Locus 1794

Sequence ID X_DroMel_CAF1
Location 4,963,915 – 4,964,028
Length 113
Max. P 0.591852
window2929

overview

Window 9

Location 4,963,915 – 4,964,028
Length 113
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 83.26
Mean single sequence MFE -23.80
Consensus MFE -22.05
Energy contribution -21.68
Covariance contribution -0.37
Combinations/Pair 1.12
Mean z-score -1.24
Structure conservation index 0.93
SVM decision value 0.12
SVM RNA-class probability 0.591852
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4963915 113 - 22224390
CAACAUCCGUUUCUGGGAUUGCUGCGGCUGUUAUUGCCCCAGCGCCUUUAGCAAUCGCAACCCC------UUUCAAUCUUCUCCACGCCCAUGGACCGCCCCCUUUUUUCGCCC-AUCUU
........(((..((((...((((.(((.......))).)))).......((....))......------.................))))..)))..................-..... ( -22.10)
>DroSec_CAF1 27978 115 - 1
UAACAUCCGUUUCUGGGAUUGCUGCGGCUGCUAUUGCCCCAGCGCCUUUAGCAAUCGCAACCCCUCC---UUCCAACCUUCUGCACGUCCAUGGACCGCCCACUUUUUUCGCCC-AUCU-
........(((..(((((((((((.(((.(((........))))))..))))))))(((........---...........)))....)))..)))..................-....- ( -24.11)
>DroEre_CAF1 30736 111 - 1
CAACAUCCGUUUCUGGGAUUGCUGCGGCUGUUAUUGCCCCAGCGCCUUUGGCAAUCGCAUCCCCUUCA-------UCCUUCUCCACGCCCAUGGACCACCCA-CU-UUCCGCCCCAUCCG
........(((..((((...((((.(((.......))).))))(((...)))................-------............))))..)))......-..-.............. ( -23.90)
>DroYak_CAF1 30463 119 - 1
CAACAUCCGUUCCUGGGAUUGCUGCGGCUGUUAUUGCCCCAGCGCCUUUGGCCAUCGCAUCCCCUUCACCCUUCACCCUUCUCCACGCCCAUGGACCGCCCCCCA-UUCCGCCCUCCCCU
.......((.(((((((...((((.(((.......))).))))(((...)))...................................)))).))).)).......-.............. ( -25.10)
>consensus
CAACAUCCGUUUCUGGGAUUGCUGCGGCUGUUAUUGCCCCAGCGCCUUUAGCAAUCGCAACCCCUUC___UUUCAACCUUCUCCACGCCCAUGGACCGCCCACCU_UUCCGCCC_AUCCU
........((((.((((...((((.(((.......))).))))((.....))...................................)))).))))........................ (-22.05 = -21.68 +  -0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:01 2006