Locus 6251

Sequence ID 2R_DroMel_CAF1
Location 19,621,370 – 19,621,485
Length 115
Max. P 0.802301
window10005

overview

Window 5

Location 19,621,370 – 19,621,485
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.61
Mean single sequence MFE -37.84
Consensus MFE -26.68
Energy contribution -26.36
Covariance contribution -0.32
Combinations/Pair 1.20
Mean z-score -1.99
Structure conservation index 0.71
SVM decision value 0.62
SVM RNA-class probability 0.802301
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19621370 115 + 20766785
CGUAACCGGGCCGGAUUUUGGCCUCCUAAGUGGCCCAUAAGUGGGCUAUUAGUGGUCUUCUUCACAGAACAUCUUUCAAUGAUCAGGAC-----AAGGACAACUAGAAUCGGAUCGGUUC
...(((((..(((.(((((((..((((.(((((((((....)))))))))....(((((..(((..(((.....)))..)))..)))))-----.))))...))))))))))..))))). ( -42.10)
>DroSec_CAF1 4734 115 + 1
CGUAACCGGGCCGGAUUUUGGCCUCCUAAGUGGCCUAUAAGUGUGCUAUUAGUGGUCUUCUUUAGAGAACAUCUUUCAAUUAUCAGCAC-----AAGGACAACUCGAAUCGAAUCGGUUC
...((((((..(((.....((((........))))......((((((..(((((((.((((....)))).))).....))))..)))))-----).............)))..)))))). ( -28.00)
>DroSim_CAF1 4515 115 + 1
CGUAACCGGGCCGGAUUUUGGCCUCCUAAGUGGCCUAUAAGUGGGCUAUUAGUGGUCUUCUUUAGAGAACAUCUUUCAAUGAUCAGCAC-----AAGGACAACUCGAAUCGAAUCGGUUC
...((((((((((.....)))))((((.(((((((((....)))))))))..(((((......(((.....)))......)))))....-----.))))...............))))). ( -32.50)
>DroEre_CAF1 4957 119 + 1
CGUAACCGGGCCGGAUUUUGGUCUCUUAA-UGGGCCAUUAGUGGCCUAUUAGAGGCCUUCUGCACAGAGCCCCUUUCGACGAUCAGGACAACUCAAGGACAAGUCUAAGGAAAUCGGUUU
...((((((((((((....(((((((.((-(((((((....)))))))))))))))).))))......))))((((.(((..((..((....))...))...))).)))).....)))). ( -43.10)
>DroYak_CAF1 4674 119 + 1
CGUAACCGGGCCGGAUUUUGGUCUCUUAA-UGGCCCAUAAGUGGGCUAUUAGAGGCCUCCUCAAGAGAGGCCCUUUCAACGAUCAGGACAACUCAAGGACAACCCAAAUGAAAUCGGUUU
...((((((((((((....(((((((.((-(((((((....)))))))))))))))))))((....)))))))(((((......((.....))...((.....))...)))))..)))). ( -43.50)
>consensus
CGUAACCGGGCCGGAUUUUGGCCUCCUAAGUGGCCCAUAAGUGGGCUAUUAGUGGUCUUCUUCAGAGAACAUCUUUCAAUGAUCAGGAC_____AAGGACAACUCGAAUCGAAUCGGUUC
...((((((((((.....)))))((((.(((((((((....)))))))))...(((.((((....)))).)))......................))))...............))))). (-26.68 = -26.36 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:38 2006