Locus 2946

Sequence ID 3L_DroMel_CAF1
Location 8,412,871 – 8,412,980
Length 109
Max. P 0.548798
window4608 window4609

overview

Window 8

Location 8,412,871 – 8,412,980
Length 109
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 91.81
Mean single sequence MFE -21.56
Consensus MFE -20.08
Energy contribution -19.64
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -1.47
Structure conservation index 0.93
SVM decision value 0.03
SVM RNA-class probability 0.548798
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8412871 109 + 23771897
UAUUCAAAAUAUUGUGGUUUUACGAUGAAAAUGCACACCAGCUCUGCUGCCGUUGGUGUUU-UUAUUU-------UUGUUCGAGUUUUGAAUUAUUAUUGAAUUAUUGCAUUUUGUU
.........(((((((....)))))))(((((((((((((((.........)))))))).(-(((...-------..((((((...))))))......)))).....)))))))... ( -21.50)
>DroSim_CAF1 1372 108 + 1
UAUUCAAAAUAUUGUGGUUUUACGAUGAAAAUGCACACCAGC--UGCUGCCGUUGGUGUUUUUUGUUU-------UUGUUCGAGUUUUGAAUUAUUAUUGAAUUAUUGCAUUUUGUU
.........(((((((....)))))))(((((((((((((((--.......)))))))).........-------..((((((..............))))))....)))))))... ( -21.84)
>DroYak_CAF1 1388 115 + 1
UAUUCAAAAUAUUGUGGUUUCACGAUGAAAAUGCAUACCAGC--UGCUGCCGUUGGUGUUUUUUGUUUUUUUAUUUUUUUCGAGUUUUGAAUUAUUAUUGAAUUAUUGCAUUUUGUU
.........(((((((....)))))))(((((((((((((((--.......))))))))...................(((((..............))))).....)))))))... ( -21.34)
>consensus
UAUUCAAAAUAUUGUGGUUUUACGAUGAAAAUGCACACCAGC__UGCUGCCGUUGGUGUUUUUUGUUU_______UUGUUCGAGUUUUGAAUUAUUAUUGAAUUAUUGCAUUUUGUU
.........(((((((....)))))))(((((((((((((((.........))))))))...................(((((..............))))).....)))))))... (-20.08 = -19.64 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 8,412,871 – 8,412,980
Length 109
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 91.81
Mean single sequence MFE -13.80
Consensus MFE -11.73
Energy contribution -12.07
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.85
SVM decision value -0.03
SVM RNA-class probability 0.520339
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8412871 109 - 23771897
AACAAAAUGCAAUAAUUCAAUAAUAAUUCAAAACUCGAACAA-------AAAUAA-AAACACCAACGGCAGCAGAGCUGGUGUGCAUUUUCAUCGUAAAACCACAAUAUUUUGAAUA
..............((((((...............(((...(-------((((..-..((((((...((......))))))))..)))))..)))...............)))))). ( -14.21)
>DroSim_CAF1 1372 108 - 1
AACAAAAUGCAAUAAUUCAAUAAUAAUUCAAAACUCGAACAA-------AAACAAAAAACACCAACGGCAGCA--GCUGGUGUGCAUUUUCAUCGUAAAACCACAAUAUUUUGAAUA
...(((((((................(((.......)))...-------.........((((((...((....--))))))))))))))).............(((....))).... ( -13.60)
>DroYak_CAF1 1388 115 - 1
AACAAAAUGCAAUAAUUCAAUAAUAAUUCAAAACUCGAAAAAAAUAAAAAAACAAAAAACACCAACGGCAGCA--GCUGGUAUGCAUUUUCAUCGUGAAACCACAAUAUUUUGAAUA
...((((((((...............(((.......)))..........................((((....--))))...))))))))....(((....)))............. ( -13.60)
>consensus
AACAAAAUGCAAUAAUUCAAUAAUAAUUCAAAACUCGAACAA_______AAACAAAAAACACCAACGGCAGCA__GCUGGUGUGCAUUUUCAUCGUAAAACCACAAUAUUUUGAAUA
...(((((((................(((.......)))...................((((((...((......))))))))))))))).............(((....))).... (-11.73 = -12.07 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:52 2006