Locus 5985

Sequence ID 2R_DroMel_CAF1
Location 18,818,136 – 18,818,240
Length 104
Max. P 0.918450
window9599

overview

Window 9

Location 18,818,136 – 18,818,240
Length 104
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 70.35
Mean single sequence MFE -35.70
Consensus MFE -15.84
Energy contribution -14.80
Covariance contribution -1.04
Combinations/Pair 1.48
Mean z-score -1.98
Structure conservation index 0.44
SVM decision value 1.12
SVM RNA-class probability 0.918450
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18818136 104 + 20766785
CUUUCCAUUGCAGCCUGCAUUCCCCCCGCCCUUCGAAUGGAAAACUAAG-GGGGCGGAAGCAAUUCGGAGAA-----AGGCGGGCUGGAAAGGAA-AAAUCGAGGCAAAAG
.(((((.((.((((((((.(((.((.(((((((....(((....))).)-))))))(((....))))).)))-----..)))))))).)).))))-).............. ( -39.40)
>DroSec_CAF1 10035 101 + 1
CUUUUCAUUGCAGCCUGCAUUCC--CCGCCCUUCGAAUGGA-AACUGAG-GGGGCGGAAGCAAUUCGGAGAA-----AGGCGGGCUGGAAAGGAA-AAAUCGAGGAAAAAG
.(((((.((.((((((((.(((.--((((((((((...(..-..)))))-)))((....))....))).)))-----..)))))))).)).))))-).............. ( -41.20)
>DroEre_CAF1 8327 107 + 1
CUUUCCACUGCAGCUUGCAUUCC--CUGCCCUUCGAAUGGAAAACCGAG-GGGGCGGAAGGAAUUCGCGGAAUUCGGAGGCGGCCUGGAGAAGAA-AAAUCGAGGAAAAAG
.(((((.((.(((.((((.((((--((((((((((..(....)..))).-)))))))...((((((...)))))))))))))).))).))..((.-...))..)))))... ( -36.20)
>DroYak_CAF1 8840 107 + 1
CUUUUCAUUGCAGCUUGCAUUCC--CUGCUCCUCAAAUGGAAAACUGCGGGGGGCGGCGGGAAUUCGCGGAAUUUGGAGGCGGCCUGGAGAAGAA-AAAUCGAGGAA-AAG
((((((...((.((((.((((((--(((((((......))).....))))))))(.((((....)))).)....)).)))).))...))))))..-...........-... ( -33.40)
>DroAna_CAF1 4835 91 + 1
CCUCCGAUUGCAGUUGGCUUUUU--CCCUCCU-G--A-GGG-GGCUGGG-CGGGCGAGGGC----CGGAUGA-----AGUGGGUUUGGAGAAGGGUUAAUGGGUGGA--G-
.(((((......((((((((((.--.((.(((-(--.-...-..((((.-(.......).)----)))....-----..))))...))..))))))))))...))))--)- ( -28.30)
>consensus
CUUUCCAUUGCAGCUUGCAUUCC__CCGCCCUUCGAAUGGAAAACUGAG_GGGGCGGAAGCAAUUCGGAGAA_____AGGCGGCCUGGAGAAGAA_AAAUCGAGGAAAAAG
.(((((...((.....)).((((..(((((((((...(((....)))...))))((((.....))))...........)))))...)))).............)))))... (-15.84 = -14.80 +  -1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:40 2006