Locus 9462

Sequence ID 3R_DroMel_CAF1
Location 25,049,396 – 25,049,489
Length 93
Max. P 0.852100
window15156

overview

Window 6

Location 25,049,396 – 25,049,489
Length 93
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 76.99
Mean single sequence MFE -27.15
Consensus MFE -19.95
Energy contribution -18.98
Covariance contribution -0.97
Combinations/Pair 1.42
Mean z-score -1.32
Structure conservation index 0.73
SVM decision value 0.79
SVM RNA-class probability 0.852100
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25049396 93 + 27905053
GACCAGAACUGGAUCACGGUGAGCCGCACGCUGAAGACGAUCUGCGGC---AAUGGCAGCAGUAA---------CCGACCGGCGGACUGGUUCUCGCAGAAGAAC
(((((....))).)).(((.((((((..(((((........((((.((---....)).))))...---------.....)))))...)))))))))......... ( -28.29)
>DroVir_CAF1 6437 90 + 1
GACCAGAACUGGAUAACAGUUAGCCGCACGCUAAAAUCGGUUUGCGGC---AAUGGCAAC---GC---------UCGGCCGGCGGAUUGGUACUCGCAAAAGAAU
.((((((((((.....))))).((((((.(((......))).))))))---..((((...---..---------...)))).....))))).............. ( -27.90)
>DroPse_CAF1 14195 102 + 1
GAUCAGAACUGGAUAACAGUCAGCCGCACGCUGAAAACAGUCUGCGGC---AAUGGCAACAGCAACAACAACAACAGACCGGCAGAUUGGUACUCGCAGAAGAAU
........(((((...(((((.((((((.((((....)))).))))))---..((....)).......................)))))....)).)))...... ( -28.20)
>DroGri_CAF1 6653 93 + 1
GAUCAGAAUUGGAUAACGGUCAGUCGCACCCUGAAAUCGGUGUGCGGCAACAAUGGAAAC---AC---------UCGUCCGUCGGAUUGGUAUUCGCAGAAGAAC
..........(((((.(((((.(((((((.(((....))).)))))))..(.(((((...---..---------...))))).)))))).))))).......... ( -28.00)
>DroMoj_CAF1 5959 90 + 1
GACCAGAAUUGGAUAACAGUUAGCCGCACACUGAAAACAGUUUGUGGC---AAUGGAAAU---UC---------UCGACCCGCGGAUUGGUAUUCUCAGAAAAAC
..(((.(((((.....))))).((((((.((((....)))).))))))---..)))...(---((---------(..(((........)))......)))).... ( -22.30)
>DroPer_CAF1 14945 102 + 1
GAUCAGAACUGGAUAACAGUCAGCCGCACGCUGAAAACAGUCUGCGGC---AAUGGCAACAGCAACAACAACAACAGACCGGCAGAUUGGUACUCGCAGAAGAAU
........(((((...(((((.((((((.((((....)))).))))))---..((....)).......................)))))....)).)))...... ( -28.20)
>consensus
GACCAGAACUGGAUAACAGUCAGCCGCACGCUGAAAACAGUCUGCGGC___AAUGGCAAC___AA_________CCGACCGGCGGAUUGGUACUCGCAGAAGAAC
.(((((.((((.....))))..((((((.((((....)))).))))))......................................))))).............. (-19.95 = -18.98 +  -0.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:35:14 2006