Locus 5839

Sequence ID 3R_DroMel_CAF1
Location 15,292,546 – 15,292,650
Length 104
Max. P 0.624760
window9557

overview

Window 7

Location 15,292,546 – 15,292,650
Length 104
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 87.67
Mean single sequence MFE -24.74
Consensus MFE -18.34
Energy contribution -19.06
Covariance contribution 0.72
Combinations/Pair 1.03
Mean z-score -1.69
Structure conservation index 0.74
SVM decision value 0.19
SVM RNA-class probability 0.624760
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15292546 104 - 27905053
CGCAAAAGAACAUCGAGAUCCAUUUCAGAUAGGCAGUCUCUAUUUGAGGAAUUUCAAUUACUUGAGUGGAGUUUUUAUCAAGUCUAAUUGUUCUUGAAAAACGU
.....(((((((..(((((((...(((((((((.....))))))))))).)))))....((((((............)))))).....)))))))......... ( -23.30)
>DroSec_CAF1 45256 96 - 1
CGCAAGAGAACAGCGAGAUCCAUUUCAGAUAGGAAGUUUCUAUUUGAGGAAUUUCAAUUACUUGAGUGGAGUUUUAAUCGAGACUAAUUGUUCUAA--------
(....)(((((((.....(((((((.((....(((((((((.....))))))))).....)).)))))))(((((....)))))...)))))))..-------- ( -25.20)
>DroSim_CAF1 46183 96 - 1
CGCAAGAGAACAGCGAGAUCCAUUUCAGAUAGGCAGUUUCUAUUUGAGGAAUUUCAAUUAGUUGAGUGGAGUUUUUAUCAAGACUAAUUGUUCUAA--------
(....)(((((...(((((((...(((((((((.....))))))))))).)))))((((((((...(((........))).)))))))))))))..-------- ( -24.80)
>DroEre_CAF1 41207 102 - 1
CGCAAGAAAACAGCGAGAUCCAUUUCAGAUAGGCAGUCUCUAUUUGAGGAAUUUCAAUUACUUGAGUGGAGUUUUUAUCG-GCCUAAUUGUUCUUGAA-AACGU
..((((((......((((....))))...(((((...(((((((..((............))..))))))).........-)))))....))))))..-..... ( -23.70)
>DroYak_CAF1 44200 104 - 1
CGCUUGAGAACAGCAAGAUCCAUUUCAGAUAGGCAGUCUCUAUUUGAGGAAUUUCAGUUACUUGAGUGGAGUUUUUAUCGCGCCUAAUUGUUCUUGAAAAACGU
...(..(((((((...((......))...(((((.(((((((((..((.(((....))).))..)))))))........))))))).)))))))..)....... ( -26.70)
>consensus
CGCAAGAGAACAGCGAGAUCCAUUUCAGAUAGGCAGUCUCUAUUUGAGGAAUUUCAAUUACUUGAGUGGAGUUUUUAUCGAGACUAAUUGUUCUUGAA_AACGU
.....((((((((..((......((((((((((.....))))))))))((((((((.((....)).)))))))).........))..))))))))......... (-18.34 = -19.06 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:57 2006