Locus 5467

Sequence ID	2R_DroMel_CAF1
Location	17,606,224 – 17,606,331
Length	107
Max. P	0.976288

overview

Window 3

Location	17,606,224 – 17,606,331
Length	107
Sequences	3
Columns	107
Reading direction	forward
Mean pairwise identity	94.36
Mean single sequence MFE	-24.70
Consensus MFE	-22.81
Energy contribution	-23.03
Covariance contribution	0.23
Combinations/Pair	1.06
Mean z-score	-2.98
Structure conservation index	0.92
SVM decision value	1.77
SVM RNA-class probability	0.976288
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17606224 107 + 20766785
CUAUACACAAGUUAUAAAAUAUUCAUAGAUGGUAAUGUUACUCAAGCAGGUUUGACUGGCAUAAUAUUUAUGCCAUAUAUUUAUAAUAUCUAUAACUUUGUAUGUCA
.((((((.((((((((..(((((.(((((((..........(((((....))))).(((((((.....)))))))..)))))))))))).))))))))))))))... ( -25.50)
>DroSec_CAF1 20957 105 + 1
--CAACACAAGUUAUAGAAUAUUCAUAGAUGGUAAUGUUACUCUAGCAGGUUUGACUGGCAUAAUAUUUAUGCCGUAUAUUUAUAAUAUCUAUAACUUUGUAUGUCA
--..(((.((((((((((.((((.(((((((.....((((..((....))..)))).((((((.....))))))...))))))))))))))))))))))))...... ( -26.20)
>DroSim_CAF1 21692 105 + 1
--CAACACAAGUUAUAGAAUAUUCAUAGAUGGUAAUGUUACUCAAGCAGGUUUGACUGGCAUAAUAUUUAUGCCAUAUAUUUAUAGUAUCCAUAACUUUGUAUGUCA
--..(((.(((((((.((.((((.(((((((..........(((((....))))).(((((((.....)))))))..))))))))))))).))))))))))...... ( -22.40)
>consensus
__CAACACAAGUUAUAGAAUAUUCAUAGAUGGUAAUGUUACUCAAGCAGGUUUGACUGGCAUAAUAUUUAUGCCAUAUAUUUAUAAUAUCUAUAACUUUGUAUGUCA
....(((.((((((((((.((((.(((((((.....((((..(......)..))))(((((((.....)))))))..))))))))))))))))))))))))...... (-22.81 = -23.03 +   0.23)

alignment

secondary structure

dotplot

Window 4

Location	17,606,224 – 17,606,331
Length	107
Sequences	3
Columns	107
Reading direction	reverse
Mean pairwise identity	94.36
Mean single sequence MFE	-22.97
Consensus MFE	-20.51
Energy contribution	-20.73
Covariance contribution	0.23
Combinations/Pair	1.07
Mean z-score	-2.85
Structure conservation index	0.89
SVM decision value	1.37
SVM RNA-class probability	0.947447
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17606224 107 - 20766785
UGACAUACAAAGUUAUAGAUAUUAUAAAUAUAUGGCAUAAAUAUUAUGCCAGUCAAACCUGCUUGAGUAACAUUACCAUCUAUGAAUAUUUUAUAACUUGUGUAUAG
....(((((((((((((((..(((((......(((((((.....))))))).((((......))))..............)))))....)))))))))).))))).. ( -22.40)
>DroSec_CAF1 20957 105 - 1
UGACAUACAAAGUUAUAGAUAUUAUAAAUAUACGGCAUAAAUAUUAUGCCAGUCAAACCUGCUAGAGUAACAUUACCAUCUAUGAAUAUUCUAUAACUUGUGUUG--
.((((((...(((((((((((((..........((((((.....))))))............(((((((....)))..))))..)))).))))))))))))))).-- ( -23.00)
>DroSim_CAF1 21692 105 - 1
UGACAUACAAAGUUAUGGAUACUAUAAAUAUAUGGCAUAAAUAUUAUGCCAGUCAAACCUGCUUGAGUAACAUUACCAUCUAUGAAUAUUCUAUAACUUGUGUUG--
.((((((...((((((((((((..........(((((((.....))))))).((((......))))))).(((........))).....))))))))))))))).-- ( -23.50)
>consensus
UGACAUACAAAGUUAUAGAUAUUAUAAAUAUAUGGCAUAAAUAUUAUGCCAGUCAAACCUGCUUGAGUAACAUUACCAUCUAUGAAUAUUCUAUAACUUGUGUUG__
....((((((.((((((((..(((((.......((((((.....))))))(.((((......)))).)............)))))....)))))))))))))).... (-20.51 = -20.73 +   0.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:37 2006