Locus 904

Sequence ID	2R_DroMel_CAF1
Location	4,049,544 – 4,049,698
Length	154
Max. P	0.884555

overview

Window 6

Location	4,049,544 – 4,049,661
Length	117
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	88.47
Mean single sequence MFE	-33.72
Consensus MFE	-25.78
Energy contribution	-26.82
Covariance contribution	1.04
Combinations/Pair	1.19
Mean z-score	-2.06
Structure conservation index	0.76
SVM decision value	0.93
SVM RNA-class probability	0.884555
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4049544 117 + 20766785
--CUUAACUCGCUAAUAAAGUUAUGAAAAUGUUUGAGUUUGCAAACCCUU-UUUGUACGCUGUCAUCAGCCUGACAGUGCGAGCGGUUUGUCAUGAAUCUAAUUAGCGAGAGGACUCCCG
--.....(((((((((....((((((...((((((....((((((.....-))))))((((((((......)))))))))))))).....)))))).....))))))))).((....)). ( -37.30)
>DroSec_CAF1 32310 118 + 1
--CUUAACUCGCUAAUAAAGUUAUGAAAAUGUUUGAGUUUGCAAACCCUUUUUUGUACGCUGUCAUCAGCCUGACAGCGCGAGCGGUUUGUCAUGGAUCUAAUUAGCAAAAGGACUCCCG
--........((((((....((((((...((((((....((((((......))))))((((((((......)))))))))))))).....)))))).....))))))....((....)). ( -32.10)
>DroSim_CAF1 36981 118 + 1
--CUUAACUCGCUAAUAAAGUUAUGAAAAUGUUUGAGUUUGCAAACCCUUUUUUGUACGCUGUCAUCAGGCUGACAGCGCGAGCGGUUUGUCAUGGAUCUAAUUAGCGAAAGGACUCCCG
--......((((((((....((((((...((((((....((((((......))))))((((((((......)))))))))))))).....)))))).....))))))))..((....)). ( -35.30)
>DroEre_CAF1 31471 118 + 1
--CUCAACUCGCUAAUAAAGUUAUGAGAAUGUUUGAGAUUGCAAACCCUUUUUUGAGCGCUGUCGUCAGCCUGACAGCGCUAGCGGUUUAUCAAUGAUCUAAUUAGCGUGAGGACUCCUG
--((((...(((((((.(..(((((((((((((((......))))).........((((((((((......))))))))))....)))).)).))))..).)))))))))))........ ( -33.80)
>DroYak_CAF1 35342 114 + 1
CUCUUAGCUCGCUAAUAAAGUUAUGAAAAUGUUUGAGUUUUCAAACCCUUUUUUGAACGCUGUCGUCAGUCUGACAGCGCGAG------AUCAAGGAUCUAAUUACCCCAAGGACUCCUG
.......(((((.......(((..((((..(((((......)))))..))))...)))(((((((......))))))))))))------....(((((((...........))).)))). ( -30.10)
>consensus
__CUUAACUCGCUAAUAAAGUUAUGAAAAUGUUUGAGUUUGCAAACCCUUUUUUGUACGCUGUCAUCAGCCUGACAGCGCGAGCGGUUUGUCAUGGAUCUAAUUAGCGAAAGGACUCCCG
..(((...((((((((....((((((...((((((....((((((......))))))((((((((......)))))))))))))).....)))))).....)))))))))))........ (-25.78 = -26.82 +   1.04)

alignment

secondary structure

dotplot

Window 7

Location	4,049,582 – 4,049,698
Length	116
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	85.53
Mean single sequence MFE	-33.14
Consensus MFE	-24.24
Energy contribution	-25.84
Covariance contribution	1.60
Combinations/Pair	1.07
Mean z-score	-1.57
Structure conservation index	0.73
SVM decision value	-0.01
SVM RNA-class probability	0.528007
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4049582 116 - 20766785
---CGUUUACAAUUUUGUCAUUCCCUGACUUGCAUUUCCGCGGGAGUCCUCUCGCUAAUUAGAUUCAUGACAAACCGCUCGCACUGUCAGGCUGAUGACAGCGUACAAA-AAGGGUUUGC
---............(((((((.((((((.(((......((((((....)))))).............((........)))))..))))))..)))))))(((.((...-....)).))) ( -30.20)
>DroSec_CAF1 32348 117 - 1
---UGUUUACAAUUUUGUCAUUCCCUGACUUGCAUUUCCGCGGGAGUCCUUUUGCUAAUUAGAUCCAUGACAAACCGCUCGCGCUGUCAGGCUGAUGACAGCGUACAAAAAAGGGUUUGC
---.............((((.....))))..(((..(((((((..(((......((....))......)))...))))..(((((((((......)))))))))........)))..))) ( -34.40)
>DroSim_CAF1 37019 117 - 1
---UGUUUACAAUUUUGUCAUUCCCUGACUUGCAUUUCCGCGGGAGUCCUUUCGCUAAUUAGAUCCAUGACAAACCGCUCGCGCUGUCAGCCUGAUGACAGCGUACAAAAAAGGGUUUGC
---.............((((.....))))..(((..(((((((..(((...((........)).....)))...))))..(((((((((......)))))))))........)))..))) ( -34.70)
>DroEre_CAF1 31509 120 - 1
GCAAUUUUGUAAUUUUGUCAUUCUCUGACUUGCACUUCCGCAGGAGUCCUCACGCUAAUUAGAUCAUUGAUAAACCGCUAGCGCUGUCAGGCUGACGACAGCGCUCAAAAAAGGGUUUGC
((((..........((((((...((((((((((......)))))(((......)))..)))))....))))))(((.(((((((((((........)))))))))......))))))))) ( -32.90)
>DroYak_CAF1 35382 110 - 1
---UAUUUGCAGUUUUAUCAUU-UCUGACUUGCAUUUCCGCAGGAGUCCUUGGGGUAAUUAGAUCCUUGAU------CUCGCGCUGUCAGACUGACGACAGCGUUCAAAAAAGGGUUUGA
---....(((((((........-...))).))))...((.((((....)))).))...((((((((((...------...((((((((........))))))))......)))))))))) ( -33.50)
>consensus
___UGUUUACAAUUUUGUCAUUCCCUGACUUGCAUUUCCGCGGGAGUCCUUUCGCUAAUUAGAUCCAUGACAAACCGCUCGCGCUGUCAGGCUGAUGACAGCGUACAAAAAAGGGUUUGC
................((((.....))))..(((..(((((((..(((......((....))......)))...))))..(((((((((......)))))))))........)))..))) (-24.24 = -25.84 +   1.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:47 2006