Locus 8384

Sequence ID	3R_DroMel_CAF1
Location	22,356,404 – 22,356,531
Length	127
Max. P	0.994914

overview

Window 6

Location	22,356,404 – 22,356,494
Length	90
Sequences	5
Columns	90
Reading direction	forward
Mean pairwise identity	96.11
Mean single sequence MFE	-25.78
Consensus MFE	-21.76
Energy contribution	-21.84
Covariance contribution	0.08
Combinations/Pair	1.07
Mean z-score	-1.40
Structure conservation index	0.84
SVM decision value	0.12
SVM RNA-class probability	0.591404
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22356404 90 + 27905053
UUGAUGUGUCUCGGAUUGAUUGAUUGUCCCUUGCAAUCCAAUAUGUUGCAGGACACUAUUUGAAUCGAUUCAUGCGGGUGGAUUGGAGAU
(..((.((.((((.((.((((((((((((..((((((.......)))))))))).(.....))))))))).)).)))))).))..).... ( -23.30)
>DroSec_CAF1 64067 90 + 1
UUGAUGUGUCUCGGAUUGAUUGAUUGUCCCUUGCAAUCCAAUAUGUUGCAGGACACUUUUUCAAUCGAUUCAUGCGGGUGGCUCGGGAAU
........(((((((((((((((.(((((..((((((.......))))))))))).....)))))))))))..((.....))..)))).. ( -28.00)
>DroSim_CAF1 63191 90 + 1
UUGAUGUGUCUCGGAUUGAUUGAUUGUCCCUUGCAAUCCAAUAUGUUGCAGGACACUAUUUGAAUCGAUUCAUGCGGGUGGCUCGGGAAU
((((.((..((((.((.((((((((((((..((((((.......)))))))))).(.....))))))))).)).))))..)))))).... ( -24.10)
>DroEre_CAF1 66449 90 + 1
UUGAUGUGUCUCGGAUUGAUUGAUUGUCCCUUGCAAUCCAAUAUGUUGCAGGACACUAUUUGAAUCGAUUCAUGCGGGUGGCCCGGGAAU
........(((((((((((((.(.(((((..((((((.......))))))))))).....).)))))))))....(((...))))))).. ( -26.20)
>DroYak_CAF1 66022 90 + 1
UUGAUGUGUCUCGGAUUGAUUGAUUGUCCCUUGCAACCCAAUAUGUUGCAGGACACUAUUUGAAUCGAUUCAUGCGGGUGGCACGGGAAU
....(((((((((.((.((((((((((((..((((((.......)))))))))).(.....))))))))).)).))))..)))))..... ( -27.30)
>consensus
UUGAUGUGUCUCGGAUUGAUUGAUUGUCCCUUGCAAUCCAAUAUGUUGCAGGACACUAUUUGAAUCGAUUCAUGCGGGUGGCUCGGGAAU
........(((((((((((((.(.(((((..((((((.......))))))))))).....).)))))))))..((.....))..)))).. (-21.76 = -21.84 +   0.08)

alignment

secondary structure

dotplot

Window 7

Location	22,356,414 – 22,356,531
Length	117
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	95.34
Mean single sequence MFE	-36.86
Consensus MFE	-33.16
Energy contribution	-32.92
Covariance contribution	-0.24
Combinations/Pair	1.08
Mean z-score	-1.96
Structure conservation index	0.90
SVM decision value	2.52
SVM RNA-class probability	0.994914
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22356414 117 + 27905053
UCGGAUUGAUUGAUUGUCCCUUGCAAUCCAAUAUGUUGCAGGACACUAUUUGAAUCGAUUCAUGCGGGUGGAUUGGAGAUUACAGUAAUAGCUCGC-AUUCGCAGGGAUAUUGCCAAG
..(((((((((.(.(((((..((((((.......))))))))))).....).)))))))))((((((((..((((.......))))....))))))-))..((((.....)))).... ( -35.30)
>DroSec_CAF1 64077 118 + 1
UCGGAUUGAUUGAUUGUCCCUUGCAAUCCAAUAUGUUGCAGGACACUUUUUCAAUCGAUUCAUGCGGGUGGCUCGGGAAUUACAGUAAUAGCUCGCCAUUCGCAAGGAUAUUGCCAAG
..(((((((((((.(((((..((((((.......))))))))))).....))))))))))).((((((((((..(((.((((...))))..))))))))))))).((......))... ( -40.80)
>DroSim_CAF1 63201 118 + 1
UCGGAUUGAUUGAUUGUCCCUUGCAAUCCAAUAUGUUGCAGGACACUAUUUGAAUCGAUUCAUGCGGGUGGCUCGGGAAUUACAGUAAUAGCUCGCCAUUCGCAAGGAUAUUGCCAAG
..(((((((((.(.(((((..((((((.......))))))))))).....).))))))))).((((((((((..(((.((((...))))..))))))))))))).((......))... ( -36.70)
>DroEre_CAF1 66459 118 + 1
UCGGAUUGAUUGAUUGUCCCUUGCAAUCCAAUAUGUUGCAGGACACUAUUUGAAUCGAUUCAUGCGGGUGGCCCGGGAAUUACAGUGAUAGCUCGCCAUUUGCAAGGAUAUUGCCAAG
..(((((((((.(.(((((..((((((.......))))))))))).....).))))))))).((((((((((..(((.(((.....)))..))))))))))))).((......))... ( -34.90)
>DroYak_CAF1 66032 118 + 1
UCGGAUUGAUUGAUUGUCCCUUGCAACCCAAUAUGUUGCAGGACACUAUUUGAAUCGAUUCAUGCGGGUGGCACGGGAAUUACAGUGAUAGCUCGCCAUUUGCAAGGAUAUUGCCAAG
..(((((((((.(.(((((..((((((.......))))))))))).....).))))))))).((((((((((...(......)(((....))).)))))))))).((......))... ( -36.60)
>consensus
UCGGAUUGAUUGAUUGUCCCUUGCAAUCCAAUAUGUUGCAGGACACUAUUUGAAUCGAUUCAUGCGGGUGGCUCGGGAAUUACAGUAAUAGCUCGCCAUUCGCAAGGAUAUUGCCAAG
..(((((((((.(.(((((..((((((.......))))))))))).....).))))))))).((((((((((..((..((((...))))..)).)))))))))).((......))... (-33.16 = -32.92 +  -0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:15 2006