Locus 6658

Sequence ID 2L_DroMel_CAF1
Location 18,681,216 – 18,681,335
Length 119
Max. P 0.523848
window10621

overview

Window 1

Location 18,681,216 – 18,681,335
Length 119
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 73.17
Mean single sequence MFE -48.27
Consensus MFE -22.01
Energy contribution -24.32
Covariance contribution 2.31
Combinations/Pair 1.34
Mean z-score -1.72
Structure conservation index 0.46
SVM decision value -0.02
SVM RNA-class probability 0.523848
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18681216 119 + 22407834
GGAGGAGUGAUUUUCUUGAUGCCUCGCCUCGGCAGCAGUGGUGGGUAUUUUUUUGCUAGCCAACGUUGCCACCGGCUCAGCCAGUGCCUUGGACCUGGCUAUGGAGGUUGGCGCUUCGA
((((((....))))))(((.((((.(((((((((((..((((.((((......)))).))))..))))))........((((((..(....)..))))))...))))).)).)).))). ( -48.60)
>DroVir_CAF1 9973 119 + 1
CGAUGAAUUCAUCUCCUGAUGUCGCGCCUCGGCGGCGGUUGUGGGCAGCUUUUUGCUGGCCAACGUCGCCACGGGCGCAGCCUGCGCCUUGGCUCGGGCAUCCGCUGUCGGCGCAUGUA
.((((....))))..........(((((..((((((((.(((((.((((.....)))).))..((..((((.((((((.....)))))))))).)).))).)))))))))))))..... ( -61.50)
>DroPse_CAF1 8448 119 + 1
CGAAGAGUUCAUCUCCUGAUGCCUGGAUUCGGCUGCGGUGAGAGGUAUCUUUUUGCUAGCUAACGUGGCCACCGGCACUGCCUCAGCCUUCGCCCGGGCAAUGGCUGUCAGUGCUUUCA
.((((((((((((....))))....)))))(((..((...((.((((......))))..))..))..)))...(((((((...(((((...((....))...))))).)))))))))). ( -44.20)
>DroMoj_CAF1 8928 119 + 1
UGAUGAAUUCAUCUCCUGAUGCCGCGCCUCUGCCGCCGAUGUGGGCAGCUUUUUGCUGGCCAAUGUUGCCACAGGCAUAGCCUCCGCUCUGAGCCGGGCAAUCGCCGUCUCGCCGUGCA
.((((....))))......(((((.((....(.((.((((.(((.((((.....)))).)))....((((...(((..(((....)))....))).)))))))).)).)..)))).))) ( -39.10)
>DroAna_CAF1 6125 119 + 1
UGAGGAGUUCAUCUCCUGAUGUCUGGCCUCCUUUGCAUUGGUAGGUAGUUUUUUGCUCGCUAACGUGGCCACAGGCACUGCCAGCGCCUUGGCCUUGCCGAUGGAGGUCUGGGCAUGAA
..(((((.....))))).(((((..((((((((.(((((((..(((((....)))))..))))...(((((.((((.(.....).))))))))).))).)).))))).)..)))))... ( -52.00)
>DroPer_CAF1 8460 119 + 1
CGAAGAGUUCAUCUCCUGAUGCCUGGAUUCGGCUGCGGUGAGAGGUAUCUUUUUGCUAGCUAACGUGGCCACCGGCACUGCCUCAGCCUUCGCCCGGGCAAUGGCUGUCAGUGCUUUCA
.((((((((((((....))))....)))))(((..((...((.((((......))))..))..))..)))...(((((((...(((((...((....))...))))).)))))))))). ( -44.20)
>consensus
CGAAGAGUUCAUCUCCUGAUGCCUCGCCUCGGCUGCGGUGGUAGGUAGCUUUUUGCUAGCCAACGUGGCCACCGGCACAGCCUCCGCCUUGGCCCGGGCAAUGGCUGUCAGCGCUUGCA
.((((....((((....)))).....))))((((((..((((.((((......)))).))))..))))))...((((..(((...(((........)))...))))))).......... (-22.01 = -24.32 +   2.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:39 2006