Locus 1744

Sequence ID 2R_DroMel_CAF1
Location 6,562,057 – 6,562,160
Length 103
Max. P 0.955297
window2909 window2910

overview

Window 9

Location 6,562,057 – 6,562,160
Length 103
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 85.83
Mean single sequence MFE -30.32
Consensus MFE -25.20
Energy contribution -26.45
Covariance contribution 1.25
Combinations/Pair 1.07
Mean z-score -3.06
Structure conservation index 0.83
SVM decision value 1.45
SVM RNA-class probability 0.955297
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6562057 103 + 20766785
UGCAAGUGCUCCAUUCAUUCAUUGGUUCCGCUCGUAAGACCCGUAAACGAGUCUUGUCAGAAGUUUUCCACGAACUUUUGCCUGAGUCACGAGCACUUGCAGU
(((((((((((.(((((..((..(((((..((..((((((.((....)).))))))..))..((.....)))))))..))..)))))...))))))))))).. ( -37.70)
>DroSec_CAF1 114715 103 + 1
UGCAAGUGCUCCAUUCAUUCAUUGGUUCCGCUCCUAAGACCCGUAAACGAGUCUUGUCAGAAGUUUUCCACGAACUUUUCCCUGAGUCACGAGCACUUGCAGU
(((((((((((.(((((......(((((..((..((((((.((....)).))))))..))..((.....)))))))......)))))...))))))))))).. ( -33.40)
>DroSim_CAF1 100848 103 + 1
UGCAAGUGCUCCAUUCAUUCAUUGGUUCCGCUCGUAAGACCCGUAAACGAGUCUUGUCAGAAGUUUUCCACGAACUUUUCCCUGAGUCACGAGCACUUGCAGU
(((((((((((.(((((......(((((..((..((((((.((....)).))))))..))..((.....)))))))......)))))...))))))))))).. ( -34.60)
>DroEre_CAF1 115401 98 + 1
UGCA-GUGCUCCA----UUCAUUGGUUCCGCUCGUAAGACCCGUAAACGAGUCUUGUCAGAAGUUUUCCACGAACUUUUCCCUGAGUCACGAGCACUUGCAGC
((((-((((((((----.....)).....(((((((((((.((....)).)))))).)((((((((.....))))))))....))))...)))))).)))).. ( -29.50)
>DroYak_CAF1 120498 99 + 1
UGCAAGUGCUUCA----UUCAUUGGUUCCGCUCGUAAGACCCGUAAACGAGUCUCGUCAGAAGUUUUCCACGAACUUUUCCCUGAGUCACGAGCACUUGCAGU
(((((((((((.(----((((..((....((((((...........))))))......((((((((.....)))))))))).)))))...))))))))))).. ( -29.90)
>DroAna_CAF1 115348 86 + 1
UGCAAUUGCUCGAUUC------------GGC-UGUAAG--CCGUAAACU-UUCUUCUCAGAACUUUUCCACUAA-UUUUCCCUGACUCAUGUGCAACUGCACU
((((.((((.((...(------------(((-.....)--)))......-......((((..............-......))))....)).)))).)))).. ( -16.85)
>consensus
UGCAAGUGCUCCAUUC_UUCAUUGGUUCCGCUCGUAAGACCCGUAAACGAGUCUUGUCAGAAGUUUUCCACGAACUUUUCCCUGAGUCACGAGCACUUGCAGU
(((((((((((.......................((((((.((....)).))))))((((((((((.....))))))....)))).....))))))))))).. (-25.20 = -26.45 +   1.25)

alignment

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secondary structure

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dotplot

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Window 0

Location 6,562,057 – 6,562,160
Length 103
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 85.83
Mean single sequence MFE -35.20
Consensus MFE -27.88
Energy contribution -29.68
Covariance contribution 1.81
Combinations/Pair 1.09
Mean z-score -3.48
Structure conservation index 0.79
SVM decision value 1.30
SVM RNA-class probability 0.939087
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6562057 103 - 20766785
ACUGCAAGUGCUCGUGACUCAGGCAAAAGUUCGUGGAAAACUUCUGACAAGACUCGUUUACGGGUCUUACGAGCGGAACCAAUGAAUGAAUGGAGCACUUGCA
...((((((((((.....(((..((...(((((((((.....)))...((((((((....))))))))))))))(....)..))..)))...)))))))))). ( -38.60)
>DroSec_CAF1 114715 103 - 1
ACUGCAAGUGCUCGUGACUCAGGGAAAAGUUCGUGGAAAACUUCUGACAAGACUCGUUUACGGGUCUUAGGAGCGGAACCAAUGAAUGAAUGGAGCACUUGCA
...((((((((((((...(((.(((....))).)))...))(((((.(((((((((....)))))))).)...)))))..............)))))))))). ( -37.60)
>DroSim_CAF1 100848 103 - 1
ACUGCAAGUGCUCGUGACUCAGGGAAAAGUUCGUGGAAAACUUCUGACAAGACUCGUUUACGGGUCUUACGAGCGGAACCAAUGAAUGAAUGGAGCACUUGCA
...((((((((((.(.(.(((.((....(((((((((.....)))...((((((((....))))))))))))))....))..))).).)...)))))))))). ( -38.80)
>DroEre_CAF1 115401 98 - 1
GCUGCAAGUGCUCGUGACUCAGGGAAAAGUUCGUGGAAAACUUCUGACAAGACUCGUUUACGGGUCUUACGAGCGGAACCAAUGAA----UGGAGCAC-UGCA
...(((.((((((.....(((.((....(((((((((.....)))...((((((((....))))))))))))))....))..))).----..))))))-))). ( -33.70)
>DroYak_CAF1 120498 99 - 1
ACUGCAAGUGCUCGUGACUCAGGGAAAAGUUCGUGGAAAACUUCUGACGAGACUCGUUUACGGGUCUUACGAGCGGAACCAAUGAA----UGAAGCACUUGCA
...((((((((((((...(((.((....(((((((((.....)))...((((((((....))))))))))))))....))..))))----)).))))))))). ( -37.60)
>DroAna_CAF1 115348 86 - 1
AGUGCAGUUGCACAUGAGUCAGGGAAAA-UUAGUGGAAAAGUUCUGAGAAGAA-AGUUUACGG--CUUACA-GCC------------GAAUCGAGCAAUUGCA
..(((((((((...(((.((........-...(((((....((((....))))-..)))))((--(.....-)))------------)).))).))))))))) ( -24.90)
>consensus
ACUGCAAGUGCUCGUGACUCAGGGAAAAGUUCGUGGAAAACUUCUGACAAGACUCGUUUACGGGUCUUACGAGCGGAACCAAUGAA_GAAUGGAGCACUUGCA
..(((((((((((((...(((.(((....))).)))...))(((((..((((((((....)))))))).....)))))..............))))))))))) (-27.88 = -29.68 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:12 2006