Locus 4020

Sequence ID	X_DroMel_CAF1
Location	10,634,650 – 10,634,768
Length	118
Max. P	0.992895

overview

Window 5

Location	10,634,650 – 10,634,768
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.79
Mean single sequence MFE	-26.94
Consensus MFE	-22.86
Energy contribution	-23.30
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-2.36
Structure conservation index	0.85
SVM decision value	2.36
SVM RNA-class probability	0.992895
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10634650 118 + 22224390
UAAUGUAGAUACAAUGUACAGUGUAGAUACAUCUGGUGUCGUCACAUCAUCCUCAU--GUAGAUUAUGUGUAGAUUAAAUGAACUUAACAGUAAAAUGUAGACGACGCAAAAAAAAGCUC
..(((((..((((........))))..)))))...((((((((.(((.(((..(((--(((...))))))..)))...)))......(((......))).))))))))............ ( -25.70)
>DroSec_CAF1 16365 118 + 1
UAAUGUAGAUACAAUGUACAGUGUAGAUACAUCUGGUGUCGUCACAUCAUCCUCAU--GUAGAUUAUGUGUAGAUUAAAUGAACUUAACAGUAAAAUGUAGACGACGCAAAAAAAAGCUC
..(((((..((((........))))..)))))...((((((((.(((.(((..(((--(((...))))))..)))...)))......(((......))).))))))))............ ( -25.70)
>DroEre_CAF1 17015 118 + 1
UAAUGUAGAUACAAUGUACAAUGUAGAUACAUCCUGUGUCGUCACAUCAUCCUCAU--GUAGAUUAUGUGUAGAUUAAAUGAACUUAACAGUAAAAUGUAGACGACGCAAAAAAAAGCUC
..(((((..((((........))))..)))))..(((((((((.(((.(((..(((--(((...))))))..)))...)))......(((......))).)))))))))........... ( -26.50)
>DroYak_CAF1 16627 118 + 1
UAAUGUAGAUACAAUGUACAAUGUAGAUACAUCCUGUGUCGUCACAUCAUUCUCAU--GUAGAUUAUGUGUAGAUUAAAUGAACUUAACAGUAAAAUGUAGACGACGCAAAAAAAAGCUC
..(((((..((((........))))..)))))..(((((((((...((((((((((--(((...)))))).)))....)))).....(((......))).)))))))))........... ( -26.80)
>DroAna_CAF1 24529 120 + 1
UAAUGUAGAUACAAUGUACAAUGUAGAUACAUCCUGUGUCGUCACAUCAUCCUCAUGUGUAGAUUAUGUGUAGAUUAAAUGACCUUACGUGUAAAAUGUAGACGACGCAAAAAAAAGCUA
..(((((..((((........))))..)))))..(((((((((.(((.(((..((((((.....))))))..)))...)))....(((((.....))))))))))))))........... ( -30.00)
>consensus
UAAUGUAGAUACAAUGUACAAUGUAGAUACAUCCUGUGUCGUCACAUCAUCCUCAU__GUAGAUUAUGUGUAGAUUAAAUGAACUUAACAGUAAAAUGUAGACGACGCAAAAAAAAGCUC
..(((((..((((........))))..)))))...((((((((((((.(((..(....)..))).))))..................(((......))).))))))))............ (-22.86 = -23.30 +   0.44)

alignment

secondary structure

dotplot

Window 6

Location	10,634,650 – 10,634,768
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.79
Mean single sequence MFE	-24.56
Consensus MFE	-22.90
Energy contribution	-23.30
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.61
Structure conservation index	0.93
SVM decision value	1.86
SVM RNA-class probability	0.980452
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10634650 118 - 22224390
GAGCUUUUUUUUGCGUCGUCUACAUUUUACUGUUAAGUUCAUUUAAUCUACACAUAAUCUAC--AUGAGGAUGAUGUGACGACACCAGAUGUAUCUACACUGUACAUUGUAUCUACAUUA
..((........))((((((.((((...(((....)))..............(((..((...--..))..)))))))))))))....((((((..((((........))))..)))))). ( -23.90)
>DroSec_CAF1 16365 118 - 1
GAGCUUUUUUUUGCGUCGUCUACAUUUUACUGUUAAGUUCAUUUAAUCUACACAUAAUCUAC--AUGAGGAUGAUGUGACGACACCAGAUGUAUCUACACUGUACAUUGUAUCUACAUUA
..((........))((((((.((((...(((....)))..............(((..((...--..))..)))))))))))))....((((((..((((........))))..)))))). ( -23.90)
>DroEre_CAF1 17015 118 - 1
GAGCUUUUUUUUGCGUCGUCUACAUUUUACUGUUAAGUUCAUUUAAUCUACACAUAAUCUAC--AUGAGGAUGAUGUGACGACACAGGAUGUAUCUACAUUGUACAUUGUAUCUACAUUA
..((........))((((((.((((...(((....)))..............(((..((...--..))..)))))))))))))....((((((..((((........))))..)))))). ( -24.90)
>DroYak_CAF1 16627 118 - 1
GAGCUUUUUUUUGCGUCGUCUACAUUUUACUGUUAAGUUCAUUUAAUCUACACAUAAUCUAC--AUGAGAAUGAUGUGACGACACAGGAUGUAUCUACAUUGUACAUUGUAUCUACAUUA
..((........))((((((.((((...(((....)))..............(((..((...--..))..)))))))))))))....((((((..((((........))))..)))))). ( -23.90)
>DroAna_CAF1 24529 120 - 1
UAGCUUUUUUUUGCGUCGUCUACAUUUUACACGUAAGGUCAUUUAAUCUACACAUAAUCUACACAUGAGGAUGAUGUGACGACACAGGAUGUAUCUACAUUGUACAUUGUAUCUACAUUA
..((........))((((((.((((.......(((.(((......)))))).(((..((.......))..)))))))))))))....((((((..((((........))))..)))))). ( -26.20)
>consensus
GAGCUUUUUUUUGCGUCGUCUACAUUUUACUGUUAAGUUCAUUUAAUCUACACAUAAUCUAC__AUGAGGAUGAUGUGACGACACAGGAUGUAUCUACAUUGUACAUUGUAUCUACAUUA
..((........))((((((.((((......((((((....)))))).....(((..((.......))..)))))))))))))....((((((..((((........))))..)))))). (-22.90 = -23.30 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:23 2006