Locus 6626

Sequence ID 3R_DroMel_CAF1
Location 17,426,763 – 17,426,881
Length 118
Max. P 0.989284
window10786 window10787

overview

Window 6

Location 17,426,763 – 17,426,881
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.23
Mean single sequence MFE -38.85
Consensus MFE -29.44
Energy contribution -32.48
Covariance contribution 3.04
Combinations/Pair 1.10
Mean z-score -2.99
Structure conservation index 0.76
SVM decision value 2.16
SVM RNA-class probability 0.989284
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17426763 118 + 27905053
UCCCCCGGGAGCCUGGGAAAAAUUAUCAGUUGCCACACAUAACUCCCGCCCAAAAGGCGAAGGAG--GCGAACUAAACUGAUAAUAAAAGGGAUUCCCACCGGCAUAAGGCUCUUGGGUA
...(((((((((((.((....((((((((((...........((((((((.....))))..))))--........))))))))))....(((...))).))......))))))))))).. ( -44.51)
>DroSec_CAF1 30658 118 + 1
UCCCCCGGGAGCCUGGGAAAA--UAUCAGUUGCCACACAUAACUCCCGCCCAAAAGGCGAAGGAGGGGCGAACUAAACUGAUAAUAAAAGGGAUUCCCGCCGGCAUGAGGCUCUUGGGUA
...(((((((((((.(.....--(((((((((((........((((((((.....))))..)))).)))......))))))))......(((...))).......).))))))))))).. ( -44.80)
>DroSim_CAF1 28001 118 + 1
UCCCCCGGGAGCCUGGGAAAA--UAUCAGUUGCCACACAUAACUCCCGCCCAAAAGGCGAAGGAGGGGCGAACUAAACUGAUAAUAAAAGGGAUUCCCACCGGCAUGGGGCUCUUGGGUA
...((((((((((((((((..--(((((((((((........((((((((.....))))..)))).)))......))))))))..........))))))((.....)))))))))))).. ( -45.10)
>DroEre_CAF1 30419 116 + 1
UCCCUCAGGAGCCUGGGAAAA--UAUCAGUUGCCACACAUAACUCCCGCCCAAAAGGCGAAGGAU--GCGAACUAAACUGAUAAUAAAAGGGAUUCCCACAGGCGUGAGACUCUUGGGUA
...((((((((((((......--((((((((....(.(((..((..((((.....))))..))))--).).....))))))))......(((...))).))))(....).)))))))).. ( -34.80)
>DroYak_CAF1 28515 97 + 1
UCCCACGGGAGCCUGGGAAAA--UAUCAGUUGCCACACAGAACUCGAGCCCAAAAGGCGAAGAAU--GCGAACUAAACUGAUAAUAAAAGGGAUUCCCACA-------------------
......((((((((.......--((((((((....(.((....((..(((.....)))...)).)--).).....))))))))......))).)))))...------------------- ( -25.02)
>consensus
UCCCCCGGGAGCCUGGGAAAA__UAUCAGUUGCCACACAUAACUCCCGCCCAAAAGGCGAAGGAG__GCGAACUAAACUGAUAAUAAAAGGGAUUCCCACCGGCAUGAGGCUCUUGGGUA
...(((((((((((.........((((((((...........((((((((.....))))..))))..........))))))))......(((...))).........))))))))))).. (-29.44 = -32.48 +   3.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 17,426,763 – 17,426,881
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.23
Mean single sequence MFE -37.86
Consensus MFE -27.98
Energy contribution -30.30
Covariance contribution 2.32
Combinations/Pair 1.06
Mean z-score -1.72
Structure conservation index 0.74
SVM decision value 0.23
SVM RNA-class probability 0.643079
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17426763 118 - 27905053
UACCCAAGAGCCUUAUGCCGGUGGGAAUCCCUUUUAUUAUCAGUUUAGUUCGC--CUCCUUCGCCUUUUGGGCGGGAGUUAUGUGUGGCAACUGAUAAUUUUUCCCAGGCUCCCGGGGGA
..(((..((((((.........(((((........((((((((((..((((((--((((..((((.....))))))))....))).)))))))))))))..)))))))))))...))).. ( -41.70)
>DroSec_CAF1 30658 118 - 1
UACCCAAGAGCCUCAUGCCGGCGGGAAUCCCUUUUAUUAUCAGUUUAGUUCGCCCCUCCUUCGCCUUUUGGGCGGGAGUUAUGUGUGGCAACUGAUA--UUUUCCCAGGCUCCCGGGGGA
..(((..((((((...(....)(((((..........((((((((..((((((..((((..((((.....))))))))....))).)))))))))))--..)))))))))))...))).. ( -41.20)
>DroSim_CAF1 28001 118 - 1
UACCCAAGAGCCCCAUGCCGGUGGGAAUCCCUUUUAUUAUCAGUUUAGUUCGCCCCUCCUUCGCCUUUUGGGCGGGAGUUAUGUGUGGCAACUGAUA--UUUUCCCAGGCUCCCGGGGGA
..(((..(((((((.....))((((((..........((((((((..((((((..((((..((((.....))))))))....))).)))))))))))--..)))))))))))...))).. ( -42.40)
>DroEre_CAF1 30419 116 - 1
UACCCAAGAGUCUCACGCCUGUGGGAAUCCCUUUUAUUAUCAGUUUAGUUCGC--AUCCUUCGCCUUUUGGGCGGGAGUUAUGUGUGGCAACUGAUA--UUUUCCCAGGCUCCUGAGGGA
..(((..(.....)..(((((.(((((..........((((((((..((((((--((.(((((((.....))).))))..))))).)))))))))))--.))))))))))......))). ( -37.20)
>DroYak_CAF1 28515 97 - 1
-------------------UGUGGGAAUCCCUUUUAUUAUCAGUUUAGUUCGC--AUUCUUCGCCUUUUGGGCUCGAGUUCUGUGUGGCAACUGAUA--UUUUCCCAGGCUCCCGUGGGA
-------------------..((((((..........((((((((..((.(((--((.(((.(((.....)))..)))....)))))))))))))))--..))))))...(((....))) ( -26.80)
>consensus
UACCCAAGAGCCUCAUGCCGGUGGGAAUCCCUUUUAUUAUCAGUUUAGUUCGC__CUCCUUCGCCUUUUGGGCGGGAGUUAUGUGUGGCAACUGAUA__UUUUCCCAGGCUCCCGGGGGA
..(((..(((((.........((((((..........((((((((..((((((..((((..((((.....))))))))....))).)))))))))))....)))))))))))....))). (-27.98 = -30.30 +   2.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:13 2006