Locus 934

Sequence ID	X_DroMel_CAF1
Location	2,604,744 – 2,604,844
Length	100
Max. P	0.853638

overview

Window 2

Location	2,604,744 – 2,604,844
Length	100
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	99.00
Mean single sequence MFE	-20.06
Consensus MFE	-19.70
Energy contribution	-20.30
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.39
Structure conservation index	0.98
SVM decision value	0.73
SVM RNA-class probability	0.834912
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2604744 100 + 22224390
AGACAAAUUUCAUUCUUAGUCCUUGCCGCAGCCAAAGGAUUUGUCAAAGCAUAUGAAGAGACUAAAACUUGUUAAGUGAAAUCUCUUUUAUUUUUCUUUA
.(((((............((((((((....))..)))))))))))((((.....(((((((.....(((.....)))....))))))).......)))). ( -16.70)
>DroSec_CAF1 12798 100 + 1
AGACAAAUUUCAUUCUUAGUCCUUGCCGCAGCCAAAGGAUUUGUCAAAGCAUAUGAAGAGACUAAAACUUGUUAAGUGAAAUCUCUUUUAUUUUGCUUUA
.(((((............((((((((....))..)))))))))))((((((...(((((((.....(((.....)))....))))))).....)))))). ( -22.60)
>DroSim_CAF1 12467 100 + 1
AGACAAAUUUCAUUCUUAGUCCUUGCCGCAGCCAAAGGAUUUGUCAAAGCAUAUGAAGAGACUAAAACUUGUUAAGUGAAAUCUCUUUUAUUUUGCUUUA
.(((((............((((((((....))..)))))))))))((((((...(((((((.....(((.....)))....))))))).....)))))). ( -22.60)
>DroEre_CAF1 13812 100 + 1
AGACAAAUUUCAUUCUUAGUCCUUGCCGCAGCCAAAGGAUUUGUCAAAGCAUAUGAAGAGACUAAAACUUGUUAAGUGAAAUCUCUUUUAUUUUGCCUUA
.(((((............((((((((....))..)))))))))))...(((...(((((((.....(((.....)))....))))))).....))).... ( -19.20)
>DroYak_CAF1 13155 100 + 1
AGACAAAUUUCAUUCUUAGUCCUUGCCGCAGCCAAAGGAUUUGUCAAAGCAUAUGAAGAGACUAAAACUUGUUAAGUGAAAUCUCUUUUAUUUUGCCUUA
.(((((............((((((((....))..)))))))))))...(((...(((((((.....(((.....)))....))))))).....))).... ( -19.20)
>consensus
AGACAAAUUUCAUUCUUAGUCCUUGCCGCAGCCAAAGGAUUUGUCAAAGCAUAUGAAGAGACUAAAACUUGUUAAGUGAAAUCUCUUUUAUUUUGCUUUA
.(((((............((((((((....))..)))))))))))((((((...(((((((.....(((.....)))....))))))).....)))))). (-19.70 = -20.30 +   0.60)

alignment

secondary structure

dotplot

Window 3

Location	2,604,744 – 2,604,844
Length	100
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	99.00
Mean single sequence MFE	-20.66
Consensus MFE	-20.32
Energy contribution	-20.28
Covariance contribution	-0.04
Combinations/Pair	1.03
Mean z-score	-1.40
Structure conservation index	0.98
SVM decision value	0.80
SVM RNA-class probability	0.853638
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2604744 100 - 22224390
UAAAGAAAAAUAAAAGAGAUUUCACUUAACAAGUUUUAGUCUCUUCAUAUGCUUUGACAAAUCCUUUGGCUGCGGCAAGGACUAAGAAUGAAAUUUGUCU
.((((....(((.((((((((..(((.....)))...))))))))..))).))))((((((((((...((....)).))))............)))))). ( -17.90)
>DroSec_CAF1 12798 100 - 1
UAAAGCAAAAUAAAAGAGAUUUCACUUAACAAGUUUUAGUCUCUUCAUAUGCUUUGACAAAUCCUUUGGCUGCGGCAAGGACUAAGAAUGAAAUUUGUCU
.((((((......((((((((..(((.....)))...))))))))....))))))((((((((((...((....)).))))............)))))). ( -21.50)
>DroSim_CAF1 12467 100 - 1
UAAAGCAAAAUAAAAGAGAUUUCACUUAACAAGUUUUAGUCUCUUCAUAUGCUUUGACAAAUCCUUUGGCUGCGGCAAGGACUAAGAAUGAAAUUUGUCU
.((((((......((((((((..(((.....)))...))))))))....))))))((((((((((...((....)).))))............)))))). ( -21.50)
>DroEre_CAF1 13812 100 - 1
UAAGGCAAAAUAAAAGAGAUUUCACUUAACAAGUUUUAGUCUCUUCAUAUGCUUUGACAAAUCCUUUGGCUGCGGCAAGGACUAAGAAUGAAAUUUGUCU
.((((((......((((((((..(((.....)))...))))))))....))))))((((((((((...((....)).))))............)))))). ( -21.20)
>DroYak_CAF1 13155 100 - 1
UAAGGCAAAAUAAAAGAGAUUUCACUUAACAAGUUUUAGUCUCUUCAUAUGCUUUGACAAAUCCUUUGGCUGCGGCAAGGACUAAGAAUGAAAUUUGUCU
.((((((......((((((((..(((.....)))...))))))))....))))))((((((((((...((....)).))))............)))))). ( -21.20)
>consensus
UAAAGCAAAAUAAAAGAGAUUUCACUUAACAAGUUUUAGUCUCUUCAUAUGCUUUGACAAAUCCUUUGGCUGCGGCAAGGACUAAGAAUGAAAUUUGUCU
.((((((......((((((((..(((.....)))...))))))))....))))))((((((((((...((....)).))))............)))))). (-20.32 = -20.28 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:36 2006