Locus 6033

Sequence ID 3R_DroMel_CAF1
Location 15,900,912 – 15,901,002
Length 90
Max. P 0.997192
window9842 window9843

overview

Window 2

Location 15,900,912 – 15,901,002
Length 90
Sequences 6
Columns 90
Reading direction forward
Mean pairwise identity 98.52
Mean single sequence MFE -16.47
Consensus MFE -16.08
Energy contribution -16.25
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -0.96
Structure conservation index 0.98
SVM decision value 0.88
SVM RNA-class probability 0.873358
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15900912 90 + 27905053
AAUGCAGCUGCCAACAUUGUCAACUAAAACUCGAUGCUAACAAGCAGAAAAUGGCAGGCAACUACAUACCAAGUUGAGCUCGUAAAACUG
..(((((((((((.....(((...........)))(((....)))......))))...(((((........))))))))).)))...... ( -17.20)
>DroSec_CAF1 8203 90 + 1
AAUGCAGCUGCCAACAUUGUCAACUAAAACUCGAUGCUAACAAGCAGAAAAUGGCAGGCAACUACAUACCAAGUUGAGCUCGUAAAACUG
..(((((((((((.....(((...........)))(((....)))......))))...(((((........))))))))).)))...... ( -17.20)
>DroSim_CAF1 8252 90 + 1
AAUGCAGCUGCCAACAUUGUCAACUAAAACUCGAUGCUAACAAGCAGAAAAUGGCAGGCAACUACAUACCAAGUUGAGCUCGUAAAACUG
..(((((((((((.....(((...........)))(((....)))......))))...(((((........))))))))).)))...... ( -17.20)
>DroEre_CAF1 7834 90 + 1
AAUGCAGCUGCCAACAUUGUCAACUAAAACUCGAUGCUAACAAGCAGAAAAUGGCAGGCAACUACAUACCAAGUUGGGCUCGUAAAACUG
..((((((..(((((.(((...............((((....))))....(((..((....)).)))..))))))))))).)))...... ( -18.00)
>DroYak_CAF1 9074 90 + 1
AAUGCCGCUGCCAACAUUGUCAACUAAAACUCGAUGCUAACAAGCAGAAAAUGGCAGGCAACUACAUACCAAGUUGAGCUCGUAAAACUG
...((..((((((.....(((...........)))(((....)))......)))))).(((((........))))).))........... ( -16.20)
>DroAna_CAF1 2495 90 + 1
AAUGCAGCUGCCAACAUUGUCAACUAAAACUCGAUGCUAACAAGCAGAAAAUGGCAGACAACUACAUACCAACUUGAGCUCGUAAAACUG
..(((((((.......(((((..(((........((((....)))).....)))..)))))...((........)))))).)))...... ( -13.02)
>consensus
AAUGCAGCUGCCAACAUUGUCAACUAAAACUCGAUGCUAACAAGCAGAAAAUGGCAGGCAACUACAUACCAAGUUGAGCUCGUAAAACUG
...((..((((((.....(((...........)))(((....)))......)))))).(((((........))))).))........... (-16.08 = -16.25 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 15,900,912 – 15,901,002
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 98.52
Mean single sequence MFE -24.65
Consensus MFE -23.60
Energy contribution -23.80
Covariance contribution 0.20
Combinations/Pair 1.04
Mean z-score -1.80
Structure conservation index 0.96
SVM decision value 2.81
SVM RNA-class probability 0.997192
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15900912 90 - 27905053
CAGUUUUACGAGCUCAACUUGGUAUGUAGUUGCCUGCCAUUUUCUGCUUGUUAGCAUCGAGUUUUAGUUGACAAUGUUGGCAGCUGCAUU
........((((.....))))..(((((((((((...((((.((.(((....(((.....)))..))).)).))))..))))))))))). ( -25.30)
>DroSec_CAF1 8203 90 - 1
CAGUUUUACGAGCUCAACUUGGUAUGUAGUUGCCUGCCAUUUUCUGCUUGUUAGCAUCGAGUUUUAGUUGACAAUGUUGGCAGCUGCAUU
........((((.....))))..(((((((((((...((((.((.(((....(((.....)))..))).)).))))..))))))))))). ( -25.30)
>DroSim_CAF1 8252 90 - 1
CAGUUUUACGAGCUCAACUUGGUAUGUAGUUGCCUGCCAUUUUCUGCUUGUUAGCAUCGAGUUUUAGUUGACAAUGUUGGCAGCUGCAUU
........((((.....))))..(((((((((((...((((.((.(((....(((.....)))..))).)).))))..))))))))))). ( -25.30)
>DroEre_CAF1 7834 90 - 1
CAGUUUUACGAGCCCAACUUGGUAUGUAGUUGCCUGCCAUUUUCUGCUUGUUAGCAUCGAGUUUUAGUUGACAAUGUUGGCAGCUGCAUU
........((((.....))))..(((((((((((...((((.((.(((....(((.....)))..))).)).))))..))))))))))). ( -25.30)
>DroYak_CAF1 9074 90 - 1
CAGUUUUACGAGCUCAACUUGGUAUGUAGUUGCCUGCCAUUUUCUGCUUGUUAGCAUCGAGUUUUAGUUGACAAUGUUGGCAGCGGCAUU
......((((.(((......))).))))(((((.(((((......((((((((((...........)))))))).))))))))))))... ( -22.70)
>DroAna_CAF1 2495 90 - 1
CAGUUUUACGAGCUCAAGUUGGUAUGUAGUUGUCUGCCAUUUUCUGCUUGUUAGCAUCGAGUUUUAGUUGACAAUGUUGGCAGCUGCAUU
......(((.(((....))).)))((((((((((...((((.((.(((....(((.....)))..))).)).))))..)))))))))).. ( -24.00)
>consensus
CAGUUUUACGAGCUCAACUUGGUAUGUAGUUGCCUGCCAUUUUCUGCUUGUUAGCAUCGAGUUUUAGUUGACAAUGUUGGCAGCUGCAUU
........((((.....))))..(((((((((((...((((.((.(((....(((.....)))..))).)).))))..))))))))))). (-23.60 = -23.80 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:56 2006