Locus 8369

Sequence ID X_DroMel_CAF1
Location 20,786,119 – 20,786,209
Length 90
Max. P 0.919097
window13744 window13745

overview

Window 4

Location 20,786,119 – 20,786,209
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 88.51
Mean single sequence MFE -13.07
Consensus MFE -9.25
Energy contribution -8.88
Covariance contribution -0.38
Combinations/Pair 1.15
Mean z-score -2.52
Structure conservation index 0.71
SVM decision value 0.84
SVM RNA-class probability 0.863280
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20786119 90 + 22224390
UUUGUGCAAUUCCUCCCGUAUAUACAACAUACAAAAAAAAAACAUUUAACAAAAACCCCCAAUUGCGGAAUUGCAACCACAAAAAGCUGC
....(((((((((....((((.......)))).................(((..........))).)))))))))............... ( -12.30)
>DroSec_CAF1 114778 86 + 1
UUUGCGCAAUUCCUCCCAAAUACACAACAUA---AAA-AAAGCAUUUAACAAAAAGCCCCAAUUGCGGAAUUGAAACCGCAAAAAGCUGC
(((((((((((((................((---((.-......)))).......((.......)))))))))....))))))....... ( -12.30)
>DroSim_CAF1 50611 87 + 1
UUUGUGCAAUUCCUCCCGAAUACACAACAUA---AAAAAAAGCAUUUAACAAAAAGCCCCAAUUGCGGAAUUGAAACCGCAAAAAGCUGC
.(((((..((((.....)))).)))))....---....................(((.....((((((........))))))...))).. ( -13.90)
>DroEre_CAF1 37433 82 + 1
UUUGUGCAAUUCCUCCCAAAUAUACAAAA--------AAAAACAUUUAACAAAAAGCACCAAUUGCGGAAUUGCAACCGCAAAAAGCUGC
....(((((((((................--------.......(((....))).(((.....))))))))))))...(((......))) ( -13.80)
>consensus
UUUGUGCAAUUCCUCCCAAAUACACAACAUA___AAAAAAAACAUUUAACAAAAAGCCCCAAUUGCGGAAUUGAAACCGCAAAAAGCUGC
(((((((((((((.....................................................)))))))....))))))....... ( -9.25 =  -8.88 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 20,786,119 – 20,786,209
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 88.51
Mean single sequence MFE -21.36
Consensus MFE -17.96
Energy contribution -18.02
Covariance contribution 0.06
Combinations/Pair 1.08
Mean z-score -2.03
Structure conservation index 0.84
SVM decision value 1.13
SVM RNA-class probability 0.919097
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20786119 90 - 22224390
GCAGCUUUUUGUGGUUGCAAUUCCGCAAUUGGGGGUUUUUGUUAAAUGUUUUUUUUUUGUAUGUUGUAUAUACGGGAGGAAUUGCACAAA
((((((......))))))((((((.......)))))).........(((.((((((((((((((...))))))))))))))..))).... ( -21.00)
>DroSec_CAF1 114778 86 - 1
GCAGCUUUUUGCGGUUUCAAUUCCGCAAUUGGGGCUUUUUGUUAAAUGCUUU-UUU---UAUGUUGUGUAUUUGGGAGGAAUUGCGCAAA
((((((((((((((........))))))..)))))(((((.((((((((...-...---........)))))))).))))).)))..... ( -22.14)
>DroSim_CAF1 50611 87 - 1
GCAGCUUUUUGCGGUUUCAAUUCCGCAAUUGGGGCUUUUUGUUAAAUGCUUUUUUU---UAUGUUGUGUAUUCGGGAGGAAUUGCACAAA
(((.((..((((((........))))))..))(((.....)))...))).......---....((((((((((....)))..))))))). ( -21.90)
>DroEre_CAF1 37433 82 - 1
GCAGCUUUUUGCGGUUGCAAUUCCGCAAUUGGUGCUUUUUGUUAAAUGUUUUU--------UUUUGUAUAUUUGGGAGGAAUUGCACAAA
((((((..((((((........))))))..)))..(((((.((((((((....--------......)))))))).))))).)))..... ( -20.40)
>consensus
GCAGCUUUUUGCGGUUGCAAUUCCGCAAUUGGGGCUUUUUGUUAAAUGCUUUUUUU___UAUGUUGUAUAUUCGGGAGGAAUUGCACAAA
((((((..((((((........))))))..))...(((((.((((((((..................)))))))).)))))))))..... (-17.96 = -18.02 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:15 2006