Locus 5080

Sequence ID 3R_DroMel_CAF1
Location 13,399,056 – 13,399,146
Length 90
Max. P 0.970973
window8280

overview

Window 0

Location 13,399,056 – 13,399,146
Length 90
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 76.41
Mean single sequence MFE -29.78
Consensus MFE -15.80
Energy contribution -15.47
Covariance contribution -0.33
Combinations/Pair 1.18
Mean z-score -2.43
Structure conservation index 0.53
SVM decision value 1.67
SVM RNA-class probability 0.970973
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13399056 90 - 27905053
GCUACGUCAUUGUUGACUUCCUGUUACGCAAUGCAG-GACUCGCA--------AUCGUCACGGCCUACAUAAUUUGUAGGUACACUCCUGCAUUCAGCA
(((..((((....))))..........(.(((((((-((..((..--------.......))(((((((.....)))))))....))))))))))))). ( -28.40)
>DroPse_CAF1 32680 92 - 1
-----CGCAUUGUUGACUUCCUGUUACGCAGUGCAA-UGCCCAGGAUCGGGGGACUGUCACGGCCUACAUAAUUUGUAGGUACACU-GUGCCGUGGGCC
-----.(((((((((((.....)))).)))))))..-.(((((((..(((....))).(((((((((((.....))))))....))-))))).))))). ( -38.20)
>DroEre_CAF1 33293 89 - 1
GCUACGUCAUUGUUGACUUCCUGUUACGCAAUGCAG-GACUCGCA--------AUUGUCACGGCCUAUGUAAUUUGUAGGUACACG-CUGCAUUCAGCA
(((..((((....))))..........(.(((((((-(((.....--------...)))...(((((((.....))))))).....-))))))))))). ( -25.10)
>DroYak_CAF1 37139 89 - 1
GCUACGUCAUUGUUGACUUCCUGUUACGCAACGCAG-GACUCGCA--------AUCGUCACGGCCUACAUAAUUUGUAGGUACACU-CUGCAUUCAGCA
(((.(((.((.((((...((((((........))))-))....))--------)).)).)))(((((((.....))))))).....-........))). ( -26.10)
>DroAna_CAF1 30173 94 - 1
GCAUUGUCAUUGUUGACUUCCUGUUACGCAAUGCCAGGCCU-UCAAU-GCUUGAUUGUCACGGCCUACAUAAUUUGUAGGUACACU-C--CAUUCGACG
((((((.((((((((((.....)))).))))))........-.))))-))((((.((.....(((((((.....))))))).....-.--)).)))).. ( -24.80)
>DroPer_CAF1 33477 92 - 1
-----CGCAUUGUUGACUUCCUGUUACGCAGUGCAA-UGCCCAGGAUCGGAGGACCGUCACGGCCUACAUAAUUUGUAGGUACACU-GUGCCGUGGGCC
-----.(((((((((((.....)))).)))))))..-.(((((((..(((....))).(((((((((((.....))))))....))-))))).))))). ( -36.10)
>consensus
GCUACGUCAUUGUUGACUUCCUGUUACGCAAUGCAA_GACUCGCA________AUCGUCACGGCCUACAUAAUUUGUAGGUACACU_CUGCAUUCAGCA
.......((((((((((.....)))).)))))).............................(((((((.....))))))).................. (-15.80 = -15.47 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:39 2006