Locus 3967

Sequence ID X_DroMel_CAF1
Location 10,523,904 – 10,524,002
Length 98
Max. P 0.893313
window6521 window6522

overview

Window 1

Location 10,523,904 – 10,524,002
Length 98
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.87
Mean single sequence MFE -26.56
Consensus MFE -20.24
Energy contribution -20.60
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -1.69
Structure conservation index 0.76
SVM decision value 0.98
SVM RNA-class probability 0.893313
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10523904 98 + 22224390
-------------------CCUGUGUCCUGUAACUGGAGUCCAGGACACUGGACAUAUGCUGGCCGUCUUAUGCUGCUGCAGCUGUACAAAAAAAAAA---AAAAAAAAAUGAAAAUACG
-------------------((.((((((((..((....)).)))))))).))(((..(((.(((.((.....)).))))))..)))............---................... ( -23.20)
>DroSec_CAF1 55236 92 + 1
-------------------CCUGUGUCCUGUUACUGGAGUCCAGGACACUGGACAUAUGCUGGCCGUCUUAUGCUGCUGCAGCUGUACAA--AA-------AAAAAAGAAGGAAAAUACG
-------------------(((((((((((..((....)).))))))))((.(((..(((.(((.((.....)).))))))..))).)).--..-------........)))........ ( -23.90)
>DroSim_CAF1 58830 94 + 1
-------------------CCUGUGUCCUGUAACUGGAGUCCAGGACACUGGACAUAUGCUGGCCGUCUUAUGCUGCUGCAGCUGUACAAUAAA-------AAAAAAAAAGGAAAAUACG
-------------------(((((((((((..((....)).))))))))((.(((..(((.(((.((.....)).))))))..))).)).....-------........)))........ ( -23.60)
>DroEre_CAF1 57283 88 + 1
-------------------CCUAUGUCCUGUAACUGGAGUCCAGGACACUGGACAUAUGCUGGCCGUCUUAUGCUGCUGUAGCUGUAAAAAAAGAAG-------------GGAAAAUACA
-------------------..(((((((.((..((((...))))...)).)))))))......((.((((.(((.((....)).)))....)))).)-------------)......... ( -21.30)
>DroYak_CAF1 57638 120 + 1
UGUAACUGUAGUCCAGUGUCCAGUGUCCUGUAACUGUUGUCCAGGACACUGGACAUAUGCCAGCCGUCUUAUGCUGCAGUAGCUGCAAAAAAAGAAAGAAAAAAAAUGAAGGAAAAUGCG
.......(((.(((.(((((((((((((((..((....)).))))))))))))))).......(..((((.(..(((((...)))))..).))))..)............)))...))). ( -40.80)
>consensus
___________________CCUGUGUCCUGUAACUGGAGUCCAGGACACUGGACAUAUGCUGGCCGUCUUAUGCUGCUGCAGCUGUACAAAAAAAA_____AAAAAAAAAGGAAAAUACG
...................((.((((((((..((....)).)))))))).))(((..(((.(((.((.....)).))))))..))).................................. (-20.24 = -20.60 +   0.36)

alignment

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secondary structure

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dotplot

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Window 2

Location 10,523,904 – 10,524,002
Length 98
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.87
Mean single sequence MFE -25.00
Consensus MFE -20.82
Energy contribution -20.66
Covariance contribution -0.16
Combinations/Pair 1.15
Mean z-score -1.36
Structure conservation index 0.83
SVM decision value 0.68
SVM RNA-class probability 0.822115
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10523904 98 - 22224390
CGUAUUUUCAUUUUUUUUU---UUUUUUUUUUGUACAGCUGCAGCAGCAUAAGACGGCCAGCAUAUGUCCAGUGUCCUGGACUCCAGUUACAGGACACAGG-------------------
.((((..............---..........)))).((((...)))).......((.((.....)).)).(((((((((((....))).))))))))...------------------- ( -22.16)
>DroSec_CAF1 55236 92 - 1
CGUAUUUUCCUUCUUUUUU-------UU--UUGUACAGCUGCAGCAGCAUAAGACGGCCAGCAUAUGUCCAGUGUCCUGGACUCCAGUAACAGGACACAGG-------------------
(((((...((.((((....-------..--(((((....)))))......)))).)).....))))).((.((((((((...........)))))))).))------------------- ( -21.30)
>DroSim_CAF1 58830 94 - 1
CGUAUUUUCCUUUUUUUUU-------UUUAUUGUACAGCUGCAGCAGCAUAAGACGGCCAGCAUAUGUCCAGUGUCCUGGACUCCAGUUACAGGACACAGG-------------------
........(((........-------.....((.(((..(((.((..(....)...))..)))..))).))(((((((((((....))).)))))))))))------------------- ( -22.60)
>DroEre_CAF1 57283 88 - 1
UGUAUUUUCC-------------CUUCUUUUUUUACAGCUACAGCAGCAUAAGACGGCCAGCAUAUGUCCAGUGUCCUGGACUCCAGUUACAGGACAUAGG-------------------
.........(-------------(.((((........((....)).....)))).))...........((.(((((((((((....))).)))))))).))------------------- ( -18.72)
>DroYak_CAF1 57638 120 - 1
CGCAUUUUCCUUCAUUUUUUUUCUUUCUUUUUUUGCAGCUACUGCAGCAUAAGACGGCUGGCAUAUGUCCAGUGUCCUGGACAACAGUUACAGGACACUGGACACUGGACUACAGUUACA
.........................((((...((((((...))))))...)))).(((((.(...(((((((((((((((((....))).))))))))))))))...)....)))))... ( -40.20)
>consensus
CGUAUUUUCCUUCUUUUUU_____UUUUUUUUGUACAGCUGCAGCAGCAUAAGACGGCCAGCAUAUGUCCAGUGUCCUGGACUCCAGUUACAGGACACAGG___________________
.....................................((((..((..(....)...))))))......((.(((((((((((....))).)))))))).))................... (-20.82 = -20.66 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:07 2006