Locus 5010

Sequence ID	3L_DroMel_CAF1
Location	13,762,997 – 13,763,114
Length	117
Max. P	0.982279

overview

Window 7

Location	13,762,997 – 13,763,114
Length	117
Sequences	4
Columns	117
Reading direction	forward
Mean pairwise identity	97.58
Mean single sequence MFE	-38.55
Consensus MFE	-38.20
Energy contribution	-37.58
Covariance contribution	-0.63
Combinations/Pair	1.08
Mean z-score	-2.89
Structure conservation index	0.99
SVM decision value	1.91
SVM RNA-class probability	0.982279
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13762997 117 + 23771897
UAAACCCUCAUCUUGCCUUUUUGUCCCUGUGUGAGACUGUUUGUCAGGCUUAUGAGCUUAAGCGAGGACACUCUUUCACACGGAAAGCGAAGAGAUAUGGCUAAGUAGAUGAGAAUC
......(((((((.((((((((((..(((((((((((((.....)))(((((......)))))(((....)))))))))))))...))))))).....))).....))))))).... ( -38.80)
>DroSec_CAF1 9557 117 + 1
UAAACCCUCAUCUUGCCUUUUUGUCCCUGUGUGAGACUGUUUGUCAGGCUUAUGAGCUUAAGCGAGGACACUCUUUCACACGGAAAGCGAAGAGAUAUGGCUAAGCAGAUGAGAAUC
......(((((((.((((((((((..(((((((((((((.....)))(((((......)))))(((....)))))))))))))...))))))))..........))))))))).... ( -38.80)
>DroEre_CAF1 8805 117 + 1
UAAACCCUCAUCUUGCCUUUUUGUCCCUGUGUGAAACUGUUUGUCAGGCUUAUGAGCUUAAGCGAGGACACUCUUUCACACGGAAAGCGAAGAGAUAUUGCUAAGUAGAUGAGAAUC
......(((((((.((((((((((..(((((((((((((.....)))(((((......)))))(((....)))))))))))))...)))))))).....)).....))))))).... ( -38.00)
>DroYak_CAF1 6804 117 + 1
UAAACCCUCAUCUUGCCUUUUUGUCCCUGUGUGAAACUGUUUGUCAGGCUUAUGAGCUUAGGCGGGGACACUCUUUCACACGGAAAGCGAAGAGAUAUUGCUAAGUAGAUGAGAAUC
......(((((((.((((((((((..((((((((((..((..((((((((....))))).)))(....)))..))))))))))...)))))))).....)).....))))))).... ( -38.60)
>consensus
UAAACCCUCAUCUUGCCUUUUUGUCCCUGUGUGAAACUGUUUGUCAGGCUUAUGAGCUUAAGCGAGGACACUCUUUCACACGGAAAGCGAAGAGAUAUGGCUAAGUAGAUGAGAAUC
......(((((((.((((((((((..(((((((((((((.....)))(((((......)))))(((....)))))))))))))...)))))))).....)).....))))))).... (-38.20 = -37.58 +  -0.63)

alignment

secondary structure

dotplot

Window 8

Location	13,762,997 – 13,763,114
Length	117
Sequences	4
Columns	117
Reading direction	reverse
Mean pairwise identity	97.58
Mean single sequence MFE	-34.78
Consensus MFE	-31.96
Energy contribution	-31.78
Covariance contribution	-0.19
Combinations/Pair	1.06
Mean z-score	-2.63
Structure conservation index	0.92
SVM decision value	1.24
SVM RNA-class probability	0.935082
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13762997 117 - 23771897
GAUUCUCAUCUACUUAGCCAUAUCUCUUCGCUUUCCGUGUGAAAGAGUGUCCUCGCUUAAGCUCAUAAGCCUGACAAACAGUCUCACACAGGGACAAAAAGGCAAGAUGAGGGUUUA
(((((((((((.....(((....((((((((.......))).)))))((((((.(((((......)))))..(((.....))).......))))))....))).))))))))))).. ( -35.90)
>DroSec_CAF1 9557 117 - 1
GAUUCUCAUCUGCUUAGCCAUAUCUCUUCGCUUUCCGUGUGAAAGAGUGUCCUCGCUUAAGCUCAUAAGCCUGACAAACAGUCUCACACAGGGACAAAAAGGCAAGAUGAGGGUUUA
(((((((((((.....(((....((((((((.......))).)))))((((((.(((((......)))))..(((.....))).......))))))....))).))))))))))).. ( -37.00)
>DroEre_CAF1 8805 117 - 1
GAUUCUCAUCUACUUAGCAAUAUCUCUUCGCUUUCCGUGUGAAAGAGUGUCCUCGCUUAAGCUCAUAAGCCUGACAAACAGUUUCACACAGGGACAAAAAGGCAAGAUGAGGGUUUA
(((((((((((.((((((...........)))((((((((((((...((((...(((((......)))))..)))).....)))))))).))))....)))...))))))))))).. ( -34.40)
>DroYak_CAF1 6804 117 - 1
GAUUCUCAUCUACUUAGCAAUAUCUCUUCGCUUUCCGUGUGAAAGAGUGUCCCCGCCUAAGCUCAUAAGCCUGACAAACAGUUUCACACAGGGACAAAAAGGCAAGAUGAGGGUUUA
(((((((((((.(((........((((((((.......))).)))))((((((.......(((....)))(((.....))).........))))))..)))...))))))))))).. ( -31.80)
>consensus
GAUUCUCAUCUACUUAGCAAUAUCUCUUCGCUUUCCGUGUGAAAGAGUGUCCUCGCUUAAGCUCAUAAGCCUGACAAACAGUCUCACACAGGGACAAAAAGGCAAGAUGAGGGUUUA
(((((((((((.(((........((((((((.......))).)))))((((((.(((((......)))))..(((.....))).......))))))..)))...))))))))))).. (-31.96 = -31.78 +  -0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:33 2006