Locus 6522

Sequence ID 2R_DroMel_CAF1
Location 20,382,442 – 20,382,556
Length 114
Max. P 0.572135
window10381

overview

Window 1

Location 20,382,442 – 20,382,556
Length 114
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 85.29
Mean single sequence MFE -29.02
Consensus MFE -20.60
Energy contribution -22.64
Covariance contribution 2.04
Combinations/Pair 1.10
Mean z-score -1.67
Structure conservation index 0.71
SVM decision value 0.08
SVM RNA-class probability 0.572135
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20382442 114 + 20766785
CCAGUUCAAUUAAGU-----GAGUGAAAACUGAGAGCUAAUCCCUCCUUGAUACGCCAGUGGAGAGAAUUACUGCUUAUGGAAUAGUGGUUUAGAUAUCGAUAUCGAACCAGCAAAAAG
...((((...(((((-----.(((....)))...((.((((.((((((((......))).)))).).)))))))))))..))))..((((((.((((....))))))))))........ ( -23.90)
>DroSec_CAF1 4636 108 + 1
CCAGUUCAAUUAAAU-----GAGAGAAAACUGCCAGCUAAUCCCUCCUUGAUACGCCAGUGGACAGAACUACUGCCUAUCGAAGAGUGGUUUAGAUA------UCGAACCAGCAAAAAG
...((((.......(-----(..((....))..)).((((.(((((.((((((.((.(((((......))))))).)))))).))).)).))))...------..)))).......... ( -25.00)
>DroSim_CAF1 4622 114 + 1
CCAGCUCAAUUAAAU-----GAGUGAAAACUGACAGCUAAUCCCUCCUUGAUACGCCAGUGGAGAGAACUACUGCCUAUCGAAGAGUGGUUUAGAUAUCGAUAUCGAACCAGCAAAAAG
...(((((......)-----)))).....(((....((((.(((((.((((((.((.(((((......))))))).)))))).))).)).))))...(((....)))..)))....... ( -30.30)
>DroEre_CAF1 4638 113 + 1
CCAGUUCAAUUCAGUGAACUGAGUGAAAACUACCAGCUAAACCCUUCUUGAUACGCCAGUGUGAUGAACUACUGCCUAUCGAAGAGUGGUUUUGCUA------UCGAACCAGCAAAAGG
...((((.((((((....))))))..........(((.(((((((..((((((.((.(((((.....)).))))).))))))..)).))))).))).------..)))).......... ( -33.50)
>DroYak_CAF1 4607 108 + 1
UUAGUUCAAUUCAAU-----GAGUGAAAACUGCCAGCUAAUCCCUCUUUGAUACGCCAGUGGAGUGAACUACUGCCUAUCGAAGAGUGGUUUGGAUA------UCGAACCAGCAAGAGG
.........(((...-----.(((....)))....(((.....((((((((((.((.(((((......))))))).)))))))))).((((((....------.)))))))))..))). ( -32.40)
>consensus
CCAGUUCAAUUAAAU_____GAGUGAAAACUGCCAGCUAAUCCCUCCUUGAUACGCCAGUGGAGAGAACUACUGCCUAUCGAAGAGUGGUUUAGAUA______UCGAACCAGCAAAAAG
...((((..............(((....))).....((((.(((((.((((((.((.(((((......))))))).)))))).))).)).))))...........)))).......... (-20.60 = -22.64 +   2.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:48 2006