Locus 5210

Sequence ID	2L_DroMel_CAF1
Location	14,731,812 – 14,731,906
Length	94
Max. P	0.972186

overview

Window 5

Location	14,731,812 – 14,731,906
Length	94
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	82.96
Mean single sequence MFE	-26.88
Consensus MFE	-14.38
Energy contribution	-17.02
Covariance contribution	2.64
Combinations/Pair	1.17
Mean z-score	-2.69
Structure conservation index	0.53
SVM decision value	0.83
SVM RNA-class probability	0.862521
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14731812 94 + 22407834
UGAACGGAAUAGUUCUUUCUAUGCCAUCCCUAAGUGUUACACACUCAUGACUCUGACACCCAGU-UGGUGUCGGGUCGGGACUUUCCCGUAUCUU
.((((((.((((......))))....((((..((((.....))))...(((.((((((((....-.))))))))))))))).....)))).)).. ( -32.00)
>DroSec_CAF1 88665 95 + 1
UGGACUGAAUAGUUCUUUCUACGCCAUUCCUAAGUGUUACACACUCAUGACUCCGACACCCAGUUUGGUGUCGGGUCGGGACUUUCCCGUGUCUU
.(((.((..(((......)))...)).)))........((((......(((.((((((((......)))))))))))(((.....)))))))... ( -31.70)
>DroSim_CAF1 89362 95 + 1
UGAACUGAAUAGUUCUUUCUAUGCCAUCCCUAAGUGUUACACACUCAUGACUCCGACACCCAGUUUGGUGUCGGGUCGGGACUUUCCCGUAUCUU
.(((((....)))))...........((((..((((.....))))...(((.((((((((......))))))))))))))).............. ( -31.30)
>DroEre_CAF1 91801 73 + 1
----CCAAAUAGUGUCCUCGAUGCCAUCCCUAAGUGUUACAC---------------ACCCAGU-UGGUGUCGGGUCG--ACUUUCUCGUAUCUU
----.........(((((((((((((...((..(((.....)---------------))..)).-))))))))))..)--))............. ( -18.50)
>DroYak_CAF1 88479 91 + 1
UGAACUGAAUAGUUU-UUCUAUGUCAUCCCUAAGUGUUACACACUCAUGACUCUGACACCCAGU-UGGUGUGGGGUCG--ACUUUCCCGUAUCUU
.(((((....)))))-......(((.......((((.....))))...((((((.(((((....-.))))))))))))--))............. ( -20.90)
>consensus
UGAACUGAAUAGUUCUUUCUAUGCCAUCCCUAAGUGUUACACACUCAUGACUCCGACACCCAGU_UGGUGUCGGGUCGGGACUUUCCCGUAUCUU
.((((......))))................(((...(((........(((.((((((((......)))))))))))(((.....)))))).))) (-14.38 = -17.02 +   2.64)

alignment

secondary structure

dotplot

Window 6

Location	14,731,812 – 14,731,906
Length	94
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	82.96
Mean single sequence MFE	-30.72
Consensus MFE	-16.18
Energy contribution	-18.78
Covariance contribution	2.60
Combinations/Pair	1.15
Mean z-score	-3.38
Structure conservation index	0.53
SVM decision value	1.69
SVM RNA-class probability	0.972186
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14731812 94 - 22407834
AAGAUACGGGAAAGUCCCGACCCGACACCA-ACUGGGUGUCAGAGUCAUGAGUGUGUAACACUUAGGGAUGGCAUAGAAAGAACUAUUCCGUUCA
..((.((((((..(((((((((.((((((.-....)))))).).))).((((((.....)))))))))))....(((......))))))))))). ( -35.10)
>DroSec_CAF1 88665 95 - 1
AAGACACGGGAAAGUCCCGACCCGACACCAAACUGGGUGUCGGAGUCAUGAGUGUGUAACACUUAGGAAUGGCGUAGAAAGAACUAUUCAGUCCA
..(((.((((.....))))..((((((((......)))))))).))).((((((.....))))))(((.(((.((((......))))))).))). ( -38.50)
>DroSim_CAF1 89362 95 - 1
AAGAUACGGGAAAGUCCCGACCCGACACCAAACUGGGUGUCGGAGUCAUGAGUGUGUAACACUUAGGGAUGGCAUAGAAAGAACUAUUCAGUUCA
.........(...((((((((((((((((......)))))))).))).((((((.....)))))))))))..).......(((((....))))). ( -38.40)
>DroEre_CAF1 91801 73 - 1
AAGAUACGAGAAAGU--CGACCCGACACCA-ACUGGGU---------------GUGUAACACUUAGGGAUGGCAUCGAGGACACUAUUUGG----
......(.(((.(((--.(.(((((..(((-.((((((---------------(.....)))))))...)))..))).)).)))).))).)---- ( -18.90)
>DroYak_CAF1 88479 91 - 1
AAGAUACGGGAAAGU--CGACCCCACACCA-ACUGGGUGUCAGAGUCAUGAGUGUGUAACACUUAGGGAUGACAUAGAA-AAACUAUUCAGUUCA
..((.((..(((.((--((.(((.(((((.-....)))))........((((((.....))))))))).)))).(((..-...)))))).)))). ( -22.70)
>consensus
AAGAUACGGGAAAGUCCCGACCCGACACCA_ACUGGGUGUCAGAGUCAUGAGUGUGUAACACUUAGGGAUGGCAUAGAAAGAACUAUUCAGUUCA
......((((.....)))).(((((((((......)))))).......((((((.....))))))))).(((.((((......)))))))..... (-16.18 = -18.78 +   2.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:45 2006