Locus 5431

Sequence ID 3R_DroMel_CAF1
Location 14,332,469 – 14,332,563
Length 94
Max. P 0.550806
window8838

overview

Window 8

Location 14,332,469 – 14,332,563
Length 94
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 90.53
Mean single sequence MFE -29.64
Consensus MFE -24.46
Energy contribution -24.74
Covariance contribution 0.28
Combinations/Pair 1.09
Mean z-score -1.33
Structure conservation index 0.83
SVM decision value 0.03
SVM RNA-class probability 0.550806
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14332469 94 + 27905053
UGUGACAGCAGCGAAAAAA----AGAG---GAAAAGGCGGCAGCAGCCGGCUGAAGGUUACAUUUUCUUUGGCCCCUUUUGGCCACGCCGCACAAACUGCC
.......((.(((.....(----((((---(....(((.......)))(((..((((........))))..))))))))).....))).)).......... ( -29.80)
>DroSec_CAF1 111248 92 + 1
UGUGACAGCAGCGAAA--A----AGGG---GAAAAGGCGACAGCAGCCGGCUGAAGGUUACAUUUUCUUUGGCCCCUUUUGGCCACGCCGCACAAACUGCC
((((.(.((.((..((--(----(((.---.....(((.......)))(((..((((........))))..))))))))).))...)).)))))....... ( -29.70)
>DroSim_CAF1 106767 92 + 1
UGUGACAGCGGCGAAA--A----AGAG---GAAAAGGCGGCAGCAGCCGGCUGAAGGUUACAUUUUCUUUGGCCCCUUUUGGCCACGCCGCACAAACUGCC
.......((((((...--(----((((---(....(((.......)))(((..((((........))))..))))))))).....)))))).......... ( -35.10)
>DroEre_CAF1 114005 100 + 1
UGUGACAGCAGCGAAAA-UAAAAAAAUGGAGGAAAAGCGGCAGCAGCCGGCUGAAGGUUACAUUUUCUUUGGCCCCUUUUGGCCACGCCACACAAACUGCC
.......((((......-.........(((((......(((....)))(((..((((........))))..))))))))((((...))))......)))). ( -27.90)
>DroYak_CAF1 119295 93 + 1
UGUGACAGCAGCAGAAA-A----AAAC---GAAAAAGCGGCAGCAGCCGGCUGAAGGUUACAUUUUCUUUGGCCCCUUUUGGCCACGCCACACAAACUGCC
(((....)))((((...-.----....---..(((((.(((....)))(((..((((........))))..))).)))))(((...))).......)))). ( -25.70)
>consensus
UGUGACAGCAGCGAAAA_A____AGAG___GAAAAGGCGGCAGCAGCCGGCUGAAGGUUACAUUUUCUUUGGCCCCUUUUGGCCACGCCGCACAAACUGCC
.......((((....................((((((.(((....)))(((..((((........))))..)))))))))(((...))).......)))). (-24.46 = -24.74 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:31 2006