Locus 1354

Sequence ID 3R_DroMel_CAF1
Location 3,996,846 – 3,996,951
Length 105
Max. P 0.571136
window2223

overview

Window 3

Location 3,996,846 – 3,996,951
Length 105
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 87.88
Mean single sequence MFE -42.05
Consensus MFE -28.73
Energy contribution -29.35
Covariance contribution 0.62
Combinations/Pair 1.05
Mean z-score -1.67
Structure conservation index 0.68
SVM decision value 0.07
SVM RNA-class probability 0.571136
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3996846 105 - 27905053
GGG--CUCCUUCUG----AGCGGCAGGAUUGCCUCGUCCUGGCGGUUCGUAUGAUUGAUUGUUGCUGGUCCUUGCUGGCAGGAAGCAGCUGAAUCAGCUGAAUCGUCAGAA---------
(((--(((((.((.----...)).))))..))))....(((((((((((..(((((.(..((((((..((((.(....)))))))))))).)))))..)))))))))))..--------- ( -40.30)
>DroSec_CAF1 2551 105 - 1
GGG--CUCCUUCUG----AGCGGCAGGAUUGCCUCGUCCUGACCGUUCGCAUGAUUGAUUGUUCCUGGUCCUUGCUGGCAGGAAGCAGCUGAAUCAGCUGAAUCGUCAGAA---------
.((--(.......(----(((((((((((......)))))).))))))........((((.((((((..((.....)))))))).((((((...)))))))))))))....--------- ( -38.80)
>DroSim_CAF1 2586 114 - 1
GGG--CUCCUUCUG----AGCGGCAGGAUUGCCUCGUCCUGGCCGUUCGCAUGAUUGAUUGUUCCUGGUCCUUGCUGGCAGGAAGCAGCUGAAUCAGCUGAAUCGUCAGAAUCGUCAAAA
.((--(...(((((----(((((((((((......))))).)))))))(.((((((.....((((((..((.....)))))))).((((((...)))))))))))))))))..))).... ( -41.90)
>DroYak_CAF1 2116 114 - 1
GGGCGCUCCUUCUGCAAGAGCGGCAGGAUUGCCUCGUCCUGGCCGCUCGCAUGAUUGAUUGUUGCUGCUCCUUGCUGGCAGGAAGCAGCUGAAUCAGCCAAAUCGUCAG------CUGAA
.((((.((..(((((..((((((((((((......))))).)))))))))).))..)).))))((((((.((((....)))).))))))....(((((..........)------)))). ( -47.20)
>consensus
GGG__CUCCUUCUG____AGCGGCAGGAUUGCCUCGUCCUGGCCGUUCGCAUGAUUGAUUGUUCCUGGUCCUUGCUGGCAGGAAGCAGCUGAAUCAGCUGAAUCGUCAGAA_________
(((...((((.(((......))).))))...)))....(((((.((((((.(((((.(..((((((..((((.(....)))))))))))).))))))).)))).)))))........... (-28.73 = -29.35 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:44 2006