Locus 1027

Sequence ID 3R_DroMel_CAF1
Location 3,217,847 – 3,217,941
Length 94
Max. P 0.896194
window1662

overview

Window 2

Location 3,217,847 – 3,217,941
Length 94
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 67.52
Mean single sequence MFE -22.53
Consensus MFE -4.98
Energy contribution -7.14
Covariance contribution 2.16
Combinations/Pair 1.32
Mean z-score -2.35
Structure conservation index 0.22
SVM decision value 0.99
SVM RNA-class probability 0.896194
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3217847 94 + 27905053
UUAUUAUGUCCCAUGAUUUCUCCUGAAAACUGUUAAGAU------------GAUUAGUUCAUCAAAACUGCGGUAUUCUGGAGA-AAUUGUAUCGAAAUCAUACGGA-------------
..........((..(((((((((.(((.(((((...(((------------((.....)))))......))))).))).)))))-))))((((.(....))))))).------------- ( -27.00)
>DroVir_CAF1 48187 102 + 1
ACAUCAUGACACAUGAUUUCACAUAGAA-CUCAUAGAAUUGGAAAUUGACUGAAUGAUUCGUCUGA--UG--GGGAU-UGGAUAAAAGGACAACAAAAUUAGAUCGAC------------
.(((((.(((..((((.(((.....)))-.)))).((((((.............))))))))))))--))--..(((-(.(((..............))).))))...------------ ( -15.66)
>DroSec_CAF1 42576 95 + 1
UUAUUAUGUCACAUGAUUUCUCCUGAAAACUGUUAAGAU------------GAUUACUUCAUCAGAAAUGCGGUGUUCUGGGGA-AAUUGUAUCGAAAUCAUACCGAU------------
............(..((((((((.(((.(((((...(((------------((.....)))))......))))).))).)))))-)))..)((((.........))))------------ ( -24.90)
>DroSim_CAF1 43927 95 + 1
UUAUUAUGUCACACGAUUUCUCCUGAAAACUGUUAAGAU------------GAUUACUUCAUCAGAAAUGCGGUGUUCUGGAGA-AAUUGUAUCGAAAUCAUACCGAU------------
............(((((((((((.(((.(((((...(((------------((.....)))))......))))).))).)))))-))))))((((.........))))------------ ( -28.20)
>DroEre_CAF1 36934 102 + 1
UUAUUAUGUCCCAUGAUUUCUCCUAAAAACUUUUAAGAA------------GAUUUAUUUAUCA--AAUGAAACAUUCUGGAGA-AAUUA---CGAAUGAAUACCGAUAUAUAUCGAUAA
.((((...((...((((((((((((((....))))((((------------..((((((.....--))))))...)))))))))-)))))---.))...)))).((((....)))).... ( -16.90)
>consensus
UUAUUAUGUCACAUGAUUUCUCCUGAAAACUGUUAAGAU____________GAUUAAUUCAUCAGAAAUGCGGUGUUCUGGAGA_AAUUGUAUCGAAAUCAUACCGAU____________
............(((((((((((.(((.(((((....................................))))).))).))))).))))))............................. ( -4.98 =  -7.14 +   2.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:42 2006