Locus 4415

Sequence ID	X_DroMel_CAF1
Location	11,651,891 – 11,651,984
Length	93
Max. P	0.997650

overview

Window 4

Location	11,651,891 – 11,651,984
Length	93
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	98.49
Mean single sequence MFE	-25.18
Consensus MFE	-23.48
Energy contribution	-23.24
Covariance contribution	-0.24
Combinations/Pair	1.03
Mean z-score	-2.29
Structure conservation index	0.93
SVM decision value	2.90
SVM RNA-class probability	0.997650
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11651891 93 + 22224390
AGUGUUGUUGUGUUUCAGCUGCUGCUGAUUCAACCAGCGAACAGCAACAACAACGCAAGUGGUAAGUUCUUCAUCUUCUUCUUCUAGUUGUUU
.(((((((((((..(((((....)))))..).....((.....)).))))))))))(((.((.(((........))))).))).......... ( -25.70)
>DroSec_CAF1 25226 93 + 1
AGUGUUGUUGUGUUUCAGCUGCUGCUGAUUCAACCAGCGAACAGCAACAACAACGCAAGUGGUAAGUUCUUCCUCUUCUUCUUCUAGUUGUUU
.(((((((((((..(((((....)))))..).....((.....)).))))))))))(((.((.........)).)))................ ( -25.90)
>DroSim_CAF1 21306 93 + 1
AGUGUUGUUGUGUUUCAGCUGCUGCUGAUUCAACCAGCGAACAGCAACAACAACGCAAGUGGUAAGUUCUUCCUCUUCUUCUUCUAGUUGUUU
.(((((((((((..(((((....)))))..).....((.....)).))))))))))(((.((.........)).)))................ ( -25.90)
>DroEre_CAF1 27413 93 + 1
AGUGUUGUUGUGUUUCAGCUGCUGCUGAUUCAACCAACGAACAGCAACAACAACGCAAGUGGUAAGUUCUUCCUCUUCUUCUUCUAGUUGUUU
.((.((((((((..(((((....)))))..))..))))))...))...((((((..(((.((.(((........))))).)))...)))))). ( -23.40)
>DroYak_CAF1 24685 93 + 1
AGUGUUGUUGUGCUUCAGCUGCUGCUGAUUCAACCAACGAACAGCAACAACAACGCAAGUGGUAAGUUCUUCCUCUUCUUCUUCUAGUUGUUU
.((((((((((((((((((....)))))(((.......))).))).))))))))))(((.((.........)).)))................ ( -25.00)
>consensus
AGUGUUGUUGUGUUUCAGCUGCUGCUGAUUCAACCAGCGAACAGCAACAACAACGCAAGUGGUAAGUUCUUCCUCUUCUUCUUCUAGUUGUUU
.((.((((((((..(((((....)))))..))..))))))...))...((((((..(((.((.(((........))))).)))...)))))). (-23.48 = -23.24 +  -0.24)

alignment

secondary structure

dotplot

Window 5

Location	11,651,891 – 11,651,984
Length	93
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	98.49
Mean single sequence MFE	-23.62
Consensus MFE	-23.08
Energy contribution	-23.04
Covariance contribution	-0.04
Combinations/Pair	1.04
Mean z-score	-1.85
Structure conservation index	0.98
SVM decision value	2.35
SVM RNA-class probability	0.992813
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11651891 93 - 22224390
AAACAACUAGAAGAAGAAGAUGAAGAACUUACCACUUGCGUUGUUGUUGCUGUUCGCUGGUUGAAUCAGCAGCAGCUGAAACACAACAACACU
.......................................((((((((.((((((.((((((...))))))))))))......))))))))... ( -23.20)
>DroSec_CAF1 25226 93 - 1
AAACAACUAGAAGAAGAAGAGGAAGAACUUACCACUUGCGUUGUUGUUGCUGUUCGCUGGUUGAAUCAGCAGCAGCUGAAACACAACAACACU
................(((.((((....)).)).)))..((((((((.((((((.((((((...))))))))))))......))))))))... ( -24.80)
>DroSim_CAF1 21306 93 - 1
AAACAACUAGAAGAAGAAGAGGAAGAACUUACCACUUGCGUUGUUGUUGCUGUUCGCUGGUUGAAUCAGCAGCAGCUGAAACACAACAACACU
................(((.((((....)).)).)))..((((((((.((((((.((((((...))))))))))))......))))))))... ( -24.80)
>DroEre_CAF1 27413 93 - 1
AAACAACUAGAAGAAGAAGAGGAAGAACUUACCACUUGCGUUGUUGUUGCUGUUCGUUGGUUGAAUCAGCAGCAGCUGAAACACAACAACACU
................(((.((((....)).)).)))..((((((((.((((((.((((((...))))))))))))......))))))))... ( -22.40)
>DroYak_CAF1 24685 93 - 1
AAACAACUAGAAGAAGAAGAGGAAGAACUUACCACUUGCGUUGUUGUUGCUGUUCGUUGGUUGAAUCAGCAGCAGCUGAAGCACAACAACACU
................(((.((((....)).)).)))..((((((((.(((.((((.....))))(((((....))))))))))))))))... ( -22.90)
>consensus
AAACAACUAGAAGAAGAAGAGGAAGAACUUACCACUUGCGUUGUUGUUGCUGUUCGCUGGUUGAAUCAGCAGCAGCUGAAACACAACAACACU
................(((.((((....)).)).)))..((((((((.((((((.((((((...))))))))))))......))))))))... (-23.08 = -23.04 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:29 2006