Locus 4748

Sequence ID 2L_DroMel_CAF1
Location 13,569,751 – 13,569,896
Length 145
Max. P 0.809351
window7510 window7511

overview

Window 0

Location 13,569,751 – 13,569,856
Length 105
Sequences 3
Columns 109
Reading direction forward
Mean pairwise identity 93.19
Mean single sequence MFE -24.37
Consensus MFE -19.45
Energy contribution -19.90
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -2.16
Structure conservation index 0.80
SVM decision value -0.01
SVM RNA-class probability 0.528108
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13569751 105 + 22407834
ACAAAAAACGGAAGAAAAGAAAUUAAGUCUGAAACAUGAAAUAAAGAUGAAGUGCCUGUCGAAGAAUCUGACUCAGUCAGUCAGUUAGUGCACUUUGGGUUUGGG----
........((((....((....))...))))..........((((..(((((((((((.........((((((.....)))))).))).))))))))..))))..---- ( -20.40)
>DroSim_CAF1 2624 109 + 1
ACAAAAAAUGGAAGAAAAGAAAUUAAGUCUGAAACAUGAAAUAAAGAUGAAGUGCCUGUCGAAGAAGCUGACUCAGUCAGUCAGUUAGUGCACUUUGUCUUUGGGUGGG
.......(((..(((.((....))...)))....)))....((((((..(((((((((........(((((((.....)))))))))).))))))..))))))...... ( -28.00)
>DroEre_CAF1 3442 102 + 1
---AAAAACGGAAGAAAAGAAAUUAAGUCUGAAACAUGAAAUAAAGAUGAAGUGCCUGUCGAAGAAGCUGACUCAGUCAGUCAGUUAGUGCACUUUGUGUUUGGG----
---.....((((....((....))...))))..........((((.(..(((((((((........(((((((.....)))))))))).))))))..).))))..---- ( -24.70)
>consensus
ACAAAAAACGGAAGAAAAGAAAUUAAGUCUGAAACAUGAAAUAAAGAUGAAGUGCCUGUCGAAGAAGCUGACUCAGUCAGUCAGUUAGUGCACUUUGUGUUUGGG____
........((((..((......))...))))..........((((.((((((((((((........(((((((.....)))))))))).))))))))).))))...... (-19.45 = -19.90 +   0.45)

alignment

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secondary structure

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dotplot

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Window 1

Location 13,569,780 – 13,569,896
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 91.29
Mean single sequence MFE -21.60
Consensus MFE -19.93
Energy contribution -19.93
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.92
SVM decision value 0.64
SVM RNA-class probability 0.809351
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13569780 116 - 22407834
CGCAAUCCCAGUUGGAAAUCCGACAACUACUCCUUCUCCC----CCCAAACCCAAAGUGCACUAACUGACUGACUGAGUCAGAUUCUUCGACAGGCACUUCAUCUUUAUUUCAUGUUUCA
.(((......(((((....)))))................----..........((((((.....((((((.....))))))......(....))))))).............))).... ( -20.40)
>DroSim_CAF1 2653 120 - 1
CGCAAUCCCAGUUGGAAAUCCGACAACUACUCCACCUCCUCCCACCCAAAGACAAAGUGCACUAACUGACUGACUGAGUCAGCUUCUUCGACAGGCACUUCAUCUUUAUUUCAUGUUUCA
.(((......(((((....))))).......................(((((..((((((.....((((((.....))))))((........))))))))..)))))......))).... ( -24.60)
>DroEre_CAF1 3468 109 - 1
CGCAAUCCCAGUUGGAAAUCCGACAACUACUCC-----------CCCAAACACAAAGUGCACUAACUGACUGACUGAGUCAGCUUCUUCGACAGGCACUUCAUCUUUAUUUCAUGUUUCA
.(((......(((((....))))).........-----------..........((((((.....((((((.....))))))((........)))))))).............))).... ( -19.80)
>consensus
CGCAAUCCCAGUUGGAAAUCCGACAACUACUCC__CUCC_____CCCAAACACAAAGUGCACUAACUGACUGACUGAGUCAGCUUCUUCGACAGGCACUUCAUCUUUAUUUCAUGUUUCA
.(((......(((((....)))))..............................((((((.....((((((.....))))))......(....))))))).............))).... (-19.93 = -19.93 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:13 2006