Locus 3820

Sequence ID	3L_DroMel_CAF1
Location	11,012,653 – 11,012,764
Length	111
Max. P	0.917589

overview

Window 1

Location	11,012,653 – 11,012,764
Length	111
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	88.89
Mean single sequence MFE	-33.45
Consensus MFE	-28.54
Energy contribution	-29.60
Covariance contribution	1.06
Combinations/Pair	1.03
Mean z-score	-1.99
Structure conservation index	0.85
SVM decision value	1.12
SVM RNA-class probability	0.917589
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11012653 111 + 23771897
AUGCAUGAUGGCGUGAUGCCCUGCUGCAGAUCUCAUUGUGUUGGA---------AAUGAGGGACUUUCCCGCAAAGCACGUCAAUGACGUAGUUAUCCUAUUAAUCACUCAUCUGUAUAC
(((((.(((((.(((((((..(((........(((((........---------)))))(((.....))))))..))(((((...))))).............))))))))))))))).. ( -31.70)
>DroSec_CAF1 149144 111 + 1
AUGCAUGAUGGCGUGAUGCACUGCUGCACAUCUGAUUGUGGUGGA---------AAUUAGGGAUUUUCCCGCAAGCCACGUCAAUGACGUAGUUAUUCAAUUAAUCACUCAUCUGUAUAC
(((((.(((((.(((((((.(..(..((........))..)..).---------.....(((.....))))).(((.(((((...))))).))).........))))))))))))))).. ( -34.90)
>DroSim_CAF1 144264 111 + 1
AUGCAUGAUGGCGUGAUGCACUGCUGCACAUCUGAUUGUGGUGGA---------AAUUAGGGAUUUUCCCGCAAGCCACGUCAAUGACGUAGUUAUCCACUUAAUCACUCAUCUGUAUAC
(((((.(((((.(((((.........((((......))))(((((---------.....(((.....)))...(((.(((((...))))).))).)))))...))))))))))))))).. ( -36.10)
>DroYak_CAF1 149779 120 + 1
AUACAUGAUGGCGUGAUGCGCUGCUGCACUUCUGAUUGUGGUGGAAAUGAGGGAAAUUAGGGAUUUUCCCGCAAGCCACAUCAAUGACGUAUUUAUCCAAUUAAUCACUCAUCUGCAUAC
...((.(((((.(((((..((....))((.((((((.(((((.....((.((((((........)))))).)).)))))))))..)).)).............))))))))))))..... ( -31.10)
>consensus
AUGCAUGAUGGCGUGAUGCACUGCUGCACAUCUGAUUGUGGUGGA_________AAUUAGGGAUUUUCCCGCAAGCCACGUCAAUGACGUAGUUAUCCAAUUAAUCACUCAUCUGUAUAC
(((((.(((((.(((((((.((((((((........))))))))...............(((.....))))).(((.(((((...))))).))).........))))))))))))))).. (-28.54 = -29.60 +   1.06)

alignment

secondary structure

dotplot

Window 2

Location	11,012,653 – 11,012,764
Length	111
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	88.89
Mean single sequence MFE	-32.95
Consensus MFE	-24.44
Energy contribution	-25.62
Covariance contribution	1.19
Combinations/Pair	1.07
Mean z-score	-2.24
Structure conservation index	0.74
SVM decision value	0.82
SVM RNA-class probability	0.858057
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11012653 111 - 23771897
GUAUACAGAUGAGUGAUUAAUAGGAUAACUACGUCAUUGACGUGCUUUGCGGGAAAGUCCCUCAUU---------UCCAACACAAUGAGAUCUGCAGCAGGGCAUCACGCCAUCAUGCAU
((((...((((.(((((.............(((((...)))))((((((((((.....)))(((((---------........)))))........))))))))))))..)))))))).. ( -31.70)
>DroSec_CAF1 149144 111 - 1
GUAUACAGAUGAGUGAUUAAUUGAAUAACUACGUCAUUGACGUGGCUUGCGGGAAAAUCCCUAAUU---------UCCACCACAAUCAGAUGUGCAGCAGUGCAUCACGCCAUCAUGCAU
((((...((((.(((....((((.....(((((((...)))))))..((..(((((........))---------)))..))))))..((((..(....)..)))).))))))))))).. ( -30.50)
>DroSim_CAF1 144264 111 - 1
GUAUACAGAUGAGUGAUUAAGUGGAUAACUACGUCAUUGACGUGGCUUGCGGGAAAAUCCCUAAUU---------UCCACCACAAUCAGAUGUGCAGCAGUGCAUCACGCCAUCAUGCAU
((((...((((.(((.....(((((...(((((((...))))))).....(((.....))).....---------)))))........((((..(....)..)))).))))))))))).. ( -35.70)
>DroYak_CAF1 149779 120 - 1
GUAUGCAGAUGAGUGAUUAAUUGGAUAAAUACGUCAUUGAUGUGGCUUGCGGGAAAAUCCCUAAUUUCCCUCAUUUCCACCACAAUCAGAAGUGCAGCAGCGCAUCACGCCAUCAUGUAU
..(((((((((.(((((......(((......))).(((((((((..((.((((((........)))))).))......)))).)))))..((((....)))))))))..)))).))))) ( -33.90)
>consensus
GUAUACAGAUGAGUGAUUAAUUGGAUAACUACGUCAUUGACGUGGCUUGCGGGAAAAUCCCUAAUU_________UCCACCACAAUCAGAUGUGCAGCAGUGCAUCACGCCAUCAUGCAU
.......((((.(((.......(((...(((((((...))))))).....(((.....)))..............)))..........(((((((....))))))).)))))))...... (-24.44 = -25.62 +   1.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:27 2006