Locus 2702

Sequence ID 3R_DroMel_CAF1
Location 7,275,735 – 7,275,853
Length 118
Max. P 0.978560
window4388 window4389

overview

Window 8

Location 7,275,735 – 7,275,853
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 87.47
Mean single sequence MFE -27.53
Consensus MFE -23.59
Energy contribution -23.70
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -3.92
Structure conservation index 0.86
SVM decision value 1.82
SVM RNA-class probability 0.978560
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7275735 118 + 27905053
UCGGGGGUCAGAAUGAAAUCCGAAUUCGUUUCAUUCCAUUGCCAUUCCAUGGCCUGGUCCAAAACCAUCCA-ACCCCCUUCGUCGAAGCCCAUCCCU-CCCCCACAUUCACCAUAUUCAU
..((((((..(((((((((........)))))))))....(((((...))))).((((.....))))....-))))))...................-...................... ( -26.30)
>DroSim_CAF1 822 120 + 1
UCGGGGGUCAGAAUGAAAUCCGAAUUCGUUUCAUUCCAUUGCCAUUCCAUGGCCUGGUCCAAAACCAUCCAAACCCCCUUCGGCGAAGCACAUCCCAACCCCCACAUCCACCAUACUCAU
..((((((..(((((((((........)))))))))..(((((......(((..((((.....)))).)))..........)))))...........))))))................. ( -29.19)
>DroYak_CAF1 1429 112 + 1
UCGGGGGUCAGAAUGAAAUCCGAAUUCGUUUCAUUCCAUUGCCAUUCCAUGGCCUGGUCCAAAACCAGCCAAAAUCCCCUCCUC----CACAUCCU----CCACCAUUCCCCAUAUUCAU
..((((((..(((((((((........))))))))).............((((.((((.....))))))))..)))))).....----........----.................... ( -27.10)
>consensus
UCGGGGGUCAGAAUGAAAUCCGAAUUCGUUUCAUUCCAUUGCCAUUCCAUGGCCUGGUCCAAAACCAUCCAAACCCCCUUCGUCGAAGCACAUCCC__CCCCCACAUUCACCAUAUUCAU
..((((((..(((((((((........)))))))))....(((((...))))).((((.....)))).....)))))).......................................... (-23.59 = -23.70 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 7,275,735 – 7,275,853
Length 118
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 87.47
Mean single sequence MFE -37.23
Consensus MFE -26.40
Energy contribution -27.40
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.16
Structure conservation index 0.71
SVM decision value 0.05
SVM RNA-class probability 0.560261
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7275735 118 - 27905053
AUGAAUAUGGUGAAUGUGGGGG-AGGGAUGGGCUUCGACGAAGGGGGU-UGGAUGGUUUUGGACCAGGCCAUGGAAUGGCAAUGGAAUGAAACGAAUUCGGAUUUCAUUCUGACCCCCGA
................((((((-.((((((((.((((((....)....-......((((((..(((.(((((...)))))..)))..))))))....))))).))))))))..)))))). ( -37.60)
>DroSim_CAF1 822 120 - 1
AUGAGUAUGGUGGAUGUGGGGGUUGGGAUGUGCUUCGCCGAAGGGGGUUUGGAUGGUUUUGGACCAGGCCAUGGAAUGGCAAUGGAAUGAAACGAAUUCGGAUUUCAUUCUGACCCCCGA
................(((((((..((((...((((...))))(..((((((((.((((((..(((.(((((...)))))..)))..))))))..))))))))..)))))..))))))). ( -44.60)
>DroYak_CAF1 1429 112 - 1
AUGAAUAUGGGGAAUGGUGG----AGGAUGUG----GAGGAGGGGAUUUUGGCUGGUUUUGGACCAGGCCAUGGAAUGGCAAUGGAAUGAAACGAAUUCGGAUUUCAUUCUGACCCCCGA
.......(((((..((((..----(((((((.----((((......)))).))..)))))..)))).(((((...)))))...((((((((.((....))...))))))))...))))). ( -29.50)
>consensus
AUGAAUAUGGUGAAUGUGGGGG__GGGAUGUGCUUCGACGAAGGGGGUUUGGAUGGUUUUGGACCAGGCCAUGGAAUGGCAAUGGAAUGAAACGAAUUCGGAUUUCAUUCUGACCCCCGA
..........................................(((((((....(((((...))))).(((((...)))))...((((((((.((....))...))))))))))))))).. (-26.40 = -27.40 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:41 2006