Locus 8039

Sequence ID 3R_DroMel_CAF1
Location 21,607,162 – 21,607,272
Length 110
Max. P 0.999910
window12941 window12942

overview

Window 1

Location 21,607,162 – 21,607,272
Length 110
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 95.64
Mean single sequence MFE -24.17
Consensus MFE -22.97
Energy contribution -23.41
Covariance contribution 0.44
Combinations/Pair 1.04
Mean z-score -2.55
Structure conservation index 0.95
SVM decision value 4.50
SVM RNA-class probability 0.999910
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21607162 110 + 27905053
AUAGAUUUAUUGCGAAAGUUUUGUGAUUACUUUCCUUUUUAUCCCAGCAGCCUUCGUCUGCUGGGGGAUAUU--UUCAUUUUUUUGUUCGCAUAUUUUUCAUGGCAUUUUCC
...((.....((((((......((((......(((.......(((((((((....).)))))))))))....--.)))).......))))))......))............ ( -26.73)
>DroSec_CAF1 96188 109 + 1
AUAGAUUUAUUGCGAAAGUUUUGUGAUUACUUUCCUUUUUAUCCCGGCAGCCUCCGUCUGCUGGCGGAUAUU--UUCAUUU-UUUGUUCGCAUAUUUUUCAUGGCAUUUACC
...((.....((((((......((((......(((........((((((((....).))))))).)))....--.))))..-....))))))......))............ ( -22.50)
>DroSim_CAF1 90979 109 + 1
AUAGAUUUAUUGCGAAAGUUUUGUGAUUACUUUCCUUUUUAUCCCGGCAGCCUCCGUCUGCUGGCGGAUAUU--UUCAUUU-UUUGUUCGCAUAUUUUUCAUGGCAUUUUCC
.............((((((.(..(((..................(((((((....).))))))(((((((..--.......-..))))))).......)))..).)))))). ( -23.10)
>DroEre_CAF1 88383 111 + 1
AUAGAUUUAUUGCGAAAGUUUUGUGAUUACUUUCCUUUUUAUCCCGGCUGCCUCCGUCUGCUGGGGGAUAUUUUUUCAUUU-UUUAUUCGCAUAUUUUUCAUGGCAUUUUUC
...((.....((((((......((((......(((.......((((((.((....))..))))))))).......))))..-....))))))......))............ ( -21.93)
>DroYak_CAF1 91175 109 + 1
AUAGAUUUAUUGCGAAAGUUUUGUGAUUACUUUCCUUUUUAGCCCGGCAGCCUCCGUCUGCUGGGGGAUAUU--UUCAUUU-UUUGUUCGCAUAUUUUUCAUGGCAUUUUUC
...((.....((((((......((((......(((.......(((((((((....).)))))))))))....--.))))..-....))))))......))............ ( -26.61)
>consensus
AUAGAUUUAUUGCGAAAGUUUUGUGAUUACUUUCCUUUUUAUCCCGGCAGCCUCCGUCUGCUGGGGGAUAUU__UUCAUUU_UUUGUUCGCAUAUUUUUCAUGGCAUUUUCC
...((.....((((((......((((......(((.......(((((((((....).))))))))))).......)))).......))))))......))............ (-22.97 = -23.41 +   0.44)

alignment

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secondary structure

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dotplot

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Window 2

Location 21,607,162 – 21,607,272
Length 110
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 95.64
Mean single sequence MFE -20.29
Consensus MFE -16.78
Energy contribution -17.58
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.27
Structure conservation index 0.83
SVM decision value 1.80
SVM RNA-class probability 0.977734
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21607162 110 - 27905053
GGAAAAUGCCAUGAAAAAUAUGCGAACAAAAAAAUGAA--AAUAUCCCCCAGCAGACGAAGGCUGCUGGGAUAAAAAGGAAAGUAAUCACAAAACUUUCGCAAUAAAUCUAU
((......))..........(((...............--.......((((((((.(....)))))))))........((((((.........))))))))).......... ( -26.60)
>DroSec_CAF1 96188 109 - 1
GGUAAAUGCCAUGAAAAAUAUGCGAACAAA-AAAUGAA--AAUAUCCGCCAGCAGACGGAGGCUGCCGGGAUAAAAAGGAAAGUAAUCACAAAACUUUCGCAAUAAAUCUAU
(((....)))..........(((.......-.......--....((((.((((........)))).))))........((((((.........))))))))).......... ( -21.00)
>DroSim_CAF1 90979 109 - 1
GGAAAAUGCCAUGAAAAAUAUGCGAACAAA-AAAUGAA--AAUAUCCGCCAGCAGACGGAGGCUGCCGGGAUAAAAAGGAAAGUAAUCACAAAACUUUCGCAAUAAAUCUAU
((......))..........(((.......-.......--....((((.((((........)))).))))........((((((.........))))))))).......... ( -19.50)
>DroEre_CAF1 88383 111 - 1
GAAAAAUGCCAUGAAAAAUAUGCGAAUAAA-AAAUGAAAAAAUAUCCCCCAGCAGACGGAGGCAGCCGGGAUAAAAAGGAAAGUAAUCACAAAACUUUCGCAAUAAAUCUAU
....................(((.......-...........((((((...((........))....)))))).....((((((.........))))))))).......... ( -16.30)
>DroYak_CAF1 91175 109 - 1
GAAAAAUGCCAUGAAAAAUAUGCGAACAAA-AAAUGAA--AAUAUCCCCCAGCAGACGGAGGCUGCCGGGCUAAAAAGGAAAGUAAUCACAAAACUUUCGCAAUAAAUCUAU
....................((((((....-...(((.--....((((((.((((.(....))))).))).......)))......))).......)))))).......... ( -18.05)
>consensus
GGAAAAUGCCAUGAAAAAUAUGCGAACAAA_AAAUGAA__AAUAUCCCCCAGCAGACGGAGGCUGCCGGGAUAAAAAGGAAAGUAAUCACAAAACUUUCGCAAUAAAUCUAU
....................(((...................((((((...((((.(....))))).)))))).....((((((.........))))))))).......... (-16.78 = -17.58 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:04 2006