Locus 4904

Sequence ID 3L_DroMel_CAF1
Location 13,650,215 – 13,650,323
Length 108
Max. P 0.997538
window7740 window7741

overview

Window 0

Location 13,650,215 – 13,650,323
Length 108
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 91.48
Mean single sequence MFE -34.94
Consensus MFE -29.04
Energy contribution -29.04
Covariance contribution -0.00
Combinations/Pair 1.07
Mean z-score -2.67
Structure conservation index 0.83
SVM decision value 2.88
SVM RNA-class probability 0.997538
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13650215 108 + 23771897
AAAUUGAGAUGGCAGCAAAAGAUGGCCAGUUUCCAUCGUA----GGAGCAUCCUACGACCAUU-UAUGGCAUAC------AUUUGUCCACGCCAAAGGAUCUUUAGCUGCCAUAACUGC
........((((((((.(((((..((((.......(((((----((.....))))))).....-..))))....------.....(((........)))))))).))))))))...... ( -38.54)
>DroSec_CAF1 57608 108 + 1
AAAAUGAGAUGGCAGCAAAAGAUGGCCAGUUUCCAUCGAA----GGAGCAUCCUACGCCCAUU-UAUGGCAUAC------AUUUGUCCACGCCAAAGGAUCUUUAGCUGCCAUAACUGC
........((((((((.(((((..((((........((.(----((.....))).))......-..))))....------.....(((........)))))))).))))))))...... ( -32.09)
>DroSim_CAF1 67769 108 + 1
AAAUUGAGAUGGCAGCAAAAGAUGGCCAGUUUCCAUCGAA----GGAGCAUCCUACGCCCAUU-UAUGGCAUAC------AUUUGUCCACGCCAAAGGAUCUUUAGCUGCCAUAACUGC
........((((((((.(((((..((((........((.(----((.....))).))......-..))))....------.....(((........)))))))).))))))))...... ( -32.09)
>DroEre_CAF1 60321 109 + 1
AAAUUGAGAUGGCAGCAAAAGAUGGCCAGUUGCCAUCGAA----GGAGCAUCCUACGCCCAUUUUAUGGCAUAU------AUUUGUCCACGCCAAGGGUUCUUUGGCUGCCAUAACUGC
........((((((((.((((((((.(((.((((((.(((----((.((.......)))).))).))))))...------..))).))).(((...)))))))).))))))))...... ( -35.60)
>DroYak_CAF1 65551 119 + 1
AAAUUGAGAUGGCAGCAAAAGAUGGCCAGUUUCCAUCGAAGGAAGGAGCAACCUACGCCCAUUUCAUGGCACAUGCUCGAAUUUGUCCACGCCAAAGGUUCUUUGGCUGCCAUAACUGC
........((((((((.(((((((((...(((((......)))))(((((......(((........)))...)))))............)))).....))))).))))))))...... ( -36.40)
>consensus
AAAUUGAGAUGGCAGCAAAAGAUGGCCAGUUUCCAUCGAA____GGAGCAUCCUACGCCCAUU_UAUGGCAUAC______AUUUGUCCACGCCAAAGGAUCUUUAGCUGCCAUAACUGC
........((((((((....(((((.......))))).......((((.(((((..(((........)))............(((.......)))))))))))).))))))))...... (-29.04 = -29.04 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 13,650,215 – 13,650,323
Length 108
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 91.48
Mean single sequence MFE -39.30
Consensus MFE -31.40
Energy contribution -31.36
Covariance contribution -0.04
Combinations/Pair 1.03
Mean z-score -3.14
Structure conservation index 0.80
SVM decision value 2.78
SVM RNA-class probability 0.996962
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13650215 108 - 23771897
GCAGUUAUGGCAGCUAAAGAUCCUUUGGCGUGGACAAAU------GUAUGCCAUA-AAUGGUCGUAGGAUGCUCC----UACGAUGGAAACUGGCCAUCUUUUGCUGCCAUCUCAAUUU
...(..((((((((.(((((.....(((((((.(....)------.)))))))..-..((((((((((.....))----)))...(....).)))))))))).))))))))..)..... ( -42.70)
>DroSec_CAF1 57608 108 - 1
GCAGUUAUGGCAGCUAAAGAUCCUUUGGCGUGGACAAAU------GUAUGCCAUA-AAUGGGCGUAGGAUGCUCC----UUCGAUGGAAACUGGCCAUCUUUUGCUGCCAUCUCAUUUU
...(..((((((((.((((((....(((((((.(....)------.)))))))..-....((((.(((.....))----).)...(....)..))))))))).))))))))..)..... ( -37.30)
>DroSim_CAF1 67769 108 - 1
GCAGUUAUGGCAGCUAAAGAUCCUUUGGCGUGGACAAAU------GUAUGCCAUA-AAUGGGCGUAGGAUGCUCC----UUCGAUGGAAACUGGCCAUCUUUUGCUGCCAUCUCAAUUU
...(..((((((((.((((((....(((((((.(....)------.)))))))..-....((((.(((.....))----).)...(....)..))))))))).))))))))..)..... ( -37.30)
>DroEre_CAF1 60321 109 - 1
GCAGUUAUGGCAGCCAAAGAACCCUUGGCGUGGACAAAU------AUAUGCCAUAAAAUGGGCGUAGGAUGCUCC----UUCGAUGGCAACUGGCCAUCUUUUGCUGCCAUCUCAAUUU
...(..((((((((.(((((.(((.(((((((.......------.)))))))......)))((.(((.....))----).)).((((.....))))))))).))))))))..)..... ( -40.30)
>DroYak_CAF1 65551 119 - 1
GCAGUUAUGGCAGCCAAAGAACCUUUGGCGUGGACAAAUUCGAGCAUGUGCCAUGAAAUGGGCGUAGGUUGCUCCUUCCUUCGAUGGAAACUGGCCAUCUUUUGCUGCCAUCUCAAUUU
...(..((((((((.(((((.....((((.(((........(((((..((((........)))).....))))).((((......)))).)))))))))))).))))))))..)..... ( -38.90)
>consensus
GCAGUUAUGGCAGCUAAAGAUCCUUUGGCGUGGACAAAU______GUAUGCCAUA_AAUGGGCGUAGGAUGCUCC____UUCGAUGGAAACUGGCCAUCUUUUGCUGCCAUCUCAAUUU
...(..((((((((.(((((.....((((((((.((.((......)).)))))).....(((((.....)))))...........(....)..))))))))).))))))))..)..... (-31.40 = -31.36 +  -0.04)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:35 2006