Locus 1123

Sequence ID 3R_DroMel_CAF1
Location 3,383,415 – 3,383,506
Length 91
Max. P 0.900179
window1840 window1841

overview

Window 0

Location 3,383,415 – 3,383,506
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 92.12
Mean single sequence MFE -22.05
Consensus MFE -18.11
Energy contribution -19.43
Covariance contribution 1.31
Combinations/Pair 1.05
Mean z-score -2.01
Structure conservation index 0.82
SVM decision value 0.78
SVM RNA-class probability 0.849952
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3383415 91 + 27905053
AAAUUGGACUCGUAAAACUGACUGAGUUUUGCGAUGCCAAUCCUUAAAGACGACUAAACUGAAAUCGCCAGAGCUAUAGCCAUGGCCAUAG
..(((((..((((((((((.....))))))))))..))))).........................((((..((....))..))))..... ( -25.00)
>DroSec_CAF1 11788 91 + 1
AAAUUGGACUCGUAAAACUCACUGAGUUUGGCGAUGCCAAUCCUUAAAGACGACUAAACUGAAAUCGCCAGAGCUAUAGCCAUGGCCAUAG
..(((((..((((.((((((...)))))).))))..))))).........................((((..((....))..))))..... ( -23.00)
>DroSim_CAF1 12623 91 + 1
AAAUUGGACUCGUAAAACUCACUGAGUUUGGCGAUGCCAAUCCUUAAAGACGACUAAACUGAAAUCGCCAGAGCUAUAGCCAUGGCCAUAG
..(((((..((((.((((((...)))))).))))..))))).........................((((..((....))..))))..... ( -23.00)
>DroEre_CAF1 12016 85 + 1
AAAUUGGACUCGUAAAAUUCACUCAGUUUUGCGAUGCCAAUCCUUAAAGACGACUAAACUGAAAACGGCA------UAGCCAUAGCCAAAG
..(((((..((((((((((.....))))))))))..))))).........................(((.------........))).... ( -17.20)
>consensus
AAAUUGGACUCGUAAAACUCACUGAGUUUGGCGAUGCCAAUCCUUAAAGACGACUAAACUGAAAUCGCCAGAGCUAUAGCCAUGGCCAUAG
..(((((..((((((((((.....))))))))))..))))).........................((((..((....))..))))..... (-18.11 = -19.43 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 3,383,415 – 3,383,506
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 92.12
Mean single sequence MFE -25.55
Consensus MFE -21.70
Energy contribution -23.70
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -2.03
Structure conservation index 0.85
SVM decision value 1.01
SVM RNA-class probability 0.900179
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3383415 91 - 27905053
CUAUGGCCAUGGCUAUAGCUCUGGCGAUUUCAGUUUAGUCGUCUUUAAGGAUUGGCAUCGCAAAACUCAGUCAGUUUUACGAGUCCAAUUU
(((((((....)))))))....(((((((.......))))))).....(((((((..(((.((((((.....)))))).)))..))))))) ( -28.10)
>DroSec_CAF1 11788 91 - 1
CUAUGGCCAUGGCUAUAGCUCUGGCGAUUUCAGUUUAGUCGUCUUUAAGGAUUGGCAUCGCCAAACUCAGUGAGUUUUACGAGUCCAAUUU
(((((((....)))))))....(((((((.......))))))).....(((((((..(((..((((((...))))))..)))..))))))) ( -28.60)
>DroSim_CAF1 12623 91 - 1
CUAUGGCCAUGGCUAUAGCUCUGGCGAUUUCAGUUUAGUCGUCUUUAAGGAUUGGCAUCGCCAAACUCAGUGAGUUUUACGAGUCCAAUUU
(((((((....)))))))....(((((((.......))))))).....(((((((..(((..((((((...))))))..)))..))))))) ( -28.60)
>DroEre_CAF1 12016 85 - 1
CUUUGGCUAUGGCUA------UGCCGUUUUCAGUUUAGUCGUCUUUAAGGAUUGGCAUCGCAAAACUGAGUGAAUUUUACGAGUCCAAUUU
..(((((((((((..------.))))).((((((((.((.(((..........)))...)).))))))))...........)).))))... ( -16.90)
>consensus
CUAUGGCCAUGGCUAUAGCUCUGGCGAUUUCAGUUUAGUCGUCUUUAAGGAUUGGCAUCGCAAAACUCAGUGAGUUUUACGAGUCCAAUUU
(((((((....)))))))....(((((((.......))))))).....(((((((..(((.((((((.....)))))).)))..))))))) (-21.70 = -23.70 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:32 2006