Locus 5377

Sequence ID 3L_DroMel_CAF1
Location 14,785,428 – 14,785,523
Length 95
Max. P 0.847842
window8504

overview

Window 4

Location 14,785,428 – 14,785,523
Length 95
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.12
Mean single sequence MFE -17.23
Consensus MFE -10.68
Energy contribution -11.43
Covariance contribution 0.75
Combinations/Pair 1.20
Mean z-score -1.81
Structure conservation index 0.62
SVM decision value 0.78
SVM RNA-class probability 0.847842
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14785428 95 + 23771897
CAAAGUCAGAACAAUACAUAAAA----------AAAAGACGUAGCUUAAACCGCA--------------AA-AAAAUAGCAUCGUUAGAUGCGCCUCAAGGUCAGCUGAGCAUUUGUAUC
(((((((................----------....)))...(((((....((.--------------..-......(((((....)))))(((....)))..))))))).)))).... ( -16.85)
>DroSec_CAF1 28516 106 + 1
CAUAGUCAGAACAAUACAAAAAAAAAAAUACAAAAAAGACGUAGCUCAAACCGCA--------------AAAAAAAUAGCAUCGUUAGAUGCGCCUCAAGGUCAGCUGAGCAUUUGUAUC
.............(((((((........(((.........)))(((((....((.--------------.........(((((....)))))(((....)))..))))))).))))))). ( -21.40)
>DroSim_CAF1 20725 94 + 1
CAUAGUCAGAACAAUACAAAAAA-----------AAAGACGUAGCUCAAGCCGCA--------------AA-AAAAUAGCAUCGUUAGAUGCGCCUCAAGGUCAGCUGAGCAUUUGUAUC
....(((................-----------...)))...(((((.((....--------------..-......(((((....)))))(((....)))..)))))))......... ( -20.11)
>DroEre_CAF1 27678 90 + 1
CAUAGUUAGAACAAUACAAA--------------AAAUACGAAGCUUA-ACCGCA--------------AA-AAAAUAGCAUCGUUAGACGCGCCUCAAGGUCAGUUGAGUAUUUUUAUC
..................((--------------((((((..((((..-......--------------..-......((.((....)).))(((....))).))))..))))))))... ( -14.20)
>DroYak_CAF1 28593 93 + 1
CAUAGUCAGAACAAUACAAAAA------------AAAUACGAAGCUUAAACCGCA--------------AA-AAAAUAGCAUCGUUAGAUGCGCCUCAAGGUCAGCUGAGCAUUUUUAUC
....................((------------((((.(..((((.........--------------..-......(((((....)))))(((....))).))))..).))))))... ( -16.30)
>DroAna_CAF1 27506 104 + 1
UAUAGUUAUAACAACAACAAA---------------ACAAAAAGCUAAAACCGCAAUCAAAAUAAUAAAAA-AAAAUGACAUCGUUGGUUGCGCCUCAAGGUCAGGCAAACCUUUUUAAU
.....................---------------..((((((........((((((((...........-............))))))))((((.......))))....))))))... ( -14.50)
>consensus
CAUAGUCAGAACAAUACAAAAA____________AAAGACGAAGCUUAAACCGCA______________AA_AAAAUAGCAUCGUUAGAUGCGCCUCAAGGUCAGCUGAGCAUUUGUAUC
...........................................(((((....((........................(((((....)))))(((....)))..)))))))......... (-10.68 = -11.43 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:44 2006