Locus 4639

Sequence ID X_DroMel_CAF1
Location 12,127,673 – 12,127,775
Length 102
Max. P 0.994817
window7622 window7623

overview

Window 2

Location 12,127,673 – 12,127,775
Length 102
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 92.94
Mean single sequence MFE -25.16
Consensus MFE -23.85
Energy contribution -23.72
Covariance contribution -0.13
Combinations/Pair 1.10
Mean z-score -2.66
Structure conservation index 0.95
SVM decision value 2.51
SVM RNA-class probability 0.994817
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12127673 102 + 22224390
GCCGCGCAGAGGGCGAAAAAGCCAAACAGGGAGGUUCCUGUAAAUGGUUGGUAAAAAGCCAAUAGCAGACAUUGCUGUGUUAAAUACAAAGAAAGAAAGAAA
...((((((..(((......)))..((((((....)))))).....((((((.....))))))...........))))))...................... ( -24.10)
>DroSec_CAF1 2407 101 + 1
GCUGCGCAGAGGGCGAAAAAGCCAAACAGGGAGGUUCCUGUAAAUGGUUGGUAAAAAGCCAAUGGCAGACAUUGCUGUGUUAAAUACAA-UAAAGAAAGAAA
.((((.((...(((.....(((((.((((((....))))))...)))))........)))..))))))...(((.(((((...))))).-)))......... ( -25.22)
>DroSim_CAF1 2384 101 + 1
GCUGCGCAGAGGGCGAAAAAGCCAAACAGGGAGGUUCCUGUAAAUGGUUGGUAAAAAGCCAAUGGCAGACAUUGCUGUGUUAAAUACAA-UAAAGAAAGAAA
.((((.((...(((.....(((((.((((((....))))))...)))))........)))..))))))...(((.(((((...))))).-)))......... ( -25.22)
>DroEre_CAF1 2091 98 + 1
GCUUCGCAGGGGGCGAAAAAGCCAAACAGGGAGGGUCCUGUAAAUUAUUGGUAAAAAGCCAAUAGCAGACACUGCUGCGUUAAAUACAA-UAAAGAA---AA
((...((((..(((......)))..((((((....))))))...((((((((.....))))))))......)))).))...........-.......---.. ( -26.10)
>consensus
GCUGCGCAGAGGGCGAAAAAGCCAAACAGGGAGGUUCCUGUAAAUGGUUGGUAAAAAGCCAAUAGCAGACAUUGCUGUGUUAAAUACAA_UAAAGAAAGAAA
...((((((..(((......)))..((((((....)))))).....((((((.....))))))...........))))))...................... (-23.85 = -23.72 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 12,127,673 – 12,127,775
Length 102
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 92.94
Mean single sequence MFE -19.14
Consensus MFE -15.17
Energy contribution -14.79
Covariance contribution -0.38
Combinations/Pair 1.14
Mean z-score -1.75
Structure conservation index 0.79
SVM decision value 0.13
SVM RNA-class probability 0.600211
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12127673 102 - 22224390
UUUCUUUCUUUCUUUGUAUUUAACACAGCAAUGUCUGCUAUUGGCUUUUUACCAACCAUUUACAGGAACCUCCCUGUUUGGCUUUUUCGCCCUCUGCGCGGC
........................(((....)))((((..((((.......))))(((...(((((......))))).))).......((.....)))))). ( -16.90)
>DroSec_CAF1 2407 101 - 1
UUUCUUUCUUUA-UUGUAUUUAACACAGCAAUGUCUGCCAUUGGCUUUUUACCAACCAUUUACAGGAACCUCCCUGUUUGGCUUUUUCGCCCUCUGCGCAGC
..........((-((((..........)))))).((((((..(((..........(((...(((((......))))).))).......)))...)).)))). ( -19.23)
>DroSim_CAF1 2384 101 - 1
UUUCUUUCUUUA-UUGUAUUUAACACAGCAAUGUCUGCCAUUGGCUUUUUACCAACCAUUUACAGGAACCUCCCUGUUUGGCUUUUUCGCCCUCUGCGCAGC
..........((-((((..........)))))).((((((..(((..........(((...(((((......))))).))).......)))...)).)))). ( -19.23)
>DroEre_CAF1 2091 98 - 1
UU---UUCUUUA-UUGUAUUUAACGCAGCAGUGUCUGCUAUUGGCUUUUUACCAAUAAUUUACAGGACCCUCCCUGUUUGGCUUUUUCGCCCCCUGCGAAGC
..---.......-..........(((((..(((...((((((((.......))))).....(((((......)))))..))).....)))...))))).... ( -21.20)
>consensus
UUUCUUUCUUUA_UUGUAUUUAACACAGCAAUGUCUGCCAUUGGCUUUUUACCAACCAUUUACAGGAACCUCCCUGUUUGGCUUUUUCGCCCUCUGCGCAGC
........................(((....)))((((((..(((......((((......(((((......))))))))).......)))...)).)))). (-15.17 = -14.79 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:59 2006