Locus 6262

Sequence ID X_DroMel_CAF1
Location 15,927,737 – 15,927,846
Length 109
Max. P 0.991662
window10205

overview

Window 5

Location 15,927,737 – 15,927,846
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.39
Mean single sequence MFE -20.10
Consensus MFE -17.36
Energy contribution -18.24
Covariance contribution 0.88
Combinations/Pair 1.04
Mean z-score -2.30
Structure conservation index 0.86
SVM decision value 2.28
SVM RNA-class probability 0.991662
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15927737 109 + 22224390
UUCUACAGUGUGUUUCAAAAAACCUUGAUUCCUGUUUAAUUGCUGUCUUGAACAA-------AAAGAAAAAAACACUCUGUAGAAGCAUCGUCGAAAUAUUACAAACA----CACACAUG
((((((((.(((((((((......))))....(((((((........))))))).-------.........))))).)))))))).......................----........ ( -20.70)
>DroSec_CAF1 26298 100 + 1
UUCUACAGUGUGUUUCAAAAAACCUUGAUUCCUGUUUAAUAGCUGUCUUGAACAA-------A-------AAACACUCUGUAGAAGCAUCGUCGAAAUAUUACAAACA----C--ACAUG
((((((((.(((((((((......))))....(((((((........))))))).-------.-------.))))).)))))))).......................----.--..... ( -20.70)
>DroSim_CAF1 11472 100 + 1
UUCUACAGUGUGUUUCAAAAAACCUUGAUUCCUGUUUAAUAGCUGUCUUGAACGA-------A-------AAACACUCUGUAGAAGCAUCGUCGAAAUAUUACAAACA----C--ACAUG
((((((((.(((((((((......))))....(((((((........))))))).-------.-------.))))).)))))))).......................----.--..... ( -20.00)
>DroEre_CAF1 19703 105 + 1
UUCUACAGUGUGUUUCAAAAAACAUUGAUUCCUGUUUAAUUGUUGUCUUGAU---------AAAAAAAAAAAACACUCUGUAGAAGCAUCGUCGAAAUAUUACAAACA----C--ACAUG
((((((((.((((((....(((((........)))))..(((((.....)))---------)).......)))))).)))))))).......................----.--..... ( -18.90)
>DroYak_CAF1 10664 118 + 1
UUCUACAGUGUGUUUCCAAAAACCUUGAUUCCUGUUUAAUUGCUGUCUUCAACAACAAACAAAACAAAAAAAACACUCUGUAGAAGCAUCGUCGAAAUAUUACAAACACACAC--ACAUG
((((((((.((((((.(((.....))).....(((((..(((.(((.....))).)))...)))))....)))))).))))))))............................--..... ( -20.20)
>consensus
UUCUACAGUGUGUUUCAAAAAACCUUGAUUCCUGUUUAAUUGCUGUCUUGAACAA_______AA__AAAAAAACACUCUGUAGAAGCAUCGUCGAAAUAUUACAAACA____C__ACAUG
((((((((.(((((((((......))))....(((((((........))))))).................))))).))))))))................................... (-17.36 = -18.24 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:00 2006