Locus 7000

Sequence ID 3R_DroMel_CAF1
Location 18,466,296 – 18,466,416
Length 120
Max. P 0.860799
window11348

overview

Window 8

Location 18,466,296 – 18,466,416
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.87
Mean single sequence MFE -32.50
Consensus MFE -25.46
Energy contribution -26.16
Covariance contribution 0.70
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.78
SVM decision value 0.83
SVM RNA-class probability 0.860799
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18466296 120 + 27905053
GUGGGCGUGUGAAAAACUAUUAAAAGGCCGUUGGGCCGUGCAUCGUGGGCCCAUAAUUAAUGGCGACAAUGACUUGAUCGGCCGAUAAUUAAUUUAUCGUCAUUUAUAUUGCCAAACUGA
...((((((((((..((........(((((.((((((..........))))))...(((.((....)).)))......)))))(((((.....)))))))..)))))).))))....... ( -35.50)
>DroSec_CAF1 21605 106 + 1
GUGGGCGUGUGAAAAACUAUUAAAAGGCCGUUGG--------------GCCCAUAAUUAAUGGCGACAAUGACUUGAUCGGCCGAUAAUUAAUUUAUCGUCAUUUAUAUUGCCAAACUGA
...((((((((((..((........((((((..(--------------(..(((......((....))))).))..).)))))(((((.....)))))))..)))))).))))....... ( -27.20)
>DroSim_CAF1 21323 100 + 1
GUGGGCGUGUGAAAAACUAUUAAAAGGCCGUUGG--------------GCCCAUAAUUAAUGGCG------ACUUGAUCGGCCGAUAAUUAAUUUAUCGUCAUUUAUAUUGCCAAACUGA
...((((((((((..((........((((((..(--------------((((((.....)))).)------.))..).)))))(((((.....)))))))..)))))).))))....... ( -31.20)
>DroEre_CAF1 22010 119 + 1
GGGGGCGUGUGAAAAACUAUUAAAAGGCCGUUGGGCCGUGCAUCGUGGG-CCAUAAUUAAUGGCGACAAUGACUUGAUCGGCCGAUAAUUAAUUUAUCGUCAUUUAUAUUGCCAAACUGA
((.((((((((((..((........((((((..(((((.......)))(-((((.....)))))........))..).)))))(((((.....)))))))..)))))).))))...)).. ( -34.30)
>DroYak_CAF1 22340 119 + 1
GGGGGCGUGUGAAAAACUAUUAAAAGGCCGUUGGGCCGUGCAUCGUGGG-CCAUAAUUAAUGGCGACAAUGACUUGAUCGGCCGAUAAUUAAUUUAUCGUCAUUUAUAUUGCCAAACUGA
((.((((((((((..((........((((((..(((((.......)))(-((((.....)))))........))..).)))))(((((.....)))))))..)))))).))))...)).. ( -34.30)
>consensus
GUGGGCGUGUGAAAAACUAUUAAAAGGCCGUUGGGCCGUGCAUCGUGGGCCCAUAAUUAAUGGCGACAAUGACUUGAUCGGCCGAUAAUUAAUUUAUCGUCAUUUAUAUUGCCAAACUGA
...((((((((((..((........((((((..(((((.......)))(.((((.....)))))........))..).)))))(((((.....)))))))..)))))).))))....... (-25.46 = -26.16 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:12 2006