Locus 1050

Sequence ID	3L_DroMel_CAF1
Location	3,088,904 – 3,089,018
Length	114
Max. P	0.999835

overview

Window 7

Location	3,088,904 – 3,089,018
Length	114
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	93.54
Mean single sequence MFE	-24.38
Consensus MFE	-21.74
Energy contribution	-21.42
Covariance contribution	-0.32
Combinations/Pair	1.07
Mean z-score	-2.82
Structure conservation index	0.89
SVM decision value	4.20
SVM RNA-class probability	0.999835
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3088904 114 + 23771897
UGCGAAAACCUAUCACGGAGACAAUGAAAACUUGGGCAAUUAGCAUUUCUUAUUGUUUUUCGUUUUUCGUUUUCAUUUUCGAAAUGCUUAAAUUUCGACCUGCUCCACAUUAUA
................((((.((((((((((..((((.(..((((........))))..).))))...))))))))).(((((((......)))))))...)))))........ ( -24.10)
>DroSec_CAF1 21726 107 + 1
UGCAAAAUCCUAUCACGGAGACAAUGAAAACUUAAGCAAUUAGCAUUUCUUAUUGUUUUU-------CGUUUUCAUUUUCGAAAUGCUUAAAUUUCGAACUGCUCCACAUUAUA
................((((.((((((((((..(((((((.((.....)).)))))))..-------.)))))))))((((((((......))))))))..)))))........ ( -26.00)
>DroSim_CAF1 23774 114 + 1
UGCAAAAUCCUAUCACGGAGACAAUGAAAACUUGGGCAAUUAGCAUUUCUUAUUGUUUUUCGUAUUUCGUUUUCAUUUUCGAAAUGCUUAAAUUUCGAACUGCUCCACAUUAUA
................((((.((((((((((....((.(..((((........))))..).)).....)))))))))((((((((......))))))))..)))))........ ( -23.80)
>DroEre_CAF1 26184 107 + 1
UGCAAAAACCUAUCACGGAGACAAUGAAAACCUGGGCAAUUAGCAUUUCUUAUUGUUUUUC-------GUUUUCAUUUUCGAAAUGCUUAAAUUUCGACCUGCUCCACAUUAUA
................((((.((((((((((..(((((((.((.....)).)))))))...-------))))))))).(((((((......)))))))...)))))........ ( -24.60)
>DroYak_CAF1 25402 112 + 1
UGCAAAAUCCUAUCACGGAGACAAUGAAAACUUGGGCAAUUAGCAUUUCUUAUUGUUUUUCGU--UUCGUUUUCAUUUUCGAAAUGCUUAAAUUUCGACCUGCUCCACAUUAUA
................((((.((((((((((..((((.(..((((........))))..).))--)).))))))))).(((((((......)))))))...)))))........ ( -23.40)
>consensus
UGCAAAAUCCUAUCACGGAGACAAUGAAAACUUGGGCAAUUAGCAUUUCUUAUUGUUUUUCGU__UUCGUUUUCAUUUUCGAAAUGCUUAAAUUUCGACCUGCUCCACAUUAUA
................((((.((((((((((..(((((((.((.....)).)))))))..........))))))))).(((((((......)))))))...)))))........ (-21.74 = -21.42 +  -0.32)

alignment

secondary structure

dotplot

Window 8

Location	3,088,904 – 3,089,018
Length	114
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	93.54
Mean single sequence MFE	-21.94
Consensus MFE	-20.42
Energy contribution	-20.26
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-1.13
Structure conservation index	0.93
SVM decision value	0.22
SVM RNA-class probability	0.638714
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3088904 114 - 23771897
UAUAAUGUGGAGCAGGUCGAAAUUUAAGCAUUUCGAAAAUGAAAACGAAAAACGAAAAACAAUAAGAAAUGCUAAUUGCCCAAGUUUUCAUUGUCUCCGUGAUAGGUUUUCGCA
........(((((...(((((((......))))))).((((((((((.....)......((((.((.....)).)))).....)))))))))).))))((((.......)))). ( -22.80)
>DroSec_CAF1 21726 107 - 1
UAUAAUGUGGAGCAGUUCGAAAUUUAAGCAUUUCGAAAAUGAAAACG-------AAAAACAAUAAGAAAUGCUAAUUGCUUAAGUUUUCAUUGUCUCCGUGAUAGGAUUUUGCA
........(((((..((((((((......))))))))(((((((((.-------.....((((.((.....)).)))).....)))))))))).))))(..(.......)..). ( -23.60)
>DroSim_CAF1 23774 114 - 1
UAUAAUGUGGAGCAGUUCGAAAUUUAAGCAUUUCGAAAAUGAAAACGAAAUACGAAAAACAAUAAGAAAUGCUAAUUGCCCAAGUUUUCAUUGUCUCCGUGAUAGGAUUUUGCA
........(((((..((((((((......))))))))((((((((((.....)......((((.((.....)).)))).....)))))))))).))))(..(.......)..). ( -21.30)
>DroEre_CAF1 26184 107 - 1
UAUAAUGUGGAGCAGGUCGAAAUUUAAGCAUUUCGAAAAUGAAAAC-------GAAAAACAAUAAGAAAUGCUAAUUGCCCAGGUUUUCAUUGUCUCCGUGAUAGGUUUUUGCA
........(((((...(((((((......))))))).(((((((((-------......((((.((.....)).)))).....)))))))))).))))(..(.......)..). ( -21.60)
>DroYak_CAF1 25402 112 - 1
UAUAAUGUGGAGCAGGUCGAAAUUUAAGCAUUUCGAAAAUGAAAACGAA--ACGAAAAACAAUAAGAAAUGCUAAUUGCCCAAGUUUUCAUUGUCUCCGUGAUAGGAUUUUGCA
........(((((...(((((((......))))))).(((((((((...--.............(....)((.....))....)))))))))).))))(..(.......)..). ( -20.40)
>consensus
UAUAAUGUGGAGCAGGUCGAAAUUUAAGCAUUUCGAAAAUGAAAACGAA__ACGAAAAACAAUAAGAAAUGCUAAUUGCCCAAGUUUUCAUUGUCUCCGUGAUAGGAUUUUGCA
........(((((...(((((((......))))))).(((((((((..................(....)((.....))....)))))))))).))))((((.......)))). (-20.42 = -20.26 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:50 2006