Locus 5859

Sequence ID 3L_DroMel_CAF1
Location 15,797,758 – 15,797,878
Length 120
Max. P 0.923633
window9342

overview

Window 2

Location 15,797,758 – 15,797,878
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 58.33
Mean single sequence MFE -35.27
Consensus MFE -15.66
Energy contribution -14.90
Covariance contribution -0.76
Combinations/Pair 1.41
Mean z-score -1.93
Structure conservation index 0.44
SVM decision value 1.16
SVM RNA-class probability 0.923633
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15797758 120 + 23771897
UGAAAUAGUUUUGUAUUUCUGGCCGGAAAUGAUGUCCCAAAUUCCGGAUUUGGCCGGCGGAAAUGGGCAACAGAAGCGAAAGAUUCUGAGCGGCGGCGAAUACAAUAAGAUUUGCCGGUU
.((((((......))))))..((((.......((.((((....((((......))))......)))))).(((((.(....).)))))..))))(((((((........))))))).... ( -38.00)
>DroVir_CAF1 962 91 + 1
--------------------------AAAUAAUGGCAAACAGCGCAGCUGCAGCCGGCCGUGCUG--C-AAUCAAGAAAAAGGUGCUGAGCAGCGGAGAAUACGCACGCAUUUGUCAAUU
--------------------------......(((((((..((.(((((((((((....).))))--)-)(((........))))))).)).(((.......))).....)))))))... ( -28.80)
>DroYak_CAF1 2124 120 + 1
UGAAAUAAAUUUGUAUUUCUGGCCGUAAAAUAUGUCCCAAGUCCCGGGCUUGGCCGGCGGAAAUGAGCAACAGAGGCGGAAGAUUCUGAGCGGCGGCGAGUAUAAUCGCAUCUGCCAGUU
.((((((......)))))).(((((........((((........)))).)))))((((((.....((..(((((.(....).)))))....)).((((......)))).)))))).... ( -39.00)
>consensus
UGAAAUA__UUUGUAUUUCUGGCCG_AAAUAAUGUCCCAAAUCCCGGAUUUGGCCGGCGGAAAUG_GCAACAGAAGCGAAAGAUUCUGAGCGGCGGCGAAUACAAUCGCAUUUGCCAGUU
.....................................((((((...))))))((((.(((((.....................)))))..))))(((((((........))))))).... (-15.66 = -14.90 +  -0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:16 2006