Locus 2875

Sequence ID X_DroMel_CAF1
Location 7,700,600 – 7,700,710
Length 110
Max. P 0.999910
window4714 window4715

overview

Window 4

Location 7,700,600 – 7,700,710
Length 110
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 62.57
Mean single sequence MFE -32.63
Consensus MFE -17.80
Energy contribution -18.47
Covariance contribution 0.67
Combinations/Pair 1.10
Mean z-score -2.10
Structure conservation index 0.55
SVM decision value 3.29
SVM RNA-class probability 0.998939
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7700600 110 + 22224390
CACAUCCACACACUGGCACGAUUAUUGCACAUCACUAAUUAGUGAUGUGUGCGACGCA-UCGCGCCUAAAAUUUCUG----ACCACCAAAAGG--GGGAGGUGGACGUCAG---UGGGCG
....(((((.....(((.........((((((((((....))))))))))((((....-)))))))...........----.(((((......--....)))))......)---)))).. ( -38.00)
>DroMoj_CAF1 16840 105 + 1
---------------GCACGAUUAUUGCACAUCACUAAUUAGUGAUGUGAAUUCCGCGCGCGCGCUUAAAUUUUACGUUUCGGCACGAAUAGAUUGGCGAGUGGGGAACAGAGAUAGAUG
---------------......(((((.(((((((((....)))))))))..((((.(((.((((((.((((.....)))).))).(((.....)))))).))).))))....)))))... ( -31.50)
>DroSim_CAF1 6766 92 + 1
CACAUCCACACACUGGCACGAUUAUUGCACAUCACUAAUUAGUGAUGUGUGCGACGCA-UCGCGCCUAAAAUUUCUG----ACCACCAAA-GG--GGGAG--------------------
....(((.......(((.........((((((((((....))))))))))((((....-)))))))...........----.((......-))--.))).-------------------- ( -28.40)
>consensus
CACAUCCACACACUGGCACGAUUAUUGCACAUCACUAAUUAGUGAUGUGUGCGACGCA_UCGCGCCUAAAAUUUCUG____ACCACCAAAAGG__GGGAGGUGG____CAG___U_G__G
..............(((........(((((((((((....)))))))))))....((....)))))................((.((....))...))...................... (-17.80 = -18.47 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 7,700,600 – 7,700,710
Length 110
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 62.57
Mean single sequence MFE -32.20
Consensus MFE -20.19
Energy contribution -20.86
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.07
Structure conservation index 0.63
SVM decision value 4.50
SVM RNA-class probability 0.999910
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7700600 110 - 22224390
CGCCCA---CUGACGUCCACCUCCC--CCUUUUGGUGGU----CAGAAAUUUUAGGCGCGA-UGCGUCGCACACAUCACUAAUUAGUGAUGUGCAAUAAUCGUGCCAGUGUGUGGAUGUG
(((.((---((...(.(((((....--......))))).----)..........(((((((-(..((.(((((..(((((....)))))))))).)).)))))))))))).)))...... ( -42.40)
>DroMoj_CAF1 16840 105 - 1
CAUCUAUCUCUGUUCCCCACUCGCCAAUCUAUUCGUGCCGAAACGUAAAAUUUAAGCGCGCGCGCGGAAUUCACAUCACUAAUUAGUGAUGUGCAAUAAUCGUGC---------------
.................(((...........(((((((((...(((.........))))).)))))))((((((((((((....))))))))).)))....))).--------------- ( -25.00)
>DroSim_CAF1 6766 92 - 1
--------------------CUCCC--CC-UUUGGUGGU----CAGAAAUUUUAGGCGCGA-UGCGUCGCACACAUCACUAAUUAGUGAUGUGCAAUAAUCGUGCCAGUGUGUGGAUGUG
--------------------.(((.--((-......)).----...........(((((((-(..((.(((((..(((((....)))))))))).)).)))))))).......))).... ( -29.20)
>consensus
C__C_A___CUG____CCACCUCCC__CCUUUUGGUGGU____CAGAAAUUUUAGGCGCGA_UGCGUCGCACACAUCACUAAUUAGUGAUGUGCAAUAAUCGUGCCAGUGUGUGGAUGUG
......................................................(((((((..........(((((((((....)))))))))......))))))).............. (-20.19 = -20.86 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:37 2006