Locus 3365

Sequence ID 3R_DroMel_CAF1
Location 9,092,642 – 9,092,745
Length 103
Max. P 0.500000
window5414

overview

Window 4

Location 9,092,642 – 9,092,745
Length 103
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 80.13
Mean single sequence MFE -34.40
Consensus MFE -17.37
Energy contribution -17.23
Covariance contribution -0.13
Combinations/Pair 1.43
Mean z-score -2.06
Structure conservation index 0.50
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9092642 103 + 27905053
GAAGCGGCAAAGGCGCGGCAUGAGUUGAGUGCCCGGCAUGUAAAGCUGGUAAAGCAGUUCAAAAUGCGGCAAGCGAAACUGCACCAGGGCACAA-ACA-CGCAAA
...((.((......)).))....(((..((((((.(((.((...(((.((...(((........))).)).)))...)))))....)))))).)-)).-...... ( -33.70)
>DroSec_CAF1 2327 103 + 1
GAAACGGCAAAGGCGCGACAUGAGUUGAGUGUCCGGCAUGUAAAGCUGGUGAAGCAGUUCAAGAAGCGGCAAGCCAAACUGCACCAUGGCACAA-ACA-CGCAAA
......((...(.(((..(.(((..((.....(((((.......))))).....))..))).)..))).)..((((..........))))....-...-.))... ( -27.70)
>DroSim_CAF1 3483 103 + 1
GAAUCGGCAAAGGCGCGGCAUGAGUUGAGUGUCCGGCAUGUAAAGCUGGUGAAGCAGUUCAAGAAGCGGCAAGCCAAACUGCACCAGGGCACAA-ACA-CGCAAA
............(((((((....)))).(((((((((.(((...(((..((((....))))...))).))).)))....((...))))))))..-...-)))... ( -28.00)
>DroEre_CAF1 2992 103 + 1
GAAUCGGCAAAGGCGCGGCAUGAGUUUAGUGCCCGGCAUGUAAAGCUGGUGAAGCAGUUUAAGGUGCGGCAAGCCAAACUACCCCAGGGCACAA-GCG-CGCCAA
...........((((((((....))...((((((.((((.(.((((((......)))))).).))))((....))...........))))))..-.))-)))).. ( -39.20)
>DroYak_CAF1 2362 103 + 1
GAAUCGGCAAAGGCGCGGCAUGAAUUCAGUGCCCGGCAUGUAAAGCUAGUGAAGGAGUUUAAGGUGCGGCAAGCCAAACUUUCUCAGGGCACAG-CCG-CGUCAA
...........((((((((.((....))(((((((((.......)))..(((..((((((..(((.......)))))))))..))))))))).)-)))-)))).. ( -42.40)
>DroPer_CAF1 1894 105 + 1
GAGUCGGGCAAGGCGCGACACGAUCUCAGUGUGCGGCACAAUAACCUGGUUAAGCAGCACAAACUGCGCCAGGAGCUGCUUCGACAGGAAAAAAAACAGCGCAAC
..((((((((.(.(((.((((.......))))))).).......((((((...((((......))))))))))...))).))))).................... ( -35.40)
>consensus
GAAUCGGCAAAGGCGCGGCAUGAGUUGAGUGCCCGGCAUGUAAAGCUGGUGAAGCAGUUCAAGAUGCGGCAAGCCAAACUGCACCAGGGCACAA_ACA_CGCAAA
......((...(.((.(((((.......))))))).)........(((((...((((((......((.....))..))))))))))).............))... (-17.37 = -17.23 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:19 2006