Locus 10294

Sequence ID	3R_DroMel_CAF1
Location	27,597,862 – 27,597,998
Length	136
Max. P	0.984377

overview

Window 0

Location	27,597,862 – 27,597,965
Length	103
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	91.84
Mean single sequence MFE	-28.10
Consensus MFE	-25.82
Energy contribution	-25.26
Covariance contribution	-0.56
Combinations/Pair	1.16
Mean z-score	-1.69
Structure conservation index	0.92
SVM decision value	1.97
SVM RNA-class probability	0.984377
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27597862 103 + 27905053
AGUCCGUGACAUGGGAAUCCGUGAGGGCAAUCGAUGGUUUGGUAGAAAAAAUCGGUGCUGUCAUAUAAUAUCGAUAAGAUAAUUCACCAUCUGGUAGCACGAC
....((((.(((((((((..((((.((((.(((((..(((.....)))..))))))))).))))....((((.....)))))))).)))..))....)))).. ( -27.70)
>DroSec_CAF1 4080 103 + 1
AGUCCGUGACAUGGGAAUCCGUGAGGGCAAUCGAUUGUUUGGUAGAGAAAAUCGGUGCUGUCAUAUAAUAUCGAUAAGAUAUUUCACCAUCUGGUAGCACGAC
....((((..((.(((....((((.((((.((((((.(((.....))).)))))))))).))))..((((((.....))))))......))).))..)))).. ( -28.50)
>DroSim_CAF1 8234 103 + 1
AGUCCGUGACAUGGGAAUCCGUGAGGGCAAUCGAUUGUUUGGUAGAGAAAAUCGGUGCUGUCAUAUAAUAUCGAUAAGAUAUUUCACCAUCUGGUAGCACGAC
....((((..((.(((....((((.((((.((((((.(((.....))).)))))))))).))))..((((((.....))))))......))).))..)))).. ( -28.50)
>DroEre_CAF1 2685 102 + 1
AGUCCGUGACAUUGGAG-CCGUGAAAGCAAUCGAUUGUUUCGAAGAAAAAAUCGGUGUUGUCAUAUAAUAUCGAUAAGAUAUUUCACCAUCUGGUAGCACGAC
....((((..((..((.-..((((((.(..((((.....)))).......(((((((((((...)))))))))))..)...))))))..))..))..)))).. ( -29.50)
>DroYak_CAF1 9349 103 + 1
UUUUUGUGACAUUGGAAUCCGUGAAAGCAAUCGAUUGUUUCGAGAAAGAAAUCGGUGCUGUCAUAUAAUAUCGAUAAGAUAUUUCACCAUCUGGUAGCACGAC
...(((((..((..((....((((.((((.((((((.(((....)))..)))))))))).))))..((((((.....))))))......))..))..))))). ( -26.30)
>consensus
AGUCCGUGACAUGGGAAUCCGUGAGGGCAAUCGAUUGUUUGGUAGAAAAAAUCGGUGCUGUCAUAUAAUAUCGAUAAGAUAUUUCACCAUCUGGUAGCACGAC
....((((..((.(((....((((.((((.((((((.(((.....))).)))))))))).))))..((((((.....))))))......))).))..)))).. (-25.82 = -25.26 +  -0.56)

alignment

secondary structure

dotplot

Window 1

Location	27,597,885 – 27,597,998
Length	113
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	95.22
Mean single sequence MFE	-24.38
Consensus MFE	-24.38
Energy contribution	-23.78
Covariance contribution	-0.60
Combinations/Pair	1.13
Mean z-score	-1.03
Structure conservation index	1.00
SVM decision value	0.19
SVM RNA-class probability	0.626720
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27597885 113 + 27905053
AGGGCAAUCGAUGGUUUGGUAGAAAAAAUCGGUGCUGUCAUAUAAUAUCGAUAAGAUAAUUCACCAUCUGGUAGCACGACUAAGUUCAUACGUGUAAUUAUCGGUAGUUAAAA
..((((.(((((..(((.....)))..))))))))).........(((((((((........(((....))).(((((............)))))..)))))))))....... ( -24.80)
>DroSec_CAF1 4103 113 + 1
AGGGCAAUCGAUUGUUUGGUAGAGAAAAUCGGUGCUGUCAUAUAAUAUCGAUAAGAUAUUUCACCAUCUGGUAGCACGACUAAGUUCAUACGUGUAAUUAUCGGUAGUUAAAA
..((((.((((((.(((.....))).)))))))))).........(((((((((........(((....))).(((((............)))))..)))))))))....... ( -24.60)
>DroSim_CAF1 8257 113 + 1
AGGGCAAUCGAUUGUUUGGUAGAGAAAAUCGGUGCUGUCAUAUAAUAUCGAUAAGAUAUUUCACCAUCUGGUAGCACGACUAAGUUCAUACGUGUAAUUAUCGGUAGUUAAAA
..((((.((((((.(((.....))).)))))))))).........(((((((((........(((....))).(((((............)))))..)))))))))....... ( -24.60)
>DroEre_CAF1 2707 113 + 1
AAAGCAAUCGAUUGUUUCGAAGAAAAAAUCGGUGUUGUCAUAUAAUAUCGAUAAGAUAUUUCACCAUCUGGUAGCACGACUAAGUUCAUACGUGUAAUUAUCGGUAGUUAAAA
..((((.((((((.((((...)))).)))))))))).........(((((((((........(((....))).(((((............)))))..)))))))))....... ( -23.60)
>DroYak_CAF1 9372 113 + 1
AAAGCAAUCGAUUGUUUCGAGAAAGAAAUCGGUGCUGUCAUAUAAUAUCGAUAAGAUAUUUCACCAUCUGGUAGCACGACUAAGUUCAUACGUGUAAUUAUCGGUAGUUAAAA
..((((.((((((.(((....)))..)))))))))).........(((((((((........(((....))).(((((............)))))..)))))))))....... ( -24.30)
>consensus
AGGGCAAUCGAUUGUUUGGUAGAAAAAAUCGGUGCUGUCAUAUAAUAUCGAUAAGAUAUUUCACCAUCUGGUAGCACGACUAAGUUCAUACGUGUAAUUAUCGGUAGUUAAAA
..((((.((((((.(((.....))).)))))))))).........(((((((((........(((....))).(((((............)))))..)))))))))....... (-24.38 = -23.78 +  -0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:53:27 2006