Locus 5817

Sequence ID X_DroMel_CAF1
Location 15,064,403 – 15,064,562
Length 159
Max. P 0.697272
window9439 window9440

overview

Window 9

Location 15,064,403 – 15,064,522
Length 119
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 88.18
Mean single sequence MFE -44.40
Consensus MFE -32.21
Energy contribution -33.90
Covariance contribution 1.69
Combinations/Pair 1.09
Mean z-score -1.79
Structure conservation index 0.73
SVM decision value 0.34
SVM RNA-class probability 0.697272
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15064403 119 - 22224390
AGGUGGACUUUGCUUUUGGCCCUUACUUUUGCCUUGGCUUGAUUAGUCUGUGUUGUGGGGAGGGUGUCUUGGUAGAGUCCCGUAUCCGGACAUUGAUGCACCCGGAUGAGCCGGAUUCG
.(((((((((((((....(((((..((...((...((((.....))))...))...))..))))).....))))))))))..(((((((............))))))).)))....... ( -41.80)
>DroSec_CAF1 25658 115 - 1
AGGUGGACUUUGCUUUUGGCCCUUACUUUUGCCUUGGCUUGAUUAGUCUG----GAGGGGGCGGGGUCUUGGUAGAGUCCCGGAUCCGGGCAUUGAUGCACCCGGAUGAGCCGGAUUCG
....((((((((((...((((((..(((((.((..((((.....)))).)----))))))..))))))..))))))))))(((((((((.((((..........))))..))))))))) ( -49.50)
>DroSim_CAF1 12056 115 - 1
AGGUGGACUUUGCUUUUGGACCUUACUUUUGCCUUGGCUUGAUUAGUCUG----GAGGGGGCGGGGUCUUGGUAGAGUCCCGGAUCCGGACAUUGAUGCACCCGGAUGAGCCGGCUUCG
((((((((((((((...((((((..((((..((..((((.....)))).)----)..))))..)))))).))))))))))(((((((((............))))))...))))))).. ( -47.10)
>DroEre_CAF1 16702 106 - 1
AGGUCGGCUUUGCUUUUGGCCCUUACUUUUGCCUUGGCUUGAUUAGUCCG------------GGGGUCUUGGUGGAGUCCCGGAUCCGGACAUUGAUGCACCCGGAUGAGUCGAGUGC-
.....((((........)))).........((((((((((......((((------------(((.(((....))).)))))))(((((............))))).)))))))).))- ( -39.20)
>consensus
AGGUGGACUUUGCUUUUGGCCCUUACUUUUGCCUUGGCUUGAUUAGUCUG____GAGGGGGCGGGGUCUUGGUAGAGUCCCGGAUCCGGACAUUGAUGCACCCGGAUGAGCCGGAUUCG
.(((((((((((((...((((((..(((((.....((((.....))))......)))))...))))))..))))))))))...((((((............))))))..)))....... (-32.21 = -33.90 +   1.69)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,064,443 – 15,064,562
Length 119
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 86.51
Mean single sequence MFE -39.50
Consensus MFE -29.50
Energy contribution -30.50
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.02
Structure conservation index 0.75
SVM decision value 0.14
SVM RNA-class probability 0.605055
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15064443 119 - 22224390
GACCCCCCCCCCCCUCACUCCUCACUUGCACCUGUAGCCCAGGUGGACUUUGCUUUUGGCCCUUACUUUUGCCUUGGCUUGAUUAGUCUGUGUUGUGGGGAGGGUGUCUUGGUAGAGUC
((((((.((((.(..(((..........((((((.....))))))((((..(((...(((..........)))..)))......)))).)))..).)))).))).)))........... ( -39.60)
>DroSec_CAF1 25698 103 - 1
------------CCUCACUUCUCACGUGCACCUGUAGCCCAGGUGGACUUUGCUUUUGGCCCUUACUUUUGCCUUGGCUUGAUUAGUCUG----GAGGGGGCGGGGUCUUGGUAGAGUC
------------...(((.......)))((((((.....))))))(((((((((...((((((..(((((.((..((((.....)))).)----))))))..))))))..))))))))) ( -38.90)
>DroSim_CAF1 12096 103 - 1
------------CCUCACUCCUCACUUGCACCUGUAGCCCAGGUGGACUUUGCUUUUGGACCUUACUUUUGCCUUGGCUUGAUUAGUCUG----GAGGGGGCGGGGUCUUGGUAGAGUC
------------................((((((.....))))))(((((((((...((((((..((((..((..((((.....)))).)----)..))))..)))))).))))))))) ( -40.00)
>consensus
____________CCUCACUCCUCACUUGCACCUGUAGCCCAGGUGGACUUUGCUUUUGGCCCUUACUUUUGCCUUGGCUUGAUUAGUCUG____GAGGGGGCGGGGUCUUGGUAGAGUC
............................((((((.....))))))(((((((((...((((((..(((((.....((((.....))))......)))))...))))))..))))))))) (-29.50 = -30.50 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:05 2006