Locus 646

Sequence ID X_DroMel_CAF1
Location 1,809,261 – 1,809,362
Length 101
Max. P 0.998152
window1038 window1039

overview

Window 8

Location 1,809,261 – 1,809,362
Length 101
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 90.27
Mean single sequence MFE -44.58
Consensus MFE -41.62
Energy contribution -41.19
Covariance contribution -0.44
Combinations/Pair 1.06
Mean z-score -3.29
Structure conservation index 0.93
SVM decision value 3.02
SVM RNA-class probability 0.998152
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1809261 101 + 22224390
CCAGUUGGCUGGCGCCAUCUGUGCA--------GCAGCCACCAGACAUAGAGGGCGCCAGAGGUUGGUGCGCCGGCUACGGCAAAGCCAAGACACCAACCAAGUCGACC
...(((((((((((((.(((((((.--------..........).)))))).))))))...(((((((((...((((.......))))..).)))))))).))))))). ( -47.60)
>DroSec_CAF1 17677 99 + 1
-CAGCUGACUGGCGCCAUCUGUGCA--------GCAGCCACCAGACAUAGAGGGCGCCAGAGGUUGGUGCGCUGGCUAA-GCAAAGUCAAGACACCAACCAAGUCGACC
-(.(((..((((((((.(((((((.--------..........).)))))).)))))))).(((((((((..(((((..-....))))).).)))))))).))).)... ( -44.00)
>DroSim_CAF1 19626 100 + 1
-CAGCUGACUGGCGCCAUCUGUGCA--------GCAGCCACCAGACAUAGAGGGCGCCAGAGGUUGGUGCGCUGGCUAAGGCAAAGUCAAGACACCAACCAAGUCGACC
-(.(((..((((((((.(((((((.--------..........).)))))).)))))))).(((((((((..(((((.......))))).).)))))))).))).)... ( -43.50)
>DroYak_CAF1 18388 104 + 1
-----UGGCUGGCGCCAUCUGUGCAGCGCAGCAGCAGCCACCAGACAUAGAGGGCGCCAGAGGUUGGUGCGCCGGCUAAGGCAAAGUCAAGACACCAACCAAGUCGACG
-----...((((((((.(((((((.((((....)).)).....).)))))).)))))))).(((((((((...((((.......))))..).))))))))......... ( -43.20)
>consensus
_CAGCUGACUGGCGCCAUCUGUGCA________GCAGCCACCAGACAUAGAGGGCGCCAGAGGUUGGUGCGCCGGCUAAGGCAAAGUCAAGACACCAACCAAGUCGACC
.....(((((((((((.(((((((...................).)))))).))))))...(((((((((...((((.......))))..).)))))))).)))))... (-41.62 = -41.19 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 1,809,261 – 1,809,362
Length 101
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 90.27
Mean single sequence MFE -45.30
Consensus MFE -39.15
Energy contribution -38.90
Covariance contribution -0.25
Combinations/Pair 1.03
Mean z-score -2.64
Structure conservation index 0.86
SVM decision value 2.02
SVM RNA-class probability 0.985733
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1809261 101 - 22224390
GGUCGACUUGGUUGGUGUCUUGGCUUUGCCGUAGCCGGCGCACCAACCUCUGGCGCCCUCUAUGUCUGGUGGCUGC--------UGCACAGAUGGCGCCAGCCAACUGG
((.......(((((((((.((((((.......)))))).))))))))).((((((((......(((((...((...--------.)).)))))))))))))))...... ( -47.80)
>DroSec_CAF1 17677 99 - 1
GGUCGACUUGGUUGGUGUCUUGACUUUGC-UUAGCCAGCGCACCAACCUCUGGCGCCCUCUAUGUCUGGUGGCUGC--------UGCACAGAUGGCGCCAGUCAGCUG-
(((.(((..(((((((((.(((.((....-..)).))).)))))))))..(((((((......(((((...((...--------.)).))))))))))))))).))).- ( -43.70)
>DroSim_CAF1 19626 100 - 1
GGUCGACUUGGUUGGUGUCUUGACUUUGCCUUAGCCAGCGCACCAACCUCUGGCGCCCUCUAUGUCUGGUGGCUGC--------UGCACAGAUGGCGCCAGUCAGCUG-
(((.(((..(((((((((.(((.((.......)).))).)))))))))..(((((((......(((((...((...--------.)).))))))))))))))).))).- ( -43.20)
>DroYak_CAF1 18388 104 - 1
CGUCGACUUGGUUGGUGUCUUGACUUUGCCUUAGCCGGCGCACCAACCUCUGGCGCCCUCUAUGUCUGGUGGCUGCUGCUGCGCUGCACAGAUGGCGCCAGCCA-----
.........(((((((((.........(((......)))))))))))).((((((((......((((((..((.((....))))..).)))))))))))))...----- ( -46.50)
>consensus
GGUCGACUUGGUUGGUGUCUUGACUUUGCCUUAGCCAGCGCACCAACCUCUGGCGCCCUCUAUGUCUGGUGGCUGC________UGCACAGAUGGCGCCAGCCAGCUG_
.........(((((((((.(((.((.......)).))).))))))))).((((((((......(((((...((............)).)))))))))))))........ (-39.15 = -38.90 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:09 2006