Locus 3885

Sequence ID 3R_DroMel_CAF1
Location 10,569,555 – 10,569,660
Length 105
Max. P 0.997907
window6228

overview

Window 8

Location 10,569,555 – 10,569,660
Length 105
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 73.24
Mean single sequence MFE -31.58
Consensus MFE -18.53
Energy contribution -19.73
Covariance contribution 1.20
Combinations/Pair 1.38
Mean z-score -3.03
Structure conservation index 0.59
SVM decision value 2.96
SVM RNA-class probability 0.997907
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10569555 105 + 27905053
CAGCUUCGGUUUUUCCCGAAGCUACACACAUUUUCAUGGU-----CUGGAAAAGUCGAUGGGAAUGGUU--------AGAAGAGACAUCCUAUUGUUCAUUUCCUCAAAACAUGAUAC
.((((((((......))))))))..........(((((..-----..(((((.(.((((((((...(((--------......))).))))))))..).)))))......)))))... ( -33.10)
>DroPse_CAF1 22114 103 + 1
GGUUUUUGGUUUUCUUUUCGGCAAUUUGGUUUCUUCUGGUAGUCGCUGGAAAAGAGGGAGAGAUUUGUUUUGCCAAAAGUAGAGCCAUUUUGAUAAUGAUUUA---------------
......((((((((((((.(((((...((((((((((.....((....)).....))))))))))....)))))))))).)))))))................--------------- ( -29.30)
>DroSec_CAF1 18437 105 + 1
CAGCUUCGGAUUUUCCCGAAGCUACACACAUUUUCAUGGU-----CUGGAAAAGUCGAUGGGAACGGUU--------AGAAGAGUCAUCCUAUUGUUCAUUUCCUCAAAACAUGAUUA
.((((((((......))))))))..........(((((..-----..(((((.(.((((((((((....--------......))..))))))))..).)))))......)))))... ( -31.40)
>DroSim_CAF1 18724 105 + 1
CAGCUUCGGAUUUUCCCGAAGCUACACACAUUUUCAUGGU-----CUGGAAAAGUCGAUGGGAACGGUU--------AGAAGAGGCAUCCUAUUGUUCAUUUCCUCAAAACAUGAUUA
.((((((((......))))))))..........(((((..-----..(((((.(.((((((((...(((--------......))).))))))))..).)))))......)))))... ( -33.10)
>DroEre_CAF1 27850 102 + 1
CAGCUUCGGGUUUUCCCGAAGCUACACACAUUUUUAUGGU-----CUGGAAAAGUCGGUAGGAAUGGUC--------AG---AGGCAUCCUAUUGUUCAUUUCCUGAAAACAUGAUAA
.(((((((((....)))))))))..........(((((.(-----(.(((((.(.((((((((...((.--------..---..)).))))))))..).))))).))...)))))... ( -36.80)
>DroYak_CAF1 28125 102 + 1
CAGCUUCGGUUUUUCCCGAUGCUACACACAUUUUUACGGU-----CUGGAAAAGUCGGUAGGAAUGGUC--------AG---AGGCAUCCUAUUGUUCAUUUCCUUAAAACAUGAUGG
.(((.((((......)))).))).....((((........-----..(((((.(.((((((((...((.--------..---..)).))))))))..).))))).........)))). ( -25.81)
>consensus
CAGCUUCGGUUUUUCCCGAAGCUACACACAUUUUCAUGGU_____CUGGAAAAGUCGAUGGGAAUGGUU________AGAAGAGGCAUCCUAUUGUUCAUUUCCUCAAAACAUGAUAA
.((((((((......))))))))..........(((((.........(((((...((((((((...(((..............))).))))))))....)))))......)))))... (-18.53 = -19.73 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:34 2006