Locus 3212

Sequence ID	X_DroMel_CAF1
Location	8,492,075 – 8,492,171
Length	96
Max. P	0.992711

overview

Window 7

Location	8,492,075 – 8,492,171
Length	96
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	75.15
Mean single sequence MFE	-20.70
Consensus MFE	-6.46
Energy contribution	-7.30
Covariance contribution	0.84
Combinations/Pair	1.07
Mean z-score	-1.83
Structure conservation index	0.31
SVM decision value	0.38
SVM RNA-class probability	0.712214
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8492075 96 + 22224390
AGUGUGAAGAUUUGACAAGUUUAAGAGGCAUUAAAAUCUAGCCUCCGACUAUGAACACUCACAGUUGC---AAUAUAUGUACAUAUG----UAUGUACAUAUG
........................(((((...........)))))(((((.(((....))).))))).---..(((((((((((...----.))))))))))) ( -22.70)
>DroSec_CAF1 34237 90 + 1
AGUGUGAAGAUUUGACAAGUUUAACAGGCAUUAAAAUCUAGCCUCCGACUAUGUACACUCACAGUUGG---CAUCUAC--ACA--------UAUGUACAUAUG
.(((((.((((..............((((...........))))((((((.((......)).))))))---.)))).)--)))--------)........... ( -19.00)
>DroSim_CAF1 43356 90 + 1
AGUGUGAAGAUUUGACAAGUUUAAGAGGCAUUAAAAUCUAGCCUCCGACUAUGUACACUCACAGUUGG---CAUAUAC--ACA--------UAUGUACAUAUG
.(((((..................(((((...........)))))(((((.((......)).)))))(---(((((..--..)--------))))).))))). ( -18.60)
>DroEre_CAF1 40540 103 + 1
AGUGUGAAGAUUUGACAAGUUUAAGAGGCAUUAAAAUCUAGCCUCCAACUAUGAGUGUACAUAGUCGGAGGCAUAUACAUACAUAUGUACAUAUAUGUAUGUG
.......((((((.....(((.....)))....)))))).((((((.((((((......)))))).))))))...((((((((((((....)))))))))))) ( -34.20)
>DroAna_CAF1 56014 76 + 1
AGUGUGAAGAUUUGACAAGUUUAAGACGCAUUAAAAA--AGCCACCA----CUCGCACUCAC----------AUCUCU--AGA--------UAU-CGUCUAUG
(((((((.....((.(...(((((......)))))..--.).))...----.)))))))...----------.....(--(((--------(..-.))))).. (  -9.00)
>consensus
AGUGUGAAGAUUUGACAAGUUUAAGAGGCAUUAAAAUCUAGCCUCCGACUAUGAACACUCACAGUUGG___CAUAUAC__ACA________UAUGUACAUAUG
..((((((((((.....)))))..(((((...........))))).............)))))........................................ ( -6.46 =  -7.30 +   0.84)

alignment

secondary structure

dotplot

Window 8

Location	8,492,075 – 8,492,171
Length	96
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	75.15
Mean single sequence MFE	-22.44
Consensus MFE	-7.87
Energy contribution	-8.74
Covariance contribution	0.87
Combinations/Pair	1.17
Mean z-score	-2.50
Structure conservation index	0.35
SVM decision value	2.35
SVM RNA-class probability	0.992711
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8492075 96 - 22224390
CAUAUGUACAUA----CAUAUGUACAUAUAUU---GCAACUGUGAGUGUUCAUAGUCGGAGGCUAGAUUUUAAUGCCUCUUAAACUUGUCAAAUCUUCACACU
.((((((((((.----...)))))))))).((---(((((((((......)))))).((((((...........))))))......)).)))........... ( -25.10)
>DroSec_CAF1 34237 90 - 1
CAUAUGUACAUA--------UGU--GUAGAUG---CCAACUGUGAGUGUACAUAGUCGGAGGCUAGAUUUUAAUGCCUGUUAAACUUGUCAAAUCUUCACACU
............--------(((--(.((((.---((.((((((......)))))).))((((...........))))..............)))).)))).. ( -19.90)
>DroSim_CAF1 43356 90 - 1
CAUAUGUACAUA--------UGU--GUAUAUG---CCAACUGUGAGUGUACAUAGUCGGAGGCUAGAUUUUAAUGCCUCUUAAACUUGUCAAAUCUUCACACU
..((((((((..--------..)--)))))))---.....((((((((.(((.(((.((((((...........))))))...))))))))....)))))).. ( -21.30)
>DroEre_CAF1 40540 103 - 1
CACAUACAUAUAUGUACAUAUGUAUGUAUAUGCCUCCGACUAUGUACACUCAUAGUUGGAGGCUAGAUUUUAAUGCCUCUUAAACUUGUCAAAUCUUCACACU
.((((((((((......))))))))))....(((((((((((((......)))))))))))))..((((((((......)))))...)))............. ( -33.60)
>DroAna_CAF1 56014 76 - 1
CAUAGACG-AUA--------UCU--AGAGAU----------GUGAGUGCGAG----UGGUGGCU--UUUUUAAUGCGUCUUAAACUUGUCAAAUCUUCACACU
........-(((--------((.--...)))----------)).((((.(((----...((((.--..(((((......)))))...))))....))).)))) ( -12.30)
>consensus
CAUAUGUACAUA________UGU__GUAUAUG___CCAACUGUGAGUGUACAUAGUCGGAGGCUAGAUUUUAAUGCCUCUUAAACUUGUCAAAUCUUCACACU
......................................((((((......)))))).((((((...........))))))....................... ( -7.87 =  -8.74 +   0.87)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:53 2006