Locus 2552

Sequence ID 3L_DroMel_CAF1
Location 7,146,929 – 7,147,037
Length 108
Max. P 0.953482
window3961

overview

Window 1

Location 7,146,929 – 7,147,037
Length 108
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 81.53
Mean single sequence MFE -17.77
Consensus MFE -13.21
Energy contribution -13.28
Covariance contribution 0.06
Combinations/Pair 1.11
Mean z-score -2.21
Structure conservation index 0.74
SVM decision value 1.43
SVM RNA-class probability 0.953482
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7146929 108 + 23771897
AUCUAAAAAAAAAAAA--AA--AGGAAUGGGAAAAUAAAUGCAAAAAGGUUGGCAAAAGGGAACAACUUGAAGCGCCAUAGGAAACUACUUAGUUUGCUGUUAAUAAUUAAA
................--..--..................((((((((..((((...(((......))).....))))(((....))))))..))))).............. ( -14.30)
>DroPse_CAF1 11288 99 + 1
ACCAGAAGCAGAAAAA--AC--CCGAAUGG-------AACGGAAAAAGGUUGGCAAAAGGAA--AGCCUGAAGCGCCAUAGGAAACUACUUAGUUUGCUGUUAAUAAUUAAA
......(((((...((--((--(((.....-------..)))...(((..((((...(((..--..))).....))))(((....)))))).)))).))))).......... ( -20.80)
>DroEre_CAF1 14363 112 + 1
AUCCAAAAAAAAAAUGUAAAAUAAAAAUGGGAAAACAAAUGCAAAAAGGUUGGCAAAAAGGAACAACUUGAAGCGCCAUAGGAAACUACUUAGUUUGCUGUUAAUAAUUAAA
.((((......................))))..((((...((((((((..((((...(((......))).....))))(((....))))))..))))))))).......... ( -15.85)
>DroYak_CAF1 11767 110 + 1
AUCCAAAAAAAAAAAAUUAAA--AAAGGGGAAAAACAAAUGCAAAAAGGUUGGCGAACAGGAGCAACUUGAAGCGCCAUAGGAAACUACUUAGUUUGCUGUUAAUAAUUAAA
.(((.................--.....)))..((((...((((((((..(((((..((((.....))))...)))))(((....))))))..))))))))).......... ( -20.15)
>consensus
AUCCAAAAAAAAAAAA__AA__AAAAAUGGGAAAACAAAUGCAAAAAGGUUGGCAAAAAGGAACAACUUGAAGCGCCAUAGGAAACUACUUAGUUUGCUGUUAAUAAUUAAA
........................................((((((((..((((...(((......))).....))))(((....))))))..))))).............. (-13.21 = -13.28 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:29 2006