Locus 3855

Sequence ID 3R_DroMel_CAF1
Location 10,505,338 – 10,505,432
Length 94
Max. P 0.616382
window6176

overview

Window 6

Location 10,505,338 – 10,505,432
Length 94
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 81.52
Mean single sequence MFE -18.82
Consensus MFE -12.14
Energy contribution -13.42
Covariance contribution 1.28
Combinations/Pair 1.06
Mean z-score -1.76
Structure conservation index 0.65
SVM decision value 0.17
SVM RNA-class probability 0.616382
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10505338 94 + 27905053
CCUU--AUUCCCGAGGAGGCACUUCAAUGACAAGGACUUCAAUUCUUCUGUCCUUCCCUCCAUUUCUCCCGAGGACUUCUUGGUCGAACUGCAGCU
....--....((((((((.............((((((............)))))).((((..........)))).))))))))............. ( -20.80)
>DroSec_CAF1 154014 80 + 1
----------------AGGCACUUCAAUGACAAGGACUUUCAUUCUUCUGUCCUUCCCUCCAUUUCUCCCGAGGACUUCUUAGUUGAACUGCAGCU
----------------..(((.((((((...((((((............)))))).((((..........))))........)))))).))).... ( -18.80)
>DroSim_CAF1 51941 80 + 1
----------------AGGCACUUCAAUGACAAGGACUUCUAUUCUUCUGUCCUUCCCUCCAUUUCUCCCGAGGACUUCUUAGUUGAACUGCAGCU
----------------..(((.((((((...((((((............)))))).((((..........))))........)))))).))).... ( -18.80)
>DroEre_CAF1 52306 88 + 1
CCCU--AUGC-----GAGGCAC-UCACUGACAAGGACUUCCAUUCUUCUGUCCUGCCCUCCAUUUCUCCCGAGGACUUCUCGGUUGAGCUGCAGCU
....--..((-----...((((-(((((((..(((((............)))))..((((..........)))).....)))).)))).))).)). ( -23.80)
>DroYak_CAF1 52179 91 + 1
CCUUCGCUUC-----GACACACUUCAAUGACAAGGACUUCCAUUCUUCCAUCCUGCCCUCCAUUUCAUCCGUGGACUUCUAAGUUGCGCUGCAGCU
.....((..(-----(.((.((((.........((....)).................(((((.......))))).....))))))))..)).... ( -11.90)
>consensus
CC_U___U_C_____GAGGCACUUCAAUGACAAGGACUUCCAUUCUUCUGUCCUUCCCUCCAUUUCUCCCGAGGACUUCUUAGUUGAACUGCAGCU
..................(((.((((((....(((((............)))))..((((..........))))........)))))).))).... (-12.14 = -13.42 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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