Locus 3726

Sequence ID X_DroMel_CAF1
Location 9,930,386 – 9,930,499
Length 113
Max. P 0.914590
window6107 window6108

overview

Window 7

Location 9,930,386 – 9,930,499
Length 113
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 81.43
Mean single sequence MFE -40.98
Consensus MFE -34.31
Energy contribution -34.40
Covariance contribution 0.09
Combinations/Pair 1.21
Mean z-score -2.14
Structure conservation index 0.84
SVM decision value 1.10
SVM RNA-class probability 0.914590
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9930386 113 + 22224390
CAUAAAUGCAGAAAUCACAGCUUGACGCACAGCUCGUUGCCCGGAUAAACGGGCAGAUUCAGUUCGUAUUUGCGCUGCAGGGCGGGCGGCACGAAUCUGCCGCCCAAGUAGUG
...............(((.((((........((((.(((((((......)))))))...((((.((....)).))))..))))((((((((......)))))))))))).))) ( -44.50)
>DroVir_CAF1 2 98 + 1
---------------UACAGCUCGAGGCACAACUCGUUACCCGGAUAGGCAGGCAGAUUCAGCUCGUACUUGCGCUGCAGAGCUGGCGGCACAAAGCGUCCGCCUAAAAAGUG
---------------...((((((((......))).............((((((((...(.....)...)))).)))).)))))(((((.((.....)))))))......... ( -30.40)
>DroSec_CAF1 2 98 + 1
---------------CACAGCUUGACGCACAGCUCGUUGCCCGGAUAAACGGGCAGAUUAAGUUCGUAUUUGCGCUGCAGGGCGGGUGGCACGAAUCUGCCGCCCAAGUAGUG
---------------(((.((((........((((.(((((((......))))))).....((.(((....)))..)).))))((((((((......)))))))))))).))) ( -41.60)
>DroSim_CAF1 107 113 + 1
CAAAAAUGAAGAAAUCACAGCUUGACGCACAGCUCGUUGCCCGGAUAAACGGGCAGAUUAAGUUCGUAUUUGCGGUGCAGGGCGGGCGGCACGAAUCUGCCGCCCAAGUAGUG
...............(((.((((...((((((((..(((((((......)))))))....))))(((....))))))).))))((((((((......)))))))).....))) ( -45.20)
>DroEre_CAF1 2 98 + 1
---------------CACAGCUUGACGCACAGUUCGUUGCCCGGAUAAACGGGCAGAUUCAGUUCGUAUUUGCGCUGCAGAGCGGGCGGCACGAAUCUGCCGCCCAAGUAGUG
---------------(((.((((........((((.(((((((......)))))))...((((.((....)).))))..))))((((((((......)))))))))))).))) ( -42.90)
>DroMoj_CAF1 2 98 + 1
---------------CACAGCUCCAGGCACAUCUCAUUGCCCGGAUAUGUGGGCAGAUUCAGCUCGUACUUGCGCUGCAGGGCGGGCGGCACGAAGCGUCCGCCCAGGAAGUG
---------------((((..(((.((((........)))).)))..)))).((((.....((........)).)))).(((((((((........)))))))))........ ( -41.30)
>consensus
_______________CACAGCUUGACGCACAGCUCGUUGCCCGGAUAAACGGGCAGAUUCAGUUCGUAUUUGCGCUGCAGGGCGGGCGGCACGAAUCUGCCGCCCAAGUAGUG
...............(((.((((...((((......(((((((......))))))).....((........))).))).))))((((((((......)))))))).....))) (-34.31 = -34.40 +   0.09)

alignment

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secondary structure

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dotplot

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Window 8

Location 9,930,386 – 9,930,499
Length 113
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 81.43
Mean single sequence MFE -37.88
Consensus MFE -29.22
Energy contribution -30.38
Covariance contribution 1.17
Combinations/Pair 1.11
Mean z-score -1.59
Structure conservation index 0.77
SVM decision value 0.45
SVM RNA-class probability 0.740440
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9930386 113 - 22224390
CACUACUUGGGCGGCAGAUUCGUGCCGCCCGCCCUGCAGCGCAAAUACGAACUGAAUCUGCCCGUUUAUCCGGGCAACGAGCUGUGCGUCAAGCUGUGAUUUCUGCAUUUAUG
(((..(((((((((((......)))))))(((...(((((.(......((......))((((((......))))))..).)))))))).))))..)))............... ( -40.40)
>DroVir_CAF1 2 98 - 1
CACUUUUUAGGCGGACGCUUUGUGCCGCCAGCUCUGCAGCGCAAGUACGAGCUGAAUCUGCCUGCCUAUCCGGGUAACGAGUUGUGCCUCGAGCUGUA---------------
.........(((((.(((...))))))))(((((.(..((((((.(.((.((.......)).(((((....))))).))).))))))..))))))...--------------- ( -33.30)
>DroSec_CAF1 2 98 - 1
CACUACUUGGGCGGCAGAUUCGUGCCACCCGCCCUGCAGCGCAAAUACGAACUUAAUCUGCCCGUUUAUCCGGGCAACGAGCUGUGCGUCAAGCUGUG---------------
(((..((((((.((((......)))).))(((...(((((.(......((......))((((((......))))))..).)))))))).))))..)))--------------- ( -33.90)
>DroSim_CAF1 107 113 - 1
CACUACUUGGGCGGCAGAUUCGUGCCGCCCGCCCUGCACCGCAAAUACGAACUUAAUCUGCCCGUUUAUCCGGGCAACGAGCUGUGCGUCAAGCUGUGAUUUCUUCAUUUUUG
(((..(((((((((((......)))))))).....((((.((......((......))((((((......))))))....)).))))...)))..)))............... ( -40.70)
>DroEre_CAF1 2 98 - 1
CACUACUUGGGCGGCAGAUUCGUGCCGCCCGCUCUGCAGCGCAAAUACGAACUGAAUCUGCCCGUUUAUCCGGGCAACGAACUGUGCGUCAAGCUGUG---------------
(((.....((((((((......))))))))(((..((.(((((.....((......))((((((......))))))......)))))))..))).)))--------------- ( -39.20)
>DroMoj_CAF1 2 98 - 1
CACUUCCUGGGCGGACGCUUCGUGCCGCCCGCCCUGCAGCGCAAGUACGAGCUGAAUCUGCCCACAUAUCCGGGCAAUGAGAUGUGCCUGGAGCUGUG---------------
........(((((((.(((.(((((....(((......)))...))))))))....)))))))(((..((((((((........))))))))..))).--------------- ( -39.80)
>consensus
CACUACUUGGGCGGCAGAUUCGUGCCGCCCGCCCUGCAGCGCAAAUACGAACUGAAUCUGCCCGUUUAUCCGGGCAACGAGCUGUGCGUCAAGCUGUG_______________
.......(((((((((......)))))))))....(((((......(((.((....((((((((......))))))..))...)).)))...)))))................ (-29.22 = -30.38 +   1.17)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:42 2006