Locus 3323

Sequence ID 2R_DroMel_CAF1
Location 11,323,273 – 11,323,384
Length 111
Max. P 0.653202
window5436

overview

Window 6

Location 11,323,273 – 11,323,384
Length 111
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 66.46
Mean single sequence MFE -27.20
Consensus MFE -12.12
Energy contribution -13.16
Covariance contribution 1.04
Combinations/Pair 1.19
Mean z-score -1.71
Structure conservation index 0.45
SVM decision value 0.25
SVM RNA-class probability 0.653202
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11323273 111 - 20766785
GUGC-GGCAUCGCUUAGGUGAUAGGUUAAGCGACUA-GGGGAUACCCUGGAGCGCAAUGAAAAUGAGUUUA-AAACUAAACUACUCCAGUUUUAAUAAAUAA-----GCUUAAAUAGAG
((((-....((((((((.(....).))))))))(((-(((....)))))).))))........((((((((-.....(((((.....))))).......)))-----)))))....... ( -32.20)
>DroSec_CAF1 110682 106 - 1
GUGC-GGCAACGCUUAGUUGAUAGGUUAAGCGACUA-GGAGAUACCCUGUAGCGCAAUUAAUAUGG------AGAGUGAACUACCCUACUUUAAAUAUUUGA-----GCUAUAAUACUG
..((-(....))).((((..((((.(((((((..((-((......))))...))).....((((..------((((((........))))))..))))))))-----.))))...)))) ( -27.10)
>DroSim_CAF1 114528 106 - 1
GUGC-GGCACCGCUUAGGUGAUAGGUUAAGCGACUA-GGGGAUACCCUGUAGCGCAAUUAAUAUGG------AGAGUAAGCUACUCUACUUUAAAUGCAUAA-----ACUAUAAUACUG
..((-(....)))...((((((((.....((.((.(-(((....)))))).))(((.((((..(((------((((....)).)))))..)))).)))....-----.))))..)))). ( -30.60)
>DroEre_CAF1 111883 113 - 1
GUGCAGGCACCCC-UAAUUGAAUAGUUAAGCGACAGCGGGGAUACCCUGUAGCGCAACAUACACGUAUAUGGAGCAAUAUAUACGCCUCUCUUAAUAAAC-----UCAUCUUAAUAACU
(.(.((((.....-...............(((.(.((((((...)))))).)))).........(((((((......)))))))))))).).........-----.............. ( -24.90)
>DroYak_CAF1 113373 101 - 1
GAGCAGGCACCCCUUAAGUGAAUGCUGAAGCGACAGCGGGGAUACCCUGUAGCGCAACAU------------------AUAUAUGCCACUUUUAAUAAACAACUUCCACUACAAUAACU
.((((..(((.......)))..))))...(((.(.((((((...)))))).)))).....------------------......................................... ( -21.20)
>consensus
GUGC_GGCACCGCUUAGGUGAUAGGUUAAGCGACUA_GGGGAUACCCUGUAGCGCAAUAAAUAUGG______AGAGUAAACUACGCCACUUUUAAUAAAUAA_____ACUAUAAUAACG
((((......(((((((((....))))))))).....(((....)))....))))................................................................ (-12.12 = -13.16 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:42 2006