Locus 5493

Sequence ID	X_DroMel_CAF1
Location	14,261,462 – 14,261,604
Length	142
Max. P	0.837196

overview

Window 9

Location	14,261,462 – 14,261,564
Length	102
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	92.45
Mean single sequence MFE	-19.71
Consensus MFE	-14.40
Energy contribution	-14.20
Covariance contribution	-0.20
Combinations/Pair	1.24
Mean z-score	-1.99
Structure conservation index	0.73
SVM decision value	0.12
SVM RNA-class probability	0.591773
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14261462 102 + 22224390
UCCUUCAUUAAGCCGAAAUAUCCUUUUCAUUACUUAGCAGUAUUUACACUUACAAGUAGUUUAUGCUACCUGACUGGCAUAAAUCCCGAUUUCAUGGGAGAC
...........(((((((......)))).(((..(((((....((((........))))....)))))..)))..))).....(((((......)))))... ( -20.40)
>DroSec_CAF1 2203 101 + 1
UCCUUUAUUAAGCCGAUAUAUCCUUUCCAUUACUUAGCAAUAUUUACUCUUACAAGUAGUUUAUGCUACCUGACUGGC-UAAAACCCGAUUUCAUGGGAGAC
..........((((((....)).......(((..(((((....(((((......)))))....)))))..)))..)))-)....((((......)))).... ( -15.90)
>DroSim_CAF1 6193 102 + 1
UCCUUCAUUAAGCUGAUAUAUCCUUUCCAUUACUUAGCAAUAUUUACUCUUACAAGUAGUUUAUGCUACCUGACUGGCAUAAAUCCCGAUUUCAUGGGAGAC
...........(((((.................))))).....(((((......)))))(((((((((......)))))))))(((((......)))))... ( -17.53)
>DroEre_CAF1 5478 101 + 1
CCCUUCAUUAAAUCAAAAUAUCCCUCCCAUUAC-UAGCAAUAUUUACUCUUACAAGUAGUUUAUGCUACCUGACUGGCAUAAAUCCCGAUUUCAUGGGGGAC
.(((((((.(((((.((((((..((........-.))..))))))..........(..((((((((((......))))))))))..)))))).))))))).. ( -23.60)
>DroYak_CAF1 5244 102 + 1
GCCUUCAUUAAAUCGAAAUAUCCUUUCCGUUACUUAGCAAUAUUUACUCUUACAAGUAGUUUAUGCUACCUGACUGGCAUAAAUCCCGAUUUCAUGGGAGAC
(((...........((((.....)))).((((..(((((....(((((......)))))....)))))..)))).))).....(((((......)))))... ( -21.10)
>consensus
UCCUUCAUUAAGCCGAAAUAUCCUUUCCAUUACUUAGCAAUAUUUACUCUUACAAGUAGUUUAUGCUACCUGACUGGCAUAAAUCCCGAUUUCAUGGGAGAC
.......................(((((((..............((((......))))((((((((((......)))))))))).........))))))).. (-14.40 = -14.20 +  -0.20)

alignment

secondary structure

dotplot

Window 0

Location	14,261,494 – 14,261,604
Length	110
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	83.64
Mean single sequence MFE	-20.06
Consensus MFE	-15.02
Energy contribution	-15.70
Covariance contribution	0.68
Combinations/Pair	1.05
Mean z-score	-1.96
Structure conservation index	0.75
SVM decision value	0.74
SVM RNA-class probability	0.837196
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14261494 110 + 22224390
CUUAGCAGUAUUUACACUUACAAGUAGUUUAUGCUACCUGACUGGCAUAAAUCCCGAUUUCAUGGGAGACUUGAUAUUUUCUCUUCCCAAAUUUUCACAUAGUUAUACAU
.......((((..((........(..((((((((((......))))))))))..)((.....((((((....((.....))..)))))).....)).....)).)))).. ( -21.60)
>DroSec_CAF1 2235 106 + 1
CUUAGCAAUAUUUACUCUUACAAGUAGUUUAUGCUACCUGACUGGC-UAAAACCCGAUUUCAUGGGAGACUUGAUAUUUUCUCUUC-CAAAUUUUCACAUGUA--UACAU
.(((((..((........))((.(((((....))))).))....))-))).....((.....(((((((...((.....)))))))-)).....)).......--..... ( -16.30)
>DroSim_CAF1 6225 110 + 1
CUUAGCAAUAUUUACUCUUACAAGUAGUUUAUGCUACCUGACUGGCAUAAAUCCCGAUUUCAUGGGAGACUUGAUAUUUCCUCUUCCCAAAUUUUCACAUGUAUAUACAU
..................((((.(..((((((((((......))))))))))..)((.....(((((((...((....)).)).))))).....))...))))....... ( -19.90)
>DroEre_CAF1 5510 106 + 1
C-UAGCAAUAUUUACUCUUACAAGUAGUUUAUGCUACCUGACUGGCAUAAAUCCCGAUUUCAUGGGGGACCCGAUAUUUUGCCUCCCCAAAUUUUCGCAUAUAUAUA---
.-..((.................(..((((((((((......))))))))))..)((.......(((((..(((....)))..)))))......)))).........--- ( -24.32)
>DroYak_CAF1 5276 84 + 1
CUUAGCAAUAUUUACUCUUACAAGUAGUUUAUGCUACCUGACUGGCAUAAAUCCCGAUUUCAUGGGAGACUUGAUAUUUUCACU--------------------------
....................(((((..(((((((((......)))))))))(((((......))))).)))))...........-------------------------- ( -18.20)
>consensus
CUUAGCAAUAUUUACUCUUACAAGUAGUUUAUGCUACCUGACUGGCAUAAAUCCCGAUUUCAUGGGAGACUUGAUAUUUUCUCUUCCCAAAUUUUCACAUAUAUAUACAU
....................(((((..(((((((((......)))))))))(((((......))))).)))))..................................... (-15.02 = -15.70 +   0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:15 2006