Locus 1979

Sequence ID 3R_DroMel_CAF1
Location 5,597,790 – 5,597,887
Length 97
Max. P 0.599151
window3240

overview

Window 0

Location 5,597,790 – 5,597,887
Length 97
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 86.80
Mean single sequence MFE -31.52
Consensus MFE -26.87
Energy contribution -26.77
Covariance contribution -0.10
Combinations/Pair 1.39
Mean z-score -1.59
Structure conservation index 0.85
SVM decision value 0.13
SVM RNA-class probability 0.599151
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5597790 97 + 27905053
GGUGGUCACCGGCUUACGUUCUGGACGCGGCUUAAUGCCACUUAUGGUGGCUGCCUUCUGAUCCACUUUCUGCAAGAAUCGAAGAAGGAUUAGAUUU
((..(((((((.....((((...)))).(((.....))).....)))))))..)).((((((((..((((..........))))..))))))))... ( -34.40)
>DroVir_CAF1 3469 96 + 1
UGUUGUGGGUGGCUUCUUUUCAGCACGUGGCUUAAUGCCGCUUAUUGUCGCAGCCUUCUUAUCGAUUUUCUGCAAGAAUAUG-UAACUAUGAAGUUU
.((((((((((.((.......)))))(((((.....)))))......)))))))((((......((.(((.....)))...)-)......))))... ( -20.50)
>DroSec_CAF1 3230 97 + 1
GGUGGUCACCGGCUUACGUUCUGGACGCGGUUUGAUGCCACUUAUAGUGGCCGCCUUCUGAUCCACUUUCUGCAAGAAUCGGAGAAGGAUUAGAUUU
(((((((((.(((...((..(((....)))..))..))).......))))))))).((((((((..((((((.......)))))).))))))))... ( -33.80)
>DroSim_CAF1 3497 97 + 1
GGUGGUCACCGGCUUACGUUCUGGACGCGGCUUGAUGCCACUUAUAGUGGCCGCCUUCUGAUCCACUUUCUGCAAGAAUCGGAGAAGGAUUAGAUUU
(((((((((.......((((...)))).(((.....))).......))))))))).((((((((..((((((.......)))))).))))))))... ( -35.40)
>DroEre_CAF1 3141 97 + 1
AGUGGUCACCGGCUUACGUUCUGGACGCGGCUUGAUGCCACUUAUAGUGGCCGCCUUCUGAUCCACUUUCUGCAAGAAUCGGAGUAGGAUAAGAUUU
.((((((((.......((((...)))).(((.....))).......))))))))..(((.((((...(((((.......)))))..)))).)))... ( -27.30)
>DroYak_CAF1 3137 97 + 1
GGUGGUCACCGGCUUACGUUCCGGACGCGGCUUGAUGCCACUUAUGGUGGCCGCCUUCUGAUCCACUUUCUGCAAGAAUCGGACUAGGAUUAGAUUU
(((((((((((((...((...))...))(((.....))).....))))))))))).((((((((....((((.......))))...))))))))... ( -37.70)
>consensus
GGUGGUCACCGGCUUACGUUCUGGACGCGGCUUGAUGCCACUUAUAGUGGCCGCCUUCUGAUCCACUUUCUGCAAGAAUCGGAGAAGGAUUAGAUUU
((((((((((((........))))....(((.....)))........)))))))).((((((((...(((((.......)))))..))))))))... (-26.87 = -26.77 +  -0.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:16 2006