Locus 580

Sequence ID 3L_DroMel_CAF1
Location 1,676,437 – 1,676,527
Length 90
Max. P 0.513523
window887

overview

Window 7

Location 1,676,437 – 1,676,527
Length 90
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 75.34
Mean single sequence MFE -31.65
Consensus MFE -13.40
Energy contribution -14.13
Covariance contribution 0.72
Combinations/Pair 1.12
Mean z-score -1.93
Structure conservation index 0.42
SVM decision value -0.04
SVM RNA-class probability 0.513523
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1676437 90 + 23771897
AGUUUGAGGCCAGCCUGUGUGGGUUGUGGCUCAGGCGAAUUCCUUCGCCAUCGACUAAAGAUCUUCAGUUGCUGGCGGAGUUCAUU--GGCG
.(((((((.(((((((....)))))).).)))))))(((((((...((((.(((((.((....)).))))).)))))))))))...--.... ( -38.70)
>DroSec_CAF1 38437 84 + 1
ACUUUGGGGCCAGCCUGUGUGGGUUGUGGCUCAGGCGAAUUCCUUCGC------CUGAACAUCUUCAGAUGCUGGAGGAGUUCAUU--GGCG
........(((((((((.((.(....).)).)))))((((((((((((------(((((....)))))..)).))))))))))..)--))). ( -36.30)
>DroSim_CAF1 38437 84 + 1
ACUUUGGGGCCAGCCUGUGUGGGUUGUGGCUCAGGCGAAUUCCUUCGC------CUGAACAUCUUCAGCUGCUGGCGGAGUUCAUU--GGCG
(((((...((((((..((...((..(((..(((((((((....)))))------)))).)))..)).)).))))))))))).....--.... ( -32.20)
>DroEre_CAF1 42001 76 + 1
AUUUCGGGCCCAGCUUGUGUGGGUUGUGGCUCAGGCGAAUUCCUC--------------CUUCUCCAGCUGCUGGCGGAGUUCAUU--GGCG
.....(((((((((((....)))))).)))))....(((((((.(--------------(..(.......)..)).)))))))...--.... ( -26.80)
>DroYak_CAF1 39131 90 + 1
AUUUUGGGCUCAGCUUGUGUGGGUUGUGGCUCAGGCGAAUUCCUUUGCCUUGGCCAGAACUUCUUCAGCUGCUGGCGAAGUUCAUU--GGCG
....((((((((((((....)))))).))))))((((((....))))))...(((((((((((.((((...)))).)))))))..)--))). ( -35.70)
>DroPer_CAF1 43496 83 + 1
AGUUUG---------UGUGUGGGUUGCAGCUCAGGCGCAUUCCUGGGCCACAGUUUCAACGUCUUCUGGUUCUUGAGAAUUGAAUUUAAACG
.(((((---------(((.(((((....))))).)))).(((..((((((.((.........))..))))))..)))..........)))). ( -20.20)
>consensus
ACUUUGGGGCCAGCCUGUGUGGGUUGUGGCUCAGGCGAAUUCCUUCGC______CUGAACAUCUUCAGCUGCUGGCGGAGUUCAUU__GGCG
............(((.((.(((((....))))).))(((((((.................................))))))).....))). (-13.40 = -14.13 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:50 2006