Locus 5690

Sequence ID 2L_DroMel_CAF1
Location 16,171,793 – 16,171,913
Length 120
Max. P 0.652828
window9015

overview

Window 5

Location 16,171,793 – 16,171,913
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.89
Mean single sequence MFE -41.88
Consensus MFE -32.72
Energy contribution -31.08
Covariance contribution -1.63
Combinations/Pair 1.50
Mean z-score -1.63
Structure conservation index 0.78
SVM decision value 0.25
SVM RNA-class probability 0.652828
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16171793 120 + 22407834
UCCAGAAGCUGCGCGAGAAGCAGCAGAUCGAAGAGGAUCUGCGGGGCUAUCUCGAUUGGAUUACCCAAGCCGAGGACAUUGAACCAGACGCCGUGGGAGGUCUGAUAUCCGAUGGCAAGG
.((...((((.(((.....)).(((((((......)))))))).)))).(((((.((((.....))))..)))))..............(((((.(((.........))).)))))..)) ( -43.10)
>DroVir_CAF1 136132 120 + 1
UCCAGAAGCUGCGCGAGAAGCAACAAAUCGAAGAGGAUUUGCGCGGCUAUCUCGACUGGAUCACGCAGGCCGAGGACAUUGAGCCCGAUGCGACGGGCGGUCUGAUGCCCGAUGGCAAGG
..((((((((((((.....))..((((((......)))))).)))))).(((((.(((.......)))..))))).......(((((......)))))..)))).((((....))))... ( -43.00)
>DroGri_CAF1 98665 120 + 1
UUCAGAAGCUGCGCGAGAAGCAACAAAUCGAGGAGGAUUUGCGCGGAUACCUCGACUGGAUAACCCAGGCCGAGGAUAUUGAGCCAGAUGCAACGGGCGGCCUAAUGCCCGAUGGCAAGG
.((((...((((((.....))..((((((......)))))).))))...(((((.((((.....))))..)))))...))))((((.......((((((......)))))).)))).... ( -43.40)
>DroWil_CAF1 129576 120 + 1
UCCAAAAGUUACGUGAGAAACAACAAAUUGAAGAGGAUUUGCGUGGUUACCUCGAUUGGAUUACCCAAGCUGAGGAUAUUGAACCAGAUGCUGUUGGUGGCCUAAUGCCAGAUGGCAAAA
.......(((.(....).)))..((((((......))))))..(((((.(((((.((((.....))))..)))))......)))))..(((((((..((((.....)))))))))))... ( -30.40)
>DroMoj_CAF1 153911 120 + 1
UUCAAAAGUUGCGCGAAAAGCAACAGAUCGAAGAGGAUCUGCGCGGCUAUCUCGACUGGAUAACCCAGGCCGAGGACAUCGAGCCCGAUGCCACGGGUGGCCUGAUGCCCGAUGGCAAGA
......((((((((.....))..((((((......)))))).)))))).(((((.((((.....))))..)))))..((((....))))((((((((((......)))))).)))).... ( -46.70)
>DroAna_CAF1 86138 120 + 1
UUCAAAAGCUGCGCGAGAAGCAACAGAUCGAGGAGGACCUUCGGGGCUAUCUCGAUUGGAUUACCCAAGCAGAGGACAUAGAACCUGAUGCCGUGGGUGGUCUGAUACCUGAUGGAAAGG
((((...(((.(....).)))..(((.((((((.((.((....)).)).))))))(..(((((((((.(((.(((........)))..)))..)))))))))..)...))).)))).... ( -44.70)
>consensus
UCCAAAAGCUGCGCGAGAAGCAACAAAUCGAAGAGGAUCUGCGCGGCUAUCUCGACUGGAUUACCCAAGCCGAGGACAUUGAACCAGAUGCCACGGGUGGCCUGAUGCCCGAUGGCAAGG
......((((((((.....))..((((((......)))))).)))))).(((((.((((.....))))..))))).............(((((((((((......)))))).)))))... (-32.72 = -31.08 +  -1.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:16 2006