Locus 1311

Sequence ID 3R_DroMel_CAF1
Location 3,855,034 – 3,855,154
Length 120
Max. P 0.554538
window2151

overview

Window 1

Location 3,855,034 – 3,855,154
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.69
Mean single sequence MFE -48.46
Consensus MFE -28.66
Energy contribution -29.17
Covariance contribution 0.51
Combinations/Pair 1.32
Mean z-score -1.62
Structure conservation index 0.59
SVM decision value 0.04
SVM RNA-class probability 0.554538
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3855034 120 + 27905053
CUGUUGUGCUUGAUAGUGGCUCGUACUGCAGCAGGUCAAUAUAGUAUGCCAAGGCCUGCAUGGAGGCGGGCAGAUAGCUAGUCAGUAGGUUAGCCGGCGCCACUGGAUCCACUAGGUGAC
((...(((.....(((((((.....((.(((((((((...............))))))).)).))((.(((.(((.(((....)))..))).))).)))))))))....)))..)).... ( -40.06)
>DroVir_CAF1 12785 117 + 1
CCGUGGUGCUGGAGAGCGGCUCGUAUUGCAGCAGAUCGAUGUAGUAGGCCAGCGCCUGCAUGGAAGCGGGCAGAUAGCUGUUCAGCAGAUUCGCCGGCUGGCCGGGC---GAAAGCAGAC
..((..(((((((.(((((((..(((((((.(.....).)))))))))))...((((((......)))))).....))).)))))))..((((((((....)).)))---))).)).... ( -50.70)
>DroPse_CAF1 15832 120 + 1
UGGUGGUGCUGGAAAGCGGCUCGUACUGCAGCAGGUCGAUGUAGUAGGCCAGCGCCUGCAUGGAUGCGGGCAGGUAGCUGGUCAACAGAUUGGCAGGCUCCGCCGGGCUCAAGAGCAAUC
.(((((.(((.....((((......)))).....((((((.(.((.(((((((((((((.((....)).)))))).))))))).))).)))))).))).)))))..(((....))).... ( -52.50)
>DroMoj_CAF1 11159 117 + 1
CUGUGGUGCUGGACAACGGCUCGUAUUGGAGCAGAUCUAUGUAGUAGGCCAGCGCCUGCAUGGAAGCGGGCAGAUAGCUGUUCAACAGAUUGGCAGGCUGGCCAGGC---GAAAGCAGCC
...((.(((((((.....((((......))))...)))).))).))(((((((((((((......)))))).....(((..((....))..)))..)))))))..((---....)).... ( -47.20)
>DroAna_CAF1 11282 120 + 1
CUGUUGUGCUGGAAAGCGGCUCGUAUUGGAGAAGGUCUAUGUAGUAGGCCAGGGCCUGCAUGGAGGGCGGCAGAUAGCUGGUCAGCAGGUUGGCUGGUUCCACGGGGGACGGCAGGUGAC
((((((((((....)))..(((((...((((..((((..(((.((((((....)))))).....((.((((.....)))).)).)))....))))..)))))))))..)))))))..... ( -47.80)
>DroPer_CAF1 16020 120 + 1
UGGUGGUGCUGGAAAGCGGCUCGUACUGCAGCAGGUCGAUGUAGUAGGCCAGCGCCUGCAUGGAUGCGGGCAGGUAGCUGGUCAACAGAUUGGCAGGCUCCGCCGGGCUCAAGAGCAAUC
.(((((.(((.....((((......)))).....((((((.(.((.(((((((((((((.((....)).)))))).))))))).))).)))))).))).)))))..(((....))).... ( -52.50)
>consensus
CUGUGGUGCUGGAAAGCGGCUCGUACUGCAGCAGGUCGAUGUAGUAGGCCAGCGCCUGCAUGGAAGCGGGCAGAUAGCUGGUCAACAGAUUGGCAGGCUCCACCGGG__CAAAAGCAGAC
((((..(((((.(...(((((.((......)).))))).).)))))((((...((((((......)))))).....(((((((....))))))).))))..))))............... (-28.66 = -29.17 +   0.51)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:31 2006