Locus 3903

Sequence ID X_DroMel_CAF1
Location 10,453,979 – 10,454,125
Length 146
Max. P 0.992588
window6405 window6406

overview

Window 5

Location 10,453,979 – 10,454,098
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 97.78
Mean single sequence MFE -27.05
Consensus MFE -25.66
Energy contribution -25.85
Covariance contribution 0.19
Combinations/Pair 1.03
Mean z-score -1.65
Structure conservation index 0.95
SVM decision value 2.34
SVM RNA-class probability 0.992588
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10453979 119 + 22224390
GGCGCUGCAGUGCCGCUCGCGAUCCUAGAAGUUUUGAACAUAAUUUACACUGAAAAUCUCGUAAAACUUCAGCCAUAUCUAAAAUGAAAUUGUAUGAAGAAAAUGAAAU-UUCGGAUUGU
(((((....)))))....(((((((..((((((((........(((((...(.....)..))))).(((((..((..((......))...))..))))).....)))))-)))))))))) ( -28.90)
>DroVir_CAF1 14875 120 + 1
GGCGCUGCAAUGCCGCACGCGAUCCUAGAAGUUUUGAACAUAAUUUACACUGAAAAUCUCGUAAAACUUCAGCCAUAUCUAAAAUGAAAUUGUAUGAAGAAAAUGAAAUUUUCGGAUUGU
((((......))))....(((((((...(((((........))))).....((((((.((((....(((((..((..((......))...))..)))))...)))).))))))))))))) ( -25.70)
>DroGri_CAF1 12691 120 + 1
GGCGCUGCAAUGCCGCACGCGAUCCUAGAAGUUUUGAACAUAAUUUACACUGAAAAUCUCGUAAAACUUCAGCCAUAUCUAAAAUGAAAUUGUAUGAAGAAAAUGAAAUUUUCGGAUUGU
((((......))))....(((((((...(((((........))))).....((((((.((((....(((((..((..((......))...))..)))))...)))).))))))))))))) ( -25.70)
>DroWil_CAF1 11772 120 + 1
GGCGCUGCAAUGCCGCACGCGAUCCUAGAAGUUUUGAACAUAAUUUACACUGAAAAUCUCGUAAAACUUCAGCCAUAUCUAAAAUGAAAUUGUAUGAAGAAAAUGAAAUUUUCGGAUUGU
((((......))))....(((((((...(((((........))))).....((((((.((((....(((((..((..((......))...))..)))))...)))).))))))))))))) ( -25.70)
>DroMoj_CAF1 13275 120 + 1
GGCGCUGCAGUGCCGCACGCGAUCCUAGAAGUUUUGAACAUAAUUUACACUGAAAAUCUCGUAAAACUUCAGCCAUAUCUAAAAUGAAAUUGUAUGAAGAAAAUGAAAUUUUCGGAUUGC
(((((....)))))....(((((((...(((((........))))).....((((((.((((....(((((..((..((......))...))..)))))...)))).))))))))))))) ( -31.00)
>DroAna_CAF1 16385 119 + 1
GGCGUUGAAGUGCCGCUCGCGAUCCUAGAAGUUUUGAACAUAAUUUACACUGAAAAUCUCGUAAAACUUCAGCCAUAUCUAAAAUGAAAUUGUAUGAAGAAAAUGAAAU-UUCGGAUUGU
((((......))))....(((((((..((((((((........(((((...(.....)..))))).(((((..((..((......))...))..))))).....)))))-)))))))))) ( -25.30)
>consensus
GGCGCUGCAAUGCCGCACGCGAUCCUAGAAGUUUUGAACAUAAUUUACACUGAAAAUCUCGUAAAACUUCAGCCAUAUCUAAAAUGAAAUUGUAUGAAGAAAAUGAAAUUUUCGGAUUGU
((((......))))....(((((((...(((((........))))).....((((((.((((....(((((..((..((......))...))..)))))...)))).))))))))))))) (-25.66 = -25.85 +   0.19)

alignment

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secondary structure

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dotplot

Postscript

Window 6

Location 10,454,019 – 10,454,125
Length 106
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 90.53
Mean single sequence MFE -15.08
Consensus MFE -13.85
Energy contribution -14.05
Covariance contribution 0.20
Combinations/Pair 1.05
Mean z-score -1.16
Structure conservation index 0.92
SVM decision value 0.18
SVM RNA-class probability 0.619975
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10454019 106 - 22224390
---UCACUAAGUU----GUUCUUU------CAAAAUCACCACAAUCCGAA-AUUUCAUUUUCUUCAUACAAUUUCAUUUUAGAUAUGGCUGAAGUUUUACGAGAUUUUCAGUGUAAAUUA
---.((((..(((----((.....------..........)))))..(((-(((((.....(((((..((...((......))..))..)))))......)))))))).))))....... ( -12.96)
>DroPse_CAF1 13740 114 - 1
AAUUCACUAAGUUUCUUCUUCUUU------CAAAAUCACCACAAUCCGAAAAUUUCAUUUUCUUCAUACAAUUUCAUUUUAGAUAUGGCUGAAGUUUUACGAGAUUUUCAGUGUAAAUUA
....(((((((......)))....------.................(((((((((.....(((((..((...((......))..))..)))))......)))))))))))))....... ( -16.30)
>DroWil_CAF1 11812 110 - 1
--AUCACUAAUUU----CCUUUUU---CU-UAAAAUCACCACAAUCCGAAAAUUUCAUUUUCUUCAUACAAUUUCAUUUUAGAUAUGGCUGAAGUUUUACGAGAUUUUCAGUGUAAAUUA
--..((((.....----..((((.---..-.))))............(((((((((.....(((((..((...((......))..))..)))))......)))))))))))))....... ( -15.50)
>DroMoj_CAF1 13315 106 - 1
--CUCACUAAUUU------UCUUU------CAAAAUCACCGCAAUCCGAAAAUUUCAUUUUCUUCAUACAAUUUCAUUUUAGAUAUGGCUGAAGUUUUACGAGAUUUUCAGUGUAAAUUA
--..((((.((((------(....------.)))))...........(((((((((.....(((((..((...((......))..))..)))))......)))))))))))))....... ( -15.60)
>DroAna_CAF1 16425 112 - 1
---UCACUAAGUU----GUUACUUUUUAUAAAAAAUCACCACAAUCCGAA-AUUUCAUUUUCUUCAUACAAUUUCAUUUUAGAUAUGGCUGAAGUUUUACGAGAUUUUCAGUGUAAAUUA
---.((((..(((----((....((((....)))).....)))))..(((-(((((.....(((((..((...((......))..))..)))))......)))))))).))))....... ( -13.80)
>DroPer_CAF1 40452 114 - 1
AAUUCACUAAGUUUCUUCUUCUUU------CAAAAUCACCACAAUCCGAAAAUUUCAUUUUCUUCAUACAAUUUCAUUUUAGAUAUGGCUGAAGUUUUACGAGAUUUUCAGUGUAAAUUA
....(((((((......)))....------.................(((((((((.....(((((..((...((......))..))..)))))......)))))))))))))....... ( -16.30)
>consensus
___UCACUAAGUU____CUUCUUU______CAAAAUCACCACAAUCCGAAAAUUUCAUUUUCUUCAUACAAUUUCAUUUUAGAUAUGGCUGAAGUUUUACGAGAUUUUCAGUGUAAAUUA
........................................(((....(((((((((.....(((((..((...((......))..))..)))))......)))))))))..)))...... (-13.85 = -14.05 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:21 2006