Locus 561

Sequence ID	X_DroMel_CAF1
Location	1,614,154 – 1,614,284
Length	130
Max. P	0.608505

overview

Window 2

Location	1,614,154 – 1,614,252
Length	98
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	85.89
Mean single sequence MFE	-25.67
Consensus MFE	-19.46
Energy contribution	-20.39
Covariance contribution	0.93
Combinations/Pair	1.04
Mean z-score	-2.32
Structure conservation index	0.76
SVM decision value	0.15
SVM RNA-class probability	0.608505
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1614154 98 - 22224390
UGCCAUAAAUUCAUAUUCCCAUCAUUCAAUUGACAAAUGGCCAUAUGUGGCCAGUGACAUGGUUUCUCCGCCAUCACCCCCGCC---------------CAUAAGUGGAGGCA
.(((.................(((......)))....((((((....))))))((((..((((......))))))))..((((.---------------.....)))).))). ( -25.90)
>DroSec_CAF1 9832 98 - 1
UGCCAUAAAUUCAUAUUCCCAUCAUUCAAUUGACAAAUGGCCAUAUGUGGCCAGUGACAUGGUUUCUCCGCCAUCACCCCCGCC---------------CAUAAGUGGAGGCA
.(((.................(((......)))....((((((....))))))((((..((((......))))))))..((((.---------------.....)))).))). ( -25.90)
>DroSim_CAF1 25792 98 - 1
UGCCAUAAAUUCAUAUUCCCAUCAUUCAAUUGACAAAUGGCCAUAUGUGGCCAGUGACAUGGUUUCUCCGCCAUAACCCCCGCC---------------CAUAAGUGGAGGCA
.(((......((((.......(((......)))....((((((....)))))))))).(((((......))))).....((((.---------------.....)))).))). ( -26.00)
>DroEre_CAF1 10573 98 - 1
UGCCAUAAAUUCAUAUUCCCAUCAUUCAAUUGACAAAUGGCCAUAUGUGGCCAGUGACAUGGUUUCUCCACCAGCUCCCCCCUC---------------CACAAGUGGAGGCA
.(((((....((((.......(((......)))....((((((....)))))))))).))))).................((((---------------((....)))))).. ( -26.00)
>DroYak_CAF1 11567 113 - 1
UGCCAUAAAUUCAUAUUCCCAUCAUUCAAUUGACAAAUGGCCAUAUGUGGCCAGUGACAUGGUUUCUCCGCCAUCGCCGCCAUCGCCGCCAUCGUCGCCAAUAAGUGGAGGCA
.(((...........................(((..(((((.....(((((..((((..((((......)))))))).)))))....))))).))).(((.....))).))). ( -29.70)
>DroAna_CAF1 11382 84 - 1
UGCCAUAAAUUCAUAUUCCCAUCAUUCAAUUGACAAAUGGCCAUAUGUGGCCAGUGACAUGGUUUCU--------ACCCCCACC---------------CGCAAGGA------
.(((((....((((.......(((......)))....((((((....)))))))))).)))))....--------........(---------------(....)).------ ( -20.50)
>consensus
UGCCAUAAAUUCAUAUUCCCAUCAUUCAAUUGACAAAUGGCCAUAUGUGGCCAGUGACAUGGUUUCUCCGCCAUCACCCCCGCC_______________CAUAAGUGGAGGCA
.(((((....((((.......(((......)))....((((((....)))))))))).))))).(((((((.................................))))))).. (-19.46 = -20.39 +   0.93)

alignment

secondary structure

dotplot

Window 3

Location	1,614,179 – 1,614,284
Length	105
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	74.70
Mean single sequence MFE	-26.00
Consensus MFE	-12.36
Energy contribution	-12.92
Covariance contribution	0.56
Combinations/Pair	1.26
Mean z-score	-1.72
Structure conservation index	0.48
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1614179 105 + 22224390
UGGCGGAGAAACCAUGUCACUGGCCACAUAUGGCCAUUUGUCAAUUGAAUGAUGGGAAUAUGAAUUUAUGGCAUUAAAAUCUUUUGGUUUUUCGGCCGUUUGCAC--------
.(((.((((((((((((((.((((((....))))))((..(((......)))..))............)))))...........))))))))).)))........-------- ( -33.30)
>DroVir_CAF1 15359 86 + 1
-----------------UACUCCCCACAUACGACCAUUUGUAAAUUGAAUGAUGGAUUUAUGAGCUUAUAGCAUUAA-GUCCUUUGGUUUUUGACAGAAUUAAA---------
-----------------...................(((((.....((((.(.(((((((...((.....))..)))-))))..).))))...)))))......--------- ( -13.00)
>DroGri_CAF1 12318 87 + 1
-----------------CAUUCACUGCAUUUGACCAUUUGUAAAUUGAAUGAUGGAUAUGUGAGUUUAUAGCAUUAA-GUCGUUUGGUUUUUGGCUGGAUUGAAC--------
-----------------..((((....((((..(((.....((((..((((((....((((.........))))...-))))))..)))).)))..)))))))).-------- ( -16.50)
>DroSim_CAF1 25817 104 + 1
UGGCGGAGAAACCAUGUCACUGGCCACAUAUGGCCAUUUGUCAAUUGAAUGAUGGGAAUAUGAAUUUAUGGCAUUAAAAUCUUUUG-UUUUUCGGCCGUUUGCAC--------
.(((.(((((((.((((((.((((((....))))))((..(((......)))..))............))))))...........)-)))))).)))........-------- ( -28.60)
>DroEre_CAF1 10598 105 + 1
UGGUGGAGAAACCAUGUCACUGGCCACAUAUGGCCAUUUGUCAAUUGAAUGAUGGGAAUAUGAAUUUAUGGCAUUAAAAUCUUUUGGUUUUUCGGCCGUUUGCAC--------
.(((.((((((((((((((.((((((....))))))((..(((......)))..))............)))))...........))))))))).)))........-------- ( -32.00)
>DroAna_CAF1 11399 107 + 1
------AGAAACCAUGUCACUGGCCACAUAUGGCCAUUUGUCAAUUGAAUGAUGGGAAUAUGAAUUUAUGGCAUUAAAAUCUUUUGGUUUUUCGGCCGUUUGGCCAUUUGGAC
------.....(((......(((((((((((..(((((..((....))..)))))..))))).....(((((...((((((....))))))...))))).))))))..))).. ( -32.60)
>consensus
______AGAAACCAUGUCACUGGCCACAUAUGGCCAUUUGUCAAUUGAAUGAUGGGAAUAUGAAUUUAUGGCAUUAAAAUCUUUUGGUUUUUCGGCCGUUUGCAC________
....................(((((.(((((..(((((..((....))..)))))..))))).............((((((....))))))..)))))............... (-12.36 = -12.92 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:46 2006