Locus 8586

Sequence ID 3L_DroMel_CAF1
Location 22,369,777 – 22,369,882
Length 105
Max. P 0.915385
window14065 window14066

overview

Window 5

Location 22,369,777 – 22,369,882
Length 105
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 86.43
Mean single sequence MFE -27.40
Consensus MFE -21.51
Energy contribution -21.84
Covariance contribution 0.33
Combinations/Pair 1.08
Mean z-score -3.29
Structure conservation index 0.78
SVM decision value 1.07
SVM RNA-class probability 0.909529
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22369777 105 + 23771897
UAUUUAUGGCGUCUGCUGCAACUUUGCAGCCAAAAAGCCAAAACA--CACAUUUCAAACUGUUUAAUGGCAUAAUGCCAAAAAGUAUUCAAAACAAGAGUGGUUUGA-------------
......((((....((((((....))))))......)))).....--......((((((..(((..((((.....))))....((.......))..)))..))))))------------- ( -28.20)
>DroPse_CAF1 71826 120 + 1
UAUUUAUGGCGUCUGCUGCAACUUUGCAGCCAAAAAGCCAAAACACACACAUUUCAAAUUGCUUAAUGGCAAAAUGCCAAAAAGUAUUCAAAACAAGCCAUAUUUGAGGGAUAACAAACG
......((((....((((((....))))))......))))...........((((((((.((((..((((.....))))....((.......))))))...))))))))........... ( -27.80)
>DroSec_CAF1 20907 105 + 1
UAUUUAUGGCGUCUGCUGCAACUUUGCAGCCAAAAAGCCAAAACA--CACAUUUCAAAUUGUUUAAUGGCAUAAUGCCAAAAAGUAUUCAAAACAAGCGUGGCUUGA-------------
..(((.((((((..((((((....))))))......(((((((((--............)))))..))))...)))))).)))..........(((((...))))).------------- ( -27.10)
>DroSim_CAF1 35294 105 + 1
UAUUUAUGGCGUCUGCUGCAACUUUGCAGCCAAAAAGCCAAAACA--CACAUUUCAAACUGUUUAAUGGCAUAAUGCCAAAAAGUAUUCAAAACAAGCGUGGCUUGA-------------
..(((.((((((..((((((....))))))......(((((((((--............)))))..))))...)))))).)))..........(((((...))))).------------- ( -27.10)
>DroEre_CAF1 37920 104 + 1
UAUUUAUGGCGUCUGCUGCAACUUUGCAGCCAAAAUGCCAAAGCA--CACAUUUCAAACUGUUUAAUGGCGCAAUGCCAA-AAGUAUUCAAAACAAGAGUGGCUCAC-------------
......((((((..((((((....))))))....)))))).(((.--(((................((((.....)))).-..((.......))....))))))...------------- ( -26.40)
>DroPer_CAF1 74498 120 + 1
UAUUUAUGGCGUCUGCUGCAACUUUGCAGCCAAAAAGCCAAAACACACACAUUUCAAAUUGCUUAAUGGCAAAAUGCCAAAAAGUAUUCAAAACAAGCCAUAUUUGAGGGAUAACAAACG
......((((....((((((....))))))......))))...........((((((((.((((..((((.....))))....((.......))))))...))))))))........... ( -27.80)
>consensus
UAUUUAUGGCGUCUGCUGCAACUUUGCAGCCAAAAAGCCAAAACA__CACAUUUCAAACUGUUUAAUGGCAUAAUGCCAAAAAGUAUUCAAAACAAGCGUGGCUUGA_____________
......((((((..((((((....))))))......(((((((((..............)))))..))))...))))))..............((((.....)))).............. (-21.51 = -21.84 +   0.33)

alignment

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secondary structure

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dotplot

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Window 6

Location 22,369,777 – 22,369,882
Length 105
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 86.43
Mean single sequence MFE -30.28
Consensus MFE -25.47
Energy contribution -24.47
Covariance contribution -1.00
Combinations/Pair 1.18
Mean z-score -2.49
Structure conservation index 0.84
SVM decision value 1.10
SVM RNA-class probability 0.915385
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22369777 105 - 23771897
-------------UCAAACCACUCUUGUUUUGAAUACUUUUUGGCAUUAUGCCAUUAAACAGUUUGAAAUGUG--UGUUUUGGCUUUUUGGCUGCAAAGUUGCAGCAGACGCCAUAAAUA
-------------..(((((((....((((..(((..((..((((.....))))..))...)))..)))))))--.))))((((.((...((((((....)))))).)).))))...... ( -28.20)
>DroPse_CAF1 71826 120 - 1
CGUUUGUUAUCCCUCAAAUAUGGCUUGUUUUGAAUACUUUUUGGCAUUUUGCCAUUAAGCAAUUUGAAAUGUGUGUGUUUUGGCUUUUUGGCUGCAAAGUUGCAGCAGACGCCAUAAAUA
.(((((........)))))(((((..((((..(((.(((..((((.....))))..)))..)))..))))..((.((((..((((....))))(((....))))))).)))))))..... ( -31.60)
>DroSec_CAF1 20907 105 - 1
-------------UCAAGCCACGCUUGUUUUGAAUACUUUUUGGCAUUAUGCCAUUAAACAAUUUGAAAUGUG--UGUUUUGGCUUUUUGGCUGCAAAGUUGCAGCAGACGCCAUAAAUA
-------------......(((((..((((..(((..((..((((.....))))..))...)))..)))))))--))...((((.((...((((((....)))))).)).))))...... ( -30.10)
>DroSim_CAF1 35294 105 - 1
-------------UCAAGCCACGCUUGUUUUGAAUACUUUUUGGCAUUAUGCCAUUAAACAGUUUGAAAUGUG--UGUUUUGGCUUUUUGGCUGCAAAGUUGCAGCAGACGCCAUAAAUA
-------------......(((((..((((..(((..((..((((.....))))..))...)))..)))))))--))...((((.((...((((((....)))))).)).))))...... ( -30.40)
>DroEre_CAF1 37920 104 - 1
-------------GUGAGCCACUCUUGUUUUGAAUACUU-UUGGCAUUGCGCCAUUAAACAGUUUGAAAUGUG--UGCUUUGGCAUUUUGGCUGCAAAGUUGCAGCAGACGCCAUAAAUA
-------------..(((((((....((((..(((....-.((((.....)))).......)))..)))))))--.))))((((.((...((((((....)))))).)).))))...... ( -29.80)
>DroPer_CAF1 74498 120 - 1
CGUUUGUUAUCCCUCAAAUAUGGCUUGUUUUGAAUACUUUUUGGCAUUUUGCCAUUAAGCAAUUUGAAAUGUGUGUGUUUUGGCUUUUUGGCUGCAAAGUUGCAGCAGACGCCAUAAAUA
.(((((........)))))(((((..((((..(((.(((..((((.....))))..)))..)))..))))..((.((((..((((....))))(((....))))))).)))))))..... ( -31.60)
>consensus
_____________UCAAACCACGCUUGUUUUGAAUACUUUUUGGCAUUAUGCCAUUAAACAAUUUGAAAUGUG__UGUUUUGGCUUUUUGGCUGCAAAGUUGCAGCAGACGCCAUAAAUA
...............((((......(((((..(((......((((.....)))).......)))..))))).....))))((((.((...((((((....)))))).)).))))...... (-25.47 = -24.47 +  -1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:19:38 2006