Locus 1296

Sequence ID X_DroMel_CAF1
Location 3,869,631 – 3,869,750
Length 119
Max. P 0.686007
window2073

overview

Window 3

Location 3,869,631 – 3,869,750
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.34
Mean single sequence MFE -37.48
Consensus MFE -33.76
Energy contribution -33.60
Covariance contribution -0.16
Combinations/Pair 1.10
Mean z-score -1.25
Structure conservation index 0.90
SVM decision value 0.32
SVM RNA-class probability 0.686007
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3869631 119 + 22224390
AAACAUUUUGUUCGCACUACAUUUGCUCCACUGUGCGUGACCAGUGGGAGACGGAGAUCCACUGGU-CGCUGGUCAGGAGUUCCUUUCUCACAGGGGCGCUAAAAAGGGUUAUUAACUCG
........................((.((.(((((.((((((((((((.........)))))))))-))).((..(((....)))..))))))).)).))......((((.....)))). ( -37.00)
>DroSec_CAF1 52440 119 + 1
AAACAUUUCGUUCUUACAAUAUUUGCCCCACUGUGCUUGACCAGUUGGAGACGGAGAUCCACUGGU-CGCUGGUCAGGAGUUCCUUUCUCACAGGGGCGCUAAAAAGGGUUAUUAACUCG
........................(((((.(((.(((((((((((.(((........)))))))))-))..))))))(((.......)))...)))))........((((.....)))). ( -36.20)
>DroSim_CAF1 23674 119 + 1
AAACAUUUUGUUUUUACCAUAUUUGCCCCACUGUGCUUGACCAGUGGGAGACGGAGAUCCACUGGU-CGCUGGUCAGGAGUUCCUUUCUCACAGGGGCGCUAAAAAGGGUUAUUAACUCG
.........(((...(((......(((((.(((((((((((((((((....)((....))......-)))))))))))...........)))))))).)).......)))....)))... ( -39.02)
>DroEre_CAF1 51484 116 + 1
AAACGUUUUC----UACUAUAUUCGCCCCACUGUACUUGGCCAGUCGGAGACGGAGAUCCACUGGUCCGCUGGUCAGGAGUUCCUUUCUCACAGGGGCGCUAAAAAGGGUUAUUAACUCG
..........----.........((((((.......((((((((.((((..(((.......))).))))))))))))(((.......)))...)))))).......((((.....)))). ( -37.10)
>DroYak_CAF1 47491 115 + 1
GAACAUUUUG----UACCAUACUCGCCCCACUGUACUUGACCAGUGGGAGACGGAGAUCCACUGGU-CGCUGGUCGGGAGUUCCUUUCUCACAGGGGCGCUAAAAAGGGUUAUUAACUCG
..........----.........((((((.(((.((((((((((((((.........)))))))))-))..))))))(((.......)))...)))))).......((((.....)))). ( -38.10)
>consensus
AAACAUUUUGUU__UACCAUAUUUGCCCCACUGUGCUUGACCAGUGGGAGACGGAGAUCCACUGGU_CGCUGGUCAGGAGUUCCUUUCUCACAGGGGCGCUAAAAAGGGUUAUUAACUCG
.......................((((((...((.....))..((((((((.((((.(((((..(....)..))..))).)))))))))))).)))))).......((((.....)))). (-33.76 = -33.60 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:58 2006