Locus 8168

Sequence ID	3L_DroMel_CAF1
Location	21,513,770 – 21,513,930
Length	160
Max. P	0.905901

overview

Window 1

Location	21,513,770 – 21,513,890
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	97.22
Mean single sequence MFE	-34.58
Consensus MFE	-33.36
Energy contribution	-32.92
Covariance contribution	-0.44
Combinations/Pair	1.06
Mean z-score	-1.51
Structure conservation index	0.96
SVM decision value	0.06
SVM RNA-class probability	0.564944
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21513770 120 + 23771897
UUAUCAUCGAGAUAAUCCCAUUAGAAAACGCUGCGGCAAGUGCUGGUUUGAUAUUCGGGCGAAUCCUUCGGGGCCGGAUAAUAAAUACAUGUGCAUUUGCACAUGACGAAAUAUCCUGGC
(((((.....))))).(((..............((((....))))(((((.....))))).........)))((((((((.......(((((((....)))))))......))))).))) ( -33.42)
>DroSec_CAF1 18889 120 + 1
UUAUCAUCGAGAUAAUCCCAUUAGAAAACGCUGCGGCAAGUGCCAGUUUGAUAUUCGGACGAGUCCUUCGGGGCCGGAUAAUAAAUACAUGUGCAUUUGCACAUGACGAAAUAUCCUGGU
(((((.....)))))..............((....))....(((((...((((((((..((.((((....))))))...........(((((((....))))))).)).))))))))))) ( -35.80)
>DroSim_CAF1 18512 120 + 1
UUAUCAUCGAGAUAAUCCCAUUAGAAAACGCUGCGGCAAGUGCUAGUUUGAUAUUCGGGCGAGUCCUUCGGGGCCGGAUAAUAAAUACAUGUGCAUUUGCACAUGACGAAAUAUCCUGGC
(((((.....))))).(((..........((....))(((..((.(((((.....))))).))..))).)))((((((((.......(((((((....)))))))......))))).))) ( -34.52)
>consensus
UUAUCAUCGAGAUAAUCCCAUUAGAAAACGCUGCGGCAAGUGCUAGUUUGAUAUUCGGGCGAGUCCUUCGGGGCCGGAUAAUAAAUACAUGUGCAUUUGCACAUGACGAAAUAUCCUGGC
(((((.....))))).(((((((((...((((......))))....))))))....(((....)))...)))((((((((.......(((((((....)))))))......))))).))) (-33.36 = -32.92 +  -0.44)

alignment

secondary structure

dotplot

Window 2

Location	21,513,770 – 21,513,890
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	97.22
Mean single sequence MFE	-33.97
Consensus MFE	-31.77
Energy contribution	-31.89
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-1.94
Structure conservation index	0.94
SVM decision value	0.54
SVM RNA-class probability	0.775206
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21513770 120 - 23771897
GCCAGGAUAUUUCGUCAUGUGCAAAUGCACAUGUAUUUAUUAUCCGGCCCCGAAGGAUUCGCCCGAAUAUCAAACCAGCACUUGCCGCAGCGUUUUCUAAUGGGAUUAUCUCGAUGAUAA
(((.(((((......(((((((....))))))).......))))))))((((.((((..(((..(.....)......((.......)).)))..))))..)))).(((((.....))))) ( -34.72)
>DroSec_CAF1 18889 120 - 1
ACCAGGAUAUUUCGUCAUGUGCAAAUGCACAUGUAUUUAUUAUCCGGCCCCGAAGGACUCGUCCGAAUAUCAAACUGGCACUUGCCGCAGCGUUUUCUAAUGGGAUUAUCUCGAUGAUAA
.((.(((((......(((((((....))))))).......))))))).((((..(((....)))(((........((((....)))).......)))...)))).(((((.....))))) ( -33.28)
>DroSim_CAF1 18512 120 - 1
GCCAGGAUAUUUCGUCAUGUGCAAAUGCACAUGUAUUUAUUAUCCGGCCCCGAAGGACUCGCCCGAAUAUCAAACUAGCACUUGCCGCAGCGUUUUCUAAUGGGAUUAUCUCGAUGAUAA
(((.(((((......(((((((....))))))).......))))))))((((.((((..(((..(.....)......((.......)).)))..))))..)))).(((((.....))))) ( -33.92)
>consensus
GCCAGGAUAUUUCGUCAUGUGCAAAUGCACAUGUAUUUAUUAUCCGGCCCCGAAGGACUCGCCCGAAUAUCAAACUAGCACUUGCCGCAGCGUUUUCUAAUGGGAUUAUCUCGAUGAUAA
(((.(((((......(((((((....))))))).......))))))))((((.((((..(((..(.....)......((.......)).)))..))))..)))).(((((.....))))) (-31.77 = -31.89 +   0.11)

alignment

secondary structure

dotplot

Window 3

Location	21,513,810 – 21,513,930
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	95.00
Mean single sequence MFE	-35.27
Consensus MFE	-31.26
Energy contribution	-33.93
Covariance contribution	2.67
Combinations/Pair	1.10
Mean z-score	-2.60
Structure conservation index	0.89
SVM decision value	1.04
SVM RNA-class probability	0.905901
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21513810 120 + 23771897
UGCUGGUUUGAUAUUCGGGCGAAUCCUUCGGGGCCGGAUAAUAAAUACAUGUGCAUUUGCACAUGACGAAAUAUCCUGGCAGGCUUUAAUUAGCACUUCUCUAUAUGCUCUAUACAUCAC
........((((....(((((...((....))((((((((.......(((((((....)))))))......))))).)))..(((......)))...........))))).....)))). ( -33.02)
>DroSec_CAF1 18929 120 + 1
UGCCAGUUUGAUAUUCGGACGAGUCCUUCGGGGCCGGAUAAUAAAUACAUGUGCAUUUGCACAUGACGAAAUAUCCUGGUAGGCUUUAAUUAGCACUUCUCUAUAUACUCUACACAUCGU
((((((...((((((((..((.((((....))))))...........(((((((....))))))).)).)))))))))))).(((......))).......................... ( -36.70)
>DroSim_CAF1 18552 120 + 1
UGCUAGUUUGAUAUUCGGGCGAGUCCUUCGGGGCCGGAUAAUAAAUACAUGUGCAUUUGCACAUGACGAAAUAUCCUGGCAGGCUUUAAUUAGCACUUCUCUAUAUACUCUACACAUCGU
((((((...((((((((..((.((((....))))))...........(((((((....))))))).)).)))))))))))).(((......))).......................... ( -36.10)
>consensus
UGCUAGUUUGAUAUUCGGGCGAGUCCUUCGGGGCCGGAUAAUAAAUACAUGUGCAUUUGCACAUGACGAAAUAUCCUGGCAGGCUUUAAUUAGCACUUCUCUAUAUACUCUACACAUCGU
((((((...((((((((..((.((((....))))))...........(((((((....))))))).)).)))))))))))).(((......))).......................... (-31.26 = -33.93 +   2.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:15 2006