Locus 5785

Sequence ID 2R_DroMel_CAF1
Location 18,331,247 – 18,331,346
Length 99
Max. P 0.518330
window9266

overview

Window 6

Location 18,331,247 – 18,331,346
Length 99
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.45
Mean single sequence MFE -38.12
Consensus MFE -26.74
Energy contribution -26.72
Covariance contribution -0.03
Combinations/Pair 1.19
Mean z-score -1.08
Structure conservation index 0.70
SVM decision value -0.03
SVM RNA-class probability 0.518330
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18331247 99 + 20766785
GUU----------------UU-C-ACU---CUGGCAGGAGAAAAUACAUCGCGUGCACGACGCGGCACGUGACGGAGGUUUGCUGGCACUGCAGCAGGCUCUGGAUCGCCGGAAGUUUGC
...----------------..-.-..(---(((((.............((((((((.((...))))))))))(((((.(((((((......))))))))))))....))))))....... ( -38.60)
>DroVir_CAF1 17201 97 + 1
UUG----------------CUCG-U------CUGCAGGAGAAAAUCCAUCGCGUGCACGAUGCGGCACGUGACGGCAGUUUGUUGGCGCUGCAGCAGGCGCUGGAUCGCCGGAAGUUCGC
(((----------------(...-.------..))))..(((..(((.((((((((.((...)))))))))).(((.(....(..(((((......)))))..)..)))))))..))).. ( -38.30)
>DroGri_CAF1 20965 99 + 1
UUG----------------CUGU-GCC----CUGCAGGAGAAAAUCCAUCGCGUGCAUGACGCGGCACGUGACGGCAGUUUGUUGGCGCUGCAGCAGGCACUGGAUCGCCGGAAGUUUGC
.((----------------(.((-(((----((((.(((.....))).((((((((........))))))))..))))......))))).)))((((((.((((....))))..)))))) ( -41.60)
>DroWil_CAF1 18902 116 + 1
UUUUCUCUAAUUUUCUUUUUU-GGCUU---UCGGCAGGAGAAAAUCCAUCGCGUGCAUGAUGCGGCACGUGAUGGCAGUUUAUUGGCAUUGCAGCAGGCUCUGGAUCGGCGGAAGUUUGC
((((((((......(......-)((..---...)).))))))))..((((((((((........))))))))))(((((........))))).((((((((((......))).))))))) ( -37.20)
>DroMoj_CAF1 22712 100 + 1
UUG----------------CUCG-ACU---UUUGCAGGAGAAAAUCCAUCGCGUGCACGAUGCGGCACGUGACGGCAGUUUGUUGGCGCUGCAGCAGGCGCUGGAUCGCCGGAAGUUUGC
..(----------------(..(-(((---(((((.(((.....))).((((((((.((...))))))))))..)))......(((((.(.((((....)))).).))))))))))).)) ( -37.60)
>DroAna_CAF1 14342 102 + 1
GCU----------------UU-U-UUUGUAUCGACAGGAGAAAAUCCAUCGCGUGCACGACGCGGCACGUGACGGAGGAUUGCUGGAAUUGCAGCAGGCUUUGGAUCGCCGGAAGUUUGC
...----------------..-.-..((((....(((.((....(((.((((((((.((...)))))))))).)))...)).)))....))))(((((((((.(.....).))))))))) ( -35.40)
>consensus
UUG________________CU_G_ACU___UCGGCAGGAGAAAAUCCAUCGCGUGCACGACGCGGCACGUGACGGCAGUUUGUUGGCACUGCAGCAGGCUCUGGAUCGCCGGAAGUUUGC
.......................................(((..(((.((((((((........))))))))((((.((((((((......)))))))))))).......)))..))).. (-26.74 = -26.72 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:20 2006