Locus 6274

Sequence ID	X_DroMel_CAF1
Location	15,939,826 – 15,939,945
Length	119
Max. P	0.952142

overview

Window 2

Location	15,939,826 – 15,939,945
Length	119
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	93.33
Mean single sequence MFE	-31.90
Consensus MFE	-27.55
Energy contribution	-27.22
Covariance contribution	-0.33
Combinations/Pair	1.09
Mean z-score	-2.58
Structure conservation index	0.86
SVM decision value	0.91
SVM RNA-class probability	0.879317
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15939826 119 + 22224390
CUGCAAAAGCGC-GCGUAGUAGCUAUUUUUGGAGACUAAACUACCGCCAUCUGUUGGUGUUUAUUCAAAACAGACGUAAAAAAGUAUGUUACACAAAAUAAAUUUUUUGUGUAGUUACUA
.(((....(.((-(.(((((((((........)).))..))))))))).((((((..((......)).)))))).)))....((((...(((((((((......)))))))))..)))). ( -28.50)
>DroSec_CAF1 8023 120 + 1
CUGCAAAAGCGCUGCGUAGUAGCCAUUUUUGGAGGCUUAAUUGUCGCCAUCUGUUGGUGUUUAUUCACAACAGACGUGAAAAAGUAUGUUACACAAAAUAAUUUUUUUGUGUAGUUACUA
((.((((((.(((((...)))))..)))))).)).........((((..(((((((.((......))))))))).))))...((((...(((((((((......)))))))))..)))). ( -33.70)
>DroSim_CAF1 2092 120 + 1
AUGCAAAAGCGCUGCGUAGUAGCCAUUUUUGGAGACUUAAUUGUCGCCAUCUGUUGGUGUUUAUUCACAACAGACGUGUAAAAGUAUGUUACACAAAAUAAAUUUUUUGUGUAGUUACUA
.((((...(.(((((...)))))).....(((.(((......))).)))(((((((.((......)))))))))..))))..((((...(((((((((......)))))))))..)))). ( -33.50)
>consensus
CUGCAAAAGCGCUGCGUAGUAGCCAUUUUUGGAGACUUAAUUGUCGCCAUCUGUUGGUGUUUAUUCACAACAGACGUGAAAAAGUAUGUUACACAAAAUAAAUUUUUUGUGUAGUUACUA
.(((....(((......(((..(((....)))..))).......)))..(((((((.((......))))))))).)))....((((...(((((((((......)))))))))..)))). (-27.55 = -27.22 +  -0.33)

alignment

secondary structure

dotplot

Window 3

Location	15,939,826 – 15,939,945
Length	119
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	93.33
Mean single sequence MFE	-29.70
Consensus MFE	-25.65
Energy contribution	-26.10
Covariance contribution	0.45
Combinations/Pair	1.03
Mean z-score	-3.32
Structure conservation index	0.86
SVM decision value	1.42
SVM RNA-class probability	0.952142
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15939826 119 - 22224390
UAGUAACUACACAAAAAAUUUAUUUUGUGUAACAUACUUUUUUACGUCUGUUUUGAAUAAACACCAACAGAUGGCGGUAGUUUAGUCUCCAAAAAUAGCUACUACGC-GCGCUUUUGCAG
.((((..(((((((((......)))))))))...))))......((((((((.((......))..))))))))((((((((..(((...........)))))))).)-))((....)).. ( -28.60)
>DroSec_CAF1 8023 120 - 1
UAGUAACUACACAAAAAAAUUAUUUUGUGUAACAUACUUUUUCACGUCUGUUGUGAAUAAACACCAACAGAUGGCGACAAUUAAGCCUCCAAAAAUGGCUACUACGCAGCGCUUUUGCAG
.((((..(((((((((......)))))))))...))))......(((((((((((......)).)))))))))(((.......((((.........))))....)))...((....)).. ( -30.70)
>DroSim_CAF1 2092 120 - 1
UAGUAACUACACAAAAAAUUUAUUUUGUGUAACAUACUUUUACACGUCUGUUGUGAAUAAACACCAACAGAUGGCGACAAUUAAGUCUCCAAAAAUGGCUACUACGCAGCGCUUUUGCAU
(((((..(((((((((......))))))))).(((..........((((((((((......)).))))))))((.(((......))).))....)))..))))).((((.....)))).. ( -29.80)
>consensus
UAGUAACUACACAAAAAAUUUAUUUUGUGUAACAUACUUUUUCACGUCUGUUGUGAAUAAACACCAACAGAUGGCGACAAUUAAGUCUCCAAAAAUGGCUACUACGCAGCGCUUUUGCAG
.((((..(((((((((......)))))))))...))))......(((((((((((......)).)))))))))(((.......((((.........))))....)))...((....)).. (-25.65 = -26.10 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:17 2006