Locus 6478

Sequence ID 2L_DroMel_CAF1
Location 18,199,400 – 18,199,499
Length 99
Max. P 0.642069
window10339

overview

Window 9

Location 18,199,400 – 18,199,499
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 72.07
Mean single sequence MFE -20.02
Consensus MFE -1.72
Energy contribution -1.92
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.56
Structure conservation index 0.09
SVM decision value 0.22
SVM RNA-class probability 0.642069
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18199400 99 - 22407834
UUAGCGGA-AGCUCUACAAAAUAC-----------AUAGCAAGG----CUGAAAGUUCGACCAAUAUUCAAUUUCAAAGCUUA-AUUUGAAA----UGGGAUGUAUGGCAAUGUGAGAAU
..(((...-.)))........(((-----------((.((..((----.(((....))).)).((((((.((((((((.....-.)))))))----).))))))...)).)))))..... ( -24.50)
>DroSec_CAF1 42386 99 - 1
UUAGCGAA-AGCUCUACAAAAUGC-----------AUAGCAAAG----CUGAAAGUUCGACCAAUAUUCAAUUUCAAAGCUAA-AUUUGAAA----UGCAAUGUAUUCCAACGUGAGAAU
..(((...-.)))......(((((-----------((.((....----.((((.(((.....))).))))((((((((.....-.)))))))----))).)))))))....(....)... ( -20.40)
>DroSim_CAF1 42993 101 - 1
UUAGCGAAAAGCUCUACAAAAUGC-----------AUAACAAAG----CUGAAAGUUCGACCAGUAUUCAAUUUCAAAGCUAAAAUUUGAAA----UGCAAUGUAUUCCAACGUGAGAAU
..(((.....)))......(((((-----------((......(----(((..........)))).....((((((((.......)))))))----)...)))))))....(....)... ( -14.70)
>DroEre_CAF1 42527 110 - 1
UCAACGGA-AGCUCUGCAAAAUGUAACAUACUUGUAUAUGAAAGCAACACCAAUAUUCGACCAAUAUUCAGUUUCAAAGCAGA-AUUUUAAUUUGUAGCCAGGUCCUUCCGA--------
....((((-((...(((...(((((.((....)))))))....)))............((((((.((((.(((....))).))-)).))....((....)))))))))))).-------- ( -18.50)
>DroYak_CAF1 42445 99 - 1
UUAACGGA-AGCUUUGCGAAAUGU-----------GUAGCAAAG----CUGAAAGUUCGACCAUUAUUCAAUUUCAAAGCAAA-AUUUGAAU----AGUGAUGUAUUUCAGCAAGAGAUU
....((((-((((((((.......-----------...))))))----)).....))))..((((((((((.((........)-).))))))----))))....(((((.....))))). ( -22.00)
>consensus
UUAGCGGA_AGCUCUACAAAAUGC___________AUAGCAAAG____CUGAAAGUUCGACCAAUAUUCAAUUUCAAAGCUAA_AUUUGAAA____UGCAAUGUAUUCCAACGUGAGAAU
........................................................................((((((.......))))))............................. ( -1.72 =  -1.92 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:09 2006