Locus 6948

Sequence ID 2L_DroMel_CAF1
Location 19,318,058 – 19,318,216
Length 158
Max. P 0.916728
window11080 window11081

overview

Window 0

Location 19,318,058 – 19,318,176
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.48
Mean single sequence MFE -24.40
Consensus MFE -21.60
Energy contribution -21.60
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.53
Structure conservation index 0.89
SVM decision value 1.11
SVM RNA-class probability 0.916728
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19318058 118 + 22407834
CUCUGCAGGUAGCCAAAAUCCCGAUCCCCAACUCAAAAUACAAAAUACAAAAUACAGGCCCA--AUCGAGUCCGGCAAAAAGCCAUUGGGCGGCUCCAGACUGAAUUAUUAAUUCCUUCG
.......((.((((........((........)).......................(((((--((.(....)(((.....)))))))))))))))).((..((((.....))))..)). ( -24.30)
>DroSec_CAF1 10616 120 + 1
CUCCGCAGGUAGCCAAAAUCCCGAUCCCCAACUCAAAAUACAAAAUACAAAAUACAGGCCCAAAAUCGAGUCCGGCAAAAAGCCAUUGGGCGGCUCCAGACUGAAUUAUUAAUUCCUUCG
.......((.((((........((........)).......................((((((....(....)(((.....))).)))))))))))).((..((((.....))))..)). ( -23.90)
>DroSim_CAF1 12473 120 + 1
CUCCGCAGGUAGCCAAAAUCCCGAUCCCCAAAUCAAAAUACAAAAUACAAAAUACAGGCCCAAAAUCGAGUCCGGCAAAAAGCCAUUGGGCGGCUCCAGACUGAAUUAUUAAUUCCUUCG
.......((.((((........(((......))).......................((((((....(....)(((.....))).)))))))))))).((..((((.....))))..)). ( -25.10)
>DroEre_CAF1 9841 117 + 1
CUCUGCAGGUAGCCAAAAUCCCGAUCCCCAACUCAAAAUACAAAAUACAAAAUACAGGCCCA--AUCG-GCCCGGCAAAAAGCCAUUGGGCGGCUCCAGACUGAAUUAUUAAUUCCUUCG
.......((.((((.....((((((...............................((((..--...)-))).(((.....))))))))).)))))).((..((((.....))))..)). ( -26.80)
>DroYak_CAF1 10886 115 + 1
CUCUGCAGGUAGCCAAAAUC-CGAUCCCCAACUCAAAAUACA--AUCCCAAAUACAGGCCCU--AUCGAGUCCGGCAAAAAGCCAUUGGGCGGCUCCAGACUGAAUUAUUAAUUCCUUCG
.......((.((((......-.((........))........--..(((((.....(((.(.--...).))).(((.....))).))))).)))))).((..((((.....))))..)). ( -21.90)
>consensus
CUCUGCAGGUAGCCAAAAUCCCGAUCCCCAACUCAAAAUACAAAAUACAAAAUACAGGCCCA__AUCGAGUCCGGCAAAAAGCCAUUGGGCGGCUCCAGACUGAAUUAUUAAUUCCUUCG
.......((.((((........((........)).......................((((......(....)(((.....)))...)))))))))).((..((((.....))))..)). (-21.60 = -21.60 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,318,098 – 19,318,216
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.98
Mean single sequence MFE -32.90
Consensus MFE -28.90
Energy contribution -28.94
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.20
Structure conservation index 0.88
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19318098 118 + 22407834
CAAAAUACAAAAUACAGGCCCA--AUCGAGUCCGGCAAAAAGCCAUUGGGCGGCUCCAGACUGAAUUAUUAAUUCCUUCGGCCCGCUUGGCCGUCUGCACUGCAGGUGAUUUUGCUAACA
((((((.((.....((((((((--((.(....)(((.....)))))))))).....(((((.((((.....))))....((((.....)))))))))..)))....))))))))...... ( -33.00)
>DroSec_CAF1 10656 120 + 1
CAAAAUACAAAAUACAGGCCCAAAAUCGAGUCCGGCAAAAAGCCAUUGGGCGGCUCCAGACUGAAUUAUUAAUUCCUUCGGCCCGCUUGGCCGUCUGCACUGCAGGUGAUUUUGCUAACA
((((((.((.....(((((((((....(....)(((.....))).)))))).....(((((.((((.....))))....((((.....)))))))))..)))....))))))))...... ( -32.60)
>DroSim_CAF1 12513 120 + 1
CAAAAUACAAAAUACAGGCCCAAAAUCGAGUCCGGCAAAAAGCCAUUGGGCGGCUCCAGACUGAAUUAUUAAUUCCUUCGGCCCGCUUGGCCGUCUGCACUGCAGGUGAUUUUGCUAACA
((((((.((.....(((((((((....(....)(((.....))).)))))).....(((((.((((.....))))....((((.....)))))))))..)))....))))))))...... ( -32.60)
>DroEre_CAF1 9881 117 + 1
CAAAAUACAAAAUACAGGCCCA--AUCG-GCCCGGCAAAAAGCCAUUGGGCGGCUCCAGACUGAAUUAUUAAUUCCUUCGGCCCGCUUGGCCGUCUGCACUGCAGGUGAUUUUGCUAACA
................((((..--...)-))).(((((((.((((.((((((....).((..((((.....))))..)).)))))..))))(..((((...))))..).))))))).... ( -35.20)
>DroYak_CAF1 10925 115 + 1
CA--AUCCCAAAUACAGGCCCU--AUCGAGUCCGGCAAAAAGCCAUUGGGCGGCUCCAGACUGAAUUAUUAAUUCCUUCGGC-CGUUUGGCCGUCUGCACUGCAGGUGAUUUUGCUAACA
.(--(((((........((((.--...(....)(((.....)))...)))).((..(((((.((((.....))))....(((-(....)))))))))....)).)).))))......... ( -31.10)
>consensus
CAAAAUACAAAAUACAGGCCCA__AUCGAGUCCGGCAAAAAGCCAUUGGGCGGCUCCAGACUGAAUUAUUAAUUCCUUCGGCCCGCUUGGCCGUCUGCACUGCAGGUGAUUUUGCUAACA
................(((.(......).))).(((((((.(((.....((((...(((((.((((.....))))....((((.....)))))))))..)))).)))..))))))).... (-28.90 = -28.94 +   0.04)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:40 2006