Locus 5559

Sequence ID	X_DroMel_CAF1
Location	14,373,981 – 14,374,114
Length	133
Max. P	0.935489

overview

Window 0

Location	14,373,981 – 14,374,090
Length	109
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	83.47
Mean single sequence MFE	-29.70
Consensus MFE	-25.42
Energy contribution	-25.50
Covariance contribution	0.08
Combinations/Pair	1.17
Mean z-score	-2.02
Structure conservation index	0.86
SVM decision value	1.25
SVM RNA-class probability	0.935489
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14373981 109 - 22224390
CUGUAUCCAGAAUCCUGUA--UUCUGUAUCCCGAAUCCUGGGUUGACAGGGCAGGGAUUACGCUUAAUAUGGUGUGAACAUUUAUUUAAAUGCUUUAAAAGCACUGCCAUU
((((...((((((.....)--)))))...((((.....))))...))))(((((...(((((((......))))))).............((((.....)))))))))... ( -30.10)
>DroSec_CAF1 90144 109 - 1
CUGUAUCCAGAAUCCUGCA--UUCUGUAUCCCGAAUCCCGGGUUGACAGGGCAGGGAUUAUGCUUAAUAUGGUGUGAACAUUUAUUUAAAUGCUUUAAAAGCACUACCAUU
(((....)))..((((((.--..((((..((((.....))))...)))).)))))).(((((((......))))))).............((((.....))))........ ( -28.80)
>DroSim_CAF1 84283 109 - 1
CUGUAUCCAGAAUCCUGCA--UUCUGUAUCCCGAAUCCCGGGUUGACAGGGCAGGGAUUAUGCUUAAUAUGGUGUGAACAUUUAUUUAAAUGCUUUAAAAGCACUGCCAUU
((((...((((((.....)--)))))...((((.....))))...))))(((((...(((((((......))))))).............((((.....)))))))))... ( -29.70)
>DroEre_CAF1 81288 99 - 1
---------GAAUCCCGCA--UUCUGCAUCCC-AAUCCUCGGCUGACAGGGCGGGGAUUACGCCUAAUAUGGUGUGAACAUUUAUUCAAAUGCUGCAGAAGCACUGCCACU
---------.......((.--(((((((....-..((((((.((....)).))))))(((((((......))))))).(((((....))))).)))))))))......... ( -32.90)
>DroYak_CAF1 91650 92 - 1
-------------------AGUUCUGUAUCCCGAAUCCUGGGCUGACAGGGCAGGGAUUACGCUUAAUGCGGUGUGAACAUUUAUUUAAAUGCUUUAAAAGCACUGCCACU
-------------------....((((..((((.....))))...))))(((((...(((((((......))))))).............((((.....)))))))))... ( -27.00)
>consensus
CUGUAUCCAGAAUCCUGCA__UUCUGUAUCCCGAAUCCUGGGUUGACAGGGCAGGGAUUACGCUUAAUAUGGUGUGAACAUUUAUUUAAAUGCUUUAAAAGCACUGCCAUU
.......................((((..((((.....))))...))))(((((...(((((((......))))))).............((((.....)))))))))... (-25.42 = -25.50 +   0.08)

alignment

secondary structure

dotplot

Window 1

Location	14,374,013 – 14,374,114
Length	101
Sequences	4
Columns	109
Reading direction	reverse
Mean pairwise identity	80.48
Mean single sequence MFE	-31.70
Consensus MFE	-24.35
Energy contribution	-23.98
Covariance contribution	-0.38
Combinations/Pair	1.24
Mean z-score	-1.57
Structure conservation index	0.77
SVM decision value	0.21
SVM RNA-class probability	0.636913
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14374013 101 - 22224390
UGACCA--AAGU------UCUGGACCGAAGUUCUGUAUCCAGAAUCCUGUAUUCUGUAUCCCGAAUCCUGGGUUGACAGGGCAGGGAUUACGCUUAAUAUGGUGUGAAC
......--..((------((((((.............))))))))(((((..(((((..((((.....))))...))))))))))..(((((((......))))))).. ( -31.52)
>DroSec_CAF1 90176 101 - 1
UGACCA--AAGU------CCAGGACCGAAGUUCUGUAUCCAGAAUCCUGCAUUCUGUAUCCCGAAUCCCGGGUUGACAGGGCAGGGAUUAUGCUUAAUAUGGUGUGAAC
.(((..--..))------)((((((....)))))).........((((((...((((..((((.....))))...)))).)))))).(((((((......))))))).. ( -31.80)
>DroSim_CAF1 84315 101 - 1
UGACCA--AAGU------CCUGGACCGAAGUUCUGUAUCCAGAAUCCUGCAUUCUGUAUCCCGAAUCCCGGGUUGACAGGGCAGGGAUUAUGCUUAAUAUGGUGUGAAC
...(((--....------..)))......((((((....))))))(((((...((((..((((.....))))...)))).)))))..(((((((......))))))).. ( -31.10)
>DroEre_CAF1 81320 95 - 1
UGGCUAGGAGCUCUGCAUCCAGAAUCCA-------------GAAUCCCGCAUUCUGCAUCCC-AAUCCUCGGCUGACAGGGCGGGGAUUACGCCUAAUAUGGUGUGAAC
......(((..((((....)))).))).-------------...((((((...(((((.((.-.......)).)).))).)))))).(((((((......))))))).. ( -32.40)
>consensus
UGACCA__AAGU______CCAGGACCGAAGUUCUGUAUCCAGAAUCCUGCAUUCUGUAUCCCGAAUCCCGGGUUGACAGGGCAGGGAUUACGCUUAAUAUGGUGUGAAC
............................................((((((...((((..((((.....))))...)))).)))))).(((((((......))))))).. (-24.35 = -23.98 +  -0.38)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:53 2006