Locus 2784

Sequence ID	2R_DroMel_CAF1
Location	9,726,620 – 9,726,720
Length	100
Max. P	0.772509

overview

Window 9

Location	9,726,620 – 9,726,720
Length	100
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	88.32
Mean single sequence MFE	-22.99
Consensus MFE	-19.09
Energy contribution	-19.81
Covariance contribution	0.72
Combinations/Pair	1.05
Mean z-score	-1.46
Structure conservation index	0.83
SVM decision value	0.21
SVM RNA-class probability	0.634954
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9726620 100 + 20766785
GUGGCUCAGAGCCUAACCCACAUUUUGGCCACAAUUUCGCAAUCACCGAGUGAUGUAAAUAUAUUUUUGAAUCUCACUAUUCACUGGUGAUUAUUUUGA---A
(((((.(((((...........))))))))))........(((((((.(((((...........................)))))))))))).......---. ( -23.43)
>DroSec_CAF1 44739 100 + 1
GUGGCUCAGAGCCUAACCCACAUUUUGGCCACGAUUUCGCAAUCAGCGAGUGAUGUAAAUAUAUUUUAGAAUCUCACUAUUCACUGGUGAUUAUUUUGA---A
(((((.(((((...........))))))))))...(((((.....)))))..............((((((((.((((((.....))))))..)))))))---) ( -22.90)
>DroSim_CAF1 36013 100 + 1
GUGGCUCAGAGCCUAACCCACAUUUUGGCCACGAUUUCGCAAUCAGCGAGUGAUGUAAAUAUAUUUUUCAAUCUCACUAUUCACUGGUGAUUAUUUUAA---A
(((((.(((((...........))))))))))((((..((.....))(((.(((((....))))).)))))))((((((.....)))))).........---. ( -20.50)
>DroEre_CAF1 37561 101 + 1
CUGGCUCAGAGCCUAACCCACAUUUUGGCCACGCUUUUGCAAUCGCCUAGUGAUGUAAAU--AUUUUCGUAUCUCACUAUUCACUGGCGAUCAUUUGGAAAGA
..(((.....)))....(((.....)))(((.((....)).((((((.(((((.((..((--((....))))...))...)))))))))))....)))..... ( -23.20)
>DroYak_CAF1 43724 97 + 1
GUGGCUCAGAGCCUAACCCACAUUUUGGCCACGAUUUUGCAAUCGCCCAGUGAUGUAAAU--AUUUUUGAAUCUCACUAAUCACUGGCGACCACUUGG----U
(((((.(((((...........))))))))))..........(((((.((((((......--.................)))))))))))((....))----. ( -24.90)
>consensus
GUGGCUCAGAGCCUAACCCACAUUUUGGCCACGAUUUCGCAAUCACCGAGUGAUGUAAAUAUAUUUUUGAAUCUCACUAUUCACUGGUGAUUAUUUUGA___A
(((((.(((((...........))))))))))........(((((((.(((((...........................))))))))))))........... (-19.09 = -19.81 +   0.72)

alignment

secondary structure

dotplot

Window 0

Location	9,726,620 – 9,726,720
Length	100
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	88.32
Mean single sequence MFE	-25.20
Consensus MFE	-21.82
Energy contribution	-21.34
Covariance contribution	-0.48
Combinations/Pair	1.12
Mean z-score	-1.52
Structure conservation index	0.87
SVM decision value	0.53
SVM RNA-class probability	0.772509
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9726620 100 - 20766785
U---UCAAAAUAAUCACCAGUGAAUAGUGAGAUUCAAAAAUAUAUUUACAUCACUCGGUGAUUGCGAAAUUGUGGCCAAAAUGUGGGUUAGGCUCUGAGCCAC
.---......(((((((((((((...(((((((........)).))))).))))).))))))))........(((((........)))))(((.....))).. ( -24.20)
>DroSec_CAF1 44739 100 - 1
U---UCAAAAUAAUCACCAGUGAAUAGUGAGAUUCUAAAAUAUAUUUACAUCACUCGCUGAUUGCGAAAUCGUGGCCAAAAUGUGGGUUAGGCUCUGAGCCAC
.---(((...((.(((....))).)).)))((..((((..(((((((...((((((((.....))))....))))...)))))))..))))..))........ ( -20.00)
>DroSim_CAF1 36013 100 - 1
U---UUAAAAUAAUCACCAGUGAAUAGUGAGAUUGAAAAAUAUAUUUACAUCACUCGCUGAUUGCGAAAUCGUGGCCAAAAUGUGGGUUAGGCUCUGAGCCAC
.---......(((((..(((((((((.....(((....))).))))))).((((((((.....))))....))))......))..)))))(((.....))).. ( -20.70)
>DroEre_CAF1 37561 101 - 1
UCUUUCCAAAUGAUCGCCAGUGAAUAGUGAGAUACGAAAAU--AUUUACAUCACUAGGCGAUUGCAAAAGCGUGGCCAAAAUGUGGGUUAGGCUCUGAGCCAG
...........((((((((((((...(((((((......))--.))))).))))).)))))))((...(((.(((((........))))).)))....))... ( -27.20)
>DroYak_CAF1 43724 97 - 1
A----CCAAGUGGUCGCCAGUGAUUAGUGAGAUUCAAAAAU--AUUUACAUCACUGGGCGAUUGCAAAAUCGUGGCCAAAAUGUGGGUUAGGCUCUGAGCCAC
.----(((..(((((.((((((((..((((((((....)))--.)))))))))))))((((((....))))))))))).....)))....(((.....))).. ( -33.90)
>consensus
U___UCAAAAUAAUCACCAGUGAAUAGUGAGAUUCAAAAAUAUAUUUACAUCACUCGGUGAUUGCGAAAUCGUGGCCAAAAUGUGGGUUAGGCUCUGAGCCAC
..........(((((((((((((...(((((.............))))).))))).))))))))........(((((........)))))(((.....))).. (-21.82 = -21.34 +  -0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:25 2006