Locus 559

Sequence ID 3R_DroMel_CAF1
Location 2,086,088 – 2,086,200
Length 112
Max. P 0.517100
window889

overview

Window 9

Location 2,086,088 – 2,086,200
Length 112
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 71.59
Mean single sequence MFE -27.95
Consensus MFE -18.55
Energy contribution -17.67
Covariance contribution -0.89
Combinations/Pair 1.35
Mean z-score -0.93
Structure conservation index 0.66
SVM decision value -0.03
SVM RNA-class probability 0.517100
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2086088 112 + 27905053
AUUCAAAAAAAAAAUAAUACAAAA-AAGGAAAUACCCAUCACGAGCCAUGUUCAAGUUCGUGUGCCUUUUUGCGCUGAUUGCCUCCACGGCGGCGGCUACCUCGGAAGCGGAC
.....................(((-((((..........(((((((.........)))))))..)))))))..((((.(((((.....)))))))))..((.(....).)).. ( -28.40)
>DroPse_CAF1 205446 95 + 1
GAGUUGAUCAAUU--AAU-------------CAACCAAUC---AAUCAUGUUCAAGUUUGUGUGCUUAUUCGCGCUGAUCGCCUCAACGGCGGCAGCCGCCUCCGAGGCAGAC
(.((((((.....--.))-------------)))))....---................((.(((((....((((((.(((((.....)))))))).))).....))))).)) ( -27.70)
>DroEre_CAF1 230352 109 + 1
AUUCAGAG-AAUA--AAUACGAGC-AAGGAAAUACCCAUCCGGAGCCAUGUUCAAGUUCGUGUGCCUUUUUGCGCUGAUUGCCUCCACGGCGGCGGCUACCUCGGAAGCGGAC
...(((((-(...--.((((((((-..(((........))).((((...))))..))))))))...)))))).((((.(((((.....)))))))))..((.(....).)).. ( -33.00)
>DroYak_CAF1 232775 110 + 1
AUUCAAAA-AAUA--AAUACGAAAAAAGGAAAUACCCAACCCGAGCCAUGUUCAAGUUUGUGUGCCUUUUUGCGCUGAUUGCCUCCACGGCGGCAGCUACCUCGGAAGCGGAC
...(((((-(...--.(((((((....((......)).....((((...))))...)))))))...)))))).((((.(((((.....)))))))))..((.(....).)).. ( -27.10)
>DroAna_CAF1 205771 97 + 1
---CAGAG-AAAA----CUC---A-AAUCAAAAACCUA----AAAUCAUGUUUAAGUUCGUGUGUUUGUUCGCGCUGAUUGCCUCCACGGCAGCAGCCGCUUCUGAGGCCGAC
---(((((-....----..(---(-(((((..(((.((----((......)))).)))..)).)))))...((((((.(((((.....)))))))).))))))))........ ( -23.80)
>DroPer_CAF1 207179 95 + 1
GAGUUGAUCAAUU--AAU-------------CAACCAAUC---AAUCAUGUUCAAGUUUGUGUGCUUAUUCGCGCUGAUCGCCUCAACGGCGGCAGCCGCCUCCGAGGCAGAC
(.((((((.....--.))-------------)))))....---................((.(((((....((((((.(((((.....)))))))).))).....))))).)) ( -27.70)
>consensus
AUUCAGAA_AAUA__AAUAC___A_AAGGAAAAACCCAUC__GAACCAUGUUCAAGUUCGUGUGCCUUUUCGCGCUGAUUGCCUCCACGGCGGCAGCCACCUCGGAAGCGGAC
.......................................................((((((..((......))((((.(((((.....)))))))))..........)))))) (-18.55 = -17.67 +  -0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:02 2006