Locus 3523

Sequence ID	2L_DroMel_CAF1
Location	10,283,741 – 10,283,861
Length	120
Max. P	0.983963

overview

Window 3

Location	10,283,741 – 10,283,861
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	99.17
Mean single sequence MFE	-41.07
Consensus MFE	-39.83
Energy contribution	-39.83
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-3.14
Structure conservation index	0.97
SVM decision value	1.96
SVM RNA-class probability	0.983963
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10283741 120 + 22407834
AUCUUCGGACAACACCGAUACACCGUGCUCCUUGACAUCCGAAUCGAUUUCGGACUGAUUGAGACCAUUGAUUUGAGUGAGCAGCUCGAGUACAUCGUCAACGGAGCACAGGUUAUUAUC
....((((......))))...(((((((((((((((.((((((.....))))))..............((((((((((.....)))))))).))..))))).))))))).)))....... ( -42.00)
>DroSec_CAF1 3950 120 + 1
AUCUUCGGACAACACCGAUACACCGUGCUCCUUGACAUCCGAAUCGAUUUCGGACUGAUUGAGACCAUUGAUUUGAGUGAGCAGCUCGAGUACAUCGUCUACGGAGCACAGGUUAUUAUC
....((((......))))...((((((((((....((((((((.....)))))).))....((((...((((((((((.....)))))))).))..))))..))))))).)))....... ( -41.00)
>DroSim_CAF1 3717 120 + 1
AUCUUCGGACAACACCGAUACACCGUGCUCCUUGACAUCCGAAUCGAUUUCGGACUGAUUGAGACCAUUGAUUUGAGUGAGCAGCUCGAGUACAUCGUCCACGGAGCACAGGUUAUUAUC
....((((......))))...((((((((((.((.((((((((.....)))))).)).....(((...((((((((((.....)))))))).))..))))).))))))).)))....... ( -40.20)
>consensus
AUCUUCGGACAACACCGAUACACCGUGCUCCUUGACAUCCGAAUCGAUUUCGGACUGAUUGAGACCAUUGAUUUGAGUGAGCAGCUCGAGUACAUCGUCAACGGAGCACAGGUUAUUAUC
....((((......))))...(((((((((((..(((((((((.....)))))).)).)..)(((...((((((((((.....)))))))).))..)))...))))))).)))....... (-39.83 = -39.83 +   0.00)

alignment

secondary structure

dotplot

Window 4

Location	10,283,741 – 10,283,861
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	99.17
Mean single sequence MFE	-38.23
Consensus MFE	-36.87
Energy contribution	-36.87
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.74
Structure conservation index	0.96
SVM decision value	0.42
SVM RNA-class probability	0.729451
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10283741 120 - 22407834
GAUAAUAACCUGUGCUCCGUUGACGAUGUACUCGAGCUGCUCACUCAAAUCAAUGGUCUCAAUCAGUCCGAAAUCGAUUCGGAUGUCAAGGAGCACGGUGUAUCGGUGUUGUCCGAAGAU
.......(((((((((((.((((((((......(((...)))......)))..............(((((((.....))))))))))))))))))))).)).((((......)))).... ( -39.00)
>DroSec_CAF1 3950 120 - 1
GAUAAUAACCUGUGCUCCGUAGACGAUGUACUCGAGCUGCUCACUCAAAUCAAUGGUCUCAAUCAGUCCGAAAUCGAUUCGGAUGUCAAGGAGCACGGUGUAUCGGUGUUGUCCGAAGAU
.......((((((((((((.((((.((......(((.......)))......)).))))).....(((((((.....))))))).....))))))))).)).((((......)))).... ( -38.10)
>DroSim_CAF1 3717 120 - 1
GAUAAUAACCUGUGCUCCGUGGACGAUGUACUCGAGCUGCUCACUCAAAUCAAUGGUCUCAAUCAGUCCGAAAUCGAUUCGGAUGUCAAGGAGCACGGUGUAUCGGUGUUGUCCGAAGAU
.......(((((((((((...((((((......(((...)))......)))..............(((((((.....))))))))))..))))))))).)).((((......)))).... ( -37.60)
>consensus
GAUAAUAACCUGUGCUCCGUAGACGAUGUACUCGAGCUGCUCACUCAAAUCAAUGGUCUCAAUCAGUCCGAAAUCGAUUCGGAUGUCAAGGAGCACGGUGUAUCGGUGUUGUCCGAAGAU
.......(((((((((((...((((((......(((...)))......)))..............(((((((.....))))))))))..))))))))).)).((((......)))).... (-36.87 = -36.87 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:33 2006