Locus 1804

Sequence ID 3R_DroMel_CAF1
Location 5,161,595 – 5,161,687
Length 92
Max. P 0.508581
window2972

overview

Window 2

Location 5,161,595 – 5,161,687
Length 92
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 81.61
Mean single sequence MFE -17.60
Consensus MFE -14.14
Energy contribution -14.03
Covariance contribution -0.11
Combinations/Pair 1.19
Mean z-score -1.17
Structure conservation index 0.80
SVM decision value -0.05
SVM RNA-class probability 0.508581
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5161595 92 + 27905053
UUUUGUAACACAAAA-----CUCCCUUGCAGUUUCUGUCCCUCUUCACCAUCGCCACGAGCAUCUUUGACAUCUACUGCUAUGCUAUGGCUGCGCCA
(((((.....)))))-----.......(((((...((((...........(((...)))........))))...))))).......((((...)))) ( -13.81)
>DroPse_CAF1 307 97 + 1
CCCAAGUGUAUAAAUCUUCUCUUCCUUGCAGUUCCUUUCACUGUUUACCAUUGCAUCGAGCGUCUUUGAUAUCUACUGCUAUGCGAUGGCCGCACCU
.....((((..................(((((.......)))))...(((((((((..((((..............)))))))))))))..)))).. ( -19.84)
>DroSec_CAF1 310 92 + 1
UUUAGUAACACAAAA-----CUCCCUUGCAGUUCCUGUCCCUCUUCACCAUCGCCACGAGCAUCUUUGACAUCUACUGCUAUGCGAUGGCUGCGCCA
...............-----.......((((....((........))(((((((....((((..............))))..))))))))))).... ( -17.64)
>DroSim_CAF1 310 92 + 1
UUUAGUAACACAAAA-----CUCCCUUGCAGUUUCUGUCUCUCUUCACCAUCGCCACGAGCAUCUUUGACAUCUACUGCUAUGCGAUGGCUGCGCCA
...............-----.......((((....((........))(((((((....((((..............))))..))))))))))).... ( -17.64)
>DroYak_CAF1 307 92 + 1
UUGUGUAACAUAAAC-----CCCCUUUGCAGUUCCUGUCCCUCUUCACCAUCGCCACGAGCAUCUUUGACAUCUACUGCUAUGCGAUGGCUGCGCCA
..(((((........-----.......((((...)))).........(((((((....((((..............))))..))))))).))))).. ( -18.84)
>DroPer_CAF1 307 97 + 1
CCCAAGUGUAUAAAUCUUCUCUUCCUUGCAGUUCCUUUCACUGUUUACCAUUGCCUCGAGCGUCUUUGAUAUCUACUGCUAUGCGAUGGCCGCACCU
.....((((..................(((((.......)))))...(((((((....((((..............))))..)))))))..)))).. ( -17.84)
>consensus
UUUAGUAACACAAAA_____CUCCCUUGCAGUUCCUGUCCCUCUUCACCAUCGCCACGAGCAUCUUUGACAUCUACUGCUAUGCGAUGGCUGCGCCA
..........................(((((................(((((((....((((..............))))..))))))))))))... (-14.14 = -14.03 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:57 2006