Locus 3133

Sequence ID	2R_DroMel_CAF1
Location	10,691,324 – 10,691,426
Length	102
Max. P	0.535865

overview

Window 7

Location	10,691,324 – 10,691,426
Length	102
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	91.47
Mean single sequence MFE	-24.32
Consensus MFE	-19.86
Energy contribution	-20.54
Covariance contribution	0.68
Combinations/Pair	1.07
Mean z-score	-1.33
Structure conservation index	0.82
SVM decision value	0.00
SVM RNA-class probability	0.535865
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10691324 102 + 20766785
UCAACUGUGGAAAGUUAUAUGAGUGGGAAAGGAAGACUACAAAGUAUCAAUCGAUAAGCCACAACUGUUUCGGAUUGACAUAGUGUGGCUUCUCUUCCAUUG
..((((......)))).........((((..((((.(((((..((.((((((((..((......))...)).)))))).))..)))))))))..)))).... ( -27.20)
>DroSec_CAF1 28341 102 + 1
UCAACUGGGAAAAGUUAUAUUAUUGGGAAAGGAAGACUACAAAGUAUCAAUCGAUAAACCACAACUGUUUCGGAUUGACAUAGUGUGGGUUCUCUCCCAUUG
..((((......)))).......(((((.((((...(((((..((.((((((...((((.......))))..)))))).))..))))).)))).)))))... ( -25.50)
>DroSim_CAF1 28175 102 + 1
UCAACUGGGAAAAGUUAUAUUAUUGGGAAAGGAAGACUACAAAGUAUCAAUCGAUAAACCACAACUGUUUCGGAUUGACAUAGUGUGGGUUCUCUCCCACAG
..((((......)))).......(((((.((((...(((((..((.((((((...((((.......))))..)))))).))..))))).)))).)))))... ( -25.40)
>DroEre_CAF1 28491 101 + 1
UGAACUCCGGAAAGUUAUAUGAUUGGGAAUGGAAGACUACAAAGUAUCAAUCGAUAAACCACAACUGUUUCUGAUUGACAUAGUGUGGGUUCUCUC-CACUG
........(((.((((((.(((((((...((........)).....))))))))))).(((((.((((.((.....)).)))))))))...)).))-).... ( -21.70)
>DroYak_CAF1 29599 101 + 1
UUAACUCUCGAAAGGUAUAUGAUUGGGAAAGGAAGACUACAAAGUAUCAAUCGAUAAACCACAACUGUUUCGGAUUGACAUAGUA-GGGUUCUCUCCCAUUG
.......((....))........(((((.((((...((((...((.((((((...((((.......))))..)))))).)).)))-)..)))).)))))... ( -21.80)
>consensus
UCAACUGGGGAAAGUUAUAUGAUUGGGAAAGGAAGACUACAAAGUAUCAAUCGAUAAACCACAACUGUUUCGGAUUGACAUAGUGUGGGUUCUCUCCCAUUG
..((((......)))).......(((((.((((...(((((..((.((((((...((((.......))))..)))))).))..))))).)))).)))))... (-19.86 = -20.54 +   0.68)

alignment

secondary structure

dotplot

Window 8

Location	10,691,324 – 10,691,426
Length	102
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	91.47
Mean single sequence MFE	-23.16
Consensus MFE	-17.04
Energy contribution	-18.16
Covariance contribution	1.12
Combinations/Pair	1.06
Mean z-score	-1.73
Structure conservation index	0.74
SVM decision value	0.00
SVM RNA-class probability	0.533604
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10691324 102 - 20766785
CAAUGGAAGAGAAGCCACACUAUGUCAAUCCGAAACAGUUGUGGCUUAUCGAUUGAUACUUUGUAGUCUUCCUUUCCCACUCAUAUAACUUUCCACAGUUGA
....((((((.((((((((((...((.....))...)).))))))))(((....))).........)))))).............(((((......))))). ( -22.30)
>DroSec_CAF1 28341 102 - 1
CAAUGGGAGAGAACCCACACUAUGUCAAUCCGAAACAGUUGUGGUUUAUCGAUUGAUACUUUGUAGUCUUCCUUUCCCAAUAAUAUAACUUUUCCCAGUUGA
...((((((((((..((((...((((((((..((((.......))))...))))))))...))).)..)).))))))))......(((((......))))). ( -24.20)
>DroSim_CAF1 28175 102 - 1
CUGUGGGAGAGAACCCACACUAUGUCAAUCCGAAACAGUUGUGGUUUAUCGAUUGAUACUUUGUAGUCUUCCUUUCCCAAUAAUAUAACUUUUCCCAGUUGA
...((((((((((..((((...((((((((..((((.......))))...))))))))...))).)..)).))))))))......(((((......))))). ( -24.10)
>DroEre_CAF1 28491 101 - 1
CAGUG-GAGAGAACCCACACUAUGUCAAUCAGAAACAGUUGUGGUUUAUCGAUUGAUACUUUGUAGUCUUCCAUUCCCAAUCAUAUAACUUUCCGGAGUUCA
.((((-((.(((....(((...((((((((..((((.......))))...))))))))...)))..)))))))))...........(((((....))))).. ( -19.10)
>DroYak_CAF1 29599 101 - 1
CAAUGGGAGAGAACCC-UACUAUGUCAAUCCGAAACAGUUGUGGUUUAUCGAUUGAUACUUUGUAGUCUUCCUUUCCCAAUCAUAUACCUUUCGAGAGUUAA
...((((((((((..(-(((..((((((((..((((.......))))...))))))))....))))..)).))))))))....................... ( -26.10)
>consensus
CAAUGGGAGAGAACCCACACUAUGUCAAUCCGAAACAGUUGUGGUUUAUCGAUUGAUACUUUGUAGUCUUCCUUUCCCAAUCAUAUAACUUUCCACAGUUGA
...((((((((((..((((...((((((((..((((.......))))...))))))))...))).)..)).))))))))......(((((......))))). (-17.04 = -18.16 +   1.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:20 2006