAA_______
.(((..(((((.....))))).................((((((((..((((.....((......)).....))))...)))))))))))........... (-21.80 = -20.72 +  -1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:46 2006