Locus 3633

Sequence ID X_DroMel_CAF1
Location 9,707,372 – 9,707,475
Length 103
Max. P 0.833934
window5945

overview

Window 5

Location 9,707,372 – 9,707,475
Length 103
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 78.95
Mean single sequence MFE -26.23
Consensus MFE -19.81
Energy contribution -19.78
Covariance contribution -0.03
Combinations/Pair 1.14
Mean z-score -1.46
Structure conservation index 0.76
SVM decision value 0.73
SVM RNA-class probability 0.833934
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9707372 103 + 22224390
AGCCCCUCUCUCGAUUACGAAGUUGCCUGUGCGAAAAUAAUCGCAUUUCCGAUUCGCGAUUUGUGAUUAGCGUGCGAUAAACAUUCGCUCGCUUCCUU--UGUGC--------
...............(((((((((((....))))...((((((((..((((...)).))..))))))))(((.((((.......)))).)))...)))--)))).-------- ( -28.00)
>DroSec_CAF1 48820 102 + 1
GCCC-CUCCCUCGAUUACGAAGUUGCCUAUGCGAAAAUAAUCGCAUUUCCGAUUCGCGAUUUGUGAUUAGCGUGCGAUAAACAUUCGCUCGCUUCCUU--UGUGC--------
....-..........(((((((((((....))))...((((((((..((((...)).))..))))))))(((.((((.......)))).)))...)))--)))).-------- ( -28.00)
>DroSim_CAF1 23260 103 + 1
UCCCUCCCCCUCGAUUACGAAGUUGCCUAUGCGAAAAUAAUCGCAUUUCCGAUUCGCGAUUUGUGAUUAGCGUGCGAUAAACAUUCGCUCGCUUUCUU--UGUGC--------
...............(((((((((((....))))...((((((((..((((...)).))..))))))))(((.((((.......)))).)))...)))--)))).-------- ( -27.80)
>DroEre_CAF1 25994 86 + 1
-----------------CGGAGUUGCCUGUGCAAAAAUAAUCGCAUUUCCGAUUCGCGAUUUGUGAUUAGCGUGCGAUAAACAGUCGCUCGCGUCCUU--UGUGC--------
-----------------.((.....)).(..((((..((((((((..((((...)).))..))))))))(((.(((((.....))))).)))....))--))..)-------- ( -27.90)
>DroWil_CAF1 30272 103 + 1
AUGC-GACUU-------UUGUG-UAUUUGUGCAAAAAUAAUCGCAUUUCCGAUUUGCGAUUUGUGAUUAGCGUGCGAUAAACAUUUUCUG-CCUCCGUGCUGUGCUUUUGUGU
((((-...((-------(((..-(....)..))))).((((((((..((........))..)))))))))))).......((((.....(-((........).))....)))) ( -19.30)
>DroYak_CAF1 25339 95 + 1
ACCC-CUCCC-------UUGAGUUGCUUGUGCAAAAAUAAUCGCAUUUCCGAUUCGCGAUUUGUGAUUAGCGUGCGAUAAACAUUCGCUCGCUGCCUU--UGUGC--------
....-(((..-------..)))......(..((((..((((((((..((((...)).))..))))))))(((.((((.......)))).)))....))--))..)-------- ( -26.40)
>consensus
ACCC_CUCCC_______CGAAGUUGCCUGUGCAAAAAUAAUCGCAUUUCCGAUUCGCGAUUUGUGAUUAGCGUGCGAUAAACAUUCGCUCGCUUCCUU__UGUGC________
..............................(((....((((((((..((((...)).))..))))))))(((.((((.......)))).)))..........)))........ (-19.81 = -19.78 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:14 2006