Locus 4185

Sequence ID 3L_DroMel_CAF1
Location 12,218,867 – 12,218,977
Length 110
Max. P 0.945753
window6491

overview

Window 1

Location 12,218,867 – 12,218,977
Length 110
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 91.22
Mean single sequence MFE -24.20
Consensus MFE -19.98
Energy contribution -19.90
Covariance contribution -0.08
Combinations/Pair 1.08
Mean z-score -1.88
Structure conservation index 0.83
SVM decision value 1.36
SVM RNA-class probability 0.945753
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12218867 110 - 23771897
CCUUCUUUUAUACAAAUUCGCAGGAUUAACGCAGUUUCAUGCUGCAAAACGUAUAAGCCAUAAUACAAAUAUAUCCUCGCCUCGUGUCCUU-UUGCGGAAGGAUAUUUGAU
............(((....(((((((....(((((.....))))).....((((........))))......))))).))...((((((((-(....)))))))))))).. ( -24.90)
>DroSec_CAF1 33106 111 - 1
CCCUCUUUUAUACAAAUUCGCAGGAUUAACGCAGUUUCAUGCUGCAAAACGUAUAAGCCAUAAUACAAACAUAUCCUCGCCUCGUGUCCUUUUUGCGCAAGGAUAUUUGAU
............(((....(((((((....(((((.....))))).....((((........))))......))))).))...((((((((.......))))))))))).. ( -22.80)
>DroSim_CAF1 34517 111 - 1
CCCUCUUUUAUACAAAUUCGCAGGAUUAACGCAGUUUCAUGCUGCAAAACGUAUAAGCCAUAAUACAAAUAUAUCCUCGCCUCGUGUCCUUUUUGCGCAAGGAUAUUUGAU
............(((....(((((((....(((((.....))))).....((((........))))......))))).))...((((((((.......))))))))))).. ( -22.80)
>DroEre_CAF1 34209 107 - 1
CCCUUUUUUAUACAAA-UCGCAGGAUUAACGCGGUUCCAUGCUGCAAAACGUAUGAGCUAUAAUGCAAA--UAUCCUCAGCUGGUGUCCUU-UUAAGCAAGGAUAUUUGAU
......(((((((.((-((....))))...(((((.....))))).....)))))))........((((--((((((..(((.........-...))).)))))))))).. ( -26.40)
>DroYak_CAF1 33505 108 - 1
CCCUCUUUUAUACAAAUUCGCAGGAUUAACGCCGUUCAAUGCUGCAAAACGUAUAAGCUAUAAUACAAA--UAUCCUCAGCUGGUGUCCUU-UUAAGCAAGGAUAUUUGAU
......(((((((......((((.((((((...))).))).)))).....)))))))........((((--((((((..(((.........-...))).)))))))))).. ( -24.10)
>consensus
CCCUCUUUUAUACAAAUUCGCAGGAUUAACGCAGUUUCAUGCUGCAAAACGUAUAAGCCAUAAUACAAA_AUAUCCUCGCCUCGUGUCCUU_UUGCGCAAGGAUAUUUGAU
...................(.(((((....(((((.....))))).....((((........))))......))))))..(..((((((((.......))))))))..).. (-19.98 = -19.90 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:19 2006