Locus 2009

Sequence ID 3R_DroMel_CAF1
Location 5,704,246 – 5,704,337
Length 91
Max. P 0.888562
window3294

overview

Window 4

Location 5,704,246 – 5,704,337
Length 91
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 85.77
Mean single sequence MFE -27.68
Consensus MFE -19.88
Energy contribution -19.32
Covariance contribution -0.56
Combinations/Pair 1.22
Mean z-score -2.28
Structure conservation index 0.72
SVM decision value 0.95
SVM RNA-class probability 0.888562
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5704246 91 + 27905053
G------AAUAGCUAUUGGAAUC------GGAAUCUUUUGGCAUAAUCAGCUAUGGUAAUGUGAGUUGUGUGAAAACGUGUGACUUACAAGCUUUAAUUCUUA
(------(((.((((..(((...------....)))..))))......((((.......(((((((((..((....))..)))))))))))))...))))... ( -20.81)
>DroSec_CAF1 7620 97 + 1
G------AAUCGCUAUUGGAAUCGGAAUCGGAAUCUUUUGGCAUAAUCAGCUAUGGUAAUGUGAGUUGUAGGAAAACGUGCGACUUACAAGCUUCAACUCUUA
(------((.(((((..(((.((.......)).)))..))))...((((....))))..(((((((((((.(....).))))))))))).).)))........ ( -24.60)
>DroSim_CAF1 7097 97 + 1
G------AAUCGCUAUUGGAAUCGGAAUCGGAAUCUUUUGGCAUAAUCAGCUAUGGUAAUGUGAGUUGUAGGAAAACGUGCGACUUACAAGCUUCAACUCUUA
(------((.(((((..(((.((.......)).)))..))))...((((....))))..(((((((((((.(....).))))))))))).).)))........ ( -24.60)
>DroEre_CAF1 3488 103 + 1
GAUUCAGAAUCGGCAUUGGAAUCAGAAUCGGAAUCUUUUGGCAUAAUCAGCUAUGGUAAUGUGAGUCGUAUGAAAACGUGCGACUUACAAGCUCCAACUCCUA
(((((.((.((.......)).)).)))))(((......((((.......))))(((...(((((((((((((....)))))))))))))....)))..))).. ( -32.40)
>DroYak_CAF1 7783 103 + 1
GAAUCAGAAUCAGAAUCGGUAUUGGAAUUGGAAUCUUUUGGCAUAAUCAGCUAUGGUAAUGUGAGUCGUAUGGAAACGUGCGACUUACAAGCUCCAACUCCUA
((.((.......)).))......(((.((((((((...((((.......)))).)))..(((((((((((((....)))))))))))))...))))).))).. ( -36.00)
>consensus
G______AAUCGCUAUUGGAAUCGGAAUCGGAAUCUUUUGGCAUAAUCAGCUAUGGUAAUGUGAGUUGUAUGAAAACGUGCGACUUACAAGCUUCAACUCUUA
.............................((((((...((((.......)))).)))..(((((((((((((....)))))))))))))...)))........ (-19.88 = -19.32 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:08 2006