Locus 6497

Sequence ID	2L_DroMel_CAF1
Location	18,259,104 – 18,259,241
Length	137
Max. P	0.643989

overview

Window 2

Location	18,259,104 – 18,259,208
Length	104
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	81.76
Mean single sequence MFE	-24.04
Consensus MFE	-16.32
Energy contribution	-17.76
Covariance contribution	1.44
Combinations/Pair	1.33
Mean z-score	-1.72
Structure conservation index	0.68
SVM decision value	0.23
SVM RNA-class probability	0.643989
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18259104 104 - 22407834
UUGGAAAGUGAUUCCAAAUUGGAACGCUGCCUGAUUUGACCAAUCGUAAUAGUAUUAUGAUUUUGGGUAAAGGCUUUAAUGCUUGCAAAGCAUUUUCGAACUCA----
((((((((((.((((.....))))))))((((......((((((((((((...)))))))))...)))..))))....(((((.....))))))))))).....---- ( -25.80)
>DroSec_CAF1 102486 108 - 1
UUCGAAAGUGAUUUCAAAUUGGAAUGCUGCCUGAUUUGACCAAUCGUAAUCGUAUUAUGAUUUUGGAUAAAGGCUUUAAUGCUUGCAAAGCACUUUCGAAUUUAUUAU
((((((((((...((((((..(........)..))))))(((((((((((...))))))))..)))....((((......))))......))))))))))........ ( -29.50)
>DroSim_CAF1 108251 108 - 1
UUCGAAAGUGAUUUCAAAUUGGAAUGCUGCCUGAUUUGACCAAUCGUAAUCGUAUUAUGAUUUUGGAUAAAGGCUUUAAUGCUUGCAAAGCACUUUCGAAUUUAUUAU
((((((((((...((((((..(........)..))))))(((((((((((...))))))))..)))....((((......))))......))))))))))........ ( -29.50)
>DroEre_CAF1 103728 108 - 1
UUCAAAAGUGAUUUCAAAUUUGAAUGCUGCCUGAGUUGACUAAUCGUAAUCGUAUUAUGAUUUUGGACAGAGGUUUUAGUACUUACAAAGCACCUAGGAAUUUAUUUU
((((((..((....))..))))))((((((((..(((.(..(((((((((...))))))))).).)))..))))....((....))..))))................ ( -18.90)
>DroYak_CAF1 107693 95 - 1
UUCGAAAGUGAUUUGAAAUUCGAGUUCUGCCUGAUUUUUCCCAUCAUAAUCGUAUUAUGAUUUUGGACAAAGGCUUUAAUACU-AC------------GGUUUAUUUU
((((((.....))))))..((((((...((((......(((.((((((((...))))))))...)))...))))......)))-.)------------))........ ( -16.50)
>consensus
UUCGAAAGUGAUUUCAAAUUGGAAUGCUGCCUGAUUUGACCAAUCGUAAUCGUAUUAUGAUUUUGGAUAAAGGCUUUAAUGCUUGCAAAGCACUUUCGAAUUUAUUAU
(((((((((((((((.....)))))...((((...(((.(((((((((((...))))))))..))).)))))))................))))))))))........ (-16.32 = -17.76 +   1.44)

alignment

secondary structure

dotplot

Window 3

Location	18,259,128 – 18,259,241
Length	113
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	85.36
Mean single sequence MFE	-22.70
Consensus MFE	-16.90
Energy contribution	-16.62
Covariance contribution	-0.28
Combinations/Pair	1.19
Mean z-score	-1.56
Structure conservation index	0.74
SVM decision value	0.02
SVM RNA-class probability	0.542774
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18259128 113 - 22407834
UAUUUGAAU-UUAAAUUUAAUAAAGUUUUACACUUUGGAAAGUGAUUCCAAAUUGGAACGCUGCCUGAUUUGACCAAUCGUAAUAGUAUUAUGAUUUUGGGUAAAGGCUUUAAU
...((((((-....))))))(((((((((.((..(..(..((((.((((.....))))))))..)..)..)).(((((((((((...))))))))..)))...))))))))).. ( -25.40)
>DroSec_CAF1 102514 113 - 1
UACUUGAUU-UUAAAUUUAAUAAAGUUUUACACUUUCGAAAGUGAUUUCAAAUUGGAAUGCUGCCUGAUUUGACCAAUCGUAAUCGUAUUAUGAUUUUGGAUAAAGGCUUUAAU
.........-..........(((((((((.(((((....)))))...((((((..(........)..))))))(((((((((((...))))))))..)))...))))))))).. ( -23.00)
>DroSim_CAF1 108279 113 - 1
UACUUGAUU-UUAAAUUUAAUAAAGUUUUACACUUUCGAAAGUGAUUUCAAAUUGGAAUGCUGCCUGAUUUGACCAAUCGUAAUCGUAUUAUGAUUUUGGAUAAAGGCUUUAAU
.........-..........(((((((((.(((((....)))))...((((((..(........)..))))))(((((((((((...))))))))..)))...))))))))).. ( -23.00)
>DroEre_CAF1 103756 99 - 1
--------------A-UUAAUGUAGUUUUACACUUUCAAAAGUGAUUUCAAAUUUGAAUGCUGCCUGAGUUGACUAAUCGUAAUCGUAUUAUGAUUUUGGACAGAGGUUUUAGU
--------------.-....((((....))))..((((((..((....))..)))))).(((((((..(((.(..(((((((((...))))))))).).)))..))))...))) ( -16.70)
>DroYak_CAF1 107708 114 - 1
UACUUGAUUUUUAAAUUAAAUCAAGUUUUACACUUUCGAAAGUGAUUUGAAAUUCGAGUUCUGCCUGAUUUUUCCCAUCAUAAUCGUAUUAUGAUUUUGGACAAAGGCUUUAAU
.((((((.((((((((((..((((((.....))))..))...)))))))))).))))))...((((......(((.((((((((...))))))))...)))...))))...... ( -25.40)
>consensus
UACUUGAUU_UUAAAUUUAAUAAAGUUUUACACUUUCGAAAGUGAUUUCAAAUUGGAAUGCUGCCUGAUUUGACCAAUCGUAAUCGUAUUAUGAUUUUGGAUAAAGGCUUUAAU
....................(((((((((.(((((....)))))....(((((..(........)..))))).(((((((((((...))))))))..)))...))))))))).. (-16.90 = -16.62 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:40 2006