Locus 4046

Sequence ID	X_DroMel_CAF1
Location	10,720,869 – 10,720,979
Length	110
Max. P	0.994321

overview

Window 0

Location	10,720,869 – 10,720,979
Length	110
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	80.70
Mean single sequence MFE	-35.38
Consensus MFE	-20.29
Energy contribution	-21.33
Covariance contribution	1.04
Combinations/Pair	1.23
Mean z-score	-3.16
Structure conservation index	0.57
SVM decision value	2.47
SVM RNA-class probability	0.994321
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10720869 110 + 22224390
GAUCGAUUGAUUGUUAAGAGAUGGAGUGCAAG-CAGUCCUGGCUCAUUGGUUCUUAAUUUGGUUCUAAGAGCCGGAUUC-------AAGGUUGCAUUCCUCUUACAUUCUCAC--AUCAA
....((((((.(((...((((.(((((((((.-((((((.(((((.((((..((......))..)))))))))))))).-------..).))))))))))))))))...))).--))).. ( -39.20)
>DroSec_CAF1 9668 112 + 1
GAUCGAUUGUUUGUUAAGAGAUGGAGUGCAAG-CAAUCCUGGCUCAUUGGUUCUUAAAUUGGUCCUUAGAGCCUGAUCA-------UCGAUUGCAUUCCUCUUACAUUCUCACAAAUCGA
..((((((((..(....((((.(((((((((.-..(((..(((((...((..(.......)..))...))))).)))..-------....))))))))))))).....)..)).)))))) ( -33.50)
>DroSim_CAF1 9699 112 + 1
GAUCGAUUGUUUGUUAAGAGAUGGAGUGCAAG-CAAUCCUGGCUGAUUGGUUCUUAAAUUGGUCCUAAGAGCCGGAUCA-------UCGAUUGCAUUCCUCUUACAUUCUUACAAAUCGA
..((((((((..(....((((.(((((((((.-..((((.((((..((((..((......))..)))).))))))))..-------....))))))))))))).....)..)).)))))) ( -36.50)
>DroEre_CAF1 4954 119 + 1
AUACGAUUGUAUGUCAAGAGAUGGAGAUCAAUGCA-UCCUGGCUCAUUGGUUCUUAAAUUGGUCCUCCGAGCCGGAUCAUUACUUAUAGGUUGCAUUUCUCUCACAUUCCCACAAAUCGA
...(((((...(((...(..(((((((..((((((-.((((((((...((..(.......)..))...)))))(........)....))).))))))..)))).)))..).)))))))). ( -32.80)
>DroYak_CAF1 9446 119 + 1
AAACGAUUGUAUGCUGAGAGAUGGAGAACAAUGCAAUCGUGGCUCAUUGGUUUCUAAAUUGGUCCUCAGAGACGGAUCAUUAUUUAUCGAUUGCAUUUCCAUCAC-UUCCCACAAAUCGA
...(((((...((..(((.((((((....((((((((((.((((....))))..(((((((((((........))))))..))))).)))))))))))))))).)-))..))..))))). ( -34.90)
>consensus
GAUCGAUUGUUUGUUAAGAGAUGGAGUGCAAG_CAAUCCUGGCUCAUUGGUUCUUAAAUUGGUCCUAAGAGCCGGAUCA_______UCGAUUGCAUUCCUCUUACAUUCUCACAAAUCGA
...(((((.........((((.(((((((((.......(((((((...((..((......)).))...))))))).((..........)))))))))))))))...........))))). (-20.29 = -21.33 +   1.04)

alignment

secondary structure

dotplot

Window 1

Location	10,720,869 – 10,720,979
Length	110
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	80.70
Mean single sequence MFE	-29.90
Consensus MFE	-15.12
Energy contribution	-15.88
Covariance contribution	0.76
Combinations/Pair	1.27
Mean z-score	-2.06
Structure conservation index	0.51
SVM decision value	0.18
SVM RNA-class probability	0.620115
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10720869 110 - 22224390
UUGAU--GUGAGAAUGUAAGAGGAAUGCAACCUU-------GAAUCCGGCUCUUAGAACCAAAUUAAGAACCAAUGAGCCAGGACUG-CUUGCACUCCAUCUCUUAACAAUCAAUCGAUC
(((((--.(((.....((((((((.(((((.(..-------...((((((((.......................))))).)))..)-.))))).)))...)))))....)))))))).. ( -26.60)
>DroSec_CAF1 9668 112 - 1
UCGAUUUGUGAGAAUGUAAGAGGAAUGCAAUCGA-------UGAUCAGGCUCUAAGGACCAAUUUAAGAACCAAUGAGCCAGGAUUG-CUUGCACUCCAUCUCUUAACAAACAAUCGAUC
((((((.((.......((((((((.(((((.(((-------(..((.(((((...((..(.......)..))...))))).))))))-.))))).)))...)))))....)))))))).. ( -28.90)
>DroSim_CAF1 9699 112 - 1
UCGAUUUGUAAGAAUGUAAGAGGAAUGCAAUCGA-------UGAUCCGGCUCUUAGGACCAAUUUAAGAACCAAUCAGCCAGGAUUG-CUUGCACUCCAUCUCUUAACAAACAAUCGAUC
((((((((((((((((...((((...((((((..-------((((..((.(((((((.....))))))).)).)))).....)))))-)...).)))))).)))).)))...)))))).. ( -27.10)
>DroEre_CAF1 4954 119 - 1
UCGAUUUGUGGGAAUGUGAGAGAAAUGCAACCUAUAAGUAAUGAUCCGGCUCGGAGGACCAAUUUAAGAACCAAUGAGCCAGGA-UGCAUUGAUCUCCAUCUCUUGACAUACAAUCGUAU
.(((((((((((((((.((((..((((((.(((...(....).....((((((..((..(.......)..))..))))))))).-))))))..))))))).)))...)))).)))))... ( -34.90)
>DroYak_CAF1 9446 119 - 1
UCGAUUUGUGGGAA-GUGAUGGAAAUGCAAUCGAUAAAUAAUGAUCCGUCUCUGAGGACCAAUUUAGAAACCAAUGAGCCACGAUUGCAUUGUUCUCCAUCUCUCAGCAUACAAUCGUUU
.(((((((((.((.-(.((((((((((((((((........((.(((........))).)).((((........))))...))))))))))....)))))).)))..)))).)))))... ( -32.00)
>consensus
UCGAUUUGUGAGAAUGUAAGAGGAAUGCAAUCGA_______UGAUCCGGCUCUGAGGACCAAUUUAAGAACCAAUGAGCCAGGAUUG_CUUGCACUCCAUCUCUUAACAAACAAUCGAUC
.(((((.((.......(((((((........................(((((...((.............))...))))).(((.((.....)).))).)))))))....)))))))... (-15.12 = -15.88 +   0.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:03 2006