Locus 978

Sequence ID 3R_DroMel_CAF1
Location 3,161,828 – 3,161,946
Length 118
Max. P 0.985394
window1575

overview

Window 5

Location 3,161,828 – 3,161,946
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.49
Mean single sequence MFE -37.78
Consensus MFE -29.92
Energy contribution -31.04
Covariance contribution 1.12
Combinations/Pair 1.19
Mean z-score -2.54
Structure conservation index 0.79
SVM decision value 2.01
SVM RNA-class probability 0.985394
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3161828 118 + 27905053
AGGAACUGCAUAGAAUGCACACCCUGGGGUCACAGCGGAAGCUGUAAUGAGUUAUUUGAGGCAAUUAAAUGGCAACGUUUCCCCCGAGGUUUUAGAUGUCUCAUUUUU-CCCCUAUACC-
(((...(((((...)))))...)))((((..(((((....)))))((((((.((((((((((....(((((....)))))........)))))))))).))))))...-))))......- ( -39.30)
>DroSec_CAF1 9712 118 + 1
AGGAACUGCAUAGAAUGCACACCCUGGGGUCACAGCGGAAGCUGUAAUGACUUAUUUGAGGCAAUUAAAUGGCAACGUUUCCCCA-GGGUUUUACAUAUCUCCGUUUUCCCCCUAUACC-
.((((..((..((((((...(((((((((..(((((....)))))..((.(((....))).))...(((((....))))))))))-))))....))).)))..)).)))).........- ( -39.40)
>DroSim_CAF1 11880 118 + 1
AGGAACUGCAUAGAAUGCACACCCUGGGGUCACAGCGGAAGCUGUAAUGAGUUAUUUGAGGCAAUUAAAUGGCAACGUUUCCCCA-GGGUUUUACAUGUCUCCUUUUUCCCCCUAUACC-
(((((((((((...))))).(((((((((.((((((....))))).....(((((((((.....)))))))))...)...)))))-)))).......)).))))...............- ( -41.30)
>DroEre_CAF1 1472 118 + 1
AGGAACUGCAUAGAAUGCACAACCUGCGGUCACAGCGGAAGCUGUAAUGAGUUAUUUGAGGCAAUUAACUGGCAACGUUUCCCCA-GGGUUUCAGAUGUCUUCUUUUCCUCCCUAUACA-
(((((.......((.((((.....)))).))(((((....)))))...(((.((((((((((......((((..........)))-).)))))))))).)))...))))).........- ( -30.90)
>DroYak_CAF1 11298 118 + 1
AGGAGCUGCAUAGAAUGUGCAACCUGGGGUCACAGCGGAAGCUGUAAUGAGUUAUUCGAGGCAAUUAACUGGCAACUUCUCCCCA-GGGCUUUAGAUGUCUCCUCUUUC-CCCUAUACCA
(((((((((((.....))))).(((((((..(((((....)))))...(((((...(.((........)).).)))))..)))))-)).........).))))).....-.......... ( -38.00)
>consensus
AGGAACUGCAUAGAAUGCACACCCUGGGGUCACAGCGGAAGCUGUAAUGAGUUAUUUGAGGCAAUUAAAUGGCAACGUUUCCCCA_GGGUUUUAGAUGUCUCCUUUUUCCCCCUAUACC_
(((...(((((...)))))...)))((((..(((((....)))))...(((.((((((((((....(((((....)))))((....)))))))))))).))).......))))....... (-29.92 = -31.04 +   1.12) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:17 2006