Locus 360

Sequence ID 3L_DroMel_CAF1
Location 1,044,512 – 1,044,618
Length 106
Max. P 0.575987
window532

overview

Window 2

Location 1,044,512 – 1,044,618
Length 106
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 79.21
Mean single sequence MFE -32.95
Consensus MFE -20.69
Energy contribution -21.03
Covariance contribution 0.34
Combinations/Pair 1.31
Mean z-score -1.43
Structure conservation index 0.63
SVM decision value 0.08
SVM RNA-class probability 0.575987
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1044512 106 + 23771897
------------CACACAAGGCAGACUUCACUGCACUUGCCUUUGGC-UGAGCUUCUGUUUAGUUUCGGGUUUCGUCUCUGGACACUUUGUGGGAGUGACAGUGGCAGUUGCUAGUUGU
------------...(((((((((.(((((((((((((((((..(((-(((((....))))))))..))))...(((....))).........))))).)))))).)))))))..)))) ( -36.50)
>DroSec_CAF1 19197 106 + 1
------------CACAUUAGGCAGGCUUCACUGCACUUGCCUUUGGC-UGAGCUUCUGUUUAGUUUCGGGUUUCGUCUCUGGACACUUUGUGGGAGUGACAGUGGCAGUUGCUAGUUGU
------------.(((...(((((.(((((((((((((((((..(((-(((((....))))))))..))))...(((....))).........))))).)))))).)))))))...))) ( -36.70)
>DroSim_CAF1 19947 101 + 1
------------CACAUUAGGCAGGCUUCACUGCACUUGCCUUU------AGCUUCUGUUUAGUUUCGGGUUUCGUCUCUGGACACUUUGUGGGAGUGACAGUGGCAGUUGCUAGUUGU
------------.(((...(((((.(((((((((((((((((..------((((.......))))..))))...(((....))).........))))).)))))).)))))))...))) ( -29.90)
>DroEre_CAF1 22274 106 + 1
------------CACCCAAAGCAGGCUUCACUGCACUUGCCUUUGGC-UGGGUUCCUGUUUAGUUUCGGGUUUCCUCUCCGGACACUUUGCGGGAGUGACAGUGGCAGGUUGUAGUUGU
------------........((((......))))(((((((....((-((..(((((((..(((((((((.......)))))).)))..)))))))...)))))))))))......... ( -37.80)
>DroYak_CAF1 20079 106 + 1
------------CACCCAAAGCAGGCUUCACUGCACUUGCCUUUGGC-UGCGUUUCUGUUUAGUUUCGGGUUUCGUCUCUGGACACUUUGCAGGAGUGACAGUGGCAGGUUGUAGUUGU
------------........((((......))))(((((((....((-(((((((((((..(((.((.((........)).)).)))..))))))))).)))))))))))......... ( -35.40)
>DroAna_CAF1 17888 117 + 1
CUGAUCCCUUUCCUUUCUAUACAAUCCCUACUGUAA--CCCCUUGGCUUGAAUUUCUGAUCCAUUUCAGGUUCUGUCUCUGGACACUUUACGGCCCUGACAAUGGCAGAUUGUAGUUGU
...................(((((((.(((.(((..--......((((.((((..((((......))))))))((((....))))......))))...))).)))..)))))))..... ( -21.40)
>consensus
____________CACACAAGGCAGGCUUCACUGCACUUGCCUUUGGC_UGAGCUUCUGUUUAGUUUCGGGUUUCGUCUCUGGACACUUUGCGGGAGUGACAGUGGCAGUUGCUAGUUGU
....................((((......))))..(((((.(((......((((((((..(((((((((.......)))))).)))..))))))))..))).)))))........... (-20.69 = -21.03 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:03 2006