Locus 4915

Sequence ID	2R_DroMel_CAF1
Location	16,065,002 – 16,065,131
Length	129
Max. P	0.984941

overview

Window 2

Location	16,065,002 – 16,065,097
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	97.68
Mean single sequence MFE	-26.90
Consensus MFE	-24.14
Energy contribution	-23.98
Covariance contribution	-0.16
Combinations/Pair	1.11
Mean z-score	-1.96
Structure conservation index	0.90
SVM decision value	1.96
SVM RNA-class probability	0.983938
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16065002 95 + 20766785
UAUUCGCAGUUCGUAAGAGCCAAAAACUGGUAUUCGAGGUGCCGAGAUGCGCAUUUUAUAUGCCACUACGAUCGGCUAAUCCACGAAUCCGAAAC
..(((...((((....))))........((.(((((.((.(((((..((.((((.....))))))......)))))....)).)))))))))).. ( -28.10)
>DroSec_CAF1 118632 95 + 1
UAUUCGCAGUUCGUAAGAGCCAAAAACUGGUAUUCGAGGUGCCGAGAUGCGCAUUUUAUAUGCCACUACGAUCGGCUAAUCCACGAAUCCGAAAC
..(((...((((....))))........((.(((((.((.(((((..((.((((.....))))))......)))))....)).)))))))))).. ( -28.10)
>DroSim_CAF1 122644 95 + 1
UAUUCGCAGUUCGUAAGAGCCAAAAACUGGUAUUCGAGGUGCCGAGAUGCGCAUUUUAUAUGCCACUACGAUCGGCUAAUCCACGAAUCCGAAAC
..(((...((((....))))........((.(((((.((.(((((..((.((((.....))))))......)))))....)).)))))))))).. ( -28.10)
>DroEre_CAF1 125489 95 + 1
UAUUCGCAGUUCGUAAGAGCCAAAAACUGGUAUUCGAAGUGCCGAGAUGCGCGUUUUAUAUGCCACUACGAUCGGCUAAUCCACGAAUCCGAAAC
..((((..((((((...((((......((((((.....))))))((.((.((((.....))))))))......)))).....)))))).)))).. ( -24.30)
>DroYak_CAF1 130029 95 + 1
UAUUCGCAGUUCGUAAGAGCCAAAAACUGGUAUUCGGAGUGCCGAGAUGCGCAUUUAAUAUGCCACUACGAUCGGCUAAUCCACGAAUCCAAAAC
........((((....)))).......(((.(((((((..(((((..((.((((.....))))))......)))))...)))..))))))).... ( -25.90)
>consensus
UAUUCGCAGUUCGUAAGAGCCAAAAACUGGUAUUCGAGGUGCCGAGAUGCGCAUUUUAUAUGCCACUACGAUCGGCUAAUCCACGAAUCCGAAAC
..((((..((((((...((((......((((((..(((((((........)))))))..))))))........)))).....)))))).)))).. (-24.14 = -23.98 +  -0.16)

alignment

secondary structure

dotplot

Window 3

Location	16,065,030 – 16,065,131
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	97.82
Mean single sequence MFE	-25.07
Consensus MFE	-24.41
Energy contribution	-24.65
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-1.67
Structure conservation index	0.97
SVM decision value	1.99
SVM RNA-class probability	0.984941
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16065030 101 + 20766785
GGUAUUCGAGGUGCCGAGAUGCGCAUUUUAUAUGCCACUACGAUCGGCUAAUCCACGAAUCCGAAACUUGUUUUUACAUUUUGCAUUCAUAAACAAGGUAA
((.(((((.((.(((((..((.((((.....))))))......)))))....)).)))))))....(((((((.................))))))).... ( -26.33)
>DroSec_CAF1 118660 101 + 1
GGUAUUCGAGGUGCCGAGAUGCGCAUUUUAUAUGCCACUACGAUCGGCUAAUCCACGAAUCCGAAACUUGUUUUUACAUUUUGCAUUCAUAAACAAGGUAA
((.(((((.((.(((((..((.((((.....))))))......)))))....)).)))))))....(((((((.................))))))).... ( -26.33)
>DroSim_CAF1 122672 101 + 1
GGUAUUCGAGGUGCCGAGAUGCGCAUUUUAUAUGCCACUACGAUCGGCUAAUCCACGAAUCCGAAACUUGUUUUUACAUUUUGCAUUCAUAAACAAGGUAA
((.(((((.((.(((((..((.((((.....))))))......)))))....)).)))))))....(((((((.................))))))).... ( -26.33)
>DroEre_CAF1 125517 101 + 1
GGUAUUCGAAGUGCCGAGAUGCGCGUUUUAUAUGCCACUACGAUCGGCUAAUCCACGAAUCCGAAACUUGUUUUUACAUUUUGCAUUCAUAAACAAGGUAA
((.(((((..(.(((((..((.((((.....))))))......)))))....)..)))))))....(((((((.................))))))).... ( -21.73)
>DroYak_CAF1 130057 101 + 1
GGUAUUCGGAGUGCCGAGAUGCGCAUUUAAUAUGCCACUACGAUCGGCUAAUCCACGAAUCCAAAACUUGUUUUUACAUUUUGCAUUCAUAAACAAGGUAA
((.(((((((..(((((..((.((((.....))))))......)))))...)))..))))))....(((((((.................))))))).... ( -24.63)
>consensus
GGUAUUCGAGGUGCCGAGAUGCGCAUUUUAUAUGCCACUACGAUCGGCUAAUCCACGAAUCCGAAACUUGUUUUUACAUUUUGCAUUCAUAAACAAGGUAA
((.(((((.((.(((((..((.((((.....))))))......)))))....)).)))))))....(((((((.................))))))).... (-24.41 = -24.65 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:05 2006