Locus 7534

Sequence ID	X_DroMel_CAF1
Location	18,807,319 – 18,807,412
Length	93
Max. P	0.994309

overview

Window 4

Location	18,807,319 – 18,807,412
Length	93
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	98.27
Mean single sequence MFE	-30.02
Consensus MFE	-28.92
Energy contribution	-28.80
Covariance contribution	-0.12
Combinations/Pair	1.07
Mean z-score	-1.65
Structure conservation index	0.96
SVM decision value	1.70
SVM RNA-class probability	0.973055
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18807319 93 + 22224390
GUGGCAUGCCUUGACUGCUGCCUUUAGCCCUGAUACGCCACUGAGUAGCAGAUUAGUAGCGCUUAUGCUUGCACCUACUACGUGGCAGCUCCA
(..((.((((.((.((((((((....((........))....).)))))))..((((((.((........))..)))))))).))))))..). ( -29.30)
>DroSec_CAF1 44807 92 + 1
GUGGCAUGCCUCGACUGCUGCCUUUAGC-CUGAUACGCCACUGAGUAGCAGAUUAGUAGCGCUUAUGCUUGCACCUACUACGUGGCAGCUCCA
(..((.((((.((.((((((((....((-.......))....).)))))))..((((((.((........))..)))))))).))))))..). ( -31.40)
>DroSim_CAF1 28868 92 + 1
GUGGCAUGCCUCGACUGCUGCCUUUAGC-CUGAUACGCCACUGAGUAGCAGAUUAGUAGCGCUUAUGCUUGCACCUACUACGUGGCAGCUCCA
(..((.((((.((.((((((((....((-.......))....).)))))))..((((((.((........))..)))))))).))))))..). ( -31.40)
>DroEre_CAF1 43102 92 + 1
GUAGCAUGCCUCGACUUCUGCCUUUAGC-CUGAUACGCCACUGAGUAGCAGAUUAGUAGCGCUUAUGCUUGCACCUACUACGUGGCAGCUCCA
(.(((.((((.((...(((((.(((((.-.((......)))))))..))))).((((((.((........))..)))))))).))))))).). ( -26.60)
>DroYak_CAF1 43398 92 + 1
GUGGCAUGCCUCGACUGCUGCCUUUAGC-CUGAUACGCCACUGAGUAGCAGAUUAGUAGCGCUUAUGCUUGCACCUACUACGUGGCAGCUCCA
(..((.((((.((.((((((((....((-.......))....).)))))))..((((((.((........))..)))))))).))))))..). ( -31.40)
>consensus
GUGGCAUGCCUCGACUGCUGCCUUUAGC_CUGAUACGCCACUGAGUAGCAGAUUAGUAGCGCUUAUGCUUGCACCUACUACGUGGCAGCUCCA
(.(((.((((.((.((((((((....((........))....).)))))))..((((((.((........))..)))))))).))))))).). (-28.92 = -28.80 +  -0.12)

alignment

secondary structure

dotplot

Window 5

Location	18,807,319 – 18,807,412
Length	93
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	98.27
Mean single sequence MFE	-32.56
Consensus MFE	-31.08
Energy contribution	-31.12
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.94
Structure conservation index	0.95
SVM decision value	2.47
SVM RNA-class probability	0.994309
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18807319 93 - 22224390
UGGAGCUGCCACGUAGUAGGUGCAAGCAUAAGCGCUACUAAUCUGCUACUCAGUGGCGUAUCAGGGCUAAAGGCAGCAGUCAAGGCAUGCCAC
(((.((((((..(((((((((...(((......)))....)))))))))....((((........))))..)))))).((....))...))). ( -33.30)
>DroSec_CAF1 44807 92 - 1
UGGAGCUGCCACGUAGUAGGUGCAAGCAUAAGCGCUACUAAUCUGCUACUCAGUGGCGUAUCAG-GCUAAAGGCAGCAGUCGAGGCAUGCCAC
(((.((((((..(((((((((...(((......)))....)))))))))....((((.......-))))..)))))).((....))...))). ( -33.00)
>DroSim_CAF1 28868 92 - 1
UGGAGCUGCCACGUAGUAGGUGCAAGCAUAAGCGCUACUAAUCUGCUACUCAGUGGCGUAUCAG-GCUAAAGGCAGCAGUCGAGGCAUGCCAC
(((.((((((..(((((((((...(((......)))....)))))))))....((((.......-))))..)))))).((....))...))). ( -33.00)
>DroEre_CAF1 43102 92 - 1
UGGAGCUGCCACGUAGUAGGUGCAAGCAUAAGCGCUACUAAUCUGCUACUCAGUGGCGUAUCAG-GCUAAAGGCAGAAGUCGAGGCAUGCUAC
...(((((((.((((((((.(((........))))))))).((((((......((((.......-))))..))))))...)).)))).))).. ( -30.50)
>DroYak_CAF1 43398 92 - 1
UGGAGCUGCCACGUAGUAGGUGCAAGCAUAAGCGCUACUAAUCUGCUACUCAGUGGCGUAUCAG-GCUAAAGGCAGCAGUCGAGGCAUGCCAC
(((.((((((..(((((((((...(((......)))....)))))))))....((((.......-))))..)))))).((....))...))). ( -33.00)
>consensus
UGGAGCUGCCACGUAGUAGGUGCAAGCAUAAGCGCUACUAAUCUGCUACUCAGUGGCGUAUCAG_GCUAAAGGCAGCAGUCGAGGCAUGCCAC
(((.((((((..(((((((((...(((......)))....)))))))))....((((........))))..)))))).((....))...))). (-31.08 = -31.12 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:22 2006