Locus 2209

Sequence ID 3R_DroMel_CAF1
Location 6,305,311 – 6,305,409
Length 98
Max. P 0.996634
window3586 window3587

overview

Window 6

Location 6,305,311 – 6,305,409
Length 98
Sequences 3
Columns 99
Reading direction forward
Mean pairwise identity 79.78
Mean single sequence MFE -28.45
Consensus MFE -17.88
Energy contribution -17.33
Covariance contribution -0.55
Combinations/Pair 1.19
Mean z-score -3.40
Structure conservation index 0.63
SVM decision value 2.73
SVM RNA-class probability 0.996634
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6305311 98 + 27905053
CAAAUGUUACUUCCUCGGGAGCCCCCUCCUUUCAA-GGGGGUUUCCCCCUGGAGCCACCGCCCCUGGACCCCAUGGCUAACCCCCCCCUCUGGUUCCCU
................(((((((((((.......)-))))))))))....(((((((..(((..(((...))).))).............))))))).. ( -31.66)
>DroSec_CAF1 70321 79 + 1
CAAAUGUUACUUCCUCGGGAGCCCCCUCCUCUCAAAGGGGGUUUCCCCCUUGAGGCACCGCCA--------------------CCGCCUCUGGUUCCCU
................(((((((...........(((((((...)))))))(((((.......--------------------..))))).))))))). ( -31.60)
>DroSim_CAF1 76111 79 + 1
CAAAUGUUACUUCCUCGGGAGUCCCCUCCUCUCAAAGAGGGUUUCCCCCUUGAGCCACCGCCA--------------------CCGCCUCUGGUUCCCU
................(((((..(((((........))))).)))))....((((((..((..--------------------..))...))))))... ( -22.10)
>consensus
CAAAUGUUACUUCCUCGGGAGCCCCCUCCUCUCAAAGGGGGUUUCCCCCUUGAGCCACCGCCA____________________CCGCCUCUGGUUCCCU
................((((((((((((........))))).........((.((....))))............................))))))). (-17.88 = -17.33 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 6,305,311 – 6,305,409
Length 98
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 79.78
Mean single sequence MFE -33.47
Consensus MFE -22.87
Energy contribution -23.32
Covariance contribution 0.45
Combinations/Pair 1.05
Mean z-score -2.56
Structure conservation index 0.68
SVM decision value 1.98
SVM RNA-class probability 0.984475
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6305311 98 - 27905053
AGGGAACCAGAGGGGGGGGUUAGCCAUGGGGUCCAGGGGCGGUGGCUCCAGGGGGAAACCCCC-UUGAAAGGAGGGGGCUCCCGAGGAAGUAACAUUUG
.(((..(((....((........)).)))..))).(((((....))))).(((((...(((((-((.....))))))))))))................ ( -38.90)
>DroSec_CAF1 70321 79 - 1
AGGGAACCAGAGGCGG--------------------UGGCGGUGCCUCAAGGGGGAAACCCCCUUUGAGAGGAGGGGGCUCCCGAGGAAGUAACAUUUG
......((.((((((.--------------------......))))))..(((((...((((((((....)))))))))))))..))............ ( -34.80)
>DroSim_CAF1 76111 79 - 1
AGGGAACCAGAGGCGG--------------------UGGCGGUGGCUCAAGGGGGAAACCCUCUUUGAGAGGAGGGGACUCCCGAGGAAGUAACAUUUG
.......((((.((..--------------------(..((....((((((((((....)))))))))).((((....))))))..)..))....)))) ( -26.70)
>consensus
AGGGAACCAGAGGCGG____________________UGGCGGUGGCUCAAGGGGGAAACCCCCUUUGAGAGGAGGGGGCUCCCGAGGAAGUAACAUUUG
.(((.(((................................)))..)))..(((((...((((((((....)))))))))))))................ (-22.87 = -23.32 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:53 2006