Locus 7520

Sequence ID 3R_DroMel_CAF1
Location 20,127,305 – 20,127,416
Length 111
Max. P 0.968707
window12145

overview

Window 5

Location 20,127,305 – 20,127,416
Length 111
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 81.72
Mean single sequence MFE -30.15
Consensus MFE -12.58
Energy contribution -11.86
Covariance contribution -0.72
Combinations/Pair 1.29
Mean z-score -3.25
Structure conservation index 0.42
SVM decision value 1.63
SVM RNA-class probability 0.968707
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20127305 111 + 27905053
AAAAAAGAAGCCAAAUGCAGUAGCUUCUGGUGACAUUGGUAACCGAAGUCAAUAUGCAUUUGGAUGUAU----GCACAGCUGUCACUAAGAUAAUAAUAAAGGU---GGUUGAUGGCA
..........(((((((((.(..((((.(((.((....)).)))))))..)...))))))))).....(----((.((((..((.................)).---.))))...))) ( -30.03)
>DroSec_CAF1 11319 114 + 1
AAAAAAGAAGCCAA----AGUAGCUUCUGGUGACAUUGGCUAACGAAGUCAAUAUGCAUUUAGAUGUAUGUUAGCACAGCUGCCACUAAGAUAAAAAUAAAGGUGGUGGUUGAUGGCA
.........((((.----..(((((..((....))..))))).....(..(((((((((....)))))))))..).((((..(((((...((....))...)))))..)))).)))). ( -39.50)
>DroSim_CAF1 11375 115 + 1
AAAAAAGAAGCCAAAUGCAGUAGCUUCUGGUGACAUUGGGAAACGAAGUCAAUAUGCAUUUGGAUGUAUGUAUGCACAGCUGUCACUAAGAUGAUAAUAAAGGU---GGUUGAUGGCA
..........(((((((((.(..((((((....))...(....)))))..)...))))))))).((((....))))..((((((((((...(........)..)---)).))))))). ( -31.60)
>DroEre_CAF1 11637 110 + 1
AAAAAAA-AAGCAAAUGCAAUAGCUUUUGGUGACAUUGGCCAACGAAGUCAAUAUGCAUUUAGAUGUAU----GCACAGCUGCCAUCAAGAUAAUAAUAAAAAU---GUUUGAGGGCA
.......-.(((...(((....(((..((....))..))).............((((((....))))))----)))..)))(((.(((((...((.......))---.))))).))). ( -23.40)
>DroYak_CAF1 11696 105 + 1
AAAAAAA-UGCCAAAUGCAAUAGCUUAUGGUGACAUCUGUCAGCGAAGUUAAUAUGCAUUUGGAUGUGU----GCACAGCUGCCAUUUAGAUAAUAAUGAAAAU---GCUUGA-----
.......-..(((((((((.((((((.((.((((....)))).))))))))...)))))))))..(((.----(((....))))))..................---......----- ( -26.20)
>consensus
AAAAAAGAAGCCAAAUGCAGUAGCUUCUGGUGACAUUGGCAAACGAAGUCAAUAUGCAUUUGGAUGUAU____GCACAGCUGCCACUAAGAUAAUAAUAAAGGU___GGUUGAUGGCA
..................(((.((..(((.((((.(((.....))).))))..((((((....)))))).......)))..)).)))............................... (-12.58 = -11.86 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:57 2006