Locus 5944

Sequence ID 2L_DroMel_CAF1
Location 16,770,876 – 16,770,972
Length 96
Max. P 0.964192
window9446 window9447

overview

Window 6

Location 16,770,876 – 16,770,972
Length 96
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 81.79
Mean single sequence MFE -33.52
Consensus MFE -23.43
Energy contribution -22.85
Covariance contribution -0.58
Combinations/Pair 1.28
Mean z-score -4.12
Structure conservation index 0.70
SVM decision value 1.56
SVM RNA-class probability 0.964192
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16770876 96 + 22407834
UAGCUG-GUGAUGACUUAGCCCAAAUCAUUUUUAUGACUGGGUUACCCCAUCACCAGUCGACCUGCUAACACACGUCUCUUAAAGA-UUUAG-AUAGGG
..((((-((((((...(((((((..((((....)))).)))))))...))))))))))...((((((((.....((((.....)))-)))))-.)))). ( -33.90)
>DroSec_CAF1 498 95 + 1
UAGCUG-GUGAUGACUUGGCCCAAAUCAUUUUUAUGACUGGGUUACGCCAUCACCAGUCGACCUGCUAAC-CACGUCUCUUAAAGA-UUUAG-AUAGGG
..((((-((((((.(.(((((((..((((....)))).))))))).).))))))))))...((((((((.-...((((.....)))-)))))-.)))). ( -35.10)
>DroSim_CAF1 294 96 + 1
UAGUUG-GUGAUGACUUGGCCCAAAUCAUUUUAAUGACUGGGUUACGCCAUCACCAGCCGACCUGCUAACACAUGUCUCUUAAAGA-UUUAG-AUAGGG
..((((-((((((.(.(((((((..((((....)))).))))))).).))))))))))...((((((((.....((((.....)))-)))))-.)))). ( -33.80)
>DroEre_CAF1 498 95 + 1
CAGCUGUGGGAUGACUUAGCCCAACUCAUUUUUAUGACUGGGUUACCGCAUCCCCAGCCGACCUGCUAAC--ACGUCUCUUAAAGA-UUUGG-AUAGGG
..((((.((((((...(((((((..((((....)))).)))))))...))))))))))...((((((((.--..((((.....)))-)))))-.)))). ( -36.10)
>DroYak_CAF1 516 94 + 1
UAGCUG-GUGAUGACUUAGCCCAAAAUAUUUUUAUGACUGGGUUAUCUCAUCCCCAGCCGACCUGCUAAC--ACGUCUCUUAAAGA-UUUAG-AUAGGG
..((((-(.(((((..(((((((..(((....)))...)))))))..))))).)))))...((((((((.--..((((.....)))-)))))-.)))). ( -33.90)
>DroAna_CAF1 506 83 + 1
UAGCUGGGAAAUGGCUUAACCCA--------------UUGGGUGAGUUCAUUUCCCGCUGACCUGCUAAC--ACGUCUCUCAAACAGUUUAGUUUAGGG
((((.(((((((((((((.(((.--------------..))))))).))))))))))))).((((((((.--((............)))))))..))). ( -28.30)
>consensus
UAGCUG_GUGAUGACUUAGCCCAAAUCAUUUUUAUGACUGGGUUACCCCAUCACCAGCCGACCUGCUAAC__ACGUCUCUUAAAGA_UUUAG_AUAGGG
..((((.((((((...(((((((..((((....)))).)))))))...))))))))))...((((((((......(((.....)))..))))..)))). (-23.43 = -22.85 +  -0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 7

Location 16,770,876 – 16,770,972
Length 96
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 81.79
Mean single sequence MFE -31.67
Consensus MFE -19.52
Energy contribution -20.47
Covariance contribution 0.95
Combinations/Pair 1.20
Mean z-score -3.33
Structure conservation index 0.62
SVM decision value 1.20
SVM RNA-class probability 0.929618
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16770876 96 - 22407834
CCCUAU-CUAAA-UCUUUAAGAGACGUGUGUUAGCAGGUCGACUGGUGAUGGGGUAACCCAGUCAUAAAAAUGAUUUGGGCUAAGUCAUCAC-CAGCUA
......-.....-.........(((.(((....))).)))(.((((((((((..((.(((((((((....)))).))))).))..)))))))-)))).. ( -34.10)
>DroSec_CAF1 498 95 - 1
CCCUAU-CUAAA-UCUUUAAGAGACGUG-GUUAGCAGGUCGACUGGUGAUGGCGUAACCCAGUCAUAAAAAUGAUUUGGGCCAAGUCAUCAC-CAGCUA
......-.....-.........(((.((-.....)).)))(.(((((((((((....(((((((((....)))).)))))....))))))))-)))).. ( -34.10)
>DroSim_CAF1 294 96 - 1
CCCUAU-CUAAA-UCUUUAAGAGACAUGUGUUAGCAGGUCGGCUGGUGAUGGCGUAACCCAGUCAUUAAAAUGAUUUGGGCCAAGUCAUCAC-CAACUA
......-.....-.........(((.(((....))).)))((.((((((((((....(((((((((....)))).)))))....))))))))-)).)). ( -32.00)
>DroEre_CAF1 498 95 - 1
CCCUAU-CCAAA-UCUUUAAGAGACGU--GUUAGCAGGUCGGCUGGGGAUGCGGUAACCCAGUCAUAAAAAUGAGUUGGGCUAAGUCAUCCCACAGCUG
......-.....-.........(((.(--(....)).)))((((((((((((..((.(((((((((....)))).))))).)).).)))))).))))). ( -34.10)
>DroYak_CAF1 516 94 - 1
CCCUAU-CUAAA-UCUUUAAGAGACGU--GUUAGCAGGUCGGCUGGGGAUGAGAUAACCCAGUCAUAAAAAUAUUUUGGGCUAAGUCAUCAC-CAGCUA
......-.....-.........(((.(--(....)).)))((((((.(((((..((.(((((.............))))).))..))))).)-))))). ( -29.02)
>DroAna_CAF1 506 83 - 1
CCCUAAACUAAACUGUUUGAGAGACGU--GUUAGCAGGUCAGCGGGAAAUGAACUCACCCAA--------------UGGGUUAAGCCAUUUCCCAGCUA
...(((((......)))))...(((.(--(....)).)))(((((((((((.....((((..--------------.)))).....)))))))).))). ( -26.70)
>consensus
CCCUAU_CUAAA_UCUUUAAGAGACGU__GUUAGCAGGUCGGCUGGUGAUGGGGUAACCCAGUCAUAAAAAUGAUUUGGGCUAAGUCAUCAC_CAGCUA
......................(((.(........).)))((((((((((((.....(((((((((....)))).))))).....))))))).))))). (-19.52 = -20.47 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:10 2006