Locus 2023

Sequence ID 3R_DroMel_CAF1
Location 5,738,328 – 5,738,427
Length 99
Max. P 0.789403
window3318

overview

Window 8

Location 5,738,328 – 5,738,427
Length 99
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -26.80
Consensus MFE -21.18
Energy contribution -21.58
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.77
Structure conservation index 0.79
SVM decision value 0.58
SVM RNA-class probability 0.789403
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5738328 99 + 27905053
UUCCACUUCAAUUAGCCUUUUACUCGGCGGCUAAAAGAGAAGCGCCUGCAUUUCGCCUGUUUUCGUUGUGGGUUUAUUACCA---------AAUUGGAGUGCGUUAAU
...((((((((((.(((........)))((.(((..((((.((....)).))))(((..(.......)..)))...))))).---------))))))))))....... ( -24.80)
>DroSec_CAF1 29856 98 + 1
UUCCACUUCAAUUAGCCUUUUAGUGGGCGGCUAAAACAGAAGCGCCUGCAUUUCGCCUGUUUUCGUUGUG-GUUUAUUACCA---------AAUUGGAGUGCGUUAAU
...((((((((((.((((......))))(((.(((((((..(((.........)))))))))).))).((-((.....))))---------))))))))))....... ( -28.40)
>DroSim_CAF1 30461 98 + 1
UUCCACUUCAAUUAGCCUUUUACUCGGCGGCUAAAACAGAAGCGCCUGCAUUUCGCCUGUUUUCGUUGUG-GUUUAUUACCA---------AAUUGGAGUGCGUUAAU
...((((((((((.(((........)))(((.(((((((..(((.........)))))))))).))).((-((.....))))---------))))))))))....... ( -26.70)
>DroEre_CAF1 25485 98 + 1
UUCCACUUCAAUUAGCCUUUUGCUCGUCGGCCAAAACAGAAGCGCCUGCAUUUCGCCUGUUUUCGUUGUG-GUUUAUUACCA---------AAUUGGAGUGCGUUAAU
...(((((((((((((.....)))...((((.(((((((..(((.........)))))))))).))))((-((.....))))---------))))))))))....... ( -24.40)
>DroYak_CAF1 13299 107 + 1
UUCCACUUCAAUUAGCCUUUUACUCGGCGGCUAAAACAGAAGCGGCUGCAUUUCGCCUGUUUUCGUUGUG-GUUUAUUACCAAAUUGACCAAAUUGGAGUGCGUUAAU
...((((((((((.(((........)))((.((((((..(((((((........))).))))..))).((-((.....))))..))).)).))))))))))....... ( -29.70)
>consensus
UUCCACUUCAAUUAGCCUUUUACUCGGCGGCUAAAACAGAAGCGCCUGCAUUUCGCCUGUUUUCGUUGUG_GUUUAUUACCA_________AAUUGGAGUGCGUUAAU
...((((((((((.(((........)))(((.(((((((..(((.........)))))))))).)))........................))))))))))....... (-21.18 = -21.58 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:31 2006