Locus 6446

Sequence ID	2L_DroMel_CAF1
Location	18,111,518 – 18,111,636
Length	118
Max. P	0.981826

overview

Window 7

Location	18,111,518 – 18,111,636
Length	118
Sequences	3
Columns	118
Reading direction	forward
Mean pairwise identity	97.74
Mean single sequence MFE	-32.37
Consensus MFE	-30.60
Energy contribution	-30.93
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-3.27
Structure conservation index	0.95
SVM decision value	1.90
SVM RNA-class probability	0.981826
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18111518 118 + 22407834
AUGGAGAGUGGAAAUUCAAUUAUUUAACGCUGUUGUUUAUUAAAGGAAGUGUCACAAACCGCAUCUGCGCCGGUGUUUGGCACACAAAAUUAUUAAAAUUAUUUCCACUCUCACUUGA
...((((((((((((((..(((...((((....))))...)))..)))((((((...(((((......).))))...))))))..................)))))))))))...... ( -34.10)
>DroSec_CAF1 941 118 + 1
AUGGAGAGUGGAAAUGCAAUUAUUUAACGCUAUUGUUUAUUAAAGGAAGUGUCACAAACCGCAUCUGCGCUUGUGUUUGGCACACAAAAUUAUUAAAAUUAUUUCCACUCUCACUUGA
...(((((((((((((...(((...((((....))))...))).....((((..((((((((....))).....)))))..))))..............)))))))))))))...... ( -31.50)
>DroSim_CAF1 1027 118 + 1
AUGGAGAGUGGAAAUGCAAUUAUUUAACGCUAUUGUUUAUUAAAGGAAGUGUCACAAACCGCAUCUGCGCUUGUGUUUGGCACACAAAAUUAUUAAAAUUAUUUCCACUCUCACUUGA
...(((((((((((((...(((...((((....))))...))).....((((..((((((((....))).....)))))..))))..............)))))))))))))...... ( -31.50)
>consensus
AUGGAGAGUGGAAAUGCAAUUAUUUAACGCUAUUGUUUAUUAAAGGAAGUGUCACAAACCGCAUCUGCGCUUGUGUUUGGCACACAAAAUUAUUAAAAUUAUUUCCACUCUCACUUGA
...(((((((((((((...(((...((((....))))...))).....((((..((((((((....))).....)))))..))))..............)))))))))))))...... (-30.60 = -30.93 +   0.33)

alignment

secondary structure

dotplot

Window 8

Location	18,111,518 – 18,111,636
Length	118
Sequences	3
Columns	118
Reading direction	reverse
Mean pairwise identity	97.74
Mean single sequence MFE	-35.13
Consensus MFE	-32.25
Energy contribution	-32.25
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-4.43
Structure conservation index	0.92
SVM decision value	1.43
SVM RNA-class probability	0.952968
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18111518 118 - 22407834
UCAAGUGAGAGUGGAAAUAAUUUUAAUAAUUUUGUGUGCCAAACACCGGCGCAGAUGCGGUUUGUGACACUUCCUUUAAUAAACAACAGCGUUAAAUAAUUGAAUUUCCACUCUCCAU
....(.((((((((((((....(((((.((((..((((((.......))))))(((((.((((((.............))))))....))))))))).)))))))))))))))))).. ( -36.12)
>DroSec_CAF1 941 118 - 1
UCAAGUGAGAGUGGAAAUAAUUUUAAUAAUUUUGUGUGCCAAACACAAGCGCAGAUGCGGUUUGUGACACUUCCUUUAAUAAACAAUAGCGUUAAAUAAUUGCAUUUCCACUCUCCAU
....(.((((((((((((............(((((((.....))))))).((((((((.((((((.............))))))....))))).......)))))))))))))))).. ( -34.63)
>DroSim_CAF1 1027 118 - 1
UCAAGUGAGAGUGGAAAUAAUUUUAAUAAUUUUGUGUGCCAAACACAAGCGCAGAUGCGGUUUGUGACACUUCCUUUAAUAAACAAUAGCGUUAAAUAAUUGCAUUUCCACUCUCCAU
....(.((((((((((((............(((((((.....))))))).((((((((.((((((.............))))))....))))).......)))))))))))))))).. ( -34.63)
>consensus
UCAAGUGAGAGUGGAAAUAAUUUUAAUAAUUUUGUGUGCCAAACACAAGCGCAGAUGCGGUUUGUGACACUUCCUUUAAUAAACAAUAGCGUUAAAUAAUUGCAUUUCCACUCUCCAU
....(.((((((((((((................(((((.........)))))(((((.((((((.............))))))....)))))..........))))))))))))).. (-32.25 = -32.25 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:28 2006