Locus 8173

Sequence ID	3L_DroMel_CAF1
Location	21,518,454 – 21,518,648
Length	194
Max. P	0.996399

overview

Window 6

Location	21,518,454 – 21,518,574
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	81.98
Mean single sequence MFE	-23.81
Consensus MFE	-23.33
Energy contribution	-23.22
Covariance contribution	-0.11
Combinations/Pair	1.07
Mean z-score	-1.83
Structure conservation index	0.98
SVM decision value	2.69
SVM RNA-class probability	0.996399
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21518454 120 + 23771897
UUAAUAAAGCAAAUACAACAUCCUAAGCCAAUGUUUUGGUGCACAAAUUAUUGAUUUUAAAAAAGCGCAGGGAGUUUCCUUUUCGCGAUGCCCCUGCGACAUUUUCCUAUUUUGAAAAUA
............................(((((.((((.....)))).))))).((((((((.(((((((((.((.((........)).)))))))))........)).))))))))... ( -23.20)
>DroSec_CAF1 23766 93 + 1
---------------------------CUAAUGUUUUGGUGCACAAAUUAUUGAUUUUCGAAAAGCGCAGGGAGUUUCCUUUUCGCGAUGCCCCUGCGACAUUUUCCUAUUUUGAAAAUA
---------------------------.(((((.((((.....)))).)))))(((((((((((.(((((((.((.((........)).)))))))))...))))).......)))))). ( -24.11)
>DroSim_CAF1 23889 93 + 1
---------------------------CUAAUGUUUUGGUGCACAAAUUAUUGAUUUUCGAAAAGCGCAGGGAGUUUCCUUUUCGCGAUGCCCCUGCGACAUUUUCCUAUUUUGAAAAUA
---------------------------.(((((.((((.....)))).)))))(((((((((((.(((((((.((.((........)).)))))))))...))))).......)))))). ( -24.11)
>consensus
___________________________CUAAUGUUUUGGUGCACAAAUUAUUGAUUUUCGAAAAGCGCAGGGAGUUUCCUUUUCGCGAUGCCCCUGCGACAUUUUCCUAUUUUGAAAAUA
............................(((((.((((.....)))).)))))((((((((((..(((((((.((.((........)).)))))))))...........)))))))))). (-23.33 = -23.22 +  -0.11)

alignment

secondary structure

dotplot

Window 7

Location	21,518,454 – 21,518,574
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	81.98
Mean single sequence MFE	-21.17
Consensus MFE	-18.99
Energy contribution	-18.77
Covariance contribution	-0.22
Combinations/Pair	1.05
Mean z-score	-1.05
Structure conservation index	0.90
SVM decision value	0.40
SVM RNA-class probability	0.719739
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21518454 120 - 23771897
UAUUUUCAAAAUAGGAAAAUGUCGCAGGGGCAUCGCGAAAAGGAAACUCCCUGCGCUUUUUUAAAAUCAAUAAUUUGUGCACCAAAACAUUGGCUUAGGAUGUUGUAUUUGCUUUAUUAA
(((((((.......))))))).(((((((((...))....((....)))))))))...............((((....(((....((((((.......)))))).....)))...)))). ( -24.10)
>DroSec_CAF1 23766 93 - 1
UAUUUUCAAAAUAGGAAAAUGUCGCAGGGGCAUCGCGAAAAGGAAACUCCCUGCGCUUUUCGAAAAUCAAUAAUUUGUGCACCAAAACAUUAG---------------------------
..............(((((.(.(((((((((...))....((....)))))))))))))))..............(((........)))....--------------------------- ( -19.70)
>DroSim_CAF1 23889 93 - 1
UAUUUUCAAAAUAGGAAAAUGUCGCAGGGGCAUCGCGAAAAGGAAACUCCCUGCGCUUUUCGAAAAUCAAUAAUUUGUGCACCAAAACAUUAG---------------------------
..............(((((.(.(((((((((...))....((....)))))))))))))))..............(((........)))....--------------------------- ( -19.70)
>consensus
UAUUUUCAAAAUAGGAAAAUGUCGCAGGGGCAUCGCGAAAAGGAAACUCCCUGCGCUUUUCGAAAAUCAAUAAUUUGUGCACCAAAACAUUAG___________________________
..............(((((.(.(((((((((...))....((....)))))))))))))))..............(((........)))............................... (-18.99 = -18.77 +  -0.22)

alignment

secondary structure

dotplot

Window 8

Location	21,518,534 – 21,518,648
Length	114
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	95.00
Mean single sequence MFE	-36.73
Consensus MFE	-32.40
Energy contribution	-33.07
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-1.81
Structure conservation index	0.88
SVM decision value	0.03
SVM RNA-class probability	0.546194
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21518534 114 - 23771897
G------GCUCUGAUGUUUAUGUCUGAAUCUUGGCCGUGUAAUGCCCUAUUAGUUAUCUGCUACCUUCGCGUGCCUCCAUUAUUUUCAAAAUAGGAAAAUGUCGCAGGGGCAUCGCGAAA
(------(((..(((............)))..))))..............((((.....))))..((((((((((((...(((((((.......))))))).....)))))).)))))). ( -31.20)
>DroSec_CAF1 23819 120 - 1
GGGAAAGGCUCUGAUGUUUACGUCUGCAUCUUGGCCGUGUGAUGCCCUAUUAGUUAUCUGCUACCUUCGCGUGCCUCCAUUAUUUUCAAAAUAGGAAAAUGUCGCAGGGGCAUCGCGAAA
......((((..(((((........)))))..)))).(((((((((((..((((.....)))).....(((.........(((((((.......))))))).))).)))))))))))... ( -39.50)
>DroSim_CAF1 23942 120 - 1
GGGAAAGGCUCUGAUGUUUACGUCUGCAUCUUGGCCGUGUAAUGCCCUAUUAGUUAUCUGCUACCUUCGCGUGCCUCCAUUAUUUUCAAAAUAGGAAAAUGUCGCAGGGGCAUCGCGAAA
(((...((((..(((((........)))))..))))........)))...((((.....))))..((((((((((((...(((((((.......))))))).....)))))).)))))). ( -39.50)
>consensus
GGGAAAGGCUCUGAUGUUUACGUCUGCAUCUUGGCCGUGUAAUGCCCUAUUAGUUAUCUGCUACCUUCGCGUGCCUCCAUUAUUUUCAAAAUAGGAAAAUGUCGCAGGGGCAUCGCGAAA
......((((..(((((........)))))..))))..............((((.....))))..((((((((((((...(((((((.......))))))).....)))))).)))))). (-32.40 = -33.07 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:29 2006