Locus 5112

Sequence ID 3R_DroMel_CAF1
Location 13,462,338 – 13,462,431
Length 93
Max. P 0.731376
window8335

overview

Window 5

Location 13,462,338 – 13,462,431
Length 93
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 77.32
Mean single sequence MFE -21.65
Consensus MFE -12.62
Energy contribution -12.78
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.69
Structure conservation index 0.58
SVM decision value 0.43
SVM RNA-class probability 0.731376
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13462338 93 + 27905053
CCACAAAUUACAUGCGUGUAAA-AACGCGCGCGUGUUUUCCC-UCGUCUCUU-----UUUUUUUUUGUGAAUUUUUUGCCGCUGCUAUGUGAGUCACUCA
.((((((..((((((((((...-...))))))))))......-.........-----......))))))........(((((......))).))...... ( -19.70)
>DroGri_CAF1 11452 83 + 1
CAACAAAUUACAUGCGUGUAAAAAACGCGCGCGUUUUUCGA-CGCGU----------GU---UUUAUCGC-UCUGUAGUCGCG--UGUGCUUCUUACUCA
........((((((((((...((((((((((((.....)).-)))))----------))---)))..)))-...(....))))--))))........... ( -24.70)
>DroSec_CAF1 13415 90 + 1
CCACAAAUUACAUGCGUGUAAA-AACGCGCGCGUGUUUUCCC-UCGUCUGAU-----UU---UUUUAGGAAUUUUUUGGCGCUGCUGUGUGAGUCACUCA
.((((....((((((((((...-...))))))))))......-.((((.(((-----((---(....))))))....))))......))))......... ( -22.10)
>DroSim_CAF1 12815 91 + 1
CCACAAAUUACAUGCGUGUAAA-AACGCGCGCGUGUUUUCCC-UGGUCUCAU-----UUU--UUUUAGGAAUUUUUUGGCGCUGCUGUGUGAGUCACUCA
...((((..((((((((((...-...))))))))))....((-(((......-----...--..))))).....))))((((....))))(((...))). ( -22.10)
>DroEre_CAF1 9204 95 + 1
CCACAAAUUACAUGCGUGUAAA-AACGCGCGCGUGUUUUCCC-UCGUCAUUUUCCUUUU---UUUUUUGCAUUUUCAGCCGCGGCUGUGUGAGUCACUCA
.((((....((((((((((...-...))))))))))......-................---.............((((....))))))))......... ( -23.30)
>DroYak_CAF1 8767 79 + 1
CCACAAAUUACAUGCGUGUAAA-AACGCGCGCGUGUUUUCCC-UCGUCAUCU-----UU---UUUUUGGCACUUUUAGCCGC-----------UCACUCA
.........((((((((((...-...))))))))))......-.........-----..---.....(((.......)))..-----------....... ( -18.00)
>consensus
CCACAAAUUACAUGCGUGUAAA_AACGCGCGCGUGUUUUCCC_UCGUCUCAU_____UU___UUUUUGGAAUUUUUAGCCGCUGCUGUGUGAGUCACUCA
.........((((((((((.......))))))))))................................................................ (-12.62 = -12.78 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:30 2006