Locus 5017

Sequence ID	2L_DroMel_CAF1
Location	14,401,525 – 14,401,629
Length	104
Max. P	0.995094

overview

Window 4

Location	14,401,525 – 14,401,629
Length	104
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	96.92
Mean single sequence MFE	-34.16
Consensus MFE	-32.24
Energy contribution	-32.08
Covariance contribution	-0.16
Combinations/Pair	1.09
Mean z-score	-1.86
Structure conservation index	0.94
SVM decision value	2.54
SVM RNA-class probability	0.995094
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14401525 104 + 22407834
GAAAGAGACGGCGAUAAGGGGGCAGAGGGAGAUAGAUGGAGAGUGGGAUCUUCCACUAUUUUAGCACUUCGCGCCGUUUCUGCCAAACUGACAGUUUUGUGUUG
...((((((((((....((((((.....(((((((.((((((......)).))))))))))).)).)))).))))))))))((.((((.....)))).)).... ( -35.10)
>DroSec_CAF1 22698 104 + 1
GAAAGAGAUGGCGAUAAGGGGGCAGAGGGAGAUAGAUGGAGAGUGGGAUCUUCCACUAUUUUAGCACUUCGCGCCGUUUCUGCCAAACUGACAGUUUUGUGUUG
...((((((((((....((((((.....(((((((.((((((......)).))))))))))).)).)))).))))))))))((.((((.....)))).)).... ( -33.30)
>DroSim_CAF1 21580 104 + 1
GAAAGAGAUGGCGAUAAGGGGGCAGAGGGAGAUAGAUGGAGAGUGGGAUCUUCCACUAUUUUAGCACUUCGCGCCGUUUCUGCCAAACUGACAGUUUUGUGUUG
...((((((((((....((((((.....(((((((.((((((......)).))))))))))).)).)))).))))))))))((.((((.....)))).)).... ( -33.30)
>DroEre_CAF1 22674 104 + 1
GAAAGAGACGGUGAUAAGGGGGCAGAGGGAGAUGGAUGGAGAGUGGGAUCUUCCACUAUUUUAGCACUUCGCGCCGUUUCUGCCAAACUGACAGCUUUGAGUUG
(..((((((((((....((((((.....(((((((.((((((......)).))))))))))).)).)))).))))))))))..).......((((.....)))) ( -33.20)
>DroYak_CAF1 22661 104 + 1
GAAAGAGACGGCGCUAAAGGGGCAGAGGGAGAUAGAUGGAGAGUGGGAUCUUCCACUAUUUUAGCACUUCGCGCCGUUUCUGCCAAACUGACAGCUUUGUGUUG
(..(((((((((((..(((..((.....(((((((.((((((......)).))))))))))).)).))).)))))))))))..).......((((.....)))) ( -35.90)
>consensus
GAAAGAGACGGCGAUAAGGGGGCAGAGGGAGAUAGAUGGAGAGUGGGAUCUUCCACUAUUUUAGCACUUCGCGCCGUUUCUGCCAAACUGACAGUUUUGUGUUG
(..((((((((((....((((((.....(((((((.((((((......)).))))))))))).)).)))).))))))))))..).....((((......)))). (-32.24 = -32.08 +  -0.16)

alignment

secondary structure

dotplot

Window 5

Location	14,401,525 – 14,401,629
Length	104
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	96.92
Mean single sequence MFE	-22.50
Consensus MFE	-20.54
Energy contribution	-20.30
Covariance contribution	-0.24
Combinations/Pair	1.05
Mean z-score	-1.35
Structure conservation index	0.91
SVM decision value	0.61
SVM RNA-class probability	0.799957
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14401525 104 - 22407834
CAACACAAAACUGUCAGUUUGGCAGAAACGGCGCGAAGUGCUAAAAUAGUGGAAGAUCCCACUCUCCAUCUAUCUCCCUCUGCCCCCUUAUCGCCGUCUCUUUC
..........(((((.....)))))..((((((..(((.((....((((((((.((......)))))).))))........))...)))..))))))....... ( -23.00)
>DroSec_CAF1 22698 104 - 1
CAACACAAAACUGUCAGUUUGGCAGAAACGGCGCGAAGUGCUAAAAUAGUGGAAGAUCCCACUCUCCAUCUAUCUCCCUCUGCCCCCUUAUCGCCAUCUCUUUC
.......((((.....))))((((((...(((((...)))))...((((((((.((......)))))).)))).....)))))).................... ( -20.90)
>DroSim_CAF1 21580 104 - 1
CAACACAAAACUGUCAGUUUGGCAGAAACGGCGCGAAGUGCUAAAAUAGUGGAAGAUCCCACUCUCCAUCUAUCUCCCUCUGCCCCCUUAUCGCCAUCUCUUUC
.......((((.....))))((((((...(((((...)))))...((((((((.((......)))))).)))).....)))))).................... ( -20.90)
>DroEre_CAF1 22674 104 - 1
CAACUCAAAGCUGUCAGUUUGGCAGAAACGGCGCGAAGUGCUAAAAUAGUGGAAGAUCCCACUCUCCAUCCAUCUCCCUCUGCCCCCUUAUCACCGUCUCUUUC
.......((((.....))))((((((...(((((...))))).....(((((......)))))...............)))))).................... ( -20.30)
>DroYak_CAF1 22661 104 - 1
CAACACAAAGCUGUCAGUUUGGCAGAAACGGCGCGAAGUGCUAAAAUAGUGGAAGAUCCCACUCUCCAUCUAUCUCCCUCUGCCCCUUUAGCGCCGUCUCUUUC
..........(((((.....)))))..(((((((((((.((....((((((((.((......)))))).))))........))..)))).)))))))....... ( -27.40)
>consensus
CAACACAAAACUGUCAGUUUGGCAGAAACGGCGCGAAGUGCUAAAAUAGUGGAAGAUCCCACUCUCCAUCUAUCUCCCUCUGCCCCCUUAUCGCCGUCUCUUUC
.......((((.....))))((((((...(((((...))))).....(((((......)))))...............)))))).................... (-20.54 = -20.30 +  -0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:35 2006