Locus 5373

Sequence ID X_DroMel_CAF1
Location 13,974,295 – 13,974,386
Length 91
Max. P 0.797074
window8718 window8719

overview

Window 8

Location 13,974,295 – 13,974,386
Length 91
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 74.23
Mean single sequence MFE -30.60
Consensus MFE -10.55
Energy contribution -11.30
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.98
Structure conservation index 0.34
SVM decision value 0.30
SVM RNA-class probability 0.672514
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13974295 91 + 22224390
--CCCCCACCCCUCCCCCCCGCGAUUCACCCAUCGGCUUAGUUCGCAGUUUAGCGCGAAAAAAUUGAGGGG------AGGGGGGAUCAAAUAACGCAUC
--...((.(((((((((....((((......))))......(((((........)))))........))))------)))))))............... ( -32.50)
>DroSec_CAF1 7545 74 + 1
CCCCCCAAUC-----------UGAUUCCCCC--CGGCUUAGUUCGCAGUUUAGCGCGAA--ACUUGAGGG----------GGGGAUCAAAUAACGCAUC
..........-----------((((((((((--(..(....(((((........)))))--....).)))----------))))))))........... ( -28.70)
>DroSim_CAF1 7561 75 + 1
CCCCCCCAUC-----------UGAUUCCCCC--CGGCUUAGUUCGCAGUUUAGCGCGAAAAAAUUGAGGG-----------GGGAUCAAAUAACGCAUC
..........-----------((((((((((--(((.((..(((((........)))))..))))).)))-----------)))))))........... ( -25.40)
>DroYak_CAF1 7951 93 + 1
CCCCCCCAUUC--CCCCCCCUCCAUUCCCGC--CAGCUUAGUUCGCAGUUUAGCGCGAAAAAA--GAAGGGAGCGUGGGGGGGGUUUAAAUAACGCAUC
...........--(((((((..(.(((((..--...(((..(((((........)))))..))--)..))))).)..)))))))............... ( -35.80)
>consensus
CCCCCCCAUC___________CGAUUCCCCC__CGGCUUAGUUCGCAGUUUAGCGCGAAAAAAUUGAGGG__________GGGGAUCAAAUAACGCAUC
..(((((.....................(......).....(((((........)))))....................)))))............... (-10.55 = -11.30 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 13,974,295 – 13,974,386
Length 91
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 74.23
Mean single sequence MFE -35.97
Consensus MFE -13.05
Energy contribution -15.86
Covariance contribution 2.81
Combinations/Pair 1.16
Mean z-score -3.01
Structure conservation index 0.36
SVM decision value 0.60
SVM RNA-class probability 0.797074
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13974295 91 - 22224390
GAUGCGUUAUUUGAUCCCCCCU------CCCCUCAAUUUUUUCGCGCUAAACUGCGAACUAAGCCGAUGGGUGAAUCGCGGGGGGGAGGGGUGGGGG--
..............((((((((------((((((......((((((......))))))....((.(((......))))).))))))))))).)))..-- ( -38.80)
>DroSec_CAF1 7545 74 - 1
GAUGCGUUAUUUGAUCCCC----------CCCUCAAGU--UUCGCGCUAAACUGCGAACUAAGCCG--GGGGGAAUCA-----------GAUUGGGGGG
..(.(.(.(((((((((((----------((....(((--(.((((......)))))))).....)--))))).))))-----------))).).).). ( -26.80)
>DroSim_CAF1 7561 75 - 1
GAUGCGUUAUUUGAUCCC-----------CCCUCAAUUUUUUCGCGCUAAACUGCGAACUAAGCCG--GGGGGAAUCA-----------GAUGGGGGGG
..(.(.((((((((((((-----------(((....((..((((((......))))))..))...)--))))).))))-----------))))).).). ( -30.10)
>DroYak_CAF1 7951 93 - 1
GAUGCGUUAUUUAAACCCCCCCCACGCUCCCUUC--UUUUUUCGCGCUAAACUGCGAACUAAGCUG--GCGGGAAUGGAGGGGGGG--GAAUGGGGGGG
................((((((((..((((((((--((..(((.(((((....((.......))))--))).)))..)))))))))--)..)))))))) ( -48.20)
>consensus
GAUGCGUUAUUUGAUCCCC__________CCCUCAAUUUUUUCGCGCUAAACUGCGAACUAAGCCG__GGGGGAAUCA___________GAUGGGGGGG
....(.((((((...(((((((.......(((((......((((((......))))))..........)))))......)))))))..)))))).)... (-13.05 = -15.86 +   2.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:23 2006