Locus 7817

Sequence ID 2L_DroMel_CAF1
Location 22,131,576 – 22,131,733
Length 157
Max. P 0.761857
window12526 window12527

overview

Window 6

Location 22,131,576 – 22,131,696
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.83
Mean single sequence MFE -44.70
Consensus MFE -30.05
Energy contribution -29.61
Covariance contribution -0.44
Combinations/Pair 1.36
Mean z-score -1.65
Structure conservation index 0.67
SVM decision value 0.36
SVM RNA-class probability 0.706189
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 22131576 120 + 22407834
ACAACGCUCCCGAAGCCGCUGGGGAUUCUGCUUCCAGCCGGAUCGCGCCAUUCUUUUGGCAAGGAGGUAAGCUUCUGCCCAGUGGUAAGCAAGUACUGUUGGCAGGAGCAGUCCUCCGAG
.....((.((((.......))))(((((.((.....)).)))))))((((......))))..(((((...(((((((((.((..(((......)))..)))))))))))...)))))... ( -51.20)
>DroVir_CAF1 4152 120 + 1
CCGACACAGCCAAAGCCCUUGGGCAUACUGUUGCCGGCGGGCUCGCGUAAUUCAUUCAGCAAGGAGGUGAGUUUCUGUCCAGUGGUGAGUAAGUAUUGCUGGCAGGAGCAAUCGUCGGAG
(((((((..((..(((((.(.((((......)))).).))))).((............))..))..))..(((((((.((((..(((......)))..)))))))))))....))))).. ( -50.40)
>DroGri_CAF1 4761 120 + 1
GCAACUCAAGCGAAGCCUUUGGGCAUACUGCUGCCAGCUGGUUCGCGCAAUUCGUUCAGCAAGGAGGUGAGUUUCUGUCCGGUGGUGAGCAAGUAUUGCUGGCAGGAGCAGUCAUCGGAG
....(((..(((((.((....((((......))))....)))))))...................((((((((((((.((((..(((......)))..)))))))))))..))))).))) ( -41.70)
>DroWil_CAF1 2481 120 + 1
CCCACUCAGCCCAAGCCCUUGGGUAUUCUCCUGCCAGCUGGAUCGAGAAAUUCCUUCAGCAAGGAGGUGAGUUUCUGUCCAGUCGUUAGCAAGUAUUGCUGGCAAGAGCAAUCCUCUGAA
.....(((((((((....)))))....(((.((((.(((((((..((((((((((((......)))).)))))))))))))))....((((.....)))))))).))).......)))). ( -42.60)
>DroMoj_CAF1 2578 120 + 1
CCGACACAGCCGAAGCCACUGGGCAUACUCCUGCCGGCUGGCUCACGUAAUUCGUUUAGCAAGGAGGUGAGCUUCUGUCCCGUGGUGAGUAAGUAUUGCUGGCAGGAGCAGUCGUCGGAG
(((((((.(((.(......).)))...(((((((((((..((((((.......(.....)..(((((....)))))........)))))).......)))))))))))..)).))))).. ( -47.90)
>DroAna_CAF1 21111 120 + 1
GCCACGCAACCCAAGCCUUUAGGCAUCCUACUGCCAGCUGGUUCCCGAAACUCAUUUAGCAAGGAAGUAAGCUUCUGUCCAGUGGUAAGCAAGUACUGUUGGCAGGAGCAGUCCUCCGAA
.....((......((((....((((......))))....))))...(.....).....))..(((.(...(((((((.((((..(((......)))..)))))))))))...).)))... ( -34.40)
>consensus
CCAACACAGCCGAAGCCCUUGGGCAUACUGCUGCCAGCUGGAUCGCGAAAUUCAUUCAGCAAGGAGGUGAGCUUCUGUCCAGUGGUGAGCAAGUAUUGCUGGCAGGAGCAGUCCUCGGAG
....(((..((..........((((......)))).(((((..............)))))..))..))).(((((((.((((..(((......)))..)))))))))))........... (-30.05 = -29.61 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 7

Location 22,131,616 – 22,131,733
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.55
Mean single sequence MFE -41.82
Consensus MFE -24.70
Energy contribution -23.57
Covariance contribution -1.13
Combinations/Pair 1.53
Mean z-score -1.71
Structure conservation index 0.59
SVM decision value 0.50
SVM RNA-class probability 0.761857
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 22131616 117 + 22407834
GAUCGCGCCAUUCUUUUGGCAAGGAGGUAAGCUUCUGCCCAGUGGUAAGCAAGUACUGUUGGCAGGAGCAGUCCUCCGAGGAGCCCACCGAGGACCAGUUCCACUC---CAGCGAGGGCG
..((((((((......))))..((((....(((((((((.((..(((......)))..))))))))))).((((((.(.((...)).).))))))........)))---).))))..... ( -51.20)
>DroVir_CAF1 4192 120 + 1
GCUCGCGUAAUUCAUUCAGCAAGGAGGUGAGUUUCUGUCCAGUGGUGAGUAAGUAUUGCUGGCAGGAGCAAUCGUCGGAGGAGCCGCAAGAGGAGCACGAGCAGGCGAGCAGCGAUGAGG
(((((((.....).....((.....(((..(((((((.((((..(((......)))..))))))))))).))).(((...(..((......))..).)))))..)))))).......... ( -40.60)
>DroGri_CAF1 4801 114 + 1
GUUCGCGCAAUUCGUUCAGCAAGGAGGUGAGUUUCUGUCCGGUGGUGAGCAAGUAUUGCUGGCAGGAGCAGUCAUCGGAGGAGCCACAGGAGGAG------CAGGCGAGCAGCGACGAAG
.(((((((..((((((..((.....((((((((((((.((((..(((......)))..)))))))))))..)))))((.....)).........)------).))))))..))).)))). ( -40.70)
>DroWil_CAF1 2521 114 + 1
GAUCGAGAAAUUCCUUCAGCAAGGAGGUGAGUUUCUGUCCAGUCGUUAGCAAGUAUUGCUGGCAAGAGCAAUCCUCUGAAGAGCCACAAGAGGAGCAGGCAGA------CAGUGAUGAAG
.((((((((((((((((......)))).)))))))).....((((((((((.....)))))))....((..((((((...........))))))....)).))------)..)))).... ( -36.30)
>DroMoj_CAF1 2618 120 + 1
GCUCACGUAAUUCGUUUAGCAAGGAGGUGAGCUUCUGUCCCGUGGUGAGUAAGUAUUGCUGGCAGGAGCAGUCGUCGGAGGAGCCGCAGGAGGAGCAUGAGCAGACGAGCAGCGAUGAGG
.(((((((..(((((((.((...((.(...(((((((.((.(..(((......)))..).)))))))))...).))....(..((......))..)....)))))))))..))).)))). ( -40.50)
>DroAna_CAF1 21151 117 + 1
GUUCCCGAAACUCAUUUAGCAAGGAAGUAAGCUUCUGUCCAGUGGUAAGCAAGUACUGUUGGCAGGAGCAGUCCUCCGAAGAGCCCCAGGAGGAGCACGGAAAUUC---UAGCGAGGGAA
.((((((.....).....((.((((.....(((((((.((((..(((......)))..)))))))))))..((((((...........)))))).........)))---).))..))))) ( -41.60)
>consensus
GAUCGCGAAAUUCAUUCAGCAAGGAGGUGAGCUUCUGUCCAGUGGUGAGCAAGUAUUGCUGGCAGGAGCAGUCCUCGGAGGAGCCACAGGAGGAGCACGAACAGGC___CAGCGAUGAAG
.(((((((..(((..(((.(.....).)))(((((((.((((..(((......)))..)))))))))))...........)))((......))..................))).)))). (-24.70 = -23.57 +  -1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:32 2006