Locus 7193

Sequence ID 2L_DroMel_CAF1
Location 20,144,351 – 20,144,471
Length 120
Max. P 0.843769
window11484 window11485

overview

Window 4

Location 20,144,351 – 20,144,471
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.78
Mean single sequence MFE -32.80
Consensus MFE -27.90
Energy contribution -27.57
Covariance contribution -0.33
Combinations/Pair 1.08
Mean z-score -1.90
Structure conservation index 0.85
SVM decision value 0.03
SVM RNA-class probability 0.547241
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20144351 120 + 22407834
AAGAUGAAAUAAUACAAAGGAUGCGAUUUAAAUUUAAAUAUUUAAGCGCGUGCGCCAACAUGCACGGUCGGAGGGUCACACUCGACCAAGCUGGCUGGCCACACUAAUACAGGCAAAUGC
..................(.(((((.(((((((......)))))))))))).)........((((((((((..((((......))))...)))))))(((...........)))...))) ( -32.50)
>DroSec_CAF1 18363 120 + 1
AAGAUGAAAUAAUAAAUAGGAUGCGAUUCAAAUUUAAAUAUUUGAGCGCGUGCGCCAAAAUGCACGGUCGGAGGGUCACACUGGACCAAGCAGUCUGGCCACACUAAUACAGGCAAAUGU
................(((...(((.(((((((......))))))))))(((.((((...(((..((((.(..(....)..).))))..)))...))))))).))).............. ( -31.80)
>DroSim_CAF1 8431 120 + 1
AAGAUGAAAUAAUAAAUAGGAUGCGAUUCAAAUUUAAAUAUUUGAGCGCGUGCGCCAACAUGCACGGUCGGAGGGUCACACUGGACCGAGCAGUCUGGUCACACUUAUAUAGGCAAAUGC
...............(((((..(((.(((((((......))))))))))(((.((((...(((.(((((.(..(....)..).))))).)))...))))))).)))))............ ( -34.10)
>consensus
AAGAUGAAAUAAUAAAUAGGAUGCGAUUCAAAUUUAAAUAUUUGAGCGCGUGCGCCAACAUGCACGGUCGGAGGGUCACACUGGACCAAGCAGUCUGGCCACACUAAUACAGGCAAAUGC
......................(((.(((((((......))))))))))(((.((((...(((..((((...((......)).))))..)))...))))))).................. (-27.90 = -27.57 +  -0.33)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 20,144,351 – 20,144,471
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.78
Mean single sequence MFE -31.99
Consensus MFE -30.42
Energy contribution -30.21
Covariance contribution -0.22
Combinations/Pair 1.11
Mean z-score -1.86
Structure conservation index 0.95
SVM decision value 0.76
SVM RNA-class probability 0.843769
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20144351 120 - 22407834
GCAUUUGCCUGUAUUAGUGUGGCCAGCCAGCUUGGUCGAGUGUGACCCUCCGACCGUGCAUGUUGGCGCACGCGCUUAAAUAUUUAAAUUUAAAUCGCAUCCUUUGUAUUAUUUCAUCUU
(((..(((........(((((((((((..((.((((((((.......)).)))))).))..)))))).)))))..((((((......))))))...))).....)))............. ( -33.10)
>DroSec_CAF1 18363 120 - 1
ACAUUUGCCUGUAUUAGUGUGGCCAGACUGCUUGGUCCAGUGUGACCCUCCGACCGUGCAUUUUGGCGCACGCGCUCAAAUAUUUAAAUUUGAAUCGCAUCCUAUUUAUUAUUUCAUCUU
.....(((........(((((((((((.(((.(((((..............))))).))).)))))).)))))..((((((......))))))...)))..................... ( -31.54)
>DroSim_CAF1 8431 120 - 1
GCAUUUGCCUAUAUAAGUGUGACCAGACUGCUCGGUCCAGUGUGACCCUCCGACCGUGCAUGUUGGCGCACGCGCUCAAAUAUUUAAAUUUGAAUCGCAUCCUAUUUAUUAUUUCAUCUU
((....))........(((((.((((..(((.(((((..............))))).)))..)))))))))(((.((((((......))))))..)))...................... ( -31.34)
>consensus
GCAUUUGCCUGUAUUAGUGUGGCCAGACUGCUUGGUCCAGUGUGACCCUCCGACCGUGCAUGUUGGCGCACGCGCUCAAAUAUUUAAAUUUGAAUCGCAUCCUAUUUAUUAUUUCAUCUU
................(((((.(((((.(((.(((((..............))))).))).))))))))))(((.((((((......))))))..)))...................... (-30.42 = -30.21 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:44 2006