Locus 3042

Sequence ID 3L_DroMel_CAF1
Location 8,734,430 – 8,734,542
Length 112
Max. P 0.823606
window4753

overview

Window 3

Location 8,734,430 – 8,734,542
Length 112
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 81.68
Mean single sequence MFE -43.08
Consensus MFE -29.39
Energy contribution -29.78
Covariance contribution 0.39
Combinations/Pair 1.26
Mean z-score -2.22
Structure conservation index 0.68
SVM decision value 0.69
SVM RNA-class probability 0.823606
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8734430 112 - 23771897
AUGAG------CACCCAUUACUUCUGGGUAGAGAUAGGGCUUCAGAUGACUUCCCUGAACUCACGUUUCCAUUGGUUCUUGGAGGAGACAGCGCUUCUGAGGACUUGGCUGAGCUCAC
.((((------((((((.......))))).(((.(((((..((....))...)))))..)))......(((..((((((..((((.(....).))))..)))))))))....))))). ( -37.20)
>DroSec_CAF1 1039 112 - 1
AUGAG------CACCCAUUACUUCUGGGUGGAGAUAGGGCUUCAGAUGACUUCCCUGAACUCAAAUUUCCAUUGGUUCUUGGAGGGGACAGCGCUUCUGAGGACUUGGCUGAGCUCAC
.((((------((((((.......)))))((((((..(..(((((.........)))))..)..))))))...((((((..((((.(....).))))..)))))).......))))). ( -39.90)
>DroSim_CAF1 1042 112 - 1
AUGAG------CACCCAUUACUUCUGGGUGGAGAUAGGGCUUCAGAUGACUUCCCUGAACUCACAUUUCCAUUGGUUCUUGGAGGGGACAGCGCUUCUGAGGACUUGGCUGAGCUCAC
.((((------((((((.......)))))((((((.(((.(((((.........))))))))..))))))...((((((..((((.(....).))))..)))))).......))))). ( -40.00)
>DroEre_CAF1 1041 118 - 1
UUGAGCUUAUACACCCAUUACUUCUGGGUGGCGAUAGUGCUUCAGAUGAUUUUCCUGAACUCACAUUUCCAUUGGUUCUCGGAGGGGAUAGCGCUUCUGAGGACUUGGCUGAGCUCAC
.((((((((..((((((.......))))))......(((.(((((.........)))))..)))....(((..((((((((((((.(....).))))))))))))))).)))))))). ( -44.50)
>DroYak_CAF1 1042 118 - 1
AUGAGCUUAUGCACCCAUUACUUCUGGGUGGCGAUAGAGCUUCAGAUGAUUUCCCUGAGCUCACAGUGCCAUUGGUUCUCGGAGGGGAUAGCGCUUCUGAGGACUUGGCUGAGCUCAC
.((((((((((((((((.......))))).)))...(((((.(((.........)))))))).....((((..((((((((((((.(....).)))))))))))))))))))))))). ( -52.50)
>DroAna_CAF1 1033 118 - 1
CGGGCGUCAAGGAGCCAUUGGUUCGUGCCGGCGAAAGGGCUUCUGAGAAUUUUCCAGGCGUCAAGGAGCCAUUAGCCCUUGCUGGGGAAUGGGAUUCCGAGGACUUGGCCGAGCUCAC
.((((.((.(((((((.(((((....)))))(....))))))))............((((((..(((((((((..(((.....))).)))))..))))...)))...))))))))).. ( -44.40)
>consensus
AUGAG______CACCCAUUACUUCUGGGUGGAGAUAGGGCUUCAGAUGACUUCCCUGAACUCACAUUUCCAUUGGUUCUUGGAGGGGACAGCGCUUCUGAGGACUUGGCUGAGCUCAC
...........((((((.......))))))......(((((((((.........))))..........(((..((((((((((((.(....).)))))))))))))))...))))).. (-29.39 = -29.78 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:13 2006