Locus 3612

Sequence ID 3R_DroMel_CAF1
Location 9,748,055 – 9,748,165
Length 110
Max. P 0.573225
window5820

overview

Window 0

Location 9,748,055 – 9,748,165
Length 110
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 87.24
Mean single sequence MFE -38.80
Consensus MFE -31.76
Energy contribution -31.60
Covariance contribution -0.16
Combinations/Pair 1.17
Mean z-score -1.80
Structure conservation index 0.82
SVM decision value 0.08
SVM RNA-class probability 0.573225
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9748055 110 + 27905053
UUGUCCCUGCAGCCCGGAGACCAGAGACCAUUGUGCGCAA---G---ACGGCCCAUUUAAAAUGUGCGCAAAUAGUUGCGCAUGCGCGCAGUUAAUCUGAGCCAGAUACUCGGGGC
...........((((.(((..........((((((((((.---.---......(((.....)))(((((((....)))))))))))))))))..(((((...))))).))).)))) ( -38.90)
>DroPse_CAF1 69980 114 + 1
UUGUCCCAGCCAUCCCAAGACCCCCGACCACUGUGCGAGACGAGGCUUCGGCCCAUUUAAAAUGUGCGCAAAUAGUUGCGCAUGCGCGCAGUUAAUCUGAAGCUGAUGCUGGAU--
.....(((((.(((...((..........((((((((....(.(((....)))).........((((((((....)))))))).))))))))..........))))))))))..-- ( -40.65)
>DroSec_CAF1 71487 103 + 1
UUGUCCCUGCAGCCCGGCG-------ACCAUUGUGCGCAA---G---ACGGCCCAUUUAAAAUGUGCGCAAAUAGUUGCGCAUGCGCGCAGUUAAUCUGUGCCAGAUACUCGGGGC
..(((((.(((((...(((-------((..(((((((((.---.---...............)))))))))...))))))).)))((((((.....)))))).........))))) ( -36.53)
>DroSim_CAF1 71427 103 + 1
UUGUCCCUGCAGCCCGGAG-------ACCAUUGUGCGCAA---G---ACGGCCCAUUUAAAAUGUGCGCAAAUAGUUGCGCAUGCGCGCAGUUAAUCUGAGCCAGAUACUCGGGGC
...........((((.(((-------...((((((((((.---.---......(((.....)))(((((((....)))))))))))))))))..(((((...))))).))).)))) ( -38.90)
>DroEre_CAF1 74646 103 + 1
UUGUCCCUGCAGCCCGGAG-------ACCAUUGUGCGCAA---G---ACGGCCCAUUUAAAAUGUGCGCAAAUAGUUGCGCAUGCGCGCAGUUAAUCUGAGGCAGAUACCCGGGGC
..(((((....(((((((.-------...((((((((((.---.---......(((.....)))(((((((....)))))))))))))))))...)))).))).(.....)))))) ( -39.70)
>DroYak_CAF1 74342 102 + 1
UUGUCCCUGCAGCCCGGAG-------ACCAUUGUGCGCAA---G---ACGGCCCAUUUAAAAUGUGCGCAAAUAGUUGCGCAUGCGCGCAGUUAAUCUG-GACAGAUACUCGGGGC
...........((((.(((-------...((((((((((.---.---......(((.....)))(((((((....)))))))))))))))))..((((.-...)))).))).)))) ( -38.10)
>consensus
UUGUCCCUGCAGCCCGGAG_______ACCAUUGUGCGCAA___G___ACGGCCCAUUUAAAAUGUGCGCAAAUAGUUGCGCAUGCGCGCAGUUAAUCUGAGCCAGAUACUCGGGGC
............(((((............((((((((((..............(((.....)))(((((((....)))))))))))))))))..(((((...)))))..))))).. (-31.76 = -31.60 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:47 2006