Locus 95

Sequence ID	3L_DroMel_CAF1
Location	344,969 – 345,168
Length	199
Max. P	0.962603

overview

Window 3

Location	344,969 – 345,089
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	92.72
Mean single sequence MFE	-31.30
Consensus MFE	-28.16
Energy contribution	-27.17
Covariance contribution	-0.99
Combinations/Pair	1.13
Mean z-score	-2.87
Structure conservation index	0.90
SVM decision value	1.54
SVM RNA-class probability	0.962603
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 344969 120 - 23771897
ACAAAAAUUGGCAUUACGCAGAAAAAAAACUUUUCAUCACAAAAUAACUGAUAGCGAACAGCUGUUGCUGUACACAGUGUGGCAGCGGUGUUUGCACAACUAUAUUCGGUCACACUGUCG
................(((.(((((.....)))))((((.........)))).))).(((((....)))))..((((((((((((..(((....)))..)).......)))))))))).. ( -30.71)
>DroSec_CAF1 17548 117 - 1
ACAA---UAUGCAUUACGCAGAAAAACAACUUUUCCUCACAAAAUAACUGAUAGCGAACAGCUGUUGCUGUACACAGUGUGGCAGCACUGUUUGCACAACCAUAUUGGGUCACACUGUAU
.(((---((((.........(((((.....)))))..................((((((((.((((((..(((...)))..)))))))))))))).....)))))))............. ( -32.50)
>DroSim_CAF1 17126 117 - 1
ACAA---UAUGCAUUACGCAGAAAAACAACUUUUCCUCACAAAAUAACUGAUAGCGAACAGCUGUUGCUGUACACAGUGUGGCAGCACUGUUUGCACAACCAUAUUCGGUCACACUGUAU
....---..........((((................................((((((((.((((((..(((...)))..))))))))))))))...(((......)))....)))).. ( -30.70)
>consensus
ACAA___UAUGCAUUACGCAGAAAAACAACUUUUCCUCACAAAAUAACUGAUAGCGAACAGCUGUUGCUGUACACAGUGUGGCAGCACUGUUUGCACAACCAUAUUCGGUCACACUGUAU
........(((((.......(((((.....)))))..................((((((((.((((((..(((...)))..))))))))))))))...(((......))).....))))) (-28.16 = -27.17 +  -0.99)

alignment

secondary structure

dotplot

Window 4

Location	345,049 – 345,168
Length	119
Sequences	3
Columns	119
Reading direction	reverse
Mean pairwise identity	87.90
Mean single sequence MFE	-29.77
Consensus MFE	-25.50
Energy contribution	-26.17
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-1.59
Structure conservation index	0.86
SVM decision value	-0.03
SVM RNA-class probability	0.517761
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 345049 119 - 23771897
AGUUGAUUCCCGGUGCCGGAUUCCGGUUGCCGGUUGCCGGUUUUCCGCUUCCUGGGCACACGCCUCUUAAUUCCGCAUCACAAAAAUUGGCAUUACGCAGAAAAAAAACUUUUCAUCAC
.((..(((...(((((.(((...(((..(((((...)))))...)))..))).((((....)))).........))))).....)))..))........(((((.....)))))..... ( -31.40)
>DroSec_CAF1 17628 109 - 1
AGUUGCUACCCGGUGCCGGAUUCCGGUU-------GCCGGUUUUCCGCUUCCUGGGAACUAGCCUUUUAACUCCGCAUCACAA---UAUGCAUUACGCAGAAAAACAACUUUUCCUCAC
(((((....((((((((((...)))).)-------)))))(((((.((......(((..(((....)))..)))((((.....---.)))).....)).))))).)))))......... ( -27.40)
>DroSim_CAF1 17206 109 - 1
AGUUGCUACCCGGUGCCGGAUUCCGGUU-------GCCGGUUUUCCGCUUCCUGGGCACUAGCCUUUUAACUCCGCAUCACAA---UAUGCAUUACGCAGAAAAACAACUUUUCCUCAC
(((((....((((((((((...)))).)-------)))))(((((.((.....((((....)))).........((((.....---.)))).....)).))))).)))))......... ( -30.50)
>consensus
AGUUGCUACCCGGUGCCGGAUUCCGGUU_______GCCGGUUUUCCGCUUCCUGGGCACUAGCCUUUUAACUCCGCAUCACAA___UAUGCAUUACGCAGAAAAACAACUUUUCCUCAC
(((((......(((((((((..(((((........)))))...))))......((((....)))).........)))))..........((.....)).......)))))......... (-25.50 = -26.17 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:13 2006