Locus 1974

Sequence ID 2L_DroMel_CAF1
Location 5,356,417 – 5,356,507
Length 90
Max. P 0.976474
window3190

overview

Window 0

Location 5,356,417 – 5,356,507
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 77.22
Mean single sequence MFE -19.84
Consensus MFE -14.07
Energy contribution -14.48
Covariance contribution 0.41
Combinations/Pair 1.18
Mean z-score -2.12
Structure conservation index 0.71
SVM decision value 1.77
SVM RNA-class probability 0.976474
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5356417 90 + 22407834
CAAGGAAAAGCAUGUUGCAAAUCGUGUUUGACCUUGAUAUAACACAAUAAAAAUCAUGAAAUUUUCACUUCUCAAUAGAAGCUAGUGAUU
(((((..(((((((........)))))))..)))))......(((...........(((.....)))(((((....)))))...)))... ( -18.70)
>DroSec_CAF1 14645 90 + 1
CAAGGAGAAGCAUGUUGCAAAUCGUGUUUGACCUUGGUAUUACAAAAUAAAAAUCAUGAAAUUUUCACUUCUCAAUAGAAGCUAGUUAUU
(((((..(((((((........)))))))..)))))...............................(((((....)))))......... ( -15.80)
>DroSim_CAF1 14736 90 + 1
CAAGGAAAAGCAUGUUGCAAAUCGUGUUUGACCUUGAUGUUACAAAAUAAAAAUCAUGCAAAUUUCACUACUCAAUAGAUGCUAGUAAUU
(((((..(((((((........)))))))..)))))..............................(((((((....)).).)))).... ( -14.30)
>DroEre_CAF1 15833 78 + 1
CAAGGAAAAGCUG------------GCUUGACCUUGAUGCAACGACGUGAGAACCAUGAUAAUUGCACUUCCCAAGGGAAGCUAGCAGUU
.........((((------------((((..(((((.(((((..(((((.....)))).)..))))).....))))).)))))))).... ( -25.20)
>DroYak_CAF1 14893 90 + 1
CAAGGAAAAGCAUGCUACAAAUCGUGCUUGACCUUGAUAUUACUAAAUAAGAAUCAUGAGAAUUUUAGUUCUCAAUGGAAAUUGGUAGUU
(((((..(((((((........)))))))..)))))..((((((((.......((((((((((....)))))).))))...)))))))). ( -25.20)
>consensus
CAAGGAAAAGCAUGUUGCAAAUCGUGUUUGACCUUGAUAUUACAAAAUAAAAAUCAUGAAAAUUUCACUUCUCAAUAGAAGCUAGUAAUU
(((((..(((((((........)))))))..)))))...............................(((((....)))))......... (-14.07 = -14.48 +   0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:18 2006