Locus 220

Sequence ID 3L_DroMel_CAF1
Location 613,450 – 613,557
Length 107
Max. P 0.999993
window325 window326

overview

Window 5

Location 613,450 – 613,557
Length 107
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 94.24
Mean single sequence MFE -27.31
Consensus MFE -26.58
Energy contribution -26.02
Covariance contribution -0.56
Combinations/Pair 1.13
Mean z-score -3.24
Structure conservation index 0.97
SVM decision value 5.77
SVM RNA-class probability 0.999993
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 613450 107 + 23771897
GCGCCCUUGUGUGCAUGC-AGUGCAACUCGAACAGCUGUUUGCCAUAACACAAAACAGCUGUUCCACUGCAAGUCCUAAAAAAGAAAAAAUAAGUAAAGGAAAACAAA
((((......)))).(((-((((......((((((((((((...........)))))))))))))))))))..((((....................))))....... ( -32.25)
>DroSec_CAF1 24702 107 + 1
GCGCCCUUGUGUGCAUGC-AAUGCAACUCGAACAGCUGUUUGCCAUAACACAAAACAGCUGUUCCACUGCAAGUCCUAAAAAAGAAGAAAUAAGUAAAGAACAACAAA
((((......))))....-..((((....((((((((((((...........))))))))))))...))))..................................... ( -25.30)
>DroSim_CAF1 23099 107 + 1
GCGCCCUUGUGUGCAUGC-AAUGCAACUCGAACAGCUGUUUGCCAUAACACAAAACAGCUGUUCCACUGCAAGUCCUAAAAAAGAAAAAAUAAGUAAAGAACAACAAA
((((......))))....-..((((....((((((((((((...........))))))))))))...))))..................................... ( -25.30)
>DroEre_CAF1 26470 108 + 1
GCGCCUUUGUGUGCAUGUGAGUGCAACUCGAACAGCUGUUUGCCAUAACACAAAACAGCUGUUUCGCUGCAAGUCCUAAAGAAGAAAAAAUAAGUAAAGAAAAACAAG
((((......))))....((.((((...(((((((((((((...........))))))))).)))).))))..))................................. ( -24.20)
>DroYak_CAF1 27999 108 + 1
GCGCCCUUGUGUGCAUGUGAGUGCAACGCGAACAGCUGUUUGCCAUAACACAAAACAGCUGUUCGACUGCAAGUCCUAAAAAAGAAAAAAUAAGUAAAGAAAAACAAG
((((......))))....((.((((...(((((((((((((...........)))))))))))))..))))..))................................. ( -29.50)
>consensus
GCGCCCUUGUGUGCAUGC_AGUGCAACUCGAACAGCUGUUUGCCAUAACACAAAACAGCUGUUCCACUGCAAGUCCUAAAAAAGAAAAAAUAAGUAAAGAAAAACAAA
..(..(((((.(((((....)))))....((((((((((((...........))))))))))))....)))))..)................................ (-26.58 = -26.02 +  -0.56) 

alignment

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secondary structure

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dotplot

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Window 6

Location 613,450 – 613,557
Length 107
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 94.24
Mean single sequence MFE -29.04
Consensus MFE -23.92
Energy contribution -23.80
Covariance contribution -0.12
Combinations/Pair 1.07
Mean z-score -2.18
Structure conservation index 0.82
SVM decision value 1.81
SVM RNA-class probability 0.978099
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 613450 107 - 23771897
UUUGUUUUCCUUUACUUAUUUUUUCUUUUUUAGGACUUGCAGUGGAACAGCUGUUUUGUGUUAUGGCAAACAGCUGUUCGAGUUGCACU-GCAUGCACACAAGGGCGC
........(((((..........((((....))))..(((((((((((((((((((.((......))))))))))))))......))))-))).......)))))... ( -30.70)
>DroSec_CAF1 24702 107 - 1
UUUGUUGUUCUUUACUUAUUUCUUCUUUUUUAGGACUUGCAGUGGAACAGCUGUUUUGUGUUAUGGCAAACAGCUGUUCGAGUUGCAUU-GCAUGCACACAAGGGCGC
......((((((...........((((....))))......(((((((((((((((.((......))))))))))))))....(((((.-..)))))))))))))).. ( -29.80)
>DroSim_CAF1 23099 107 - 1
UUUGUUGUUCUUUACUUAUUUUUUCUUUUUUAGGACUUGCAGUGGAACAGCUGUUUUGUGUUAUGGCAAACAGCUGUUCGAGUUGCAUU-GCAUGCACACAAGGGCGC
......((((((...........((((....))))......(((((((((((((((.((......))))))))))))))....(((((.-..)))))))))))))).. ( -29.80)
>DroEre_CAF1 26470 108 - 1
CUUGUUUUUCUUUACUUAUUUUUUCUUCUUUAGGACUUGCAGCGAAACAGCUGUUUUGUGUUAUGGCAAACAGCUGUUCGAGUUGCACUCACAUGCACACAAAGGCGC
...((((((.............((((.....))))..((((((..(((((((((((.((......)))))))))))))...)))))).............)))))).. ( -26.30)
>DroYak_CAF1 27999 108 - 1
CUUGUUUUUCUUUACUUAUUUUUUCUUUUUUAGGACUUGCAGUCGAACAGCUGUUUUGUGUUAUGGCAAACAGCUGUUCGCGUUGCACUCACAUGCACACAAGGGCGC
(((((..................((((....))))..(((((((((((((((((((.((......))))))))))))))).))))))...........)))))..... ( -28.60)
>consensus
UUUGUUUUUCUUUACUUAUUUUUUCUUUUUUAGGACUUGCAGUGGAACAGCUGUUUUGUGUUAUGGCAAACAGCUGUUCGAGUUGCACU_GCAUGCACACAAGGGCGC
........(((((..........((((....))))..(((((..((((((((((((.((......))))))))))))))...))))).............)))))... (-23.92 = -23.80 +  -0.12) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:40 2006