Locus 5506

Sequence ID 2R_DroMel_CAF1
Location 17,655,798 – 17,655,914
Length 116
Max. P 0.836397
window8810

overview

Window 0

Location 17,655,798 – 17,655,914
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.58
Mean single sequence MFE -25.24
Consensus MFE -19.18
Energy contribution -18.78
Covariance contribution -0.40
Combinations/Pair 1.15
Mean z-score -1.98
Structure conservation index 0.76
SVM decision value 0.73
SVM RNA-class probability 0.836397
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17655798 116 - 20766785
CAAAUA--AAAAGGAGCAACCAAACUGCAAAACUAGCCAAAGAUUAUGAUAGGGAAUCGAAUCCGAGAAAUCGGUACAAGAACUAUGGCAUAUGGUUCGUGAUCAAUAAUGGCUAAAU--
......--.......(((.......))).....((((((..((((((...............((((....)))).....((((((((...)))))))))))))).....))))))...-- ( -26.00)
>DroSec_CAF1 9356 116 - 1
CAAAAA--AAAAGAAGCAACCAAACUGCAGAGCUAGCCAAAGAUUAUGAUAGGGAAUCGAAUCCGAGAAAUCGGUACAAGAACUAUGGCAUGUGGUUCGUGAUCAAUAAUGGCUAAAU--
......--.......(((.......))).....((((((..((((((...............((((....)))).....(((((((.....))))))))))))).....))))))...-- ( -26.60)
>DroSim_CAF1 15302 117 - 1
CAAAAA-AAAAAGAAGCAACCAAACUGCAGAGCUAGCCAAAGAUUAUGAUAGGGAAUCGAAUCCGAGAAAUCGGUACAAGAACUAUGGCAUGUGGUUCGUGAUCUAUAAUGGCUAAAU--
......-........(((.......))).....((((((.(((((((...............((((....)))).....(((((((.....))))))))))))))....))))))...-- ( -28.40)
>DroEre_CAF1 9597 120 - 1
CAAAUAAAAAAAGAAGCAGCCAAACUGCACAGCUAGCCAAAGAUUAUGAUAGGGAAUCGAAUUGGUGAAAUCGGUACAAGAACUAUGGCAUAUGGUUCGCGAUCAGUAAUGGCUAAAACG
.................(((((.((((....((..(((((.((((.........))))...))))).............((((((((...))))))))))...))))..)))))...... ( -24.60)
>DroYak_CAF1 21030 120 - 1
CAAAAAAAAAGAGAAGCAACCAAACUGCAAAGCUAGCCAAAGAUUAUGAUAGGGCAUCGGAUUGCUGAAAUCGGUACAAGAACUAUGGCAUAUGGUUUGCGAUCAACAAUAACUAAAUCG
..........((...(((((((....((...))..((((.((....((((.....))))...(((((....)))))......)).))))...))).))))..))................ ( -20.60)
>consensus
CAAAAA_AAAAAGAAGCAACCAAACUGCAAAGCUAGCCAAAGAUUAUGAUAGGGAAUCGAAUCCGAGAAAUCGGUACAAGAACUAUGGCAUAUGGUUCGUGAUCAAUAAUGGCUAAAU__
...............(((.......))).....((((((..((((.((((.....)))))))).........(((....(((((((.....)))))))...))).....))))))..... (-19.18 = -18.78 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:00 2006