Locus 5657

Sequence ID	2L_DroMel_CAF1
Location	16,048,783 – 16,048,975
Length	192
Max. P	0.998052

overview

Window 6

Location	16,048,783 – 16,048,900
Length	117
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	88.58
Mean single sequence MFE	-29.54
Consensus MFE	-23.84
Energy contribution	-24.56
Covariance contribution	0.72
Combinations/Pair	1.18
Mean z-score	-2.06
Structure conservation index	0.81
SVM decision value	1.36
SVM RNA-class probability	0.946360
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16048783 117 + 22407834
UUGUGCUAAUCCUAAAGGAAUUUGCUC---GCAAAUUUAUGGCUUCGUUAUCCCACUUGAGCUUUGAUCUACAAAAGCUGGUUAAAUGGCCAAGGAUUUAUUCAAUUAGUAUUGGCAUAA
.(((((((((.((((..(((((((...---.))))))).(((((...(((.((......((((((........)))))))).)))..))))).............)))).))))))))). ( -31.70)
>DroSec_CAF1 224371 117 + 1
UUGUGCUAAUCCUAAAGGAAUUUGCUC---GCAAAUUUAUGGCUUCGUUAUCCCACUUGAGCUUUGAUCUACAAAAGCUGGUUAAAUGGCCAAGGAUUUAUUCAAUUAGUAUUGGCAUAA
.(((((((((.((((..(((((((...---.))))))).(((((...(((.((......((((((........)))))))).)))..))))).............)))).))))))))). ( -31.70)
>DroSim_CAF1 231157 117 + 1
UUGUGCUAAUCCUAAAGGAAUUUGCUC---GCAAAUUUAUGGCUUCGUUAUCCCACUUGAGCUUUGAUCUACAAAAGCUGGUUAAAUGGCCAAGGAUUUAUUCAAUUAGUAUUGGCAUAA
.(((((((((.((((..(((((((...---.))))))).(((((...(((.((......((((((........)))))))).)))..))))).............)))).))))))))). ( -31.70)
>DroEre_CAF1 213246 120 + 1
UUCUGCUGGUCCGAAAGGAAUUUCCAAGAAGGAAAUAUAUGGCUUUGUCAUCUCACUUGAGCUUUGAUCUACAAAAGCUGGUAAAAUGACCAAGGAUUUCUUCAAUUAGUAUUGGCAUAA
...(((..((((....)))((((((.....))))))......(((.(((((.(.(((..((((((........))))))))).).))))).))).................)..)))... ( -28.90)
>DroYak_CAF1 210526 110 + 1
UUCUGCUAGUCCGAAAGGAAUUUUCUG---GCAAAUACAUGGCUUUGUUAUCCCGCUUGAGCUU-------CAAAAACUGGUGAAAUGGCCAAGGAUUUAUUCAAUUAGUUUUGGCAUAA
...(((((((((....))).....)))---)))....(.(((((...(((((....(((.....-------))).....)))))...))))).)...((((((((......)))).)))) ( -23.70)
>consensus
UUGUGCUAAUCCUAAAGGAAUUUGCUC___GCAAAUUUAUGGCUUCGUUAUCCCACUUGAGCUUUGAUCUACAAAAGCUGGUUAAAUGGCCAAGGAUUUAUUCAAUUAGUAUUGGCAUAA
.(((((((((.((((..((((((((.....))))))))....(((.(((((...(((..((((((........)))))))))...))))).)))...........)))).))))))))). (-23.84 = -24.56 +   0.72)

alignment

secondary structure

dotplot

Window 7

Location	16,048,860 – 16,048,975
Length	115
Sequences	5
Columns	115
Reading direction	reverse
Mean pairwise identity	91.83
Mean single sequence MFE	-24.70
Consensus MFE	-20.60
Energy contribution	-21.00
Covariance contribution	0.40
Combinations/Pair	1.10
Mean z-score	-2.71
Structure conservation index	0.83
SVM decision value	2.99
SVM RNA-class probability	0.998052
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16048860 115 - 22407834
AUCGGGGCAUGAUUGGAUAAACAUCUAUUUAUGCAAUAAAUAUUAAAUGCAAGGCAGAAACCAAGACUAAUUCAGUUAUGCCAAUACUAAUUGAAUAAAUCCUUGGCCAUUUAAC
...((.((((((.(((((....))))).))))))..........................(((((....(((((((((.(......)))))))))).....)))))))....... ( -23.30)
>DroSec_CAF1 224448 115 - 1
AUCGGGGCAUGAUUGGAUAAACAUUUAAUUAUCCAAUAAAUAUUAAAUGCCAGGCAGAAACCAAGUCUAAUUCAGUUAUGCCAAUACUAAUUGAAUAAAUCCUUGGCCAUUUAAC
...(((((((.(((((((((........))))))))).........))))).........(((((....(((((((((.(......)))))))))).....)))))))....... ( -27.30)
>DroSim_CAF1 231234 115 - 1
AUCGGGGCAUGAUUGGAUAAACAUUUAAUUAUCCAAUAAAUAUUAAAUGCCAGGCAGAAACCAAGACUAAUUCAGUUAUGCCAAUACUAAUUGAAUAAAUCCUUGGCCAUUUAAC
...(((((((.(((((((((........))))))))).........))))).........(((((....(((((((((.(......)))))))))).....)))))))....... ( -27.30)
>DroEre_CAF1 213326 114 - 1
UUCGAGGCAUAAUGGGAUAAACAUUUAAUUAUCCAAUAAAUAUUAAAUGCCCGGGAGA-ACCAAGACUAACCCAGUUAUGCCAAUACUAAUUGAAGAAAUCCUUGGUCAUUUUAC
.....(((((((((((.....((((((((............))))))))...((....-.))........)))).)))))))...(((((..((.....)).)))))........ ( -22.50)
>DroYak_CAF1 210596 115 - 1
UUCGGGGCAUAAUAGGAUAAGCAUUUAAUUAUCCAAUAAAUAUUAAAUGCCAGGCAGAAACCAAUACUAACCCAGUUAUGCCAAAACUAAUUGAAUAAAUCCUUGGCCAUUUCAC
...((((((((((.((....(((((((((............)))))))))..((......)).........)).))))))))....((((..((.....)).))))))....... ( -23.10)
>consensus
AUCGGGGCAUGAUUGGAUAAACAUUUAAUUAUCCAAUAAAUAUUAAAUGCCAGGCAGAAACCAAGACUAAUUCAGUUAUGCCAAUACUAAUUGAAUAAAUCCUUGGCCAUUUAAC
...(((((((((((((((...((((((((............))))))))...((......)).......)))))))))))))....((((..((.....)).))))))....... (-20.60 = -21.00 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:30 2006