Locus 5646

Sequence ID 2L_DroMel_CAF1
Location 16,020,971 – 16,021,068
Length 97
Max. P 0.622673
window8954

overview

Window 4

Location 16,020,971 – 16,021,068
Length 97
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 77.24
Mean single sequence MFE -15.27
Consensus MFE -9.08
Energy contribution -9.17
Covariance contribution 0.08
Combinations/Pair 1.09
Mean z-score -1.51
Structure conservation index 0.59
SVM decision value 0.18
SVM RNA-class probability 0.622673
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16020971 97 + 22407834
UGAAACUGUCCAUUAACAGAAAAGAAAUAAAAGUUAAACAAGAACA-ACAGGGAAACAAUAAGGUGGACGGGCUGCAGAAA-AAAGUUGAAAUCCUUUA
((...(((((((((..................(((.......))).-....(....).....)))))))))....))....-................. ( -14.40)
>DroPse_CAF1 221358 87 + 1
GUAAACUGUCCAUUAAAAAAGGAGCAGUA--------ACAAUAUCG-ACGGGG--ACAAAAAGGUGGACAGCCGACAGGAA-AAAGUUGCAGUCCUUUA
....(((((((.........))).)))).--------.........-..((((--((.....(((.....)))(((.....-...)))...)))))).. ( -16.60)
>DroSec_CAF1 196712 98 + 1
UGAAACUGUCCAUUAACAGAAAAGAAAUAAAAGUUAAACAAGAACA-ACAGGGAAACAAUAAGGUGGACGGGCUGCAGAAAAAAAGUUGAAAUCCUUUA
((...(((((((((..................(((.......))).-....(....).....)))))))))....))...................... ( -14.40)
>DroSim_CAF1 200469 99 + 1
UGAAACUGUCCAUUAACAGAAAAGAAAUAAAAGUUAAACAAGAACAAACAGGGAAACAAUAAGGUGGACGGGCUGCAGAAAAAAAGUUGAAAUCCUUUA
((...(((((((((..................(((.......)))......(....).....)))))))))....))...................... ( -14.40)
>DroAna_CAF1 130329 94 + 1
CAAAACUGUCCAUUAACGGAAAAUAAACAAGAGUAAAAAA---GUA-ACGUGAAAACAAUAAGGUGGACAAGCUACGGCAA-AAAGUUGAAAUCCUUUA
...(((((((((((............((....))......---...-..((....)).....)))))))..((....))..-..))))........... ( -15.20)
>DroPer_CAF1 250842 87 + 1
GUAAACUGUCCAUUAAAAAAGGAGCAGUA--------ACAAUAUCG-ACGGGG--ACAAAAAGGUGGACAGCCGACAGGAA-AAAGUUGCAGUCCUUUA
....(((((((.........))).)))).--------.........-..((((--((.....(((.....)))(((.....-...)))...)))))).. ( -16.60)
>consensus
UGAAACUGUCCAUUAACAGAAAAGAAAUAAAAGUUAAACAAGAACA_ACAGGGAAACAAUAAGGUGGACAGGCUACAGAAA_AAAGUUGAAAUCCUUUA
.....(((((((((..............................(.....)(....).....)))))))))............................ ( -9.08 =  -9.17 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:17 2006