Locus 5975

Sequence ID	2R_DroMel_CAF1
Location	18,808,683 – 18,808,791
Length	108
Max. P	0.965963

overview

Window 5

Location	18,808,683 – 18,808,791
Length	108
Sequences	3
Columns	108
Reading direction	forward
Mean pairwise identity	92.38
Mean single sequence MFE	-34.60
Consensus MFE	-30.87
Energy contribution	-30.77
Covariance contribution	-0.11
Combinations/Pair	1.06
Mean z-score	-2.82
Structure conservation index	0.89
SVM decision value	1.45
SVM RNA-class probability	0.954744
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18808683 108 + 20766785
CCUUCAAUUAAGCUGGAUCGCAGUGCUUUAGACGGCAAAAACUUGUGGGACGCCUUCGAGUCCAGCUUAAUUGAGUUCUCCGCGGAUAUAUAUAUAUAAUAUAUGUGA
..((((((((((((((((((.((.((......(.((((....)))).)...)))).))).)))))))))))))))..........((((((((.....)))))))).. ( -34.20)
>DroSec_CAF1 596 99 + 1
CCUUCAAUUAAGCUGGAUCGCUGUGCUUUAGACGGCAAAAACUUGUGGGACGCCUUCGAGUCCAGCUUAAUUGAGUUCUCCGCGGAUG---------AAUGUAUGUGA
...((((((((((((((..(((((.......))))).....((((.(((...))).))))))))))))))))))((((((....)).)---------)))........ ( -34.80)
>DroSim_CAF1 656 99 + 1
CCUUCAAUUAAGCUGGAUCGCUGUGCUUUAGACGGCAAAAACUUGUGGGACGCCUUCGAGUCCAGCUUAAUUGAGUUCUCCGCGGAUG---------AAUGUAUGUGA
...((((((((((((((..(((((.......))))).....((((.(((...))).))))))))))))))))))((((((....)).)---------)))........ ( -34.80)
>consensus
CCUUCAAUUAAGCUGGAUCGCUGUGCUUUAGACGGCAAAAACUUGUGGGACGCCUUCGAGUCCAGCUUAAUUGAGUUCUCCGCGGAUG_________AAUGUAUGUGA
..(((((((((((((((..(((((.......))))).....((((.(((...))).))))))))))))))))))).....((((.(((...........))).)))). (-30.87 = -30.77 +  -0.11)

alignment

secondary structure

dotplot

Window 6

Location	18,808,683 – 18,808,791
Length	108
Sequences	3
Columns	108
Reading direction	reverse
Mean pairwise identity	92.38
Mean single sequence MFE	-29.32
Consensus MFE	-27.92
Energy contribution	-27.92
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.39
Structure conservation index	0.95
SVM decision value	1.59
SVM RNA-class probability	0.965963
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18808683 108 - 20766785
UCACAUAUAUUAUAUAUAUAUAUCCGCGGAGAACUCAAUUAAGCUGGACUCGAAGGCGUCCCACAAGUUUUUGCCGUCUAAAGCACUGCGAUCCAGCUUAAUUGAAGG
....((((((.....)))))).((....))....((((((((((((((.(((..((((.............))))((.....))....)))))))))))))))))... ( -29.52)
>DroSec_CAF1 596 99 - 1
UCACAUACAUU---------CAUCCGCGGAGAACUCAAUUAAGCUGGACUCGAAGGCGUCCCACAAGUUUUUGCCGUCUAAAGCACAGCGAUCCAGCUUAAUUGAAGG
.........((---------(.((....))))).((((((((((((((.(((..((((.............))))((.....))....)))))))))))))))))... ( -29.22)
>DroSim_CAF1 656 99 - 1
UCACAUACAUU---------CAUCCGCGGAGAACUCAAUUAAGCUGGACUCGAAGGCGUCCCACAAGUUUUUGCCGUCUAAAGCACAGCGAUCCAGCUUAAUUGAAGG
.........((---------(.((....))))).((((((((((((((.(((..((((.............))))((.....))....)))))))))))))))))... ( -29.22)
>consensus
UCACAUACAUU_________CAUCCGCGGAGAACUCAAUUAAGCUGGACUCGAAGGCGUCCCACAAGUUUUUGCCGUCUAAAGCACAGCGAUCCAGCUUAAUUGAAGG
......................((....))....((((((((((((((.(((..((((.............))))((.....))....)))))))))))))))))... (-27.92 = -27.92 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:27 2006