Locus 2928

Sequence ID X_DroMel_CAF1
Location 7,834,828 – 7,834,926
Length 98
Max. P 0.999444
window4794 window4795

overview

Window 4

Location 7,834,828 – 7,834,926
Length 98
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 65.05
Mean single sequence MFE -22.28
Consensus MFE -10.63
Energy contribution -11.75
Covariance contribution 1.12
Combinations/Pair 1.28
Mean z-score -2.62
Structure conservation index 0.48
SVM decision value 2.95
SVM RNA-class probability 0.997887
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7834828 98 + 22224390
CUUUUACUCAGCCCUAUGAUGUGGAGCAAUAUACCUCACCGCUCCACU---------AACAUUUGUUUCCAAUGUUUUCUAAG------CUGAUUUUUGGGCAAUAAUAGCCA
.......(((((........(((((((.............))))))).---------((((((.......))))))......)------))))......(((.......))). ( -23.22)
>DroSim_CAF1 16073 101 + 1
CUUUUACUUAGUCCUAUGAUGUGGAGCACUGUAACUGACCGCUCCACUGAGAA------CAUAUGUUUCCAAUAUUUUCUAAA------CUGAUUAUUGGACAAUAAUAACCA
..........((((.((((((((((((.............)))))))..((((------.((((.......)))).))))...------...))))).))))........... ( -23.92)
>DroEre_CAF1 18534 101 + 1
CUUUU-----------UGUCUUGGGGCAUUGAAACUCACCGCUCCCGUGACAAUAGUAACAUUUGUUUCCGUUAUUU-CUAAUUAUUUCUUAGUUAUAAGACAAAAAUAAUCA
.((((-----------(((((((((((..((.....))..)))))((.(((((.........)))))..))......-.((((((.....)))))).))))))))))...... ( -19.70)
>consensus
CUUUUACU_AG_CCUAUGAUGUGGAGCAAUGUAACUCACCGCUCCACUGA_AA____AACAUUUGUUUCCAAUAUUUUCUAAA______CUGAUUAUUGGACAAUAAUAACCA
..........((((.((((((((((((.............)))))))................((....)).....................))))).))))........... (-10.63 = -11.75 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 7,834,828 – 7,834,926
Length 98
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 65.05
Mean single sequence MFE -28.07
Consensus MFE -12.50
Energy contribution -14.83
Covariance contribution 2.34
Combinations/Pair 1.13
Mean z-score -3.39
Structure conservation index 0.45
SVM decision value 3.61
SVM RNA-class probability 0.999444
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7834828 98 - 22224390
UGGCUAUUAUUGCCCAAAAAUCAG------CUUAGAAAACAUUGGAAACAAAUGUU---------AGUGGAGCGGUGAGGUAUAUUGCUCCACAUCAUAGGGCUGAGUAAAAG
.(((.......)))......((((------(((....(((((((....).))))))---------.(((((((((((.....)))))))))))......)))))))....... ( -34.40)
>DroSim_CAF1 16073 101 - 1
UGGUUAUUAUUGUCCAAUAAUCAG------UUUAGAAAAUAUUGGAAACAUAUG------UUCUCAGUGGAGCGGUCAGUUACAGUGCUCCACAUCAUAGGACUAAGUAAAAG
...(((((...((((.........------....((.(((((((....)).)))------)).)).((((((((.(.......).))))))))......))))..)))))... ( -27.00)
>DroEre_CAF1 18534 101 - 1
UGAUUAUUUUUGUCUUAUAACUAAGAAAUAAUUAG-AAAUAACGGAAACAAAUGUUACUAUUGUCACGGGAGCGGUGAGUUUCAAUGCCCCAAGACA-----------AAAAG
......((((((((((........((......(((-.((((..(....)...)))).)))...))..(((.(((.((.....)).))))))))))))-----------)))). ( -22.80)
>consensus
UGGUUAUUAUUGUCCAAUAAUCAG______AUUAGAAAAUAUUGGAAACAAAUGUU____UU_UCAGUGGAGCGGUGAGUUACAAUGCUCCACAUCAUAGG_CU_AGUAAAAG
...........((((............................(....).................((((((((.((.....)).))))))))......)))).......... (-12.50 = -14.83 +   2.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:50 2006