Locus 421

Sequence ID 2L_DroMel_CAF1
Location 1,239,143 – 1,239,253
Length 110
Max. P 0.719665
window684

overview

Window 4

Location 1,239,143 – 1,239,253
Length 110
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 85.84
Mean single sequence MFE -39.75
Consensus MFE -30.45
Energy contribution -30.38
Covariance contribution -0.06
Combinations/Pair 1.10
Mean z-score -1.69
Structure conservation index 0.77
SVM decision value 0.40
SVM RNA-class probability 0.719665
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1239143 110 - 22407834
AAAGCCGCCAGCAGUCAUUGUCUGUAAAUGCGACUUUUGGGAGAUAGGCGAGGGG--GCA--------GUGGUUGGCCAUAUGAGUCCAUAAUGCCACAUUUUACAGCUGUGCGGCAUUA
...(((((((((.(((.((((((((...(.(........).).))))))))...)--)).--------((((((((.(......).)))....)))))........)))).))))).... ( -38.30)
>DroSec_CAF1 16626 101 - 1
AAAGUCGCCAGCGGUCAUUGUCUGUAAAUGCGACUUUUGGGAGAUGGGCGAGGGGA-GCA--------GCGGUUGGCCAUAUGAGUCCAUAGUG----------CAGCUGUGCGGCAUUA
...((((((((((((((....((((...(((..((((((.........))))))..-)))--------)))).))))).((((....))))...----------..)))).))))).... ( -35.80)
>DroSim_CAF1 12797 110 - 1
AAAGCCGCCAGCGGUCAUUGUCUGUAAAUGCGACUUUUGGGUGAUGGGCGAGGGG--GCA--------GCGGUUGGCCAUAUGAGUCCAUAGUGCCACAUUUUACAGCUGUGCGGCAUUA
...(((((((((...((..(((.((....)))))...))(((.((((((..(..(--((.--------.......)))...)..))))))...)))..........)))).))))).... ( -38.00)
>DroYak_CAF1 12691 120 - 1
AAAGCCGCCAGCGCUCAUUGUCUGUGAAUGCCACUUUUGGUAGAUGGACGAGGGGGGGCAGUUGGGGGGCAGUUGGCCAUAUGAGUCCAUAGUGCCACAUUUUACAGCUGUGCGGCAUUA
...(((((((((((((.((((((((...(((((....))))).))))))))....)))).((..((.((((.((((.(......).))).).))))...))..)).)))).))))).... ( -46.90)
>consensus
AAAGCCGCCAGCGGUCAUUGUCUGUAAAUGCGACUUUUGGGAGAUGGGCGAGGGG__GCA________GCGGUUGGCCAUAUGAGUCCAUAGUGCCACAUUUUACAGCUGUGCGGCAUUA
...((((((((((((((((((.......(((..((((((.........))))))...)))........)))).))))).((((....))))...............)))).))))).... (-30.45 = -30.38 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:48 2006