Locus 3452

Sequence ID X_DroMel_CAF1
Location 9,247,551 – 9,247,643
Length 92
Max. P 0.960451
window5654

overview

Window 4

Location 9,247,551 – 9,247,643
Length 92
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 70.03
Mean single sequence MFE -23.05
Consensus MFE -16.30
Energy contribution -18.18
Covariance contribution 1.88
Combinations/Pair 1.06
Mean z-score -1.58
Structure conservation index 0.71
SVM decision value 1.51
SVM RNA-class probability 0.960451
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9247551 92 - 22224390
UUUGAAGCGCUUUCCUUCGCUUUUCCAGGGACAUUCCCGCACCCCAACCAC-------------ACCUCAC--CGCCCCCCUGGGGGGCAUUCCGCU-UUGCAUGCCA
...((((((........))))))....(((.....)))(((..........-------------.......--.((((((...)))))).....((.-..)).))).. ( -24.70)
>DroSec_CAF1 30169 90 - 1
UUUGAAGCGCUUUCCUCGGCUUUUCCAGGGACAUUCCCGCACCCACACCUC-------------ACCUCAC--CGCCCCCU--GGGGGCAUUCCGCU-UUGCAUUCCA
...(((((((.......((.....)).(((.....)))))...........-------------.......--.(((((..--.))))).....)))-))........ ( -22.60)
>DroEre_CAF1 35601 103 - 1
UUUGAAGCGCUUUCCUCCGCUUUUCCAGGGACAUUCCCGCAUCCCCAUCCCCCAUAUCCCAACCCCCGCAC--CGCCCCCU--GGGGGCAUUCCGCU-UUGCAUGCCA
...((((((........))))))....(((.....)))((((.....................(((((...--.......)--))))(((.......-.))))))).. ( -22.30)
>DroAna_CAF1 36504 85 - 1
AGGGA--CUCCCUCCCCCUCAAUGCCAG-GACAU-----CAUUCCAGUCCC-------------GUUUUCUCUCGCCCCUU--GGGGGCGUUCCGCUCUUGCAUGCCA
.((((--.....)))).....((((..(-(((..-----.......)))).-------------.........((((((..--.))))))..........)))).... ( -22.60)
>consensus
UUUGAAGCGCUUUCCUCCGCUUUUCCAGGGACAUUCCCGCACCCCAACCCC_____________ACCUCAC__CGCCCCCU__GGGGGCAUUCCGCU_UUGCAUGCCA
...((((((........))))))....(((.....)))....................................((((((...)))))).....((....))...... (-16.30 = -18.18 +   1.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:48 2006