Locus 4799

Sequence ID 3R_DroMel_CAF1
Location 12,541,038 – 12,541,148
Length 110
Max. P 0.746789
window7873

overview

Window 3

Location 12,541,038 – 12,541,148
Length 110
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 75.58
Mean single sequence MFE -27.08
Consensus MFE -18.88
Energy contribution -17.80
Covariance contribution -1.08
Combinations/Pair 1.32
Mean z-score -1.44
Structure conservation index 0.70
SVM decision value 0.46
SVM RNA-class probability 0.746789
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12541038 110 + 27905053
CCAUUUCACCAGUUUUCCAAAGGGCUGGCUGAGGUGCGAAGCUGGUGAUUUUCUAGCUAGAUAGAUUAUCUAUAAGUUCAAAAAA---UGCAAAAAAUU----GGUCACUUGUAAUA
.((((((((((((((......))))))).)))))))...((((((.......))))))............(((((((((((....---.........))----))..)))))))... ( -24.72)
>DroSec_CAF1 29976 105 + 1
CCAUUUCACCAGUUUUCCAAGGGACUGGCUGAGGUGCGAAGCUGGUGGUUUUGUAACUAGAUAGAUUAUCUAUAAGUG-----AG---UACCAAAACUU----UAUCACUUGUAAUA
.((((((((((((((......))))))).)))))))..(((.(((((((((((..(((..((((.....)))).....-----))---)..))))))).----.)))))))...... ( -28.10)
>DroSim_CAF1 29952 89 + 1
CCAUUUCACCAGUUUUCCAAGGGACUGGCUGAGGUGCGAAACUGGUGGUUUUCUAGCUAGAUAGAUUAUCUAUAAGUU-----AG---UGCCAAAUG--------------------
.((((((((((((((......))))))).))))))).........((((...((((((..((((.....)))).))))-----))---.))))....-------------------- ( -27.80)
>DroEre_CAF1 27630 105 + 1
CUAUUUUACCAGUUUUCCGAGGGGCUGGCUGAGGUGCGCAGCUGGUGGUUUUCUAGCUAGAUAGAUAAUCUAUAAGUU-----AAAUAAGGCAAAGAUACAAAUGUAACU-------
.((((((((((((((......))))))).))))))).((((((((.......))))))..((((.....)))).....-----.......))..((.(((....))).))------- ( -21.90)
>DroYak_CAF1 27055 102 + 1
CUAUUUUACCAGUUUUCCAAGGCACUGGCUGAGGUGCACAGCUGGUGGUUUUCUAGCUAGAUGGAGUAUCUGCAAGUU-----GG---AGCCAAAGAUA----UGUAACUGGUA---
......((((((((.((...(((.(..(((.((((((.((.(((((((....))).)))).))..))))))...))).-----.)---.)))...))..----...))))))))--- ( -32.90)
>consensus
CCAUUUCACCAGUUUUCCAAGGGACUGGCUGAGGUGCGAAGCUGGUGGUUUUCUAGCUAGAUAGAUUAUCUAUAAGUU_____AG___UGCCAAAAAUA____UGUAACU_GUA___
.(((((((((((((((....)))))))).)))))))...((((.(((((..((((......))))..))).)).))))....................................... (-18.88 = -17.80 +  -1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:12 2006