Locus 3508

Sequence ID 2L_DroMel_CAF1
Location 10,251,749 – 10,251,866
Length 117
Max. P 0.999991
window5539 window5540

overview

Window 9

Location 10,251,749 – 10,251,866
Length 117
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 93.24
Mean single sequence MFE -28.56
Consensus MFE -25.55
Energy contribution -25.79
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.90
Structure conservation index 0.89
SVM decision value 2.42
SVM RNA-class probability 0.993678
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10251749 117 + 22407834
GUGUA-AU-UCCUUUGUUCCGAGUCAUAGCACUCCUAAAUAUAUCGAUUCAUCGAUAAGGAGUCAACAACCCCAACGACUUCGUCGGGGGAUGAAAUGUUGUAUGCCACAUAAAGUUUU
.....-..-..((((((.....((.(((((((((((.....((((((....)))))))))))(((....((((.(((....))).))))..)))..)))))))).....)))))).... ( -29.20)
>DroSec_CAF1 5790 118 + 1
UUGUAAAU-UCCUUUGUUCCGAGUCUUAGCACUCCUAAAUAUAUCGAUUCAUCGAUAAGGAGUCAACAACCCCAACGACUUCGUCGGGGGAUGAAAUGUUGUAUGCCACAUAAAGUUUU
((((..((-((((.......((((......)))).......((((((....))))))))))))..))))((((.(((....))).))))......((((.(....).))))........ ( -28.50)
>DroSim_CAF1 4205 118 + 1
UUGUAAAU-UCCUUUGUUCUGAGUCUUAGCACUCCUAAAUAUAUCGAUUCAUCGAUAAGGAGUCAACAACCCCAACGACUUCGUCGGGGGAUGAAAUGUUGUAUGCCACAUAAAGUUUU
........-..((((((..((.((..((((((((((.....((((((....)))))))))))(((....((((.(((....))).))))..)))..)))))...)))).)))))).... ( -29.40)
>DroEre_CAF1 4201 119 + 1
UUGUAAAAGAAAUUUUUUCUUAAUAUUAGCACUCCUAAAUAUAUCGAUUCAUCGAUAAGGAGUCAACAACCCCAACGACUUCGUCGGGGGAUGAAAUGUUGUAUGCCAUAUAAAGUUUU
........((((((((......((((.(((((((((.....((((((....)))))))))))(((....((((.(((....))).))))..)))..)))))))).......)))))))) ( -28.32)
>DroYak_CAF1 4173 117 + 1
UUUUAAAU--UCUUUGUUUUGAAUCUUAGCACUCCUAAAUAUAUCGAUUCAUCGAUAAGGAGUCAACAACCCCAACGACUUUGUCGGGGGAUGAAAUGUUGUAUGCCAUAUAAAGUUUU
........--.((((((..((.....((((((((((.....((((((....))))))))))))...((.((((..((((...)))))))).))....)))).....)).)))))).... ( -27.40)
>consensus
UUGUAAAU_UCCUUUGUUCUGAGUCUUAGCACUCCUAAAUAUAUCGAUUCAUCGAUAAGGAGUCAACAACCCCAACGACUUCGUCGGGGGAUGAAAUGUUGUAUGCCACAUAAAGUUUU
...........((((((.........((((((((((.....((((((....)))))))))))(((....((((.(((....))).))))..)))..)))))........)))))).... (-25.55 = -25.79 +   0.24)

alignment

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secondary structure

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dotplot

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Window 0

Location 10,251,749 – 10,251,866
Length 117
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 93.24
Mean single sequence MFE -34.06
Consensus MFE -32.30
Energy contribution -32.50
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -3.41
Structure conservation index 0.95
SVM decision value 5.62
SVM RNA-class probability 0.999991
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10251749 117 - 22407834
AAAACUUUAUGUGGCAUACAACAUUUCAUCCCCCGACGAAGUCGUUGGGGUUGUUGACUCCUUAUCGAUGAAUCGAUAUAUUUAGGAGUGCUAUGACUCGGAACAAAGGA-AU-UACAC
..........(((((...(((((.......((((((((....)))))))).)))))((((((((((((....)))))).....)))))))))))................-..-..... ( -34.70)
>DroSec_CAF1 5790 118 - 1
AAAACUUUAUGUGGCAUACAACAUUUCAUCCCCCGACGAAGUCGUUGGGGUUGUUGACUCCUUAUCGAUGAAUCGAUAUAUUUAGGAGUGCUAAGACUCGGAACAAAGGA-AUUUACAA
...........((((...(((((.......((((((((....)))))))).)))))((((((((((((....)))))).....)))))))))).................-........ ( -33.40)
>DroSim_CAF1 4205 118 - 1
AAAACUUUAUGUGGCAUACAACAUUUCAUCCCCCGACGAAGUCGUUGGGGUUGUUGACUCCUUAUCGAUGAAUCGAUAUAUUUAGGAGUGCUAAGACUCAGAACAAAGGA-AUUUACAA
...........((((...(((((.......((((((((....)))))))).)))))((((((((((((....)))))).....)))))))))).................-........ ( -33.40)
>DroEre_CAF1 4201 119 - 1
AAAACUUUAUAUGGCAUACAACAUUUCAUCCCCCGACGAAGUCGUUGGGGUUGUUGACUCCUUAUCGAUGAAUCGAUAUAUUUAGGAGUGCUAAUAUUAAGAAAAAAUUUCUUUUACAA
....(((.(((((((...(((((.......((((((((....)))))))).)))))((((((((((((....)))))).....))))))))).)))).))).................. ( -35.40)
>DroYak_CAF1 4173 117 - 1
AAAACUUUAUAUGGCAUACAACAUUUCAUCCCCCGACAAAGUCGUUGGGGUUGUUGACUCCUUAUCGAUGAAUCGAUAUAUUUAGGAGUGCUAAGAUUCAAAACAAAGA--AUUUAAAA
...........((((...(((((.......(((((((......))))))).)))))((((((((((((....)))))).....))))))))))((((((........))--)))).... ( -33.40)
>consensus
AAAACUUUAUGUGGCAUACAACAUUUCAUCCCCCGACGAAGUCGUUGGGGUUGUUGACUCCUUAUCGAUGAAUCGAUAUAUUUAGGAGUGCUAAGACUCAGAACAAAGGA_AUUUACAA
...........((((...(((((.......((((((((....)))))))).)))))((((((((((((....)))))).....)))))))))).......................... (-32.30 = -32.50 +   0.20)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:09 2006