Locus 4480

Sequence ID X_DroMel_CAF1
Location 11,860,079 – 11,860,199
Length 120
Max. P 0.704266
window7366

overview

Window 6

Location 11,860,079 – 11,860,199
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 89.56
Mean single sequence MFE -42.62
Consensus MFE -35.70
Energy contribution -34.98
Covariance contribution -0.72
Combinations/Pair 1.26
Mean z-score -1.90
Structure conservation index 0.84
SVM decision value 0.36
SVM RNA-class probability 0.704266
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11860079 120 - 22224390
AAGGCUGACGGACGUUGGUUUAAGUUCGACGACGAUGUGGUCUCCAGUUGCCGCAAACAGGAGGCGAUCGAACAGAACUACGGCGGCAUGGACGAUGAGAUCUCGUUUCAUGCCAAGUGC
...((((.....((((((.......)))))).((((...((((((.(((......))).)))))).))))..........))))(((((((((((.(....)))).))))))))...... ( -39.90)
>DroVir_CAF1 14694 120 - 1
AAGGCCGAUGGUCGCUGGUUCAAAUUUGAUGACGAUGUGGUCUCCAGUUGCCGCAAACAGGAGGCCAUCGAGCAGAAUUAUGGCGGCAUGGAUGACGAGAUCUCGUUUCAUGCCAAAUGC
...((((....(((((...(((....)))...(((..((((((((.(((......))).)))))))))))))).))....))))((((((((..((((....))))))))))))...... ( -42.60)
>DroPse_CAF1 10063 120 - 1
AAGGCCGAUGGGCGCUGGUUCAAGUUUGAUGACGAUGUGGUCUCCAGUUGCCGCAAACAGGAGGCCAUUGAGCUGAAUUAUGGCGGCAUGGAUGAUGAGAUCUCGUUCCAUGCCAAAUGC
...(((....)))(((((((((.(((..(........((((((((.(((......))).)))))))))..)))))))))..)))((((((((..((((....))))))))))))...... ( -45.90)
>DroWil_CAF1 17991 120 - 1
AAAGCGGAUGGCCGUUGGUUUAAAUUCGAUGAUGAUGUGGUAUCCAGUUGCCGCAAACAGGAGGCCAUUGAACAAAACUAUGGCGGAAUGGAUGAUGAAAUCUCUUUUCAUGCCAAAUGC
...(((((((((((((((.......))))).....(((((((......))))))).......)))))))...........((((((((.(((.(((...)))))).))).)))))..))) ( -34.60)
>DroAna_CAF1 16068 120 - 1
AAGGCCGACGGACGUUGGUUCAAGUUCGAUGACGAUGUGGUGUCCAGUUGCCGGAAACAGGAGGCCAUCGAACAGAACUACGGCGGCAUGGAUGAUGAGAUCUCGUUCCAUGCCAAGUGC
...((((..((((....)))).(((((.....(((..((((.(((.(((......))).))).)))))))....))))).))))((((((((..((((....))))))))))))...... ( -46.80)
>DroPer_CAF1 10177 120 - 1
AAGGCCGAUGGGCGCUGGUUCAAGUUUGAUGACGAUGUGGUCUCCAGUUGCCGCAAACAGGAGGCCAUUGAGCUGAAUUAUGGCGGCAUGGAUGAUGAGAUCUCGUUCCAUGCCAAAUGC
...(((....)))(((((((((.(((..(........((((((((.(((......))).)))))))))..)))))))))..)))((((((((..((((....))))))))))))...... ( -45.90)
>consensus
AAGGCCGAUGGACGCUGGUUCAAGUUCGAUGACGAUGUGGUCUCCAGUUGCCGCAAACAGGAGGCCAUCGAACAGAACUAUGGCGGCAUGGAUGAUGAGAUCUCGUUCCAUGCCAAAUGC
...((((........((((((..((((((........((((((((.(((......))).)))))))))))))).))))))))))((((((((..((((....))))))))))))...... (-35.70 = -34.98 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:09 2006