Locus 1862

Sequence ID 3R_DroMel_CAF1
Location 5,347,198 – 5,347,312
Length 114
Max. P 0.553755
window3063

overview

Window 3

Location 5,347,198 – 5,347,312
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.56
Mean single sequence MFE -38.27
Consensus MFE -25.77
Energy contribution -26.17
Covariance contribution 0.39
Combinations/Pair 1.36
Mean z-score -2.00
Structure conservation index 0.67
SVM decision value 0.04
SVM RNA-class probability 0.553755
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5347198 114 + 27905053
GCAAGGAGUUAUCCGAGUUUCUGCGCGAGAAGUCUAACAUUGAGGAGCAGAACUCAAAGAUGAUGUCCAAGCUGGCCCACAAGGC------UGGUACACUAAAUAGCACAUUCGCUCCUG
((..(((((((((.(((((.((((.(((...........)))....)))))))))...)))))).)))..((..(((.....)))------..))..........))............. ( -30.50)
>DroVir_CAF1 17993 120 + 1
GCAAGGAGCUGUCCGAGUUUUUGCGCGAAAAGUCCAACAUCGAGGAGCAAAACUCGAAAAUGAUGUCCAAGCUGGCCCACAAGGCCAGCACGGGCACAUUGAACAGCACCUUUGCGCCGG
((((((.(((((.((((((((.((.(((...........)))....))))))))))..((((.(((((..(((((((.....)))))))..)))))))))..))))).)).))))..... ( -50.50)
>DroGri_CAF1 7142 120 + 1
GCAAGGAGCUCUCCGAGUUUCUGCGCGAGAAGUCGAACAUUGAGGAGCAAAACUCGAAAAUGAUGUCGAAGCUGGCGCACAAGGCCAGUACGGGCACAUUGAACAGCACAUUUGCGCCCG
((.((((((((...))))))))((((.((...((((.((((...(((.....)))...))))...))))..)).)))).....)).....(((((.((.((.......))..)).))))) ( -39.20)
>DroWil_CAF1 7761 120 + 1
GCAAAGAGUUAUCCGAGUUCUUACGUGAAAAGUCCAACAUUGAGGAGCAGAAUUCAAAAAUGAUGUCAAAAUUGGCCCAUAAGGCCAGUACGGGUACACUGAAUAGUACUUUUGCACCCG
((((((......(((.((((((..(((..........)))..)))))).((..(((....)))..))...(((((((.....))))))).)))((((........))))))))))..... ( -28.70)
>DroMoj_CAF1 7071 120 + 1
GCAAGGAGCUGUCAGAGUUUCUGCGCGAGAAAUCGAACAUAGAGGAGCAGAACUCGAAAAUGAUGUCCAAGUUGGCCCACAAGGCCAGCACGGGCACAUUGAACAGCACCUUUGCACCAG
((((((.((((((.(((((.((((.(((....)))...........)))))))))...((((.(((((..(((((((.....)))))))..)))))))))).))))).)).))))..... ( -50.70)
>DroAna_CAF1 6482 114 + 1
GCAAGGAGUUGUCCGAGUUUCUGCGCGAAAAGUCAAACAUCGAGGAGCAGAACUCAAAGAUGAUGUCCAAACUGGCCCACAAGGC------UGGCACACUGAACAGCACAUUCGCUCCGG
....(((((.....(((((.((((.(((...........)))....)))))))))...((((.(((.((..(..(((.....)))------..).....)).)))...)))).))))).. ( -30.00)
>consensus
GCAAGGAGCUGUCCGAGUUUCUGCGCGAAAAGUCCAACAUUGAGGAGCAGAACUCAAAAAUGAUGUCCAAGCUGGCCCACAAGGCCAG_ACGGGCACACUGAACAGCACAUUUGCACCCG
((((((.(((((..(((((.((((.(((...........)))....))))))))).....((.((((...(((((((.....)))))))...))))))....))))).).)))))..... (-25.77 = -26.17 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:22 2006