Locus 7109

Sequence ID 3L_DroMel_CAF1
Location 19,163,468 – 19,163,588
Length 120
Max. P 0.997354
window11532 window11533

overview

Window 2

Location 19,163,468 – 19,163,588
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 94.56
Mean single sequence MFE -24.61
Consensus MFE -22.35
Energy contribution -22.47
Covariance contribution 0.11
Combinations/Pair 1.09
Mean z-score -1.93
Structure conservation index 0.91
SVM decision value 2.09
SVM RNA-class probability 0.987702
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19163468 120 + 23771897
AGAAAUAGUUAUAAAAUUGAAACUGAAACUUAAUUGCAAUUAAAGCUGAGUGCCAAAGGAAAGGCGCAAAGCGAGCGUACGCAAUGCGAGCGAAAUGAACACCUUCAAUUUAAUUGAGUU
.....(((((..........))))).((((((((((.((((.(((.((.(((((........)))))...((..((((.....))))..))........)).))).)))))))))))))) ( -27.20)
>DroSec_CAF1 26335 120 + 1
AGAAAUAGUUAUAAAAUUGAAACUGAAACUUAAUUGCAAUUAAAGCUGAGUACCAAAGGAAAGGCGCAUAGCAAGCGAACGCAAUGCGAGCGAAAUGAACACCUUCAAUUUAAUUGAGUU
.....(((((..........))))).((((((((((((......((((.(..((........))..).))))..((....))..)))....(((.((((....)))).)))))))))))) ( -21.10)
>DroAna_CAF1 19057 117 + 1
AAAAAAAGUU---AAAUUGAAACUGAAACUUAAUUGCAAUUAAAGUUGAGUGCUGAAGGAAAAGCGCAAAGCCGGCGAACGCAACGCGAGCGAAAUGAACACCUUCAAUUAAAUUGAGUU
......((((---.......))))..(((((((((..((((.(((.((.(((((........)))))...((..(((.......)))..))........)).))).)))).))))))))) ( -23.10)
>DroSim_CAF1 26032 120 + 1
AGAAAUAGUUAUAAAAUUGAAACUGAAACUUAAUUGCAAUUAAAGCUGAGUGCCAAAGGAAAGGCGCAAAGCGAGCGAACGCAAUGCGAGCGAAAUGAACACCUUCAAUUUAAUUAAGGU
.....((((((...(((((((..((........(((((......(((..(((((........)))))..)))..((....))..)))))..........))..))))))))))))).... ( -25.07)
>DroEre_CAF1 26943 120 + 1
AAAAAUAGUUAUAAAAUUGAAACUGAAACUUAAUUGCAAUUAAAGCUGAGUGCCAAAGGAAAGGCGCAAAGCGAGCGAACGCAAUGCGAGCGAAAUGAACACCUUCAAUUUAAUUGAGUU
.....(((((..........))))).((((((((((((......(((..(((((........)))))..)))..((....))..)))....(((.((((....)))).)))))))))))) ( -25.60)
>DroYak_CAF1 26894 120 + 1
AAAAAUAGUUAUAAAAUUGAAACUGAAACUUAAUUGCAAUUAAAGCUGAGUGCCAAAGGAAAGGCGCAAAGCGAGCGAACGCAAUGCGAGCGAAAUGAACACCUUCAAUUUAAUUGAGUU
.....(((((..........))))).((((((((((((......(((..(((((........)))))..)))..((....))..)))....(((.((((....)))).)))))))))))) ( -25.60)
>consensus
AAAAAUAGUUAUAAAAUUGAAACUGAAACUUAAUUGCAAUUAAAGCUGAGUGCCAAAGGAAAGGCGCAAAGCGAGCGAACGCAAUGCGAGCGAAAUGAACACCUUCAAUUUAAUUGAGUU
.....(((((..........))))).((((((((((.((((.(((.((.(((((........)))))...((..(((.......)))..))........)).))).)))))))))))))) (-22.35 = -22.47 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 19,163,468 – 19,163,588
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.56
Mean single sequence MFE -24.65
Consensus MFE -22.36
Energy contribution -22.03
Covariance contribution -0.33
Combinations/Pair 1.15
Mean z-score -2.34
Structure conservation index 0.91
SVM decision value 2.84
SVM RNA-class probability 0.997354
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19163468 120 - 23771897
AACUCAAUUAAAUUGAAGGUGUUCAUUUCGCUCGCAUUGCGUACGCUCGCUUUGCGCCUUUCCUUUGGCACUCAGCUUUAAUUGCAAUUAAGUUUCAGUUUCAAUUUUAUAACUAUUUCU
((((.((((.((((((((.((............(((..(((......)))..)))(((........)))...)).))))))))..)))).)))).......................... ( -25.70)
>DroSec_CAF1 26335 120 - 1
AACUCAAUUAAAUUGAAGGUGUUCAUUUCGCUCGCAUUGCGUUCGCUUGCUAUGCGCCUUUCCUUUGGUACUCAGCUUUAAUUGCAAUUAAGUUUCAGUUUCAAUUUUAUAACUAUUUCU
((((.((((.((((((((.((............((((.(((......))).))))(((........)))...)).))))))))..)))).)))).......................... ( -22.00)
>DroAna_CAF1 19057 117 - 1
AACUCAAUUUAAUUGAAGGUGUUCAUUUCGCUCGCGUUGCGUUCGCCGGCUUUGCGCUUUUCCUUCAGCACUCAACUUUAAUUGCAAUUAAGUUUCAGUUUCAAUUU---AACUUUUUUU
((((.((((((((((((((.((.((....(((.(((.......))).)))..)).))....))))).(((............))))))))))))..)))).......---.......... ( -21.00)
>DroSim_CAF1 26032 120 - 1
ACCUUAAUUAAAUUGAAGGUGUUCAUUUCGCUCGCAUUGCGUUCGCUCGCUUUGCGCCUUUCCUUUGGCACUCAGCUUUAAUUGCAAUUAAGUUUCAGUUUCAAUUUUAUAACUAUUUCU
..(((((((.((((((((.((............(((..(((......)))..)))(((........)))...)).))))))))..)))))))............................ ( -27.80)
>DroEre_CAF1 26943 120 - 1
AACUCAAUUAAAUUGAAGGUGUUCAUUUCGCUCGCAUUGCGUUCGCUCGCUUUGCGCCUUUCCUUUGGCACUCAGCUUUAAUUGCAAUUAAGUUUCAGUUUCAAUUUUAUAACUAUUUUU
((((.((((.((((((((.((............(((..(((......)))..)))(((........)))...)).))))))))..)))).)))).......................... ( -25.70)
>DroYak_CAF1 26894 120 - 1
AACUCAAUUAAAUUGAAGGUGUUCAUUUCGCUCGCAUUGCGUUCGCUCGCUUUGCGCCUUUCCUUUGGCACUCAGCUUUAAUUGCAAUUAAGUUUCAGUUUCAAUUUUAUAACUAUUUUU
((((.((((.((((((((.((............(((..(((......)))..)))(((........)))...)).))))))))..)))).)))).......................... ( -25.70)
>consensus
AACUCAAUUAAAUUGAAGGUGUUCAUUUCGCUCGCAUUGCGUUCGCUCGCUUUGCGCCUUUCCUUUGGCACUCAGCUUUAAUUGCAAUUAAGUUUCAGUUUCAAUUUUAUAACUAUUUCU
((((.((((.((((((((.((............(((..(((......)))..)))(((........)))...)).))))))))..)))).)))).......................... (-22.36 = -22.03 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:03 2006