Locus 1871

Sequence ID 2L_DroMel_CAF1
Location 5,139,764 – 5,139,876
Length 112
Max. P 0.901084
window3010

overview

Window 0

Location 5,139,764 – 5,139,876
Length 112
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 79.48
Mean single sequence MFE -39.32
Consensus MFE -24.92
Energy contribution -25.65
Covariance contribution 0.73
Combinations/Pair 1.37
Mean z-score -2.15
Structure conservation index 0.63
SVM decision value 1.02
SVM RNA-class probability 0.901084
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5139764 112 + 22407834
UAUUCAUUUU-----GCAGUCCUUGGCCUCUCGUCUUCCCGAGGGUCAGCAUCUGUUGGCCUUGGUGCAGGAUGCCUACUCGAAGGCAUCGAACAUCACUCCAGAGGAUAAGCAAGA
......((((-----((.((((((((...((((......))))(((((((....))))))).(((((...(((((((......)))))))...)))))..))).)))))..)))))) ( -40.70)
>DroVir_CAF1 56472 110 + 1
U--UUUUUUU-----CCAGUCAUUGGCCUCCCACUUGCCCGAGGGCCAGCAUUUGCUGGCCAUGGUGCAGGAUGCCUACUCGAAGGCCUCCAAUAUUACGCCCGAAGAUAAGCAGGA
.--......(-----((.(((.((((.(.......((((((..(((((((....))))))).))).)))(((.((((......)))).)))........).)))).))).....))) ( -37.90)
>DroPse_CAF1 25445 117 + 1
CUCUCUUUUCCUCCAACAGUCUCUGACUUCUCGUCUGCCCGAGGGUCAGCAUUUGUUGGCAUUGGUGCAAGAUGCCUACUCGAAGGCCUCCAACAUCACGCCCGAGGACAAGCAGGA
.((((((.(((((.(((((...((((((.((((......))))))))))...)))))(((..(((((...((.((((......)))).))...))))).))).))))).))).))). ( -40.80)
>DroWil_CAF1 22469 116 + 1
-UAUUUUUUCCCCAUGUAGUCAUUGGCAUCUCGUUUGCCUGAGGGUCAGCAUCUUUUGGUUUUGGUUCAGGACGCCUACUCAAAGGCCUCGAACAUUACGCCAGAGGACAAGCAGGA
-..........((.(((.....(((((.(((((......))))))))))..(((((((((....((((..((.((((......)))).)))))).....)))))))))...))))). ( -31.70)
>DroAna_CAF1 23695 112 + 1
AUUUUUAUUU-----GUAGUCCCUGGCUUCCCGUCUGCCCGAGGGUCAGCAUCUUCUGGCCCUGGUGCAGGAUGCUUACUCCAAGGCGUCAAACAUCACGCCCGAGGACAAGCAGGA
.......(((-----((.(((((.(((.......((((((.((((((((......)))))))))).))))(((((((......))))))).........))).).))))..))))). ( -43.90)
>DroPer_CAF1 26293 117 + 1
CUUUCUUUUCCUCCAACAGUCUCUGACUUCUCGUCUGCCCGAGGGUCAGCAUUUGUUGGCCUUGGUGCAAGAUGCCUACUCGAAGGCCUCCAACAUCACGCCCGAGGACAAGCAGGA
(((.(((.(((((.(((((...((((((.((((......))))))))))...)))))(((..(((((...((.((((......)))).))...))))).))).))))).))).))). ( -40.90)
>consensus
CUUUCUUUUC_____GCAGUCACUGGCUUCUCGUCUGCCCGAGGGUCAGCAUCUGUUGGCCUUGGUGCAGGAUGCCUACUCGAAGGCCUCCAACAUCACGCCCGAGGACAAGCAGGA
..................((((..(((.......((((.(.(((((((((....))))))))).).))))((.((((......)))).)).........)))...))))........ (-24.92 = -25.65 +   0.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:25 2006