Locus 9705

Sequence ID 3R_DroMel_CAF1
Location 25,665,229 – 25,665,332
Length 103
Max. P 0.950431
window15503

overview

Window 3

Location 25,665,229 – 25,665,332
Length 103
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 75.65
Mean single sequence MFE -25.58
Consensus MFE -11.28
Energy contribution -11.80
Covariance contribution 0.52
Combinations/Pair 1.11
Mean z-score -2.21
Structure conservation index 0.44
SVM decision value 1.40
SVM RNA-class probability 0.950431
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25665229 103 + 27905053
UUUCAUAAAAGAAAUUGGC--GGCAAUAAAAGAAAUUAUAAAUUAUAAUUGCAAUCAUAAGACUG---------AGCUGCUUACGGGCAGAAGUGGAGCUCUGCCAAA-GUGAAG
.(((((..........(((--(((.......(.(((((((...))))))).)..(((......))---------)))))))....((((((........))))))...-))))). ( -23.80)
>DroSec_CAF1 11734 99 + 1
UUUCAUAAAUGAAAUUGGC--GGCAAUAAAAGAAAUUAAAAAUUAUAAUUGCAA---UAAUACUG---------AGCUGCUUACGGGCAGAAGUGGAGCUCUGCCA-A-GUGAAG
.(((((..........(((--(((.....((....))....(((((.......)---))))....---------.))))))....((((((........)))))).-.-))))). ( -21.00)
>DroSim_CAF1 13095 99 + 1
UUUCAUAAAUGAAAUUGGC--GGCAAUAAAAGAAAUUAAAAAUUAUAAUUGCAA---UAAGACUG---------AGCUGCUUACGGGCAGAAGUGGAGCUCUGCCA-A-GUGAAG
.(((((..........(((--(((.....((....)).....((((.......)---))).....---------.))))))....((((((........)))))).-.-))))). ( -20.00)
>DroEre_CAF1 11907 92 + 1
-----G----GCUUUCGGCGGGGCAAUAAAAGAAAUUUCAAAUUAUAAUUGCGAUCAUAAGUCUGC--------UGCUGCUUAUGAGCAGAAGUAGAGCUCG------GCCAAAG
-----.----.((((.(((.((((....(((....))).......................(((((--------(.(((((....))))).)))))))))).------))))))) ( -28.10)
>DroYak_CAF1 12508 111 + 1
UUUCAG----GCUUUCGGCGGGGCAAUAAAAGAAAUUAACAAUUAUAAUUGCAAUCAUAAGUCGGGUGAGUGAGUGCUGCUUAUGAGCAGAAGUAGAGCUCUGCCGCUGCCAAAG
.....(----((...(((((((((.....((....)).....((((..((((..((((((((..(((........)))))))))))))))..)))).)))))))))..))).... ( -35.00)
>consensus
UUUCAUAAA_GAAAUUGGC__GGCAAUAAAAGAAAUUAAAAAUUAUAAUUGCAAUCAUAAGACUG_________AGCUGCUUACGGGCAGAAGUGGAGCUCUGCCA_A_GUGAAG
...............((((..(((.......(.(((((.......))))).)........................(((((....))))).......)))..))))......... (-11.28 = -11.80 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:40:15 2006