Locus 5493

Sequence ID 2L_DroMel_CAF1
Location 15,704,742 – 15,704,869
Length 127
Max. P 0.939671
window8714 window8715

overview

Window 4

Location 15,704,742 – 15,704,849
Length 107
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.70
Mean single sequence MFE -30.22
Consensus MFE -19.83
Energy contribution -20.42
Covariance contribution 0.58
Combinations/Pair 1.04
Mean z-score -3.24
Structure conservation index 0.66
SVM decision value 0.64
SVM RNA-class probability 0.808468
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15704742 107 - 22407834
UUGCCAC----------AGUAUUGAUAUUGCAGAUAAUGCCAUAAAAUUGUCCAAAUAUUUUUGGGGGCAUUAUUCUGCAAGGUCUUUACUCUGGCUCAACUUGAUUUUGUUUUU---GC
..((((.----------((((..(((.((((((((((((((.........((((((....))))))))))))).))))))).)))..)))).))))...................---.. ( -37.20)
>DroPse_CAF1 31994 100 - 1
-----------------CAUAUUGAUAUUGCAGAUAAUGCCAUAAAAUUGUGCAAAUAUUUUUGGGAGCAUUAUUUUGCAUGGUCUUUACUCUGGCUCAACUUGACUUUGUUUUC---CC
-----------------((..((((...(((((((((((((.(((((.(((....))).))))).).)))))).))))))..(((........)))))))..))...........---.. ( -19.40)
>DroEre_CAF1 32657 106 - 1
UUGCCAC----------AGUAUUGAUAUUGCAGAUAAUGCCAUAAAAUUGUCCAAAUAUUUUUUGGGGCAUUAUUCUGCAAGGUCCUUACUCUGGCUCAACUUGAUUUUGC-UUU---GC
..((((.----------((((..(((.(((((((((((((((((....)))(((((.....)))))))))))).))))))).)))..)))).))))...............-...---.. ( -35.60)
>DroYak_CAF1 35674 107 - 1
UUGCCAC----------AGUAUUGAUAUUGCAGAUAAUGCCAUAAAAUUGUCCAAAUAUUUUUGGGGGCAUUAUUCUGCAAGGUCUUUACUCUGGCUCAACUUGAUUUUCUUUUU---GC
..((((.----------((((..(((.((((((((((((((.........((((((....))))))))))))).))))))).)))..)))).))))...................---.. ( -37.20)
>DroAna_CAF1 24252 120 - 1
UCGGCACUCAGGCGGCGCGUAUUGAUAUUGCAGAUAAUGCCAUAAAAUUGUGCAAAUAUUUUCGGGGGCAUUAUUUUGCAUGGUCUCUACAGUGGCUCAACUUUACUUGGCCUUUCGGGU
.....(((((((((.((((((..(((..(((((((((((((...(((.(((....))).)))....))))))).))))))..)))..))).))).).(((......)))))))...)))) ( -32.50)
>DroPer_CAF1 29735 100 - 1
-----------------CAUAUUGAUAUUGCAGAUAAUGCCAUAAAAUUGUGCAAAUAUUUUUGGGAGCAUUAUUUUGCAUGGUCUUUACUCUGGCUCAACUUGACUUUGUUUUC---CC
-----------------((..((((...(((((((((((((.(((((.(((....))).))))).).)))))).))))))..(((........)))))))..))...........---.. ( -19.40)
>consensus
UUGCCAC__________AGUAUUGAUAUUGCAGAUAAUGCCAUAAAAUUGUCCAAAUAUUUUUGGGGGCAUUAUUCUGCAAGGUCUUUACUCUGGCUCAACUUGACUUUGUUUUU___GC
..................(((..(((..(((((((((((((..((((.(((....))).))))...))))))).))))))..)))..))).............................. (-19.83 = -20.42 +   0.58)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,704,779 – 15,704,869
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 83.93
Mean single sequence MFE -18.97
Consensus MFE -15.57
Energy contribution -15.68
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -2.93
Structure conservation index 0.82
SVM decision value 1.30
SVM RNA-class probability 0.939671
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15704779 90 - 22407834
CUUCACCUACCUCCCUCUCUUUGCCACAGUAUUGAUAUUGCAGAUAAUGCCAUAAAAUUGUCCAAAUAUUUUUGGGGGCAUUAUUCUGCA
.................((..(((....)))..))...(((((((((((((.........((((((....))))))))))))).)))))) ( -21.50)
>DroPse_CAF1 32031 72 - 1
CCU------CCUCCC------------CAUAUUGAUAUUGCAGAUAAUGCCAUAAAAUUGUGCAAAUAUUUUUGGGAGCAUUAUUUUGCA
...------....((------------((....(((((((((..((((........))))))).))))))..)))).(((......))). ( -14.70)
>DroSim_CAF1 25539 90 - 1
CUUCACCUACCUCCCUCUCUUUGCCACAGUAUUGAUAUUGCAGAUAAUGCCAUAAAAUUGUCCAAAUAUUUUUGGGGGCAUUAUUCUGCA
.................((..(((....)))..))...(((((((((((((.........((((((....))))))))))))).)))))) ( -21.50)
>DroEre_CAF1 32693 90 - 1
CUUCACCCACCUCCCUCUCCUUGCCACAGUAUUGAUAUUGCAGAUAAUGCCAUAAAAUUGUCCAAAUAUUUUUUGGGGCAUUAUUCUGCA
.................((..(((....)))..))...((((((((((((((((....)))(((((.....)))))))))))).)))))) ( -19.90)
>DroYak_CAF1 35711 90 - 1
CUUUACCUACCUUCCCCUCUUUGCCACAGUAUUGAUAUUGCAGAUAAUGCCAUAAAAUUGUCCAAAUAUUUUUGGGGGCAUUAUUCUGCA
.................((..(((....)))..))...(((((((((((((.........((((((....))))))))))))).)))))) ( -21.50)
>DroPer_CAF1 29772 72 - 1
CCU------CCUCCC------------CAUAUUGAUAUUGCAGAUAAUGCCAUAAAAUUGUGCAAAUAUUUUUGGGAGCAUUAUUUUGCA
...------....((------------((....(((((((((..((((........))))))).))))))..)))).(((......))). ( -14.70)
>consensus
CUUCACCUACCUCCCUCUCUUUGCCACAGUAUUGAUAUUGCAGAUAAUGCCAUAAAAUUGUCCAAAUAUUUUUGGGGGCAUUAUUCUGCA
......................................(((((((((((((..((((.(((....))).))))...))))))).)))))) (-15.57 = -15.68 +   0.11)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:28 2006