Locus 1819

Sequence ID	2L_DroMel_CAF1
Location	5,020,765 – 5,020,856
Length	91
Max. P	0.876968

overview

Window 2

Location	5,020,765 – 5,020,856
Length	91
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	76.32
Mean single sequence MFE	-16.12
Consensus MFE	-11.48
Energy contribution	-12.08
Covariance contribution	0.60
Combinations/Pair	1.12
Mean z-score	-1.64
Structure conservation index	0.71
SVM decision value	0.90
SVM RNA-class probability	0.876968
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5020765 91 - 22407834
UCCCCCUGCCGCCAACGACGACGCCACUUGGCAGUGCGUUUUCCGUCUGCCAUU---AAAAAAAAAAAAUCAAAUUAAAUACGAAAAAAGUGGC
......................((((((((((((.(((.....))))))))...---............((...........))...))))))) ( -18.70)
>DroSec_CAF1 5084 85 - 1
UCCCC-------CAACGUCGACGCCACUUGGCAGUGCGUUUUCCGUCUGCCAACCGAAAAAUAAAAAAAUCAAAUGAAAAA--AAAUAAAUGGC
.....-------..........((((.(((((((.(((.....))))))))))................((....))....--.......)))) ( -16.00)
>DroSim_CAF1 3397 85 - 1
UCCCC-------CAACGACGACGCCACUUGGCAGUGCGUUUUCCGUCUGCCAACCGAAAAAUAAAAAAAUCAAAUGAAAAA--AAAUAAAUGGC
.....-------..........((((.(((((((.(((.....))))))))))................((....))....--.......)))) ( -16.00)
>DroEre_CAF1 5130 76 - 1
UCCU-----------CGACGACGCCACUUAGUAGUGCGUCUUCCGUCUGCCAACCGAAGAA-----CAA--AAAAAAAUCCAAAAAAAAGUGGC
....-----------.......(((((((.(.....).(((((.((......)).))))).-----...--................))))))) ( -13.60)
>DroYak_CAF1 5188 78 - 1
UCCU-----------CGACGACGCCACUUAGUAGUGCGUUUUCCGCCUGCCAACCGAAAAA-----AAAUCAAAUAAAACACAAGAAAAGUGGC
....-----------.......(((((((.((((.(((.....))))))).....((....-----...))................))))))) ( -16.30)
>consensus
UCCCC_______CAACGACGACGCCACUUGGCAGUGCGUUUUCCGUCUGCCAACCGAAAAA_AAAAAAAUCAAAUAAAAAA__AAAAAAGUGGC
......................((((((((((((.(((.....))))))))..................(......)..........))))))) (-11.48 = -12.08 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:59 2006