Locus 7375

Sequence ID 3L_DroMel_CAF1
Location 19,803,974 – 19,804,083
Length 109
Max. P 0.594146
window11979

overview

Window 9

Location 19,803,974 – 19,804,083
Length 109
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 83.45
Mean single sequence MFE -28.32
Consensus MFE -16.23
Energy contribution -16.97
Covariance contribution 0.75
Combinations/Pair 1.14
Mean z-score -2.17
Structure conservation index 0.57
SVM decision value 0.12
SVM RNA-class probability 0.594146
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19803974 109 + 23771897
UAAUAAGCGCGAGAAAUCAAACAUGGUGGGAGUGCCCCUCCCAUGGAAACAACAAUAUUUAUGACAAAUGCGCCCGGAUGGGGCAGGAAAUAAA-AAAGAAAAGAGG----------CAU
......((((((....))...(((((((((((.....)))))))(....).........))))......))((((.....))))..........-...........)----------).. ( -28.60)
>DroSim_CAF1 33552 118 + 1
UAAUAAGCGCGAGAAAUCAAACAUGGUGGGAGUGCCCCUUCCAUGGAAACAACAAUAUUUAUGACAAAUG--CCCGGAUGGGGCAGGAAAUAAAAAAAGAAAAGAGGAGAACGCUGACAU
.....((((.((....))...(((((.(((.....)))..)))))............(((((..(...((--(((.....))))).)..))))).................))))..... ( -28.50)
>DroEre_CAF1 6369 112 + 1
UAAUAAAGGCGAGAAAUCAAACAUGGG-GGUGUGCCCCUUCCAUGGAAACAAGAAUUAUUAUGACAAACG--CCCGGAUGGGGCAGGGAA-----AAUGAAAAGAGGAGAACGUUGGCAC
........((((....)).(((..(((-((....)))))(((.((....))..................(--(((.....))))......-----..........)))....))).)).. ( -27.50)
>DroYak_CAF1 14958 113 + 1
UAAUAAAGGCGAGAAAUCAAACAUGGGCGGAGUGCCCCUCUCAUGGAAACAACAAUAAUUAUGACAAACG--CCCGGAUGGGGCAGGGAA-----AAUAAAAAGAGGAGAGCGUUGGCAC
........((((....)).(((..((((.....))))(((((.((....))..................(--(((.....))))......-----...........))))).))).)).. ( -28.70)
>consensus
UAAUAAACGCGAGAAAUCAAACAUGGGGGGAGUGCCCCUCCCAUGGAAACAACAAUAAUUAUGACAAACG__CCCGGAUGGGGCAGGAAA_____AAAGAAAAGAGGAGAACGUUGGCAC
........((...........(((((((((......)))))))))...........................(((....))))).................................... (-16.23 = -16.97 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:21 2006