Locus 5711

Sequence ID X_DroMel_CAF1
Location 14,785,833 – 14,785,926
Length 93
Max. P 0.980980
window9267 window9268

overview

Window 7

Location 14,785,833 – 14,785,926
Length 93
Sequences 3
Columns 94
Reading direction forward
Mean pairwise identity 78.23
Mean single sequence MFE -20.67
Consensus MFE -15.13
Energy contribution -14.47
Covariance contribution -0.66
Combinations/Pair 1.21
Mean z-score -2.16
Structure conservation index 0.73
SVM decision value 1.88
SVM RNA-class probability 0.980980
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14785833 93 + 22224390
UUAGCUUAUUUAAUAAGUACCUAUUUCUU-AUGAAGGUGGGUACAUUUUCCGCUUACCCCCUAAAAAGACAUUUCUUUAGGGUGAUAAUAGCUU
..((((...(((....(((((((((((..-..))).)))))))).........((((((.....(((((....))))).))))))))).)))). ( -22.30)
>DroSec_CAF1 20429 83 + 1
-UUGCUUA---------CACGUAUUUUUUUAGGAAGGUAGGUACAUUUUCAGCUUACCCCCUAGAAGAACAUUGCU-UGGGGUGAUAAUACCUC
-.......---------...(((((((((((((..(((((((.........))))))).))))))))))...))).-.((((((....)))))) ( -21.20)
>DroSim_CAF1 21162 79 + 1
-UUGCUUA---------UACGUAUUUUUU-----AGGUAGGUACAUUUUCAGCUUACCCCCUAGAAGGACAUUUCUUUGGGGUGAUAAUACCUU
-..(((..---------...((((((...-----....))))))......)))(((((((..(((((....)))))..)))))))......... ( -18.50)
>consensus
_UUGCUUA_________UACGUAUUUUUU_A_GAAGGUAGGUACAUUUUCAGCUUACCCCCUAGAAGGACAUUUCUUUGGGGUGAUAAUACCUU
....................(((((..........(((((((.........)))))))(((((((..........)))))))....)))))... (-15.13 = -14.47 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 14,785,833 – 14,785,926
Length 93
Sequences 3
Columns 94
Reading direction reverse
Mean pairwise identity 78.23
Mean single sequence MFE -17.73
Consensus MFE -10.98
Energy contribution -10.43
Covariance contribution -0.55
Combinations/Pair 1.19
Mean z-score -1.81
Structure conservation index 0.62
SVM decision value 0.36
SVM RNA-class probability 0.704834
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14785833 93 - 22224390
AAGCUAUUAUCACCCUAAAGAAAUGUCUUUUUAGGGGGUAAGCGGAAAAUGUACCCACCUUCAU-AAGAAAUAGGUACUUAUUAAAUAAGCUAA
.((((.(((((.(((((((((......)))))))))))))).........(((((....(((..-..)))...)))))..........)))).. ( -24.00)
>DroSec_CAF1 20429 83 - 1
GAGGUAUUAUCACCCCA-AGCAAUGUUCUUCUAGGGGGUAAGCUGAAAAUGUACCUACCUUCCUAAAAAAAUACGUG---------UAAGCAA-
(.(((......))).).-.((.((((.....(((((((((.((.......))...)))).))))).......)))).---------...))..- ( -12.60)
>DroSim_CAF1 21162 79 - 1
AAGGUAUUAUCACCCCAAAGAAAUGUCCUUCUAGGGGGUAAGCUGAAAAUGUACCUACCU-----AAAAAAUACGUA---------UAAGCAA-
.((((((..(((((((..((((......))))..))))).....))....))))))....-----............---------.......- ( -16.60)
>consensus
AAGGUAUUAUCACCCCAAAGAAAUGUCCUUCUAGGGGGUAAGCUGAAAAUGUACCUACCUUC_U_AAAAAAUACGUA_________UAAGCAA_
...(((((...(((((..((((......))))..)))))..((.......)).................))))).................... (-10.98 = -10.43 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:33 2006