Locus 6371

Sequence ID	X_DroMel_CAF1
Location	16,019,920 – 16,020,080
Length	160
Max. P	0.997895

overview

Window 2

Location	16,019,920 – 16,020,040
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	100.00
Mean single sequence MFE	-27.30
Consensus MFE	-27.30
Energy contribution	-27.30
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.21
Structure conservation index	1.00
SVM decision value	2.68
SVM RNA-class probability	0.996328
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16019920 120 + 22224390
CUGCCGUCCGUUUUGUCGUUACACCUUUUCCCCGAAGCGAAAUAAAAUAAAAUAUUUCAAAUGACCACGUCUUGGCUAUUUUCCGUUACAUUAUGGUAAAAUAUUGCCCUGACUUACGGU
..(((((.......((((((....((((.....)))).((((((........)))))).))))))...(((..(((((((((((((......)))).))))))..)))..)))..))))) ( -27.30)
>DroSec_CAF1 87676 120 + 1
CUGCCGUCCGUUUUGUCGUUACACCUUUUCCCCGAAGCGAAAUAAAAUAAAAUAUUUCAAAUGACCACGUCUUGGCUAUUUUCCGUUACAUUAUGGUAAAAUAUUGCCCUGACUUACGGU
..(((((.......((((((....((((.....)))).((((((........)))))).))))))...(((..(((((((((((((......)))).))))))..)))..)))..))))) ( -27.30)
>DroSim_CAF1 81729 120 + 1
CUGCCGUCCGUUUUGUCGUUACACCUUUUCCCCGAAGCGAAAUAAAAUAAAAUAUUUCAAAUGACCACGUCUUGGCUAUUUUCCGUUACAUUAUGGUAAAAUAUUGCCCUGACUUACGGU
..(((((.......((((((....((((.....)))).((((((........)))))).))))))...(((..(((((((((((((......)))).))))))..)))..)))..))))) ( -27.30)
>DroEre_CAF1 85679 120 + 1
CUGCCGUCCGUUUUGUCGUUACACCUUUUCCCCGAAGCGAAAUAAAAUAAAAUAUUUCAAAUGACCACGUCUUGGCUAUUUUCCGUUACAUUAUGGUAAAAUAUUGCCCUGACUUACGGU
..(((((.......((((((....((((.....)))).((((((........)))))).))))))...(((..(((((((((((((......)))).))))))..)))..)))..))))) ( -27.30)
>DroYak_CAF1 71128 120 + 1
CUGCCGUCCGUUUUGUCGUUACACCUUUUCCCCGAAGCGAAAUAAAAUAAAAUAUUUCAAAUGACCACGUCUUGGCUAUUUUCCGUUACAUUAUGGUAAAAUAUUGCCCUGACUUACGGU
..(((((.......((((((....((((.....)))).((((((........)))))).))))))...(((..(((((((((((((......)))).))))))..)))..)))..))))) ( -27.30)
>consensus
CUGCCGUCCGUUUUGUCGUUACACCUUUUCCCCGAAGCGAAAUAAAAUAAAAUAUUUCAAAUGACCACGUCUUGGCUAUUUUCCGUUACAUUAUGGUAAAAUAUUGCCCUGACUUACGGU
..(((((.......((((((....((((.....)))).((((((........)))))).))))))...(((..(((((((((((((......)))).))))))..)))..)))..))))) (-27.30 = -27.30 +   0.00)

alignment

secondary structure

dotplot

Window 3

Location	16,019,960 – 16,020,080
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.26
Mean single sequence MFE	-28.14
Consensus MFE	-25.54
Energy contribution	-25.94
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-2.08
Structure conservation index	0.91
SVM decision value	2.96
SVM RNA-class probability	0.997895
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16019960 120 + 22224390
AAUAAAAUAAAAUAUUUCAAAUGACCACGUCUUGGCUAUUUUCCGUUACAUUAUGGUAAAAUAUUGCCCUGACUUACGGUCGAUACAGCCGUCGUCUCGGUUUUCGACUUGGGUUUCAGU
......................((((..(((..(((((((((((((......)))).))))))..)))..)))....((((((...(((((......))))).))))))..))))..... ( -30.80)
>DroSec_CAF1 87716 117 + 1
AAUAAAAUAAAAUAUUUCAAAUGACCACGUCUUGGCUAUUUUCCGUUACAUUAUGGUAAAAUAUUGCCCUGACUUACGGUCGAUACAGCCG---UCUCGGUUUUCGACUUGGGUUUCAGU
......................((((..(((..(((((((((((((......)))).))))))..)))..)))....((((((...(((((---...))))).))))))..))))..... ( -29.00)
>DroSim_CAF1 81769 117 + 1
AAUAAAAUAAAAUAUUUCAAAUGACCACGUCUUGGCUAUUUUCCGUUACAUUAUGGUAAAAUAUUGCCCUGACUUACGGUCGAUACAGCCG---UCUCGGUUUUCGACUUGGGUUUCAGU
......................((((..(((..(((((((((((((......)))).))))))..)))..)))....((((((...(((((---...))))).))))))..))))..... ( -29.00)
>DroEre_CAF1 85719 109 + 1
AAUAAAAUAAAAUAUUUCAAAUGACCACGUCUUGGCUAUUUUCCGUUACAUUAUGGUAAAAUAUUGCCCUGACUUACGGUCGAUACAGCCG---UCUCGGUUUUCUACAUGU--------
......................((((..(((..(((((((((((((......)))).))))))..)))..)))....))))((...(((((---...))))).)).......-------- ( -22.90)
>DroYak_CAF1 71168 117 + 1
AAUAAAAUAAAAUAUUUCAAAUGACCACGUCUUGGCUAUUUUCCGUUACAUUAUGGUAAAAUAUUGCCCUGACUUACGGUCGAUACAGCCG---UCUCGGUUUUCGACUUGGGUUUCAGU
......................((((..(((..(((((((((((((......)))).))))))..)))..)))....((((((...(((((---...))))).))))))..))))..... ( -29.00)
>consensus
AAUAAAAUAAAAUAUUUCAAAUGACCACGUCUUGGCUAUUUUCCGUUACAUUAUGGUAAAAUAUUGCCCUGACUUACGGUCGAUACAGCCG___UCUCGGUUUUCGACUUGGGUUUCAGU
........................(((.(((..(((((((((((((......)))).))))))..)))..))).....(((((...(((((......))))).))))).)))........ (-25.54 = -25.94 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:55 2006