Locus 2072

Sequence ID X_DroMel_CAF1
Location 5,670,041 – 5,670,199
Length 158
Max. P 0.931909
window3368 window3369

overview

Window 8

Location 5,670,041 – 5,670,141
Length 100
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 60.43
Mean single sequence MFE -33.66
Consensus MFE -19.23
Energy contribution -19.22
Covariance contribution -0.00
Combinations/Pair 1.17
Mean z-score -1.41
Structure conservation index 0.57
SVM decision value 1.22
SVM RNA-class probability 0.931909
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5670041 100 - 22224390
UUUGCUGCUAAAUGGAAGCGAAAACGCUUUGUUUGUGCAUAACGAGGCGUGCAGUGGCCCAAAACAAAGGGGGCAGCUGUGGCGG--------AGGGGCUGUGG----CUCC--------
(((((((((.......)))....((((((((((.......))))))))))(((((.((((..........)))).))))))))))--------)(((((....)----))))-------- ( -38.20)
>DroSec_CAF1 9067 99 - 1
UUUGCUGCUAAAUGGAAGCGAAAACGCUUUGUUUGUGCAUAACGAGGCGUGCAGUGGCCCAAA-CAAAGGAGGGGAAUCCAGCGA--------AGGGGCUGCGG----CUCC--------
((((((.((....)).)))))).((((((((((.......))))))))))((.(..((((...-....(((......))).....--------..))))..).)----)...-------- ( -35.44)
>DroAna_CAF1 13951 119 - 1
UUUGCUGCUAAAUGGAAGCGAAAGCGCUUUGUUUCUGCAUAACGAGGCGUGCACUGGUCCAAA-CAAAGGGGGCUCCAGUGGCGGCGCACUCGAGGGGCUGGCGACAGGUGCCCAGGGGC
...(((((((..((((((.(...((((((((((.......)))))))))).).)).((((...-......)))))))).)))))))((.(((...((((((....))...)))).))))) ( -45.50)
>DroSim_CAF1 9603 92 - 1
UUUGCUGCUA-AUGGAAGCGA-AACGCUUUGU-UGUGCAU-ACGAGGCGUGNNNNNNNNNNNN-NNNNNNNNNNNNNNNNNNNNN--------NNNNNNNNNNN----N-----------
((((((.(..-...).)))))-)(((((((((-.......-))))))))).............-.....................--------...........----.----------- ( -15.50)
>consensus
UUUGCUGCUAAAUGGAAGCGAAAACGCUUUGUUUGUGCAUAACGAGGCGUGCAGUGGCCCAAA_CAAAGGGGGC__CUGUGGCGG________AGGGGCUG_GG____CUCC________
((((((.((....)).)))))).((((((((((.......))))))))))...(..((((...................................))))..).................. (-19.23 = -19.22 +  -0.00)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 9

Location 5,670,101 – 5,670,199
Length 98
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 82.46
Mean single sequence MFE -31.95
Consensus MFE -18.26
Energy contribution -18.70
Covariance contribution 0.44
Combinations/Pair 1.09
Mean z-score -2.75
Structure conservation index 0.57
SVM decision value 1.05
SVM RNA-class probability 0.906709
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5670101 98 - 22224390
UUUAAGUCC-UGCGCUUUUUU-----------UCC-GAGACGUGGCAGGACCUCAAAGCGCCAGCUUCUAAUUUGCUGCUAAAUGGAAGCGAAAACGCUUUGUUUGUGCAU
.....((((-(((((.((((.-----------...-)))).)).)))))))..(((((((...(((((((.((((....))))))))))).....)))))))......... ( -30.10)
>DroSec_CAF1 9126 99 - 1
UUUAAGUCC-UGCGCUUUUUU-----------UCCAGAGACGUGGCAGGACCUCAAAGCGCCAGCUUCUAAUUUGCUGCUAAAUGGAAGCGAAAACGCUUUGUUUGUGCAU
.....((((-(((((.((((.-----------....)))).)).)))))))..(((((((...(((((((.((((....))))))))))).....)))))))......... ( -30.60)
>DroAna_CAF1 14030 104 - 1
UUCAACUGCUUUCACUUUUUGUGUCCUGCCGCUCU-CAGACGCGCCAGGACCUCAAAG------CUUCUAAUUUGCUGCUAAAUGGAAGCGAAAGCGCUUUGUUUCUGCAU
.......((((((....((((.((((((.(((...-.....))).))))))..))))(------((((((.((((....)))))))))))))))))((.........)).. ( -34.80)
>DroSim_CAF1 9658 93 - 1
UUUAAGUCC-UGCGCUUUUUU-----------CC--GAGACGUGGCAGGACCUCAAAGCGCCAGCUUCUA-UUUGCUGCUA-AUGGAAGCGA-AACGCUUUGU-UGUGCAU
.....((((-(((((((((..-----------..--)))).)).)))))))..(((((((...(((((((-((.......)-))))))))..-..))))))).-....... ( -32.30)
>consensus
UUUAAGUCC_UGCGCUUUUUU___________UCC_GAGACGUGGCAGGACCUCAAAGCGCCAGCUUCUAAUUUGCUGCUAAAUGGAAGCGAAAACGCUUUGUUUGUGCAU
..........(((((..........................((((((((......((((....))))....))))))))......((((((....))))))....))))). (-18.26 = -18.70 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:33 2006