Locus 4199

Sequence ID	X_DroMel_CAF1
Location	11,016,923 – 11,017,021
Length	98
Max. P	0.997794

overview

Window 3

Location	11,016,923 – 11,017,021
Length	98
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	81.78
Mean single sequence MFE	-24.78
Consensus MFE	-19.48
Energy contribution	-20.12
Covariance contribution	0.64
Combinations/Pair	1.14
Mean z-score	-3.15
Structure conservation index	0.79
SVM decision value	2.93
SVM RNA-class probability	0.997794
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11016923 98 + 22224390
UUAUUA--CUUUAUAGUUCUAGUUGACAAUAAGGAAUUAAAUGUUUCAACAUUGCGUAUGCUUAAUAUUCAAUGCUGAUAUUGCGUAUACGCAACGUUGG
......--((((((.(((......))).))))))............((((.((((((((((.((((((.((....)))))))).)))))))))).)))). ( -26.90)
>DroSec_CAF1 9666 98 + 1
UUAUCA--CUUUCUAAUACUGAUUCACAAUCAGAAAUGAAAUGUUUCAACACUGCGUAUGCUUAAUAUUCAAUGCAGAUAUUGCGUAUACGCAACGUUGA
.....(--(((((.....(((((.....)))))....)))).)).(((((..(((((((((.(((((((.......))))))).)))))))))..))))) ( -25.80)
>DroSim_CAF1 5369 98 + 1
UUAUCA--CUUUCCAAUACUGAUUGACAAUCAGAAAUUGAAUGUUUCAACACUGCGUAUGCUUCAUAUUCAAUGCAGAUAUUGCGUAUACGCAACGUUGA
......--.....((((.(((((.....)))))..))))......(((((..(((((((((..((...((......))...)).)))))))))..))))) ( -22.20)
>DroEre_CAF1 3532 99 + 1
GUAUAAGCCUUCAUUGUUCUGGUUGAUA-AAAUGAAUUCAAUGUUCCAGCAUUGCGUAUACUUAAUAUUCGAUGUUGAUAUUGCGUAUACGCAACGUUUA
......(..((((((..((.....))..-.))))))..)........(((.((((((((((.(((((((.......))))))).)))))))))).))).. ( -23.10)
>DroYak_CAF1 4847 98 + 1
UUAUCA--CUCUAUUGUUCUGGUUGAGAAAAAUGAAUUAAAGGUUUCAACAUUGCGUAUACUUAAUAUUCAAUAUUGAUAUUGCGUAUACGCAAUGUUAG
......--(((.(((.....))).)))......(((........)))((((((((((((((.(((((((.......))))))).)))))))))))))).. ( -25.90)
>consensus
UUAUCA__CUUUAUAGUUCUGGUUGACAAUAAGGAAUUAAAUGUUUCAACAUUGCGUAUGCUUAAUAUUCAAUGCUGAUAUUGCGUAUACGCAACGUUGA
.............................................(((((.((((((((((.(((((((.......))))))).)))))))))).))))) (-19.48 = -20.12 +   0.64)

alignment

secondary structure

dotplot

Window 4

Location	11,016,923 – 11,017,021
Length	98
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	81.78
Mean single sequence MFE	-24.20
Consensus MFE	-16.34
Energy contribution	-16.42
Covariance contribution	0.08
Combinations/Pair	1.15
Mean z-score	-3.45
Structure conservation index	0.68
SVM decision value	2.88
SVM RNA-class probability	0.997536
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11016923 98 - 22224390
CCAACGUUGCGUAUACGCAAUAUCAGCAUUGAAUAUUAAGCAUACGCAAUGUUGAAACAUUUAAUUCCUUAUUGUCAACUAGAACUAUAAAG--UAAUAA
.(((((((((((((.(..((((((......).)))))..).)))))))))))))..............((((..((.....))...))))..--...... ( -20.20)
>DroSec_CAF1 9666 98 - 1
UCAACGUUGCGUAUACGCAAUAUCUGCAUUGAAUAUUAAGCAUACGCAGUGUUGAAACAUUUCAUUUCUGAUUGUGAAUCAGUAUUAGAAAG--UGAUAA
((((((((((((((.(..((((((......).)))))..).))))))))))))))......(((((((((((...........))))).)))--)))... ( -24.60)
>DroSim_CAF1 5369 98 - 1
UCAACGUUGCGUAUACGCAAUAUCUGCAUUGAAUAUGAAGCAUACGCAGUGUUGAAACAUUCAAUUUCUGAUUGUCAAUCAGUAUUGGAAAG--UGAUAA
((((((((((((((.(...(((((......).))))...).))))))))))))))....((((((..(((((.....))))).))))))...--...... ( -26.10)
>DroEre_CAF1 3532 99 - 1
UAAACGUUGCGUAUACGCAAUAUCAACAUCGAAUAUUAAGUAUACGCAAUGCUGGAACAUUGAAUUCAUUU-UAUCAACCAGAACAAUGAAGGCUUAUAC
....((((((((((((..((((((......).)))))..))))))))))))((((.....((((.....))-))....)))).................. ( -23.30)
>DroYak_CAF1 4847 98 - 1
CUAACAUUGCGUAUACGCAAUAUCAAUAUUGAAUAUUAAGUAUACGCAAUGUUGAAACCUUUAAUUCAUUUUUCUCAACCAGAACAAUAGAG--UGAUAA
.(((((((((((((((..(((((((....)).)))))..))))))))))))))).........(((((((.((((.....)))).))).)))--)..... ( -26.80)
>consensus
UCAACGUUGCGUAUACGCAAUAUCAGCAUUGAAUAUUAAGCAUACGCAAUGUUGAAACAUUUAAUUCCUUAUUGUCAACCAGAACUAUAAAG__UGAUAA
.(((((((((((((.(..((((((......).)))))..).))))))))))))).............................................. (-16.34 = -16.42 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:00 2006