Locus 945

Sequence ID 3R_DroMel_CAF1
Location 3,125,098 – 3,125,213
Length 115
Max. P 0.983291
window1510

overview

Window 0

Location 3,125,098 – 3,125,213
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.76
Mean single sequence MFE -26.82
Consensus MFE -23.86
Energy contribution -24.10
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -1.76
Structure conservation index 0.89
SVM decision value 1.94
SVM RNA-class probability 0.983291
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3125098 115 + 27905053
---AGCAGAGCGUUUUGCUGGAAAUUCGCAGAAGGAGCAGCGGCAAAAGCAA--AACAAAAAAAGGUAAUAAGGUCGAAGGAAGGGGAAACUCAAAAGGAUUUUUUCAGCGUCGCGUCUG
---..(((((((...(((((((((.((((.......)).((.......))..--....................((....)).(((....))).....))..))))))))).))).)))) ( -27.80)
>DroSec_CAF1 794 120 + 1
AAGAGCAGAGAGUUUUGCUGGAAAUUCGCAGAAGGAGCAGAGGCAAAAGCAAAAAACAAAAAAAGGUAAAAAGGUCGAAGGAAGGGGAAACUCAAAAGGAUUUUUUCAGCGUCGCGUCUG
.....((((..((..(((((((((.((((.......))....((....))........................((....)).(((....))).....))..)))))))))..)).)))) ( -24.30)
>DroSim_CAF1 1163 120 + 1
AAGAGCAGAGCGUUUUGCUGGAAAUUCGCAGAAGGAGCAGCGGCAAAAGCAAAAAACAAAAAAAGGUAAAAAGGUCGAAGGAAGGGGAAACUCAAAAGGAUUUUUUCAGCGUCGCGUCUG
.....(((((((...(((((((((.((((.......)).((.......))........................((....)).(((....))).....))..))))))))).))).)))) ( -27.80)
>DroEre_CAF1 880 114 + 1
---AGCGGAGCGUUUUGCUGGAAAUUCGCAGAAGGAGCAGCGGCAGAAACAA--AACAAAAAAAGGUAAAAAGGUCGAAGGAAGGGGAAACUCAA-AGGAUUUUUUCAGCGUCGCGUCUG
---.(((..((.((((((((....(((......)))....))))))))....--......(((((((.......((....)).(((....)))..-...)))))))..))..)))..... ( -27.50)
>DroYak_CAF1 1005 114 + 1
---AGCAGAGAGUUCUGCUGGAAAUUCGCAGAAGGAGCAGCGGCAAAAACAA--AACUAA-AAAGGUAAAAAGGUCGAAGGAAGGGGAAACUCAAAAGGAUUUUUUCAGCGUCGCGUCUG
---..((((..(((((.((((.....).)))..))))).(((((........--.(((..-...)))......((.((((((((((....))).......))))))).))))))).)))) ( -26.71)
>consensus
___AGCAGAGCGUUUUGCUGGAAAUUCGCAGAAGGAGCAGCGGCAAAAGCAA__AACAAAAAAAGGUAAAAAGGUCGAAGGAAGGGGAAACUCAAAAGGAUUUUUUCAGCGUCGCGUCUG
.....(((((((...(((((((((.((.........((....))..............................((....)).(((....))).....))..))))))))).))).)))) (-23.86 = -24.10 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:14 2006