Locus 36

Sequence ID	3R_DroMel_CAF1
Location	284,166 – 284,295
Length	129
Max. P	0.647749

overview

Window 8

Location	284,166 – 284,270
Length	104
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	84.96
Mean single sequence MFE	-31.14
Consensus MFE	-19.82
Energy contribution	-20.30
Covariance contribution	0.48
Combinations/Pair	1.19
Mean z-score	-2.09
Structure conservation index	0.64
SVM decision value	0.24
SVM RNA-class probability	0.647749
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 284166 104 - 27905053
AUUAGCUGCGGAAUGCUACUAUGGAAUUACGAAGUUAGAUGCGAUCCCAAGAGGAGGCCUUCAGGUAGCGAAUGUUAAGCCGUUUUAUUGCCAAUAAAGCAGUA----------------
....((((((((.(((.(((.((......)).))).....))).)))...((((....)))).(((((.(((((......)))))..)))))......))))).---------------- ( -23.90)
>DroSec_CAF1 19350 104 - 1
AUUAGCUGCGGAAUGCUACUAGGGAAUUACGAAGUUAGAUGCGAUCCCAAGAGGAGACCUUGAGGUGGCGAAUGUUAAACCGUUUUAUUGCCACUAAAGCAGUA----------------
....((((((((.(((.(((..(......)..))).....))).)))((((.(....))))).(((((((((((......)))....))))))))...))))).---------------- ( -29.50)
>DroSim_CAF1 20649 104 - 1
AUUAGCUGCGGAAUGCUACUAGGGAAUUACGAAGUUAGAUGCGAUCCCAAGAGGAGACCUUGGGGUGGCGAAUGUUAAACCGUUUUAUUGCCACUAAAGCAGUA----------------
....(((((((....))....((.(((.(((...((((.(((.((((((((.(....))))))))).)))....))))..)))...))).))......))))).---------------- ( -33.30)
>DroEre_CAF1 22001 103 - 1
AUUAUCUGCGGAAUACUACUUG-GAAUUGCGAAGUUAGAUGCGAUCCCAAGAGGAGACCUUGGGGUUGCGAGUGUUAAACCAUUUUAUUGCAACUAAAGUAGUA----------------
.............((((((((.-...((((((........(((((((((((.(....))))))))))))(((((......)))))..))))))...))))))))---------------- ( -36.60)
>DroYak_CAF1 21617 120 - 1
AUUAUCUACGGAAUACUACUUGGGAAUUACAAAGUUAGAUGUGAUCCCAAGAGGAAACCUUGAGGUUGCGAAUGUGAAACCGUUUUAUUGCCACUAAGGUAGUAGCUUAGCAGUGCAUUC
....((....))...((.(((((((.(((((........)))))))))))).)).((((....))))..((((((...((.(((((((((((.....))))))))...))).)))))))) ( -32.40)
>consensus
AUUAGCUGCGGAAUGCUACUAGGGAAUUACGAAGUUAGAUGCGAUCCCAAGAGGAGACCUUGAGGUGGCGAAUGUUAAACCGUUUUAUUGCCACUAAAGCAGUA________________
....((((((((.(((.(((..(......)..))).....))).)))((((.(....))))).(((((((((((......)))....))))))))...)))))................. (-19.82 = -20.30 +   0.48)

alignment

secondary structure

dotplot

Window 9

Location	284,190 – 284,295
Length	105
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	90.29
Mean single sequence MFE	-31.50
Consensus MFE	-21.10
Energy contribution	-21.58
Covariance contribution	0.48
Combinations/Pair	1.14
Mean z-score	-2.40
Structure conservation index	0.67
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 284190 105 - 27905053
GUAAUGCCGAUAAUAGCACUCGGUAAUUAGCUGCGGAAUGCUACUAUGGAAUUACGAAGUUAGAUGCGAUCCCAAGAGGAGGCCUUCAGGUAGCGAAUGUUAAGC
(((((.((.(((.(((((.((.(((......))).)).))))).))))).))))).........(((..(((.....))).(((....))).))).......... ( -24.90)
>DroSec_CAF1 19374 105 - 1
GUAAUGCCGAUAAUAGCACUCGGUAAUUAGCUGCGGAAUGCUACUAGGGAAUUACGAAGUUAGAUGCGAUCCCAAGAGGAGACCUUGAGGUGGCGAAUGUUAAAC
(((((.((..((.(((((.((.(((......))).)).))))).)).)).))))).........(((.(((.((((.(....))))).))).))).......... ( -30.40)
>DroSim_CAF1 20673 105 - 1
GUAAUGCCGAUAAUAGCACUCGGUAAUUAGCUGCGGAAUGCUACUAGGGAAUUACGAAGUUAGAUGCGAUCCCAAGAGGAGACCUUGGGGUGGCGAAUGUUAAAC
(((((.((..((.(((((.((.(((......))).)).))))).)).)).))))).........(((.((((((((.(....))))))))).))).......... ( -37.30)
>DroEre_CAF1 22025 104 - 1
GUACUGCCGAUAAUAGCAGUUGGUAAUUAUCUGCGGAAUACUACUUG-GAAUUGCGAAGUUAGAUGCGAUCCCAAGAGGAGACCUUGGGGUUGCGAGUGUUAAAC
...((((.((((((.((.....)).)))))).))))((((((((((.-(.....).))))....((((((((((((.(....))))))))))))))))))).... ( -39.40)
>DroYak_CAF1 21657 105 - 1
GUAAUGCCAAUAAUAACACUUGGUAAUUAUCUACGGAAUACUACUUGGGAAUUACAAAGUUAGAUGUGAUCCCAAGAGGAAACCUUGAGGUUGCGAAUGUGAAAC
................(((((.((((((.((...((....((.(((((((.(((((........))))))))))))))....))..)))))))).)).))).... ( -25.50)
>consensus
GUAAUGCCGAUAAUAGCACUCGGUAAUUAGCUGCGGAAUGCUACUAGGGAAUUACGAAGUUAGAUGCGAUCCCAAGAGGAGACCUUGAGGUGGCGAAUGUUAAAC
(((((.((.....(((((.((.(((......))).)).)))))....)).))))).........(((.(((.((((.(....))))).))).))).......... (-21.10 = -21.58 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:30:58 2006