Locus 1091

Sequence ID 2L_DroMel_CAF1
Location 3,000,817 – 3,000,937
Length 120
Max. P 0.880337
window1773 window1774

overview

Window 3

Location 3,000,817 – 3,000,937
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.50
Mean single sequence MFE -34.38
Consensus MFE -33.02
Energy contribution -33.02
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.24
Structure conservation index 0.96
SVM decision value 0.23
SVM RNA-class probability 0.646106
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3000817 120 + 22407834
GCCGCAUGCAACAGGUAAAAGCAGCGACGCCACCGUUUCGAAACGAAAUGCCCGCAAGAGCGAAAGAGAUGGCGCCGAACAACCUGUUACAUCGCCCGCUGCCUGAAAUAUGUAAAGUCA
...(((((...(((((...(((.(((((((((.(((((((...))))))((.(....).))......).)))))...(((.....)))...))))..))))))))...)))))....... ( -33.40)
>DroSec_CAF1 8376 120 + 1
GCCGCAUGCAACAGGUAAAAGCAGCGACGCCAGCGUUUCGAAACGAAAUGCCCGCAAGAGCGAAAGAGAUGGCGCCCAACAACCUGUUACAUCGCCCGCUGCCUGAAAUAUGUAAAGUCA
...(((((...(((((...(((.(((((((((((((((((...)))))))).(((....))).......)))))...(((.....)))...))))..))))))))...)))))....... ( -37.10)
>DroSim_CAF1 7742 120 + 1
GCCGCAUGCAACAGGUAAAAGCAGCGACGCCACCGUUUCGAAACGAAAUGCCCGCAAGAGCGAAAGAGAUGGCGCCCAACAACCUGUUACAUCGCCCGCUGCCUGAAAUAUGUAAAGUCA
...(((((...(((((...(((.(((((((((.(((((((...))))))((.(....).))......).)))))...(((.....)))...))))..))))))))...)))))....... ( -33.30)
>DroEre_CAF1 8371 120 + 1
GCCGCAUGCAACAGGUAAAAGCAGCGACGCCACCGUUUCGAAACGAAAUGCCCGAGAGAGCGAAAGAGAUGGCGCCCAACAACCUGUUACAUCGCCCGCUGCCUGAAAUAUGUAAAGUCA
...(((((...(((((...(((.(((((((((.(((((((...))))))((.(....).))......).)))))...(((.....)))...))))..))))))))...)))))....... ( -32.30)
>DroYak_CAF1 7866 120 + 1
GCCGCAUGCAACAGGUAAAAGCAGCGACGCCACCGUUUCGAAACGAAAUGCCCGCGAGAGCGAAAGAGAUGGCGCCCAACAACCUGUUACAUCGCCCGCUGCCUGAAAUAUGUAAAGUCA
...(((((...(((((...(((.(((((((((.(((((((...)))))))..(((....))).......)))))...(((.....)))...))))..))))))))...)))))....... ( -35.80)
>consensus
GCCGCAUGCAACAGGUAAAAGCAGCGACGCCACCGUUUCGAAACGAAAUGCCCGCAAGAGCGAAAGAGAUGGCGCCCAACAACCUGUUACAUCGCCCGCUGCCUGAAAUAUGUAAAGUCA
...(((((...(((((...(((.(((((((((.(((((((...))))))((.(....).))......).)))))...(((.....)))...))))..))))))))...)))))....... (-33.02 = -33.02 +  -0.00)

alignment

Postscript

secondary structure

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dotplot

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Window 4

Location 3,000,817 – 3,000,937
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 98.50
Mean single sequence MFE -42.32
Consensus MFE -40.72
Energy contribution -40.92
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.43
Structure conservation index 0.96
SVM decision value 0.91
SVM RNA-class probability 0.880337
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3000817 120 - 22407834
UGACUUUACAUAUUUCAGGCAGCGGGCGAUGUAACAGGUUGUUCGGCGCCAUCUCUUUCGCUCUUGCGGGCAUUUCGUUUCGAAACGGUGGCGUCGCUGCUUUUACCUGUUGCAUGCGGC
.........................((.(((((((((((.((.((((((((((......((((....)))).(((((...))))).))))))))))..))....)))))))))))))... ( -44.10)
>DroSec_CAF1 8376 120 - 1
UGACUUUACAUAUUUCAGGCAGCGGGCGAUGUAACAGGUUGUUGGGCGCCAUCUCUUUCGCUCUUGCGGGCAUUUCGUUUCGAAACGCUGGCGUCGCUGCUUUUACCUGUUGCAUGCGGC
.........................((.(((((((((((.((.(((((((........(((....)))(((.(((((...))))).))))))))).).))....)))))))))))))... ( -40.90)
>DroSim_CAF1 7742 120 - 1
UGACUUUACAUAUUUCAGGCAGCGGGCGAUGUAACAGGUUGUUGGGCGCCAUCUCUUUCGCUCUUGCGGGCAUUUCGUUUCGAAACGGUGGCGUCGCUGCUUUUACCUGUUGCAUGCGGC
.........................((.(((((((((((.((.((((((((((......((((....)))).(((((...))))).))))))))).).))....)))))))))))))... ( -42.20)
>DroEre_CAF1 8371 120 - 1
UGACUUUACAUAUUUCAGGCAGCGGGCGAUGUAACAGGUUGUUGGGCGCCAUCUCUUUCGCUCUCUCGGGCAUUUCGUUUCGAAACGGUGGCGUCGCUGCUUUUACCUGUUGCAUGCGGC
.........................((.(((((((((((.((.((((((((((......((((....)))).(((((...))))).))))))))).).))....)))))))))))))... ( -42.20)
>DroYak_CAF1 7866 120 - 1
UGACUUUACAUAUUUCAGGCAGCGGGCGAUGUAACAGGUUGUUGGGCGCCAUCUCUUUCGCUCUCGCGGGCAUUUCGUUUCGAAACGGUGGCGUCGCUGCUUUUACCUGUUGCAUGCGGC
.........................((.(((((((((((.((.((((((((((......((((....)))).(((((...))))).))))))))).).))....)))))))))))))... ( -42.20)
>consensus
UGACUUUACAUAUUUCAGGCAGCGGGCGAUGUAACAGGUUGUUGGGCGCCAUCUCUUUCGCUCUUGCGGGCAUUUCGUUUCGAAACGGUGGCGUCGCUGCUUUUACCUGUUGCAUGCGGC
.........................((.(((((((((((.((..(((((((((......((((....)))).(((((...))))).)))))))))...))....)))))))))))))... (-40.72 = -40.92 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:24 2006