Locus 7926

Sequence ID 3L_DroMel_CAF1
Location 21,061,680 – 21,061,800
Length 120
Max. P 0.998556
window12924 window12925

overview

Window 4

Location 21,061,680 – 21,061,800
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.01
Mean single sequence MFE -21.72
Consensus MFE -19.96
Energy contribution -19.60
Covariance contribution -0.36
Combinations/Pair 1.16
Mean z-score -2.05
Structure conservation index 0.92
SVM decision value 3.14
SVM RNA-class probability 0.998556
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21061680 120 + 23771897
CAAUUUGCAAACAAUAAUGAAAACCCAGCUCACCGGCUGCUGCCCGACUACCUGGCUAAUUAAAUCAAAUAAGCCAUGCAAGCGCAUUAAAAAUGCAAGCAGCUAAAAAACUACAACAAC
..................................(((((((((..........((((.(((......))).))))((((....)))).......)).)))))))................ ( -21.90)
>DroSec_CAF1 116643 116 + 1
CAAUUUGCAAACAAUAAUGAAAACCCAGCUCACCGGCUGCUGCCCGACUACCUGGCUAAUUAAAUCAAAUAAGCCAUGCCAGCGCAUUAAAAAUGCAAGCAGCUAAAAAACUACAA----
..................................(((((((...........(((((.(((......))).))))).......((((.....)))).)))))))............---- ( -21.40)
>DroSim_CAF1 22810 116 + 1
CAAUUUGCAAACAAUAAUGAAAACCCAGCUCACCGGCUGCUGCCCGACUACCUCGCUAAUUAAAUCAAAUAAGCCGUGCAAGCGCAUUAAAAAUGCAAGCAGCUAAAAAACUACAA----
..................................(((((((((...........(((.(((......))).))).(((....))).........)).)))))))............---- ( -18.30)
>DroEre_CAF1 39545 113 + 1
CAAUUUGCAAACAAUAAUGAAAACCCAGCUCAGCGGCUGCUGCCCGACUACCUGGCUAAUUAAAUCAAAUAAGCCAAGCAAGCGUAUUAAAAAUGCAGGCAGCUAAAAAACUG-------
..........................((((....))))((((((........(((((.(((......))).))))).....((((.......)))).))))))..........------- ( -23.90)
>DroYak_CAF1 10046 112 + 1
CAAUUUGCAAACAAUAAUGAAAACCCAGCUUAGCGGCUGCUGCCCGACUACCUGGCUAAUUAAAUCAAAUAAGCCAAGCAAGCGUAUUAAAAAUGCAAGCAGCUAAA-AACUG-------
....((((...................((((.(((((....)))........(((((.(((......))).))))).))))))((((.....))))..)))).....-.....------- ( -23.10)
>consensus
CAAUUUGCAAACAAUAAUGAAAACCCAGCUCACCGGCUGCUGCCCGACUACCUGGCUAAUUAAAUCAAAUAAGCCAUGCAAGCGCAUUAAAAAUGCAAGCAGCUAAAAAACUACAA____
..................................(((((((...........(((((.(((......))).))))).......((((.....)))).)))))))................ (-19.96 = -19.60 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 5

Location 21,061,680 – 21,061,800
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.01
Mean single sequence MFE -32.98
Consensus MFE -26.54
Energy contribution -27.10
Covariance contribution 0.56
Combinations/Pair 1.03
Mean z-score -2.17
Structure conservation index 0.80
SVM decision value 1.55
SVM RNA-class probability 0.963315
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21061680 120 - 23771897
GUUGUUGUAGUUUUUUAGCUGCUUGCAUUUUUAAUGCGCUUGCAUGGCUUAUUUGAUUUAAUUAGCCAGGUAGUCGGGCAGCAGCCGGUGAGCUGGGUUUUCAUUAUUGUUUGCAAAUUG
....((((((.......(((((((((((.....))))(.((((.(((((.(((......))).))))).)))).))))))))..((((....))))..............)))))).... ( -33.00)
>DroSec_CAF1 116643 116 - 1
----UUGUAGUUUUUUAGCUGCUUGCAUUUUUAAUGCGCUGGCAUGGCUUAUUUGAUUUAAUUAGCCAGGUAGUCGGGCAGCAGCCGGUGAGCUGGGUUUUCAUUAUUGUUUGCAAAUUG
----((((((.......(((((((((((.....))))((((.(.(((((.(((......))).)))))).)))).)))))))..((((....))))..............)))))).... ( -33.70)
>DroSim_CAF1 22810 116 - 1
----UUGUAGUUUUUUAGCUGCUUGCAUUUUUAAUGCGCUUGCACGGCUUAUUUGAUUUAAUUAGCGAGGUAGUCGGGCAGCAGCCGGUGAGCUGGGUUUUCAUUAUUGUUUGCAAAUUG
----..((((((....))))))(((((....(((((.(((.((.(((((..((((..........))))..))))).)))))..((((....)))).....))))).....))))).... ( -30.20)
>DroEre_CAF1 39545 113 - 1
-------CAGUUUUUUAGCUGCCUGCAUUUUUAAUACGCUUGCUUGGCUUAUUUGAUUUAAUUAGCCAGGUAGUCGGGCAGCAGCCGCUGAGCUGGGUUUUCAUUAUUGUUUGCAAAUUG
-------((((((....(((((.(((..........((.((((((((((.(((......))).)))))))))).)).))))))))....))))))(((((.((........)).))))). ( -34.40)
>DroYak_CAF1 10046 112 - 1
-------CAGUU-UUUAGCUGCUUGCAUUUUUAAUACGCUUGCUUGGCUUAUUUGAUUUAAUUAGCCAGGUAGUCGGGCAGCAGCCGCUAAGCUGGGUUUUCAUUAUUGUUUGCAAAUUG
-------(((((-(...((((((.((..........((.((((((((((.(((......))).)))))))))).)).))))))))....))))))(((((.((........)).))))). ( -33.60)
>consensus
____UUGUAGUUUUUUAGCUGCUUGCAUUUUUAAUGCGCUUGCAUGGCUUAUUUGAUUUAAUUAGCCAGGUAGUCGGGCAGCAGCCGGUGAGCUGGGUUUUCAUUAUUGUUUGCAAAUUG
.......((((((....(((((.(((..........((.((((.(((((.(((......))).))))).)))).)).))))))))....))))))(((((.((........)).))))). (-26.54 = -27.10 +   0.56)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:04 2006