Locus 311

Sequence ID 3R_DroMel_CAF1
Location 1,207,466 – 1,207,586
Length 120
Max. P 0.888589
window524

overview

Window 4

Location 1,207,466 – 1,207,586
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.83
Mean single sequence MFE -39.58
Consensus MFE -22.09
Energy contribution -22.48
Covariance contribution 0.40
Combinations/Pair 1.48
Mean z-score -2.26
Structure conservation index 0.56
SVM decision value 0.95
SVM RNA-class probability 0.888589
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1207466 120 - 27905053
GAGAAGAAGGCCGCCGAGGAGGCCAAAAAGAGGGUGAAGCAGAAGAGCAUGCUGAGCUUCCUUCAGAGUGGAAUCGGGGACAAUGGCGACGAGGAGGGCUCCGUGGAGUUCUCUCUCGCU
........((((((((..((..(((....(((((.(.((((........))))...)..)))))....)))..))(....)..)))))..(((((((((((....)))))))).)))))) ( -45.50)
>DroVir_CAF1 2701 120 - 1
GAAAAGAAAGCCGCUGAGGAAGCCAAGAAGCGAGUAAAACAAAAAAGCAUGUUAGGCUUCCUACAAAGUGGCAUAGGCGAUAAUGAUGAUGAGGAGGGAUCCAUUGAGUUUUCGUUAGCU
.........((((((.((((((((((.(.((...............)).).)).))))))))....))))))...(((..((((((.(((..(((....))).....))).))))))))) ( -35.06)
>DroGri_CAF1 3660 120 - 1
GAAAAGAAGGCAGCCGAGGAGAACAAGAAGCGUGUGAAGCAGAAGAGCAUGUUGGGUUUCCUGCAAAGUGGCAUCGGUGACAACGAUGAUGAGGAGGGUUCCAUUGAGUUCUCGCUGGCG
............(((.((((((((....(((((((...........))))))).((..((((.(..(....(((((.......))))).)..).))))..)).....)))))).))))). ( -35.60)
>DroSim_CAF1 4174 118 - 1
GAGAAGAAGGCUGCUGAG-AGGCCAACAAGAGGGUGACGCAGAAGAGCAUGCUGAGCUUG-UUCAGAGUGAACUCGCGGACACAGCAGACGAGGAGGGCUCGGUGGAGUUCUCCCUCGCU
(((.....(.((((((..-..(((........)))..(((....(((((.((...)).))-))).(((....))))))....)))))).)..(((((((((....))))))))))))... ( -44.60)
>DroWil_CAF1 3148 120 - 1
GAAAAGAAGGCUGCCGAGGAAGCUAAGAAGCGUGUGAAACAGAAGAGCAUGUUGAGUUUCUUACAGAGCGGCAUUGGUGAUAAUGGCGAUGAGGAAGGGUCUGUGGAAUUUUCUUUGGCU
.........((((((.((((((((....(((((((...........))))))).))))))))...).)))))............(((.(.(((((((..((....)).)))))))).))) ( -31.10)
>DroMoj_CAF1 2832 120 - 1
GAAAAGAAGGCCGCCGAGGAAGCCAAAAAGCGAGUGAAGCAGAAGAGCAUGCUGGGCUUCCUGCAGAGUGGCAUUGGCGACAAUGACGAUGAGGAGGGCUCCAUUGAGUUCUCCCUGGCU
........((((((..((((((((....((((.((...........)).)))).))))))))))...((.((((((....))))).).))..(((((((((....)))))))))..)))) ( -45.60)
>consensus
GAAAAGAAGGCCGCCGAGGAAGCCAAGAAGCGAGUGAAGCAGAAGAGCAUGCUGAGCUUCCUACAGAGUGGCAUCGGCGACAAUGACGAUGAGGAGGGCUCCAUGGAGUUCUCCCUGGCU
.........((((((.((((((((....((((.((...........)).)))).))))))))...).)))))....................(((((((((....)))))))))...... (-22.09 = -22.48 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:05 2006