Locus 5308

Sequence ID X_DroMel_CAF1
Location 13,874,554 – 13,874,671
Length 117
Max. P 0.977248
window8589 window8590

overview

Window 9

Location 13,874,554 – 13,874,671
Length 117
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.64
Mean single sequence MFE -36.27
Consensus MFE -33.67
Energy contribution -33.23
Covariance contribution -0.44
Combinations/Pair 1.06
Mean z-score -2.56
Structure conservation index 0.93
SVM decision value 1.31
SVM RNA-class probability 0.940477
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13874554 117 + 22224390
CUUUCAUUAUUGACACGAAGUUUUCCCUGCUGCAUUUUUCCGGGCGAUGU--GACCCUGUGCAAGUGAUUAGCUUGGAAAAUGUGACAGGGAAAAUUUCCAUAUACAA-GCUGCUAAAUG
...(((....)))...(((((((((((((..(((((((.((((((...((--.((.........)).))..)))))))))))))..))))))))))))).........-........... ( -37.30)
>DroSec_CAF1 20335 120 + 1
CUUUCAUUAUUGACACGAAGUUUUUCCUGCUGCAUUUUUCCGGGCGAUGUGCGACCCUGUGCAAGUGAUUAGCUUGGAAAAUGUUACAGGGAAAAUUUCCAUAUACAAGGCUGCUAAAUG
...(((....)))...(((((((((((((..(((((((.((((((....((((......))))........)))))))))))))..)))))))))))))..................... ( -34.90)
>DroEre_CAF1 18619 117 + 1
CUUUCAUUAUUGACACGAAGUUUUCCCUGCUGCAUUUUUCCGGGCGAUGU--GACCCUGUGCAAGUGAUUAGCUUGGAAAAUGUGACGGGGAAAAUUUCCAUAUACAA-GCUGCUAAAUG
...(((....)))...(((((((((((((..(((((((.((((((...((--.((.........)).))..)))))))))))))..))))))))))))).........-........... ( -36.60)
>consensus
CUUUCAUUAUUGACACGAAGUUUUCCCUGCUGCAUUUUUCCGGGCGAUGU__GACCCUGUGCAAGUGAUUAGCUUGGAAAAUGUGACAGGGAAAAUUUCCAUAUACAA_GCUGCUAAAUG
...(((....)))...(((((((((((((..((((((((..((((.......).)))....(((((.....)))))))))))))..)))))))))))))..................... (-33.67 = -33.23 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 13,874,554 – 13,874,671
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.64
Mean single sequence MFE -31.90
Consensus MFE -31.83
Energy contribution -32.50
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.42
Structure conservation index 1.00
SVM decision value 1.79
SVM RNA-class probability 0.977248
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13874554 117 - 22224390
CAUUUAGCAGC-UUGUAUAUGGAAAUUUUCCCUGUCACAUUUUCCAAGCUAAUCACUUGCACAGGGUC--ACAUCGCCCGGAAAAAUGCAGCAGGGAAAACUUCGUGUCAAUAAUGAAAG
.......((..-(((.(((((((..((((((((((..((((((((..((.........))...((((.--.....)))))).))))))..)))))))))).))))))))))...)).... ( -35.40)
>DroSec_CAF1 20335 120 - 1
CAUUUAGCAGCCUUGUAUAUGGAAAUUUUCCCUGUAACAUUUUCCAAGCUAAUCACUUGCACAGGGUCGCACAUCGCCCGGAAAAAUGCAGCAGGAAAAACUUCGUGUCAAUAAUGAAAG
.......((...(((.(((((((..(((((((((((...((((((..((.........))...((((........)))))))))).)))))..))))))..))))))))))...)).... ( -29.50)
>DroEre_CAF1 18619 117 - 1
CAUUUAGCAGC-UUGUAUAUGGAAAUUUUCCCCGUCACAUUUUCCAAGCUAAUCACUUGCACAGGGUC--ACAUCGCCCGGAAAAAUGCAGCAGGGAAAACUUCGUGUCAAUAAUGAAAG
.......((..-(((.(((((((..(((((((.((..((((((((..((.........))...((((.--.....)))))).))))))..)).))))))).))))))))))...)).... ( -30.80)
>consensus
CAUUUAGCAGC_UUGUAUAUGGAAAUUUUCCCUGUCACAUUUUCCAAGCUAAUCACUUGCACAGGGUC__ACAUCGCCCGGAAAAAUGCAGCAGGGAAAACUUCGUGUCAAUAAUGAAAG
.......((...(((.(((((((..((((((((((..((((((((..((.........))...((((........)))))).))))))..)))))))))).))))))))))...)).... (-31.83 = -32.50 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:30 2006