Locus 2210

Sequence ID 2R_DroMel_CAF1
Location 8,139,904 – 8,140,015
Length 111
Max. P 0.914976
window3642 window3643

overview

Window 2

Location 8,139,904 – 8,140,015
Length 111
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 81.56
Mean single sequence MFE -33.50
Consensus MFE -22.63
Energy contribution -23.47
Covariance contribution 0.84
Combinations/Pair 1.14
Mean z-score -2.86
Structure conservation index 0.68
SVM decision value 1.10
SVM RNA-class probability 0.914976
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8139904 111 + 20766785
UGGUUUUUCAGAACAUAUUCAUGGCCAUGCAGUCAAUGAUCAAGGCCAUGGAUAUGCUGAAGAUUUCCUACGGUCAGGGAGAGCAUAGUGUAAGUGAAACAUUGAUCUAAU
.((.(((((((..(((((((((((((.((((.....))..)).))))))))))))))))))))...))...((((((......(((.......))).....)))))).... ( -34.60)
>DroVir_CAF1 37272 111 + 1
UGGUCUACCAAAACAUAUUCAUGGCCAUGCAGUCCAUGAUCAAGGCCAUGGACAUGCUCAAAAUAGAAUAUGGUGGUGCAGAGAUUCGUGUAAGCACUAAACAUAAUUAUG
.(((((((((...(((((((........((((((((((........))))))).)))........))))))).))))....))))).(((....))).............. ( -29.89)
>DroGri_CAF1 18944 111 + 1
UGGUGUUCCAAAACAUAUUCAUGGCCAUGCAGUCCAUGAUCAAAGCCAUGGAUAUGCUCAAAAUAGAAUAUGGUGGUCCAGAGAUUCAAGUAAGCUCUACAUGUAUUUAAG
(((....(((...(((((((........((((((((((........))))))).)))........))))))).))).))).((((.((.(((.....))).)).))))... ( -27.09)
>DroSim_CAF1 17097 111 + 1
UGGUUUUUCAGAACAUAUUCAUGGCCAUGCAGUCAAUGAUCAAGGCCAUGGAUAUGCUGAAGAUUUCCUAUGGUCAGGGAGAGCAUAGUGUAAGUGAAUCAUUUACCCAAU
(((.(((((((..(((((((((((((.((((.....))..)).))))))))))))))))))))....(((((.((.....)).))))).(((((((...)))))))))).. ( -38.40)
>DroEre_CAF1 17112 111 + 1
UGGUUUUUCAGAACAUAUUCAUGGCCAUGCAGUCAAUGAUCAAGGCCAUGGAUAUGCUGAAGAUUUCCUAUGGUCAGGGAGAACAUAGUGUAAGUGAAUCACGGACCUCAU
.((.(((((((..(((((((((((((.((((.....))..)).))))))))))))))))))))...))...((((...((...(((.......)))..))...)))).... ( -36.50)
>DroYak_CAF1 26849 111 + 1
UGGUAUUUCAGAACAUAUUCAUGGCCAUGCAGUCAAUGAUCAAGGCCAUGGAUAUGCUGAAGAUUUCCUAUGGUCAGGGAGAGCAUAGUGUAAGUGAAUCCGGAAUCUAAU
.......((((..(((((((((((((.((((.....))..)).)))))))))))))))))((((((((((((.((.....)).))))).......(....))))))))... ( -34.50)
>consensus
UGGUUUUUCAGAACAUAUUCAUGGCCAUGCAGUCAAUGAUCAAGGCCAUGGAUAUGCUGAAGAUUUCCUAUGGUCAGGGAGAGCAUAGUGUAAGUGAAACAUGUAUCUAAU
.....((((((..(((((((((((((.((((.....))..)).))))))))))))))))))).((((((......)))))).............................. (-22.63 = -23.47 +   0.84)

alignment

Postscript

secondary structure

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dotplot

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Window 3

Location 8,139,904 – 8,140,015
Length 111
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 81.56
Mean single sequence MFE -28.71
Consensus MFE -18.82
Energy contribution -18.10
Covariance contribution -0.72
Combinations/Pair 1.22
Mean z-score -2.66
Structure conservation index 0.66
SVM decision value 0.94
SVM RNA-class probability 0.885780
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8139904 111 - 20766785
AUUAGAUCAAUGUUUCACUUACACUAUGCUCUCCCUGACCGUAGGAAAUCUUCAGCAUAUCCAUGGCCUUGAUCAUUGACUGCAUGGCCAUGAAUAUGUUCUGAAAAACCA
.(((((.................(((((.((.....)).)))))..........((((((.(((((((.((...........)).))))))).)))))))))))....... ( -26.70)
>DroVir_CAF1 37272 111 - 1
CAUAAUUAUGUUUAGUGCUUACACGAAUCUCUGCACCACCAUAUUCUAUUUUGAGCAUGUCCAUGGCCUUGAUCAUGGACUGCAUGGCCAUGAAUAUGUUUUGGUAGACCA
......((((....((((..............))))...)))).((((((..((((((((.(((((((.((...........)).))))))).)))))))).))))))... ( -30.04)
>DroGri_CAF1 18944 111 - 1
CUUAAAUACAUGUAGAGCUUACUUGAAUCUCUGGACCACCAUAUUCUAUUUUGAGCAUAUCCAUGGCUUUGAUCAUGGACUGCAUGGCCAUGAAUAUGUUUUGGAACACCA
........(((((((.(((((...((((...(((....))).)))).....)))))...(((((((......)))))))))))))).(((...........)))....... ( -26.00)
>DroSim_CAF1 17097 111 - 1
AUUGGGUAAAUGAUUCACUUACACUAUGCUCUCCCUGACCAUAGGAAAUCUUCAGCAUAUCCAUGGCCUUGAUCAUUGACUGCAUGGCCAUGAAUAUGUUCUGAAAAACCA
....(((................(((((.((.....)).)))))......((((((((((.(((((((.((...........)).))))))).)))))..)))))..))). ( -29.80)
>DroEre_CAF1 17112 111 - 1
AUGAGGUCCGUGAUUCACUUACACUAUGUUCUCCCUGACCAUAGGAAAUCUUCAGCAUAUCCAUGGCCUUGAUCAUUGACUGCAUGGCCAUGAAUAUGUUCUGAAAAACCA
..((..(((((((.....))))..((((.((.....)).)))))))..))((((((((((.(((((((.((...........)).))))))).)))))..)))))...... ( -30.70)
>DroYak_CAF1 26849 111 - 1
AUUAGAUUCCGGAUUCACUUACACUAUGCUCUCCCUGACCAUAGGAAAUCUUCAGCAUAUCCAUGGCCUUGAUCAUUGACUGCAUGGCCAUGAAUAUGUUCUGAAAUACCA
..........((...........(((((.((.....)).)))))......((((((((((.(((((((.((...........)).))))))).)))))..)))))...)). ( -29.00)
>consensus
AUUAGAUACAUGAUUCACUUACACUAUGCUCUCCCUGACCAUAGGAAAUCUUCAGCAUAUCCAUGGCCUUGAUCAUUGACUGCAUGGCCAUGAAUAUGUUCUGAAAAACCA
................................................((...(((((((.(((((((.((...........)).))))))).)))))))..))....... (-18.82 = -18.10 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:55 2006