Locus 1910

Sequence ID 2L_DroMel_CAF1
Location 5,222,538 – 5,222,653
Length 115
Max. P 0.657103
window3061 window3062

overview

Window 1

Location 5,222,538 – 5,222,653
Length 115
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.74
Mean single sequence MFE -45.08
Consensus MFE -37.97
Energy contribution -38.10
Covariance contribution 0.13
Combinations/Pair 1.05
Mean z-score -1.91
Structure conservation index 0.84
SVM decision value 0.26
SVM RNA-class probability 0.657103
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5222538 115 + 22407834
CGUUGUGGCCAUUGGGCGCUAGUUUUACGGCCAUUUGCCGCCUGCGACAGCCAUCGAGGAAAACAUUAAGUGCGUU-UUCCUCGACGGAGAUGAGGGGCAGACA----GCCGUUAGAUGA
....(((.((...)).)))..((((.(((((..((((((.(((.((....((.(((((((((((.........)))-)))))))).))...)))))))))))..----))))).)))).. ( -46.90)
>DroSec_CAF1 48 115 + 1
CGUUGUGGCCAUUGGGCGCUAGUUUUACGGCCAUUUGCCGCCUGCGACAGCCAUCGAGGAAAACAUUAAGUGCGUU-UUCCUCGACGGAGAUGAGGGGCAGACA----GCCGUUAGAUGA
....(((.((...)).)))..((((.(((((..((((((.(((.((....((.(((((((((((.........)))-)))))))).))...)))))))))))..----))))).)))).. ( -46.90)
>DroSim_CAF1 888 115 + 1
CGUUGUGGCCAUUGGGCGCUAGUUUUACGGCCAUUUGCCGCCUGCGACAGCCAUCGAGGAAAACAUUAAGUGCGUU-UUCCUCGUCGGAGAUGAGGGGCAGACA----GCCGUUAGAUGA
....(((.((...)).)))..((((.(((((..((((((.(((.((....((..((((((((((.........)))-)))))))..))...)))))))))))..----))))).)))).. ( -45.60)
>DroYak_CAF1 941 120 + 1
CGUUGUGGCCAUUGGGCGCUAGUUUUACGGCCAUUUGCCGCCUGCGACAGCCAUCGAGGGAAGCAUUAAGUGCGUUUUUCCUCGAUAGAGAUGAGGGGCAGACAGCCAGCCGUUAGAUGA
.(((((((((...((((....))))...)))))((((((.(((((....)).((((((((((((((...))))...)))))))))).......))))))))))))).............. ( -40.90)
>consensus
CGUUGUGGCCAUUGGGCGCUAGUUUUACGGCCAUUUGCCGCCUGCGACAGCCAUCGAGGAAAACAUUAAGUGCGUU_UUCCUCGACGGAGAUGAGGGGCAGACA____GCCGUUAGAUGA
....(((.((...)).)))..((((.(((((..((((((.(((.((....((.(((((((((((.........))).)))))))).))...)))))))))))......))))).)))).. (-37.97 = -38.10 +   0.13)

alignment

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secondary structure

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dotplot

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Window 2

Location 5,222,538 – 5,222,653
Length 115
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 95.74
Mean single sequence MFE -46.05
Consensus MFE -36.65
Energy contribution -36.59
Covariance contribution -0.06
Combinations/Pair 1.10
Mean z-score -4.03
Structure conservation index 0.80
SVM decision value 0.17
SVM RNA-class probability 0.615179
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5222538 115 - 22407834
UCAUCUAACGGC----UGUCUGCCCCUCAUCUCCGUCGAGGAA-AACGCACUUAAUGUUUUCCUCGAUGGCUGUCGCAGGCGGCAAAUGGCCGUAAAACUAGCGCCCAAUGGCCACAACG
.......(((((----(((.((((((((..(.(((((((((((-((((.......)))))))))))))))..)..).))).)))).)))))))).......(.(((....))))...... ( -49.00)
>DroSec_CAF1 48 115 - 1
UCAUCUAACGGC----UGUCUGCCCCUCAUCUCCGUCGAGGAA-AACGCACUUAAUGUUUUCCUCGAUGGCUGUCGCAGGCGGCAAAUGGCCGUAAAACUAGCGCCCAAUGGCCACAACG
.......(((((----(((.((((((((..(.(((((((((((-((((.......)))))))))))))))..)..).))).)))).)))))))).......(.(((....))))...... ( -49.00)
>DroSim_CAF1 888 115 - 1
UCAUCUAACGGC----UGUCUGCCCCUCAUCUCCGACGAGGAA-AACGCACUUAAUGUUUUCCUCGAUGGCUGUCGCAGGCGGCAAAUGGCCGUAAAACUAGCGCCCAAUGGCCACAACG
.......(((((----(((.((((((((..(.(((.(((((((-((((.......))))))))))).)))..)..).))).)))).)))))))).......(.(((....))))...... ( -44.10)
>DroYak_CAF1 941 120 - 1
UCAUCUAACGGCUGGCUGUCUGCCCCUCAUCUCUAUCGAGGAAAAACGCACUUAAUGCUUCCCUCGAUGGCUGUCGCAGGCGGCAAAUGGCCGUAAAACUAGCGCCCAAUGGCCACAACG
.......((((((.(((((((((....((...(((((((((.((...(((.....))))).))))))))).))..)))))))))....)))))).......(.(((....))))...... ( -42.10)
>consensus
UCAUCUAACGGC____UGUCUGCCCCUCAUCUCCGUCGAGGAA_AACGCACUUAAUGUUUUCCUCGAUGGCUGUCGCAGGCGGCAAAUGGCCGUAAAACUAGCGCCCAAUGGCCACAACG
.......(((((....((.(((((........(((((((((((....(((.....))).)))))))))))........)))))))....))))).......(.(((....))))...... (-36.65 = -36.59 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:17 2006