Locus 7867

Sequence ID X_DroMel_CAF1
Location 19,597,303 – 19,597,483
Length 180
Max. P 0.844466
window12906 window12907 window12908

overview

Window 6

Location 19,597,303 – 19,597,403
Length 100
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.80
Mean single sequence MFE -32.93
Consensus MFE -27.61
Energy contribution -27.05
Covariance contribution -0.56
Combinations/Pair 1.11
Mean z-score -1.39
Structure conservation index 0.84
SVM decision value -0.02
SVM RNA-class probability 0.521387
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19597303 100 + 22224390
GUC--------------------CGUAUGUGUCCGUCGUCCUGUACCCAUGUGUUUGUAUAUUUAAACGAAAUUAAAUGUCCAAAGGGGCAGGGAAACGGAAUUUAAGGCUUGCUCGACC
(((--------------------.(((.((.(((((..((((((.(((.....((((.((((((((......)))))))).)))))))))))))..))))).......)).)))..))). ( -28.50)
>DroSec_CAF1 3653 120 + 1
GUCCGUGUGUGUCCGUGUGCGUCCGUAUGUGUCCGUCGUCCUGUGCCCAUGUGUUUGUAUAUUUAAACGAAAUUAAAUAUCCAAAGGGGCAGGGAAACGGAAUUUAAGGCUUGCUCGCCC
...((.(((.(((((..(((....)))..))(((((..((((((.(((.....((((.((((((((......)))))))).)))))))))))))..)))))......))).))).))... ( -35.40)
>DroSim_CAF1 3616 100 + 1
GUC--------------------CGUAUGUGUCCGUCGUCCUGUGCCCAUGUGUUUGUAUAUUUAAACGAAAUUAAAUAUCCAAAGGGGCAGGGAUACGGAAUUUAAGGCUUGCUCGACC
(((--------------------.(((.((.(((((.(((((.(((((.....((((.((((((((......)))))))).)))).))))))))))))))).......)).)))..))). ( -30.00)
>DroEre_CAF1 3891 109 + 1
-----------UCCGUGUGUGUCCGUAUGUGUCCGUCGUCCUGCUCCCAUGUGUUUGUAUAUUUAAACGAAAUUAAAUAUCCAAAGGGGCAGGGAGGCGGAAUUUAAGGCUUGCUCGACC
-----------..((.(((.(.((.......((((((..((((((((......((((.((((((((......)))))))).))))))))))))..))))))......))).))).))... ( -37.82)
>consensus
GUC____________________CGUAUGUGUCCGUCGUCCUGUGCCCAUGUGUUUGUAUAUUUAAACGAAAUUAAAUAUCCAAAGGGGCAGGGAAACGGAAUUUAAGGCUUGCUCGACC
........................((.....(((((..((((((.(((.....((((.((((((((......)))))))).)))))))))))))..))))).......)).......... (-27.61 = -27.05 +  -0.56)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,597,323 – 19,597,443
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.61
Mean single sequence MFE -34.08
Consensus MFE -28.34
Energy contribution -28.27
Covariance contribution -0.06
Combinations/Pair 1.08
Mean z-score -2.08
Structure conservation index 0.83
SVM decision value 0.76
SVM RNA-class probability 0.844466
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19597323 120 + 22224390
CUGUACCCAUGUGUUUGUAUAUUUAAACGAAAUUAAAUGUCCAAAGGGGCAGGGAAACGGAAUUUAAGGCUUGCUCGACCGAAUAUAGGAUAAGCCAGGAAUUUAAGCCAACCUAAGGCC
((((.(((.....((((.((((((((......)))))))).)))))))))))(....).((((((..((((((..(...........)..))))))..))))))..(((.......))). ( -30.10)
>DroSec_CAF1 3693 120 + 1
CUGUGCCCAUGUGUUUGUAUAUUUAAACGAAAUUAAAUAUCCAAAGGGGCAGGGAAACGGAAUUUAAGGCUUGCUCGCCCAAAAGUAGGAUAAGCCAGGAAUUUAAGCCGACCUAAGGCC
((.(((((.....((((.((((((((......)))))))).)))).))))).)).....((((((..((((((((..(......)..)).))))))..))))))..(((.......))). ( -35.00)
>DroSim_CAF1 3636 120 + 1
CUGUGCCCAUGUGUUUGUAUAUUUAAACGAAAUUAAAUAUCCAAAGGGGCAGGGAUACGGAAUUUAAGGCUUGCUCGACCGAAAGUAGGAUAAGCCAGGAAUUUAAGCCGACCCAAGGCC
((.(((((.....((((.((((((((......)))))))).)))).))))).)).....((((((..((((((..(...(....)..)..))))))..))))))..(((.......))). ( -36.40)
>DroEre_CAF1 3920 120 + 1
CUGCUCCCAUGUGUUUGUAUAUUUAAACGAAAUUAAAUAUCCAAAGGGGCAGGGAGGCGGAAUUUAAGGCUUGCUCGACCGAAAGUAGGAUAAGCCAGGAAUUUAAGCAGACCUAAGGUU
(((((((......((((.((((((((......)))))))).)))))))))))((..((.((((((..((((((..(...(....)..)..))))))..))))))..))...))....... ( -34.80)
>consensus
CUGUGCCCAUGUGUUUGUAUAUUUAAACGAAAUUAAAUAUCCAAAGGGGCAGGGAAACGGAAUUUAAGGCUUGCUCGACCGAAAGUAGGAUAAGCCAGGAAUUUAAGCCGACCUAAGGCC
((((.(((.....((((.((((((((......)))))))).))))))))))).......((((((..((((((..(...(....)..)..))))))..))))))..(((.......))). (-28.34 = -28.27 +  -0.06)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,597,363 – 19,597,483
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.06
Mean single sequence MFE -29.75
Consensus MFE -24.19
Energy contribution -23.88
Covariance contribution -0.31
Combinations/Pair 1.12
Mean z-score -1.93
Structure conservation index 0.81
SVM decision value 0.50
SVM RNA-class probability 0.759555
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19597363 120 + 22224390
CCAAAGGGGCAGGGAAACGGAAUUUAAGGCUUGCUCGACCGAAUAUAGGAUAAGCCAGGAAUUUAAGCCAACCUAAGGCCCAGCAAAAUGGGUAAAAAAUUGUGGCAAUUAAUAAAAUGU
(((.((((((..(....).((((((..((((((..(...........)..))))))..))))))..)))..)))...(((((......))))).........)))............... ( -30.10)
>DroSec_CAF1 3733 120 + 1
CCAAAGGGGCAGGGAAACGGAAUUUAAGGCUUGCUCGCCCAAAAGUAGGAUAAGCCAGGAAUUUAAGCCGACCUAAGGCCCAGCAAAAUGCGUAAAAAAUUGUGGCAAUUAAUAAAAUGA
(((...((((.(((...((((((((..((((((((..(......)..)).))))))..)))))....))).)))...)))).((.....))...........)))............... ( -28.70)
>DroSim_CAF1 3676 120 + 1
CCAAAGGGGCAGGGAUACGGAAUUUAAGGCUUGCUCGACCGAAAGUAGGAUAAGCCAGGAAUUUAAGCCGACCCAAGGCCCAGCAAAAUGCGUAAAAAAUUGUGGCAAUUAAUAAAAUGA
(((...((((.(((...((((((((..((((((..(...(....)..)..))))))..)))))....))).)))...)))).((.....))...........)))............... ( -32.00)
>DroEre_CAF1 3960 120 + 1
CCAAAGGGGCAGGGAGGCGGAAUUUAAGGCUUGCUCGACCGAAAGUAGGAUAAGCCAGGAAUUUAAGCAGACCUAAGGUUCAGCAAAAUGGGUACAAAAUUGUUGCAAUUAAUAAAAUGG
(((.......(((...((.((((((..((((((..(...(....)..)..))))))..))))))..))...)))..((((((((((..((....))...)))))).)))).......))) ( -28.20)
>consensus
CCAAAGGGGCAGGGAAACGGAAUUUAAGGCUUGCUCGACCGAAAGUAGGAUAAGCCAGGAAUUUAAGCCGACCUAAGGCCCAGCAAAAUGCGUAAAAAAUUGUGGCAAUUAAUAAAAUGA
......((((.(((.....((((((..((((((..(...(....)..)..))))))..)))))).......)))...)))).((..(((.........)))...)).............. (-24.19 = -23.88 +  -0.31)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:33 2006