Locus 3426

Sequence ID 2L_DroMel_CAF1
Location 9,940,748 – 9,940,867
Length 119
Max. P 0.972098
window5426 window5427

overview

Window 6

Location 9,940,748 – 9,940,842
Length 94
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 95.20
Mean single sequence MFE -18.67
Consensus MFE -17.02
Energy contribution -17.18
Covariance contribution 0.16
Combinations/Pair 1.07
Mean z-score -1.61
Structure conservation index 0.91
SVM decision value 1.69
SVM RNA-class probability 0.972098
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9940748 94 + 22407834
AAUAUGGGGCCAUAUCGGCCUUCUAGGCUAGUUACAAAUCGUAGCUUUAUUUAACAGUGUUUUAUGUACUUGUACAUAUUAUUUAAAUAUUAAU
..((..(((((.....)))))..))....((((((.....)))))).(((((((....((..((((((....))))))..)))))))))..... ( -20.20)
>DroSec_CAF1 5464 94 + 1
AAUAUGGGGCCAUAUCGACCUUCUAGGCUAGUUACAAAUCGUAGCUUUAUUUAACAGUGUUUUAUGUACUUGUACAUAUUAUUUAAAUAUUAAU
.......((((..............))))((((((.....)))))).(((((((....((..((((((....))))))..)))))))))..... ( -15.04)
>DroSim_CAF1 5939 94 + 1
AAUAUGCGGCCAUAUCGGCCUUCUAGGCUAGUUACAAAUCGUAGCUUUAUUUAACAGUGUUUUAUGUACUUGUACAUAUUAUUUAAAUAUUAAU
.......((((.....)))).........((((((.....)))))).(((((((....((..((((((....))))))..)))))))))..... ( -18.40)
>DroEre_CAF1 6153 92 + 1
AA--UGAGGUCAUAUCGGCCUUUUAGGCUAGUUACAAAUCGUAGCUUUAUUUAACAGUGUUUUAUGUACUUGUACAUAUUAUUUAAAUAUUAAU
..--.((((((.....)))))).......((((((.....)))))).(((((((....((..((((((....))))))..)))))))))..... ( -17.40)
>DroYak_CAF1 5710 92 + 1
AA--AGGGGCCGAAUCGGCCUUUUAGGCUAGUUACAAAUCGUAGCUUUAUUUAACAGUGUUUUAUGUACUUGUACAUAUUAUUUAAAUAUUAAU
.(--((((((((...))))))))).....((((((.....)))))).(((((((....((..((((((....))))))..)))))))))..... ( -22.30)
>consensus
AAUAUGGGGCCAUAUCGGCCUUCUAGGCUAGUUACAAAUCGUAGCUUUAUUUAACAGUGUUUUAUGUACUUGUACAUAUUAUUUAAAUAUUAAU
.....((((((.....)))))).......((((((.....)))))).(((((((....((..((((((....))))))..)))))))))..... (-17.02 = -17.18 +   0.16)

alignment

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secondary structure

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dotplot

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Window 7

Location 9,940,772 – 9,940,867
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 99.37
Mean single sequence MFE -16.80
Consensus MFE -16.80
Energy contribution -16.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.64
Structure conservation index 1.00
SVM decision value 1.52
SVM RNA-class probability 0.961060
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9940772 95 + 22407834
AGGCUAGUUACAAAUCGUAGCUUUAUUUAACAGUGUUUUAUGUACUUGUACAUAUUAUUUAAAUAUUAAUAGCACUAAACAUAAUGGUCAACAAU
.((((((((((.....)))))..........(((((..((((((....)))))).((((........)))))))))........)))))...... ( -16.80)
>DroSec_CAF1 5488 95 + 1
AGGCUAGUUACAAAUCGUAGCUUUAUUUAACAGUGUUUUAUGUACUUGUACAUAUUAUUUAAAUAUUAAUAGCACUAAACAUAAUGGUCAACAAU
.((((((((((.....)))))..........(((((..((((((....)))))).((((........)))))))))........)))))...... ( -16.80)
>DroSim_CAF1 5963 95 + 1
AGGCUAGUUACAAAUCGUAGCUUUAUUUAACAGUGUUUUAUGUACUUGUACAUAUUAUUUAAAUAUUAAUAGCACUAAACAUAAUGGUCAACAAU
.((((((((((.....)))))..........(((((..((((((....)))))).((((........)))))))))........)))))...... ( -16.80)
>DroEre_CAF1 6175 95 + 1
AGGCUAGUUACAAAUCGUAGCUUUAUUUAACAGUGUUUUAUGUACUUGUACAUAUUAUUUAAAUAUUAAUAGCACUAAACAUAAUGGUCAACACU
.((((((((((.....)))))..........(((((..((((((....)))))).((((........)))))))))........)))))...... ( -16.80)
>DroYak_CAF1 5732 95 + 1
AGGCUAGUUACAAAUCGUAGCUUUAUUUAACAGUGUUUUAUGUACUUGUACAUAUUAUUUAAAUAUUAAUAGCACUAAACAUAAUGGUCAACACU
.((((((((((.....)))))..........(((((..((((((....)))))).((((........)))))))))........)))))...... ( -16.80)
>consensus
AGGCUAGUUACAAAUCGUAGCUUUAUUUAACAGUGUUUUAUGUACUUGUACAUAUUAUUUAAAUAUUAAUAGCACUAAACAUAAUGGUCAACAAU
.((((((((((.....)))))..........(((((..((((((....)))))).((((........)))))))))........)))))...... (-16.80 = -16.80 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:16 2006