Locus 6805

Sequence ID X_DroMel_CAF1
Location 16,942,978 – 16,943,092
Length 114
Max. P 0.537411
window11147

overview

Window 7

Location 16,942,978 – 16,943,092
Length 114
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 84.02
Mean single sequence MFE -33.18
Consensus MFE -29.44
Energy contribution -29.62
Covariance contribution 0.19
Combinations/Pair 1.08
Mean z-score -1.33
Structure conservation index 0.89
SVM decision value 0.01
SVM RNA-class probability 0.537411
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16942978 114 - 22224390
GAGGUUACCCACUAGCUGGGAGUUCACAGUGGUUGCAUCGCAAUGUGGCAGCCACGCCCAAA------AAAAGGAAAAGGCAACAAAAGAAACGCGCAACCGAACUUUCGCAACUGGUCG
..((....))(((((.((..(((((...((((((((..(((...)))))))))))((((...------....))....(....).........))......)))))..))...))))).. ( -31.30)
>DroSec_CAF1 25807 102 - 1
GAGGUUACCCGCCAGCUGGGAGUUCACAGUGGUUGCAUCGCAAUGUGGCAGCCACG------------GAAAGGAAAAGGCAAGAAAAGAAG------ACCGAACUUUCGCAACUGCCCG
..(((.....)))....((((((((...((((((((..(((...))))))))))).------------(((((.....(((..........)------.))...)))))).)))).))). ( -28.60)
>DroEre_CAF1 12738 106 - 1
----UUGCCAGCCAGCUGGGAGUUCACAGUGGUUGCAUCGCAAUGUGGCAGCCACGCCCCAAA-------AAGGAAAAGGCA---AAAGAAACGCGCAACCGAACUUUCGCAACUGGCCG
----..(((((...((.(..(((((...((((((((..(((...)))))))))))(((((...-------..))....))).---................)))))..)))..))))).. ( -37.70)
>DroYak_CAF1 12464 117 - 1
GAGGUUACCAGCCAGCUGGGAGUUCACAGUGGUUGCAUCGCAAUGUGGCAGCCACGCCCCAAAAAGAAAAAAGGAAAAGGCA---AAAGAAACGCGCAACCGAACUUUCGCAACUGGCCG
..........(((((.((..(((((...((((((((..(((...)))))))))))(((((............))....))).---................)))))..))...))))).. ( -35.10)
>consensus
GAGGUUACCAGCCAGCUGGGAGUUCACAGUGGUUGCAUCGCAAUGUGGCAGCCACGCCCCAA______AAAAGGAAAAGGCA___AAAGAAACGCGCAACCGAACUUUCGCAACUGGCCG
..........(((((.((..(((((...((((((((..(((...)))))))))))(((....................)))....................)))))..))...))))).. (-29.44 = -29.62 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:25 2006