Locus 8564

Sequence ID 3L_DroMel_CAF1
Location 22,348,796 – 22,348,895
Length 99
Max. P 0.975026
window14036 window14037

overview

Window 6

Location 22,348,796 – 22,348,895
Length 99
Sequences 3
Columns 99
Reading direction forward
Mean pairwise identity 83.16
Mean single sequence MFE -22.47
Consensus MFE -14.93
Energy contribution -17.27
Covariance contribution 2.33
Combinations/Pair 1.00
Mean z-score -2.49
Structure conservation index 0.66
SVM decision value 0.88
SVM RNA-class probability 0.872969
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22348796 99 + 23771897
CUUCAAAGCUUGUUUUUGCUUUUCGCACCAGGACAAAUUCGAUUUGUCUUUUCUCGAGAUUUCUCUCAAGUGAACGUCCUCUUCUCCCAGGACUCUCCG
....(((((........)))))((((...(((((((((...))))))))).....((((....))))..))))..(((((........)))))...... ( -23.30)
>DroSim_CAF1 13216 99 + 1
CUUCAAAGCUUGUUUUCGCUUUUCGCACCAGGGAAAAUUCGAUUUGUCUUUUCUCGAGAUUUCUCUCAAGUGAACGUCCUCUUCUCCCAGGACUCUCCG
....(((((........)))))((((...(((((((.(((((...........))))).)))))))...))))..(((((........)))))...... ( -22.80)
>DroEre_CAF1 16734 83 + 1
GUUUAAAGCAUGUUUCUGCUUUUCGCACCAGGGAAAAUUCGAUUUGUCUUCUCUCGAGAUUUCUCUCGAGUGAACGUCCUCUU----------------
((..((((((......))))))..))....((((......((....))(((.(((((((....))))))).)))..))))...---------------- ( -21.30)
>consensus
CUUCAAAGCUUGUUUUUGCUUUUCGCACCAGGGAAAAUUCGAUUUGUCUUUUCUCGAGAUUUCUCUCAAGUGAACGUCCUCUUCUCCCAGGACUCUCCG
....(((((........)))))((((...(((((((.(((((...........))))).)))))))...))))..(((((........)))))...... (-14.93 = -17.27 +   2.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 22,348,796 – 22,348,895
Length 99
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 83.16
Mean single sequence MFE -26.47
Consensus MFE -18.95
Energy contribution -18.73
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -3.00
Structure conservation index 0.72
SVM decision value 1.74
SVM RNA-class probability 0.975026
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22348796 99 - 23771897
CGGAGAGUCCUGGGAGAAGAGGACGUUCACUUGAGAGAAAUCUCGAGAAAAGACAAAUCGAAUUUGUCCUGGUGCGAAAAGCAAAAACAAGCUUUGAAG
..(((.(((((........))))).))).(((((((....)))))))..........((((((((((.....(((.....)))...))))).))))).. ( -28.00)
>DroSim_CAF1 13216 99 - 1
CGGAGAGUCCUGGGAGAAGAGGACGUUCACUUGAGAGAAAUCUCGAGAAAAGACAAAUCGAAUUUUCCCUGGUGCGAAAAGCGAAAACAAGCUUUGAAG
......((((.(((((((..((..(((..(((((((....)))))))....)))...))...))))))).)).))..(((((........))))).... ( -27.90)
>DroEre_CAF1 16734 83 - 1
----------------AAGAGGACGUUCACUCGAGAGAAAUCUCGAGAGAAGACAAAUCGAAUUUUCCCUGGUGCGAAAAGCAGAAACAUGCUUUAAAC
----------------.((.(((.((((.(((((((....)))))))....((....))))))..))))).......((((((......)))))).... ( -23.50)
>consensus
CGGAGAGUCCUGGGAGAAGAGGACGUUCACUUGAGAGAAAUCUCGAGAAAAGACAAAUCGAAUUUUCCCUGGUGCGAAAAGCAAAAACAAGCUUUGAAG
...................(((..((((.(((((((....)))))))....((....))))))....))).......(((((........))))).... (-18.95 = -18.73 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:19:10 2006