Locus 8740

Sequence ID 3L_DroMel_CAF1
Location 22,834,296 – 22,834,387
Length 91
Max. P 0.500000
window14312

overview

Window 2

Location 22,834,296 – 22,834,387
Length 91
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 75.39
Mean single sequence MFE -25.35
Consensus MFE -10.93
Energy contribution -9.85
Covariance contribution -1.08
Combinations/Pair 1.64
Mean z-score -1.90
Structure conservation index 0.43
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22834296 91 + 23771897
GGAAAAACGGUUGGCCCUCCUCGCCAAGAGGGCAAAAUUCUAUU-UUUAAAUUAAGUGCGCCUUUUUGGAAGCACAAGGAGCAGCCGGAGCG
.......((((((((((((........))))))...........-..........((((.((.....))..))))......))))))..... ( -28.80)
>DroVir_CAF1 39261 77 + 1
UAAAAAACUUUUGGC-----------AAAUUGCAAAAUUCUAUU-UAGAAAUGAAGUGUGUGCUUUUAGGCGCACCAGCUG-AGCAGCAG--
......(((((..((-----------.....))....((((...-.))))..)))))(((((((....)))))))..(((.-...)))..-- ( -16.90)
>DroSec_CAF1 22619 91 + 1
GGAAAAACGGUUGGCCCUCCUCGCCAAGAGGGCAAAAUUCUAUU-UUUAAAUUAAGUGCGCUUUUUUGGAGGCACAAGGAGCAGCCGGAGCG
.......((((((((((((........))))))...........-..........((((.(((.....)))))))......))))))..... ( -28.70)
>DroSim_CAF1 22125 91 + 1
GGAAAAACGGUUGGCCCUCCUCGCCAAGAGGGCAAAAUUCUAUU-UUUAAAUUAAGUGCGCCUUUUUGGAGGCACAAGGAGCAGCCGGAGCG
.......((((((((((((........))))))...........-..........((((.((.....))..))))......))))))..... ( -29.70)
>DroEre_CAF1 28691 89 + 1
GGAAAAACGAUUGGCCU---UCGCCAAGAGGGCAAAAUUCUAUUUUUCAAAUUAAGUGUGCCUUUUUGGAGGCACAAGGAGCGGCCGGAACG
..........(((((((---(((((.....))).......................((((((((....))))))))..))).)))))).... ( -27.40)
>DroWil_CAF1 41304 79 + 1
AAAAAAACUUUUGGCG-----------AAUUGCAAAAUUCUAUU-UAGAAAUGAAGUGUGUGCUUUUAGGCGCACUUGCAA-AACAGGAGCG
.......((((((...-----------..((((((.......((-((....))))..(((((((....)))))))))))))-..)))))).. ( -20.60)
>consensus
GGAAAAACGGUUGGCCC___UCGCCAAGAGGGCAAAAUUCUAUU_UUUAAAUUAAGUGCGCCUUUUUGGAGGCACAAGGAGCAGCCGGAGCG
.......((.(((((((............))))..........................(((((....)))))........))).))..... (-10.93 =  -9.85 +  -1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:23:29 2006