Locus 2547

Sequence ID 2R_DroMel_CAF1
Location 9,061,806 – 9,061,923
Length 117
Max. P 0.979479
window4190 window4191

overview

Window 0

Location 9,061,806 – 9,061,923
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 93.16
Mean single sequence MFE -30.59
Consensus MFE -26.78
Energy contribution -27.46
Covariance contribution 0.68
Combinations/Pair 1.06
Mean z-score -1.79
Structure conservation index 0.88
SVM decision value 1.84
SVM RNA-class probability 0.979479
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9061806 117 + 20766785
UCGAUUUUAGUGGCCUGCAUCUGGCACAUGUCACACAUUCGUCACACGUGUUAACAGUAGUUAAAAUUCGCAGAAAAUUACGAACCCAAACAACAUGUGUGGGCCACUCGAGAGGCA
..(.(((((((((((..(((.((((((.(((.((......)).))).))))))...((.(((....((((..........))))....))).))..)))..))))))).))))..). ( -31.90)
>DroSec_CAF1 27058 117 + 1
UCAAUUUUAGUGGCCUGCAUCUGGAACAUGUCACACAUUCGUCACACGUGUUAACAGCAGUUAAAAUUCGCAGAAAAUUACGAACCCAAACAACAUGUGUGGGCCACUCGAGAGCCA
....(((((((((((..(((.((.(((((((...((....))...))))))).......(((....((((..........))))....)))..)).)))..))))))).)))).... ( -30.00)
>DroSim_CAF1 29138 117 + 1
UCAAUUUUAGUGGCCUGCAUCUGGAACAUGUCACACAUUCGUCACACGUGUUAACAGCAGUUAAAAUUCGCAGAAAAUUACGAACCCAAACAACAUGUGUGGGCCACUCGAGAGCCA
....(((((((((((..(((.((.(((((((...((....))...))))))).......(((....((((..........))))....)))..)).)))..))))))).)))).... ( -30.00)
>DroEre_CAF1 32762 117 + 1
UCGAUUUUAGUGGCCUACAUCUGGCACAUGUCACACAUUCGUCACACGUGUUAACAGUAGUUCAAAUUCGCUGGAAACUACAAACGAAAACAACAUGUGUGGGCCACUUGAGAGCCC
....((((((((((((((((.((((((.(((.((......)).))).)))).....(((((((..........).))))))............)).))))))))))).))))).... ( -34.50)
>DroYak_CAF1 28979 116 + 1
UCGAUUUUAGUGGCCUGCAUCUGGCACAUGUCACACAUUCGUCACACGUGUUA-CCGUAGUUAAAAUUCGCUGAAAAUUACAAACCAAAACAACAUGUGUGGCCCACUCGAGAGCCA
((((.....(((((.(((.....)))...)))))......((((((((((((.-..((((((.............))))))..........))))))))))))....))))...... ( -26.54)
>consensus
UCGAUUUUAGUGGCCUGCAUCUGGCACAUGUCACACAUUCGUCACACGUGUUAACAGUAGUUAAAAUUCGCAGAAAAUUACGAACCCAAACAACAUGUGUGGGCCACUCGAGAGCCA
....((((((((((((((((.((((((.(((.((......)).))).)))).....((((((.............))))))............)).)))))))))))).)))).... (-26.78 = -27.46 +   0.68)

alignment

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secondary structure

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dotplot

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Window 1

Location 9,061,806 – 9,061,923
Length 117
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 93.16
Mean single sequence MFE -34.44
Consensus MFE -30.16
Energy contribution -31.12
Covariance contribution 0.96
Combinations/Pair 1.03
Mean z-score -1.37
Structure conservation index 0.88
SVM decision value 0.63
SVM RNA-class probability 0.805163
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9061806 117 - 20766785
UGCCUCUCGAGUGGCCCACACAUGUUGUUUGGGUUCGUAAUUUUCUGCGAAUUUUAACUACUGUUAACACGUGUGACGAAUGUGUGACAUGUGCCAGAUGCAGGCCACUAAAAUCGA
.........(((((((......(((.(((((((((((((......))))))).(((((....)))))(((((((.(((....))).)))))))))))))))))))))))........ ( -36.40)
>DroSec_CAF1 27058 117 - 1
UGGCUCUCGAGUGGCCCACACAUGUUGUUUGGGUUCGUAAUUUUCUGCGAAUUUUAACUGCUGUUAACACGUGUGACGAAUGUGUGACAUGUUCCAGAUGCAGGCCACUAAAAUUGA
.........((((((((((((((((.(((..((((((((......))))))))..))).))(((((.(....)))))).)))))))...(((.......))))))))))........ ( -34.50)
>DroSim_CAF1 29138 117 - 1
UGGCUCUCGAGUGGCCCACACAUGUUGUUUGGGUUCGUAAUUUUCUGCGAAUUUUAACUGCUGUUAACACGUGUGACGAAUGUGUGACAUGUUCCAGAUGCAGGCCACUAAAAUUGA
.........((((((((((((((((.(((..((((((((......))))))))..))).))(((((.(....)))))).)))))))...(((.......))))))))))........ ( -34.50)
>DroEre_CAF1 32762 117 - 1
GGGCUCUCAAGUGGCCCACACAUGUUGUUUUCGUUUGUAGUUUCCAGCGAAUUUGAACUACUGUUAACACGUGUGACGAAUGUGUGACAUGUGCCAGAUGUAGGCCACUAAAAUCGA
.........(((((((.(((((.((.((((..((((((........))))))..)))).)))))...(((((((.(((....))).)))))))......)).)))))))........ ( -34.60)
>DroYak_CAF1 28979 116 - 1
UGGCUCUCGAGUGGGCCACACAUGUUGUUUUGGUUUGUAAUUUUCAGCGAAUUUUAACUACGG-UAACACGUGUGACGAAUGUGUGACAUGUGCCAGAUGCAGGCCACUAAAAUCGA
((((((......))))))............(((((((((.................((....)-)..(((((((.(((....))).))))))).....))))))))).......... ( -32.20)
>consensus
UGGCUCUCGAGUGGCCCACACAUGUUGUUUGGGUUCGUAAUUUUCUGCGAAUUUUAACUACUGUUAACACGUGUGACGAAUGUGUGACAUGUGCCAGAUGCAGGCCACUAAAAUCGA
.........((((((((((((((((((((..((((((((......))))))))..)))........((((((.......)))))))))))))).....))..)))))))........ (-30.16 = -31.12 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:40 2006