Locus 57

Sequence ID 2L_DroMel_CAF1
Location 218,173 – 218,310
Length 137
Max. P 0.762366
window84 window85

overview

Window 4

Location 218,173 – 218,270
Length 97
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 84.74
Mean single sequence MFE -31.22
Consensus MFE -21.40
Energy contribution -21.90
Covariance contribution 0.50
Combinations/Pair 1.14
Mean z-score -3.28
Structure conservation index 0.69
SVM decision value 0.51
SVM RNA-class probability 0.762366
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 218173 97 - 22407834
AUUCAACGUACUAUCAAACUGGAGGCUUUCAAUGCUGAAAAGGCAGAGAAGUUAGCGGCAGCUGAAAAAGAUGCUGCAACUGAAAAAGCUGCGGCGA
......(((.........((...(((.......)))....))((((.....((((..(((((..........)))))..)))).....)))).))). ( -26.00)
>DroSec_CAF1 10472 97 - 1
AUUCAACGUACUAUCAAACUGGAGGCUUUUAAUGCUGAAAAGGCGGAGAAGUUAGCGGCAGCUGAAAUAGCUGCUGCAACUGAAAAAGCUGCGGCGA
..................(((..(((((((..((((.....))))....((((.((((((((((...))))))))))))))..))))))).)))... ( -30.50)
>DroSim_CAF1 10464 97 - 1
AUUCAACGUACUAUCAAACUGGAGGCUUUUAAUGCUGAAAAGGCGGAGAAGUUAGCGGCAGCUGAAAAAGCUGCUGCAACUGAAAAAGCUGCGGCGA
..................(((..(((((((..((((.....))))....((((.(((((((((.....)))))))))))))..))))))).)))... ( -31.50)
>DroEre_CAF1 10763 97 - 1
AUUCAGCGUACUAUCAAACUAGAGGCUUUUAAUGCUGAAAAGGCCGAGAAGUUGGCGGCAGCUGAAAAAGCUGCUGCAACUGAGAAAGCUGCGGCAA
.((((((((....((......))........))))))))...((((((.(((((.((((((((.....))))))))))))).......)).)))).. ( -34.80)
>DroWil_CAF1 12421 81 - 1
AUACAGCGGACAAUUAAACUGGAGGCUUUUAAUGCCGAGAAGGCUGAGAAAUUGGCCGCAGCUGAGAAGGCAGCUGCCGCU----------------
....((((...............(((.......))).....(((..(....)..)))(((((((......)))))))))))---------------- ( -30.80)
>DroYak_CAF1 12519 97 - 1
AUUCAGCGUACUAUCAAACUGGAGGCUUUUAAUGCUGAAAAGGCCGAAAAGUUAGCGGCAGCUGAGAAAGCUGCUGCAACGGAAAAAGCUGCUGCAA
...((((.........((((...(((((((........)))))))....)))).(((((((((.....)))))))))..........))))...... ( -33.70)
>consensus
AUUCAACGUACUAUCAAACUGGAGGCUUUUAAUGCUGAAAAGGCCGAGAAGUUAGCGGCAGCUGAAAAAGCUGCUGCAACUGAAAAAGCUGCGGCGA
.......................(((((((...(((.....)))..))))))).(((((((((.....)))))))))..........((....)).. (-21.40 = -21.90 +   0.50)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 5

Location 218,190 – 218,310
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.56
Mean single sequence MFE -38.00
Consensus MFE -22.95
Energy contribution -23.48
Covariance contribution 0.53
Combinations/Pair 1.39
Mean z-score -1.83
Structure conservation index 0.60
SVM decision value 0.06
SVM RNA-class probability 0.566040
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 218190 120 - 22407834
AGAGUCAGAGAAGCGUUUUAUUCGAGAACUAGAAGCUCAGAUUCAACGUACUAUCAAACUGGAGGCUUUCAAUGCUGAAAAGGCAGAGAAGUUAGCGGCAGCUGAAAAAGAUGCUGCAAC
.(((((.(((....(((((.....)))))......))).)))))...................((((((...((((.....))))..)))))).((((((.((.....)).))))))... ( -28.80)
>DroVir_CAF1 13431 120 - 1
CGAGUCGGAGAAGCGUUUCAUACGCGAGCUCGAGGCACAGAUUCAGCGCACCAUCAAACUGGAGGCCUUUAACGCCGAGAAGGCCGAAAAGGCGGCAGCCGCUGAAAAAGCAGCUGCAGC
.(((((.(((..((((.....))))...)))(.....).)))))..(((.(((......))).(((((((........)))))))......)))(((((.(((.....))).)))))... ( -43.90)
>DroEre_CAF1 10780 120 - 1
AGAGUCAGAGAAGCGUUUUAUUCGGGAACUAGAAGCUCAAAUUCAGCGUACUAUCAAACUAGAGGCUUUUAAUGCUGAAAAGGCCGAGAAGUUGGCGGCAGCUGAAAAAGCUGCUGCAAC
.((((....(((........)))(....).....)))).....((((...(((......))).(((((((........))))))).....))))(((((((((.....)))))))))... ( -34.00)
>DroWil_CAF1 12422 120 - 1
CGAGUCGGAGAAACGUUUCAUCCGGGAAUUAGAGGCUCAGAUACAGCGGACAAUUAAACUGGAGGCUUUUAAUGCCGAGAAGGCUGAGAAAUUGGCCGCAGCUGAGAAGGCAGCUGCCGC
.(((.((......)).))).(((((..(((((((((((((..................)))..)))))))))).))).)).(((..(....)..)))(((((((......)))))))... ( -39.97)
>DroYak_CAF1 12536 120 - 1
AGAGUCUGAGAAGCGUUUCAUUCGGGAACUAGAAGCUCAGAUUCAGCGUACUAUCAAACUGGAGGCUUUUAAUGCUGAAAAGGCCGAAAAGUUAGCGGCAGCUGAGAAAGCUGCUGCAAC
.(((((((((....(((((.....)))))......)))))))))............((((...(((((((........)))))))....)))).(((((((((.....)))))))))... ( -45.00)
>DroAna_CAF1 13477 113 - 1
GGAGUCGGAGAAGCGAUUCAUCCGCGAACUGGAGGCCCAGAUCCAGCGCACCAUCAAACUCGAGGCUUUUAACGCCGAGAAGGCCGAGAAACUGGCGGCAGCCGAGAAGGCAG-------
.((((((......))))))..(((((..(((((........)))))..)..........((..(((((((........)))))))..)).....))))..(((.....)))..------- ( -36.30)
>consensus
AGAGUCGGAGAAGCGUUUCAUUCGGGAACUAGAAGCUCAGAUUCAGCGUACUAUCAAACUGGAGGCUUUUAAUGCCGAAAAGGCCGAGAAGUUGGCGGCAGCUGAAAAAGCAGCUGCAAC
..(((..((...(((((..(((.(((.........))).)))..)))))....))..)))...(((((((........))))))).........(((((.(((.....))).)))))... (-22.95 = -23.48 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:24:32 2006