Locus 2118

Sequence ID	2L_DroMel_CAF1
Location	5,703,256 – 5,703,382
Length	126
Max. P	0.741117

overview

Window 9

Location	5,703,256 – 5,703,350
Length	94
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	88.59
Mean single sequence MFE	-23.00
Consensus MFE	-16.26
Energy contribution	-17.90
Covariance contribution	1.64
Combinations/Pair	1.04
Mean z-score	-2.16
Structure conservation index	0.71
SVM decision value	0.45
SVM RNA-class probability	0.741117
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5703256 94 - 22407834
CCACGCUAACCACUUUCUGACUUCUUCGCAAGUGAAGUCAGUCAGAAACUGAAAAAUCAG------AUUUUUCCAACGGGUACACACUUGUCCGAAGCUC
....(((......(((((((((.(((((....)))))..)))))))))((((....))))------..........(((..(......)..))).))).. ( -25.10)
>DroSec_CAF1 148521 94 - 1
CCACGCUAACCACUUUCUGACUUCUUCGCAAGUGAAGUCAGUCAGAAACUGAAAAAUCUG------AUUUUUCCAACGGGUACACACUGGUCCGAAGCUC
....(((...((.(((((((((.(((((....)))))..))))))))).)).........------.....((..((.(((....))).))..))))).. ( -23.30)
>DroSim_CAF1 148143 94 - 1
CCACGCUAACCACUUUCUGACUUCUUCGCAAGUGAAGUCAGUCAGAAACUAAAAAAUCUG------AUUUUUCCAACGGGUACACACUGGUCCGAAGCUC
....(((.((((.(((((((((.(((((....)))))..))))))))).......(((((------..........)))))......))))....))).. ( -22.30)
>DroEre_CAF1 151457 100 - 1
UCCCGCUAACCACUUUCUGACUUCUUGGCCAGUAAAGUCAGUCGGAAACUGAAAAAUCUUUGAAACAUUUUUGCAACGGGUACACACUUGUGCAAAGCUC
....(((...((.(((((((((.(((........)))..))))))))).))...................(((((.(((((....))))))))))))).. ( -23.70)
>DroYak_CAF1 150123 94 - 1
CCCCGCUAACCAUUUUCUGACUUCCUAGCAAGUGAAGUCAGCCAGAAAGUGAAAAAUCUG------AUUUUUCCAACGGGUACACACUUAUUCGAAGCUU
....(((...((((((((((((((((....)).))))))....)))))))).........------..........((((((......)))))).))).. ( -20.60)
>consensus
CCACGCUAACCACUUUCUGACUUCUUCGCAAGUGAAGUCAGUCAGAAACUGAAAAAUCUG______AUUUUUCCAACGGGUACACACUUGUCCGAAGCUC
....(((...((.(((((((((.(((((....)))))..))))))))).))....................((..((((((....))))))..))))).. (-16.26 = -17.90 +   1.64)

alignment

secondary structure

dotplot

Window 0

Location	5,703,290 – 5,703,382
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	91.63
Mean single sequence MFE	-20.26
Consensus MFE	-14.89
Energy contribution	-15.73
Covariance contribution	0.84
Combinations/Pair	1.05
Mean z-score	-1.71
Structure conservation index	0.73
SVM decision value	-0.05
SVM RNA-class probability	0.506809
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5703290 92 - 22407834
UAUUCUAUAUAUUGGUGUUUUUACUUCAGCAGCCACGCUAACCACUUUCUGACUUCUUCGCAAGUGAAGUCAGUCAGAAACUGAAAAAUCAG
............((((((....))...(((......))).)))).(((((((((.(((((....)))))..)))))))))((((....)))) ( -21.60)
>DroSec_CAF1 148555 92 - 1
UAUUCUAUAUAUUGGUGUUUUUACUUCAGGAGCCACGCUAACCACUUUCUGACUUCUUCGCAAGUGAAGUCAGUCAGAAACUGAAAAAUCUG
...........(((((((.....(....).....))))))).((.(((((((((.(((((....)))))..))))))))).))......... ( -21.50)
>DroSim_CAF1 148177 92 - 1
UAUUCUAUAUAUUGGUGUUUUUACUUCAGGAGCCACGCUAACCACUUUCUGACUUCUUCGCAAGUGAAGUCAGUCAGAAACUAAAAAAUCUG
...........(((((((.....(....).....)))))))....(((((((((.(((((....)))))..)))))))))............ ( -19.80)
>DroEre_CAF1 151497 92 - 1
UAUCCUAUACAUUGGUGUUUUUACUUCACGAGUCCCGCUAACCACUUUCUGACUUCUUGGCCAGUAAAGUCAGUCGGAAACUGAAAAAUCUU
...........((((((.....((((...))))..)))))).((.(((((((((.(((........)))..))))))))).))......... ( -15.70)
>DroYak_CAF1 150157 92 - 1
UAUUCUAUAUAUUGGUGUUUUCACUUCAGGAGCCCCGCUAACCAUUUUCUGACUUCCUAGCAAGUGAAGUCAGCCAGAAAGUGAAAAAUCUG
.............(((.((((((((((.(((((...))).........((((((((((....)).)))))))))).).)))))))))))).. ( -22.70)
>consensus
UAUUCUAUAUAUUGGUGUUUUUACUUCAGGAGCCACGCUAACCACUUUCUGACUUCUUCGCAAGUGAAGUCAGUCAGAAACUGAAAAAUCUG
...........((((((..................)))))).((.(((((((((.(((((....)))))..))))))))).))......... (-14.89 = -15.73 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:02 2006