Locus 4214

Sequence ID 3R_DroMel_CAF1
Location 11,358,964 – 11,359,204
Length 240
Max. P 0.948160
window6804 window6805

overview

Window 4

Location 11,358,964 – 11,359,084
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.58
Mean single sequence MFE -43.08
Consensus MFE -39.44
Energy contribution -40.04
Covariance contribution 0.60
Combinations/Pair 1.10
Mean z-score -1.49
Structure conservation index 0.92
SVM decision value 1.38
SVM RNA-class probability 0.948160
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11358964 120 - 27905053
UUUGUGUAUCAUGGAGUACCAGAUCGGUUACUUCGGACAAUACCCCGCUACGGUGGCUAUCUACCACAGCGAUGGCACCGUGGUGGUUUCCCAUGGAGGCAUUGAAAUGGGUCAAGGUGA
....(((....(((((((((.....)).))))))).))).(((((((((((((((.(((((.........))))))))))))))))...(((((............)))))....)))). ( -43.00)
>DroSec_CAF1 106512 120 - 1
UCUGUGUAUCAUGGAGUACCAGAUCGGUUACUUUGGGCAAUUCCCCGCUACGGUGGCUAUCUACCACAGCGAUGGCACCGUGGUGGUCUCCCAUGGAGGCAUUGAAAUGGGUCAAGGUGA
((((.((((......))))))))....(((((((((.(..(((..((((((((((.(((((.........)))))))))))))))((((((...))))))...)))...).))))))))) ( -45.70)
>DroSim_CAF1 97294 120 - 1
UCUGUGUAUCAUGGAGUACCAGAUCGGUUACUUCGGACAAUACCCCGCUACGGUGGCUAUCUACCACAGCGAUGGCACCGUGGUGGUCUCCCAUGGAGGCAUUGAAAUGGGUCAAGGUGA
....(((....(((((((((.....)).))))))).)))..((((((((((((((.(((((.........)))))))))))))))((((((...))))))........))))........ ( -44.30)
>DroEre_CAF1 93942 120 - 1
UCUGUGUAUCAUGGAGUACCAGAUCGGUUACUUUGGACAGUACCCCGCUACAGUGGCUAUCUACCAUAGCGAUGGCACCGUGGUGGUGUCCCAUGGAGGCAUUGAGAUGGGUCAAGGUGA
((((.((((......))))))))....((((((((.((((....((((....))))....)).((((..(((((.(.((((((.......)))))).).)))))..)))))))))))))) ( -40.80)
>DroYak_CAF1 96617 120 - 1
UCUGUGCAUCAUGGAGUACCAGAUCGGUUACUUUGGACAGUACCCCGCCACGGUGGCUAUCUACCAUAGCGAUGGCACCGUCGUGGUCUCCCAUGGAGGCAUUGAAAUGGGCCAAGGUAA
(((((((........))).))))....(((((((((......((((((.((((((.(((((.........))))))))))).)))((((((...))))))........)))))))))))) ( -41.60)
>consensus
UCUGUGUAUCAUGGAGUACCAGAUCGGUUACUUUGGACAAUACCCCGCUACGGUGGCUAUCUACCACAGCGAUGGCACCGUGGUGGUCUCCCAUGGAGGCAUUGAAAUGGGUCAAGGUGA
((((.((((......))))))))....(((((((((......(((((((((((((.(((((.........)))))))))))))))((((((...))))))........)))))))))))) (-39.44 = -40.04 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 11,359,084 – 11,359,204
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.50
Mean single sequence MFE -44.05
Consensus MFE -37.92
Energy contribution -37.96
Covariance contribution 0.04
Combinations/Pair 1.09
Mean z-score -1.52
Structure conservation index 0.86
SVM decision value 0.90
SVM RNA-class probability 0.878717
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11359084 120 - 27905053
ACCCGCCCAUAAAAUGGGCGACAUGAUGCCGCGAUUCCUGGAAAGUACCAAGUACAGGGAACGGAAGGCGGAGGCUAUAGCCCACAACAAGGAGAACCGCUGGCACAAGCGCGGAUUGGG
.(((((((((...)))))).....(((.(((((.((((((..............))))))...(..(((((.(((....)))..(.....).....)))))..).....))))))))))) ( -40.94)
>DroSec_CAF1 106632 120 - 1
ACCCGCCCAUAAAAUGGGCGACAUGAUGCCGCGAUUCCUGGAAAGUACCAAGUACAGGGAACGCAAGGCGGACGCUAUAGCCCACAACAAGGAGAAUCGCUGGCACAAGCGCGGCUUGGG
.(((((((((...))))))........((((((((((((.....((((...)))).(((..(....)((....)).....))).......)).)))))(((......))))))))..))) ( -43.60)
>DroSim_CAF1 97414 120 - 1
ACCCGCCCAUAAAAUGGGCGACAUGAUGCCGCGAUUCCUGGAAAGUACCAAGUACAGGGAACGCAAGGCGGACGCUAUAGCCCACAACAAGGAGAACCGCUGGCACAAGCGCGGAUUGGG
.(((((((((...))))))....((.(((((((.((((((..............)))))).)))..(((((..((....))((.......))....)))))))))))..........))) ( -42.34)
>DroEre_CAF1 94062 120 - 1
GCCCGCCCACAAAAUGGGCGACAUGAUGCCGCGAUUCCUGGAGAGCACCAAGUACAGGGAACGCAGGGCGGAGGUCGCUGCCCACAACAAGGAGAACCGCUGGCACAAGCGCGGCUUGGG
.((((((((.....)))))........((((((.((((((..............))))))..((.((((((......))))))....((.((....))..)))).....))))))..))) ( -46.84)
>DroYak_CAF1 96737 120 - 1
GCCCGCCCAUAAAAUGGGCGACAUGAUGCCGCGAUUCCUGGAGAGCACCAAGUACAGGGCACGCAGGGCGGAGAUCGCUGCCCACAACAAGGAGAACCGCUGGCGCAAGCGCGGAUUGGG
.(((((((((...)))))).........(((((..(((((..............)))))..))).((((((......)))))).......))....((((..((....))))))...))) ( -46.54)
>consensus
ACCCGCCCAUAAAAUGGGCGACAUGAUGCCGCGAUUCCUGGAAAGUACCAAGUACAGGGAACGCAAGGCGGAGGCUAUAGCCCACAACAAGGAGAACCGCUGGCACAAGCGCGGAUUGGG
.((((((((.....)))))....((.(((((((.((((((..............)))))).)))..(((((..((....))((.......))....)))))))))))..........))) (-37.92 = -37.96 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:58 2006