Locus 3254

Sequence ID 2L_DroMel_CAF1
Location 9,398,281 – 9,398,373
Length 92
Max. P 0.971430
window5166

overview

Window 6

Location 9,398,281 – 9,398,373
Length 92
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 76.65
Mean single sequence MFE -28.93
Consensus MFE -10.30
Energy contribution -10.55
Covariance contribution 0.25
Combinations/Pair 1.21
Mean z-score -3.09
Structure conservation index 0.36
SVM decision value 1.68
SVM RNA-class probability 0.971430
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9398281 92 + 22407834
AGUCAAUAAGGUGGAACU-------UUGUAAUCCUGCCCACAC---CAGCAACAUUCUGUUGCAACGACAAC-AGCAG------GAGCAGAAGCUUCCAUUGCUGCAAC
.(((.....((((.....-------...............)))---).(((((.....)))))...)))..(-(((((------((((....)))))...))))).... ( -26.35)
>DroSec_CAF1 27084 88 + 1
AGUCAAUAAGGUGGAACU-------UUGUAAUCCUGC-CACAC---CAGCAACAUUCUGUUGCAACGACAGC-AGC---------AGCAGGAGCUUCCAUUGCUGCAAC
.(((.....((((((...-------......))).))-)....---..(((((.....)))))...))).((-(((---------((..((.....)).)))))))... ( -28.00)
>DroSim_CAF1 29156 88 + 1
AGUCAAUAAGGUGGAACU-------UUGUAAUCCUGC-CACAC---CAGCAACAUUCUGUUGCAACGAUAGC-AGC---------AGCAGGAGCUUCCAUUGCUGCAAC
.(((.....((((((...-------......))).))-)....---..(((((.....)))))...))).((-(((---------((..((.....)).)))))))... ( -25.80)
>DroEre_CAF1 27486 88 + 1
AGUCAAUAAGGUGGAACU-------UUGUAAUCCUGC-CACACUAGCAGCAACAUUCUGUUGCAACGACA-------------GCGGCAGCAGUUUCCAUUGCUGCUAC
.........((((((...-------......))).))-)....(((((((((....(((((((..(....-------------)..)))))))......))))))))). ( -29.00)
>DroYak_CAF1 28768 97 + 1
AGUCAAUAAGGUGGAACU-------UUGUAAUCCUGC-CACAC---CAGCAACAUUCUGUUGCAACGACAUC-AGCAGCAGUAGCAGCAGCAGUUGCCAUUGCUGCAAC
.(((.....((((((...-------......))).))-)....---..(((((.....)))))...)))...-.((((((((.(((((....))))).))))))))... ( -35.90)
>DroAna_CAF1 30114 96 + 1
AGUCAAUAAGGUAGAAAUGGUGGCCGUGUGG---UGCCAAAAC---CUGCAACAA-CAGUGGCAGCUACAAAAAGCA------ACUACAACUACUACUACUACUGCCGC
.........(((((...((((((...(((((---(((((....---(((......-))))))).(((......))).------))))))....))))))...))))).. ( -28.50)
>consensus
AGUCAAUAAGGUGGAACU_______UUGUAAUCCUGC_CACAC___CAGCAACAUUCUGUUGCAACGACAAC_AGC________CAGCAGCAGCUUCCAUUGCUGCAAC
.........(((((((................................(((((.....))))).......................((....)))))))))........ (-10.30 = -10.55 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:03 2006