Locus 4453

Sequence ID 3R_DroMel_CAF1
Location 11,785,238 – 11,785,351
Length 113
Max. P 0.584093
window7280

overview

Window 0

Location 11,785,238 – 11,785,351
Length 113
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 89.37
Mean single sequence MFE -20.52
Consensus MFE -18.48
Energy contribution -18.23
Covariance contribution -0.25
Combinations/Pair 1.12
Mean z-score -1.27
Structure conservation index 0.90
SVM decision value 0.10
SVM RNA-class probability 0.584093
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11785238 113 + 27905053
GCCGAUUUAAUUGAGGAUACCGAUGAUUUAAAGUAAUUAAGAGCUUAUAUCGUAGUUUCUUCUAAGUUGGC-UCUAAGUU--UAUAACUAUCUUUACUUUAUC--UUUC-UU-UCCAUUC
(((((((((...(((((.((..(((((...((((........))))..))))).)).))))))))))))))-........--.....................--....-..-....... ( -20.60)
>DroVir_CAF1 148682 104 + 1
GCUGAUUUAAUUGAGGAUACCGAUGAUUUAAAGUAAUUAAGAGCUUAUAUCGUAGUUUCUUCUAAGUUGGC-UCUAAGUU--UAUAAC---------UUAACG--UUUC-UU-UCCAUUC
((..(((((...(((((.((..(((((...((((........))))..))))).)).))))))))))..))-..(((((.--....))---------)))...--....-..-....... ( -19.70)
>DroPse_CAF1 141543 114 + 1
GCCGAUUUAAUUGAGGAUACCGAUGAUUUAAAGUAAUUAAGAGCUUAUAUCGUAGUUUCUUCUAAGUUGGC-UCUAAGUU--UAUAACUAUCUUUAACUUAUC--UUUC-UUUUCCAUUC
(((((((((...(((((.((..(((((...((((........))))..))))).)).))))))))))))))-..((((((--.............))))))..--....-.......... ( -22.22)
>DroGri_CAF1 150827 104 + 1
GCCGAUUUAAUUGAGGAUACCGAUGAUUUAAAGUAAUUAAGAGCUUAUAUCGUAGUUUCUUCUAAGUUGAU-UCUAAGUU--UAUAAC---------UUAACG--UUUC-UU-UCCUUUC
..(((((((...(((((.((..(((((...((((........))))..))))).)).))))))))))))..-..(((((.--....))---------)))...--....-..-....... ( -15.70)
>DroWil_CAF1 96721 119 + 1
GCCGAUUUAAUUGAGGAUACCGAUGAUUUAAAGUAAUUAAGAGCUUAUAUCGUAGUUUCUUCUAAGUUGGCCUCUAAGUUUUUAUAACAAUCUAUACUUUAUUCUUUUCUUU-UCCAUUC
(((((((((...(((((.((..(((((...((((........))))..))))).)).))))))))))))))......(((.....)))........................-....... ( -20.40)
>DroMoj_CAF1 159349 104 + 1
GCCGACUUAAUUGAGGAUACCGAUGAUUUAAAGUAAUUAAGAGCUUAUAUCGUAGUUUCUUCUAAGUUGGC-UCUAAGUU--UAUAAC---------UUAACG--UUUC-UU-UCCAUUC
(((((((((...(((((.((..(((((...((((........))))..))))).)).))))))))))))))-..(((((.--....))---------)))...--....-..-....... ( -24.50)
>consensus
GCCGAUUUAAUUGAGGAUACCGAUGAUUUAAAGUAAUUAAGAGCUUAUAUCGUAGUUUCUUCUAAGUUGGC_UCUAAGUU__UAUAAC_________UUAACG__UUUC_UU_UCCAUUC
(((((((((...(((((.((..(((((...((((........))))..))))).)).))))))))))))))................................................. (-18.48 = -18.23 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:40 2006