Locus 2789

Sequence ID X_DroMel_CAF1
Location 7,478,830 – 7,479,012
Length 182
Max. P 0.938021
window4562 window4563

overview

Window 2

Location 7,478,830 – 7,478,945
Length 115
Sequences 4
Columns 115
Reading direction reverse
Mean pairwise identity 89.28
Mean single sequence MFE -38.95
Consensus MFE -28.99
Energy contribution -30.92
Covariance contribution 1.94
Combinations/Pair 1.00
Mean z-score -2.93
Structure conservation index 0.74
SVM decision value 1.27
SVM RNA-class probability 0.938021
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7478830 115 - 22224390
GGAUCUGGCAGAUCUUGAGCGUCUGAUUUGUGCAAAUAAUUGAAAUUUGCAUAUAAUGAAGGCGACACACUGGGGGCGUUCAAUAAAGGGGGUCUUCGGGGGACUGCGGGCUUCG
(((.((.((((.((((..((((((....(((((((((.......)))))))))......))))).)...((((((((.(((......))).)))))))))))))))).)).))). ( -40.40)
>DroSec_CAF1 11971 115 - 1
GGAUCUGGCAGAUCUUGAGCGUCUGAUUUGUGCAAAUAAUUGAAAUUUGCAUAUAAUGAAGGCGACACACUGGGGGCGUUCAAUAAAGGGGGUCUUCGGGGGUCUGCGGGCUUCG
(((.((.((((((((...((((((....(((((((((.......)))))))))......))))).)...((((((((.(((......))).)))))))))))))))).)).))). ( -43.80)
>DroSim_CAF1 11998 115 - 1
GGAUCUGGCAGAUCUUGAGCGUCUGAUUUGUGCAAAUAAUUGAAAUUUGCAUAUAAUGAAGGCGACACACUGGGGGCGUUCAAUAAAGGGGGUCUUCGGGGGUCUGCGGGCUUCG
(((.((.((((((((...((((((....(((((((((.......)))))))))......))))).)...((((((((.(((......))).)))))))))))))))).)).))). ( -43.80)
>DroEre_CAF1 12808 96 - 1
GGAUCUGGCAGAUCUUGAGCGUCUGAUUUGUGCAAAUAAUUGAAAUUUGCAUAUAAUGAAGGCGACACACUGGGGGCGUUCAAUAAAAGCGGGUCU-------------------
(((((((.(.....((((((((((....(((((((((.......))))))))).......(....).......)))))))))).....))))))))------------------- ( -27.80)
>consensus
GGAUCUGGCAGAUCUUGAGCGUCUGAUUUGUGCAAAUAAUUGAAAUUUGCAUAUAAUGAAGGCGACACACUGGGGGCGUUCAAUAAAGGGGGUCUUCGGGGGUCUGCGGGCUUCG
.((((.....))))((((((((((....(((((((((.......))))))))).......(....).......)))))))))).....(((((((.(((....))).))))))). (-28.99 = -30.92 +   1.94)

alignment

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secondary structure

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dotplot

Postscript

Window 3

Location 7,478,905 – 7,479,012
Length 107
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 99.53
Mean single sequence MFE -21.10
Consensus MFE -21.10
Energy contribution -21.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.03
Structure conservation index 1.00
SVM decision value 0.46
SVM RNA-class probability 0.745851
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7478905 107 + 22224390
AUUAUUUGCACAAAUCAGACGCUCAAGAUCUGCCAGAUCCAGCCACGACCAGGCAUUAUUAUCAAUCCCCCGCAAAAAAGGCUAAAGCUAAAGCUAAAGCCCAAAGA
....(((((.................((((.....))))..(((.......))).................)))))...((((..(((....)))..))))...... ( -21.10)
>DroSec_CAF1 12046 107 + 1
AUUAUUUGCACAAAUCAGACGCUCAAGAUCUGCCAGAUCCAGCCACGACCAGGCAUUAUUAUCAAUCCCCCGCAAAAAAGGCUAAAGCUUAAGCUAAAGCCCAAAGA
....(((((.................((((.....))))..(((.......))).................)))))...((((..(((....)))..))))...... ( -21.10)
>DroSim_CAF1 12073 107 + 1
AUUAUUUGCACAAAUCAGACGCUCAAGAUCUGCCAGAUCCAGCCACGACCAGGCAUUAUUAUCAAUCCCCCGCAAAAAAGGCUAAAGCUAAAGCUAAAGCCCAAAGA
....(((((.................((((.....))))..(((.......))).................)))))...((((..(((....)))..))))...... ( -21.10)
>DroEre_CAF1 12864 107 + 1
AUUAUUUGCACAAAUCAGACGCUCAAGAUCUGCCAGAUCCAGCCACGACCAGGCAUUAUUAUCAAUCCCCCGCAAAAAAGGCUAAAGCUAAAGCUAAAGCCCAAAGA
....(((((.................((((.....))))..(((.......))).................)))))...((((..(((....)))..))))...... ( -21.10)
>consensus
AUUAUUUGCACAAAUCAGACGCUCAAGAUCUGCCAGAUCCAGCCACGACCAGGCAUUAUUAUCAAUCCCCCGCAAAAAAGGCUAAAGCUAAAGCUAAAGCCCAAAGA
....(((((.................((((.....))))..(((.......))).................)))))...((((..(((....)))..))))...... (-21.10 = -21.10 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:21 2006