Locus 2014

Sequence ID 3L_DroMel_CAF1
Location 5,542,120 – 5,542,220
Length 100
Max. P 0.796595
window3152

overview

Window 2

Location 5,542,120 – 5,542,220
Length 100
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 80.10
Mean single sequence MFE -43.38
Consensus MFE -29.67
Energy contribution -30.45
Covariance contribution 0.78
Combinations/Pair 1.22
Mean z-score -1.71
Structure conservation index 0.68
SVM decision value 0.60
SVM RNA-class probability 0.796595
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5542120 100 + 23771897
CUCGGCCAUGCGCUGGAUGUUCCUCAGAUCCUCGGCGGUGAUGCCAACGCGCUGCAGGGCCAUUCCGAAGGGCAUGGGCUGGAUCUGAAUCUGGGGGAUC--------------
..((((.....))))(((.((((((((((((...((((((.((....)))))))).((.((((.((....)).)))).))))))))))....)))).)))-------------- ( -41.10)
>DroVir_CAF1 6207 114 + 1
CUCGGCCAUGCGCUGAAUGUUGCGCAAAUCGUCAGCGGUGAUGCCCACGCGCUGCAGUGCCAUGCCCAGUGGCAUGUGCUGGAUCUGGAUCUGUGGCAUCUCGCGCUGUGGCAU
....(((((((((........)))))......((((((.((((((.((((((....(((((((.....))))))))))).((((....)))))))))))).).))))))))).. ( -50.10)
>DroWil_CAF1 8443 96 + 1
CUCGGCAAUGCGCUGAAUGUUACGCAAAUCAUCGGCAGUAAUGCCGACACGUUGCAGGGCCAUGCCCAAGGGCAUGUGCUGGAUUUGGAUCUGGGG------------------
.(((((.....))))).......((((....((((((....))))))....))))..(((((((((....)))))).)))((((....))))....------------------ ( -37.80)
>DroMoj_CAF1 6055 99 + 1
CUCGGCCAUGCGCUGAAUGUUGCGCAGAUCGUCGGCGGUGAUGCCCACACGCUGCAGUGCCAUACCCAGAGGCAUGUGCUGGAUCUGAAUCUGUGG---------------CAU
....(((((((((........))))(((((..((((((((.....))).)))))(((..(.((.((....)).)))..))))))))......))))---------------).. ( -37.70)
>DroAna_CAF1 6780 100 + 1
CUCAGCCAUGCGCUGGAUGUUUCUCAGAUCCUCGGCGGUGAUACCAACGCGCUGGAGAGCCAUGCCGAAAGGCAUUGGCUGGAUCUGGAUCUGGGGCACC--------------
........(((.(..(((.....((((((((((((((((.......)).))))))..(((((((((....)))).))))))))))))))))..).)))..-------------- ( -47.30)
>DroPer_CAF1 7911 100 + 1
CUCGGCCAUGCGCUGGAUGCUGCGCAGAUCAUCGGCGGUGAUGCCCACACGCUGCAGGGCCAUGCCCAGGGGCAUGUGCUGGAUCUGGAUCUGUGGCAUC--------------
..((((.....))))(((((..((((((((..((((((((.....))).)))))((((((((((((....)))))).)))....))))))))))))))))-------------- ( -46.30)
>consensus
CUCGGCCAUGCGCUGAAUGUUGCGCAGAUCAUCGGCGGUGAUGCCCACACGCUGCAGGGCCAUGCCCAAGGGCAUGUGCUGGAUCUGGAUCUGGGGCAUC______________
.(((((.....)))))......((((((((..(((((((.......)).)))))((((((((((((....)))))).)))....)))))))))))................... (-29.67 = -30.45 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:29 2006