Locus 5336

Sequence ID 3L_DroMel_CAF1
Location 14,733,761 – 14,733,881
Length 120
Max. P 0.830245
window8434

overview

Window 4

Location 14,733,761 – 14,733,881
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.00
Mean single sequence MFE -37.28
Consensus MFE -28.52
Energy contribution -28.48
Covariance contribution -0.04
Combinations/Pair 1.14
Mean z-score -1.96
Structure conservation index 0.77
SVM decision value 0.71
SVM RNA-class probability 0.830245
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14733761 120 + 23771897
GUGCGGAAGAGCUUCCCUAUGAAGCCCAGCUCACUGAAGCUCAUCACAAUCCAAUCGAUCUGCUGGGCAAUCCGAAAGCUGCCAUGCAGUACUGCAAACUUCUGGAUGUAGUCCAUGAAA
.(((((..(((((((....(((.((...)))))..))))))).................((((..((((...(....).))))..))))..)))))...((((((((...))))).))). ( -35.50)
>DroSec_CAF1 39378 120 + 1
GUGCGGAAGAGCUUCCCUAUGAAGCCCAGCUCACUGAAGCUCAUCACAAUCCAAUCGAUCUGCUGGGCGAUCCGAAAACUGCUAUGCAGUACUGCAAACUUCUGGAUGUAGUCCAGGAAA
.(((((..(((((((....(((.((...)))))..))))))).......((..((((..(....)..))))..))..(((((...))))).)))))...((((((((...)))))))).. ( -35.40)
>DroSim_CAF1 41093 120 + 1
GUGCGAAAGAGCUUCCCUAUGAAGCCCAGCUCACUGAAGCUCAUCACAAUCCAAUCGAUCUGCUGGGCAAUCCGAAAACUGCUGUGCAGUACUGCAAACUUCUGGAUGUAGUCCAGAAAA
.((((...(((((((....(((.((...)))))..))))))).................((((..((((..........))))..))))...))))...((((((((...)))))))).. ( -32.40)
>DroEre_CAF1 40175 120 + 1
CUGCGAAAGAGCUUCCCUAUGAAGCCCAGGUCACUGAAACUCAUCACGAUCCAAUCGAUCUGAUGGGCCAGUCGAAAGCUGCCAUGCAGCAUCGCAAACUUCUGGAUGUAGUCCAGGAAA
.(((((..(.(((((.....))))).)...((((((...(((((((.((((.....))))))))))).)))).))..(((((...))))).)))))...((((((((...)))))))).. ( -43.10)
>DroYak_CAF1 40710 120 + 1
GUGCGGAAGAGCUUCCCGAUGAAGCCCAGGUCACUGAAGCUCAUCACAAUCCAAUCGAUCUGAUGGGCCAUGCGAAAGCUUCCGUGCAGCACUGCAAACUUAUGGAUGUAGUCCAAGAAC
(..(((((..(((((.....))))).(((....)))..((((((((..(((.....))).))))))))...((....)))))))..).(.((((((..(....)..)))))).)...... ( -40.00)
>consensus
GUGCGGAAGAGCUUCCCUAUGAAGCCCAGCUCACUGAAGCUCAUCACAAUCCAAUCGAUCUGCUGGGCAAUCCGAAAGCUGCCAUGCAGUACUGCAAACUUCUGGAUGUAGUCCAGGAAA
.(((((....(((((.....))))).(((....)))..(((((.((..(((.....))).)).))))).........(((((...))))).)))))...((((((((...)))))))).. (-28.52 = -28.48 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:37 2006