Locus 1509

Sequence ID 3L_DroMel_CAF1
Location 4,342,673 – 4,342,783
Length 110
Max. P 0.722149
window2349 window2350

overview

Window 9

Location 4,342,673 – 4,342,783
Length 110
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 90.06
Mean single sequence MFE -39.20
Consensus MFE -28.81
Energy contribution -30.03
Covariance contribution 1.23
Combinations/Pair 1.06
Mean z-score -2.74
Structure conservation index 0.73
SVM decision value 0.40
SVM RNA-class probability 0.722149
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4342673 110 + 23771897
AUUUCGGCCAUCUAA-AGCAUAAUGUUCGCUUGGCUACCGAUUUUAGCCAAGCUAACAAUGCUUCGUGAUUGAGUCUGCAAAAGAUGUGGUGGGCGGAAAAUCGGCGGAGG
..(((.(((.....(-(((((..((((.(((((((((.......))))))))).))))))))))...((((...(((((..(........)..))))).))))))).))). ( -39.90)
>DroSim_CAF1 28900 110 + 1
GUUUCGGCCAUCUGA-AGCAUAAUGUUCGCUUGGCUACCGAUUUUAGCCAAGCUAACAAUGCUUCGUGAUUGAGUCUGCCCAAGAUGUGGUGGGCGGAAAAUCGGAGGAGG
..(((..((....((-(((((..((((.(((((((((.......))))))))).)))))))))))..((((...((((((((........)))))))).))))))..))). ( -48.20)
>DroYak_CAF1 28592 111 + 1
GUUUCGGCCAUCUAAAAACAUAAUGCCCGUUUUGCUACUGAUUUUGCCCAAGCGAACAAUGCUUCGUGAUUGAGUCUGCAAAAGAUAUGGUGGGCGGAAAAUCGGUGGAGG
....(((.(((...........))).))).....((((((((((((((((.(((((......)))))......((((.....))))....)))))..)))))))))))... ( -29.50)
>consensus
GUUUCGGCCAUCUAA_AGCAUAAUGUUCGCUUGGCUACCGAUUUUAGCCAAGCUAACAAUGCUUCGUGAUUGAGUCUGCAAAAGAUGUGGUGGGCGGAAAAUCGGAGGAGG
.(((((.(((((....(((((..((((.(((((((((.......))))))))).)))))))))..........((((.....))))..))))).)))))............ (-28.81 = -30.03 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 4,342,673 – 4,342,783
Length 110
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 90.06
Mean single sequence MFE -31.61
Consensus MFE -22.29
Energy contribution -22.97
Covariance contribution 0.67
Combinations/Pair 1.10
Mean z-score -2.55
Structure conservation index 0.71
SVM decision value 0.07
SVM RNA-class probability 0.570344
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4342673 110 - 23771897
CCUCCGCCGAUUUUCCGCCCACCACAUCUUUUGCAGACUCAAUCACGAAGCAUUGUUAGCUUGGCUAAAAUCGGUAGCCAAGCGAACAUUAUGCU-UUAGAUGGCCGAAAU
..((.(((((((.((.((..............)).))...))))..(((((((((((.(((((((((.......))))))))).))))..)))))-))....))).))... ( -32.54)
>DroSim_CAF1 28900 110 - 1
CCUCCUCCGAUUUUCCGCCCACCACAUCUUGGGCAGACUCAAUCACGAAGCAUUGUUAGCUUGGCUAAAAUCGGUAGCCAAGCGAACAUUAUGCU-UCAGAUGGCCGAAAC
..((..((((((.((.(((((........))))).))...))))..(((((((((((.(((((((((.......))))))))).))))..)))))-))....))..))... ( -40.10)
>DroYak_CAF1 28592 111 - 1
CCUCCACCGAUUUUCCGCCCACCAUAUCUUUUGCAGACUCAAUCACGAAGCAUUGUUCGCUUGGGCAAAAUCAGUAGCAAAACGGGCAUUAUGUUUUUAGAUGGCCGAAAC
.....((.((((((..((((......(((.....)))..........((((.......)))))))))))))).)).......(((.((((.........)))).))).... ( -22.20)
>consensus
CCUCCACCGAUUUUCCGCCCACCACAUCUUUUGCAGACUCAAUCACGAAGCAUUGUUAGCUUGGCUAAAAUCGGUAGCCAAGCGAACAUUAUGCU_UUAGAUGGCCGAAAC
...........((((.(((.......(((.....)))....(((....(((((((((.(((((((((.......))))))))).))))..)))))....)))))).)))). (-22.29 = -22.97 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:29 2006