Locus 505

Sequence ID 3L_DroMel_CAF1
Location 1,479,478 – 1,479,585
Length 107
Max. P 0.515019
window756

overview

Window 6

Location 1,479,478 – 1,479,585
Length 107
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 70.07
Mean single sequence MFE -34.84
Consensus MFE -10.26
Energy contribution -11.06
Covariance contribution 0.80
Combinations/Pair 1.28
Mean z-score -1.71
Structure conservation index 0.29
SVM decision value -0.04
SVM RNA-class probability 0.515019
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1479478 107 + 23771897
GUCAUCU-AAUUGGGAAGAAUGCGGUAUUAAUACGGGGACUAUGAUCCUGGUUACAUCCAGGCAGAUGGUUAUGUCCAUGU-CGUGGCGUGUGUGUAUGUAUAUGCACA-----------
(((((..-...((((.......(.(((....))).).((((((...(((((......)))))...))))))...))))...-.)))))((((((((....)))))))).----------- ( -29.20)
>DroSec_CAF1 126348 104 + 1
GUCAUCC-AAUUAGGAAGAAUGCGGUAGGGAUACGGGGACUAUGAUCCUGGUUACAUCCAGGCAGAUGGU-AUGUCCGUGU-----------GUGUAUGUAUAUGCACAAGG-GGC-AC-
.((.(((-.....))).)).(((.......(((((((.(((((...(((((......)))))...)))))-...)))))))-----------((((((....))))))....-.))-).- ( -31.50)
>DroSim_CAF1 123796 115 + 1
GUCAUCC-AAUUAGGAAGAAUGCGGCAGGGAUACGGGGACUAUGAUCCUGGUUACAUCCAGGCAGAUGGU-AUGUCCGUGUGUGUGGCGUGUGUGUAUGUAUAUGCACAAGG-GGC-AC-
(((.(((-.....)))...(((((.((.(.(((((((.(((((...(((((......)))))...)))))-...))))))).).)).)))))((((((....))))))....-)))-..- ( -40.70)
>DroEre_CAF1 131195 113 + 1
GCCAGGUGAGAUGGGAAGCAUACGGAUGGAAUACGGAGAUUAGGAUCCCGUGUGCAUCCAGGCAGAGGGU-AAAUCCAUGU-CACAGCGUGUG----UGUAUAUGCACAAGA-GGCAACU
(((..((((.(((((........(((((..((((((.(((....))))))))).)))))..((.....))-...))))).)-))).((((((.----...))))))......-))).... ( -40.00)
>DroYak_CAF1 131903 102 + 1
GCCAGACGAGAUGGAAAGCAUA-----------CGGAGAUUGGGAUCCCAGGUGCAUCCAGGCAGUGGGC-AAUCCCAUGU-CACAGCGUGUG----UGUAUAUGCACAAGAAGGCAAC-
(((..(((...((((..((((.-----------.((.(((....)))))..)))).))))((((.((((.-...)))))))-)....))).((----(((....)))))....)))...- ( -32.80)
>consensus
GUCAUCC_AAUUGGGAAGAAUGCGGUAGGAAUACGGGGACUAUGAUCCUGGUUACAUCCAGGCAGAUGGU_AUGUCCAUGU_CACAGCGUGUGUGUAUGUAUAUGCACAAGA_GGC_AC_
(((.....((((((((((..(.((.........)).)..))....)))))))).......)))....((......)).........(((((((......))))))).............. (-10.26 = -11.06 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:43 2006