Locus 1723

Sequence ID 3R_DroMel_CAF1
Location 4,946,253 – 4,946,348
Length 95
Max. P 0.559374
window2834

overview

Window 4

Location 4,946,253 – 4,946,348
Length 95
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 75.70
Mean single sequence MFE -17.16
Consensus MFE -8.44
Energy contribution -9.12
Covariance contribution 0.69
Combinations/Pair 1.09
Mean z-score -2.08
Structure conservation index 0.49
SVM decision value 0.05
SVM RNA-class probability 0.559374
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4946253 95 + 27905053
AAUUGAAUUUUUAUUGAAUGUUGGCGCGGCAUAGCUAGCUGAAACAAAAACAAACCAAA------------ACAACAAAAUGGGGAAUGUUUUGGAAGCCAAAAAAC
.(((.(((....))).))).(((((.((((.......)))).............(((((------------(((.............))))))))..)))))..... ( -18.92)
>DroEre_CAF1 53767 107 + 1
AAUUGAAUUUUUAUUGAAUGUUGGCGCGGCAUAGCUAGCUGAAACAAAAACAAAACAAAAAAUGAAAAAACACAACAAAAUGGAAAAUGUUUUGGAAGCCAAAAAAC
.(((.(((....))).))).(((((.((((.......)))).........(((((((.....((......))((......)).....)))))))...)))))..... ( -15.20)
>DroYak_CAF1 54611 81 + 1
AAUUGAAUUUUUAUUGAAUGUUGGCGCGGCAUAGCUAGCUGAAACAAA--------------------------ACAAAAUGGGGAAUGUUUUGGAAGCCAAAAAAC
.(((.(((....))).))).(((((.((((.......))))...((((--------------------------(((..........)))))))...)))))..... ( -16.10)
>DroAna_CAF1 48704 87 + 1
AAUUGAAUUUUUAUUGAAUGUUGGC--GGCGUAGCCUGUUGAAAUAAAAACU--CCAAAAA--------------AAAAAAGGAGAAU--UUCUGCAGGCAAAAAAA
.......(((((.....((((....--.)))).((((((.(((((.....((--((.....--------------......)))).))--))).))))))))))).. ( -18.40)
>consensus
AAUUGAAUUUUUAUUGAAUGUUGGCGCGGCAUAGCUAGCUGAAACAAAAACA__CCAAA_______________ACAAAAUGGAGAAUGUUUUGGAAGCCAAAAAAC
.(((.(((....))).))).(((((.((((.......))))..................................(((((((.....)))))))...)))))..... ( -8.44 =  -9.12 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:43 2006