Locus 4735

Sequence ID	X_DroMel_CAF1
Location	12,306,929 – 12,307,028
Length	99
Max. P	0.997591

overview

Window 5

Location	12,306,929 – 12,307,028
Length	99
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	93.76
Mean single sequence MFE	-19.83
Consensus MFE	-16.78
Energy contribution	-17.18
Covariance contribution	0.40
Combinations/Pair	1.07
Mean z-score	-2.07
Structure conservation index	0.85
SVM decision value	2.05
SVM RNA-class probability	0.986712
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12306929 99 + 22224390
CGUCGCAGUCUUCAAACAGUGUUGCCAUCCAUUCGAUGCAAAAA-AAAAAUAGGCUAAAAUGUAGCCAAAUGUCUCAUGACAACAUAAACAUAUGUUUCA
.............((((((((((((.(((.....))))).....-.......(((((.....)))))...((((....)))).....))))).))))).. ( -17.50)
>DroSec_CAF1 9114 100 + 1
CGUCGCAGUCGUCAAACAGUGCUGCCAUCCAUUCGAUGCAAAAAAAAAAAUAGGCUAAAAUAUAGCCAAAUGUCUCAUGACAACAUAAACAUAUGUUUUA
.(((((((((........).)))))((((.....))))..............(((((.....)))))...........)))((((((....))))))... ( -19.30)
>DroSim_CAF1 9677 99 + 1
CGUCGCAGUCGUCAAACAGUGUUGCCAUCCAUUCGAUGCAAAAA-AAAAAUAGGCUAAAAUAUAGCCAAAUGUUUUAUGACAACAUAAACAUAUGUUUCA
.......(((((.(((((...((((.(((.....)))))))...-.......(((((.....)))))...))))).)))))((((((....))))))... ( -22.60)
>DroEre_CAF1 9199 98 + 1
CGUCGCAGUCGCCAAAUAGUGUUGCCAUCCAUUCGAUGCAAAAA--AAAAUGGGCUAAAAUAUAGCCAAAUGUCUCGUGACAACAUAAACAUAUGCUUCA
....((((.(((......))))))).........((.(((....--...((((((((.....)))))...((((....)))).))).......))).)). ( -20.54)
>DroYak_CAF1 8591 98 + 1
CGUCGCAGUCGCCAAACAGUGUUGCCAUCCAUUCGAUGCAAAAA--AAAAUAGGCUAAAUUGUAGCCAAAUGUCUCAUGACAACAUAAACAUAUGUUUCA
.(((((((.(((......)))))))((((.....))))......--......(((((.....)))))...........)))((((((....))))))... ( -19.20)
>consensus
CGUCGCAGUCGUCAAACAGUGUUGCCAUCCAUUCGAUGCAAAAA_AAAAAUAGGCUAAAAUAUAGCCAAAUGUCUCAUGACAACAUAAACAUAUGUUUCA
.......(((((.(.(((...((((.(((.....)))))))...........(((((.....)))))...))).).)))))((((((....))))))... (-16.78 = -17.18 +   0.40)

alignment

secondary structure

dotplot

Window 6

Location	12,306,929 – 12,307,028
Length	99
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	93.76
Mean single sequence MFE	-24.50
Consensus MFE	-24.96
Energy contribution	-24.40
Covariance contribution	-0.56
Combinations/Pair	1.11
Mean z-score	-1.66
Structure conservation index	1.02
SVM decision value	2.89
SVM RNA-class probability	0.997591
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12306929 99 - 22224390
UGAAACAUAUGUUUAUGUUGUCAUGAGACAUUUGGCUACAUUUUAGCCUAUUUUU-UUUUUGCAUCGAAUGGAUGGCAACACUGUUUGAAGACUGCGACG
...((((((....))))))(((...........(((((.....))))).......-.....(((((((((((.((....))))))))))....)))))). ( -24.80)
>DroSec_CAF1 9114 100 - 1
UAAAACAUAUGUUUAUGUUGUCAUGAGACAUUUGGCUAUAUUUUAGCCUAUUUUUUUUUUUGCAUCGAAUGGAUGGCAGCACUGUUUGACGACUGCGACG
..........(((...(((((((...((((...(((((.....)))))...........(((((((.....))).))))...)))))))))))...))). ( -22.70)
>DroSim_CAF1 9677 99 - 1
UGAAACAUAUGUUUAUGUUGUCAUAAAACAUUUGGCUAUAUUUUAGCCUAUUUUU-UUUUUGCAUCGAAUGGAUGGCAACACUGUUUGACGACUGCGACG
...((((((....))))))(((...........(((((.....))))).......-.....(((((((((((.((....))))))))))....)))))). ( -25.70)
>DroEre_CAF1 9199 98 - 1
UGAAGCAUAUGUUUAUGUUGUCACGAGACAUUUGGCUAUAUUUUAGCCCAUUUU--UUUUUGCAUCGAAUGGAUGGCAACACUAUUUGGCGACUGCGACG
...((((((....))))))(((...........(((((.....)))))......--.....(((((((((((.((....))))))))))....)))))). ( -25.40)
>DroYak_CAF1 8591 98 - 1
UGAAACAUAUGUUUAUGUUGUCAUGAGACAUUUGGCUACAAUUUAGCCUAUUUU--UUUUUGCAUCGAAUGGAUGGCAACACUGUUUGGCGACUGCGACG
...((((((....))))))(((...........(((((.....)))))......--.....(((((((((((.((....))))))))))....)))))). ( -23.90)
>consensus
UGAAACAUAUGUUUAUGUUGUCAUGAGACAUUUGGCUAUAUUUUAGCCUAUUUUU_UUUUUGCAUCGAAUGGAUGGCAACACUGUUUGACGACUGCGACG
...((((((....))))))(((...........(((((.....))))).............(((((((((((.((....))))))))))....)))))). (-24.96 = -24.40 +  -0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:06 2006