Locus 776

Sequence ID 3R_DroMel_CAF1
Location 2,682,968 – 2,683,086
Length 118
Max. P 0.994913
window1237 window1238

overview

Window 7

Location 2,682,968 – 2,683,086
Length 118
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 94.90
Mean single sequence MFE -25.95
Consensus MFE -21.43
Energy contribution -21.99
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -2.00
Structure conservation index 0.83
SVM decision value 0.24
SVM RNA-class probability 0.650012
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2682968 118 + 27905053
AAAAUCGUCGAAAAAUACUCCCGUGAACUAGAAA-AAAUAAAGCACACAAAAAAUGUGCCUCAGUUCUAGUUUAGUUUCAAGAAAUUCUCUGUUCGCUCGGAAGGAAA-AAAUGGAAACU
.......................((((((((((.-.......(((((.......))))).....))))))))))(((((......(((((((......))).))))..-.....))))). ( -22.84)
>DroSec_CAF1 42463 118 + 1
AAAAUCGUCAAAAAAUACUCCCGUGAACUAGAAA-AAAUAAAGCACACAAAAAAUGUGCCUCAGUUCUAGUUUGGUUUCGAGAAAUUCUCUGUUCGCUCGGAGGGAAA-AAAUGGAAACU
..................((((..(((((((((.-.......(((((.......))))).....)))))))))...((((((..(........)..))))))))))..-....(....). ( -26.82)
>DroSim_CAF1 35627 118 + 1
AAAAUCGUCGAAAUAUACUCCCGUGAACUAGAAA-AAAUAAAGAACACAAAAAAUGUGCCUCAGUUCUAGUUUGGUUUCGAGAAAUUCUCUGUUCGCUCGGAGGGAAA-AAAUGGAAACU
....((.(((((((..((....))(((((((((.-......((..((((.....)))).))...))))))))).)))))))))..(((((((......)))))))...-....(....). ( -23.50)
>DroEre_CAF1 36362 118 + 1
AAAAUCGUUGUAAAAUACUCCCGUGAACUAGAAA-AAAUAAAGCACACAAAAAAUGUGCCUCAGUUCUAGUUUGGUUUCGAGAAAUUCUCUGUUCGCUCGGAGGGAAA-AAAUGGGAACU
..................(((((((((((((((.-.......(((((.......))))).....)))))))))............(((((((......)))))))...-..))))))... ( -28.52)
>DroYak_CAF1 43010 119 + 1
AAAAUCGUCGUAAAAUACUCCCGUGAACUAGAAAAAAAUAAAGCACACAAAAAAUGUGCCUCAGUUCUAGUUUUCUUUCGAGAAACUCUCUGUUCGCUCGGAGGGAAA-AAAUGGAAACU
..................(((((.(((((((((.........(((((.......))))).....))))))))).).((((((.(((.....)))..))))))))))..-....(....). ( -28.14)
>DroAna_CAF1 29602 120 + 1
AAAAUCGUCGUAAAAUACUCCCGUGAACUAGAAAAAAAUAAAGCGCACAAAAAAUGUGCCUCAGUUCUAGUUUGGUUUCGAGAAAUUCUCUGUUCGCCCCGAGGGAAAAAAAUGGAAACU
..................((((..(((((((((........((.(((((.....)))))))...)))))))))(((..((((.....))).)...)))....)))).......(....). ( -25.90)
>consensus
AAAAUCGUCGAAAAAUACUCCCGUGAACUAGAAA_AAAUAAAGCACACAAAAAAUGUGCCUCAGUUCUAGUUUGGUUUCGAGAAAUUCUCUGUUCGCUCGGAGGGAAA_AAAUGGAAACU
..................((((..(((((((((.........(((((.......))))).....)))))))))...((((((.(((.....)))..)))))))))).......(....). (-21.43 = -21.99 +   0.56)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 8

Location 2,682,968 – 2,683,086
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.90
Mean single sequence MFE -28.31
Consensus MFE -25.94
Energy contribution -25.86
Covariance contribution -0.08
Combinations/Pair 1.10
Mean z-score -2.04
Structure conservation index 0.92
SVM decision value 2.52
SVM RNA-class probability 0.994913
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2682968 118 - 27905053
AGUUUCCAUUU-UUUCCUUCCGAGCGAACAGAGAAUUUCUUGAAACUAAACUAGAACUGAGGCACAUUUUUUGUGUGCUUUAUUU-UUUCUAGUUCACGGGAGUAUUUUUCGACGAUUUU
...........-....((((((........(((.....))).......((((((((.((((((((((.....))))))))))...-.))))))))..))))))................. ( -27.40)
>DroSec_CAF1 42463 118 - 1
AGUUUCCAUUU-UUUCCCUCCGAGCGAACAGAGAAUUUCUCGAAACCAAACUAGAACUGAGGCACAUUUUUUGUGUGCUUUAUUU-UUUCUAGUUCACGGGAGUAUUUUUUGACGAUUUU
.(((.......-.(((((..((((.((........)).))))......((((((((.((((((((((.....))))))))))...-.))))))))...)))))........)))...... ( -30.59)
>DroSim_CAF1 35627 118 - 1
AGUUUCCAUUU-UUUCCCUCCGAGCGAACAGAGAAUUUCUCGAAACCAAACUAGAACUGAGGCACAUUUUUUGUGUUCUUUAUUU-UUUCUAGUUCACGGGAGUAUAUUUCGACGAUUUU
.(((.......-.(((((..((((.((........)).))))......((((((((..((((((((.....)))).)))).....-.))))))))...)))))........)))...... ( -23.69)
>DroEre_CAF1 36362 118 - 1
AGUUCCCAUUU-UUUCCCUCCGAGCGAACAGAGAAUUUCUCGAAACCAAACUAGAACUGAGGCACAUUUUUUGUGUGCUUUAUUU-UUUCUAGUUCACGGGAGUAUUUUACAACGAUUUU
.(((.......-.(((((..((((.((........)).))))......((((((((.((((((((((.....))))))))))...-.))))))))...)))))........)))...... ( -29.49)
>DroYak_CAF1 43010 119 - 1
AGUUUCCAUUU-UUUCCCUCCGAGCGAACAGAGAGUUUCUCGAAAGAAAACUAGAACUGAGGCACAUUUUUUGUGUGCUUUAUUUUUUUCUAGUUCACGGGAGUAUUUUACGACGAUUUU
.(((.......-.(((((..((((.((((.....))))))))...(..((((((((.((((((((((.....)))))))))).....))))))))..))))))........)))...... ( -32.59)
>DroAna_CAF1 29602 120 - 1
AGUUUCCAUUUUUUUCCCUCGGGGCGAACAGAGAAUUUCUCGAAACCAAACUAGAACUGAGGCACAUUUUUUGUGCGCUUUAUUUUUUUCUAGUUCACGGGAGUAUUUUACGACGAUUUU
.(((.........(((((...((.......(((.....)))....)).((((((((..((((((((.....))))).))).......))))))))...)))))........)))...... ( -26.13)
>consensus
AGUUUCCAUUU_UUUCCCUCCGAGCGAACAGAGAAUUUCUCGAAACCAAACUAGAACUGAGGCACAUUUUUUGUGUGCUUUAUUU_UUUCUAGUUCACGGGAGUAUUUUACGACGAUUUU
.(((.........(((((............(((.....))).......((((((((.((((((((((.....)))))))))).....))))))))...)))))........)))...... (-25.94 = -25.86 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:51 2006