Locus 1920

Sequence ID X_DroMel_CAF1
Location 5,295,779 – 5,295,898
Length 119
Max. P 0.888087
window3123

overview

Window 3

Location 5,295,779 – 5,295,898
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.71
Mean single sequence MFE -31.32
Consensus MFE -24.40
Energy contribution -24.16
Covariance contribution -0.24
Combinations/Pair 1.19
Mean z-score -1.99
Structure conservation index 0.78
SVM decision value 0.95
SVM RNA-class probability 0.888087
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5295779 119 - 22224390
UCUCGGAGAGAAUCCCACAGCAAAAAA-AAGGGAAACCCAACCUGUUGCUAGCCAGCUUCUCUAGAGGAUCCGCGCCGAAACCACACGGUUUCCUUUUCCGCCGCUUUCCACUUUUCACU
....((((((........(((((....-..((....)).......))))).((...((((....))))....))...((((((....))))))...........)))))).......... ( -28.82)
>DroSec_CAF1 32827 106 - 1
UCUCGGAGAGAAUCCC-CAGCGGA--A-AAGGGAAACCCAACCUGUUGCUAGCCAGCUUCUCUAGAGGAUCCAUGCCGAAACCACACGGUUUCCUUUUCCGCCGCUUUCC----------
....((((((......-..(((((--(-((((((........(((........)))((((....)))).))).....((((((....)))))))))))))))..))))))---------- ( -31.80)
>DroSim_CAF1 23649 109 - 1
UCUCGCAGAGAAUCCC-CAGCGGA--A-AAGGGAAACCCAACCUGUUGCCAGCCAGCUUCUCUAGAGGAUCCAUGCCGAAACCACACGGUUUCCUUUUCCGCCGCUUUCCACU-------
((((...)))).....-..(((((--(-((((.(((((.......(((.((.....((((....)))).....)).)))........)))))))))))))))...........------- ( -29.56)
>DroEre_CAF1 34067 117 - 1
UCUCGGAGAGAGUACC-CGGCGAA--AAAAGGGAAACCCAACCUGUUGCUAGCCAGCUCCUCCAGAGGAUCCACGCCGAAACCACACGGUUUCCUUUUCCGCCGCCUUCCACUUUCCACU
....((((((......-(((((..--.(((((((((((......((((.....))))((((....))))..................))))))))))).))))).......))))))... ( -35.62)
>DroYak_CAF1 34214 116 - 1
UCUCGGAGAGAAUCCC-CAGCGAA--A-AAGGGAAACCCAACCUGUUGCUAGCCAGCUUCUCUAGAGGAUCCACACCGUAACCACACGGUUUCCUUUUCCGCCGCUUUCCACUUUCCACU
....((((((......-.((((..--(-((((((((((......(((((.......((((....)))).........))))).....)))))))))))....)))).....))))))... ( -30.79)
>consensus
UCUCGGAGAGAAUCCC_CAGCGAA__A_AAGGGAAACCCAACCUGUUGCUAGCCAGCUUCUCUAGAGGAUCCACGCCGAAACCACACGGUUUCCUUUUCCGCCGCUUUCCACUUU_CACU
...(((((((((......(((((.......((....)).......))))).......))))).((((((.....((((........)))).))))))))))................... (-24.40 = -24.16 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:54 2006