Locus 2586

Sequence ID 2L_DroMel_CAF1
Location 7,166,979 – 7,167,095
Length 116
Max. P 0.874232
window4121 window4122

overview

Window 1

Location 7,166,979 – 7,167,095
Length 116
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 89.66
Mean single sequence MFE -23.91
Consensus MFE -16.34
Energy contribution -17.90
Covariance contribution 1.56
Combinations/Pair 1.04
Mean z-score -2.43
Structure conservation index 0.68
SVM decision value 0.36
SVM RNA-class probability 0.703174
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7166979 116 + 22407834
ACAUGUCCACAGCAAGACGAAAAAAAAAAAACAUUGGAAAAACAACCUACUACGGGGCAGACCAAGGGAUCUUUUCUUGCUCUGCACUGCCAUAAAAGUAAAUGGAACAUGUACAA
(((((((((..((....................(((......))).......(((.(((((.((((..(...)..)))).))))).)))........))...))).)))))).... ( -25.60)
>DroSec_CAF1 108287 114 + 1
ACAUGUCCAAAGCAAGACGAAAAA--AAAAACAUUGGAAAAACAACCUAGUACGGGACAGACCAAGGGAUCUUUUCUUGCCCUGCACUGCCAUAAAAGUAAAUGGAACAUGUACAA
(((((((((..((...........--......(((((.........))))).(((..(((..((((..(...)..))))..)))..)))........))...))).)))))).... ( -21.60)
>DroSim_CAF1 111403 116 + 1
ACAUGUCCAAAGCAAGACGAAAAAAAAAAAACAUUGGAAAAACAACCUACUACGGGGCAGAGCAAGGGAUCUUUUCUUGCCCUGCACUGCCAUAAAAGUAAAUGGAACAUGUACAA
(((((((((........................(((......)))..((((....(((((.(((.(((...........)))))).))))).....))))..))).)))))).... ( -29.30)
>DroYak_CAF1 116421 103 + 1
ACAUGUCCAAAGCACGA------GAAAAAAACAUUGGAAAAACAACCUACUAUGGAGCAGACCAAGGGAUCUUUUCUUGCCCUGCACUGCCAUAAAAGUAAA-------UGUACAA
((((.(((((.......------..........))))).........((((((((.((((..((((..(...)..))))..))))....))))...)))).)-------))).... ( -19.13)
>consensus
ACAUGUCCAAAGCAAGACGAAAAAAAAAAAACAUUGGAAAAACAACCUACUACGGGGCAGACCAAGGGAUCUUUUCUUGCCCUGCACUGCCAUAAAAGUAAAUGGAACAUGUACAA
(((((((((..((....................(((......))).......(((.((((..((((..(...)..))))..)))).)))........))...))).)))))).... (-16.34 = -17.90 +   1.56)

alignment

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secondary structure

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dotplot

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Window 2

Location 7,166,979 – 7,167,095
Length 116
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 89.66
Mean single sequence MFE -28.86
Consensus MFE -22.49
Energy contribution -22.93
Covariance contribution 0.44
Combinations/Pair 1.10
Mean z-score -2.14
Structure conservation index 0.78
SVM decision value 0.88
SVM RNA-class probability 0.874232
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7166979 116 - 22407834
UUGUACAUGUUCCAUUUACUUUUAUGGCAGUGCAGAGCAAGAAAAGAUCCCUUGGUCUGCCCCGUAGUAGGUUGUUUUUCCAAUGUUUUUUUUUUUUCGUCUUGCUGUGGACAUGU
....((((((.((((...((.((((((..(.(((((.((((.........)))).)))))))))))).))((((......))))......................)))))))))) ( -28.70)
>DroSec_CAF1 108287 114 - 1
UUGUACAUGUUCCAUUUACUUUUAUGGCAGUGCAGGGCAAGAAAAGAUCCCUUGGUCUGUCCCGUACUAGGUUGUUUUUCCAAUGUUUUU--UUUUUCGUCUUGCUUUGGACAUGU
....(((((((((((........))))(((.(((((((.((((((((..(.((((......((......))........)))).)..)))--))))).))))))).)))))))))) ( -31.34)
>DroSim_CAF1 111403 116 - 1
UUGUACAUGUUCCAUUUACUUUUAUGGCAGUGCAGGGCAAGAAAAGAUCCCUUGCUCUGCCCCGUAGUAGGUUGUUUUUCCAAUGUUUUUUUUUUUUCGUCUUGCUUUGGACAUGU
....((((((.(((....((.((((((..(.((((((((((.........))))))))))))))))).))((((......)))).......................))))))))) ( -31.40)
>DroYak_CAF1 116421 103 - 1
UUGUACA-------UUUACUUUUAUGGCAGUGCAGGGCAAGAAAAGAUCCCUUGGUCUGCUCCAUAGUAGGUUGUUUUUCCAAUGUUUUUUUC------UCGUGCUUUGGACAUGU
.(((.((-------(........))))))((.(((((((((((((((....((((...((.((......))..))....))))...)))))))------)..))))))).)).... ( -24.00)
>consensus
UUGUACAUGUUCCAUUUACUUUUAUGGCAGUGCAGGGCAAGAAAAGAUCCCUUGGUCUGCCCCGUAGUAGGUUGUUUUUCCAAUGUUUUUUUUUUUUCGUCUUGCUUUGGACAUGU
....(((((.........((.((((((....(((((.((((.........)))).))))).)))))).))........(((((.((.................)).)))))))))) (-22.49 = -22.93 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:17 2006