Locus 7697

Sequence ID X_DroMel_CAF1
Location 19,195,927 – 19,196,047
Length 120
Max. P 0.959118
window12623 window12624

overview

Window 3

Location 19,195,927 – 19,196,047
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 96.65
Mean single sequence MFE -28.93
Consensus MFE -26.19
Energy contribution -26.25
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -2.85
Structure conservation index 0.91
SVM decision value 1.50
SVM RNA-class probability 0.959118
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19195927 120 + 22224390
CGCACACACAAUAUGUGCAUGUGUGCGUGAAUGAAUAUACGAAAAAUCAAUUAAAACUUUUAAUUGAAAGAAAGAUUUAAGUGAAAUUAAAUUUUUUUUCGCCUCUGUUCGUCAGCUGAU
.(((((((...........)))))))((..(((((((..((((...((((((((.....))))))))..(((((((((((......)))))))))))))))....)))))))..)).... ( -29.30)
>DroSec_CAF1 17536 118 + 1
CGCACACACAAUAUGUGCAUGUGUGCGUGAAUGAAUAUACGAAAAAUCAAUUAAAACUUUUAAUUGAAAGAAAGAUUCAAGUGAAAUUAAAUUU--UUUCGCCUCUGUUCGUCAGCUGAU
.(((((((...........)))))))((..(((((((..(((((((((((((((.....))))))))........(((....))).......))--)))))....)))))))..)).... ( -26.20)
>DroEre_CAF1 14896 118 + 1
CGCACACACAAUAUGUGCAUGUGUGCGUGAAUGAAUAUACGAAAAAUCAAUUAAAACUUUUAAUUGAAAGAAAGAUUUAAGUGAAAUUAAAUUU--UUUCGCCCCUGUUCGUCAGCUCAU
.(((((((...........)))))))((..(((((((..((((((.((((((((.....))))))))......(((((((......))))))))--)))))....)))))))..)).... ( -27.40)
>DroYak_CAF1 14688 119 + 1
CGCACACACAAUGUGUGCAUGUGUGCGUGAAUGAAUAUACGGAAAAUCAAUUAAAACUUUUAAUUGAAAGAAAGAUUUAAGUGAAAUUAAAUUU-UUUUCGCCCCUGUUCGUCAGCUCAU
.((((((.....))))))..(((.((.(((.((((((...((....((((((((.....)))))))).((((((((((((......))))))))-))))..))..))))))))))).))) ( -32.80)
>consensus
CGCACACACAAUAUGUGCAUGUGUGCGUGAAUGAAUAUACGAAAAAUCAAUUAAAACUUUUAAUUGAAAGAAAGAUUUAAGUGAAAUUAAAUUU__UUUCGCCCCUGUUCGUCAGCUCAU
.(((((((...........)))))))((..(((((((..(((((..((((((((.....)))))))).....((((((((......))))))))..)))))....)))))))..)).... (-26.19 = -26.25 +   0.06)

alignment

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secondary structure

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dotplot

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Window 4

Location 19,195,927 – 19,196,047
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 96.65
Mean single sequence MFE -26.48
Consensus MFE -23.39
Energy contribution -23.20
Covariance contribution -0.19
Combinations/Pair 1.06
Mean z-score -2.26
Structure conservation index 0.88
SVM decision value 0.85
SVM RNA-class probability 0.866251
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19195927 120 - 22224390
AUCAGCUGACGAACAGAGGCGAAAAAAAAUUUAAUUUCACUUAAAUCUUUCUUUCAAUUAAAAGUUUUAAUUGAUUUUUCGUAUAUUCAUUCACGCACACAUGCACAUAUUGUGUGUGCG
..........(((..((.((((((((..((((((......)))))).......((((((((.....))))))))))))))))...))..))).(((((((((.........))))))))) ( -26.70)
>DroSec_CAF1 17536 118 - 1
AUCAGCUGACGAACAGAGGCGAAA--AAAUUUAAUUUCACUUGAAUCUUUCUUUCAAUUAAAAGUUUUAAUUGAUUUUUCGUAUAUUCAUUCACGCACACAUGCACAUAUUGUGUGUGCG
..........(((..((.((((((--((((((((......)))))).......((((((((.....))))))))))))))))...))..))).(((((((((.........))))))))) ( -26.80)
>DroEre_CAF1 14896 118 - 1
AUGAGCUGACGAACAGGGGCGAAA--AAAUUUAAUUUCACUUAAAUCUUUCUUUCAAUUAAAAGUUUUAAUUGAUUUUUCGUAUAUUCAUUCACGCACACAUGCACAUAUUGUGUGUGCG
((((((((.....)))..((((((--((((((((......)))))).......((((((((.....))))))))))))))))...)))))...(((((((((.........))))))))) ( -27.40)
>DroYak_CAF1 14688 119 - 1
AUGAGCUGACGAACAGGGGCGAAAA-AAAUUUAAUUUCACUUAAAUCUUUCUUUCAAUUAAAAGUUUUAAUUGAUUUUCCGUAUAUUCAUUCACGCACACAUGCACACAUUGUGUGUGCG
.((((.(((......((((.((((.-..((((((......)))))).))))..((((((((.....))))))))..))))......)))))))(((((((((.........))))))))) ( -25.00)
>consensus
AUCAGCUGACGAACAGAGGCGAAA__AAAUUUAAUUUCACUUAAAUCUUUCUUUCAAUUAAAAGUUUUAAUUGAUUUUUCGUAUAUUCAUUCACGCACACAUGCACAUAUUGUGUGUGCG
..........(((..((.((((((....((((((......)))))).......((((((((.....))))))))..))))))...))..))).(((((((((.........))))))))) (-23.39 = -23.20 +  -0.19)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:18 2006