Locus 6536

Sequence ID X_DroMel_CAF1
Location 16,364,346 – 16,364,457
Length 111
Max. P 0.971699
window10669 window10670

overview

Window 9

Location 16,364,346 – 16,364,457
Length 111
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 93.77
Mean single sequence MFE -27.00
Consensus MFE -23.04
Energy contribution -23.29
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -3.11
Structure conservation index 0.85
SVM decision value 1.68
SVM RNA-class probability 0.971699
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16364346 111 + 22224390
CAGAAGUCGCGAAAGCAACACAAAUAGCCAAAUAGCCACACGAAAGCCACACAAUCGCACACGAAUGACAGCUAGUGCGUUUUAUAAACGAAAGUUUAUAGAUUUUGGCCA
.....((.((....)).)).......((((((....(.(((...(((....((.(((....))).))...))).))).).(((((((((....))))))))).)))))).. ( -29.60)
>DroSec_CAF1 37152 103 + 1
CAGAAGUCGCGAAAGCAACACAAAU--------AGCCACACGAAAGCCACACAAUCGCACACGAAAGACAGCAAGUGCGUUUUAUAAACGAAAGUUUAUAGAUUUUGGCCA
.....((.((....)).))......--------.((((..(....).........(((((..............))))).(((((((((....)))))))))...)))).. ( -26.44)
>DroSim_CAF1 25507 103 + 1
CAGAAGUCGCGAAAGCAACACAAAU--------AGCCACACGAAAGCCACACAAUCGCACACGAAUGACAGCAAGUGCGUUUUAUAAACGAAAGUUUAUAGAUUUUGGCCA
.....((.((....)).))......--------.((((..(....).........(((((..............))))).(((((((((....)))))))))...)))).. ( -26.44)
>DroEre_CAF1 22861 103 + 1
CAGAAGUCGCGAAACCAAGACAAAU--------AGCCACACGAAAGCCACACAAUCGCACACGAGUGACAGCUAGUGCGUUUUAUAAACGAAAGUUUAUAGAUUUUGGCCA
.....(((..........)))....--------.((((..(....).........(((((...(((....))).))))).(((((((((....)))))))))...)))).. ( -25.50)
>consensus
CAGAAGUCGCGAAAGCAACACAAAU________AGCCACACGAAAGCCACACAAUCGCACACGAAUGACAGCAAGUGCGUUUUAUAAACGAAAGUUUAUAGAUUUUGGCCA
........((....))..................((((..(....).........(((((..............))))).(((((((((....)))))))))...)))).. (-23.04 = -23.29 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 16,364,346 – 16,364,457
Length 111
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 93.77
Mean single sequence MFE -29.70
Consensus MFE -24.49
Energy contribution -24.73
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.05
Structure conservation index 0.82
SVM decision value 0.64
SVM RNA-class probability 0.807499
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16364346 111 - 22224390
UGGCCAAAAUCUAUAAACUUUCGUUUAUAAAACGCACUAGCUGUCAUUCGUGUGCGAUUGUGUGGCUUUCGUGUGGCUAUUUGGCUAUUUGUGUUGCUUUCGCGACUUCUG
((((((((...(((((((....)))))))...(((((.(((..(((.(((....))).)).)..)))...)))))....)))))))).....(((((....)))))..... ( -34.90)
>DroSec_CAF1 37152 103 - 1
UGGCCAAAAUCUAUAAACUUUCGUUUAUAAAACGCACUUGCUGUCUUUCGUGUGCGAUUGUGUGGCUUUCGUGUGGCU--------AUUUGUGUUGCUUUCGCGACUUCUG
.(((((.(((((((((((....)))))))....((((.((........)).))))))))...))))).(((((.(((.--------.........)))..)))))...... ( -26.80)
>DroSim_CAF1 25507 103 - 1
UGGCCAAAAUCUAUAAACUUUCGUUUAUAAAACGCACUUGCUGUCAUUCGUGUGCGAUUGUGUGGCUUUCGUGUGGCU--------AUUUGUGUUGCUUUCGCGACUUCUG
(((((......(((((((....)))))))....((((..((..(((.(((....))).)).)..))....))))))))--------).....(((((....)))))..... ( -27.70)
>DroEre_CAF1 22861 103 - 1
UGGCCAAAAUCUAUAAACUUUCGUUUAUAAAACGCACUAGCUGUCACUCGUGUGCGAUUGUGUGGCUUUCGUGUGGCU--------AUUUGUCUUGGUUUCGCGACUUCUG
.(((((.(((((((((((....)))))))...(((((.((......)).))))).))))...))))).(((((..(((--------(.......))))..)))))...... ( -29.40)
>consensus
UGGCCAAAAUCUAUAAACUUUCGUUUAUAAAACGCACUAGCUGUCAUUCGUGUGCGAUUGUGUGGCUUUCGUGUGGCU________AUUUGUGUUGCUUUCGCGACUUCUG
.(((((.(((((((((((....)))))))....((((..............))))))))...))))).(((((.(((..................)))..)))))...... (-24.49 = -24.73 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:12 2006