Locus 7344

Sequence ID 3L_DroMel_CAF1
Location 19,710,337 – 19,710,497
Length 160
Max. P 0.961968
window11927 window11928

overview

Window 7

Location 19,710,337 – 19,710,457
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.33
Mean single sequence MFE -25.85
Consensus MFE -23.52
Energy contribution -23.00
Covariance contribution -0.52
Combinations/Pair 1.11
Mean z-score -1.57
Structure conservation index 0.91
SVM decision value 1.53
SVM RNA-class probability 0.961968
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19710337 120 + 23771897
AUUAAUUGGCAUUUACUUAAAUUAUCCGAUGAAGUCGCCCAAUCAAAUACUCUUUAAGUGUAAUUGGAUUUUUGUCGGCUUUUCCAAUAGAGCUCAAUUAUACUUAAGUGGCGUUAUUUU
....(((((.((((....))))...)))))(((((.(((((...........(((((((((((((((((....)))((((((......))))))))))))))))))))))).)).))))) ( -24.60)
>DroSec_CAF1 19651 120 + 1
AUUAAUUGGCAUUUACUUAAAUUAUCCGAUGAUGUCGGCCAAUCAAAUACUCUUUAAGUGUAAUUGGAUUUUUGUCGGCUUUUCUAAUAGAGCUCGAUUAUACUUAAGUGGCGUUCUUUU
....((((((((((....))))....((((...))))))))))..((..((.(((((((((((((((((....)))((((((......)))))))))))))))))))).))..))..... ( -27.50)
>DroSim_CAF1 21802 120 + 1
AUUAAUUGGCAUUUACUUAAAUUAUCCGAUGAUGUCGGCCAAUCAAAUACUCUUUAAGUGUAAUUGGAUUUUUGUCGGCUUUUCUAAUAGAGCUCGAUUAUGCUUAAGUGGCGUUCUUUU
....((((((((((....))))....((((...))))))))))..((..((.(((((((((((((((((....)))((((((......)))))))))))))))))))).))..))..... ( -26.50)
>DroEre_CAF1 20460 120 + 1
AUUAAUUGGCAUUUACUUAAAUUAUCCGAUGAUGACGGCCAAUCAAAUACUCUUUAAGUGUAAUUGGAUUUGUGUCGGCUUUUCUAAUAGAGUUCGAUUAUACUUAAGUGGCACUCUUUU
....((((((...........(((((....)))))..))))))......((.(((((((((((((((((((.(((..(.....)..)))))))))))))))))))))).))......... ( -25.32)
>DroYak_CAF1 20099 120 + 1
AUUAAUUGGCAUUUACUUAAAUUAUCCAAUGAUGACGGCCAAUCAAAUACUCUUUAAGUGUAAUUGGAUUUUUGUCGGCUUUUCUAAUAGAGUUCGAUUAUACUUAAGUGGCACUCUUUU
....((((((...........(((((....)))))..))))))......((.((((((((((((((((((((.((..(.....)..)))))))))))))))))))))).))......... ( -25.32)
>consensus
AUUAAUUGGCAUUUACUUAAAUUAUCCGAUGAUGUCGGCCAAUCAAAUACUCUUUAAGUGUAAUUGGAUUUUUGUCGGCUUUUCUAAUAGAGCUCGAUUAUACUUAAGUGGCGUUCUUUU
....(((((.((((....))))...))))).......((((...........(((((((((((((((((....)))((((((......))))))))))))))))))))))))........ (-23.52 = -23.00 +  -0.52)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,710,377 – 19,710,497
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.67
Mean single sequence MFE -27.33
Consensus MFE -21.46
Energy contribution -22.52
Covariance contribution 1.06
Combinations/Pair 1.15
Mean z-score -1.92
Structure conservation index 0.79
SVM decision value 0.89
SVM RNA-class probability 0.875254
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19710377 120 + 23771897
AAUCAAAUACUCUUUAAGUGUAAUUGGAUUUUUGUCGGCUUUUCCAAUAGAGCUCAAUUAUACUUAAGUGGCGUUAUUUUGUCUUGAAAAAGAUACUCUCUGCUGACUCCCAAGGGUUCU
........(((((((((((((((((((((....)))((((((......))))))))))))))))))(((((((......((((((....)))))).....)))).)))...))))))... ( -30.80)
>DroSec_CAF1 19691 120 + 1
AAUCAAAUACUCUUUAAGUGUAAUUGGAUUUUUGUCGGCUUUUCUAAUAGAGCUCGAUUAUACUUAAGUGGCGUUCUUUUGUCUCGAAAAAGAUACUCUUUGCUGGCUUCAAAUCGUAUU
.....(((((..(((((((((((((((((....)))((((((......)))))))))))))))))))).((((......(((((......))))).....))))...........))))) ( -26.30)
>DroSim_CAF1 21842 120 + 1
AAUCAAAUACUCUUUAAGUGUAAUUGGAUUUUUGUCGGCUUUUCUAAUAGAGCUCGAUUAUGCUUAAGUGGCGUUCUUUUGUCUCGAAAAAGAUACUCUUUGCUGGUUUCUAAUCGUAUU
.....(((((..(((((((((((((((((....)))((((((......)))))))))))))))))))).((((......(((((......))))).....))))...........))))) ( -25.30)
>DroEre_CAF1 20500 120 + 1
AAUCAAAUACUCUUUAAGUGUAAUUGGAUUUGUGUCGGCUUUUCUAAUAGAGUUCGAUUAUACUUAAGUGGCACUCUUUUGUCUUGAAAAAGAUACUCCUCAUUUACUCACAUGGGCUUU
.........((.(((((((((((((((((((.(((..(.....)..)))))))))))))))))))))).))........((((((....))))))...(((((........))))).... ( -26.30)
>DroYak_CAF1 20139 120 + 1
AAUCAAAUACUCUUUAAGUGUAAUUGGAUUUUUGUCGGCUUUUCUAAUAGAGUUCGAUUAUACUUAAGUGGCACUCUUUUUUCUUGAAAAAGAUACUCUCUGCUUACUCCCAAGGGGUUU
.........(((((((((((((((((((((((.((..(.....)..))))))))))))))))))))(((((((........((((....)))).......))).))))...))))).... ( -27.96)
>consensus
AAUCAAAUACUCUUUAAGUGUAAUUGGAUUUUUGUCGGCUUUUCUAAUAGAGCUCGAUUAUACUUAAGUGGCGUUCUUUUGUCUUGAAAAAGAUACUCUUUGCUGACUCCCAAGGGUUUU
............(((((((((((((((((....)))((((((......)))))))))))))))))))).((((......((((((....)))))).....))))................ (-21.46 = -22.52 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:31 2006