Locus 7388

Sequence ID 3L_DroMel_CAF1
Location 19,844,693 – 19,844,804
Length 111
Max. P 0.976328
window12002

overview

Window 2

Location 19,844,693 – 19,844,804
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.73
Mean single sequence MFE -46.00
Consensus MFE -26.00
Energy contribution -25.92
Covariance contribution -0.08
Combinations/Pair 1.38
Mean z-score -2.45
Structure conservation index 0.57
SVM decision value 1.77
SVM RNA-class probability 0.976328
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19844693 111 + 23771897
AGGAAGAUUGCCGAGUUGCAGGCACAGAUCAGGGCCAAGCUUACUGGCAAUUUGGCUAGUUUGAUUCA------GCCCACUGCGGUAGCGGCCGCCGCUGCAGCUGCUGCUCAA---GCG
.........((((((((((.(((.(......).))).((....)).))))))))))..((((((..((------((...((((((..((....))..))))))..)))).))))---)). ( -44.00)
>DroPse_CAF1 30241 111 + 1
AGAAAGAUCGCAGAGCUGCAGGCCCAGAUACGUGCCAAGCUAACGGGCAAUCUGGCCAACCUCAUCCA------ACCCACAGCCGUGGCGGCUGCCGCUGCAGCUGCUGCCCAG---CAG
.........(((((((((((((((.((((...((((.........))))))))))))...........------.....((((((...))))))....))))))).))))....---... ( -42.20)
>DroGri_CAF1 31734 120 + 1
AAGAAGAUUGCCGAAUUGCAGGCGCAGAUACGCGCCAAGCUAACGGGCAAUUUGGCCAAUCUUAUACAGCAGCAGCCAACGGCGGUUGCAGCUGCUGCUGCCGCUGCCGCCCAGCAACAG
...((((((((((((((((.(((((......)))))...(....).))))))))).)))))))...((((((((((((((....))))..))))))))))..((((.....))))..... ( -57.80)
>DroYak_CAF1 28548 111 + 1
AGGAAGAUUGCCGAAUUGCAGGCGCAGAUCAGGGCCAAGCUUACUGGUAAUUUGGCCAGUUUGAUUCA------GCCAACUGCAGUGGCGGCCGCCGCUGCAGCCGCCGCUCAG---GCG
.((.....(((......)))(((...(((((.(((((((.(((....))))))))))....)))))..------)))..((((((((((....))))))))))))(((.....)---)). ( -47.90)
>DroAna_CAF1 28985 108 + 1
AGGAAGAUAGCCGAACUACAGGCGCAGAUUCGGGCCAAACUAACUGGCAACCUAGCUAGUCUCAUCCA------GCCCU---CAGUAGCGGCAGCAGCUGCCGCUGCGGCUCAA---GCU
..(((....(((........))).....)))(((((......((((((......))))))........------.....---..((((((((((...)))))))))))))))..---... ( -41.90)
>DroPer_CAF1 30479 111 + 1
AGAAAGAUCGCAGAGCUGCAGGCCCAGAUACGUGCCAAGCUAACGGGCAAUCUGGCCAACCUCAUCCA------ACCCACAGCCGUGGCGGCUGCCGCUGCAGCUGCUGCCCAG---CAG
.........(((((((((((((((.((((...((((.........))))))))))))...........------.....((((((...))))))....))))))).))))....---... ( -42.20)
>consensus
AGGAAGAUUGCCGAACUGCAGGCGCAGAUACGGGCCAAGCUAACGGGCAAUCUGGCCAAUCUCAUCCA______GCCCACAGCAGUGGCGGCUGCCGCUGCAGCUGCUGCCCAG___CAG
.........((......)).(((.(((((....(((.........))).))))))))..........................(((((((((.((....)).)))))))))......... (-26.00 = -25.92 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:43 2006