Locus 1335

Sequence ID 2L_DroMel_CAF1
Location 3,533,281 – 3,533,398
Length 117
Max. P 0.729434
window2182

overview

Window 2

Location 3,533,281 – 3,533,398
Length 117
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 75.13
Mean single sequence MFE -30.92
Consensus MFE -11.18
Energy contribution -11.62
Covariance contribution 0.44
Combinations/Pair 1.08
Mean z-score -1.87
Structure conservation index 0.36
SVM decision value 0.42
SVM RNA-class probability 0.729434
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3533281 117 - 22407834
GCUUGCGGUUGCACUGCAA-AAAAAUGUGUUGAUUUAGAAUUGGUUUCAUAUUUCUAGAGCAAUGCUUAUUGUAGAAGUGUCGCUUUUAGUUCACAGGCUGAUUAGCCAAGCGCAACC
......((((((.((((((-......((((((.(((((((.((......)).))))))).))))))...))))))..((...(((.(((((......)))))..)))...)))))))) ( -33.00)
>DroSec_CAF1 2392 117 - 1
GCUUGCGGUUGCACUGCAA-GAAAAUGUGUUGACUUAGAAUUGGUUACAUAUUUCUAGGGCAAUGGUUAUUUUAGAAGUGUAGCUUUUAGUUCACAGGCUGACUAGCCAAGCGCAACA
.(((((((.....))))))-)....((((((..(((((((.((....))...)))))))....((((((..((((..(((.(((.....))))))...)))).))))))))))))... ( -34.60)
>DroSim_CAF1 2455 117 - 1
GCUUGCGGUUGCACUGCAA-GAAAAUGUGUUGACUUAGAAUUGGUUUCAUAUUUCUAGGGCAAUGCUUAUUUCAGUAGUGUAGCUUUUAGUUCACAGGCUGACUAGCCAAGCGCAACA
..(((((((((((((((..-((((..((((((.(((((((.((......)).))))))).))))))...)))).))))))))))............((((....))))...))))).. ( -39.20)
>DroEre_CAF1 2332 93 - 1
GCUUGCGGUUGCACUGCAACAAAAAUCGCUGGAUUUACUAU-------GC------------AUGCCUAUGCUAGAAAUGUCGCUUUUCGUUCAAAGGCUGACCAGCCAA------AA
..((((((.....))))))........(((((((((.(((.-------((------------((....)))))))))))...((((((.....))))))...)))))...------.. ( -24.20)
>DroYak_CAF1 2436 105 - 1
GCGUGCGGUUGCACUGCAA-AAAAAUCUGUUGAUUUAGUAUUGGUUUUAC------------AUGCUCAUUUAAGAUCCAUUGCUUUUAGUUCAAAGGCUGACUAGUCAAGCUCAGAA
((((((....)))).))..-.....((((((((...((((.((((((((.------------((....)).))))).))).))))......)))).((((((....)).)))))))). ( -23.60)
>consensus
GCUUGCGGUUGCACUGCAA_AAAAAUGUGUUGAUUUAGAAUUGGUUUCAUAUUUCUAG_GCAAUGCUUAUUUUAGAAGUGUAGCUUUUAGUUCACAGGCUGACUAGCCAAGCGCAACA
((((((((.....))))...............................................................................((((....))))))))...... (-11.18 = -11.62 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:57 2006