Locus 5019

Sequence ID 3R_DroMel_CAF1
Location 13,235,431 – 13,235,551
Length 120
Max. P 0.500000
window8204

overview

Window 4

Location 13,235,431 – 13,235,551
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.28
Mean single sequence MFE -30.90
Consensus MFE -19.40
Energy contribution -19.84
Covariance contribution 0.44
Combinations/Pair 1.24
Mean z-score -1.80
Structure conservation index 0.63
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13235431 120 - 27905053
CCAUGGCUAUUGUCCCAUAAUAUUCCAUAUUGUUGUGCGUCUGUAGCAGCAGCUGAAGCUGAAGUGUUUCACCUCCUUCGGUUGCACUUCUGGCCAGGAAGACUUCACUUUCAUUGAAAC
(((..(((((.(.(.(((((((........))))))).).).))))).((((((((((..((.(((...))).)))))))))))).....)))...(((((......)))))........ ( -33.60)
>DroSec_CAF1 264205 114 - 1
CCACGGCUAUUGUCCCAUAAUAUUCCAUAUUGUUGUGCGUCUGUAGCAGCAGCU------GAAGUGUUUCGCCUCCUUUGGCUGCACUUCUGGCCAUGAAGACUUCACUUCCAUUGAAGC
.....(((((.(.(.(((((((........))))))).).).))))).(((((.------.(((.(........))))..))))).((((.......)))).(((((.......))))). ( -32.90)
>DroSim_CAF1 249598 114 - 1
CCAUGGCUAUUGUCCCAUAAUAUUCCAUAUUGUUGUGAGUCUGUAGCAGCAGCU------GAAGUGUUUCGCCUCCUUUGGCUGCACUUCUUUCCAGGAAGACUUCACUUCCAUUGAAGC
.....(((((.(.(.(((((((........))))))).).).))))).(((((.------.(((.(........))))..))))).((((......(((((......)))))...)))). ( -34.80)
>DroEre_CAF1 253764 114 - 1
CCAUAGAUAUGGUGCCAUAAUAUUCCAUAUUGUUGUGUGACUGCAGCAGCAGCU------GAAGUGUUUCACUUCCUUUGGCUGAAUUUCCCGCCAGGAACACAUCACUUCCAUUGAAGU
.....(((((((............)))))))(.(((((..((((.....(((((------((((((...))))))....)))))........).)))..))))).)(((((....))))) ( -28.52)
>DroYak_CAF1 264621 114 - 1
CCAUAGAUAUGUUCCCAUAAUACUCCAUAUUGUUGUGCGUUUUUAGCAGCAGCU------GAAGUGUUUCACUUUCUUUGGUUGCAUUUUCCGCCAGAAGGACUUUACUUCCUUCGAAGC
.....((.((((..(((..............(((((((.......))).)))).------((((((...))))))...)))..))))..)).((..((((((.......))))))...)) ( -24.70)
>consensus
CCAUGGCUAUUGUCCCAUAAUAUUCCAUAUUGUUGUGCGUCUGUAGCAGCAGCU______GAAGUGUUUCACCUCCUUUGGCUGCACUUCUCGCCAGGAAGACUUCACUUCCAUUGAAGC
.....(((((.(.(.(((((((........))))))).).).))))).((((((......((.(((...))).))....)))))).(((((.....)))))......((((....)))). (-19.40 = -19.84 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:26 2006