Locus 1214

Sequence ID 3L_DroMel_CAF1
Location 3,461,681 – 3,461,781
Length 100
Max. P 0.808986
window1908 window1909

overview

Window 8

Location 3,461,681 – 3,461,781
Length 100
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 92.67
Mean single sequence MFE -14.05
Consensus MFE -11.96
Energy contribution -12.03
Covariance contribution 0.06
Combinations/Pair 1.04
Mean z-score -1.46
Structure conservation index 0.85
SVM decision value 0.05
SVM RNA-class probability 0.558760
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3461681 100 + 23771897
UGGCCAGGGAAAAUUCAAUCAACGUUUUGUUUUUAAUCGAUUCCUAUUGCAAUUCCCAGCUUUUCUCUCCUUUUCUUGGCUUUUCCCUUAGCUUAUUUCU
.(((.((((((((..(((.....(..(((........)))..).....((........))...............)))..))))))))..)))....... ( -14.50)
>DroSec_CAF1 9010 99 + 1
UGGCCAGGGAAAAUUCAAUCAACGUUUUGUUUUUAAUCGAUUCCUAUUGCAAUCCCCAGUUUUCCCC-CCCUUUCUUGGCUUUUCCCUUAGCUUACUUCU
.(((((((((((((((((........))).........((((.(....).))))...))))))))).-........)))))................... ( -14.40)
>DroSim_CAF1 9031 100 + 1
UGGCCAGGGAAAAUUCAAUCAACGUUUUGUUUUUAAUCGAUUCCUAUUGCAAUCCCCAGCUUUCCCCUCCCUUUCUUGGCUUUUCCCUUAGCUUACUUCU
.(((.((((((((..(((.....(..(((........)))..).....((........))...............)))..))))))))..)))....... ( -14.50)
>DroYak_CAF1 9259 100 + 1
UGGCCAGGGAAAAUUCAAUCAACGUUUUGUUUUUAAUCGAUUCCUAUUGCAAUCCCCUCUUUACCCCAGCUUUUCUUCGCUUUUCCCUUAGCUUUUUUCU
.(((.((((((((.........................((((.(....).))))..............((........))))))))))..)))....... ( -12.80)
>consensus
UGGCCAGGGAAAAUUCAAUCAACGUUUUGUUUUUAAUCGAUUCCUAUUGCAAUCCCCAGCUUUCCCCUCCCUUUCUUGGCUUUUCCCUUAGCUUACUUCU
.(((.((((((((.((((..(((.....))).......((((.(....).)))).....................)))).))))))))..)))....... (-11.96 = -12.03 +   0.06)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 9

Location 3,461,681 – 3,461,781
Length 100
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 92.67
Mean single sequence MFE -20.40
Consensus MFE -16.09
Energy contribution -16.46
Covariance contribution 0.37
Combinations/Pair 1.04
Mean z-score -2.20
Structure conservation index 0.79
SVM decision value 0.64
SVM RNA-class probability 0.808986
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3461681 100 - 23771897
AGAAAUAAGCUAAGGGAAAAGCCAAGAAAAGGAGAGAAAAGCUGGGAAUUGCAAUAGGAAUCGAUUAAAAACAAAACGUUGAUUGAAUUUUCCCUGGCCA
........((((.(((((((....................((........))........((((((((..........)))))))).))))))))))).. ( -19.00)
>DroSec_CAF1 9010 99 - 1
AGAAGUAAGCUAAGGGAAAAGCCAAGAAAGGG-GGGGAAAACUGGGGAUUGCAAUAGGAAUCGAUUAAAAACAAAACGUUGAUUGAAUUUUCCCUGGCCA
........((((.(((((((..(((..((.(.-((......))...((((.(....).))))..............).))..)))..))))))))))).. ( -21.20)
>DroSim_CAF1 9031 100 - 1
AGAAGUAAGCUAAGGGAAAAGCCAAGAAAGGGAGGGGAAAGCUGGGGAUUGCAAUAGGAAUCGAUUAAAAACAAAACGUUGAUUGAAUUUUCCCUGGCCA
........(((........))).......((..(((((((((........))........((((((((..........))))))))..)))))))..)). ( -20.20)
>DroYak_CAF1 9259 100 - 1
AGAAAAAAGCUAAGGGAAAAGCGAAGAAAAGCUGGGGUAAAGAGGGGAUUGCAAUAGGAAUCGAUUAAAAACAAAACGUUGAUUGAAUUUUCCCUGGCCA
........((((.(((((((...........(((..((((........))))..)))...((((((((..........)))))))).))))))))))).. ( -21.20)
>consensus
AGAAAUAAGCUAAGGGAAAAGCCAAGAAAAGGAGGGGAAAACUGGGGAUUGCAAUAGGAAUCGAUUAAAAACAAAACGUUGAUUGAAUUUUCCCUGGCCA
........((((.(((((((((.......((..........)).......))........((((((((..........)))))))).))))))))))).. (-16.09 = -16.46 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:18 2006