Locus 1143

Sequence ID 3R_DroMel_CAF1
Location 3,419,432 – 3,419,523
Length 91
Max. P 0.976832
window1877 window1878

overview

Window 7

Location 3,419,432 – 3,419,523
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 95.05
Mean single sequence MFE -18.05
Consensus MFE -15.77
Energy contribution -16.02
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.88
Structure conservation index 0.87
SVM decision value 1.57
SVM RNA-class probability 0.964775
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3419432 91 + 27905053
CUUUUGCCUGGAAAAGCGGCAAAUCAUGCUUAAUGUGGCAUUUGUAUGUUUAUUUUUUUAUUUUUAUACAUUUUCCUUCUACGCUUUUCUC
.........(((((((((.......(((((......))))).((((((...((......))...))))))...........))))))))). ( -18.60)
>DroSec_CAF1 17268 91 + 1
CUUUUGCCUGGAAAAGCGGCAAAUCAUGCUUAAUGUGGCAUUUGUAUGUUUAUUUUUUUAUUUUUAUACAUUUUCCUUCUACGCUUUUCUC
.........(((((((((.......(((((......))))).((((((...((......))...))))))...........))))))))). ( -18.60)
>DroSim_CAF1 28500 91 + 1
CUUUUGCCUGGAAAAGCGGCAAAUCAUGCUUAAUGUGGCAUUUGUAUGUUUAUUUUUUUAUUUUUAUACAUUUUCCUUCUACGCUUUUCUC
.........(((((((((.......(((((......))))).((((((...((......))...))))))...........))))))))). ( -18.60)
>DroYak_CAF1 33106 85 + 1
CUUUUGCCUGGAAAAGCGGCAAAUCAUGCUUAAUGUGGCAUUUGUAUGUUUAUUUUUU------UUAACAUUUUCCUUCUACGCUUUCCUC
.........(((((.(((((((...(((((......)))))))))(((((........------..)))))..........)))))))).. ( -16.40)
>consensus
CUUUUGCCUGGAAAAGCGGCAAAUCAUGCUUAAUGUGGCAUUUGUAUGUUUAUUUUUUUAUUUUUAUACAUUUUCCUUCUACGCUUUUCUC
.........(((((((((((((...(((((......)))))))))((((..................))))..........))))))))). (-15.77 = -16.02 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 3,419,432 – 3,419,523
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 95.05
Mean single sequence MFE -15.40
Consensus MFE -14.56
Energy contribution -14.87
Covariance contribution 0.31
Combinations/Pair 1.05
Mean z-score -2.32
Structure conservation index 0.95
SVM decision value 1.78
SVM RNA-class probability 0.976832
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3419432 91 - 27905053
GAGAAAAGCGUAGAAGGAAAAUGUAUAAAAAUAAAAAAAUAAACAUACAAAUGCCACAUUAAGCAUGAUUUGCCGCUUUUCCAGGCAAAAG
(.((((((((.....((....(((((..................)))))....)).......(((.....))))))))))))......... ( -15.67)
>DroSec_CAF1 17268 91 - 1
GAGAAAAGCGUAGAAGGAAAAUGUAUAAAAAUAAAAAAAUAAACAUACAAAUGCCACAUUAAGCAUGAUUUGCCGCUUUUCCAGGCAAAAG
(.((((((((.....((....(((((..................)))))....)).......(((.....))))))))))))......... ( -15.67)
>DroSim_CAF1 28500 91 - 1
GAGAAAAGCGUAGAAGGAAAAUGUAUAAAAAUAAAAAAAUAAACAUACAAAUGCCACAUUAAGCAUGAUUUGCCGCUUUUCCAGGCAAAAG
(.((((((((.....((....(((((..................)))))....)).......(((.....))))))))))))......... ( -15.67)
>DroYak_CAF1 33106 85 - 1
GAGGAAAGCGUAGAAGGAAAAUGUUAA------AAAAAAUAAACAUACAAAUGCCACAUUAAGCAUGAUUUGCCGCUUUUCCAGGCAAAAG
(.((((((((((((......(((((..------........)))))....((((........))))..)))).)))))))))......... ( -14.60)
>consensus
GAGAAAAGCGUAGAAGGAAAAUGUAUAAAAAUAAAAAAAUAAACAUACAAAUGCCACAUUAAGCAUGAUUUGCCGCUUUUCCAGGCAAAAG
(.((((((((.....((....(((((..................)))))....)).......(((.....))))))))))))......... (-14.56 = -14.87 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:07 2006