Locus 2900

Sequence ID 3R_DroMel_CAF1
Location 7,778,822 – 7,778,919
Length 97
Max. P 0.555051
window4678

overview

Window 8

Location 7,778,822 – 7,778,919
Length 97
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 81.82
Mean single sequence MFE -28.40
Consensus MFE -17.27
Energy contribution -16.80
Covariance contribution -0.47
Combinations/Pair 1.35
Mean z-score -1.84
Structure conservation index 0.61
SVM decision value 0.04
SVM RNA-class probability 0.555051
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7778822 97 + 27905053
--GCCA----UCAUUUAGGCAAAAGACUCAGUCGCAAGGAACGGACCACCCGCUUUAGCGACAACAAGGACGGCAAACAGCAGUCGCAGAGCUUCGUGCAACA
--(((.----.......)))..(((.(((.(((((((((..(((.....))))))).)))))......(((.((.....)).)))...))))))......... ( -26.80)
>DroVir_CAF1 4911 98 + 1
--GUCAAAAAUGUUAUAGGAAAACGGCUCAGUCGCAAGGAGCGGACAACACGCUUCAGCGACAACAAGGACGGCAAA---CAGCCCCAGAGCUAUGUGAGCCA
--......................(((((((((((..((((((.......)))))).))))).....((..(((...---..))))).........)))))). ( -33.30)
>DroSim_CAF1 1378 97 + 1
--GCCA----UCAUUUAGGCAAAAGACUCAGUCGCAAGGAACGGACCACCCGCUUCAGCGACAACAAGGACGGCAAAAAGCAGUCGCAGAGCUUCGUGCAACA
--(((.----.......)))..(((.(((.(((((...((((((.....))).))).)))))......(((.((.....)).)))...))))))......... ( -27.80)
>DroEre_CAF1 1546 97 + 1
--GCCA----UCACUUAGGCAAAAGACUCAGUCGCAAGGAACGGACCACCCGCUUCAGCGACAACAAGGACGGUAAACAGCAGUCGCAGACCUUUGUCCAACA
--(((.----.......)))..........(((((...((((((.....))).))).))))).....((((((......((....))......)))))).... ( -26.60)
>DroYak_CAF1 1442 97 + 1
--GCCA----UCCCUUAGGCAAACGACUCAGUCGCAAGGAACGGACCACCCGCUUCAGCGACAACAAGGACGGCAAAGGGCAGUCGCAGACCUUCGUGCAACA
--(((.----.......)))..((((.((.(((((...((((((.....))).))).)))))......(((.((.....)).)))...))...))))...... ( -26.50)
>DroAna_CAF1 4246 97 + 1
UUUCCG----CAG--CGGGAAAACGACUCAGCCGCAAGGAGCGCACCACGCGCUUCAGCGACAACAAGGAUGGCAAAAACCAGUCCCAUAGCUACGUCCAUCA
((((((----...--))))))...(((..((((((..(((((((.....))))))).))).......((((((......))).)))....)))..)))..... ( -29.40)
>consensus
__GCCA____UCAUUUAGGCAAAAGACUCAGUCGCAAGGAACGGACCACCCGCUUCAGCGACAACAAGGACGGCAAAAAGCAGUCGCAGAGCUUCGUGCAACA
..(((............)))....((((..(((((...((((((.....))).))).)))))..........((.....)))))).................. (-17.27 = -16.80 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:25 2006