Locus 2702

Sequence ID 2L_DroMel_CAF1
Location 7,570,292 – 7,570,385
Length 93
Max. P 0.999765
window4295 window4296

overview

Window 5

Location 7,570,292 – 7,570,385
Length 93
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 91.72
Mean single sequence MFE -20.87
Consensus MFE -19.34
Energy contribution -19.82
Covariance contribution 0.48
Combinations/Pair 1.05
Mean z-score -2.15
Structure conservation index 0.93
SVM decision value 3.40
SVM RNA-class probability 0.999151
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7570292 93 + 22407834
CACGCACUUCAGGCCAAGUGCGCCUCCAUUGCCGUUGACCCAAAUUGGCAAAUCUCUGAAUCUUCUCGGCAACAUUUGGCAAAUCACUUGCCC
...((((((......))))))(((....((((((...........))))))......((......))))).......(((((.....))))). ( -23.80)
>DroSec_CAF1 70077 89 + 1
----CACUUUUGGCCAAAUGCGCCUCCAUUGCCGUUGACCUAAAUUGGCAAAUCUCUGAAUCUUCUCGGCAACAUUUGGCAAAUCUCUUGCCC
----........((((((((.(((....((((((...........))))))......((......)))))..))))))))............. ( -22.20)
>DroSim_CAF1 75114 89 + 1
----CACUUUUGGCCAAAUGCGCCUCCAUUGCCGUUGACCUAAAUUGGCAAAUCUUUGAAUCUUCUCGGCAACAUUUGGCAAAUCACUUGCCC
----........((((((((.(((....((((((...........))))))......((......)))))..))))))))............. ( -22.20)
>DroEre_CAF1 69210 89 + 1
----CACUUCAGACCAAUUGCGCCUCCAUUGCCGUUGACCCAAAUUGGCAAAUCUCUGAAUCUUCUCGGCAACAUUUGGCAAAUCACUUGCCC
----.................(((....((((((...........))))))......((......))))).......(((((.....))))). ( -16.40)
>DroYak_CAF1 71451 89 + 1
----CACUUUGGGCCAAAUGAGCCAUCAUUGCCGUUGACCUAAAUUGGCAAAUCUCUAAAUCUUCUCGGCAACAUUUGGCAAAUCACUUGUCC
----......((((.((.(((((((...(((((((((.((......)))))...............))))))....))))...))).)))))) ( -19.76)
>consensus
____CACUUUAGGCCAAAUGCGCCUCCAUUGCCGUUGACCUAAAUUGGCAAAUCUCUGAAUCUUCUCGGCAACAUUUGGCAAAUCACUUGCCC
............((((((((.(((....((((((...........))))))......((......)))))..))))))))............. (-19.34 = -19.82 +   0.48)

alignment

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secondary structure

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dotplot

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Window 6

Location 7,570,292 – 7,570,385
Length 93
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 91.72
Mean single sequence MFE -28.14
Consensus MFE -27.00
Energy contribution -27.20
Covariance contribution 0.20
Combinations/Pair 1.15
Mean z-score -2.24
Structure conservation index 0.96
SVM decision value 4.03
SVM RNA-class probability 0.999765
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7570292 93 - 22407834
GGGCAAGUGAUUUGCCAAAUGUUGCCGAGAAGAUUCAGAGAUUUGCCAAUUUGGGUCAACGGCAAUGGAGGCGCACUUGGCCUGAAGUGCGUG
((.((((((....(((...((((((((....((((((((..........))))))))..))))))))..))).)))))).))........... ( -33.20)
>DroSec_CAF1 70077 89 - 1
GGGCAAGAGAUUUGCCAAAUGUUGCCGAGAAGAUUCAGAGAUUUGCCAAUUUAGGUCAACGGCAAUGGAGGCGCAUUUGGCCAAAAGUG----
.(((...((((.((((...((((((((.((....))...((((((......))))))..))))))))..)))).)))).))).......---- ( -25.40)
>DroSim_CAF1 75114 89 - 1
GGGCAAGUGAUUUGCCAAAUGUUGCCGAGAAGAUUCAAAGAUUUGCCAAUUUAGGUCAACGGCAAUGGAGGCGCAUUUGGCCAAAAGUG----
((.((((((....(((...((((((((.((....))...((((((......))))))..))))))))..))).)))))).)).......---- ( -28.60)
>DroEre_CAF1 69210 89 - 1
GGGCAAGUGAUUUGCCAAAUGUUGCCGAGAAGAUUCAGAGAUUUGCCAAUUUGGGUCAACGGCAAUGGAGGCGCAAUUGGUCUGAAGUG----
((((....((((((((...((((((((....((((((((..........))))))))..))))))))..)))).)))).))))......---- ( -25.00)
>DroYak_CAF1 71451 89 - 1
GGACAAGUGAUUUGCCAAAUGUUGCCGAGAAGAUUUAGAGAUUUGCCAAUUUAGGUCAACGGCAAUGAUGGCUCAUUUGGCCCAAAGUG----
((.(((((((...((((...(((((((....((((((((..........))))))))..)))))))..)))))))))))..))......---- ( -28.50)
>consensus
GGGCAAGUGAUUUGCCAAAUGUUGCCGAGAAGAUUCAGAGAUUUGCCAAUUUAGGUCAACGGCAAUGGAGGCGCAUUUGGCCAAAAGUG____
((.((((((....(((...((((((((....((((((((..........))))))))..))))))))..))).)))))).))........... (-27.00 = -27.20 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:04 2006