Locus 2176

Sequence ID 2R_DroMel_CAF1
Location 8,056,498 – 8,056,618
Length 120
Max. P 0.996513
window3594 window3595

overview

Window 4

Location 8,056,498 – 8,056,600
Length 102
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 94.50
Mean single sequence MFE -16.68
Consensus MFE -16.18
Energy contribution -15.78
Covariance contribution -0.40
Combinations/Pair 1.10
Mean z-score -1.31
Structure conservation index 0.97
SVM decision value 1.22
SVM RNA-class probability 0.932663
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8056498 102 + 20766785
UCCCCUGCCCCUCAUCCAGAUCCCCAACCCUCGGCACAAGCUGUGAGCAUCGUCAUCGUCAUCUAACGCGGCUCUCAACAGCUUCACUUUAUUAUAUA----UAUC
.....((((.......................)))).(((((((((((..(((............)))..))))...)))))))..............----.... ( -16.20)
>DroSec_CAF1 21439 102 + 1
UCCCCUGCCCCGCGUUCAGAUCCCCAACCCUCGGCACAAGCUGUGAGCAUCGUCAUCGUCAUCUAACGCGACUCUCAACAGCUUCACUUUAUUAUAUA----UAUC
.....((((..(.(((.........))).)..)))).((((((((((..(((....(((......))))))..))).)))))))..............----.... ( -18.10)
>DroSim_CAF1 5351 102 + 1
UCCCCUGCCCCGCAUCCAGAUCCCCAACCCUCGGCACAAGCUGUGAGCAUCGUCAUCGUCAUCUAACGCGACUCUCAACAGCUUCACUUUAUUAUAUA----UAUC
.....((((.......................)))).((((((((((..(((....(((......))))))..))).)))))))..............----.... ( -16.80)
>DroEre_CAF1 19644 102 + 1
UCCCCUGCCCUUCAUGCAGAUCCCCAACCCUCGGCACAAGCUGUGAGCAUCGUCAUCGUCAUCUAACGCGGCUCUCAACAGCUUCACUUUAUUAUAUA----UAUC
....((((.......))))..................(((((((((((..(((............)))..))))...)))))))..............----.... ( -17.70)
>DroYak_CAF1 19606 106 + 1
ACCCCUGCCCUUCAUCCAGAUCCCCAACCCUCGGCACAAGUUGUGAGCAUCGUCAUCGUCAUCUAACGCGGCUCUCAACAGCUUCACUUUAUUAUAUAUGUAUACC
.....((((.......................))))...((((.((((..(((............)))..)))).))))........................... ( -14.60)
>consensus
UCCCCUGCCCCUCAUCCAGAUCCCCAACCCUCGGCACAAGCUGUGAGCAUCGUCAUCGUCAUCUAACGCGGCUCUCAACAGCUUCACUUUAUUAUAUA____UAUC
.....((((.......................)))).((((((((((..(((....(((......))))))..))).)))))))...................... (-16.18 = -15.78 +  -0.40)

alignment

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secondary structure

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dotplot

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Window 5

Location 8,056,524 – 8,056,618
Length 94
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 93.85
Mean single sequence MFE -26.43
Consensus MFE -24.95
Energy contribution -24.98
Covariance contribution 0.03
Combinations/Pair 1.14
Mean z-score -1.86
Structure conservation index 0.94
SVM decision value 2.71
SVM RNA-class probability 0.996513
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8056524 94 - 20766785
GCACGAAAUACACUAUGGGAUA----UAUAUAAUAAAGUGAAGCUGUUGAGAGCCGCGUUAGAUGACGAUGACGAUGCUCACAGCUUGUGCCGAGGGU
((((......((((.((..((.----...))..)).))))(((((((...((((..(((((........)))))..)))))))))))))))....... ( -27.40)
>DroSec_CAF1 21465 94 - 1
GCACGAAAUACACUAUGGGAUA----UAUAUAAUAAAGUGAAGCUGUUGAGAGUCGCGUUAGAUGACGAUGACGAUGCUCACAGCUUGUGCCGAGGGU
((((......((((.((..((.----...))..)).))))(((((((.(((.((((((((....)))).))))....))))))))))))))....... ( -29.00)
>DroSim_CAF1 5377 94 - 1
GCACGAAAUACACUAUGGGAUA----UAUAUAAUAAAGUGAAGCUGUUGAGAGUCGCGUUAGAUGACGAUGACGAUGCUCACAGCUUGUGCCGAGGGU
((((......((((.((..((.----...))..)).))))(((((((.(((.((((((((....)))).))))....))))))))))))))....... ( -29.00)
>DroEre_CAF1 19670 94 - 1
GCACGAAAUACACUAUGGGAUA----UAUAUAAUAAAGUGAAGCUGUUGAGAGCCGCGUUAGAUGACGAUGACGAUGCUCACAGCUUGUGCCGAGGGU
((((......((((.((..((.----...))..)).))))(((((((...((((..(((((........)))))..)))))))))))))))....... ( -27.40)
>DroYak_CAF1 19632 98 - 1
GCACGAAAUACACUAUGGGGUAUACAUAUAUAAUAAAGUGAAGCUGUUGAGAGCCGCGUUAGAUGACGAUGACGAUGCUCACAACUUGUGCCGAGGGU
((((((....((((.((..((((....))))..)).)))).....((((.((((..(((((........)))))..)))).))))))))))....... ( -27.80)
>DroAna_CAF1 21864 94 - 1
GCAGAAUAAACACUAUGGGAUA----UAUAUAAUAAAGUGAAGCUGUUGAGAGCCGCGUUAGAUGACGAUGACGAUGCUCACAGUUCGAGUCAAGGGA
...((.....((((.((..((.----...))..)).)))).((((((...((((..(((((........)))))..))))))))))....))...... ( -18.00)
>consensus
GCACGAAAUACACUAUGGGAUA____UAUAUAAUAAAGUGAAGCUGUUGAGAGCCGCGUUAGAUGACGAUGACGAUGCUCACAGCUUGUGCCGAGGGU
((((......((((.((..(((......)))..)).))))(((((((...((((..(((((........)))))..)))))))))))))))....... (-24.95 = -24.98 +   0.03)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:09 2006