Locus 2700

Sequence ID X_DroMel_CAF1
Location 7,229,825 – 7,229,928
Length 103
Max. P 0.670087
window4419

overview

Window 9

Location 7,229,825 – 7,229,928
Length 103
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 73.44
Mean single sequence MFE -31.18
Consensus MFE -12.79
Energy contribution -14.10
Covariance contribution 1.31
Combinations/Pair 1.21
Mean z-score -2.44
Structure conservation index 0.41
SVM decision value 0.29
SVM RNA-class probability 0.670087
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7229825 103 + 22224390
GGAAGUUUUUUGCAA---ACAGCG--AA--AAAUGGGAUGAGUAGGGCGGAGAGGG-AUAUAUUAUUUCCCCGGCCAGGUGAGUGCACUUGGCACUUGAGAAGGUAAUUAA
....(((((((((..---...)))--))--)))).....((((..((.(((((...-........))))))).((((((((....)))))))))))).............. ( -29.20)
>DroVir_CAF1 33313 101 + 1
GCAAGUUUUUCGCUUUAGAUCGAGGCAGACGUCUCGAGGCAGGAGGUCGGUGAGGUGGCGUU----------GCUGGAGUGAGUGCACUUGGCACUGGGUUCGGUAAUUAG
((.(.(((.(((((((...(((((((....))))))).....)))).))).))).).))(((----------((((((.(.(((((.....))))).).)))))))))... ( -37.20)
>DroSec_CAF1 6370 101 + 1
GGAAGUUUUUUGCAA---ACAGCG--AA--AAAUGGGAUGAGUAGGGAGGAGAGGG---AUAUUAUUUCCCCGGCCAGGUGAGUGCACUUGGCACUUGAGAAGGUAAUUAA
....(((((((((..---...)))--))--)))).....((((..((.(((((...---......))))))).((((((((....)))))))))))).............. ( -29.40)
>DroSim_CAF1 6316 101 + 1
GGAAGUUUUUUGCAA---ACAGCG--AA--AAAUGGGAUGAGCAGGGAGGAGAGGU---AUAUUAUUUCCCCGGCCAGGUGAGUGCACUUGGCACUUGAGAAGGUAAUUAA
....(((((((((..---...)))--))--))))........((((..((.(((((---(...)))))).)).((((((((....)))))))).))))............. ( -28.90)
>consensus
GGAAGUUUUUUGCAA___ACAGCG__AA__AAAUGGGAUGAGUAGGGAGGAGAGGG___AUAUUAUUUCCCCGGCCAGGUGAGUGCACUUGGCACUUGAGAAGGUAAUUAA
.............................................((.(((((............))))))).((((((((....))))))))((((....))))...... (-12.79 = -14.10 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:14 2006