Locus 6331

Sequence ID	2L_DroMel_CAF1
Location	17,671,197 – 17,671,287
Length	90
Max. P	0.999923

overview

Window 9

Location	17,671,197 – 17,671,287
Length	90
Sequences	5
Columns	90
Reading direction	forward
Mean pairwise identity	95.89
Mean single sequence MFE	-24.36
Consensus MFE	-21.74
Energy contribution	-22.34
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.20
Structure conservation index	0.89
SVM decision value	2.87
SVM RNA-class probability	0.997504
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17671197 90 + 22407834
UUUCAUUGGCAGUUUUGGUCGCGGAAAUGGAAAUGUAAGAUAUGUAUGUAGAACUAUGUUCAGAUUUCCAUUUCCAUCCGUUGACCGUUC
................(((((((((..((((((((..((((.((.(((((....))))).)).)))).)))))))))))).))))).... ( -25.20)
>DroSec_CAF1 66740 90 + 1
UUUCAUUGGCAGUUUUGGUCGCGGAAAUGGAAAUGUAAGAUAUGUAUGUAGAACUGUGUUUAGAUUUCCAUUUCCAUCCGUUGACCGUUC
................((((((((((((((((((.((((....((.......))....)))).)))))))))....)))).))))).... ( -24.70)
>DroSim_CAF1 49257 90 + 1
UUUCAUUGGCAGUUUUGUUCGCGGAAAUGGAAAUGUAAGAUAUGUAUGUAGAACUGUGUUUAGAUUUCCAUUUCCAUCCGUUGACCGUUC
..(((.(((..((.......))((((((((((((.((((....((.......))....)))).))))))))))))..))).)))...... ( -22.30)
>DroEre_CAF1 54092 90 + 1
UUUCAUUGGCAGUUUUGGUCGCGGAAAUGGAAAUGUAAGAUAUGUAUGUAUAACAAUGUUUAGAUUUCCAUUUCCAUCCGUUGACCGUUC
................((((((((((((((((((.((((...(((.......)))...)))).)))))))))....)))).))))).... ( -25.70)
>DroYak_CAF1 70506 90 + 1
UUUCAUAGGCAGUUUUGGUCGCGGAAAUGGAAAUGCAAGAUAUGUAUGUGAAACUAUGUUUAGAUUUCCAUUUCCAUCCGUUGACCGUUC
................((((((((((((((((((.(.((((((((.......)).)))))).))))))))))....)))).))))).... ( -23.90)
>consensus
UUUCAUUGGCAGUUUUGGUCGCGGAAAUGGAAAUGUAAGAUAUGUAUGUAGAACUAUGUUUAGAUUUCCAUUUCCAUCCGUUGACCGUUC
................((((((((((((((((((.((((....((.......))....)))).)))))))))....)))).))))).... (-21.74 = -22.34 +   0.60)

alignment

secondary structure

dotplot

Window 0

Location	17,671,197 – 17,671,287
Length	90
Sequences	5
Columns	90
Reading direction	reverse
Mean pairwise identity	95.89
Mean single sequence MFE	-20.56
Consensus MFE	-19.08
Energy contribution	-18.96
Covariance contribution	-0.12
Combinations/Pair	1.09
Mean z-score	-2.90
Structure conservation index	0.93
SVM decision value	4.58
SVM RNA-class probability	0.999923
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17671197 90 - 22407834
GAACGGUCAACGGAUGGAAAUGGAAAUCUGAACAUAGUUCUACAUACAUAUCUUACAUUUCCAUUUCCGCGACCAAAACUGCCAAUGAAA
....((((..(((((((((((((....).((((...))))...............))))))))..)))).))))................ ( -20.60)
>DroSec_CAF1 66740 90 - 1
GAACGGUCAACGGAUGGAAAUGGAAAUCUAAACACAGUUCUACAUACAUAUCUUACAUUUCCAUUUCCGCGACCAAAACUGCCAAUGAAA
....((((....(.(((((((((((((.(((.....((.......)).....))).))))))))))))))))))................ ( -20.10)
>DroSim_CAF1 49257 90 - 1
GAACGGUCAACGGAUGGAAAUGGAAAUCUAAACACAGUUCUACAUACAUAUCUUACAUUUCCAUUUCCGCGAACAAAACUGCCAAUGAAA
...((.....))...((((((((((((.(((.....((.......)).....))).))))))))))))(((........)))........ ( -17.20)
>DroEre_CAF1 54092 90 - 1
GAACGGUCAACGGAUGGAAAUGGAAAUCUAAACAUUGUUAUACAUACAUAUCUUACAUUUCCAUUUCCGCGACCAAAACUGCCAAUGAAA
....((((....(.(((((((((((((.(((....(((.......)))....))).))))))))))))))))))................ ( -22.40)
>DroYak_CAF1 70506 90 - 1
GAACGGUCAACGGAUGGAAAUGGAAAUCUAAACAUAGUUUCACAUACAUAUCUUGCAUUUCCAUUUCCGCGACCAAAACUGCCUAUGAAA
....((((..((((((((((((((((.(((....))))))).....((.....))))))))))..)))).))))................ ( -22.50)
>consensus
GAACGGUCAACGGAUGGAAAUGGAAAUCUAAACAUAGUUCUACAUACAUAUCUUACAUUUCCAUUUCCGCGACCAAAACUGCCAAUGAAA
....((((....(.(((((((((((((.(((.....((.......)).....))).))))))))))))))))))................ (-19.08 = -18.96 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:30 2006