Locus 2405

Sequence ID	2L_DroMel_CAF1
Location	6,559,015 – 6,559,106
Length	91
Max. P	0.999775

overview

Window 2

Location	6,559,015 – 6,559,106
Length	91
Sequences	5
Columns	91
Reading direction	forward
Mean pairwise identity	98.24
Mean single sequence MFE	-13.68
Consensus MFE	-13.84
Energy contribution	-13.68
Covariance contribution	-0.16
Combinations/Pair	1.05
Mean z-score	-1.58
Structure conservation index	1.01
SVM decision value	1.80
SVM RNA-class probability	0.977991
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6559015 91 + 22407834
UUCAAGCUGGUGGAGAAGGCAGCUGUUUAAAGUUAUUAUUAAUUAAUUCAAUAAACCAAUUAAUAACAAAAACACAACAACUACUAAGCUA
....(((((((((.......((((......)))).(((((((((.............)))))))))..............))))).)))). ( -13.62)
>DroSec_CAF1 30982 91 + 1
UUCAAGCUGGUGGAGAAGGCAGCUGUUUAAAGUUAUUAUUAAUUAAUUCAAUAAACCAAUUAAUAACAAAAACACAACAACUACUAAGCUA
....(((((((((.......((((......)))).(((((((((.............)))))))))..............))))).)))). ( -13.62)
>DroSim_CAF1 32956 91 + 1
UUCAAGCUAGUGGAGAAGGCAGCUGUUUAAAGUUAUUAUUAAUUAAUUCAAUAAACCAAUUAAUAACAAAAACACAACAACUACUAAGCUA
....(((((((((.......((((......)))).(((((((((.............)))))))))..............))))).)))). ( -13.92)
>DroEre_CAF1 31732 88 + 1
UUCAAGCUGGUGGAGAAGGCAGCUGUUUAAAGUUAUUAUUAAUUAAUUCAAUAAACCAAUUAAUAACAAAAACACA---ACUACUAAGCUA
....(((((((((.......((((......)))).(((((((((.............)))))))))..........---.))))).)))). ( -13.62)
>DroYak_CAF1 32355 91 + 1
UUCAAGCUGGUGGAGAAGGCAGCUGUUUAAAGUUAUUAUUAAUUAAUUCAAUAAACCAAUUAAUAACAAAAACACAACAACUACUAAGCUA
....(((((((((.......((((......)))).(((((((((.............)))))))))..............))))).)))). ( -13.62)
>consensus
UUCAAGCUGGUGGAGAAGGCAGCUGUUUAAAGUUAUUAUUAAUUAAUUCAAUAAACCAAUUAAUAACAAAAACACAACAACUACUAAGCUA
....(((((((((.......((((......)))).(((((((((.............)))))))))..............))))).)))). (-13.84 = -13.68 +  -0.16)

alignment

secondary structure

dotplot

Window 3

Location	6,559,015 – 6,559,106
Length	91
Sequences	5
Columns	91
Reading direction	reverse
Mean pairwise identity	98.24
Mean single sequence MFE	-21.98
Consensus MFE	-20.48
Energy contribution	-21.08
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-3.32
Structure conservation index	0.93
SVM decision value	4.05
SVM RNA-class probability	0.999775
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6559015 91 - 22407834
UAGCUUAGUAGUUGUUGUGUUUUUGUUAUUAAUUGGUUUAUUGAAUUAAUUAAUAAUAACUUUAAACAGCUGCCUUCUCCACCAGCUUGAA
.......(((((((((......(((((((((((((((((...))))))))))))))))).....))))))))).................. ( -22.10)
>DroSec_CAF1 30982 91 - 1
UAGCUUAGUAGUUGUUGUGUUUUUGUUAUUAAUUGGUUUAUUGAAUUAAUUAAUAAUAACUUUAAACAGCUGCCUUCUCCACCAGCUUGAA
.......(((((((((......(((((((((((((((((...))))))))))))))))).....))))))))).................. ( -22.10)
>DroSim_CAF1 32956 91 - 1
UAGCUUAGUAGUUGUUGUGUUUUUGUUAUUAAUUGGUUUAUUGAAUUAAUUAAUAAUAACUUUAAACAGCUGCCUUCUCCACUAGCUUGAA
.((((..(((((((((......(((((((((((((((((...))))))))))))))))).....)))))))))..........)))).... ( -22.80)
>DroEre_CAF1 31732 88 - 1
UAGCUUAGUAGU---UGUGUUUUUGUUAUUAAUUGGUUUAUUGAAUUAAUUAAUAAUAACUUUAAACAGCUGCCUUCUCCACCAGCUUGAA
.......(((((---(((....(((((((((((((((((...)))))))))))))))))......)))))))).................. ( -20.80)
>DroYak_CAF1 32355 91 - 1
UAGCUUAGUAGUUGUUGUGUUUUUGUUAUUAAUUGGUUUAUUGAAUUAAUUAAUAAUAACUUUAAACAGCUGCCUUCUCCACCAGCUUGAA
.......(((((((((......(((((((((((((((((...))))))))))))))))).....))))))))).................. ( -22.10)
>consensus
UAGCUUAGUAGUUGUUGUGUUUUUGUUAUUAAUUGGUUUAUUGAAUUAAUUAAUAAUAACUUUAAACAGCUGCCUUCUCCACCAGCUUGAA
.((((..(((((((((......(((((((((((((((((...))))))))))))))))).....)))))))))..........)))).... (-20.48 = -21.08 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:16 2006