Locus 8213

Sequence ID	X_DroMel_CAF1
Location	20,416,251 – 20,416,349
Length	98
Max. P	0.999027

overview

Window 5

Location	20,416,251 – 20,416,349
Length	98
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	89.76
Mean single sequence MFE	-32.96
Consensus MFE	-25.20
Energy contribution	-25.20
Covariance contribution	-0.00
Combinations/Pair	1.16
Mean z-score	-1.99
Structure conservation index	0.76
SVM decision value	0.80
SVM RNA-class probability	0.855241
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20416251 98 + 22224390
-------------AAUGGGAAUGGGGAUGGGGAUGGGAUGCAGAUUCACAUCCCAGCGGAACGCAAUUUGCGUUGCACUUUUCAAUUUCCGGCAAAGGACUUCAUCACCAC
-------------..(((..((((((.((..(((((((((........)))))))..(.(((((.....))))).)..))..))...(((......)))))))))..))). ( -34.60)
>DroSec_CAF1 4997 99 + 1
------------UUAUGGGACUGGGAAUGGGGAUGGGAUGCAGAUUCACAUCCCAGCGGAACGCAAUUUGCGUUGCACUUUUCAAUUUCCGGCAAAGGACUUCAUCACCAC
------------...((((.(((((((((..(((((((((........)))))))..(.(((((.....))))).)..))..).)))))))))....((.....)).))). ( -31.60)
>DroSim_CAF1 2030 111 + 1
GAGUGGCGCUGGUUAUGGGACUGGGAAUGGGGAUGGGAUGCAGAUUCACAUCCCAGCGGAACGCAAUUUGCGUUGCACUUUUCAAUUUCCGGCAAAGGACUUCAUCACCAC
..((((.(..((((....(.(((((((((..(((((((((........)))))))..(.(((((.....))))).)..))..).)))))))))....))))....).)))) ( -38.40)
>DroEre_CAF1 4900 98 + 1
-------------AAUUGGGAUGAGAAUGGGGAUAGGAUGCAGAUUCACAUCCCCGCGGAACGCAAUUUGCAUUGCACUUUUCAAUUUCCGGCAAAGGACUUCAUCACCAC
-------------...(((((((((((.((((((..((.......))..)))))).......(((((....)))))....)))....(((......)))..))))).))). ( -28.30)
>DroYak_CAF1 1616 98 + 1
-------------AAUGGGAAUGGAAAUGGAAAUGGGAUGCAGAUUCACAUCCCAGCGGAACGCAAUUUGCGUUGCACUUUUCAAUUUCCGGCAAAGGACUUCAUCACCAC
-------------..(((..(((((..(((((((((((((........)))))))..(.(((((.....))))).)..))))))...(((......))).)))))..))). ( -31.90)
>consensus
_____________AAUGGGAAUGGGAAUGGGGAUGGGAUGCAGAUUCACAUCCCAGCGGAACGCAAUUUGCGUUGCACUUUUCAAUUUCCGGCAAAGGACUUCAUCACCAC
...............(((((.((((..(((((((((((((........)))))))..(.(((((.....))))).)..))))))...(((......))).)))))).))). (-25.20 = -25.20 +  -0.00)

alignment

secondary structure

dotplot

Window 6

Location	20,416,251 – 20,416,349
Length	98
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	89.76
Mean single sequence MFE	-33.34
Consensus MFE	-28.84
Energy contribution	-28.40
Covariance contribution	-0.44
Combinations/Pair	1.15
Mean z-score	-2.66
Structure conservation index	0.87
SVM decision value	3.33
SVM RNA-class probability	0.999027
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20416251 98 - 22224390
GUGGUGAUGAAGUCCUUUGCCGGAAAUUGAAAAGUGCAACGCAAAUUGCGUUCCGCUGGGAUGUGAAUCUGCAUCCCAUCCCCAUCCCCAUUCCCAUU-------------
((((.((((...(((......)))........((((.(((((.....))))).))))(((((((......))))))).....)))).)))).......------------- ( -32.30)
>DroSec_CAF1 4997 99 - 1
GUGGUGAUGAAGUCCUUUGCCGGAAAUUGAAAAGUGCAACGCAAAUUGCGUUCCGCUGGGAUGUGAAUCUGCAUCCCAUCCCCAUUCCCAGUCCCAUAA------------
.(((..(((...(((......)))........((((.(((((.....))))).))))(((((((......))))))).....)))..))).........------------ ( -30.80)
>DroSim_CAF1 2030 111 - 1
GUGGUGAUGAAGUCCUUUGCCGGAAAUUGAAAAGUGCAACGCAAAUUGCGUUCCGCUGGGAUGUGAAUCUGCAUCCCAUCCCCAUUCCCAGUCCCAUAACCAGCGCCACUC
((((((.((...(((......))).((((...((((.(((((.....))))).))))(((((((......)))))))...........))))........)).)))))).. ( -35.70)
>DroEre_CAF1 4900 98 - 1
GUGGUGAUGAAGUCCUUUGCCGGAAAUUGAAAAGUGCAAUGCAAAUUGCGUUCCGCGGGGAUGUGAAUCUGCAUCCUAUCCCCAUUCUCAUCCCAAUU-------------
.(((.(((((........((.(((((((....)))(((((....))))).))))))(((((((.((.......)).)))))))....))))))))...------------- ( -32.30)
>DroYak_CAF1 1616 98 - 1
GUGGUGAUGAAGUCCUUUGCCGGAAAUUGAAAAGUGCAACGCAAAUUGCGUUCCGCUGGGAUGUGAAUCUGCAUCCCAUUUCCAUUUCCAUUCCCAUU-------------
..((..(.(.....).)..))((((((.((((((((.(((((.....))))).))))(((((((......))))))).)))).)))))).........------------- ( -35.60)
>consensus
GUGGUGAUGAAGUCCUUUGCCGGAAAUUGAAAAGUGCAACGCAAAUUGCGUUCCGCUGGGAUGUGAAUCUGCAUCCCAUCCCCAUUCCCAUUCCCAUU_____________
.(((.((((...(((......)))........((((.(((((.....))))).))))(((((((......))))))).....)))).)))..................... (-28.84 = -28.40 +  -0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:34 2006