Locus 456

Sequence ID X_DroMel_CAF1
Location 1,340,610 – 1,340,719
Length 109
Max. P 0.615043
window699

overview

Window 9

Location 1,340,610 – 1,340,719
Length 109
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 80.79
Mean single sequence MFE -36.18
Consensus MFE -17.70
Energy contribution -17.06
Covariance contribution -0.64
Combinations/Pair 1.22
Mean z-score -2.09
Structure conservation index 0.49
SVM decision value 0.17
SVM RNA-class probability 0.615043
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1340610 109 - 22224390
------ACAAAACAAAAGUCGGUCGCCAACUCCUGUCCCCAGCCAGCAACUGAGCGAAGGAGGGAUAGGAACGGGACGGAACGGCACGGCACGACGACCGAUCGUAUUUCAAGUU
------...........((((((((((...((((((((((.(((((...))).))....).)))))))))...))......((((...)).)).))))))))............. ( -35.90)
>DroSec_CAF1 1125 104 - 1
------ACAAAACAAAAGUCGGUCGCCAGCUCCUGUCCCCCGUCAGCACGUGAGCGAAGGAGGG-----AGCGGGACAGGACGGCACGGCACGACGACCGAUCGUAUUUCAAGUU
------...........((((((((((.(.(((((((((((.((..(.(....).)...)).))-----...)))))))))))))..(......))))))))............. ( -40.60)
>DroSim_CAF1 4335 104 - 1
------ACAAAACAAAAGUCGGUCGCCAGCUCCUGUCCCCCGUCAGCACGUGAGCGAAGGAGGG-----AGCGGGACAGGACGGCACGGCACGACGACCGAUCGUAUUUCAAGUU
------...........((((((((((.(.(((((((((((.((..(.(....).)...)).))-----...)))))))))))))..(......))))))))............. ( -40.60)
>DroEre_CAF1 1120 99 - 1
AAAAAAAAAAAACAAAAGUCGGUCGCCAACUCCUGUCCCCCG-GAGCACCUGAGCGCAGGGGCG-----AACGG----------GACGGCACGAUAGCCGAUCGUAUUUCAAGUU
...............(((((((((......(((((((((((.-..((......))...)))).)-----.))))----------)).(((......)))))))).))))...... ( -30.50)
>DroYak_CAF1 1336 98 - 1
AAA-AAACAAAACAAAAGUCGGUUGCCAACUCCUGUCCCCCU-GAGCACCUGAGCGAAGGGGAG-----AACGG----------GACGGCACGAUGGCCGAUCGUAUUUCAAGUU
...-.............((((((((((...((((((((((((-..((......))..))))).)-----.))))----------)).)))).....))))))............. ( -33.30)
>consensus
______ACAAAACAAAAGUCGGUCGCCAACUCCUGUCCCCCG_CAGCACCUGAGCGAAGGAGGG_____AACGGGAC_G_ACGGCACGGCACGACGACCGAUCGUAUUUCAAGUU
.................((((((((.(..(((((...........((......))..))))).........((.............))....).))))))))............. (-17.70 = -17.06 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:58 2006