Locus 9911

Sequence ID 3R_DroMel_CAF1
Location 26,475,202 – 26,475,316
Length 114
Max. P 0.944879
window15804

overview

Window 4

Location 26,475,202 – 26,475,316
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.44
Mean single sequence MFE -42.85
Consensus MFE -29.50
Energy contribution -29.31
Covariance contribution -0.19
Combinations/Pair 1.38
Mean z-score -1.78
Structure conservation index 0.69
SVM decision value 1.35
SVM RNA-class probability 0.944879
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26475202 114 + 27905053
UCUCACCAUGUGGGACGUGGAGCAGCAGUUCUCUGUGUUCUUCGUGAGA---UCUAGCGAGCA---GGUCCGGGGCGAGCACAAAGAACUGCCUCCCGUUCACCCGAUCAUCCGGUACAA
........(((((((((.((((..((((((((.(((((((.((.((.((---(((.(....))---)))))).)).))))))).)))))))))))))))))..(((......))))))). ( -48.30)
>DroVir_CAF1 89419 111 + 1
AUUAACCAUGUGGGAUGCGGAACGCGACUUUC------ACUUGAUGUAU---ACUGGCAAGGAGCCCGUGGAGGGUGUCUACGAGAAGGAUAACCCCGUUCAUCAGUUCGCUUUUUAUUU
.........(((..(((((...))))..)..)------))((((((..(---((.(((.....))).)))(.((((((((.......)))).)))))...)))))).............. ( -25.00)
>DroSec_CAF1 67170 114 + 1
UCUCACCAUGUGGGACGUGGAGCAGCAGUUCUCUGUGUUCUUCGUGAGA---UCUAGCGAGCA---GGUCCAGGGCGAGCACAAAGAACUGCCUCCCGUUCACCCGAUCAUCCGCUACAA
........(((((((((.((((..((((((((.(((((((.((.((.((---(((.(....))---)))))).)).))))))).))))))))))))))))....((......))))))). ( -45.40)
>DroSim_CAF1 67623 114 + 1
UCUCACCAUGUGGGACGUGGAGCAGCAGUUCUCUGUGUUCUUCGUGAGA---UCUAGCGAGCA---GGUCCAGGGCGAGCACAAAGAACUUCCUCCCGUUCACCCGAUAAUCCGCUACAA
........(((((((((.((((....((((((.(((((((.((.((.((---(((.(....))---)))))).)).))))))).))))))..))))))))....((......))))))). ( -39.00)
>DroEre_CAF1 75339 114 + 1
GCUCACCAUGUGGGACGUGGAGCGGCAGUUCUCUGUGUUCUUCGUGAGA---CCCAGCGAGCU---GGCCCAGGGUGAGCACAAAGAACUGCCGCCCGUUCACCCGACCUUCCGGUACAA
........((((((...(((.(((((((((((.(((((((.((.((.(.---.((((....))---)).))).)).))))))).))))))))))))))....))).(((....)))))). ( -51.30)
>DroYak_CAF1 71566 117 + 1
GCUCACCAUGUGGGACGUGGAGCGGCAGUUCUCUGUGUUCUUCGUGCGACCACCCAGCGAGCA---GGCCCAGGAUGAGCACAGGGAACUGCCUCCCGUUCACCCGACCUUCCGCUACAA
((.(((...)))(((((.(((..(((((((((((((((((.((.((.(.((............---)).))).)).)))))))))))))))))))))))))............))..... ( -48.10)
>consensus
UCUCACCAUGUGGGACGUGGAGCAGCAGUUCUCUGUGUUCUUCGUGAGA___UCUAGCGAGCA___GGUCCAGGGCGAGCACAAAGAACUGCCUCCCGUUCACCCGAUCAUCCGCUACAA
........(((((((((.((((..((((((((.(((((((.((.((........................)).)).))))))).)))))))))))))))))...((......)).)))). (-29.50 = -29.31 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:44:43 2006