Locus 2104

Sequence ID 2L_DroMel_CAF1
Location 5,668,257 – 5,668,375
Length 118
Max. P 0.997651
window3394

overview

Window 4

Location 5,668,257 – 5,668,375
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.24
Mean single sequence MFE -32.74
Consensus MFE -30.84
Energy contribution -30.44
Covariance contribution -0.40
Combinations/Pair 1.07
Mean z-score -1.89
Structure conservation index 0.94
SVM decision value 2.90
SVM RNA-class probability 0.997651
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5668257 118 + 22407834
--CCCCCCCCCCUCACGAUCCUGUUCGUCCUUAGCUGCAAGGCUCGCCUUACGUUGCCUUAACAGUUUUCAAUUUUCCGACGCUUGUAAGCGCAGCUGACAGCGACUAGCGAACGAUACU
--.............((.(((((.((((..(((((((((((((.((.....))..))))).....................(((....)))))))))))..)))).))).)).))..... ( -33.40)
>DroSec_CAF1 113328 116 + 1
--CCGCCCCCACU--CGAUCCUGUUCGUCCUUAGCUGCAAGGCUCGCCUUACAUUGCCUUAACAGUUUUCAAUUUUCCGACGCUUGUAAGCGCAGCUGACAGCGACUAGCGAACGAUACU
--..........(--((.(((((.((((..(((((((((((((............))))).....................(((....)))))))))))..)))).))).)).))).... ( -33.00)
>DroSim_CAF1 112982 116 + 1
--CCGCCCCCACU--CGAUCCUGUUCGUCCUUAGCUGCAAGGCUCGCCUUACGUUGCCUUAACAGUUUUCAAUUUUCCGACGCUUGUAAGCGCAGCUGACAGCGACUAGCGAACGAUACU
--..........(--((.(((((.((((..(((((((((((((.((.....))..))))).....................(((....)))))))))))..)))).))).)).))).... ( -34.40)
>DroEre_CAF1 114834 109 + 1
-----------CCGCUGAUCCUGUUCGUCCUUAGCUGCAAGGCUCGCCUUUCGUUGCCUUAACAGUUUUCAAUUUUCCGACGUUUGUAAGCGCAGCUGACAGCGACUAGCGAACGAUACU
-----------.(((((.(((((((.......(((((((((((.((.....))..)))))....((((.(((...........))).))))))))))))))).)).)))))......... ( -31.71)
>DroYak_CAF1 114570 120 + 1
CACCGCCCCCUCCCCUGAUCCUGUUCGUCCUUAGCUGCAAGGCUCGCCUUACGUUGCCUUAACAGUUUUCAAUUUUCCGACGCUUGUAAGCGCAGCUGACAGCGACUAGCGAACGAUACU
...............((.(((((.((((..(((((((((((((.((.....))..))))).....................(((....)))))))))))..)))).))).)).))..... ( -31.20)
>consensus
__CCGCCCCCACU__CGAUCCUGUUCGUCCUUAGCUGCAAGGCUCGCCUUACGUUGCCUUAACAGUUUUCAAUUUUCCGACGCUUGUAAGCGCAGCUGACAGCGACUAGCGAACGAUACU
...............((.(((((.((((..(((((((((((((............))))).....................(((....)))))))))))..)))).))).)).))..... (-30.84 = -30.44 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:37 2006