Locus 3919

Sequence ID 3L_DroMel_CAF1
Location 11,351,040 – 11,351,142
Length 102
Max. P 0.758550
window6102

overview

Window 2

Location 11,351,040 – 11,351,142
Length 102
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 73.68
Mean single sequence MFE -27.26
Consensus MFE -10.91
Energy contribution -12.79
Covariance contribution 1.88
Combinations/Pair 1.33
Mean z-score -1.86
Structure conservation index 0.40
SVM decision value 0.50
SVM RNA-class probability 0.758550
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11351040 102 - 23771897
AGGGAAAUGCCGUUUUUCAU-UUU-----UGGUGGUGA--AAAGUGGCAGCGGAAUAUAUUAA--GGAGUCUAAAUGACUGAGUCUGAUGUACAGGCACGUUGUUAAAUAUU
........((((((((((((-(..-----....)))))--))))))))((((...........--..((((.....))))..(((((.....))))).)))).......... ( -26.10)
>DroSec_CAF1 71483 102 - 1
AGGGAAACGCCGCUUUUCAU-UUU-----UGGUGGUGA--AAAGUGGCAGCGGAAUAUGGCAA--GGAGUCUAAAUGACUGAGUCUGAUGCACAGGCACGUUGUUAAAUAUU
..(....)((((((((((((-(..-----....)))))--)))))))).........((((((--.(((((.....))))..(((((.....))))).).))))))...... ( -35.60)
>DroSim_CAF1 79944 102 - 1
AGGGAAAUGCCGCUUUUCAU-UUU-----UGGUGGUGA--AAAGUGGCAGCGUAAUAUGGCAA--GGAGUCGAAAUGACUGAGUCUGAUGUACAGGCACGUUGUUAAAUAUU
.......(((((((((((((-(..-----....)))))--)))))))))........((((((--.(((((.....))))..(((((.....))))).).))))))...... ( -33.90)
>DroYak_CAF1 65429 102 - 1
CGGAAAAUGCCGCUUUUCUUAUUU-----UGGUGGUGA--G-AGAUGCAGUGGAAUAUAUUAG--GGAGUCCAAAUUACAGAGACUGAUGUACAGGCACGUUGUCAAAUAUU
.(((...(.((((.(((((((((.-----....)))))--)-))).))((((.....)))).)--).).)))..........(((.(((((......))))))))....... ( -21.60)
>DroAna_CAF1 63308 109 - 1
GAGGAAGUGCGACUUUUCAC-UUCGAUGGUGGUGGUGGGAAAACUCUAAACAAAAUCCAUUGACAGUAACUUUGAUGA-UAACAUAAAUGUACAGUCACGUAA-AAGAUAUC
...((((((........)))-)))(((((...((...(((....)))...))....)))))(((.(((......(((.-...))).....))).)))......-........ ( -19.10)
>consensus
AGGGAAAUGCCGCUUUUCAU_UUU_____UGGUGGUGA__AAAGUGGCAGCGGAAUAUAUUAA__GGAGUCUAAAUGACUGAGUCUGAUGUACAGGCACGUUGUUAAAUAUU
.......(((((((................))))))).......((((((((...............((((.....))))..(((((.....))))).))))))))...... (-10.91 = -12.79 +   1.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:00 2006