Locus 4156

Sequence ID 3L_DroMel_CAF1
Location 12,144,159 – 12,144,259
Length 100
Max. P 0.748095
window6452

overview

Window 2

Location 12,144,159 – 12,144,259
Length 100
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 69.79
Mean single sequence MFE -26.90
Consensus MFE -3.73
Energy contribution -5.73
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -2.76
Structure conservation index 0.14
SVM decision value 0.47
SVM RNA-class probability 0.748095
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12144159 100 + 23771897
-----GCCAAAGACAAAUUCUUGGCCA-GAAACUAACUUUCUGG-CAAACAGGA--------ACAACAAGUGCAGCUGCCAAGGAGCAAAACUUGAGCAACUGGAAA-GGAACUCA
-----.((.........((((((((((-((((.....)))))))-)...)))))--------).........(((.(((((((........)))).))).)))....-))...... ( -28.30)
>DroPse_CAF1 20870 105 + 1
CCGAGGCCAAAGACAAAUUCC-----GAUAACAAAAGUUUGUGCAGAAACAGCAGCUGGAAAAGAACAACUUCAGCUUUCAGUCAGCAGAAC------AACUGCACAACGAGAGUA
................(((((-----(..(((....)))(((((((.......(((((((..........)))))))(((........))).------..))))))).)).)))). ( -19.90)
>DroSim_CAF1 21738 101 + 1
-----GCCAAAGACAAAUUCUUGGCCAAGAAACUAACUUUCUGG-CAAACAGGA--------ACAACAAGUGCAGCUGCCAAGGAGCAAAACUUGAGCAGCUGGAAA-GGAACUCA
-----.((.........((((((((((.((((.....)))))))-)...)))))--------).........(((((((((((........)))).)))))))....-))...... ( -31.10)
>DroEre_CAF1 18868 96 + 1
-----GCCAAAGACAAAUUCUUGGCCA-GAA----ACUUUCUGG-CAAACAGGA--------ACAACAAGUGCAGCUGCCAAGGCGCUGAACUUGAGCAACUGGAAA-GGAACGCA
-----............((((((((((-((.----....)))))-)...)))))--------)...(((((.((((.((....)))))).))))).((..((....)-)....)). ( -30.70)
>DroYak_CAF1 21598 96 + 1
-----GCCAAAGACAAAUUCUUGGCCA-GAA----ACUUUCCAG-CAAACAGCA--------ACAAGAAGUGCAGCUGCCAAGGAGCAGAACUUGAGCAGCUGGAAA-GGAACUCG
-----(((((.((.....)))))))..-...----.((((((((-(.....(((--------........)))...(((((((........)))).)))))))))))-)....... ( -31.50)
>DroPer_CAF1 20869 105 + 1
CCGAGGCCAAAGACAAAUUCC-----GAUAACAAAAGUUUGUGCAGAAACAGCAGCUGGAAAAGAACAACUUCAGCUUUCAGUCAGCAGAAC------AACUGCACAACGAGAGUA
................(((((-----(..(((....)))(((((((.......(((((((..........)))))))(((........))).------..))))))).)).)))). ( -19.90)
>consensus
_____GCCAAAGACAAAUUCUUGGCCA_GAA___AACUUUCUGG_CAAACAGCA________ACAACAAGUGCAGCUGCCAAGGAGCAGAACUUGAGCAACUGGAAA_GGAACGCA
........................................................................(((.(((((((........)))).))).)))............. ( -3.73 =  -5.73 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:41 2006