Locus 2146

Sequence ID	3L_DroMel_CAF1
Location	5,840,300 – 5,840,404
Length	104
Max. P	0.983054

overview

Window 0

Location	5,840,300 – 5,840,404
Length	104
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	90.82
Mean single sequence MFE	-25.51
Consensus MFE	-20.59
Energy contribution	-21.07
Covariance contribution	0.48
Combinations/Pair	1.08
Mean z-score	-2.33
Structure conservation index	0.81
SVM decision value	1.93
SVM RNA-class probability	0.983054
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5840300 104 + 23771897
CAUCUUCAUCUUCAAC------UUCAACUUCAACUUGAUCCCCCUGCCAAUGUUGUUGUUGUUGCUGAUGAUUGUUUAUUAAGCAGCGCCAGCAAAAGCUGCAAGUUGCG
.....(((((..((((------..((((..((..(((..........)))))..))))..))))..)))))...........(((((..((((....))))...))))). ( -26.30)
>DroSec_CAF1 47923 101 + 1
CAUCUUCAUCUUCAAC------UUCAACUUCAACUUGAUCCCACUGCCAAUAUUGU---UGUUGCUGAUGAUUGUUUAUUAAGCAGCGCCAGCAAAAGCUGCAAGCUGCG
.....(((((..((((------..(((........((....)).........))).---.))))..)))))...........(((((..((((....))))...))))). ( -23.83)
>DroSim_CAF1 30989 101 + 1
CAUCUUCAUCUUCAAC------UUCAACUUCAACUUGAUCCCACUGCCAAUGUUGU---UGUUGCUGAUGAUUGUUUAUUAAGCAGCGCCAGCAAAAGCUGCAAGCUGCG
.....(((((..((((------..((((.......................)))).---.))))..)))))...........(((((..((((....))))...))))). ( -27.60)
>DroEre_CAF1 49180 95 + 1
CAUCUUCAUCUUCA------------ACUUCAACUUGAUCCCAUUGCCAAUGUUGU---UGUUGCUGAUGAUUGUUUAUUAAGCAGCGCCAGCAAAAGCUGCAAGCUGCG
.....(((((..((------------((..(((((((..........))).)))).---.))))..)))))...........(((((..((((....))))...))))). ( -29.30)
>DroYak_CAF1 52780 105 + 1
CAUCUUCAUCUUCAACUUUAACUUCAACUUCAACUUGAUCCCACUGCCAAUGUUGU---UGUUGCUGAUGAUUGUUUAUUAAGCAGCGCCAGCA--AGUUGCGAUCUGCG
....................................(((((.(((.....(((((.---((((((((((((....))))).))))))).)))))--))).).)))).... ( -20.50)
>consensus
CAUCUUCAUCUUCAAC______UUCAACUUCAACUUGAUCCCACUGCCAAUGUUGU___UGUUGCUGAUGAUUGUUUAUUAAGCAGCGCCAGCAAAAGCUGCAAGCUGCG
.....(((((..((((..............(((((((..........))).)))).....))))..)))))...........(((((..((((....))))...))))). (-20.59 = -21.07 +   0.48)

alignment

secondary structure

dotplot

Window 1

Location	5,840,300 – 5,840,404
Length	104
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	90.82
Mean single sequence MFE	-27.68
Consensus MFE	-21.56
Energy contribution	-22.80
Covariance contribution	1.24
Combinations/Pair	1.04
Mean z-score	-1.87
Structure conservation index	0.78
SVM decision value	0.76
SVM RNA-class probability	0.842927
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5840300 104 - 23771897
CGCAACUUGCAGCUUUUGCUGGCGCUGCUUAAUAAACAAUCAUCAGCAACAACAACAACAUUGGCAGGGGGAUCAAGUUGAAGUUGAA------GUUGAAGAUGAAGAUG
.(((...((((((....))).))).)))..........(((.(((((..((((..((((.((((........))))))))..))))..------))))).)))....... ( -25.10)
>DroSec_CAF1 47923 101 - 1
CGCAGCUUGCAGCUUUUGCUGGCGCUGCUUAAUAAACAAUCAUCAGCAACA---ACAAUAUUGGCAGUGGGAUCAAGUUGAAGUUGAA------GUUGAAGAUGAAGAUG
.(((((...((((....))))..)))))...........(((((..((((.---.((((.(..((..((....)).))..).))))..------))))..)))))..... ( -30.50)
>DroSim_CAF1 30989 101 - 1
CGCAGCUUGCAGCUUUUGCUGGCGCUGCUUAAUAAACAAUCAUCAGCAACA---ACAACAUUGGCAGUGGGAUCAAGUUGAAGUUGAA------GUUGAAGAUGAAGAUG
.(((((...((((....))))..)))))...........(((((..((((.---.((((.(..((..((....)).))..).))))..------))))..)))))..... ( -31.90)
>DroEre_CAF1 49180 95 - 1
CGCAGCUUGCAGCUUUUGCUGGCGCUGCUUAAUAAACAAUCAUCAGCAACA---ACAACAUUGGCAAUGGGAUCAAGUUGAAGU------------UGAAGAUGAAGAUG
.(((((...((((....))))..)))))...........(((((..((((.---.((((.((((........))))))))..))------------))..)))))..... ( -29.60)
>DroYak_CAF1 52780 105 - 1
CGCAGAUCGCAACU--UGCUGGCGCUGCUUAAUAAACAAUCAUCAGCAACA---ACAACAUUGGCAGUGGGAUCAAGUUGAAGUUGAAGUUAAAGUUGAAGAUGAAGAUG
.((((..(((....--.....)))))))..........(((.((((((((.---.((((.(..((..((....)).))..).))))..)))...))))).)))....... ( -21.30)
>consensus
CGCAGCUUGCAGCUUUUGCUGGCGCUGCUUAAUAAACAAUCAUCAGCAACA___ACAACAUUGGCAGUGGGAUCAAGUUGAAGUUGAA______GUUGAAGAUGAAGAUG
.(((((...((((....))))..)))))...........(((((..((((.....((((.(..((...........))..).))))........))))..)))))..... (-21.56 = -22.80 +   1.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:30 2006