Locus 7671

Sequence ID	3L_DroMel_CAF1
Location	20,577,453 – 20,577,570
Length	117
Max. P	0.993782

overview

Window 7

Location	20,577,453 – 20,577,570
Length	117
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.32
Mean single sequence MFE	-37.38
Consensus MFE	-31.46
Energy contribution	-32.94
Covariance contribution	1.48
Combinations/Pair	1.05
Mean z-score	-2.29
Structure conservation index	0.84
SVM decision value	2.42
SVM RNA-class probability	0.993782
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20577453 117 + 23771897
GUCAUGGCCACACUUGAUUAAUUCCAUAAAAGGAUUACGAAAGUC---GGCCGGUUAUUAGAUAACUUCCGCAUGAGGAUAUCGCGCUGAUGAAGUCAUCAGCGUGUCCGAAAUGCUGAG
.....((((..((((...((((.((......))))))...)))).---))))((((((...))))))((.((((..(((...((((((((((....)))))))))))))...)))).)). ( -40.50)
>DroSec_CAF1 22209 117 + 1
GUCAUGGCCACACUUAAUUAAUUCCAUAAAAGGAUUACGAGAGUC---GGCCGGUUAUUAGAUAACUUCCGCAUGAGGAUAUCGCGCUGAUGAAGUCAUCAGCGUGUCCGAAAUGCUGAG
.....((((((.(((...((((.((......)))))).))).)).---))))((((((...))))))((.((((..(((...((((((((((....)))))))))))))...)))).)). ( -40.00)
>DroAna_CAF1 43853 115 + 1
GUCAUGGCCACACUUGAUUAAUUCCAUAAAAGGAUUAUGAGAGUCGUCGCCCGGUUAUUAGAUAACUUCCGUAUAGCGAU--CG---AGAUGAAGUCAUCAGCGUGUCCGAAAUGCUGAG
....((((..(((((((((...(((......))).((((..(((..((............))..)))..))))....)))--))---)).))..))))(((((((.......))))))). ( -29.90)
>DroSim_CAF1 15744 117 + 1
GUCAUGGCCACACUUGAUUAAUUCCAUAAAAGGAUUACGAGAGUC---GGCCGGUUAUUAGAUAACUUCCGCAUGAGGAUAUCGCGCUGAUGAAGUCAUCAGCGUGUCCGAAAUGCUGAG
.....((((((.((((..((((.((......)))))))))).)).---))))((((((...))))))((.((((..(((...((((((((((....)))))))))))))...)))).)). ( -42.20)
>DroEre_CAF1 15554 117 + 1
GUCAUGGCCACACUUGAUUAAUUCCAUAAAAGGAUUACGAGAGCC---GGCCGGUUAUUAGAUAACUUCCGCAGGAGGAUAUCGCGCCGAUGAAGUCAUCAGCGUGUCCGAAAUGCUGAG
.((((((((.(.((((..((((.((......)))))))))).)..---))))(((.....((((.(((((...))))).))))..))).)))).....(((((((.......))))))). ( -34.30)
>consensus
GUCAUGGCCACACUUGAUUAAUUCCAUAAAAGGAUUACGAGAGUC___GGCCGGUUAUUAGAUAACUUCCGCAUGAGGAUAUCGCGCUGAUGAAGUCAUCAGCGUGUCCGAAAUGCUGAG
.....((((..((((...((((.((......))))))...))))....))))((((((...))))))((.((((..(((...((((((((((....)))))))))))))...)))).)). (-31.46 = -32.94 +   1.48)

alignment

secondary structure

dotplot

Window 8

Location	20,577,453 – 20,577,570
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.32
Mean single sequence MFE	-33.64
Consensus MFE	-25.92
Energy contribution	-26.48
Covariance contribution	0.56
Combinations/Pair	1.10
Mean z-score	-2.06
Structure conservation index	0.77
SVM decision value	0.74
SVM RNA-class probability	0.838193
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20577453 117 - 23771897
CUCAGCAUUUCGGACACGCUGAUGACUUCAUCAGCGCGAUAUCCUCAUGCGGAAGUUAUCUAAUAACCGGCC---GACUUUCGUAAUCCUUUUAUGGAAUUAAUCAAGUGUGGCCAUGAC
.((.((((...((((.((((((((....)))))))).)...)))..)))).)).(((((...))))).((((---(((((...((((((......)).))))...)))).)))))..... ( -36.40)
>DroSec_CAF1 22209 117 - 1
CUCAGCAUUUCGGACACGCUGAUGACUUCAUCAGCGCGAUAUCCUCAUGCGGAAGUUAUCUAAUAACCGGCC---GACUCUCGUAAUCCUUUUAUGGAAUUAAUUAAGUGUGGCCAUGAC
.((.((((...((((.((((((((....)))))))).)...)))..)))).)).(((((...))))).((((---((((....((((((......)).))))....))).)))))..... ( -35.20)
>DroAna_CAF1 43853 115 - 1
CUCAGCAUUUCGGACACGCUGAUGACUUCAUCU---CG--AUCGCUAUACGGAAGUUAUCUAAUAACCGGGCGACGACUCUCAUAAUCCUUUUAUGGAAUUAAUCAAGUGUGGCCAUGAC
...........((.(((((((((...(((...(---((--.(((((...(((..(((....)))..)))))))))))....(((((.....))))))))...))).)))))).))..... ( -28.10)
>DroSim_CAF1 15744 117 - 1
CUCAGCAUUUCGGACACGCUGAUGACUUCAUCAGCGCGAUAUCCUCAUGCGGAAGUUAUCUAAUAACCGGCC---GACUCUCGUAAUCCUUUUAUGGAAUUAAUCAAGUGUGGCCAUGAC
.((.((((...((((.((((((((....)))))))).)...)))..)))).)).(((((...))))).((((---((((....((((((......)).))))....))).)))))..... ( -35.20)
>DroEre_CAF1 15554 117 - 1
CUCAGCAUUUCGGACACGCUGAUGACUUCAUCGGCGCGAUAUCCUCCUGCGGAAGUUAUCUAAUAACCGGCC---GGCUCUCGUAAUCCUUUUAUGGAAUUAAUCAAGUGUGGCCAUGAC
.(((.......((...((((((((....)))))))).((((.(.(((...))).).))))......))((((---((((....((((((......)).))))....))).))))).))). ( -33.30)
>consensus
CUCAGCAUUUCGGACACGCUGAUGACUUCAUCAGCGCGAUAUCCUCAUGCGGAAGUUAUCUAAUAACCGGCC___GACUCUCGUAAUCCUUUUAUGGAAUUAAUCAAGUGUGGCCAUGAC
.(((.......((.(.((((((((....)))))))).)..........((....))..........))((((....(((....((((((......)).))))....)))..)))).))). (-25.92 = -26.48 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:20 2006