Locus 3407

Sequence ID 3R_DroMel_CAF1
Location 9,236,075 – 9,236,183
Length 108
Max. P 0.557402
window5469

overview

Window 9

Location 9,236,075 – 9,236,183
Length 108
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 79.43
Mean single sequence MFE -26.60
Consensus MFE -15.80
Energy contribution -16.22
Covariance contribution 0.42
Combinations/Pair 1.12
Mean z-score -1.59
Structure conservation index 0.59
SVM decision value 0.05
SVM RNA-class probability 0.557402
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9236075 108 + 27905053
AGCAUUUUGCCAUCUGGCAAAGGACCCGCACGCAGGACAUUCUUAUGCACGGAGAAAACUCUGUAAAAUAAAGAGAUACAAUUAGAUAUUACUAA--UUUUUGCUUU--AAA
.((..((((((....))))))(....)))..((((((..(((((((..((((((....))))))...)).))))).....(((((......))))--)))))))...--... ( -23.50)
>DroPse_CAF1 7085 103 + 1
AGCAUCUUUCCGUCGGGCAGUGGUCCGGCACGCAGCACAUUCUUGUGCACCGAAAAAACACUAGAAGCGAACGGUAAUGGAUAAG-----GAGAA--UCCUAGGCUU--AGA
(((((((..(((((((((....))))))).(((.(((((....)))))...(......).......)))...))....)))).((-----(....--.)))..))).--... ( -30.20)
>DroSec_CAF1 6990 108 + 1
AGCAUUUUGCCAUCUGGCAAAGGACCCGCACGCAGGACAUUCUUGUGCACGGAGAAAACUCUGGAAAAUAAAGAGACAAAAUUAGAUAUUACUAA--UAUUGGGUUU--AAA
.....((((((....))))))(((((((((((.(((....)))))))).(((((....))))).................(((((......))))--)...))))))--... ( -28.90)
>DroSim_CAF1 6791 108 + 1
AGCAUUUUGCCAUCUGGCAAAGGACCCGCACGCAGGACAUUCUUGUGCACGGAGAAAACUCUGGAAAAUAAAGAGACAAAAUUAGAUAUUACUAA--UUUUGGGUUU--AAA
.....((((((....))))))(((((((((((.(((....)))))))).(((((....)))))..............((((((((......))))--))))))))))--... ( -31.60)
>DroEre_CAF1 7819 112 + 1
AGCAUUUUGCCAUCUGGCAAAGGACCCGCACGCAGGACGUUCUUGUGCACGGAGAAAACUCUGGAAAAUAAAAAGACAACAUUAGCUAUUAUUACUAUUUUUGAUUCGGAAA
(((.(((((((....))))))).....(((((.(((....)))))))).(((((....))))).....................)))......................... ( -22.80)
>DroYak_CAF1 7156 105 + 1
AGCAUCUUGCCGUCUGGCAAAGGACCCGCACGCAGGACAUUCUUGUGCACGGAGAAAACUCUGGAAAAUAAAUGGAUAACAUAAGCUAUUGUAACUAUUUUGGAU-------
(((...(((((....))))).....(((((((.(((....)))))))).(((((....)))))..........)).........)))..................------- ( -22.60)
>consensus
AGCAUUUUGCCAUCUGGCAAAGGACCCGCACGCAGGACAUUCUUGUGCACGGAGAAAACUCUGGAAAAUAAAGAGACAAAAUUAGAUAUUACUAA__UUUUGGGUUU__AAA
....(((((((....)))))))...(((..((((((.....))))))..)))............................................................ (-15.80 = -16.22 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:14 2006