Locus 3474

Sequence ID 3L_DroMel_CAF1
Location 10,217,149 – 10,217,239
Length 90
Max. P 0.958519
window5424 window5425

overview

Window 4

Location 10,217,149 – 10,217,239
Length 90
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 80.28
Mean single sequence MFE -26.80
Consensus MFE -18.83
Energy contribution -18.72
Covariance contribution -0.11
Combinations/Pair 1.08
Mean z-score -2.31
Structure conservation index 0.70
SVM decision value 1.49
SVM RNA-class probability 0.958519
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10217149 90 + 23771897
UGCAGGGAAGAGCUGUGUUUGG--GUAGAUUGUUGAAGGGAUUCUGA--------AAAUCCCUAUUAACGAUUCGAUUUGCAGCAAGUGGAUCAUUUGAG
.((((.......))))..(..(--((.((((((((((((((((....--------.))))))).))))))))).((((..(.....)..)))))))..). ( -25.60)
>DroSim_CAF1 97866 81 + 1
UGCAGGGAAGAGCUGUGU-UGA--GUAGAUUGUUGAAGGGAUUCUGA--------AAAUCCCUAUUAACGAUUCGAUUUGCAGCAAGCGGA--------A
...........(((((((-(((--....(((((((((((((((....--------.))))))).)))))))))))))..))))).......--------. ( -24.10)
>DroYak_CAF1 98304 99 + 1
UGCAGGCAAGAGCUGUGU-UGGGUGUGGAUUGUUGAAGAGAUUCUGAUUAUCCCUGAAUCCCUAUUAACGAUUCGAUUCGCAGCAAGUGGCUGAUUUGAG
..(((.((...((((((.-......(((((((((((((.(((((...........))))).)).)))))))))))...))))))...)).)))....... ( -30.70)
>consensus
UGCAGGGAAGAGCUGUGU_UGG__GUAGAUUGUUGAAGGGAUUCUGA________AAAUCCCUAUUAACGAUUCGAUUUGCAGCAAGUGGAU_AUUUGAG
...........((((((..(((......(((((((((((((((.............))))))).)))))))))))...))))))................ (-18.83 = -18.72 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 10,217,149 – 10,217,239
Length 90
Sequences 3
Columns 100
Reading direction reverse
Mean pairwise identity 80.28
Mean single sequence MFE -14.77
Consensus MFE -12.67
Energy contribution -12.23
Covariance contribution -0.44
Combinations/Pair 1.12
Mean z-score -1.36
Structure conservation index 0.86
SVM decision value 0.63
SVM RNA-class probability 0.803871
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10217149 90 - 23771897
CUCAAAUGAUCCACUUGCUGCAAAUCGAAUCGUUAAUAGGGAUUU--------UCAGAAUCCCUUCAACAAUCUAC--CCAAACACAGCUCUUCCCUGCA
................(((((.....)....(((...((((((((--------...))))))))..))).......--.......))))........... ( -12.60)
>DroSim_CAF1 97866 81 - 1
U--------UCCGCUUGCUGCAAAUCGAAUCGUUAAUAGGGAUUU--------UCAGAAUCCCUUCAACAAUCUAC--UCA-ACACAGCUCUUCCCUGCA
.--------...((.....))..........(((...((((((((--------...))))))))..))).......--...-.....((........)). ( -13.80)
>DroYak_CAF1 98304 99 - 1
CUCAAAUCAGCCACUUGCUGCGAAUCGAAUCGUUAAUAGGGAUUCAGGGAUAAUCAGAAUCUCUUCAACAAUCCACACCCA-ACACAGCUCUUGCCUGCA
.......(((.((...((((.(....(((((.(.....).)))))((((((.......)))))).................-.).))))...)).))).. ( -17.90)
>consensus
CUCAAAU_AUCCACUUGCUGCAAAUCGAAUCGUUAAUAGGGAUUU________UCAGAAUCCCUUCAACAAUCUAC__CCA_ACACAGCUCUUCCCUGCA
................(((((.....)....(((...((((((((...........))))))))..)))................))))........... (-12.67 = -12.23 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:00 2006