Locus 9315

Sequence ID 3R_DroMel_CAF1
Location 24,780,391 – 24,780,551
Length 160
Max. P 0.999536
window14893 window14894 window14895

overview

Window 3

Location 24,780,391 – 24,780,511
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.30
Mean single sequence MFE -27.76
Consensus MFE -27.54
Energy contribution -27.30
Covariance contribution -0.24
Combinations/Pair 1.04
Mean z-score -1.58
Structure conservation index 0.99
SVM decision value 2.19
SVM RNA-class probability 0.990009
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24780391 120 + 27905053
CUACAUUCCCUUCUCUGUCUAUCUAUCACUAUCCAUCUCUUUCGCCUGCUGGCUGUUGCAAUCUCUAGCUUUCUCUGGUAUUCCUGACCAGUUGUACCAGCAAAGGCCAAGCUGUGGCAA
...........................................(((....)))(((..((..((...(((((..(((((((..((....))..)))))))..)))))..)).))..))). ( -27.30)
>DroSec_CAF1 11468 118 + 1
CUAG--CUCCCUCUCUGUCUAUCUAUCACUAUCCAUCUCGUUCGCCUGCUGGCUGUUGCAAUCUCUAGCUUUCUCUGGUAUUCCUGACCAGUUGUACCAGCAAAGGCCAAGCUGUGGCAA
....--.....................................(((....)))(((..((..((...(((((..(((((((..((....))..)))))))..)))))..)).))..))). ( -27.30)
>DroSim_CAF1 6836 118 + 1
CUAG--CCCGCUCUCUGUCUAUCUAUCACUAUCCAUCUCUUUCGCCUGCUGGCUGUUGCAAUCUCUAGCUUUCUCUGGUAUUCCUGACCAGUUGUACCAGCAAAGGCCAAGCUGUGGCAA
...(--((((((...............................(((....)))..............(((((..(((((((..((....))..)))))))..)))))..))).).))).. ( -28.70)
>DroEre_CAF1 20489 118 + 1
CUAG--CUCCCUCUCUGUCUAUCUAUCACUAUCCAUCUCUUUCGCCUGCUGGCUGUUGCAAUCUCUAGCUUUCUCUGGUAUUCCUGACCGGUUGUACCAGCAAAGGCCAAGCUGUGGCAA
....--.....................................(((....)))(((..((..((...(((((..(((((((..((....))..)))))))..)))))..)).))..))). ( -27.30)
>DroYak_CAF1 12075 118 + 1
CUAG--CUACCUCUCUGUCUAUCUAUCACUAUCCAUCUCUUUCGCCUGCUGGCUGUUGCAAUCUCUAGCUUUCUCUGGUAUUCCUGACCGGUUGUACCAGCAAAGGCCAAGCUGUGGCAA
...(--((((..((.((..........................(((....)))..............(((((..(((((((..((....))..)))))))..)))))))))..))))).. ( -28.20)
>consensus
CUAG__CUCCCUCUCUGUCUAUCUAUCACUAUCCAUCUCUUUCGCCUGCUGGCUGUUGCAAUCUCUAGCUUUCUCUGGUAUUCCUGACCAGUUGUACCAGCAAAGGCCAAGCUGUGGCAA
...........................................(((....)))(((..((..((...(((((..(((((((..((....))..)))))))..)))))..)).))..))). (-27.54 = -27.30 +  -0.24)

alignment

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secondary structure

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dotplot

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Window 4

Location 24,780,431 – 24,780,551
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 99.00
Mean single sequence MFE -38.30
Consensus MFE -38.54
Energy contribution -38.30
Covariance contribution -0.24
Combinations/Pair 1.04
Mean z-score -2.46
Structure conservation index 1.01
SVM decision value 3.70
SVM RNA-class probability 0.999536
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24780431 120 + 27905053
UUCGCCUGCUGGCUGUUGCAAUCUCUAGCUUUCUCUGGUAUUCCUGACCAGUUGUACCAGCAAAGGCCAAGCUGUGGCAAAAUUAAAUUACUCAUACGCUCAGUUGGCCAGGGCUCUAUA
...((((((..((((..((........(((((..(((((((..((....))..)))))))..)))))...((....))...................)).))))..))..))))...... ( -38.30)
>DroSec_CAF1 11506 120 + 1
UUCGCCUGCUGGCUGUUGCAAUCUCUAGCUUUCUCUGGUAUUCCUGACCAGUUGUACCAGCAAAGGCCAAGCUGUGGCAAAAUUAAAUUACUCAUACGCUCAGUUGGCCAGGGCUCUAUA
...((((((..((((..((........(((((..(((((((..((....))..)))))))..)))))...((....))...................)).))))..))..))))...... ( -38.30)
>DroSim_CAF1 6874 120 + 1
UUCGCCUGCUGGCUGUUGCAAUCUCUAGCUUUCUCUGGUAUUCCUGACCAGUUGUACCAGCAAAGGCCAAGCUGUGGCAAAAUUAAAUUACUCAUACGCUCAGUUGGCCAGGGCUCUAUA
...((((((..((((..((........(((((..(((((((..((....))..)))))))..)))))...((....))...................)).))))..))..))))...... ( -38.30)
>DroEre_CAF1 20527 120 + 1
UUCGCCUGCUGGCUGUUGCAAUCUCUAGCUUUCUCUGGUAUUCCUGACCGGUUGUACCAGCAAAGGCCAAGCUGUGGCAAAAUUAAAUUACUCAUACGCUCAGUUGGCCAGGGCUCCAUA
...((((((..((((..((........(((((..(((((((..((....))..)))))))..)))))...((....))...................)).))))..))..))))...... ( -38.30)
>DroYak_CAF1 12113 120 + 1
UUCGCCUGCUGGCUGUUGCAAUCUCUAGCUUUCUCUGGUAUUCCUGACCGGUUGUACCAGCAAAGGCCAAGCUGUGGCAAAAUUAAAUUACUCAUACGCUCAGUUGGCCAGGGCUCCAUA
...((((((..((((..((........(((((..(((((((..((....))..)))))))..)))))...((....))...................)).))))..))..))))...... ( -38.30)
>consensus
UUCGCCUGCUGGCUGUUGCAAUCUCUAGCUUUCUCUGGUAUUCCUGACCAGUUGUACCAGCAAAGGCCAAGCUGUGGCAAAAUUAAAUUACUCAUACGCUCAGUUGGCCAGGGCUCUAUA
...((((((..((((..((........(((((..(((((((..((....))..)))))))..)))))...((....))...................)).))))..))..))))...... (-38.54 = -38.30 +  -0.24)

alignment

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secondary structure

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dotplot

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Window 5

Location 24,780,431 – 24,780,551
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 99.00
Mean single sequence MFE -37.08
Consensus MFE -36.52
Energy contribution -36.92
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.66
Structure conservation index 0.98
SVM decision value 1.63
SVM RNA-class probability 0.968771
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24780431 120 - 27905053
UAUAGAGCCCUGGCCAACUGAGCGUAUGAGUAAUUUAAUUUUGCCACAGCUUGGCCUUUGCUGGUACAACUGGUCAGGAAUACCAGAGAAAGCUAGAGAUUGCAACAGCCAGCAGGCGAA
......(((..(((((((((.(.(((.((((......)))))))).))).))))))..(((((((....(((((.......))))).....((........))....))))))))))... ( -38.60)
>DroSec_CAF1 11506 120 - 1
UAUAGAGCCCUGGCCAACUGAGCGUAUGAGUAAUUUAAUUUUGCCACAGCUUGGCCUUUGCUGGUACAACUGGUCAGGAAUACCAGAGAAAGCUAGAGAUUGCAACAGCCAGCAGGCGAA
......(((..(((((((((.(.(((.((((......)))))))).))).))))))..(((((((....(((((.......))))).....((........))....))))))))))... ( -38.60)
>DroSim_CAF1 6874 120 - 1
UAUAGAGCCCUGGCCAACUGAGCGUAUGAGUAAUUUAAUUUUGCCACAGCUUGGCCUUUGCUGGUACAACUGGUCAGGAAUACCAGAGAAAGCUAGAGAUUGCAACAGCCAGCAGGCGAA
......(((..(((((((((.(.(((.((((......)))))))).))).))))))..(((((((....(((((.......))))).....((........))....))))))))))... ( -38.60)
>DroEre_CAF1 20527 120 - 1
UAUGGAGCCCUGGCCAACUGAGCGUAUGAGUAAUUUAAUUUUGCCACAGCUUGGCCUUUGCUGGUACAACCGGUCAGGAAUACCAGAGAAAGCUAGAGAUUGCAACAGCCAGCAGGCGAA
......(((..(((((((((.(.(((.((((......)))))))).))).))))))..(((((((......(((.......))).......((........))....))))))))))... ( -34.80)
>DroYak_CAF1 12113 120 - 1
UAUGGAGCCCUGGCCAACUGAGCGUAUGAGUAAUUUAAUUUUGCCACAGCUUGGCCUUUGCUGGUACAACCGGUCAGGAAUACCAGAGAAAGCUAGAGAUUGCAACAGCCAGCAGGCGAA
......(((..(((((((((.(.(((.((((......)))))))).))).))))))..(((((((......(((.......))).......((........))....))))))))))... ( -34.80)
>consensus
UAUAGAGCCCUGGCCAACUGAGCGUAUGAGUAAUUUAAUUUUGCCACAGCUUGGCCUUUGCUGGUACAACUGGUCAGGAAUACCAGAGAAAGCUAGAGAUUGCAACAGCCAGCAGGCGAA
......(((..(((((((((.(.(((.((((......)))))))).))).))))))..(((((((....(((((.......))))).....((........))....))))))))))... (-36.52 = -36.92 +   0.40)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:31:26 2006