Locus 1242

Sequence ID X_DroMel_CAF1
Location 3,701,710 – 3,701,829
Length 119
Max. P 0.573186
window1997

overview

Window 7

Location 3,701,710 – 3,701,829
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.50
Mean single sequence MFE -41.59
Consensus MFE -26.04
Energy contribution -26.93
Covariance contribution 0.89
Combinations/Pair 1.27
Mean z-score -1.71
Structure conservation index 0.63
SVM decision value 0.08
SVM RNA-class probability 0.573186
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3701710 119 + 22224390
UUCGGCCAAAGCCGUUGAGUGCAAUUUGUGCCGCAAGCGGCAUGUGAUCGCACCGGCGGUAUAUUGCACCAACUGCGAGUACUACCUGCAGAUGCUGAACCAGCGCAGAUGAUGAU-GAU
.(((..((..(((((((.((((.((((((((((....))))))).))).)))))))))))...((((.....(((((.(.....).)))))..((((...)))))))).)).))).-... ( -41.70)
>DroVir_CAF1 79926 119 + 1
CUCCGCGAAGGCUGUCGAAUGCAAUCUGUGCCGCAAGCGGCACGUGAUUGCGCCCGCCGUCUACUGCACCAACUGCGAGUACUAUCUGCAGAUGCUCAACCAGCGCAGAUGAUGAU-GAU
....((....))...((..((((((((((((((....))))))).)))))))..)).((((..((((.....((((((......)).))))..(((.....)))))))..))))..-... ( -43.70)
>DroGri_CAF1 53841 119 + 1
CUCCGCAAAGGCCGUCGAGUGCAAUCUGUGCCGGAAACGGCACGUGAUUGCCCCCGCCGUCUACUGCACCAACUGUGAAUACUAUCUGCAGAUGCUGAACCAGCGCAGAUGAUGCU-AAU
....(((.((((.(.((.(.(((((((((((((....))))))).)))))).).))).)))).((((.....((((((......)).))))..((((...))))))))....))).-... ( -46.60)
>DroWil_CAF1 41205 118 + 1
CUCGGCCAAGGCUGUGGAAUGUAAUCUAUGUCGCAAACGGCAUGUGAUAGCUCCGGCUGUCUAUUGCAAUAACUGUGAAUAUUAUUUGCAAAUGCUCAAUCAAAGGAGAUGAUAAA-GA-
(.((((....)))).)...(((((...((((((((....(((...((((((....))))))...)))......)))).))))...)))))....(((........)))........-..- ( -28.20)
>DroMoj_CAF1 52618 119 + 1
CUCGGCCAAGGCCGUCGAGUGCAAUCUGUGCCGCAAGCGCCACGUGAUUGCGCCCUCGAUCUACUGCACCAACUGCGAGUACUAUCUGCAGAUGCUAAACCAGCGCAGAUGAUGUCUGA-
..((((....))))((((((((((((((((.((....)).)))).))))))))..))))....((((.....((((((......)).))))..(((.....)))))))...........- ( -42.30)
>DroAna_CAF1 36848 119 + 1
CUCGGCCAAGGCGGUGGAGUGCAAUCUGUGCCGCAAGAGGCAUGUGAUCGCGCCGGCCGUCUAUUGCACCAACUGCGAUUACUACCUACAGAUGCUGAAUCAGCGUCGGUGAUCCU-GAA
.((((...(((((((.(.((((.(((((((((......)))))).))).))))).)))))))...(((.....)))(((((((.......(((((((...))))))))))))))))-)). ( -47.01)
>consensus
CUCGGCCAAGGCCGUCGAGUGCAAUCUGUGCCGCAAGCGGCACGUGAUUGCGCCCGCCGUCUACUGCACCAACUGCGAGUACUAUCUGCAGAUGCUGAACCAGCGCAGAUGAUGAU_GAU
....((..((((.((.(.((((.((((((((((....))))))).))).))))).)).))))...))...............(((((((....(((.....))))))))))......... (-26.04 = -26.93 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:47 2006