Locus 2779

Sequence ID 2R_DroMel_CAF1
Location 9,718,193 – 9,718,301
Length 108
Max. P 0.656018
window4598

overview

Window 8

Location 9,718,193 – 9,718,301
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.13
Mean single sequence MFE -28.85
Consensus MFE -22.35
Energy contribution -22.52
Covariance contribution 0.17
Combinations/Pair 1.18
Mean z-score -0.84
Structure conservation index 0.77
SVM decision value 0.26
SVM RNA-class probability 0.656018
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9718193 108 + 20766785
U----AUCC-------CCUUUA-UCCUAUAAUAGCUUACCCAACAUCUUGCUGAGGUCGGCAUUAUGCAGAUCGGGAUUCUCGUCGGCCAGCUUCUUGCGCUCGAUCUUGGCCCAGACCA
.----((((-------(....(-((.((((((.(((.(((((.(.....).)).))).)))))))))..))).)))))....(((((((((..((........))..))))))..))).. ( -28.50)
>DroVir_CAF1 33945 104 + 1
--------ACUAGAAUGAGCU------GU--GUACUUACCCAACAUCUUGCUGAGAUCUGCAUUAUGCAGGUCGGGAUUCUCGUCGGCCAGCUUCUUGCGCUCGAUCUUAGCCCACACCA
--------........(((.(------((--...........))).)))(((((((((((((....((.(((((((.....).)))))).))....))))...)))))))))........ ( -28.30)
>DroGri_CAF1 36296 112 + 1
--------UCUAAAAUAAUAAGUAGGAAUAGUAACUUACCCAACAUUUUGCUGAGAUCGGCAUUAUGCAGGUCAGGAUUCUCGUCGGCCAGCUUCUUGCGCUCGAUUUUGGCCCACACCA
--------................((........(((..((..(((..(((((....)))))..)))..))..)))......((.((((((..((........))..)))))).)).)). ( -28.30)
>DroEre_CAF1 28885 103 + 1
UUCAGAUCUGUGAAAUA-----------------CUUACCCAACAUCUUGCUGAGGUCGGCAUUAUGCAGGUCGGGAUUCUCGUCGGCCAGCUUCUUGCGCUCGAUCUUGGCCCAGACCA
((((......))))...-----------------...........(((.((..((((((((........(((((((.....).)))))).((.....)))).))))))..))..)))... ( -28.90)
>DroMoj_CAF1 35687 91 + 1
---------------------------GU--CCACUUACCCAACAUCUUGCUGAGAUCGGCAUUGUGCAGAUCGGGAUUCUCGUCGGCCAGCUUCUUGCGCUCGAUCUUGGCCCAGACCA
---------------------------..--..............(((.((..((((((((..((.((.((.((((...)))))).))))((.....)))).))))))..))..)))... ( -27.30)
>DroPer_CAF1 28049 105 + 1
UUCAG------GGAAUG---------AUUAGACGCUCACCCAACAUCUUGCUGAGGUCUGCGUUAUGCAGGUCGGGAUUCUCGUCGGCCAGCUUCUUGCGCUCGAUCUUGGCCCAAACCA
....(------((..((---------(........))))))........((..(((((.((((...((.(((((((.....).)))))).)).....))))..)))))..))........ ( -31.80)
>consensus
_____________AAUA__________AU__UAACUUACCCAACAUCUUGCUGAGAUCGGCAUUAUGCAGGUCGGGAUUCUCGUCGGCCAGCUUCUUGCGCUCGAUCUUGGCCCAGACCA
.................................................(((((((((((((....((.(((((((.....).)))))).))....)))...))))))))))........ (-22.35 = -22.52 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:14 2006