Locus 3409

Sequence ID 2L_DroMel_CAF1
Location 9,871,303 – 9,871,406
Length 103
Max. P 0.666014
window5395

overview

Window 5

Location 9,871,303 – 9,871,406
Length 103
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 84.67
Mean single sequence MFE -34.33
Consensus MFE -22.84
Energy contribution -23.37
Covariance contribution 0.53
Combinations/Pair 1.04
Mean z-score -3.07
Structure conservation index 0.67
SVM decision value 0.28
SVM RNA-class probability 0.666014
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9871303 103 + 22407834
CGAG--AAAUGCAGUAAUUGAAAUACAUGUGGCGAUGGCGGCAUCGAGGCUGCGUGU------------GGCAUGAGCUGCUAUGCCGCGAUGCCGCAAAAAAAAAAACGAAA-AAUA
((..--.......(((.......))).((((((.((.(((((((.(.((((.((((.------------..)))))))).).))))))).))))))))..........))...-.... ( -32.90)
>DroSec_CAF1 79591 99 + 1
CGAG--AAAUGCAGUAAUUGAAAUACAUGCGACGAUGGCGGCAUCGUGGCUGCGUGU------------GGCAUGAGCUGCUAUGCCGCGAUGCCGCAAAA----CAACGAAA-AAUA
((..--...(((((((.......))).))))......(((((((((((((.....(.------------.((....))..)...)))))))))))))....----...))...-.... ( -38.80)
>DroSim_CAF1 86348 99 + 1
CGAG--AAAUGCAGUAAUUGAAAUACAUGCGGCGAUGGCGGCAUCGUGGCUGCGUGU------------GGCAUGAGCUGCUAUGCCGCGAUGCCGCAAAA----CAACGAAA-AAUA
((.(--...(((((((.......))).)))).)....(((((((((((((.....(.------------.((....))..)...)))))))))))))....----...))...-.... ( -38.90)
>DroEre_CAF1 84309 91 + 1
CGAG--AAAUGCAGUAAUUGAAAUACAUGCGGCGAUGGCGGCAUCGAGGCUGCGUGU------------GGCAUGAGCUGCUAUGCCG--------CAAUA----CAACGAAA-AAUA
((..--.......(((.......))).((((((.((((((((.(((..((((....)------------))).)))))))))))))))--------))...----...))...-.... ( -29.10)
>DroYak_CAF1 83402 93 + 1
CGAGUAAAAUGCAGUAAUUGAAAUACAUGCGGCGAUGGCGGCAUCGAGGCUGCGUGU------------GGCAUGAGCUGCUAUGCCG--------CAAAA----CAACGGAA-AAUA
((...........(((.......))).((((((.((((((((.(((..((((....)------------))).)))))))))))))))--------))...----...))...-.... ( -29.30)
>DroAna_CAF1 86754 108 + 1
CGAG--AAAUGCAGUAAUUGAAAUACAUGCGGC---GGCGGCAUCGAGGCUGCGAGUGGCGUGUGGCAUGGCAUGAGCUGCGAUGC-GCGAUUCCACGAAA----CAACGGGAUAAUA
....--...(((...........(((((((.((---.(((((......)))))..)).)))))))((((.(((.....))).))))-)))..(((.((...----...)))))..... ( -37.00)
>consensus
CGAG__AAAUGCAGUAAUUGAAAUACAUGCGGCGAUGGCGGCAUCGAGGCUGCGUGU____________GGCAUGAGCUGCUAUGCCGCGAUGCCGCAAAA____CAACGAAA_AAUA
((.......(((((((.......))).))))......(((((((.(..(((.(((((.............))))))))..).)))))))...................))........ (-22.84 = -23.37 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:46 2006