Locus 2077

Sequence ID	X_DroMel_CAF1
Location	5,673,604 – 5,673,721
Length	117
Max. P	0.932299

overview

Window 6

Location	5,673,604 – 5,673,721
Length	117
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	94.40
Mean single sequence MFE	-32.57
Consensus MFE	-28.95
Energy contribution	-29.07
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-2.72
Structure conservation index	0.89
SVM decision value	1.22
SVM RNA-class probability	0.932299
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5673604 117 + 22224390
ACGAUGUUAUCCUUGGGGCUGCAACC---GAAACACAUGUUGUUGUCCAUAUCCUUCUUGCCAUCUCCGUGGCGGCCCCAUUAACCCACAAAGCACACGACUCGUGGCCCAAAAAUCAUC
..(((((((....((((((((((((.---..(((....)))))))).............(((((....)))))))))))).)))).......((.((((...))))))......)))... ( -31.10)
>DroSec_CAF1 12645 120 + 1
ACGAUGUUAUCCUUGGGGCUGCACCAACUCCAACACAUGUUGUUGUCCAUGUCCUUCUCGCCAUCUCCUUGGCGGCCCCAUUAACCCACAAAGCACACGACUCGUGGCCCAAAAAUCAUC
..(((((((....((((((.(((...((..((((....))))..))...)))......(((((......))))))))))).)))).......((.((((...))))))......)))... ( -33.00)
>DroSim_CAF1 13133 117 + 1
ACGAUGUUAUCCUUGGGGCUGCACCC---GAAACACAUGUUGUUGUCCAUGUCCUUCUCGCCAUCUCCUUGGCGGCCCCAUUAACCCACAAAGCACACGACUCGUGGCCCAAAAAUCAUC
..(((((((....((((((.......---(((..(((((........)))))..))).(((((......))))))))))).)))).......((.((((...))))))......)))... ( -33.60)
>consensus
ACGAUGUUAUCCUUGGGGCUGCACCC___GAAACACAUGUUGUUGUCCAUGUCCUUCUCGCCAUCUCCUUGGCGGCCCCAUUAACCCACAAAGCACACGACUCGUGGCCCAAAAAUCAUC
..(((((((....((((((...............(((((........)))))......(((((......))))))))))).)))).......((.((((...))))))......)))... (-28.95 = -29.07 +   0.11)

alignment

secondary structure

dotplot

Window 7

Location	5,673,604 – 5,673,721
Length	117
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	94.40
Mean single sequence MFE	-43.23
Consensus MFE	-38.05
Energy contribution	-38.83
Covariance contribution	0.78
Combinations/Pair	1.03
Mean z-score	-2.44
Structure conservation index	0.88
SVM decision value	0.85
SVM RNA-class probability	0.866865
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5673604 117 - 22224390
GAUGAUUUUUGGGCCACGAGUCGUGUGCUUUGUGGGUUAAUGGGGCCGCCACGGAGAUGGCAAGAAGGAUAUGGACAACAACAUGUGUUUC---GGUUGCAGCCCCAAGGAUAACAUCGU
((((((((((((((((((((........))))))).....((.((((((((......))))..((((.(((((........))))).))))---)))).))..)))))))))..)))).. ( -41.80)
>DroSec_CAF1 12645 120 - 1
GAUGAUUUUUGGGCCACGAGUCGUGUGCUUUGUGGGUUAAUGGGGCCGCCAAGGAGAUGGCGAGAAGGACAUGGACAACAACAUGUGUUGGAGUUGGUGCAGCCCCAAGGAUAACAUCGU
((((....((((.(((((((........))))))).))))(((((((((((......))))).....(.(((.(((..((((....))))..))).)))).)))))).......)))).. ( -43.90)
>DroSim_CAF1 13133 117 - 1
GAUGAUUUUUGGGCCACGAGUCGUGUGCUUUGUGGGUUAAUGGGGCCGCCAAGGAGAUGGCGAGAAGGACAUGGACAACAACAUGUGUUUC---GGGUGCAGCCCCAAGGAUAACAUCGU
((((....((((.(((((((........))))))).))))(((((((((((......))))).((((.(((((........))))).))))---.......)))))).......)))).. ( -44.00)
>consensus
GAUGAUUUUUGGGCCACGAGUCGUGUGCUUUGUGGGUUAAUGGGGCCGCCAAGGAGAUGGCGAGAAGGACAUGGACAACAACAUGUGUUUC___GGGUGCAGCCCCAAGGAUAACAUCGU
((((....((((.(((((((........))))))).))))(((((((((((......))))).((((.(((((........))))).))))..........)))))).......)))).. (-38.05 = -38.83 +   0.78)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:41 2006