Locus 7666

Sequence ID	3L_DroMel_CAF1
Location	20,574,070 – 20,574,230
Length	160
Max. P	0.932143

overview

Window 9

Location	20,574,070 – 20,574,190
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	91.39
Mean single sequence MFE	-27.95
Consensus MFE	-22.91
Energy contribution	-23.35
Covariance contribution	0.44
Combinations/Pair	1.13
Mean z-score	-1.75
Structure conservation index	0.82
SVM decision value	0.48
SVM RNA-class probability	0.754365
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20574070 120 + 23771897
GUAAGGAUAAAGACAAAGAAAAGAAUUUGAAAAGGAACCUAAAUAAGGAUAAGGACGCUAAUAAGAUGGACGAUCGACCAAAGUGGGGCGUCAAUCGUCCGGUUGUCCAGUAUGUAAAAG
....((((((...((((........))))....(((.(((.....))).....((((((.....(((.....)))..((.....)))))))).....)))..))))))............ ( -25.20)
>DroSec_CAF1 18986 120 + 1
GUAAGGAUAAGGACAAAGACAAGAAUUUGAAAAGGAACCUAAACAAGGAUAAGGACGCCAAUAAGAUGGACGAUCGACCAAAGUGGGGCGUCAAUCGUCCGGUUGUCCAGUAUGUAAAGG
....(((((.((((...........((((...((....))...))))(((...((((((.....(((.....)))..((.....)))))))).)))))))...)))))............ ( -29.40)
>DroSim_CAF1 12483 120 + 1
GCAAGGAUAAGGACAAAGACAAGAAUUUGAAAAGGAGCCUAAACAAGGAUAAGGACGCCAAUAAGAUGGACGAUCGACCAAAGUGGGGCGUCAAUCGUCCGGUUGUCCAGUAUGUAAAGG
....(((((.((((...........((((...((....))...))))(((...((((((.....(((.....)))..((.....)))))))).)))))))...)))))............ ( -29.40)
>DroEre_CAF1 12211 120 + 1
GCAAAGAUAAAGACAAAGACAAGAGUUUCAAAAAGAAUUUAAGCAAGGAUAAGGACGCCAACAAGAUGGAUGAUCGGCCCAAGUGGGGCGUCAAUCGUCCGGUGGUCCAGUACGUAAAGG
((..((((........((((....))))........))))..))..((((..((((((((......))).(((.((.(((....))).)))))..)))))....))))............ ( -27.79)
>consensus
GCAAGGAUAAAGACAAAGACAAGAAUUUGAAAAGGAACCUAAACAAGGAUAAGGACGCCAAUAAGAUGGACGAUCGACCAAAGUGGGGCGUCAAUCGUCCGGUUGUCCAGUAUGUAAAGG
....(((((.((((.......................(((.....))).....((((((.....(((.....)))..((.....))))))))....))))...)))))............ (-22.91 = -23.35 +   0.44)

alignment

secondary structure

dotplot

Window 0

Location	20,574,070 – 20,574,190
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	91.39
Mean single sequence MFE	-26.48
Consensus MFE	-20.85
Energy contribution	-20.98
Covariance contribution	0.12
Combinations/Pair	1.13
Mean z-score	-2.71
Structure conservation index	0.79
SVM decision value	1.22
SVM RNA-class probability	0.932143
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20574070 120 - 23771897
CUUUUACAUACUGGACAACCGGACGAUUGACGCCCCACUUUGGUCGAUCGUCCAUCUUAUUAGCGUCCUUAUCCUUAUUUAGGUUCCUUUUCAAAUUCUUUUCUUUGUCUUUAUCCUUAC
............((((((..(((((((((((...........)))))))))))........((.(..((((........))))..)))................)))))).......... ( -24.80)
>DroSec_CAF1 18986 120 - 1
CCUUUACAUACUGGACAACCGGACGAUUGACGCCCCACUUUGGUCGAUCGUCCAUCUUAUUGGCGUCCUUAUCCUUGUUUAGGUUCCUUUUCAAAUUCUUGUCUUUGUCCUUAUCCUUAC
............((((((..((((((..((((((......(((.(....).))).......)))))).......(((...((....))...)))....)))))))))))).......... ( -28.52)
>DroSim_CAF1 12483 120 - 1
CCUUUACAUACUGGACAACCGGACGAUUGACGCCCCACUUUGGUCGAUCGUCCAUCUUAUUGGCGUCCUUAUCCUUGUUUAGGCUCCUUUUCAAAUUCUUGUCUUUGUCCUUAUCCUUGC
............((((((..(((((((((((...........)))))))))))........((.(.(((...........)))).)).................)))))).......... ( -29.50)
>DroEre_CAF1 12211 120 - 1
CCUUUACGUACUGGACCACCGGACGAUUGACGCCCCACUUGGGCCGAUCAUCCAUCUUGUUGGCGUCCUUAUCCUUGCUUAAAUUCUUUUUGAAACUCUUGUCUUUGUCUUUAUCUUUGC
..((((.(((..(((.....(((((((((..((((.....)))))))))..(((......))).))))...))).))).))))(((.....))).......................... ( -23.10)
>consensus
CCUUUACAUACUGGACAACCGGACGAUUGACGCCCCACUUUGGUCGAUCGUCCAUCUUAUUGGCGUCCUUAUCCUUGUUUAGGUUCCUUUUCAAAUUCUUGUCUUUGUCCUUAUCCUUAC
............((((((..(((((((((..(((.......))))))))))))...........(..((((........))))..)..................)))))).......... (-20.85 = -20.98 +   0.12)

alignment

secondary structure

dotplot

Window 1

Location	20,574,110 – 20,574,230
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	88.00
Mean single sequence MFE	-32.04
Consensus MFE	-24.10
Energy contribution	-23.50
Covariance contribution	-0.60
Combinations/Pair	1.27
Mean z-score	-1.95
Structure conservation index	0.75
SVM decision value	0.65
SVM RNA-class probability	0.812514
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20574110 120 - 23771897
UUUUUCUUCUUUCUCAGGCAAAAAGGAUCCCGAUCACUGGCUUUUACAUACUGGACAACCGGACGAUUGACGCCCCACUUUGGUCGAUCGUCCAUCUUAUUAGCGUCCUUAUCCUUAUUU
......................((((((.(((.....)))............((((....(((((((((((...........)))))))))))..((....)).))))..)))))).... ( -28.20)
>DroSec_CAF1 19026 120 - 1
UUUUUCUUCUUUCUCAGGCAAAAAGGAUCCCGAUCACUGGCCUUUACAUACUGGACAACCGGACGAUUGACGCCCCACUUUGGUCGAUCGUCCAUCUUAUUGGCGUCCUUAUCCUUGUUU
..............((((....((((((.(((((...((.((..........)).))...(((((((((((...........))))))))))).....))))).))))))...))))... ( -32.40)
>DroAna_CAF1 40684 115 - 1
CUCUUCUUUUUUCGUAGACAGAACGGAUCGCGAUCGCUGGCCUUGACGUACUGCACUACUGGGCGGUUGACUCCCCACUUGGGGCGAUCGUCCACCU---UGGCGUCCUUGUCCUUGU--
............((..(((((...(((.(((....((..((......))...)).....((((((((((...((((....))))))))))))))...---..)))))))))))..)).-- ( -34.50)
>DroSim_CAF1 12523 120 - 1
UUUUUCUUCUUUCUCAGGCAAAAAGGAUCCCGAUCACUGGCCUUUACAUACUGGACAACCGGACGAUUGACGCCCCACUUUGGUCGAUCGUCCAUCUUAUUGGCGUCCUUAUCCUUGUUU
..............((((....((((((.(((((...((.((..........)).))...(((((((((((...........))))))))))).....))))).))))))...))))... ( -32.40)
>DroEre_CAF1 12251 120 - 1
UUUUUCUUCUUUCUCAGGCAAAAUGGAUCCCGAUCACUGGCCUUUACGUACUGGACCACCGGACGAUUGACGCCCCACUUGGGCCGAUCAUCCAUCUUGUUGGCGUCCUUAUCCUUGCUU
...............((((((...((((.(((((...(((((..........)).)))..(((.(((((..((((.....))))))))).))).....))))).))))......)))))) ( -32.70)
>consensus
UUUUUCUUCUUUCUCAGGCAAAAAGGAUCCCGAUCACUGGCCUUUACAUACUGGACAACCGGACGAUUGACGCCCCACUUUGGUCGAUCGUCCAUCUUAUUGGCGUCCUUAUCCUUGUUU
......................((((((...(((.....(((..........((....))(((((((((..(((.......))))))))))))........))))))...)))))).... (-24.10 = -23.50 +  -0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:13 2006